Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 32 of 325
Found at i:12032482 original size:23 final size:25
Alignment explanation
Indices: 12032456--12032502 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12032446 TATCATTCAT
*
12032456 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
12032479 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
12032503 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:12032823 original size:46 final size:46
Alignment explanation
Indices: 12032763--12033028 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
12032753 TTTGACGTGA
* * * * * *
12032763 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
12032809 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
12032855 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
12032901 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
12032947 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
12032985 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
12033029 AGAGCACACT
Statistics
Matches: 198, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 151 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:12032993 original size:38 final size:38
Alignment explanation
Indices: 12032942--12033017 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
12032932 CATTTCATAT
12032942 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
12032980 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
12033018 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:12036455 original size:16 final size:15
Alignment explanation
Indices: 12036412--12036463 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
12036402 TAAGGAAAAT
12036412 ATATTTTAA-AATTA
1 ATATTTTAATAATTA
12036426 AT-TTTTAATTTAATTA
1 ATATTTTAA--TAATTA
12036442 ATTATTTTAATAATTCA
1 A-TATTTTAATAATT-A
12036459 ATATT
1 ATATT
12036464 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.19
14 2 0.06
16 15 0.47
17 3 0.09
18 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTTAATAATTA
Found at i:12042425 original size:60 final size:60
Alignment explanation
Indices: 12042322--12042437 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
12042312 TAAATAATTA
* *
12042322 AATGATTATTTTATAATTTTCTATCATCATATGATCAAGAAATAAATTTATTAATAGTTT
1 AATGATTATTTTATAATTTTCTATCATCAAATAATCAAGAAATAAATTTATTAATAGTTT
* * *
12042382 AATGATTATTTTATAATTATTTTA-CAATTAAATAATTAA-AAATAAATTTATTAATA
1 AATGATTATTTTATAATT-TTCTATC-ATCAAATAATCAAGAAATAAATTTATTAATA
12042438 ATTGAGTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 36 0.73
61 13 0.27
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (60 bp):
AATGATTATTTTATAATTTTCTATCATCAAATAATCAAGAAATAAATTTATTAATAGTTT
Found at i:12049096 original size:31 final size:27
Alignment explanation
Indices: 12049047--12049120 Score: 71
Period size: 31 Copynumber: 2.6 Consensus size: 27
12049037 AGTGTTTAAT
* *
12049047 ATTTTATAATAAAT-TTTAATATTAACAA
1 ATTTTA-ATTAAATATTTAATAATAA-AA
12049075 AGTTTTGAAATTAAATATTTAATAATAAAA
1 A-TTTT--AATTAAATATTTAATAATAAAA
12049105 ATTTTAATT-AATATTT
1 ATTTTAATTAAATATTT
12049121 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.17
27 4 0.10
28 1 0.03
29 8 0.20
30 9 0.22
31 11 0.28
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTTTAATTAAATATTTAATAATAAAA
Found at i:12051105 original size:17 final size:17
Alignment explanation
Indices: 12051083--12051118 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12051073 AACCATCCAT
12051083 TTTTGTTTACAAGTGGG
1 TTTTGTTTACAAGTGGG
12051100 TTTTGTTTACAAGTGGG
1 TTTTGTTTACAAGTGGG
12051117 TT
1 TT
12051119 AGTACACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.28, T:0.50
Consensus pattern (17 bp):
TTTTGTTTACAAGTGGG
Found at i:12053946 original size:21 final size:21
Alignment explanation
Indices: 12053920--12053960 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12053910 ATCTGCTCAA
* *
12053920 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12053941 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12053961 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12059974 original size:319 final size:319
Alignment explanation
Indices: 12059395--12060034 Score: 1255
Period size: 319 Copynumber: 2.0 Consensus size: 319
12059385 ATCAGCACCT
12059395 AAAAACATCAAAACAATACCAACTTAGTTCATTTCAACTAAGTAGCTTAACAAAGAAACTAAAGA
1 AAAAACATCAAAACAATACCAACTTAGTTCATTTCAACTAAGTAGCTTAACAAAGAAACTAAAGA
12059460 AAACCTTGCTGTTACAGCAAGTATACGTGCTGCAGCATGTCATCAAGCTGCATGCACTTCAAACA
66 AAACCTTGCTGTTACAGCAAGTATACGTGCTGCAGCATGTCATCAAGCTGCATGCACTTCAAACA
12059525 GCAGCATGGTTGGCCAATTTCAACACTCCTCCTTGGACTCCATGCTGCAAATACATATCATTCAT
131 GCAGCATGGTTGGCCAATTTCAACACTCCTCCTTGGACTCCATGCTGCAAATACATATCATTCAT
12059590 CAAGTTTTTGAACTTGGCAGCCCTTAGATGCTTTGTTTCAAGCTGACCAATTCATTTTCAACCTT
196 CAAGTTTTTGAACTTGGCAGCCCTTAGATGCTTTGTTTCAAGCTGACCAATTCATTTTCAACCTT
12059655 GGATTCATTCACACAACAAATCTGACTTGCACACTTGACTATCCCAGTCTTTTGTGTCA
261 GGATTCATTCACACAACAAATCTGACTTGCACACTTGACTATCCCAGTCTTTTGTGTCA
12059714 AAAAACATCAAAACAATACCAACTTAGTTCATTTCAACTAAGTAGCTTAACAAAGAAACTAAAAG
1 AAAAACATCAAAACAATACCAACTTAGTTCATTTCAACTAAGTAGCTTAACAAAGAAACT-AAAG
*
12059779 AAAACCTTGCTGTTACAGCAAGTATATGTGCTGCAGCATGTCATCAAGCTGCATGCACTTCAAAC
65 AAAACCTTGCTGTTACAGCAAGTATACGTGCTGCAGCATGTCATCAAGCTGCATGCACTTCAAAC
12059844 AGCAGCATGGTTGGCCAATTTCAACACTCCTCCTTGGACTCCATGCTGCAAATACATATCATTCA
130 AGCAGCATGGTTGGCCAATTTCAACACTCCTCCTTGGACTCCATGCTGCAAATACATATCATTCA
12059909 TCAAG-TTTTGAACTTGGCAGCCCTTAGATGCTTTGTTTCAAGCTGACCAATTCATTTTCAACCT
195 TCAAGTTTTTGAACTTGGCAGCCCTTAGATGCTTTGTTTCAAGCTGACCAATTCATTTTCAACCT
12059973 TGGATTCATTCACACAACAAATCTGACTTGCACACTTGACTATCCCAGTCTTTTGTGTCA
260 TGGATTCATTCACACAACAAATCTGACTTGCACACTTGACTATCCCAGTCTTTTGTGTCA
12060033 AA
1 AA
12060035 GATTTGTTCA
Statistics
Matches: 319, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
319 181 0.57
320 138 0.43
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (319 bp):
AAAAACATCAAAACAATACCAACTTAGTTCATTTCAACTAAGTAGCTTAACAAAGAAACTAAAGA
AAACCTTGCTGTTACAGCAAGTATACGTGCTGCAGCATGTCATCAAGCTGCATGCACTTCAAACA
GCAGCATGGTTGGCCAATTTCAACACTCCTCCTTGGACTCCATGCTGCAAATACATATCATTCAT
CAAGTTTTTGAACTTGGCAGCCCTTAGATGCTTTGTTTCAAGCTGACCAATTCATTTTCAACCTT
GGATTCATTCACACAACAAATCTGACTTGCACACTTGACTATCCCAGTCTTTTGTGTCA
Found at i:12060309 original size:13 final size:13
Alignment explanation
Indices: 12060293--12060317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12060283 CTTTGCATAT
12060293 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12060306 TGTCTTCAACAG
1 TGTCTTCAACAG
12060318 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12061356 original size:13 final size:13
Alignment explanation
Indices: 12061338--12061362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12061328 TCTTTGCTAT
12061338 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12061351 TGTCTTCAACAG
1 TGTCTTCAACAG
12061363 CTCGCACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12062031 original size:13 final size:13
Alignment explanation
Indices: 12062015--12062039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12062005 CTTTGCATAT
12062015 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12062028 TGTCTTCAACAG
1 TGTCTTCAACAG
12062040 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12062763 original size:675 final size:673
Alignment explanation
Indices: 12061198--12062545 Score: 2023
Period size: 675 Copynumber: 2.0 Consensus size: 673
12061188 AGTTTGCTTG
* * * * ** * **
12061198 CCTTCATTCTGCCATTTTGGCTTGCAATTCGACAAGCTCACACTTTGCTTACTGTCTTCAA-TAG
1 CCTTCATTCAGCAATATAGGCTTGCAA-TCGAC-AGCTCACAC-TTGCAAACAGTCAGCAAGTAG
* **
12061262 GCTTGCAACTATACAACACACATTGAGCTTCCACATGTTGCTG-AACT--CA-CATTTGACAGAC
63 GCTTGCAACTATAC-ACACACATTGAGCTTCCACATGCTGC-GAAACTCACACCATTCAACAGAC
* * * * *
12061323 TCACATCTTTGCTATTGTCTTCAACAGGTGTCTTCAACAGCTCGCAC-TTGCTAAGCTTGCAGCT
126 TCACATCTTGGC-AATGCCTTCAACAGGTGTCTTCAACAGCTCGCACTTTGCTAACCTTGCAGCA
* * *
12061387 TTGACATCTTGCTAAGCTTGCACATTTGGAAAGCTCACACCTTTCCTTAAAACTCCTCCTTCAGC
190 TTCACAACATGCTAAGCTTGCACATTTGGAAAGCTCACACCTTTCCTTAAAACTCCTCCTTCAGC
12061452 TTATTCAAGCTTGTTTAGGGGTCTTATAAGTTTGAGCCGATGTTGAGCAGGGGAAGCAAAATCAA
255 TTATTCAAGCTTGTTTAGGGGTCTTATAAGTTTGAGCCGATGTTGAGCAGGGGAAGCAAAATCAA
12061517 TGGTCCCTTAAGACTTAGGCTCATGATACCATTTGTTGGAACAATGCAGCAAAAAGAAACAGAAC
320 TGGTCCCTTAAGACTTAGGCTCATGATACCATTTGTTGGAACAATGCAGCAAAAAGAAACAGAAC
