STAR version=STAR_2.4.0j
STAR compilation time,server,dir=Wed Feb 4 17:57:38 EST 2015 :/Users/alexdobin/STAR/source
##### DEFAULT parameters:
versionSTAR                       20201
versionGenome                     20101   20200   
parametersFiles                   -   
sysShell                          -
runMode                           alignReads
runThreadN                        1
genomeDir                         ./GenomeDir/
genomeLoad                        NoSharedMemory
genomeFastaFiles                  -   
genomeSAindexNbases               14
genomeChrBinNbits                 18
genomeSAsparseD                   1
readFilesIn                       Read1   Read2   
readFilesCommand                  -   
readMatesLengthsIn                NotEqual
readMapNumber                     18446744073709551615
inputBAMfile                      -
bamRemoveDuplicatesType           -
bamRemoveDuplicatesMate2basesN    0
limitGenomeGenerateRAM            31000000000
limitIObufferSize                 150000000
limitOutSAMoneReadBytes           100000
limitOutSJcollapsed               1000000
limitOutSJoneRead                 1000
limitBAMsortRAM                   0
outFileNamePrefix                 ./
outTmpDir                         -
outStd                            Log
outReadsUnmapped                  None
outQSconversionAdd                0
outSAMtype                        SAM   
outSAMmode                        Full
outSAMstrandField                 None
outSAMattributes                  Standard   
outSAMunmapped                    None
outSAMorder                       Paired
outSAMprimaryFlag                 OneBestScore
outSAMreadID                      Standard
outSAMmapqUnique                  255
outSAMflagOR                      0
outSAMflagAND                     65535
outSAMattrRGline                  -   
outSAMheaderHD                    -   
outSAMheaderPG                    -   
outSAMheaderCommentFile           -
outBAMcompression                 1
outBAMsortingThreadN              0
outSJfilterReads                  All
outSJfilterCountUniqueMin         3   1   1   1   
outSJfilterCountTotalMin          3   1   1   1   
outSJfilterOverhangMin            30   12   12   12   
outSJfilterDistToOtherSJmin       10   0   5   10   
outSJfilterIntronMaxVsReadN       50000   100000   200000   
outWigType                        None   
outWigStrand                      Stranded   
outWigReferencesPrefix            -
outWigNorm                        RPM   
outFilterType                     Normal
outFilterMultimapNmax             10
outFilterMultimapScoreRange       1
outFilterScoreMin                 0
outFilterScoreMinOverLread        0.66
outFilterMatchNmin                0
outFilterMatchNminOverLread       0.66
outFilterMismatchNmax             10
outFilterMismatchNoverLmax        0.3
outFilterMismatchNoverReadLmax    1
outFilterIntronMotifs             None
clip5pNbases                      0   
clip3pNbases                      0   
clip3pAfterAdapterNbases          0   
clip3pAdapterSeq                  -   
clip3pAdapterMMp                  0.1   
winBinNbits                       16
winAnchorDistNbins                9
winFlankNbins                     4
winAnchorMultimapNmax             50
scoreGap                          0
scoreGapNoncan                    -8
scoreGapGCAG                      -4
scoreGapATAC                      -8
scoreStitchSJshift                1
scoreGenomicLengthLog2scale       -0.25
scoreDelBase                      -2
scoreDelOpen                      -2
scoreInsOpen                      -2
scoreInsBase                      -2
seedSearchLmax                    0
seedSearchStartLmax               50
