[repinementer]

Hi guys does any one know how to convert this format to SAM ?
Author of this paper mentioned this is SAM format but it is not working with Cufflinks.
And it is not looking like the SAM format mentioned in SAM website.
Any help would be appreciated!

head 3125_8.sam
IL6_3125:8:58:1625:1479 67 clone::AL662826.11:1:145431:1 1261 0 37M * 0 247 AAAAGGAGTAGGCAGGAAAACAGTCAATTATGGATTC ?BBCBBBB@<BBBBCB@A@?B?B>@A@B@BABB?B@? MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:4 H1:i:0
IL6_3125:8:37:57:1851 131 clone::AL662826.11:1:145431:1 1458 0 37M * 0 262 GTGAATTGGAGTCCTGNGTTTTATTTTCCTTTCCCAC AB?@BBBAB<@?AAB:!<<BBB@BBBB@;BBBB=ABA MF:i:18 Aq:i:0 NM:i:1 UQ:i:0 H0:i:0 H1:i:4
IL6_3125:8:58:1625:1479 147 clone::AL662826.11:1:145431:1 1471 0 37M * 0 -247 CTGAGTTTTATTTTCCTTTCCCACCTCAAACCCCACA @8???@<?:>@;<6@B:96BBB6BB>BAB;BBBB>BB MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:4 H1:i:0
IL6_3125:8:37:57:1851 83 clone::AL662826.11:1:145431:1 1683 0 37M * 0 -262 GAAGGACTTACTGAGATGGCTGCTCCCACTCTCCAGC BBACA?=BB=;BCABB9BC7AC9BAAA>AB5@/?CC@ MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:4 H1:i:0
IL6_3125:8:93:491:1573 67 clone::AL662826.11:1:145431:1 3983 0 37M * 0 221 CTGGAATACAGAGGTTTTCACGGAAGCCCAGGGGACC BCB?BBCCBBBBBBABCCBBC>>AB>ABA@;9>8>=B MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:3 H1:i:0
IL6_3125:8:93:491:1573 147 clone::AL662826.11:1:145431:1 4167 0 37M * 0 -221 CTCCCCCAGCCCAGGGGTCTGGCTTCCCCAGGAGGAC =;?>A?A>=9A@A?<5>?=@@AA?ABAAAA@BA@AAA MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:3 H1:i:1
IL6_3125:8:81:1190:1139 131 clone::AL662826.11:1:145431:1 6556 0 37M * 0 238 CACAGTAGAGCTTGGAGCAGAGATGCTAGGCCCCTAT BCBBBBC@BCBCCBC@BCBCBB;ABBB@BBBBABBB@ MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:4 H1:i:0
IL6_3125:8:81:1190:1139 83 clone::AL662826.11:1:145431:1 6757 0 37M * 0 -238 CCCAGAAGGAGCCAGGGCAGCACTTGGCAAGCTGCCC A99@AAAABBBABBABBAABBBB<BBA=BBABAB@@B MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:4 H1:i:0
IL6_3125:8:90:135:1121 131 clone::AL662826.11:1:145431:1 8359 0 37M * 0 155 CCTGTGTGTGCACATGTGCACGTGTATGTGTATGTGT B>AAACBC>BBCBAA<7A=B55):?B@CBC26@B9=9 MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:4 H1:i:0
IL6_3125:8:90:135:1121 83 clone::AL662826.11:1:145431:1 8477 0 37M * 0 -155 ACTGACGTCTGCTGAAATCAAGCATGGCCCCTGCTGG ;=>>?BA>@@@>>@A>BBAAAAAAABCBA?@@BCCCB MF:i:18 Aq:i:0 NM:i:0 UQ:i:0 H0:i:3 H1:i:0