12061582 AAGATAGAGAACAAAGGAGGAAAAAAAAACAATTTACTTGCTCACAAACGTGCAGCAAGGGAGCT
385 -A-ATAGAGAACAAAGGAGGAAAAAAAAACAATTTACTTGCTCACAAACGTGCAGCAAGGGAGCT
12061647 AATGGCTGATAGCTCATTCAGCTCATTCAGTCAACTAGAAAAACAACATATATATAGTCAAATAC
448 AATGGCTGATAGCTCATTCAGCTCATTCAGTCAACTAGAAAAACAACATATATATAGTCAAATAC
12061712 ATCACCAAATACTACCTACTACCACTAGTTTTACTTTGAAACAAGTAAAACTTAACTTGCACACA
513 ATCACCAAATACTACCTACTACCACTAGTTTTACTTTGAAACAAGTAAAACTTAACTTGCACACA
12061777 AGCTGATTATGTCAATCAGCACCTAAAAACATCAAAACAATACCAACTTAGTTCATTTTCAACTA
578 AGCTGATTATGTCAATCAGCACCTAAAAACATCAAAACAATACCAACTTAGTTCATTTTCAACTA
****
12061842 AGTAGCTTAACAAAGAAACTAAAGATGCTTG
643 AGTAGCTTAACAAAGAAACTAAAGATGAAAA
* * * * ** * **
12061873 CCTTCATTCTGCCATTTTGGCTTGCAATCGACAGCTCACACTTGCTTACTGTCTTCAAGTAGGCT
1 CCTTCATTCAGCAATATAGGCTTGCAATCGACAGCTCACACTTGCAAACAGTCAGCAAGTAGGCT
* * *
12061938 TGCAACTATACACACACATTGAGCTTCCACATGTTGCTGAAACTCACACCTTTGAACAGACTCAC
66 TGCAACTATACACACACATTGAGCTTCCACATGCTGC-GAAACTCACACCATTCAACAGACTCAC
* * * * *
12062003 ATCTTTGCATATTGTCTTCAACAGGTGTCTTCAACAGCTCGCACTTTGCTAAGCTTGCAGCTTTG
130 ATCTTGGCA-A-TGCCTTCAACAGGTGTCTTCAACAGCTCGCACTTTGCTAACCTTGCAGCATTC
* *
12062068 ACATCTTGCTAAGCTTGCACATTTGGAAAGCTCACACCTTTCCTTAAAACTCCTCCTTCAGCTTA
193 ACAACATGCTAAGCTTGCACATTTGGAAAGCTCACACCTTTCCTTAAAACTCCTCCTTCAGCTTA
12062133 TTCAAGCTTGTTTA-GGGTCTTATAAGTTTGA-CCGATGTTGAGCA-GGGAAGCAAAATCAATGG
258 TTCAAGCTTGTTTAGGGGTCTTATAAGTTTGAGCCGATGTTGAGCAGGGGAAGCAAAATCAATGG
12062195 TCCCTTAAGACTTAGGCTCATGATACCATTTGTTGGAACAATGGCAGCAGCAAAA-AGAACAGAA
323 TCCCTTAAGACTTAGGCTCATGATACCATTTGTTGGAACAAT-GCAGCA--AAAAGA-AACAGAA
12062259 C-ATAGAGAA-AAAGGAGGAAGAAAAAAAACAATTTACTTGCTCAC-AACGTGCAGCAAGGGAGC
384 CAATAGAGAACAAAGGAGG-A-AAAAAAAACAATTTACTTGCTCACAAACGTGCAGCAAGGGAGC
12062321 TAATGGCTGATAGCTCATTCAGCTCATTCAGTCAACTAGAAAAACAACA-ATATATAGTCAAATA
447 TAATGGCTGATAGCTCATTCAGCTCATTCAGTCAACTAGAAAAACAACATATATATAGTCAAATA
12062385 CATCACCAAATACTA-CTACTACCACTAG-TTTACTTTGAAACAAGTAAAACTTAACTTGCACAC
512 CATCACCAAATACTACCTACTACCACTAGTTTTACTTTGAAACAAGTAAAACTTAACTTGCACAC
12062448 AAGCTGATTATGTCAATCAGCACCT-AAAACA-CAAAACAATACCAACTTAGTTCATTTTCAACT
577 AAGCTGATTATGTCAATCAGCACCTAAAAACATCAAAACAATACCAACTTAGTTCATTTTCAACT
12062511 AAGTAGCTTAACAAAGAAACTAAAGA-GAAAA
642 AAGTAGCTTAACAAAGAAACTAAAGATGAAAA
12062542 CCTT
1 CCTT
12062546 GCTGTTACAG
Statistics
Matches: 651, Mismatches: 8, Indels: 34
0.94 0.01 0.05
Matches are distributed among these distances:
669 5 0.01
670 58 0.09
671 6 0.01
672 105 0.16
673 43 0.07
674 43 0.07
675 166 0.25
676 64 0.10
677 50 0.08
678 111 0.17
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (673 bp):
CCTTCATTCAGCAATATAGGCTTGCAATCGACAGCTCACACTTGCAAACAGTCAGCAAGTAGGCT
TGCAACTATACACACACATTGAGCTTCCACATGCTGCGAAACTCACACCATTCAACAGACTCACA
TCTTGGCAATGCCTTCAACAGGTGTCTTCAACAGCTCGCACTTTGCTAACCTTGCAGCATTCACA
ACATGCTAAGCTTGCACATTTGGAAAGCTCACACCTTTCCTTAAAACTCCTCCTTCAGCTTATTC
AAGCTTGTTTAGGGGTCTTATAAGTTTGAGCCGATGTTGAGCAGGGGAAGCAAAATCAATGGTCC
CTTAAGACTTAGGCTCATGATACCATTTGTTGGAACAATGCAGCAAAAAGAAACAGAACAATAGA
GAACAAAGGAGGAAAAAAAAACAATTTACTTGCTCACAAACGTGCAGCAAGGGAGCTAATGGCTG
ATAGCTCATTCAGCTCATTCAGTCAACTAGAAAAACAACATATATATAGTCAAATACATCACCAA
ATACTACCTACTACCACTAGTTTTACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATT
ATGTCAATCAGCACCTAAAAACATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTT
AACAAAGAAACTAAAGATGAAAA
Found at i:12063063 original size:13 final size:13
Alignment explanation
Indices: 12063045--12063069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12063035 ACATCTTTAT
12063045 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12063058 TGTCTTCAACAG
1 TGTCTTCAACAG
12063070 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12066205 original size:13 final size:13
Alignment explanation
Indices: 12066189--12066213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12066179 CTTTGCATAT
12066189 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12066202 TGTCTTCAACAG
1 TGTCTTCAACAG
12066214 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12067258 original size:13 final size:13
Alignment explanation
Indices: 12067242--12067266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12067232 CTTTGCATAT
12067242 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12067255 TGTCTTCAACAG
1 TGTCTTCAACAG
12067267 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12068311 original size:13 final size:13
Alignment explanation
Indices: 12068295--12068319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12068285 CTTTGCATAT
12068295 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12068308 TGTCTTCAACAG
1 TGTCTTCAACAG
12068320 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12069360 original size:13 final size:13
Alignment explanation
Indices: 12069344--12069368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12069334 CTTTGCATAT
12069344 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12069357 TGTCTTCAACAG
1 TGTCTTCAACAG
12069369 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12070413 original size:13 final size:13
Alignment explanation
Indices: 12070397--12070421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12070387 CTTTGCATAT
12070397 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12070410 TGTCTTCAACAG
1 TGTCTTCAACAG
12070422 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12071465 original size:13 final size:13
Alignment explanation
Indices: 12071449--12071473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12071439 CTTTGCATAT
12071449 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12071462 TGTCTTCAACAG
1 TGTCTTCAACAG
12071474 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12072517 original size:13 final size:13
Alignment explanation
Indices: 12072501--12072525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12072491 CTTTGCATAT
12072501 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12072514 TGTCTTCAACAG
1 TGTCTTCAACAG
12072526 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12073570 original size:13 final size:13
Alignment explanation
Indices: 12073554--12073578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12073544 CTTTGCATAT
12073554 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12073567 TGTCTTCAACAG
1 TGTCTTCAACAG
12073579 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12074623 original size:13 final size:13
Alignment explanation
Indices: 12074607--12074631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12074597 CTTTGCATAT
12074607 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12074620 TGTCTTCAACAG
1 TGTCTTCAACAG
12074632 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12075677 original size:13 final size:13
Alignment explanation
Indices: 12075661--12075685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12075651 CTTTGCATAT
12075661 TGTCTTCAACAGG
1 TGTCTTCAACAGG
12075674 TGTCTTCAACAG
1 TGTCTTCAACAG
12075686 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:12077840 original size:30 final size:30
Alignment explanation
Indices: 12077806--12077862 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
12077796 TAGTAAATTG
12077806 AAATTGAAATTTAATTTGTATATTTTTTAA
1 AAATTGAAATTTAATTTGTATATTTTTTAA
*
12077836 AAATTGAAATTTAATTTTTATATTTTT
1 AAATTGAAATTTAATTTGTATATTTTT
12077863 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (30 bp):
AAATTGAAATTTAATTTGTATATTTTTTAA
Found at i:12077840 original size:36 final size:35
Alignment explanation
Indices: 12077800--12077875 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 35
12077790 ACTGCCTAGT
12077800 AAATTGAAATTGAA-ATTTA-ATTTGTATATTTTTTAA
1 AAATTGAAATTGAATATTTATATTT-T-TA-TTTTTAA
* *
12077836 AAATTGAAATTTAATTTTTATATTTTTATTTTTAA
1 AAATTGAAATTGAATATTTATATTTTTATTTTTAA
12077871 AAATT
1 AAATT
12077876 TAGTCCGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
35 12 0.33
36 15 0.42
37 5 0.14
38 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (35 bp):
AAATTGAAATTGAATATTTATATTTTTATTTTTAA
Found at i:12082352 original size:16 final size:17
Alignment explanation
Indices: 12082331--12082366 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
12082321 ACAAGTAAGA
12082331 TTTAAATATT-TCATTT
1 TTTAAATATTATCATTT
12082347 TTTAAATATTATCATTT
1 TTTAAATATTATCATTT
12082364 TTT
1 TTT
12082367 TAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTAAATATTATCATTT
Found at i:12085007 original size:16 final size:16
Alignment explanation
Indices: 12084986--12085021 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
12084976 TTTGGTTCGC
12084986 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12085002 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12085018 TGTA
1 TGTA
12085022 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12085086 original size:44 final size:45
Alignment explanation
Indices: 12085002--12085092 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
12084992 GGATTAGAGG
* * *
12085002 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
12085047 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
12085091 TG
1 TG
12085093 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:12085277 original size:18 final size:17
Alignment explanation
Indices: 12085256--12085290 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12085246 TTATTATTAA
*
12085256 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12085274 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12085291 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12085374 original size:120 final size:120
Alignment explanation
Indices: 12085234--12085500 Score: 453
Period size: 120 Copynumber: 2.2 Consensus size: 120
12085224 ATTTAATCAT
12085234 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
12085299 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
12085355 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
12085420 TAAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
12085475 ATATAACATAATTATTATTAAATATA
1 ATTTAACATAATTATTATTAAATATA
12085501 ATCAATTTTT
Statistics
Matches: 138, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 134 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:12085397 original size:18 final size:17
Alignment explanation
Indices: 12085374--12085410 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
12085364 AATTATTATT
12085374 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
12085390 AAATATATGATTTAATA
1 AAATATATGATTTAATA
12085407 AAAT
1 AAAT
12085411 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:12085469 original size:61 final size:61
Alignment explanation
Indices: 12085265--12085461 Score: 188
Period size: 61 Copynumber: 3.3 Consensus size: 61
12085255 AATATATTTT
* * *
12085265 AATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCA
1 AATTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
* * * * * * * * * **
12085326 AATCATAATATATGATACT-ATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATATTTT
1 AATTAAAATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATTCTTATATGAATTTACTAA
*
12085385 AATTAAAATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
1 AATTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
*
12085446 AATTATAATATATAAT
1 AATTAAAATATATAAT
12085462 AGTATAAAAT
Statistics
Matches: 103, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 3 0.03
59 33 0.32
60 16 0.16
61 46 0.45
62 5 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
Found at i:12087963 original size:18 final size:18
Alignment explanation
Indices: 12087940--12087974 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12087930 GTTTCAGACG
12087940 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
12087958 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
12087975 GACGGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:12088814 original size:15 final size:15
Alignment explanation
Indices: 12088794--12088824 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12088784 AAAAAAATAA
12088794 TAATAATTAAATCTT
1 TAATAATTAAATCTT
12088809 TAATAATTAAATCTT
1 TAATAATTAAATCTT
12088824 T
1 T
12088825 TCAAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATAATTAAATCTT
Found at i:12089091 original size:19 final size:18
Alignment explanation
Indices: 12089040--12089093 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
12089030 TAAAATAATT
*
12089040 TAATTTTTATATAATTCTA
1 TAATTTTTATA-ATTTCTA
* *
12089059 TCATTTTAATTAATTTCTAA
1 TAATTTTTA-TAATTTCT-A
12089079 TAATTTTTATAATTT
1 TAATTTTTATAATTT
12089094 ATTTTATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTTTTATAATTTCTA
Found at i:12094567 original size:46 final size:49
Alignment explanation
Indices: 12094460--12094581 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
12094450 TGTCTTTGAC
** * *
12094460 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCCTATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCCTATATATA-CTAAT
* * *
12094510 AAGGGCTTACATGGCTCATTCCTGTCTCCAAAG-CC-ATATATA-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCCTATATATACTAAT
*
12094556 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
12094582 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 26 0.42
48 7 0.11
49 2 0.03
50 27 0.44
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCCTATATATACTAAT
Found at i:12102160 original size:12 final size:13
Alignment explanation
Indices: 12102145--12102178 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
12102135 TAATTGACGG
12102145 TTTAATTAATTT-
1 TTTAATTAATTTA
*
12102157 TTTAAATAATTTA
1 TTTAATTAATTTA
12102170 TTTAATTAA
1 TTTAATTAA
12102179 AATTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTAATTAATTTA
Found at i:12111388 original size:27 final size:27
Alignment explanation
Indices: 12111337--12111389 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
12111327 TTCTTGAATA
*
12111337 ATTTTAGGTTTATATTTTATCATATTC
1 ATTTTAGGTTTATATTTTATAATATTC
12111364 ATTTGTAGGTTT-TA-TTTATTAATATT
1 ATTT-TAGGTTTATATTTTA-TAATATT
12111390 TCGATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 12 0.52
28 7 0.30
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.60
Consensus pattern (27 bp):
ATTTTAGGTTTATATTTTATAATATTC
Found at i:12112881 original size:3 final size:3
Alignment explanation
Indices: 12112873--12112897 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12112863 AAGTCAGGGT
12112873 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
12112898 AGTAAGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12118520 original size:16 final size:15
Alignment explanation
Indices: 12118495--12118524 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12118485 CGTTAGTTAA
12118495 TTAATTTAATTAATT
1 TTAATTTAATTAATT
12118510 TTAATTTTAATTAAT
1 TTAA-TTTAATTAAT
12118525 CGTTCGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTAATTAATT
Found at i:12130182 original size:23 final size:23
Alignment explanation
Indices: 12130144--12130208 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
12130134 ATGATGTCAG
* * *
12130144 AATTTAAAAAAAATAAATTTAAA
1 AATTTAAAATATATAAATATAAA
12130167 AATTTAAAATATATAATAATATAAA
1 AATTTAAAATATAT-A-AATATAAA
* *
12130192 AAATCAAAATATATAAA
1 AATTTAAAATATATAAA
12130209 ACTAGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 14 0.40
24 2 0.06
25 19 0.54
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AATTTAAAATATATAAATATAAA
Found at i:12132718 original size:40 final size:40
Alignment explanation
Indices: 12132658--12132744 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
12132648 AATTCATTAC
* * * *
12132658 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAATAACTTCACAATTCAATGCAGTACACAAAACAATA
* *
12132698 TTCAATAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAATAACTTCACAATTCAATGCAGTACACAAAACAATA
12132738 TTCAATA
1 TTCAATA
12132745 TTCCATAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.31
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:12133408 original size:25 final size:23
Alignment explanation
Indices: 12133364--12133447 Score: 68
Period size: 24 Copynumber: 3.7 Consensus size: 23
12133354 ATTTTGATTT
*
12133364 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
12133388 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
* * *
12133412 ATATAAATTATAT-TTA-AATATA
1 AT-TTAATTATATAATATCATATA
12133434 A-TTAATTATATAAT
1 ATTTAATTATATAAT
12133448 TAAAACAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 9 0.18
21 1 0.02
22 6 0.12
24 19 0.39
25 14 0.29
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:12133427 original size:35 final size:35
Alignment explanation
Indices: 12133372--12133451 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
12133362 TTATTTAATA
* * *
12133372 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATAATAAATT
*
12133406 CATATAATATAAATTAT-ATTTAAATATAATTAATT
1 -ATATAATATAAATTATAATTTAAATATAATAAATT
12133441 ATATAAT-TAAA
1 ATATAATATAAA
12133452 ACAAATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATAATAAATT
Found at i:12133445 original size:22 final size:22
Alignment explanation
Indices: 12133407--12133451 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12133397 TCATAAATTC
*
12133407 ATATAATATAAATTATATTTAA
1 ATATAATATAAATTATAATTAA
*
12133429 ATATAAT-TAATTATATAATTAA
1 ATATAATATAAAT-TATAATTAA
12133451 A
1 A
12133452 ACAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATAATATAAATTATAATTAA
Found at i:12145805 original size:22 final size:21
Alignment explanation
Indices: 12145780--12145829 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
12145770 TGAAAATTAC
*
12145780 TACATAATTGCTAAAACTTATA
1 TACAAAATT-CTAAAACTTATA
* *
12145802 TACAAAATTTTAAAATTTATA
1 TACAAAATTCTAAAACTTATA
*
12145823 TAAAAAA
1 TACAAAA
12145830 ACATAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (21 bp):
TACAAAATTCTAAAACTTATA
Found at i:12146008 original size:16 final size:15
Alignment explanation
Indices: 12145979--12146018 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
12145969 GTTTGATTGT
12145979 ATAATT-TTTTTATA
1 ATAATTATTTTTATA
12145993 ATAATTATTCTTTATA
1 ATAATTATT-TTTATA
12146009 ATAATATATT
1 ATAAT-TATT
12146019 ATTCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
16 11 0.48
17 4 0.17
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATAATTATTTTTATA
Found at i:12160242 original size:6 final size:6
Alignment explanation
Indices: 12160222--12160270 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
12160212 CTATCGCTTC
* * *
12160222 CACTGT CACTG- --CTGT CACTGT CACTAT CACTAT CACTGC CACTGT
1 CACTGT CACTGT CACTGT CACTGT CACTGT CACTGT CACTGT CACTGT
12160267 CACT
1 CACT
12160271 AGCACTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 3 0.08
6 33 0.92
ACGTcount: A:0.20, C:0.37, G:0.12, T:0.31
Consensus pattern (6 bp):
CACTGT
Found at i:12160259 original size:18 final size:18
Alignment explanation
Indices: 12160236--12160276 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12160226 GTCACTGCTG
*
12160236 TCACTGTCACTATCACTA
1 TCACTGCCACTATCACTA
*
12160254 TCACTGCCACTGTCACTA
1 TCACTGCCACTATCACTA
*
12160272 GCACT
1 TCACT
12160277 ATTTGCTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (18 bp):
TCACTGCCACTATCACTA
Found at i:12160662 original size:43 final size:43
Alignment explanation
Indices: 12160601--12160692 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
12160591 CAAGAAACTA
*
12160601 AACCAAGAATGAGGTTCCCAGGGTTCTTAACACTTAGCAGAGG
1 AACCAAGAATGAGGTTCCCAGGGTTCTTAACACTTAGAAGAGG
12160644 AACCAAGAATGAGGTTCCCAGGGTTCTTAACACTTAGAAGAGG
1 AACCAAGAATGAGGTTCCCAGGGTTCTTAACACTTAGAAGAGG
*
12160687 CACCAA
1 AACCAA
12160693 CCAACTTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (43 bp):
AACCAAGAATGAGGTTCCCAGGGTTCTTAACACTTAGAAGAGG
Found at i:12167650 original size:19 final size:19
Alignment explanation
Indices: 12167628--12167675 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
12167618 ATTTTAAAAC
12167628 TTTTTAAATA-TTTTTACAA
1 TTTTTAAATAGTTTTTAC-A
*
12167647 TTTTT-TATAGTTTTTACA
1 TTTTTAAATAGTTTTTACA
12167665 TTTTTATAATA
1 TTTTTA-AATA
12167676 ATATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 9 0.38
19 12 0.50
20 3 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTAAATAGTTTTTACA
Found at i:12168616 original size:12 final size:13
Alignment explanation
Indices: 12168555--12168616 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
12168545 TTAAACCAAA
*
12168555 TTTTTAAAAAATAC
1 TTTTT-AAAAACAC
**
12168569 TTTTTAAAAGTAC
1 TTTTTAAAAACAC
** *
12168582 TTTTCCACAACAC
1 TTTTTAAAAACAC
*
12168595 TTTTTAAAAACAT
1 TTTTTAAAAACAC
12168608 TTTTTAAAA
1 TTTTTAAAA
12168617 GTATTACTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
13 33 0.87
14 5 0.13
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (13 bp):
TTTTTAAAAACAC
Found at i:12172065 original size:210 final size:210
Alignment explanation
Indices: 12171698--12172086 Score: 654
Period size: 210 Copynumber: 1.9 Consensus size: 210
12171688 AAGATGTATG
*
12171698 AGTATATCTGTTAATACATACTTCTTCCAACTAAATTATGCAATTAATTTACTATTATAATTACG
1 AGTATATCTGTTAATACATACTTCATCCAACTAAATTATGCAATTAATTTACTATTATAATTACG
* * * * *
12171763 TTCTTTAACCGGGGGAAGGATGACTATCCTTTGTAATATACGTTAATGAAACTTTTTAATATCGT
66 TTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAATATCGT
12171828 ACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATAGAATGTTCATCGTACAGTTGTTATT
131 ACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATAGAATGTTCATCGTACAGTTGTTATT
12171893 AATACTCGAATTTTA
196 AATACTCGAATTTTA
*** * *
12171908 AGTATATCTGTTAATACATACTTCATCCGTTTAAATTATGCATTTGATTTACTATTATAATTACG
1 AGTATATCTGTTAATACATACTTCATCCAACTAAATTATGCAATTAATTTACTATTATAATTACG
12171973 TTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAATATCGT
66 TTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAATATCGT
*
12172038 ACAGTTGTTATTAATACTC-AGATTTATAACAAGCCATATGGAATGTTCA
131 ACAGTTGTTATTAATACTCGA-ATTTATAACAAGCCATATAGAATGTTCA
12172087 GTTATGTTTT
Statistics
Matches: 166, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
209 1 0.01
210 165 0.99
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (210 bp):
AGTATATCTGTTAATACATACTTCATCCAACTAAATTATGCAATTAATTTACTATTATAATTACG
TTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAATATCGT
ACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATAGAATGTTCATCGTACAGTTGTTATT
AATACTCGAATTTTA
Found at i:12172462 original size:619 final size:619
Alignment explanation
Indices: 12171283--12172497 Score: 2430
Period size: 619 Copynumber: 2.0 Consensus size: 619
12171273 GTCCAATTAG
12171283 ATTTTAAGTATATCTGTTAATACATACTTCATCCGTTTAAATTATGCATTTGATTTACTATTATA
1 ATTTTAAGTATATCTGTTAATACATACTTCATCCGTTTAAATTATGCATTTGATTTACTATTATA
12171348 ATTACGTTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAA
66 ATTACGTTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAA
12171413 TATCGTACAGTTGTTATTAATACTCAGATTTATAACAAGCCATATGGAATGTTCAGTTATGTTTT
131 TATCGTACAGTTGTTATTAATACTCAGATTTATAACAAGCCATATGGAATGTTCAGTTATGTTTT
12171478 ATTTTAATAACACATGAACGATGTCGAAATTAATATTTAAGGTAAACTCGTGGATTATATAGTTA
196 ATTTTAATAACACATGAACGATGTCGAAATTAATATTTAAGGTAAACTCGTGGATTATATAGTTA
12171543 ATGAAAGTTGGTAATATTGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCCAGA
261 ATGAAAGTTGGTAATATTGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCCAGA
12171608 ACAATAAAGTCCAAAATTCGCCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATACAATTT
326 ACAATAAAGTCCAAAATTCGCCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATACAATTT
12171673 ACATTCGTAACCCAGAAGATGTATGAGTATATCTGTTAATACATACTTCTTCCAACTAAATTATG
391 ACATTCGTAACCCAGAAGATGTATGAGTATATCTGTTAATACATACTTCTTCCAACTAAATTATG
12171738 CAATTAATTTACTATTATAATTACGTTCTTTAACCGGGGGAAGGATGACTATCCTTTGTAATATA
456 CAATTAATTTACTATTATAATTACGTTCTTTAACCGGGGGAAGGATGACTATCCTTTGTAATATA
12171803 CGTTAATGAAACTTTTTAATATCGTACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATA
521 CGTTAATGAAACTTTTTAATATCGTACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATA
12171868 GAATGTTCATCGTACAGTTGTTATTAATACTCGA
586 GAATGTTCATCGTACAGTTGTTATTAATACTCGA
12171902 ATTTTAAGTATATCTGTTAATACATACTTCATCCGTTTAAATTATGCATTTGATTTACTATTATA
1 ATTTTAAGTATATCTGTTAATACATACTTCATCCGTTTAAATTATGCATTTGATTTACTATTATA
12171967 ATTACGTTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAA
66 ATTACGTTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAA
12172032 TATCGTACAGTTGTTATTAATACTCAGATTTATAACAAGCCATATGGAATGTTCAGTTATGTTTT
131 TATCGTACAGTTGTTATTAATACTCAGATTTATAACAAGCCATATGGAATGTTCAGTTATGTTTT
12172097 ATTTTAATAACACATGAACGATGTCGAAATTAATATTTAAGGTAAACTCGTGGATTATATAGTTA
196 ATTTTAATAACACATGAACGATGTCGAAATTAATATTTAAGGTAAACTCGTGGATTATATAGTTA
12172162 ATGAAAGTTGGTAATATTGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCCAGA
261 ATGAAAGTTGGTAATATTGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCCAGA
12172227 ACAATAAAGTCCAAAATTCGCCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATACAATTT
326 ACAATAAAGTCCAAAATTCGCCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATACAATTT
12172292 ACATTCGTAACCCAGAAGATGTATGAGTATATCTGTTAATACATACTTCTTCCAACTAAATTATG
391 ACATTCGTAACCCAGAAGATGTATGAGTATATCTGTTAATACATACTTCTTCCAACTAAATTATG