seedSearchStartLmaxOverLread      1
seedPerReadNmax                   1000
seedPerWindowNmax                 50
seedNoneLociPerWindow             10
seedMultimapNmax                  10000
alignIntronMin                    21
alignIntronMax                    0
alignMatesGapMax                  0
alignTranscriptsPerReadNmax       10000
alignSJoverhangMin                5
alignSJDBoverhangMin              3
alignSplicedMateMapLmin           0
alignSplicedMateMapLminOverLmate    0.66
alignWindowsPerReadNmax           10000
alignTranscriptsPerWindowNmax     100
alignEndsType                     Local
alignSoftClipAtReferenceEnds      Yes
chimSegmentMin                    0
chimScoreMin                      0
chimScoreDropMax                  20
chimScoreSeparation               10
chimScoreJunctionNonGTAG          -1
chimJunctionOverhangMin           20
sjdbFileChrStartEnd               -   
sjdbGTFfile                       -
sjdbGTFchrPrefix                  -
sjdbGTFfeatureExon                exon
sjdbGTFtagExonParentTranscript    transcript_id
sjdbGTFtagExonParentGene          gene_id
sjdbOverhang                      0
sjdbScore                         2
quantMode                         -   
quantTranscriptomeBAMcompression    1
twopass1readsN                    0
twopassSJlimit                    1000000
##### Command Line:
STAR --genomeDir ./GenomeDir --readFilesIn ./BGI_RNAseq_data_2015/01.fq,./BGI_RNAseq_data_2015/02.fq,./BGI_RNAseq_data_2015/03.fq,./BGI_RNAseq_data_2015/04.fq,./BGI_RNAseq_data_2015/05.fq,./BGI_RNAseq_data_2015/06.fq,./BGI_RNAseq_data_2015/07.fq,./BGI_RNAseq_data_2015/08.fq,./BGI_RNAseq_data_2015/09.fq,./BGI_RNAseq_data_2015/10.fq,./BGI_RNAseq_data_2015/11.fq,./BGI_RNAseq_data_2015/12.fq,./BGI_RNAseq_data_2015/13.fq,./BGI_RNAseq_data_2015/14.fq,./BGI_RNAseq_data_2015/15.fq,./BGI_RNAseq_data_2015/16.fq,./BGI_RNAseq_data_2015/17.fq,./BGI_RNAseq_data_2015/18.fq,./BGI_RNAseq_data_2015/19.fq,./BGI_RNAseq_data_2015/20.fq --runThreadN 8
##### Initial USER parameters from Command Line:
###### All USER parameters from Command Line:
genomeDir                     ./GenomeDir     ~RE-DEFINED
readFilesIn                   ./BGI_RNAseq_data_2015/01.fq,./BGI_RNAseq_data_2015/02.fq,./BGI_RNAseq_data_2015/03.fq,./BGI_RNAseq_data_2015/04.fq,./BGI_RNAseq_data_2015/05.fq,./BGI_RNAseq_data_2015/06.fq,./BGI_RNAseq_data_2015/07.fq,./BGI_RNAseq_data_2015/08.fq,./BGI_RNAseq_data_2015/09.fq,./BGI_RNAseq_data_2015/10.fq,./BGI_RNAseq_data_2015/11.fq,./BGI_RNAseq_data_2015/12.fq,./BGI_RNAseq_data_2015/13.fq,./BGI_RNAseq_data_2015/14.fq,./BGI_RNAseq_data_2015/15.fq,./BGI_RNAseq_data_2015/16.fq,./BGI_RNAseq_data_2015/17.fq,./BGI_RNAseq_data_2015/18.fq,./BGI_RNAseq_data_2015/19.fq,./BGI_RNAseq_data_2015/20.fq        ~RE-DEFINED
runThreadN                    8     ~RE-DEFINED
##### Finished reading parameters from all sources

##### Final user re-defined parameters-----------------:
runThreadN                        8
genomeDir                         ./GenomeDir
readFilesIn                       ./BGI_RNAseq_data_2015/01.fq,./BGI_RNAseq_data_2015/02.fq,./BGI_RNAseq_data_2015/03.fq,./BGI_RNAseq_data_2015/04.fq,./BGI_RNAseq_data_2015/05.fq,./BGI_RNAseq_data_2015/06.fq,./BGI_RNAseq_data_2015/07.fq,./BGI_RNAseq_data_2015/08.fq,./BGI_RNAseq_data_2015/09.fq,./BGI_RNAseq_data_2015/10.fq,./BGI_RNAseq_data_2015/11.fq,./BGI_RNAseq_data_2015/12.fq,./BGI_RNAseq_data_2015/13.fq,./BGI_RNAseq_data_2015/14.fq,./BGI_RNAseq_data_2015/15.fq,./BGI_RNAseq_data_2015/16.fq,./BGI_RNAseq_data_2015/17.fq,./BGI_RNAseq_data_2015/18.fq,./BGI_RNAseq_data_2015/19.fq,./BGI_RNAseq_data_2015/20.fq   

-------------------------------
