Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 255 of 313
Found at i:78232116 original size:17 final size:17
Alignment explanation
Indices: 78232094--78232135 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
78232084 TGAATTAAAG
78232094 AAAAAAAATTAAAAATT
1 AAAAAAAATTAAAAATT
* **
78232111 AAAAAAAATTGAGTATT
1 AAAAAAAATTAAAAATT
78232128 AAAAAAAA
1 AAAAAAAA
78232136 GTGAAGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAAAAATTAAAAATT
Found at i:78236979 original size:81 final size:81
Alignment explanation
Indices: 78236844--78237005 Score: 290
Period size: 81 Copynumber: 2.0 Consensus size: 81
78236834 GGTAAGTTCC
78236844 TCGAGCTAAATTCGAGCTAATTAAAGCTCATAGAGTTGAGATGGAGCTACGTTCAGCTTGCAAAA
1 TCGAGCTAAATTCGAGCTAATTAAAGCTCATAGAGTTGAGATGGAGCTACGTTCAGCTTGCAAAA
78236909 ATGACAAGCCTCGCTT
66 ATGACAAGCCTCGCTT
* *
78236925 TCGAGGTAAATTCGAGCTAATTGAAGCTCAT-GAAGTTGAGATGGAGCTACGTTCAGCTTGCAAA
1 TCGAGCTAAATTCGAGCTAATTAAAGCTCATAG-AGTTGAGATGGAGCTACGTTCAGCTTGCAAA
78236989 AATGACAAGCCTCGCTT
65 AATGACAAGCCTCGCTT
78237006 GTAGGCTGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (81 bp):
TCGAGCTAAATTCGAGCTAATTAAAGCTCATAGAGTTGAGATGGAGCTACGTTCAGCTTGCAAAA
ATGACAAGCCTCGCTT
Found at i:78245179 original size:92 final size:92
Alignment explanation
Indices: 78245008--78245820 Score: 898
Period size: 92 Copynumber: 8.8 Consensus size: 92
78244998 AAACTATATT
* * * *
78245008 TTTAGGTTTTAATTTTGGTAAAATTAGATTATAGATTTAAATAGGATTTGATTTGAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
* *
78245073 AAAATTATATTTTTAGGTTCTAGTAGG
66 AAAATTAGATTTTTAGGTTCTAATAGG
* * *
78245100 TTTATATTGTAATTTTGGTAAAATTAGTTTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
*
78245165 AAAATTAGAATTTTAGGTTCTAATAGG
66 AAAATTAGATTTTTAGGTTCTAATAGG
* * * * * *
78245192 CTTAGATAATAATTTTGGAAAAAATAGATAATAGGATTAAATAGGATTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
** *
78245257 AGTATTATATTTTTAGGTTCTAATAGG
66 AAAATTAGATTTTTAGGTTCTAATAGG
78245284 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
*
78245349 AAAATTAGATTTTTAGGTTTTAATAGG
66 AAAATTAGATTTTTAGGTTCTAATAGG
* * * * *
78245376 CTTAGATCATAATTTTGGAAAAATTAGATAATAGGTTTAAATAGGATTTGATTTTAAGTTGTAAT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
** *
78245441 AGTATTATATTTTTAGGTTCTAATAGG
66 AAAATTAGATTTTTAGGTTCTAATAGG
*
78245468 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAA-AGGGTTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
* *
78245532 AAAATTAGATTTTTAGCTTTTAATAGG
66 AAAATTAGATTTTTAGGTTCTAATAGG
* * * * ** ** * * *
78245559 TTTAGATTTTAATTTTGGAAAAAATTATATTAGAATTTTAGTTAGAATTTGATTTTAAGTTCTAT
1 TTTAGATTATAATTTTGG-TAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAG
*** * *
78245624 TAAAATTAGATCGATAGGTTTTAATA-A
65 TAAAATTAGATTTTTAGGTTCTAATAGG
* * *** * * * * * ** * ** *
78245651 ATTAAATTATAAGTTTAAATGAGATTCGTTTGTAATTTTTAATAAAAATTAGATTTTAAGTTGTA
1 TTTAGATTATAA-TTTTGGTAAAATTAGATTATAGGTTTAAAT-AGGATTTGATTTTAAGTTGTA
* *
78245716 GTAAAATTAGATTTTTAGCTTTTAATAGG
64 GTAAAATTAGATTTTTAGGTTCTAATAGG
* * * * * *
78245745 TTTAGATTTTAATTTTGGAAAAAAATT--ATTATA-ATTATAAGTAGAATTTGATTTTAAGTTTT
1 TTTAGATTATAATTTTGG--TAAAATTAGATTATAGGTT-TAAATAGGATTTGATTTTAAGTTGT
78245807 AGTAAAATTAGATT
63 AGTAAAATTAGATT
78245821 GATAGATTTT
Statistics
Matches: 601, Mismatches: 112, Indels: 16
0.82 0.15 0.02
Matches are distributed among these distances:
91 60 0.10
92 435 0.72
93 93 0.15
94 9 0.01
95 4 0.01
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (92 bp):
TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
AAAATTAGATTTTTAGGTTCTAATAGG
Found at i:78245810 original size:23 final size:22
Alignment explanation
Indices: 78245784--78245851 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
78245774 TATAATTATA
*
78245784 AGTAGAATTTGATTTTAAGTTTT
1 AGTA-AATTAGATTTTAAGTTTT
*
78245807 AGTAAAATTAGA-TTGATAGATTTT
1 AGT-AAATTAGATTTTA-AG-TTTT
*
78245831 AGTAAATTAGATTATAAGTTT
1 AGTAAATTAGATTTTAAGTTT
78245852 AAATAAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
22 6 0.16
23 21 0.57
24 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (22 bp):
AGTAAATTAGATTTTAAGTTTT
Found at i:78245871 original size:185 final size:186
Alignment explanation
Indices: 78245516--78245883 Score: 623
Period size: 185 Copynumber: 2.0 Consensus size: 186
78245506 AAAAGGGTTT
78245516 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTTAATAGGTTTAGATTTTAATTTTGGAAAA
1 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTTAATAGGTTTAGATTTTAATTTTGGAAAA
* * * *
78245581 AATTATATTAGAATTTTAGTTAGAATTTGATTTTAAGTTCTATTAAAATTAGATCGATAGGTTTT
66 AAATATATTAGAATTTAAGTTAGAATTTGATTTTAAGTTCTAGTAAAATTAGATCGATAGATTTT
*
78245646 AATAAATTAAATTATAAGTTTAAATGAGATTCGTTTGTAATTTTTAATAAAAATTA
131 AATAAATTAAATTATAAGTTTAAATAAGATTCGTTTGTAATTTTTAATAAAAATTA
78245702 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTTAATAGGTTTAGATTTTAATTTTGGAAAA
1 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTTAATAGGTTTAGATTTTAATTTTGGAAAA
* * *
78245767 AAAT-TATTATAATTATAAG-TAGAATTTGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTT
66 AAATATATTAGAATT-TAAGTTAGAATTTGATTTTAAGTTCTAGTAAAATTAGATCGATAGATTT
* *
78245830 TAGTAAATTAGATTATAAGTTTAAATAAGATTCGTTTGTAATTTTTAATAAAAA
130 TAATAAATTAAATTATAAGTTTAAATAAGATTCGTTTGTAATTTTTAATAAAAA
78245884 AAAATAGATT
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
185 100 0.58
186 71 0.42
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.46
Consensus pattern (186 bp):
GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTTAATAGGTTTAGATTTTAATTTTGGAAAA
AAATATATTAGAATTTAAGTTAGAATTTGATTTTAAGTTCTAGTAAAATTAGATCGATAGATTTT
AATAAATTAAATTATAAGTTTAAATAAGATTCGTTTGTAATTTTTAATAAAAATTA
Found at i:78249378 original size:13 final size:14
Alignment explanation
Indices: 78249360--78249388 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78249350 ATTTGAACTG
78249360 AACTAACT-AAATT
1 AACTAACTAAAATT
78249373 AACTAACTAAAATT
1 AACTAACTAAAATT
78249387 AA
1 AA
78249389 ATAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AACTAACTAAAATT