12172357 CAATTAATTTACTATTATAATTACGTTCTTTAACCGGGGGAAGGATGACTATCCTTTGTAATATA
456 CAATTAATTTACTATTATAATTACGTTCTTTAACCGGGGGAAGGATGACTATCCTTTGTAATATA
12172422 CGTTAATGAAACTTTTTAATATCGTACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATA
521 CGTTAATGAAACTTTTTAATATCGTACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATA
12172487 GAATGTTCATC
586 GAATGTTCATC
12172498 CTCACACTAA
Statistics
Matches: 596, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
619 596 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (619 bp):
ATTTTAAGTATATCTGTTAATACATACTTCATCCGTTTAAATTATGCATTTGATTTACTATTATA
ATTACGTTATTCAACCAGGGGAAGGATGACTATCATTTGTAATATACGTCAATGAAACTTTTTAA
TATCGTACAGTTGTTATTAATACTCAGATTTATAACAAGCCATATGGAATGTTCAGTTATGTTTT
ATTTTAATAACACATGAACGATGTCGAAATTAATATTTAAGGTAAACTCGTGGATTATATAGTTA
ATGAAAGTTGGTAATATTGTAAAGTTATTTTTAATACTCGGTTTTATAACAAGCAAACACCCAGA
ACAATAAAGTCCAAAATTCGCCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATACAATTT
ACATTCGTAACCCAGAAGATGTATGAGTATATCTGTTAATACATACTTCTTCCAACTAAATTATG
CAATTAATTTACTATTATAATTACGTTCTTTAACCGGGGGAAGGATGACTATCCTTTGTAATATA
CGTTAATGAAACTTTTTAATATCGTACAGTTGTTATTAATACTCGAATTTATAACAAGCCATATA
GAATGTTCATCGTACAGTTGTTATTAATACTCGA
Found at i:12173562 original size:21 final size:22
Alignment explanation
Indices: 12173544--12173585 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12173534 AATGTTTTAT
*
12173544 TGTT-TTTTGTTACCATTTTGA
1 TGTTGTTTTGCTACCATTTTGA
*
12173565 TGTTGTTTTGCTATCATTTTG
1 TGTTGTTTTGCTACCATTTTG
12173586 TTACTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.62
Consensus pattern (22 bp):
TGTTGTTTTGCTACCATTTTGA
Found at i:12183800 original size:2 final size:2
Alignment explanation
Indices: 12183793--12183821 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12183783 GTGTTTTCAA
12183793 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
12183822 TCTCATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12185821 original size:13 final size:13
Alignment explanation
Indices: 12185762--12185821 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
12185752 AAGGAATTTA
*
12185762 AAAAAAAAAAAAG
1 AAAAGAAAAAAAG
12185775 AAAAGAAATAAAAG
1 AAAAGAAA-AAAAG
* *
12185789 -GAGGAAAAGAAAG
1 AAAAGAAAA-AAAG
*
12185802 AAGAGAAAAAAAG
1 AAAAGAAAAAAAG
12185815 AAAAGAA
1 AAAAGAA
12185822 TGTAGAGGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 1 0.03
13 26 0.70
14 10 0.27
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:12190383 original size:4 final size:4
Alignment explanation
Indices: 12190374--12190402 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
12190364 GTTCATTTCC
12190374 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
12190403 ACGCACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCA
Found at i:12195547 original size:24 final size:24
Alignment explanation
Indices: 12195511--12195580 Score: 90
Period size: 23 Copynumber: 3.0 Consensus size: 24
12195501 AAGGGGTCTT
12195511 AATT-AAAAAAATTCATTTCAAGA
1 AATTAAAAAAAATTCATTTCAAGA
*
12195534 AATTAAAAAAAATT-ATTTCAAAA
1 AATTAAAAAAAATTCATTTCAAGA
** *
12195557 AATTAAAAAATTTTCATTTTAAGA
1 AATTAAAAAAAATTCATTTCAAGA
12195581 GAGACCGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
23 24 0.60
24 16 0.40
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (24 bp):
AATTAAAAAAAATTCATTTCAAGA
Found at i:12199520 original size:16 final size:16
Alignment explanation
Indices: 12199489--12199522 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12199479 GCGAATTCAT
* *
12199489 ATTTAAATTTATTTTA
1 ATTTAAATTAAATTTA
12199505 ATTTAAATTAAATTTA
1 ATTTAAATTAAATTTA
12199521 AT
1 AT
12199523 CTATACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTAAATTAAATTTA
Found at i:12206284 original size:16 final size:17
Alignment explanation
Indices: 12206258--12206299 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
12206248 TAAGGTTGGG
12206258 TTAGAGTTTTATGGATT
1 TTAGAGTTTTATGGATT
*
12206275 TTAG-GTTTTATGGGTT
1 TTAGAGTTTTATGGATT
12206291 TT-GAGTTTT
1 TTAGAGTTTT
12206300 TTATTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 18 0.78
17 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (17 bp):
TTAGAGTTTTATGGATT
Found at i:12209265 original size:340 final size:340
Alignment explanation
Indices: 12208645--12209328 Score: 1368
Period size: 340 Copynumber: 2.0 Consensus size: 340
12208635 AAATGGCTGG
12208645 AATTGTTGTGGTTTTCGATTTCGATAAAACCATTATCGACCGTGACAGCGATAACTGGGTTGTCG
1 AATTGTTGTGGTTTTCGATTTCGATAAAACCATTATCGACCGTGACAGCGATAACTGGGTTGTCG
12208710 ATGAATTGGGCTTTACCGATTTGTTCAACCAGCTTCTTCCCACCATGCCCTGGAATACTCTCATG
66 ATGAATTGGGCTTTACCGATTTGTTCAACCAGCTTCTTCCCACCATGCCCTGGAATACTCTCATG
12208775 GTAAACCATAATAATCCCCTGCAACTTCTCTTAGTTTGTGTTTTCCATTTGAATAAAAAGTATTC
131 GTAAACCATAATAATCCCCTGCAACTTCTCTTAGTTTGTGTTTTCCATTTGAATAAAAAGTATTC
12208840 AAACTCTTTTGCTTACCAACTCTTGAACCTTGTCAAAGTGACAAGCACCTAATCCATTGAGGACA
196 AAACTCTTTTGCTTACCAACTCTTGAACCTTGTCAAAGTGACAAGCACCTAATCCATTGAGGACA
12208905 AGAGAACAGACAGTAAAATATAAAATAAAAATCCAACTCCATGTTTACATCTTGAGGCATTTACT
261 AGAGAACAGACAGTAAAATATAAAATAAAAATCCAACTCCATGTTTACATCTTGAGGCATTTACT
12208970 TATTTGGTGGTAAAC
326 TATTTGGTGGTAAAC
12208985 AATTGTTGTGGTTTTCGATTTCGATAAAACCATTATCGACCGTGACAGCGATAACTGGGTTGTCG
1 AATTGTTGTGGTTTTCGATTTCGATAAAACCATTATCGACCGTGACAGCGATAACTGGGTTGTCG
12209050 ATGAATTGGGCTTTACCGATTTGTTCAACCAGCTTCTTCCCACCATGCCCTGGAATACTCTCATG
66 ATGAATTGGGCTTTACCGATTTGTTCAACCAGCTTCTTCCCACCATGCCCTGGAATACTCTCATG
12209115 GTAAACCATAATAATCCCCTGCAACTTCTCTTAGTTTGTGTTTTCCATTTGAATAAAAAGTATTC
131 GTAAACCATAATAATCCCCTGCAACTTCTCTTAGTTTGTGTTTTCCATTTGAATAAAAAGTATTC
12209180 AAACTCTTTTGCTTACCAACTCTTGAACCTTGTCAAAGTGACAAGCACCTAATCCATTGAGGACA
196 AAACTCTTTTGCTTACCAACTCTTGAACCTTGTCAAAGTGACAAGCACCTAATCCATTGAGGACA
12209245 AGAGAACAGACAGTAAAATATAAAATAAAAATCCAACTCCATGTTTACATCTTGAGGCATTTACT
261 AGAGAACAGACAGTAAAATATAAAATAAAAATCCAACTCCATGTTTACATCTTGAGGCATTTACT
12209310 TATTTGGTGGTAAAC
326 TATTTGGTGGTAAAC
12209325 AATT
1 AATT
12209329 ACAGGACACG
Statistics
Matches: 344, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
340 344 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (340 bp):
AATTGTTGTGGTTTTCGATTTCGATAAAACCATTATCGACCGTGACAGCGATAACTGGGTTGTCG
ATGAATTGGGCTTTACCGATTTGTTCAACCAGCTTCTTCCCACCATGCCCTGGAATACTCTCATG
GTAAACCATAATAATCCCCTGCAACTTCTCTTAGTTTGTGTTTTCCATTTGAATAAAAAGTATTC
AAACTCTTTTGCTTACCAACTCTTGAACCTTGTCAAAGTGACAAGCACCTAATCCATTGAGGACA
AGAGAACAGACAGTAAAATATAAAATAAAAATCCAACTCCATGTTTACATCTTGAGGCATTTACT
TATTTGGTGGTAAAC
Found at i:12211579 original size:26 final size:25
Alignment explanation
Indices: 12211550--12211610 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
12211540 TATTATTTTT
12211550 ATATAAAAATAAATTTTAAAAATA-TA
1 ATATAAAAATAAA--TTAAAAATATTA
* *
12211576 ATATATCAAATACATTAAAAATATTA
1 ATATA-AAAATAAATTAAAAATATTA
*
12211602 AAATAAAAA
1 ATATAAAAA
12211611 AATTTCAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 12 0.41
26 11 0.38
27 6 0.21
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (25 bp):
ATATAAAAATAAATTAAAAATATTA
Found at i:12220708 original size:21 final size:21
Alignment explanation
Indices: 12220682--12220722 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12220672 ATCTGCTCAA
* *
12220682 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12220703 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12220723 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12232517 original size:18 final size:18
Alignment explanation
Indices: 12232481--12232519 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12232471 GAAGGTTGTT
*
12232481 TTTAATATTTTTTAGTAA
1 TTTAAAATTTTTTAGTAA
12232499 TTTAAAATTATTTTA-TAA
1 TTTAAAATT-TTTTAGTAA
12232517 TTT
1 TTT
12232520 TTAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTAAAATTTTTTAGTAA
Found at i:12232522 original size:20 final size:20
Alignment explanation
Indices: 12232479--12232523 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
12232469 TTGAAGGTTG
*
12232479 TTTTTAATATTTTTTAGTAA
1 TTTTTAAAATTTTTTAGTAA
12232499 --TTTAAAATTATTTTA-TAA
1 TTTTTAAAATT-TTTTAGTAA
12232517 TTTTTAA
1 TTTTTAA
12232524 TAAATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 11 0.52
19 5 0.24
20 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAAAATTTTTTAGTAA
Found at i:12233364 original size:11 final size:11
Alignment explanation