##### Final effective command line:
STAR   --runThreadN 8   --genomeDir ./GenomeDir   --readFilesIn ./BGI_RNAseq_data_2015/01.fq,./BGI_RNAseq_data_2015/02.fq,./BGI_RNAseq_data_2015/03.fq,./BGI_RNAseq_data_2015/04.fq,./BGI_RNAseq_data_2015/05.fq,./BGI_RNAseq_data_2015/06.fq,./BGI_RNAseq_data_2015/07.fq,./BGI_RNAseq_data_2015/08.fq,./BGI_RNAseq_data_2015/09.fq,./BGI_RNAseq_data_2015/10.fq,./BGI_RNAseq_data_2015/11.fq,./BGI_RNAseq_data_2015/12.fq,./BGI_RNAseq_data_2015/13.fq,./BGI_RNAseq_data_2015/14.fq,./BGI_RNAseq_data_2015/15.fq,./BGI_RNAseq_data_2015/16.fq,./BGI_RNAseq_data_2015/17.fq,./BGI_RNAseq_data_2015/18.fq,./BGI_RNAseq_data_2015/19.fq,./BGI_RNAseq_data_2015/20.fq   

##### Final parameters after user input--------------------------------:
versionSTAR                       20201
versionGenome                     20101   20200   
parametersFiles                   -   
sysShell                          -
runMode                           alignReads
runThreadN                        8
genomeDir                         ./GenomeDir
genomeLoad                        NoSharedMemory
genomeFastaFiles                  -   
genomeSAindexNbases               14
genomeChrBinNbits                 18
genomeSAsparseD                   1
readFilesIn                       ./BGI_RNAseq_data_2015/01.fq,./BGI_RNAseq_data_2015/02.fq,./BGI_RNAseq_data_2015/03.fq,./BGI_RNAseq_data_2015/04.fq,./BGI_RNAseq_data_2015/05.fq,./BGI_RNAseq_data_2015/06.fq,./BGI_RNAseq_data_2015/07.fq,./BGI_RNAseq_data_2015/08.fq,./BGI_RNAseq_data_2015/09.fq,./BGI_RNAseq_data_2015/10.fq,./BGI_RNAseq_data_2015/11.fq,./BGI_RNAseq_data_2015/12.fq,./BGI_RNAseq_data_2015/13.fq,./BGI_RNAseq_data_2015/14.fq,./BGI_RNAseq_data_2015/15.fq,./BGI_RNAseq_data_2015/16.fq,./BGI_RNAseq_data_2015/17.fq,./BGI_RNAseq_data_2015/18.fq,./BGI_RNAseq_data_2015/19.fq,./BGI_RNAseq_data_2015/20.fq   
readFilesCommand                  -   
readMatesLengthsIn                NotEqual
readMapNumber                     18446744073709551615
inputBAMfile                      -
bamRemoveDuplicatesType           -
bamRemoveDuplicatesMate2basesN    0
limitGenomeGenerateRAM            31000000000
limitIObufferSize                 150000000
limitOutSAMoneReadBytes           100000
limitOutSJcollapsed               1000000
limitOutSJoneRead                 1000
limitBAMsortRAM                   0
outFileNamePrefix                 ./
outTmpDir                         -
outStd                            Log
outReadsUnmapped                  None
outQSconversionAdd                0
outSAMtype                        SAM   
outSAMmode                        Full
outSAMstrandField                 None
outSAMattributes                  Standard   
outSAMunmapped                    None
outSAMorder                       Paired
outSAMprimaryFlag                 OneBestScore
outSAMreadID                      Standard
outSAMmapqUnique                  255
outSAMflagOR                      0
outSAMflagAND                     65535
outSAMattrRGline                  -   
outSAMheaderHD                    -   
outSAMheaderPG                    -   
outSAMheaderCommentFile           -
outBAMcompression                 1
outBAMsortingThreadN              0
outSJfilterReads                  All
outSJfilterCountUniqueMin         3   1   1   1   
outSJfilterCountTotalMin          3   1   1   1   
outSJfilterOverhangMin            30   12   12   12   
outSJfilterDistToOtherSJmin       10   0   5   10   
outSJfilterIntronMaxVsReadN       50000   100000   200000   
outWigType                        None   
outWigStrand                      Stranded   
outWigReferencesPrefix            -
outWigNorm                        RPM   
outFilterType                     Normal
outFilterMultimapNmax             10
outFilterMultimapScoreRange       1
