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additional data file _mmc1.xls - BioMedSearch

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					Table S1. Rearrangements Identified by Massively Parallel, Paired-End Sequencing in Three Samples from


PD3172a & PD3172c
Sample                                       Read-name                        Evidence
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:7:152:599:454              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:8:57:16405:10306          Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:3:287:674:111              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:7:39:10529:12596          Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:3:126:851:668              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:5:143:713:446              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:7:161:744:574              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:8:104:551:105              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL12_851:6:69:819:701               Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:6:19:10:588                Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:2:74:318:614               Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:1:117:18904:1804          Seq
                                             5
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:6:43:17076:10769          Seq
PD3172a & PD3172c (diagnosis and relapse)    IL12_851:6:264:573:956              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:2:64:10621:19435          Seq
PD3172a & PD3172c (diagnosis and relapse)    IL12_851:7:280:326:8                Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:5:295:223:4                Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:6:153:86:388               Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:7:111:428:42               Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:1:57:2911:3847            Seq
PD3172a & PD3172c (diagnosis and relapse)    IL12_851:8:149:803:45               Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:6:134:786:229              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_511:6:150:205:31               Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:5:47:595:39                Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:6:151:550:500              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:5:101:932:895              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL12_851:8:134:157:286              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:8:47:15852:10346          Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:5:96:57:392                Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:5:60:9064:19763           Seq
PD3172a & PD3172c (diagnosis and relapse)    IL12_851:8:259:245:363              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:5:287:756:283              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL19_970:7:160:265:586              Seq
PD3172a & PD3172c (diagnosis and relapse)    IL24_4151:6:65:6085:6795            Seq
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:1:68:4671:18484      Seq
PD3172a & PD3172c (diagnosis and relapse)   IL19_970:5:294:823:371         Seq
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:2:116:6942:7417      Seq
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:1:85:16831:18563     Seq
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:3:63:10014:5851      PCR
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:8:89:13121:6585      PCR
PD3172a & PD3172c (diagnosis and relapse)   IL19_511:6:113:87:4            PCR
PD3172a & PD3172c (diagnosis and relapse)   IL19_511:5:312:384:333         PCR
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:8:10:6626:4170       Seq
PD3172a & PD3172c (diagnosis and relapse)   IL24_4151:6:57:11207:3137      Seq
PD3172a & PD3172c (diagnosis and relapse)   IL19_511:6:55:246:678          Seq




PD3175a
Sample                                      Read-name                    Evidence
PD3175a                                     IL8_555:5:248:389:734          Seq
PD3175a                                     IL8_555:5:138:83:388           Seq
PD3175a                                     IL8_555:4:72:643:133           Seq
PD3175a                                     IL8_555:1:66:1000:135          PCR
PD3175a                                     IL8_555:4:29:247:981           Seq
PD3175a                                     IL8_555:2:124:36:555           Seq
PD3175a                                     IL8_555:6:129:829:724          Seq
PD3175a                                     IL8_555:2:235:754:743          Seq
PD3175a                                     IL8_555:8:241:648:814          Seq
g in Three Samples from Two CLL Cases: PD3172a (Initial Presentation), PD3172c (Relapse), and PD3175a, Related to




          Solexa_reads     Chr1               Pos1             Strand1       Chr2
                1            1             170758115              -            4
                3            1             170822660              +            4
                1            1             172107770              +            4
                5            4             70257618               +            4
                2            4             70261129               +            4
                3            4             71223258               -            4
                2            4              77014716               -           4
                6            4              77030145              +            4
                1            4              77030147               -           4
                2            4              77037605              +            4
                2            4             77040817               +            4
                3            4             77040842               -            4
                4            4             77042952               +            4
                2            4              78650104               -           4
                8            4             78651579               +            4
                2            4              80226572              +            4
                2            4             80226595               -            4
                1            4             80287286               -            4
                3            4             80291307               +            4
                5            4             80467681               -            4
                2            4              80506413               -           4
                1            4              81648711               -           4
                1            4             99639025               -            4
                1            4             104243155              +            4
                1            4             105652371              +            4
                4            4             105652481               -           4
                1            4             105662342              +            4
                6            4             105700611              +            12
                2            4             105739492              +            4
                6            4             106197097              +            4
                2            4             107216936               -           4
                1            4             119501206              +            4
                2            4             119956158              +            4
                6            4             162402650              -            12
     7          4         167620542           +       15
     4          4          169386926          +        4
     4          4         170624368            -       4
     3          4         173959368            -      12
     4          4     104234642-104234942      -       4
     2          4     106199979-106200279     +        4
     3          4     106201375-106201675      -      15
     2          4      80506144-80506444      +       15
     4         12          59707038            -      15
     4         13          49474759           +       13
     2         15          21280398            -      15




Solexa_reads   Chr1          Pos1           Strand1   Chr2
     3          4          99985365            -       10
     1          4          169615303          +        9
     2          4          169770605           -       9
     3          4      99990414-99990714       -       9
     3          9          20322528           +        13
     1          9          21465000           +        13
     1          9          22237156            -       13
     1          11         79215247           +        11
     3          13         47298401           +        13
2c (Relapse), and PD3175a, Related to Figure 1




                   Pos2               Microhomology_length_bp
                                   Strand2             Non-templated_sequence_length_bp
                                                   Microhomology_seq       NTS_sequence
                173998000             +          2        ca         0          -
                119852135             +          1         t         0          -
                81649760              +          1         a         0          -
                105957165             +          3        tcc        0          -
                80291486              +          2        gg         0          -
                81652006              -          0         -         0          -
                170643878             +          1         a         0          -
                119951745             -          3        tct        0          -
                119849842             +          7      aagcatt      0          -
                80293316              -          1         t         0          -
                81648619              -          1         t         0          -
                86837950              -          1         c         0          -
                105696487             +          1         a         0          -
                169386977             +          0         -         0          -
                81649652              -          2        ac         0          -
                170624360             -          0         -         0          -
                81313713              +          0         -         0          -
                170642768             +          1         c         0          -
                107243297             -          0         -         0          -
                119852103             -          1         t         0          -
                104234697             -          1         a         0          -
                99640521              -          0         -         0          -
                107217807             +          0         -         0          -
                167629140             -          3        cac        0          -
                105957018             -          0         -         0          -
                105967833             -          0         -         0          -
                106201407             -          0         -         1          g
                59712049              +          3        gtt        0          -
                119952131             +          0         -         0          -
                107243349             +          1         a         0          -
                170645224             -          2        ag         0          -
                169381508             +          2        aa         0          -
                167620640             +          1         a         0          -
                59468319              -          1         a         0          -
    21792673          +          3         aaa        0          -
   170642728           -         1          t         0          -
   173997876           -         2         ag         0          -
    59539267           -         0          -         0          -
    107217311-         -        NA          -        NA          -
    107217611
    107220534-        +         NA          -        NA          -
    107220834
21786025-21786325     +         NA          -        NA          -
21280101-21280401      -        NA          -        NA          -
    23138396           -         0          -         2         ta
    50488499          +          0          -         0          -
    40811223          +          0          -         0          -




      Pos2             Microhomology_length_bp
                    Strand2             Non-templated_sequence_length_bp
                                    Microhomology_seq       NTS_sequence
   102805821           -         0          -         0          -
    21789308           -         2         aa         0          -
    21457739           -         4        cagg        0          -
21464986-21465286     +         NA          -        NA          -
    47760651          +          1          a         0          -
    47765821          +          2         ta         0          -
    50426343          +          3         tta        0          -
   126343811          +          1          t         0          -
    50430220          +          2         ct         0          -
S_sequence
S_sequence

				
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