Indices: 12233346--12233396 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
12233336 TGTTTGCTCT
12233346 CTATTTTATTA
1 CTATTTTATTA
* *
12233357 CCATTTTACTA
1 CTATTTTATTA
* *
12233368 TTATGTTATTA
1 CTATTTTATTA
*
12233379 CTATTTTATTG
1 CTATTTTATTA
12233390 CTATTTT
1 CTATTTT
12233397 TTTATACTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (11 bp):
CTATTTTATTA
Found at i:12233556 original size:18 final size:18
Alignment explanation
Indices: 12233533--12233572 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12233523 GAAATATTTA
*
12233533 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
12233551 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
12233569 TTTT
1 TTTT
12233573 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:12237583 original size:19 final size:19
Alignment explanation
Indices: 12237559--12237602 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12237549 GTTTGCTCTG
* *
12237559 CCTTTTCTTCCTTTCTTTT
1 CCTTTTCTACCCTTCTTTT
*
12237578 CCTTTTGTACCCTTCTTTT
1 CCTTTTCTACCCTTCTTTT
12237597 CCTTTT
1 CCTTTT
12237603 GTATTCTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.64
Consensus pattern (19 bp):
CCTTTTCTACCCTTCTTTT
Found at i:12255381 original size:5 final size:5
Alignment explanation
Indices: 12255371--12255395 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12255361 AGAAAGAAAG
12255371 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
12255396 TAGTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:12264590 original size:30 final size:29
Alignment explanation
Indices: 12264550--12264619 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
12264540 GTTAATAATT
* *
12264550 TATAAGAATTAGATCAAA-TCAAAATTTCGTA
1 TATAA-AATTAGA-AAAATTCAAAA-TTCATA
*
12264581 TATAAAATTATAAAAATTCAAAATTCATA
1 TATAAAATTAGAAAAATTCAAAATTCATA
12264610 TATAAAATTA
1 TATAAAATTA
12264620 CTATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.51
30 12 0.34
31 5 0.14
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (29 bp):
TATAAAATTAGAAAAATTCAAAATTCATA
Found at i:12273038 original size:31 final size:31
Alignment explanation
Indices: 12272997--12273057 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
12272987 ATTAATAATT
12272997 TTAAATTAAATATTATAATT-ATTTTTAAATA
1 TTAAATTAAATA-TATAATTGATTTTTAAATA
* * *
12273028 TTAATTTAAATATATATTTGTTTTTTAAAT
1 TTAAATTAAATATATAATTGATTTTTAAAT
12273058 CTCATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
TTAAATTAAATATATAATTGATTTTTAAATA
Found at i:12275589 original size:6 final size:6
Alignment explanation
Indices: 12275578--12275608 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
12275568 GGAACGGCGG
12275578 ACATGC ACATGC ACATGC ACATGC ACATGC A
1 ACATGC ACATGC ACATGC ACATGC ACATGC A
12275609 TTGTACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
ACATGC
Found at i:12282028 original size:103 final size:104
Alignment explanation
Indices: 12281849--12282113 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
12281839 AACCGTTATT
* * * *
12281849 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
12281914 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
12281952 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
12282016 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
12282056 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12282114 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:12282475 original size:30 final size:29
Alignment explanation
Indices: 12282441--12282505 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
12282431 TAATCCACCA
12282441 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
12282471 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
12282501 CCCAA
1 CCCAA
12282506 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:12282479 original size:31 final size:30
Alignment explanation
Indices: 12282448--12282505 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12282438 CCACCCAACT
12282448 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
12282478 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
12282506 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:12289386 original size:27 final size:27
Alignment explanation
Indices: 12289355--12289407 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
12289345 CCACTTAATC
*
12289355 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACATAGCAACCCCTTG
12289382 GGGGAATCAGCACATAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
12289408 TTTATTTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTTG
Found at i:12289498 original size:102 final size:104
Alignment explanation
Indices: 12289322--12289585 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 104
12289312 AACCGTTATT
* * * *
12289322 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
12289387 ATCAGCACATAGCAA-CCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
12289424 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
12289488 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
12289528 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12289586 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 74 0.50
103 7 0.05
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:12289949 original size:30 final size:30
Alignment explanation
Indices: 12289919--12289975 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12289909 CCACCCAACT
12289919 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
12289948 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
12289976 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:12322450 original size:29 final size:30
Alignment explanation
Indices: 12322391--12322448 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12322381 TCCGAGCCTT
*
12322391 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
12322421 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
12322449 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:12322678 original size:13 final size:13
Alignment explanation
Indices: 12322660--12322691 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12322650 TTTCCAGCAA
12322660 TTATGAATTTATT
1 TTATGAATTTATT
12322673 TTATGAATTTATT
1 TTATGAATTTATT
*
12322686 TGATGA
1 TTATGA
12322692 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:12322899 original size:50 final size:50
Alignment explanation
Indices: 12322786--12323027 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
12322776 ATTTGGGTAA
* * *
12322786 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
12322842 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
12322892 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
12322942 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
12322992 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
12323028 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:12322975 original size:100 final size:103
Alignment explanation
Indices: 12322786--12323035 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
12322776 ATTTGGGTAA
12322786 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
12322851 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
12322892 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
12322954 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
12322992 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
12323036 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:12328461 original size:18 final size:18
Alignment explanation
Indices: 12328435--12328469 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12328425 TGTTAATATA
12328435 GGAGAAAATCCCTGATTG
1 GGAGAAAATCCCTGATTG
* *
12328453 GGAGTAAATCCTTGATT
1 GGAGAAAATCCCTGATT
12328470 AGGATTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (18 bp):
GGAGAAAATCCCTGATTG
Found at i:12330209 original size:3 final size:3
Alignment explanation
Indices: 12330201--12330226 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12330191 GTACCCATTT
12330201 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
12330227 TGAGAGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:12331155 original size:23 final size:23
Alignment explanation
Indices: 12331112--12331156 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12331102 AATTAATTTA
*
12331112 TTTTTATATTATATAAGTGTAAT
1 TTTTTATATTATATAAATGTAAT
*
12331135 TTTTTGTA-TATATAATATGTAA
1 TTTTTATATTATATAA-ATGTAA