outFilterScoreMin                 0
outFilterScoreMinOverLread        0.66
outFilterMatchNmin                0
outFilterMatchNminOverLread       0.66
outFilterMismatchNmax             10
outFilterMismatchNoverLmax        0.3
outFilterMismatchNoverReadLmax    1
outFilterIntronMotifs             None
clip5pNbases                      0   
clip3pNbases                      0   
clip3pAfterAdapterNbases          0   
clip3pAdapterSeq                  -   
clip3pAdapterMMp                  0.1   
winBinNbits                       16
winAnchorDistNbins                9
winFlankNbins                     4
winAnchorMultimapNmax             50
scoreGap                          0
scoreGapNoncan                    -8
scoreGapGCAG                      -4
scoreGapATAC                      -8
scoreStitchSJshift                1
scoreGenomicLengthLog2scale       -0.25
scoreDelBase                      -2
scoreDelOpen                      -2
scoreInsOpen                      -2
scoreInsBase                      -2
seedSearchLmax                    0
seedSearchStartLmax               50
seedSearchStartLmaxOverLread      1
seedPerReadNmax                   1000
seedPerWindowNmax                 50
seedNoneLociPerWindow             10
seedMultimapNmax                  10000
alignIntronMin                    21
alignIntronMax                    0
alignMatesGapMax                  0
alignTranscriptsPerReadNmax       10000
alignSJoverhangMin                5
alignSJDBoverhangMin              3
alignSplicedMateMapLmin           0
alignSplicedMateMapLminOverLmate    0.66
alignWindowsPerReadNmax           10000
alignTranscriptsPerWindowNmax     100
alignEndsType                     Local
alignSoftClipAtReferenceEnds      Yes
chimSegmentMin                    0
chimScoreMin                      0
chimScoreDropMax                  20
chimScoreSeparation               10
chimScoreJunctionNonGTAG          -1
chimJunctionOverhangMin           20
sjdbFileChrStartEnd               -   
sjdbGTFfile                       -
sjdbGTFchrPrefix                  -
sjdbGTFfeatureExon                exon
sjdbGTFtagExonParentTranscript    transcript_id
sjdbGTFtagExonParentGene          gene_id
sjdbOverhang                      0
sjdbScore                         2
quantMode                         -   
quantTranscriptomeBAMcompression    1
twopass1readsN                    0
twopassSJlimit                    1000000
----------------------------------------


   Input read files for mate 1, from input string ./BGI_RNAseq_data_2015/01.fq,./BGI_RNAseq_data_2015/02.fq,./BGI_RNAseq_data_2015/03.fq,./BGI_RNAseq_data_2015/04.fq,./BGI_RNAseq_data_2015/05.fq,./BGI_RNAseq_data_2015/06.fq,./BGI_RNAseq_data_2015/07.fq,./BGI_RNAseq_data_2015/08.fq,./BGI_RNAseq_data_2015/09.fq,./BGI_RNAseq_data_2015/10.fq,./BGI_RNAseq_data_2015/11.fq,./BGI_RNAseq_data_2015/12.fq,./BGI_RNAseq_data_2015/13.fq,./BGI_RNAseq_data_2015/14.fq,./BGI_RNAseq_data_2015/15.fq,./BGI_RNAseq_data_2015/16.fq,./BGI_RNAseq_data_2015/17.fq,./BGI_RNAseq_data_2015/18.fq,./BGI_RNAseq_data_2015/19.fq,./BGI_RNAseq_data_2015/20.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5466050760 Mar 27 07:29 ./BGI_RNAseq_data_2015/01.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  6091866845 Mar 27 07:30 ./BGI_RNAseq_data_2015/02.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  6265805787 Mar 27 07:31 ./BGI_RNAseq_data_2015/03.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5890343172 Mar 27 07:30 ./BGI_RNAseq_data_2015/04.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5782445644 Mar 27 07:40 ./BGI_RNAseq_data_2015/05.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5132413726 Mar 27 07:39 ./BGI_RNAseq_data_2015/06.