Found at i:78249462 original size:20 final size:21
Alignment explanation
Indices: 78249437--78249478 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
78249427 AATAGAAAAA
*
78249437 TGGAAACGAGC-TCATTGAGC
1 TGGAAACGAGCTTAATTGAGC
*
78249457 TGGAAATGAGCTTAATTGAGC
1 TGGAAACGAGCTTAATTGAGC
78249478 T
1 T
78249479 CAACAAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (21 bp):
TGGAAACGAGCTTAATTGAGC
Found at i:78258509 original size:64 final size:66
Alignment explanation
Indices: 78258421--78258547 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 66
78258411 TTAAATTTGG
* *
78258421 ATTTCAAAACCATGCATTTAAGCATCTTAGTTT-AATAAATGAGTTGTTCGACATTTATTCAAAG
1 ATTTCAAAACCATGCATTGAAGCATCTTAGTTTAAATAAATGAGTTGCTCGACATTTATTCAAAG
78258485 C
66 C
*
78258486 ATTTC-AAACCATGCATTGAAGCATCTTAGTTTAAATAAATGAGTTGCTGGACATTTATTCAA
1 ATTTCAAAACCATGCATTGAAGCATCTTAGTTTAAATAAATGAGTTGCTCGACATTTATTCAA
78258548 TTCATCTTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 26 0.45
65 32 0.55
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (66 bp):
ATTTCAAAACCATGCATTGAAGCATCTTAGTTTAAATAAATGAGTTGCTCGACATTTATTCAAAG
C
Found at i:78259472 original size:46 final size:46
Alignment explanation
Indices: 78259419--78259512 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
78259409 ATAGTGTGGC
* *
78259419 GTTCATCATATACCAAGGTTCCTATCA-TCATTGATACTGGGTCGAG
1 GTTCATCATAGACAAAGGTTCCTATCATTC-TTGATACTGGGTCGAG
*
78259465 GTTCATCATAGACAAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATAGACAAAGGTTCCTATCATTCTTGATACTGGGTCGAG
78259511 GT
1 GT
78259513 CTTTTCTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (46 bp):
GTTCATCATAGACAAAGGTTCCTATCATTCTTGATACTGGGTCGAG
Found at i:78263789 original size:46 final size:46
Alignment explanation
Indices: 78263720--78263813 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
78263710 ATAGTGTGGC
78263720 GTTCATCATATACCAAGGCTCCTATCA-TCATTGATACTGGGTCGAG
1 GTTCATCATATACCAAGGCTCCTATCATTC-TTGATACTGGGTCGAG
* * *
78263766 GTTCATCATATTCCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGCTCCTATCATTCTTGATACTGGGTCGAG
78263812 GT
1 GT
78263814 CTTTTCTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGCTCCTATCATTCTTGATACTGGGTCGAG
Found at i:78277222 original size:33 final size:34
Alignment explanation
Indices: 78277170--78277244 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
78277160 AGATTTAAAC
*
78277170 AAATTAATTACTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
* *
78277204 AAATTAATT-GTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
78277237 AATTTAAT
1 AAATTAAT
78277245 AAACTAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 28 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:78279031 original size:20 final size:18
Alignment explanation
Indices: 78278999--78279037 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
78278989 CTCTTTTTGC
78278999 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATTCTCTTTT
78279017 TCTTTTTCGATTTCTCTTTT
1 TCTTTTTC-A-TTCTCTTTT
78279037 T
1 T
78279038 GTCTTCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCATTCTCTTTT
Found at i:78280856 original size:63 final size:63
Alignment explanation
Indices: 78280778--78280901 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
78280768 AATGAATCGA
78280778 CACAAGCAGAAAAATTAAAGAGGAATAAACAGCAAGAAAATAAAGAAAAGTCCTAAGAAGCTG
1 CACAAGCAGAAAAATTAAAGAGGAATAAACAGCAAGAAAATAAAGAAAAGTCCTAAGAAGCTG
* * * *
78280841 CACAAGTAGAGAAATTAAAGAGGAATAAATAGCAAGAAAATAAAGAAATGTCCTAAGAAGC
1 CACAAGCAGAAAAATTAAAGAGGAATAAACAGCAAGAAAATAAAGAAAAGTCCTAAGAAGC
78280902 CTTGAAATCG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.56, C:0.11, G:0.19, T:0.13
Consensus pattern (63 bp):
CACAAGCAGAAAAATTAAAGAGGAATAAACAGCAAGAAAATAAAGAAAAGTCCTAAGAAGCTG
Found at i:78283531 original size:30 final size:30
Alignment explanation
Indices: 78283497--78283554 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
78283487 CTGAATTAAT
*
78283497 GCATGAATGTGTTTAAGGAGATGAATGGAG
1 GCATGAATGTATTTAAGGAGATGAATGGAG
* * *
78283527 GCATGCATGTATTTAGGGAGCTGAATGG
1 GCATGAATGTATTTAAGGAGATGAATGG
78283555 GGATGCTAGA
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:0.29, C:0.07, G:0.36, T:0.28
Consensus pattern (30 bp):
GCATGAATGTATTTAAGGAGATGAATGGAG
Found at i:78289208 original size:18 final size:18
Alignment explanation
Indices: 78289187--78289221 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
78289177 TTTTTCTTTT
78289187 TCAATTT-TTTTCTCAATC
1 TCAATTTATTTT-TCAATC
78289205 TCAATTTATTTTTCAAT
1 TCAATTTATTTTTCAAT
78289222 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTATTTTTCAATC
Found at i:78289295 original size:24 final size:24
Alignment explanation
Indices: 78289236--78289306 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
78289226 TTTTCTTCGT
* ** *
78289236 TTTCTTTTTCTCTCACTTTTTCGA
1 TTTCTTTTTCTTTTTCTTTTTCAA
78289260 TTTCTTTTTCTTTTTCTTTTTCAA
1 TTTCTTTTTCTTTTTCTTTTTCAA
*
78289284 TTTCTTTTTCTTTTTCATTTTCA
1 TTTCTTTTTCTTTTTCTTTTTCA
78289307 TTACAACGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.70
Consensus pattern (24 bp):
TTTCTTTTTCTTTTTCTTTTTCAA
Found at i:78289308 original size:6 final size:6
Alignment explanation
Indices: 78289221--78289305 Score: 71
Period size: 6 Copynumber: 13.8 Consensus size: 6
78289211 TATTTTTCAA
* * ** * *
78289221 TTTTCTT TTCTTCG TTTTCT TTTTCT CTCACT TTTTCG ATTTCT TTTTCT
1 TTTTC-T TT-TTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * *
78289271 TTTTCT TTTTCA ATTTCT TTTTCT TTTTCA TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
78289306 ATTACAACGT
Statistics
Matches: 60, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
6 53 0.88
7 4 0.07
8 3 0.05
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (6 bp):
TTTTCT
Found at i:78290082 original size:162 final size:162
Alignment explanation
Indices: 78289800--78290123 Score: 506
Period size: 162 Copynumber: 2.0 Consensus size: 162
78289790 GATACCTCAC
*