12331157 ACATAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (23 bp):
TTTTTATATTATATAAATGTAAT
Found at i:12333052 original size:16 final size:16
Alignment explanation
Indices: 12333028--12333060 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12333018 TATAGATAAA
12333028 TTATATTTTAGTCACT
1 TTATATTTTAGTCACT
*
12333044 TTATGTTTTAGTCACT
1 TTATATTTTAGTCACT
12333060 T
1 T
12333061 ACATTATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (16 bp):
TTATATTTTAGTCACT
Found at i:12337757 original size:7 final size:7
Alignment explanation
Indices: 12337745--12337771 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12337735 ATTATGACAG
12337745 TTTTTTC
1 TTTTTTC
12337752 TTTTTTC
1 TTTTTTC
12337759 TTTTTTC
1 TTTTTTC
12337766 TTTTTT
1 TTTTTT
12337772 ATGCTAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:12338500 original size:32 final size:31
Alignment explanation
Indices: 12338464--12338532 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
12338454 ACAAAAATAC
* *
12338464 AATTTCACCACTTAAATAGTCTATATTTTTAT
1 AATTTCA-AACTTAAATAGTCTATATCTTTAT
* * *
12338496 AATTTTTAAAGTTTAATAGTCTATATCTTTAT
1 AA-TTTCAAACTTAAATAGTCTATATCTTTAT
12338528 AATTT
1 AATTT
12338533 TTAAAGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
31 3 0.10
32 24 0.77
33 4 0.13
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (31 bp):
AATTTCAAACTTAAATAGTCTATATCTTTAT
Found at i:12338533 original size:32 final size:32
Alignment explanation
Indices: 12338478--12338538 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
12338468 TCACCACTTA
*
12338478 AATAGTCTATATTTTTATAATTTTTAAAGTTT
1 AATAGTCTATATCTTTATAATTTTTAAAGTTT
12338510 AATAGTCTATATCTTTATAATTTTTAAAG
1 AATAGTCTATATCTTTATAATTTTTAAAG
12338539 AATTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (32 bp):
AATAGTCTATATCTTTATAATTTTTAAAGTTT
Found at i:12344599 original size:3 final size:3
Alignment explanation
Indices: 12344586--12344614 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12344576 AAATAGACAC
12344586 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12344615 CAAGGGGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12344770 original size:2 final size:2
Alignment explanation
Indices: 12344765--12344806 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12344755 CATCTCTCGT
12344765 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
12344807 CCACTCTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12345341 original size:6 final size:6
Alignment explanation
Indices: 12345301--12345340 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
12345291 ATGTTCCACT
*
12345301 AACAGC AACAGC AACAGC AACAGC AACAGC AACAAC AACA
1 AACAGC AACAGC AACAGC AACAGC AACAGC AACAGC AACA
12345341 AGTTTTGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.55, C:0.33, G:0.12, T:0.00
Consensus pattern (6 bp):
AACAGC
Found at i:12346161 original size:65 final size:65
Alignment explanation
Indices: 12346057--12346191 Score: 252
Period size: 65 Copynumber: 2.1 Consensus size: 65
12346047 TGTGGAACCC
*
12346057 TCTTCTCACGGTATCATAAATAGTTATCATTTTTCCCCCCATGAACACAATTATGAACCAACAAA
1 TCTTCTCACGGTATCATAAATAGTTAACATTTTTCCCCCCATGAACACAATTATGAACCAACAAA
*
12346122 TCTTCTCACGGTATCATAAATAGTTAACATTTTTCCCCCCGTGAACACAATTATGAACCAACAAA
1 TCTTCTCACGGTATCATAAATAGTTAACATTTTTCCCCCCATGAACACAATTATGAACCAACAAA
12346187 TCTTC
1 TCTTC
12346192 ATTTATTGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (65 bp):
TCTTCTCACGGTATCATAAATAGTTAACATTTTTCCCCCCATGAACACAATTATGAACCAACAAA
Found at i:12346340 original size:2 final size:2
Alignment explanation
Indices: 12346333--12346357 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12346323 TTCACACCCC
12346333 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
12346358 ATGAACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12352496 original size:18 final size:18
Alignment explanation
Indices: 12352473--12352511 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12352463 CAATTAGTAT
12352473 TTTATAAAAAAATTGTAA
1 TTTATAAAAAAATTGTAA
* * *
12352491 TTTATATAAATATTTTAA
1 TTTATAAAAAAATTGTAA
12352509 TTT
1 TTT
12352512 CAGTAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTATAAAAAAATTGTAA
Found at i:12362514 original size:26 final size:26
Alignment explanation
Indices: 12362484--12362534 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
12362474 TTCAAAGAAT
*
12362484 TTTGATCTCTGTTGAAAAATAATTCA
1 TTTGATATCTGTTGAAAAATAATTCA
*
12362510 TTTGATATCTGTTGACAAATAATTC
1 TTTGATATCTGTTGAAAAATAATTC
12362535 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (26 bp):
TTTGATATCTGTTGAAAAATAATTCA
Found at i:12376626 original size:5 final size:5
Alignment explanation
Indices: 12376616--12376640 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12376606 TTCTCTGTTT
12376616 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
12376641 GCATTTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:12377411 original size:21 final size:21
Alignment explanation
Indices: 12377387--12377426 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12377377 ATCTTTTTTA
*
12377387 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
12377408 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
12377427 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:12387280 original size:22 final size:22
Alignment explanation
Indices: 12387248--12387289 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
12387238 TTTTGATGAA
12387248 TATTTATATTTATCTTGTAAATG
1 TATTTATATTTAT-TTGTAAATG
12387271 TATTT-TATTTATTTGTAAA
1 TATTTATATTTATTTGTAAA
12387290 GGTAACGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTTATATTTATTTGTAAATG
Found at i:12397470 original size:17 final size:17
Alignment explanation
Indices: 12397418--12397480 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
12397408 TTAATAACAC
12397418 TTTATAATTTTATACAATT
1 TTTATAATTTTA-A-AATT
* *
12397437 TTTAT--TTTATTATATT
1 TTTATAATTT-TAAAATT
12397453 TTTATAATTTTAAAATT
1 TTTATAATTTTAAAATT
*
12397470 TTTAAAATTTT
1 TTTATAATTTT
12397481 TTTCTGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 8 0.22
17 19 0.53
18 4 0.11
19 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATAATTTTAAAATT
Found at i:12399106 original size:25 final size:25
Alignment explanation
Indices: 12399077--12399126 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
12399067 CAAATAAGAT
12399077 GATTTTCAGATTCTAAAAGAGAGAA
1 GATTTTCAGATTCTAAAAGAGAGAA
*
12399102 GATTTTCAGATTTTAAAAGAGAGAA
1 GATTTTCAGATTCTAAAAGAGAGAA
12399127 ATACTATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (25 bp):
GATTTTCAGATTCTAAAAGAGAGAA
Found at i:12407038 original size:50 final size:50
Alignment explanation
Indices: 12406979--12407080 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
12406969 TTTGCCAGCT
*
12406979 CAACATTAGCATCTACAAAAACAATTAAAAAAATCCACATGTATCCAGTC
1 CAACATTAGCATCTACAAAAACAATTAAAAAAATCCACATCTATCCAGTC
* *
12407029 CAACATTAGCATCTGCAAAAACAATTAAAAATATCCACATCTATCCAGTC
1 CAACATTAGCATCTACAAAAACAATTAAAAAAATCCACATCTATCCAGTC
12407079 CA
1 CA
12407081 CCTTGTTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (50 bp):
CAACATTAGCATCTACAAAAACAATTAAAAAAATCCACATCTATCCAGTC
Found at i:12411621 original size:137 final size:138
Alignment explanation
Indices: 12411374--12411648 Score: 455
Period size: 137 Copynumber: 2.0 Consensus size: 138
12411364 ACAGCTAAAC
* *
12411374 AAATGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACAC
1 AAATGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACAC
* * *
12411439 TAGCTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTCACATGAAAGTG-AGATATGAAA
66 TAACTACAAAAGTAACTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAA
*
12411503 GATATGCCA
130 GACATGCCA
* *
12411512 AAATGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACAC
1 AAATGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACAC
12411576 TAACTACAAAAGTAACTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAG
66 TAACTACAAAAGTAACTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAG
12411641 ACATGCCA
131 ACATGCCA
12411649 TTTTCTGAAA
Statistics
Matches: 128, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 87 0.68
138 41 0.32
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (138 bp):
AAATGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACAC
TAACTACAAAAGTAACTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAG
ACATGCCA
Found at i:12414203 original size:8 final size:8
Alignment explanation
Indices: 12414190--12414218 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
12414180 AATTAAACCT
12414190 AAATTTTA
1 AAATTTTA
12414198 AAATTTTA
1 AAATTTTA
12414206 AAATTTTA
1 AAATTTTA
12414214 AAATT
1 AAATT
12414219 ACAAGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTTA
Found at i:12416118 original size:14 final size:15
Alignment explanation
Indices: 12416080--12416140 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
12416070 TTTAATTATT
* *
12416080 TAAAAATTATAAAATA
1 TAAAAATTACAATA-A
*
12416096 TAAATAATTAAAATAA
1 TAAA-AATTACAATAA
*
12416112 T-AAAATTACTATAA
1 TAAAAATTACAATAA
12416126 TAAAAATTACAATAA
1 TAAAAATTACAATAA
12416141 CGGTGCTACC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 10 0.26
15 14 0.37
16 6 0.16
17 8 0.21
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAATTACAATAA
Found at i:12416125 original size:23 final size:23
Alignment explanation
Indices: 12416080--12416132 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
12416070 TTTAATTATT
*
12416080 TAAAAATTATAAAATATAAATAA
1 TAAAAATAATAAAATATAAATAA
* *
12416103 TTAAAATAATAAAAT-TACTATAA
1 TAAAAATAATAAAATATA-AATAA
12416126 TAAAAAT
1 TAAAAAT
12416133 TACAATAACG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAAATAATAAAATATAAATAA
Found at i:12428788 original size:16 final size:15
Alignment explanation
Indices: 12428767--12428796 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12428757 AAAATGTGAA
12428767 AAACAAAAAGAAAAAC
1 AAACAAAAA-AAAAAC
12428783 AAACAAAAAAAAAA
1 AAACAAAAAAAAAA
12428797 GCTTACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (15 bp):
AAACAAAAAAAAAAC
Found at i:12435117 original size:15 final size:16
Alignment explanation
Indices: 12435087--12435117 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12435077 TTAAGAAGTT
12435087 AATTTAATTATTAATA
1 AATTTAATTATTAATA
12435103 AATTTAATT-TTAATA
1 AATTTAATTATTAATA
12435118 GCCAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTAATTATTAATA
Found at i:12437016 original size:41 final size:41
Alignment explanation
Indices: 12436933--12437229 Score: 314
Period size: 41 Copynumber: 7.3 Consensus size: 41
12436923 TAATAAACAT
* * * * *
12436933 TAGCGGCGTTTGT--CCAAAACGCCACTAAAAGCTAAACTA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
* * * *
12436972 TAGCGGCGTTTTTGGCAAAAACACCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
* * *
12437013 TAGCGGCGTTTTTGGCCAAAACGCCACTAAAAATTGGTCAA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
* * *
12437054 TAGCGGCCTTTTTCGCC-AAACGCCACTAAAAGCTGATCAA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
* * *
12437094 TAGCGGCGTTTTAATCCCAAACGCCACTAAAAACTGATCAA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
* * * *
12437135 TTGCGGCGTTTTTATCCCAAACGCCACAAAAAACTGATCAA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
* * * * *
12437176 TTGTGGCATTTTTATCCAAAACGCCACTAAAAACT-AACTAA
1 TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATC-AA
12437217 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
12437230 GGTCCAAACG
Statistics
Matches: 222, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
39 12 0.05
40 35 0.16
41 175 0.79
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
TAGCGGCGTTTTTAGCCAAAACGCCACTAAAAACTGATCAA
Found at i:12437248 original size:122 final size:123
Alignment explanation
Indices: 12436945--12437241 Score: 352
Period size: 122 Copynumber: 2.4 Consensus size: 123
12436935 GCGGCGTTTG
* *
12436945 TCCAAAACGCCACTAAAAGCTAAACT-ATAGCGGCGTTTTTGG-CAAAAACACCACTAAAAACTG
1 TCCAAAACGCCACTAAAAGCT-AACTAATAGCGGCGTTTTTGGTC-CAAACGCCACTAAAAACTG
* * * * * * *
12437008 GTCAATAGCGGCGTTTTTGGCCAAAACGCCACTAAAAATTGGTCAATAGCGGCCTTTTTC
64 ATCAATAGCGGCGTTTTTAGCCAAAACGCCACAAAAAACTGATCAATAGCGGCATTTTTA
* * **
12437068 GCC-AAACGCCACTAAAAGCTGA-TCAATAGCGGCG-TTTTAATCCCAAACGCCACTAAAAACTG
1 TCCAAAACGCCACTAAAAGCTAACT-AATAGCGGCGTTTTTGGT-CCAAACGCCACTAAAAACTG
* * * * *
12437130 ATCAATTGCGGCGTTTTTATCCCAAACGCCACAAAAAACTGATCAATTGTGGCATTTTTA
64 ATCAATAGCGGCGTTTTTAGCCAAAACGCCACAAAAAACTGATCAATAGCGGCATTTTTA
*
12437190 TCCAAAACGCCACTAAAAACTAACTAATAGCGGCGTTTTTGGTCCAAACGCC
1 TCCAAAACGCCACTAAAAGCTAACTAATAGCGGCGTTTTTGGTCCAAACGCC
12437242 GCAAAAAGTT
Statistics
Matches: 144, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
120 1 0.01
121 5 0.03
122 93 0.65
123 39 0.27
124 6 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (123 bp):
TCCAAAACGCCACTAAAAGCTAACTAATAGCGGCGTTTTTGGTCCAAACGCCACTAAAAACTGAT
CAATAGCGGCGTTTTTAGCCAAAACGCCACAAAAAACTGATCAATAGCGGCATTTTTA
Found at i:12437610 original size:28 final size:29
Alignment explanation
Indices: 12437579--12437656 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
12437569 TATTATTATT
*
12437579 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
12437607 TATATTATTAAATTAATTACATTATAAA-
1 TATATAAATAAATAAATTACATTATAAAG
*
12437635 TATTATATTAAGAAATAAATTA
1 TA-TATA--AATAAATAAATTA
12437657 AATAAAGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 17 0.45
29 11 0.29
31 10 0.26
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:12437656 original size:31 final size:28
Alignment explanation
Indices: 12437590--12437657 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
12437580 ATATAAATAT
**
12437590 ATAAATTAATTATAAAGTATATTATTAA
1 ATAAATTAATTATAAAGTATATTAAGAA
* *
12437618 ATTAATTACATTATAAATATTATATTAAGAA
1 ATAAATTA-ATTAT-AA-AGTATATTAAGAA
12437649 ATAAATTAA
1 ATAAATTAA
12437658 ATAAAGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 5 0.16
30 3 0.09
31 17 0.53
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (28 bp):
ATAAATTAATTATAAAGTATATTAAGAA
Found at i:12438555 original size:18 final size:18
Alignment explanation
Indices: 12438532--12438580 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
12438522 ATGTGAGGTA
*
12438532 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
12438550 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
12438568 ATTATTATTATTA
1 AGTATTATTATTA
12438581 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:12438560 original size:3 final size:3
Alignment explanation
Indices: 12438534--12438581 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
12438524 GTGAGGTAAG
* * * *
12438534 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12438582 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:12438581 original size:12 final size:12
Alignment explanation
Indices: 12438534--12438581 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
12438524 GTGAGGTAAG
* *
12438534 TATTAATATTAG
1 TATTAGTATTAT
12438546 TATTAGTATTAT
1 TATTAGTATTAT
12438558 TATTAGTATTAT
1 TATTAGTATTAT
*
12438570 TATTATTATTAT
1 TATTAGTATTAT
12438582 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:12438792 original size:27 final size:25
Alignment explanation
Indices: 12438723--12438793 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 25
12438713 GTGTGAAGTT
* *
12438723 GTGAAATAATTATTG-ATTG-AAAG
1 GTGAAAAAATGATTGAATTGAAAAG
*
12438746 GTGAAAAAATGATTGAATTGAAAAT
1 GTGAAAAAATGATTGAATTGAAAAG
*
12438771 GTGAAAAATTGTAATTGAATTGA
1 GTGAAAAAATG--ATTGAATTGA
12438794 GAATATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.32
24 4 0.10
25 13 0.32
27 10 0.25
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.32
Consensus pattern (25 bp):
GTGAAAAAATGATTGAATTGAAAAG
Found at i:12438996 original size:37 final size:39
Alignment explanation
Indices: 12438937--12439032 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
12438927 CGGATAGATT
* * * *
12438937 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
12438974 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
12439013 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
12439033 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:12440217 original size:21 final size:21
Alignment explanation
Indices: 12440183--12440245 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
12440173 TGGCTTTCTG
12440183 TAAACCCTTAAATCATAAACAT
1 TAAACCC-TAAATCATAAACAT
* **
12440205 TAAACCCTAAATCCTAAATTT
1 TAAACCCTAAATCATAAACAT
* * *
12440226 TAAAACATAAAACATAAACA
1 TAAACCCTAAATCATAAACA
12440246 CTAATCCATA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 25 0.78
22 7 0.22
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAATCATAAACAT
Done.