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5152689801 Mar 27 07:39 ./BGI_RNAseq_data_2015/07.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  4699999523 Mar 27 07:39 ./BGI_RNAseq_data_2015/08.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  6045342019 Mar 27 07:48 ./BGI_RNAseq_data_2015/09.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5283932534 Mar 27 07:47 ./BGI_RNAseq_data_2015/10.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  4775406028 Mar 27 07:46 ./BGI_RNAseq_data_2015/11.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  4987243337 Mar 27 07:47 ./BGI_RNAseq_data_2015/12.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  4213726214 Mar 27 07:52 ./BGI_RNAseq_data_2015/13.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  6078463667 Mar 27 07:56 ./BGI_RNAseq_data_2015/14.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  6657640407 Mar 27 07:56 ./BGI_RNAseq_data_2015/15.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5144888785 Mar 27 07:55 ./BGI_RNAseq_data_2015/16.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5094179320 Mar 27 08:00 ./BGI_RNAseq_data_2015/17.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5828038903 Mar 27 08:03 ./BGI_RNAseq_data_2015/18.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5542070247 Mar 27 08:03 ./BGI_RNAseq_data_2015/19.fq
-rwxrwxrwx  1 Matrix_Macmini  staff  5017116350 Mar 27 08:03 ./BGI_RNAseq_data_2015/20.fq

   readsCommandsFile:
exec > "./_STARtmp/tmp.fifo.read1"
echo FILE 0
cat   "./BGI_RNAseq_data_2015/01.fq"
echo FILE 1
cat   "./BGI_RNAseq_data_2015/02.fq"
echo FILE 2
cat   "./BGI_RNAseq_data_2015/03.fq"
echo FILE 3
cat   "./BGI_RNAseq_data_2015/04.fq"
echo FILE 4
cat   "./BGI_RNAseq_data_2015/05.fq"
echo FILE 5
cat   "./BGI_RNAseq_data_2015/06.fq"
echo FILE 6
cat   "./BGI_RNAseq_data_2015/07.fq"
echo FILE 7
cat   "./BGI_RNAseq_data_2015/08.fq"
echo FILE 8
cat   "./BGI_RNAseq_data_2015/09.fq"
echo FILE 9
cat   "./BGI_RNAseq_data_2015/10.fq"
echo FILE 10
cat   "./BGI_RNAseq_data_2015/11.fq"
echo FILE 11
cat   "./BGI_RNAseq_data_2015/12.fq"
echo FILE 12
cat   "./BGI_RNAseq_data_2015/13.fq"
echo FILE 13
cat   "./BGI_RNAseq_data_2015/14.fq"
echo FILE 14
cat   "./BGI_RNAseq_data_2015/15.fq"
echo FILE 15
cat   "./BGI_RNAseq_data_2015/16.fq"
echo FILE 16
cat   "./BGI_RNAseq_data_2015/17.fq"
echo FILE 17
cat   "./BGI_RNAseq_data_2015/18.fq"
echo FILE 18
cat   "./BGI_RNAseq_data_2015/19.fq"
echo FILE 19
cat   "./BGI_RNAseq_data_2015/20.fq"

Finished loading and checking parameters
Reading genome generation parameters:
versionGenome                 20201        ~RE-DEFINED
genomeFastaFiles              ./Mus_musculus.GRCm38.dna.primary_assembly.fa        ~RE-DEFINED
genomeSAindexNbases           14     ~RE-DEFINED
genomeChrBinNbits             18     ~RE-DEFINED
genomeSAsparseD               1     ~RE-DEFINED
sjdbOverhang                  48     ~RE-DEFINED
sjdbFileChrStartEnd           -        ~RE-DEFINED
sjdbGTFfile                   ./Mus_musculus.GRCm38.79.gtf     ~RE-DEFINED
sjdbGTFchrPrefix              -     ~RE-DEFINED
sjdbGTFfeatureExon            exon     ~RE-DEFINED
sjdbGTFtagExonParentTranscripttranscript_id     ~RE-DEFINED
sjdbGTFtagExonParentGene      gene_id     ~RE-DEFINED
Genome version is compatible with current STAR version
Started loading the genome: Fri Mar 27 08:14:38 2015

Read from SAindex: genomeSAindexNbases=14  nSAi=357913940
Genome file size: 2765481660 bytes; state: good=1 eof=0 fail=0 bad=0
SA file size: 22083397141 bytes; state: good=1 eof=0 fail=0 bad=0
nGenome=2765481660;  nSAbyte=22083397141
GstrandBit=32   SA number of indices=5353550822
Shared memory is not used for genomes. Allocated a private copy of the genome.