78289800 TGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGATGTGATGGGCTCAAATTACCACAAGGCC
1 TGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGCC
* * * *
78289865 CAATAACGAGGTCAAAGGCAAGGCAAATGCGTATGAAACTAAATGGAATCATTCAAGACTTCATT
66 CAATAACGAGGTCAAAGGCAAGGCAAATGCGTATAAAACTAAATCGAACCATTCAAGAATTCATT
*
78289930 AGCAACGCCTTAGATGCGTATACAAAGGAAAA
131 AGCAACGCATTAGATGCGTATACAAAGGAAAA
* *
78289962 TGATATGAGTCACACAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGCC
1 TGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGCC
* *
78290027 CAATAACGAGGTCAAAGGCCAGGCAAATGCGT-TCAAAACTAAATCGAACCATTCAAGAATTTAT
66 CAATAACGAGGTCAAAGGCAAGGCAAATGCGTAT-AAAACTAAATCGAACCATTCAAGAATTCAT
* * * *
78290091 TAGCAAGGCATTAGATGTGTATACGATGGAAAA
130 TAGCAACGCATTAGATGCGTATACAAAGGAAAA
78290124 AGAAAATCAA
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 1 0.01
162 146 0.99
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (162 bp):
TGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGCC
CAATAACGAGGTCAAAGGCAAGGCAAATGCGTATAAAACTAAATCGAACCATTCAAGAATTCATT
AGCAACGCATTAGATGCGTATACAAAGGAAAA
Found at i:78307031 original size:28 final size:27
Alignment explanation
Indices: 78306969--78307120 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
78306959 TAAATTGTGC
* *
78306969 AGCACTAAGTGTGCGAATTGTTTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
78306996 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
78307024 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
78307051 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
*
78307079 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
78307106 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78307121 GACTTAATAA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.56
28 51 0.44
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:78307034 original size:55 final size:55
Alignment explanation
Indices: 78306969--78307120 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
78306959 TAAATTGTGC
* * *
78306969 AGCACTAAGTGTGCGAATTGTTTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
78307024 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
78307079 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCG
78307121 GACTTAATAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:78317921 original size:23 final size:24
Alignment explanation
Indices: 78317895--78317939 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
78317885 TTTTTGTTGA
78317895 GTAAAAATTCTCT-TTGAGTTTCT
1 GTAAAAATTCTCTCTTGAGTTTCT
* *
78317918 GTAAGAATTTTCTCTTGAGTTT
1 GTAAAAATTCTCTCTTGAGTTT
78317940 TCTTTGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (24 bp):
GTAAAAATTCTCTCTTGAGTTTCT
Found at i:78319033 original size:12 final size:12
Alignment explanation
Indices: 78319018--78319061 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
78319008 TTTGCTCACT
* *
78319018 TTTTTTTTGAAG
1 TTTTTTTTCAAA
78319030 TTTTTTTTCAAA
1 TTTTTTTTCAAA
78319042 TTTTTTTTTCAAA
1 -TTTTTTTTCAAA
78319055 TTTTTTT
1 TTTTTTT
78319062 AATATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 17 0.59
13 12 0.41
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:78319033 original size:13 final size:13
Alignment explanation
Indices: 78319017--78319061 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
78319007 TTTTGCTCAC
*
78319017 TTTTTTTTT-GAA
1 TTTTTTTTTCAAA
*
78319029 GTTTTTTTTCAAA
1 TTTTTTTTTCAAA
78319042 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
78319055 TTTTTTT
1 TTTTTTT
78319062 AATATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:78321558 original size:26 final size:24
Alignment explanation
Indices: 78321528--78321575 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
78321518 TTGAAGTTGA
78321528 AAGAAAAGATTGA-AAAAGAGAAAGAC
1 AAGAAAA-ATT-ATAAAA-AGAAAGAC
78321554 AAGAAAAATTATAAAAAGAAAG
1 AAGAAAAATTATAAAAAGAAAG
78321576 GAAAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.33
25 7 0.33
26 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.19, T:0.10
Consensus pattern (24 bp):
AAGAAAAATTATAAAAAGAAAGAC
Found at i:78326046 original size:40 final size:41
Alignment explanation
Indices: 78325996--78326079 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 41
78325986 TCACTTGCAA
78325996 TTTATATAAACTCATCTTACTTAATAAATGAGTTGCTGGAC
1 TTTATATAAACTCATCTTACTTAATAAATGAGTTGCTGGAC
* * * *
78326037 TTTAT-TAAACTCATCTTAGTTAGTAATTGAGTTGTTGGAC
1 TTTATATAAACTCATCTTACTTAATAAATGAGTTGCTGGAC
78326077 TTT
1 TTT
78326080 CTTTTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (41 bp):
TTTATATAAACTCATCTTACTTAATAAATGAGTTGCTGGAC
Found at i:78328905 original size:20 final size:21
Alignment explanation
Indices: 78328872--78328935 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
78328862 CATCTCCTTT
* *
78328872 AGCTCGTTTTAGCTCCAA-TC
1 AGCTCATTTGAGCTCCAATTC
78328892 AGCTCATTTGAGCT-CAATTC
1 AGCTCATTTGAGCTCCAATTC
* *
78328912 AGCTCATTCGAGCT-CAATTT
1 AGCTCATTTGAGCTCCAATTC
78328932 AGCT
1 AGCT
78328936 TTCTATCAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 3 0.08
20 36 0.92
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (21 bp):
AGCTCATTTGAGCTCCAATTC
Found at i:78331474 original size:20 final size:20
Alignment explanation
Indices: 78331449--78331515 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
78331439 TTCATGTGGT
78331449 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
78331469 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCATTCGAGCTCAAG
* *
78331489 TCAGCTTATTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
78331509 TCAGCTC
1 TCAGCTC
78331516 GTTATTAGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 2 0.05
20 41 0.95
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:78331514 original size:10 final size:10
Alignment explanation
Indices: 78331448--78331515 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
78331438 TTTCATGTGG
*
78331448 TTCAGCTCAC
1 TTCAGCTCAA
*
78331458 TTGAGCTCAA
1 TTCAGCTCAA
*
78331468 GTCAGCTC-A
1 TTCAGCTCAA
78331477 TTCGAGCTCAA
1 TTC-AGCTCAA
* *
78331488 GTCAGCT-TA
1 TTCAGCTCAA
78331497 TTCGAGCTCAA
1 TTC-AGCTCAA
78331508 TTCAGCTC
1 TTCAGCTC
78331516 GTTATTAGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
9 6 0.13
10 32 0.71
11 7 0.16
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:78334594 original size:79 final size:79
Alignment explanation
Indices: 78334463--78334621 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
78334453 GGTAATTTGA
78334463 TCCCATCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTCGTATCATTTGGTGTGGCATTCAAT
1 TCCCATCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTCGTATCATTTGGTGTGGCATTCAAT
78334528 ATACCTTTGGTTCC
66 ATACCTTTGGTTCC
78334542 TCCCATCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTCGTATCATTTGGTGTGGCATTCAAT
1 TCCCATCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTCGTATCATTTGGTGTGGCATTCAAT
78334607 ATACCTTTGGTTCC
66 ATACCTTTGGTTCC
78334621 T
1 T
78334622 ATCATATTTG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (79 bp):
TCCCATCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTCGTATCATTTGGTGTGGCATTCAAT
ATACCTTTGGTTCC
Found at i:78334615 original size:39 final size:39
Alignment explanation
Indices: 78334492--78334615 Score: 94
Period size: 39 Copynumber: 3.2 Consensus size: 39
78334482 TTGAGTTGGG
78334492 CCTTTGTGACTCGTATCATTTGGTGTGGCATTCAATATA
1 CCTTTGTGACTCGTATCATTTGGTGTGGCATTCAATATA
** ** * * * * *
78334531 CCTTTGGTTCCTCCCATCACGTT-CT-TGAGC-TTGAGT-TGGG
1 CCTTT-GTGACTCGTATCA-TTTGGTGTG-GCATTCAATAT--A
78334571 CCTTTGTGACTCGTATCATTTGGTGTGGCATTCAATATA
1 CCTTTGTGACTCGTATCATTTGGTGTGGCATTCAATATA
78334610 CCTTTG
1 CCTTTG
78334616 GTTCCTATCA
Statistics
Matches: 58, Mismatches: 18, Indels: 18
0.62 0.19 0.19
Matches are distributed among these distances:
38 3 0.05
39 29 0.50
40 23 0.40
41 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (39 bp):
CCTTTGTGACTCGTATCATTTGGTGTGGCATTCAATATA
Found at i:78335398 original size:19 final size:19
Alignment explanation
Indices: 78335371--78335409 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
78335361 AAAGTCCAGC
*
78335371 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
*
78335390 AACTCAATTAACTATGATG
1 AACTCAATTAACTAAGATG
78335409 A
1 A
78335410 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:78341526 original size:67 final size:67
Alignment explanation
Indices: 78341449--78341575 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
78341439 GGAATATCAT
* * * *
78341449 AAACATGAAAGAATTATCCAAGAATCGAAACACTTATTAATAGTGTTGATTGAAAACAAAACATC
1 AAACAGGAAAGAATCAACCAAGAATCGAAACACTTATTAATAATGTTGATTGAAAACAAAACATC
78341514 CA
66 CA
* *
78341516 AAACAGGAAAGAATCAACCAAGAATCGAAACACTTATTAATAATTTTGATTGGAAACAAA
1 AAACAGGAAAGAATCAACCAAGAATCGAAACACTTATTAATAATGTTGATTGAAAACAAA
78341576 GAAACAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (67 bp):
AAACAGGAAAGAATCAACCAAGAATCGAAACACTTATTAATAATGTTGATTGAAAACAAAACATC
CA
Found at i:78343094 original size:11 final size:11
Alignment explanation
Indices: 78343076--78343108 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
78343066 AAACTTTTAT
78343076 GAAGTTTCCTA
1 GAAGTTTCCTA
78343087 GTAA-TTTCCTA
1 G-AAGTTTCCTA
78343098 GAAGTTTCCTA
1 GAAGTTTCCTA
78343109 ACAAGCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (11 bp):
GAAGTTTCCTA
Found at i:78348913 original size:18 final size:18
Alignment explanation
Indices: 78348892--78348930 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
78348882 AAAGAAAGAC
78348892 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
78348910 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
78348928 AGA
1 AGA
78348931 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:78356550 original size:20 final size:20
Alignment explanation
Indices: 78356500--78356550 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
78356490 TACTTCGTAC
*
78356500 TCTTTTTTTTATTCTCAATT
1 TCTTTTTTTTTTTCTCAATT
*
78356520 T-TTTTCCTTTTTTCGT-AATT
1 TCTTTT-TTTTTTTC-TCAATT
78356540 TCTTTTTTTTT
1 TCTTTTTTTTT
78356551 CAATTACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 5 0.20
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (20 bp):
TCTTTTTTTTTTTCTCAATT
Found at i:78357537 original size:11 final size:11
Alignment explanation
Indices: 78357521--78357554 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
78357511 TTGAAGATCC
78357521 ACATGGTGTGA
1 ACATGGTGTGA
*
78357532 ACATGG-CTGA
1 ACATGGTGTGA
78357542 ACATGGTGTGA
1 ACATGGTGTGA
78357553 AC
1 AC
78357555 GTCTTTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (11 bp):
ACATGGTGTGA
Found at i:78360986 original size:15 final size:16
Alignment explanation
Indices: 78360959--78360988 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78360949 TTCTTTTGTT
78360959 TCACTCTATTTTTTTA
1 TCACTCTATTTTTTTA
78360975 TCACTC-ATTTTTTT
1 TCACTCTATTTTTTT
78360989 TGCTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (16 bp):
TCACTCTATTTTTTTA
Found at i:78364040 original size:11 final size:11
Alignment explanation
Indices: 78364024--78364057 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
78364014 TTGAAGAGAC
78364024 ACATGGTGTGA
1 ACATGGTGTGA
*
78364035 ACATGG-CTGA
1 ACATGGTGTGA
78364045 ACATGGTGTGA
1 ACATGGTGTGA
78364056 AC
1 AC
78364058 GTCTTTATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (11 bp):
ACATGGTGTGA
Found at i:78371873 original size:20 final size:20
Alignment explanation
Indices: 78371841--78371908 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
78371831 ACGAGCTCAA
* *
78371841 TGAGCTGAATTGAGCTCGTG
1 TGAGCTGACTTGAGCTCGAG
* * *
78371861 TGAACTGACTTGAGCCCGAA
1 TGAGCTGACTTGAGCTCGAG
78371881 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGACTTGAGCTCGAG
78371901 TGAGCTGA
1 TGAGCTGA
78371909 AAGTGAAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (20 bp):
TGAGCTGACTTGAGCTCGAG
Found at i:78372548 original size:20 final size:21
Alignment explanation
Indices: 78372525--78372573 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