Genome file size: 2765481660 bytes; state: good=1 eof=0 fail=0 bad=0
Loading Genome ... done! state: good=1 eof=0 fail=0 bad=0; loaded 2765481660 bytes
SA file size: 22083397141 bytes; state: good=1 eof=0 fail=0 bad=0
Loading SA ... done! state: good=1 eof=0 fail=0 bad=0; loaded 22083397141 bytes
Loading SAindex ... done: 1565873616 bytes
Finished loading the genome: Fri Mar 27 08:17:58 2015

Sum of all Genome bytes: 4381955250
Sum of all SA bytes: 2728373375879
Sum of all SAi bytes: 184758389208
Number of real (reference) chromosmes= 66
1	1	195471971	0
2	10	130694993	195559424
3	11	122082543	326369280
4	12	120129022	448528384
5	13	120421639	568852480
6	14	124902244	689438720
7	15	104043685	814481408
8	16	98207768	918552576
9	17	94987271	1016856576
10	18	90702639	1112014848
11	19	61431566	1202978816
12	2	182113224	1264582656
13	3	160039680	1446772736
14	4	156508116	1606942720
15	5	151834684	1763704832
16	6	149736546	1915748352
17	7	145441459	2065694720
18	8	129401213	2211184640
19	9	124595110	2340683776
20	MT	16299	2465464320
21	X	171031299	2465726464
22	Y	91744698	2636906496
23	JH584299.1	953012	2728656896
24	GL456233.1	336933	2729705472
25	JH584301.1	259875	2730229760
26	GL456211.1	241735	2730491904
27	GL456350.1	227966	2730754048
28	JH584293.1	207968	2731016192
29	GL456221.1	206961	2731278336
30	JH584297.1	205776	2731540480
31	JH584296.1	199368	2731802624
32	GL456354.1	195993	2732064768
33	JH584294.1	191905	2732326912
34	JH584298.1	184189	2732589056
35	JH584300.1	182347	2732851200
36	GL456219.1	175968	2733113344
37	GL456210.1	169725	2733375488
38	JH584303.1	158099	2733637632
39	JH584302.1	155838	2733899776
40	GL456212.1	153618	2734161920
41	JH584304.1	114452	2734424064
42	GL456379.1	72385	2734686208
43	GL456216.1	66673	2734948352
44	GL456393.1	55711	2735210496
45	GL456366.1	47073	2735472640
46	GL456367.1	42057	2735734784
47	GL456239.1	40056	2735996928
48	GL456213.1	39340	2736259072
49	GL456383.1	38659	2736521216
50	GL456385.1	35240	2736783360
51	GL456360.1	31704	2737045504
52	GL456378.1	31602	2737307648
53	GL456389.1	28772	2737569792
54	GL456372.1	28664	2737831936
55	GL456370.1	26764	2738094080
56	GL456381.1	25871	2738356224
57	GL456387.1	24685	2738618368
58	GL456390.1	24668	2738880512
59	GL456394.1	24323	2739142656
60	GL456392.1	23629	2739404800
61	GL456382.1	23158	2739666944
62	GL456359.1	22974	2739929088
63	GL456396.1	21240	2740191232
64	GL456368.1	20208	2740453376
65	JH584292.1	14945	2740715520
66	JH584295.1	1976	2740977664
Processing splice junctions database sjdbN=249916,   sjdbOverhang=48 
alignIntronMax=alignMatesGapMax=0, the max intron size will be approximately determined by (2^winBinNbits)*winAnchorDistNbins=589824
Created thread # 1
Starting to map file # 0
mate 1:   ./BGI_RNAseq_data_2015/01.fq
Starting to map file # 0
mate 1:   ./BGI_RNAseq_data_2015/01.fq
Created thread # 2
Created thread # 3
Created thread # 4
Created thread # 5
Created thread # 6
Created thread # 7