78372515 AGCTTGTTTC
* *
78372525 AGCTCCAA-TCAGCTCATTTG
1 AGCTCCAATTCAGCTAATTCG
78372545 AGCT-CAATTCAGCTAATTCG
1 AGCTCCAATTCAGCTAATTCG
78372565 AGCT-CAATT
1 AGCTCCAATT
78372574 TCGCTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (21 bp):
AGCTCCAATTCAGCTAATTCG
Found at i:78380874 original size:47 final size:47
Alignment explanation
Indices: 78380796--78381487 Score: 1114
Period size: 47 Copynumber: 14.6 Consensus size: 47
78380786 CCATTCGGGA
* * * * * * * *
78380796 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78380843 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78380890 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78380937 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78380986 CTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381033 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381082 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381129 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78381176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381223 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78381270 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381317 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381364 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78381411 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78381458 CTTACCACATATATATATACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
78381488 CACATATACT
Statistics
Matches: 604, Mismatches: 35, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 496 0.82
49 108 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78383711 original size:58 final size:58
Alignment explanation
Indices: 78383621--78384407 Score: 1565
Period size: 58 Copynumber: 13.6 Consensus size: 58
78383611 TGGTTTTGAA
*
78383621 ATGCAAATTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78383679 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78383737 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78383795 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78383853 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78383911 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78383969 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384027 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384085 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384143 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384201 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384259 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384317 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
1 ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
78384375 ATGCAAACTTAACTAACATGAAAGTTACATAAT
1 ATGCAAACTTAACTAACATGAAAGTTACATAAT
78384408 GCATGACTTT
Statistics
Matches: 728, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 728 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (58 bp):
ATGCAAACTTAACTAACATGAAAGTTACATAATTAAACTAACTTGACTTAATTTAATG
Found at i:78389201 original size:10 final size:10
Alignment explanation
Indices: 78389186--78389229 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
78389176 AACTTCGACC
78389186 AGCTCAATTG
1 AGCTCAATTG
* *
78389196 AGCTCATTTC
1 AGCTCAATTG
*
78389206 AGCTCAATCG
1 AGCTCAATTG
*
78389216 AGCTCAATTT
1 AGCTCAATTG
78389226 AGCT
1 AGCT
78389230 ATAATTCAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:78389208 original size:20 final size:20
Alignment explanation
Indices: 78389185--78389245 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
78389175 CAACTTCGAC
78389185 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
78389205 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
* *
78389226 -AGCTATAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
78389246 ATTTTATTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 23 0.66
21 12 0.34
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:78392959 original size:17 final size:17
Alignment explanation
Indices: 78392934--78392988 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
78392924 TCTCTTTTCA
*
78392934 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* *
78392951 TTCTTTTTTTTATCATTT
1 TTCTTTTTTTT-TGAATT
* *
78392969 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
78392986 TTC
1 TTC
78392989 GCTCTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:78395234 original size:13 final size:12
Alignment explanation
Indices: 78395205--78395251 Score: 67
Period size: 12 Copynumber: 3.7 Consensus size: 12
78395195 ATGCAATTTT
78395205 TTTTTCTTTTCAA
1 TTTTT-TTTTCAA
78395218 TTTTTTTTTCAA
1 TTTTTTTTTCAA
78395230 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
78395243 CTTTTTTTT
1 -TTTTTTTT
78395252 ACGTACCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.53
13 7 0.22
14 8 0.25
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:78408266 original size:50 final size:50
Alignment explanation
Indices: 78408024--78408266 Score: 315
Period size: 50 Copynumber: 4.9 Consensus size: 50
78408014 TTTTTTGTAT
* * * ** * *
78408024 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
* * ** * * *
78408074 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
* * *
78408124 TGCCAACGCCATCTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
*
78408174 TGCCAACGCCATGTCCCAGACATGGTCTTACATGATACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
*
78408224 TGCCAACGCCATGCCCCAGACATGGTCTTACATGAGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTT
78408267 TACCCAAATG
Statistics
Matches: 169, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 169 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
Found at i:78416054 original size:56 final size:56
Alignment explanation
Indices: 78415987--78416130 Score: 270
Period size: 56 Copynumber: 2.6 Consensus size: 56
78415977 TGTAAGCCAG
*
78415987 TGTAAAACCATGTCTGGGACATGGCATTGGCATTATTAAAATTATAAGATGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAAAATTATAAGATGTCCCA
78416043 TGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAAAATTATAAGATGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAAAATTATAAGATGTCCCA
*
78416099 TGTAAGACCATGTCTGGGACATGGCGTTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA
78416131 CCAAGATGAG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 86 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (56 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAAAATTATAAGATGTCCCA
Found at i:78416158 original size:50 final size:50
Alignment explanation
Indices: 78416093--78416817 Score: 814
Period size: 50 Copynumber: 14.8 Consensus size: 50
78416083 ATTATAAGAT
*
78416093 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * * *
78416143 GTCCCACGTAAGACCATGTCTTGAACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* *
78416193 GTCCCATATAAGACCATGTCTGGGACATGGTC-TTGGCACCAAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGG-CGTTGGCACCGAGATGAGAG
78416243 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * ** * *
78416293 GTCCTATG---GACCATGTTTGATACATGGCGTTGACACCGAGATGAAAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
*
78416340 GACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * ** * *
78416390 GTCCTATG---GACCATGTTTGATACATGGCGTTGACACCGAGATGAAAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
*
78416437 GACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * ** * *
78416487 GTCCTATG---GACCATGTTTGATACATGGCGTTGACACCGAGATGAAAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
*
78416534 GACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* * ** * *
78416584 GTCCTATG---GACCATGTTTGATACATGGCGTTGACACCGAGATGAAAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* *
78416631 GACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATTAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
** * * * * * *
78416681 GTCCCCCGTAAGACCATGTTTGGGACATGACATGGGCACCGATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
* ** * * * * * *
78416731 CTCCCATGTAAGACCATACCTGGGATATGGCATTGGCA--GTACAGGACAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAG
* * * *
78416780 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
78416818 TGTTATATTC
Statistics
Matches: 561, Mismatches: 99, Indels: 31
0.81 0.14 0.04
Matches are distributed among these distances:
47 160 0.29
48 1 0.00
49 37 0.07
50 362 0.65
51 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
Found at i:78416363 original size:97 final size:97
Alignment explanation
Indices: 78416117--78416684 Score: 940
Period size: 97 Copynumber: 5.8 Consensus size: 97
78416107 CATGTCTGGG
* * * * * * *
78416117 ACATGGCGTTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTTGAACATGGCGTTGGCAC
1 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* * * **
78416182 CGAGATAAGAGGTCCCATATAAGACCATGTCTGGG
66 CGAGATGAGAGGT-CC-TAT-GGACCATGTTTGAT
* * * *
78416217 ACATGGTC-TTGGCACCAAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
1 ACATGG-CGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
78416281 CCGAGATGAGAGGTCCTATGGACCATGTTTGAT
65 CCGAGATGAGAGGTCCTATGGACCATGTTTGAT
78416314 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
78416379 CGAGATGAGAGGTCCTATGGACCATGTTTGAT
66 CGAGATGAGAGGTCCTATGGACCATGTTTGAT
78416411 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
78416476 CGAGATGAGAGGTCCTATGGACCATGTTTGAT
66 CGAGATGAGAGGTCCTATGGACCATGTTTGAT
78416508 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
78416573 CGAGATGAGAGGTCCTATGGACCATGTTTGAT
66 CGAGATGAGAGGTCCTATGGACCATGTTTGAT
78416605 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
*
78416670 CGAGATTAGAGGTCC
66 CGAGATGAGAGGTCC
78416685 CCCGTAAGAC
Statistics
Matches: 453, Mismatches: 13, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
96 1 0.00
97 374 0.83
98 3 0.01
99 2 0.00
100 72 0.16
101 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (97 bp):
ACATGGCGTTGACACCGAGATGAAAGGACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
CGAGATGAGAGGTCCTATGGACCATGTTTGAT
Found at i:78422628 original size:20 final size:20
Alignment explanation
Indices: 78422603--78422661 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
78422593 TTGTACAAGA
78422603 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
**
78422623 TTTGCACATTT-GTGAACCTG
1 TTTGCAC-TTTGGTGCCCCTG
*
78422643 TCTGCACTTTGGTGCCCCT
1 TTTGCACTTTGGTGCCCCT
78422662 ATTATTCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.10, C:0.29, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTG
Found at i:78444953 original size:50 final size:50
Alignment explanation
Indices: 78444847--78445138 Score: 257
Period size: 50 Copynumber: 5.7 Consensus size: 50
78444837 AGGAATGAGA
* * **
78444847 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGC---ACCGA-G--ATGAGAGG
*
78444903 TCCCACGTAAGACCATTTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*
78444953 TCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* ** * * **
78445003 TCCCCCGTAAGACCATGTCTGGGACAT-GCCATGGACACCGATATTAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAGATGAGAGG
** * * * * * * **
78445053 TCCCATATAAGACCATATCTGGGAAATGGCATTGGCA--GTACAGGAAACA
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGG
* * *
78445102 TTCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCA
78445139 TGTTATTATC
Statistics
Matches: 202, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.00
49 41 0.20
50 118 0.58
51 5 0.02
52 1 0.00
53 3 0.01
56 33 0.16
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:78445366 original size:20 final size:20
Alignment explanation
Indices: 78445341--78445389 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
78445331 TGAGTTATTA
78445341 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
78445361 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
78445381 AAG-AAGCAA
1 AAGTAAGCAA
78445390 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:78445517 original size:14 final size:14
Alignment explanation
Indices: 78445498--78445525 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78445488 CTTTATTTTC
78445498 CTTCTTTTCTTATA
1 CTTCTTTTCTTATA
78445512 CTTCTTTTCTTATA
1 CTTCTTTTCTTATA
78445526 GTATGGCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
CTTCTTTTCTTATA
Found at i:78450110 original size:22 final size:22
Alignment explanation
Indices: 78450082--78450204 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
78450072 TTCCACATCC
78450082 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
78450104 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
78450128 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
78450151 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
78450175 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
78450198 ATCACAT
1 ATCACAT
78450205 ATATACACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 27 0.38
23 12 0.17
24 12 0.17
25 20 0.28
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:78450117 original size:47 final size:47
Alignment explanation
Indices: 78450054--78450313 Score: 400
Period size: 47 Copynumber: 5.6 Consensus size: 47
78450044 CCCTTCGGGA
* * *
78450054 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78450101 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
78450148 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
78450195 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
78450242 C-CA-CATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
78450287 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
78450314 TATTCAAATA
Statistics
Matches: 195, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
45 41 0.21
46 3 0.02
47 150 0.77
48 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:78451835 original size:56 final size:56
Alignment explanation
Indices: 78451768--78451887 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78451758 TATTAGTTTA
78451768 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
78451824 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
78451880 TTGCCCAT
1 TTGCCCAT
78451888 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78456683 original size:20 final size:21
Alignment explanation
Indices: 78456660--78456700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78456650 ATCACTTTAA
*
78456660 TATCAA-ATTAATATAATATT
1 TATCAAGATAAATATAATATT
*
78456680 TATCAAGATAAATATTATATT
1 TATCAAGATAAATATAATATT
78456701 GAATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TATCAAGATAAATATAATATT
Found at i:78466818 original size:36 final size:36
Alignment explanation
Indices: 78466768--78466858 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 36
78466758 NGAGCCATTA
* *
78466768 GTGTGTTTTTGATGGATTAGCTCGTATGAGCATTTG
1 GTGTGTTTTGGATGGATTAGCTCGTATGAGCATCTG
* *
78466804 GTGTGTTTTGGATGGACTAGCTCTTATGAGCATCTG
1 GTGTGTTTTGGATGGATTAGCTCGTATGAGCATCTG
78466840 GTGTGTTTTGG-TGGGATTA
1 GTGTGTTTTGGAT-GGATTA
78466859 CCGATGTACT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.15, C:0.09, G:0.33, T:0.43
Consensus pattern (36 bp):
GTGTGTTTTGGATGGATTAGCTCGTATGAGCATCTG
Found at i:78471844 original size:55 final size:54
Alignment explanation
Indices: 78471777--78471886 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 54
78471767 TCTACCGGCG
78471777 TCATCTATTTATAGGGAAAGAAAGTGGAACCCTTGTTGAATTGTAGAGGTTTAT
1 TCATCTATTTATAGGGAAAGAAAGTGGAACCCTTGTTGAATTGTAGAGGTTTAT
*
78471831 TNCATCTATTTATAGGGAAGGAAAGTGGAACCCTTGTTGAATTGTAGAGGTTTAT
1 T-CATCTATTTATAGGGAAAGAAAGTGGAACCCTTGTTGAATTGTAGAGGTTTAT
78471886 T
1 T
78471887 TTAAATAGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 1 0.02
55 53 0.98
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.35
Consensus pattern (54 bp):
TCATCTATTTATAGGGAAAGAAAGTGGAACCCTTGTTGAATTGTAGAGGTTTAT
Found at i:78472064 original size:22 final size:21
Alignment explanation
Indices: 78472039--78472096 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
78472029 TTAATCCAGC
*
78472039 CCAATACATAATTTTATATTTT
1 CCAATAAATAATTTTA-ATTTT
*
78472061 CCAA-AAATAATATTAATTTT
1 CCAATAAATAATTTTAATTTT
*
78472081 CTAATTAAATAATTTT
1 CCAA-TAAATAATTTT
78472097 CTCATCTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.27
21 9 0.30
22 13 0.43
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (21 bp):
CCAATAAATAATTTTAATTTT
Found at i:78472317 original size:6 final size:6
Alignment explanation
Indices: 78472302--78472356 Score: 83
Period size: 6 Copynumber: 9.0 Consensus size: 6
78472292 CAAAAATGAA
* *
78472302 TCATTT CTCATTC TCATTT TCATTT TCATTT TCATTT TCAATT TCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
78472351 TCATTT
1 TCATTT
78472357 CAAGAAAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 39 0.89
7 5 0.11
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:78472984 original size:6 final size:6
Alignment explanation
Indices: 78472967--78473005 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
78472957 ACACACCATC
78472967 TTTCAGT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TT
1 TTTCA-T TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TT
78473006 CAAGAAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTCAT
Found at i:78481962 original size:56 final size:56
Alignment explanation
Indices: 78481902--78482013 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
78481892 ACACATACTG
*
78481902 TCACCACCATATAGTCCTAATTATTATGTTCCTCACTAAGTAACTAATCAGTCCTA
1 TCACCACCATACAGTCCTAATTATTATGTTCCTCACTAAGTAACTAATCAGTCCTA
* * *
78481958 TCACCACCATACAGTCCTAATTATTCTGTTCCTCACTATGTAACTAATCGGTCCTA
1 TCACCACCATACAGTCCTAATTATTATGTTCCTCACTAAGTAACTAATCAGTCCTA
78482014 ATCTAACCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (56 bp):
TCACCACCATACAGTCCTAATTATTATGTTCCTCACTAAGTAACTAATCAGTCCTA
Found at i:78484973 original size:20 final size:20
Alignment explanation
Indices: 78484936--78484984 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
78484926 CATATCATGC
*
78484936 ATTCATTTGTGATCTCATAT
1 ATTCATTTTTGATCTCATAT
* *
78484956 ATTCATTTTTTATTTCATAT
1 ATTCATTTTTGATCTCATAT
78484976 ATTCATTTT
1 ATTCATTTT
78484985 CAACCAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTCATTTTTGATCTCATAT
Found at i:78485058 original size:24 final size:24
Alignment explanation
Indices: 78485030--78485076 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
78485020 ATGCAGGATA
* *
78485030 ATAATGCTCATATGAGCTATGAAT
1 ATAATGCTCACACGAGCTATGAAT
78485054 ATAATGCTCACACGAGCTATGAA
1 ATAATGCTCACACGAGCTATGAA
78485077 ATGGGCTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (24 bp):
ATAATGCTCACACGAGCTATGAAT
Found at i:78486734 original size:14 final size:13
Alignment explanation
Indices: 78486710--78486743 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
78486700 AATCACTATT
*
78486710 CATATATAGCTCA
1 CATATAGAGCTCA
78486723 CAATATAGAGCTCA
1 C-ATATAGAGCTCA
78486737 CATATAG
1 CATATAG
78486744 TTTAACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (13 bp):
CATATAGAGCTCA
Found at i:78488275 original size:27 final size:27
Alignment explanation
Indices: 78488245--78488422 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
78488235 ATATTGAGCC
* *
78488245 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
78488272 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
78488299 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
78488327 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
78488354 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
78488381 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
78488408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78488423 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:78488357 original size:55 final size:54
Alignment explanation
Indices: 78488245--78488422 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
78488235 ATATTGAGCC
* * * * *
78488245 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
78488299 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
78488354 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
78488408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78488423 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:78489634 original size:1 final size:1
Alignment explanation
Indices: 78489628--78489654 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
78489618 GAATGAACTC
78489628 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
78489655 AAATTCCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:78490963 original size:20 final size:20
Alignment explanation
Indices: 78490940--78490979 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78490930 GAACGATTCT
78490940 TGTTGTCCAAGGATGGTGCC
1 TGTTGTCCAAGGATGGTGCC
78490960 TGTTGTCCAAGGATGGTGCC
1 TGTTGTCCAAGGATGGTGCC
78490980 GAATAGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (20 bp):
TGTTGTCCAAGGATGGTGCC
Found at i:78497714 original size:11 final size:11
Alignment explanation
Indices: 78497700--78497726 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
78497690 TTTTTTTTTG
78497700 TTTTTGAATTT
1 TTTTTGAATTT
78497711 TTTTTGAATTT
1 TTTTTGAATTT
78497722 TTTTT
1 TTTTT
78497727 TCGAAACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTGAATTT
Found at i:78497723 original size:12 final size:12
Alignment explanation
Indices: 78497695--78497727 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78497685 CTCGATTTTT
78497695 TTTTGTTTTTGAA
1 TTTT-TTTTTGAA
78497708 -TTTTTTTTGAA
1 TTTTTTTTTGAA
78497719 TTTTTTTTT
1 TTTTTTTTT
78497728 CGAAACTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:78498545 original size:11 final size:11
Alignment explanation
Indices: 78498515--78498547 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
78498505 GAAGAGCCAT
78498515 ATGGTGTGAAC
1 ATGGTGTGAAC
*
78498526 ATGG-CTGAAC
1 ATGGTGTGAAC
78498536 ATGGTGTGAAC
1 ATGGTGTGAAC
78498547 A
1 A
78498548 ACTTTATGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.24
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:78502228 original size:11 final size:10
Alignment explanation
Indices: 78502212--78502250 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
78502202 AGTTTCTTCA
78502212 AAAAAAATTTC
1 AAAAAAA-TTC
78502223 AAAAAAAATTC
1 -AAAAAAATTC
*
78502234 AAAAAAAATC
1 AAAAAAATTC
78502244 AAAAAAA
1 AAAAAAA
78502251 AATTTGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 3 0.12
12 7 0.27
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:78502238 original size:23 final size:21
Alignment explanation
Indices: 78502208--78502251 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
78502198 CAGTAGTTTC
78502208 TTCAAAAAAAATTTCAAAAAAAA
1 TTCAAAAAAAA--TCAAAAAAAA
78502231 TTCAAAAAAAATCAAAAAAAA
1 TTCAAAAAAAATCAAAAAAAA
78502252 ATTTGGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
23 11 0.52
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (21 bp):
TTCAAAAAAAATCAAAAAAAA
Found at i:78502252 original size:12 final size:11
Alignment explanation
Indices: 78502208--78502251 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
78502198 CAGTAGTTTC
78502208 TTCAAAAAAAA
1 TTCAAAAAAAA
78502219 TTTCAAAAAAAA
1 -TTCAAAAAAAA
78502231 TTCAAAAAAAA
1 TTCAAAAAAAA
78502242 -TCAAAAAAAA
1 TTCAAAAAAAA
78502252 ATTTGGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.31
11 11 0.34
12 11 0.34
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:78502313 original size:16 final size:16
Alignment explanation
Indices: 78502292--78502349 Score: 91
Period size: 15 Copynumber: 3.6 Consensus size: 16
78502282 GGTATCAAGT
78502292 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
78502308 TG-AAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
78502323 TGAAAAAAAAAATTTTCG
1 TGAAAAAAAAAA--TTCG
78502341 TGAAAAAAA
1 TGAAAAAAA
78502350 GAAGAAGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.38
16 11 0.28
18 13 0.33
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (16 bp):
TGAAAAAAAAAATTCG
Found at i:78502317 original size:18 final size:18
Alignment explanation
Indices: 78502294--78502349 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
78502284 TATCAAGTTG
78502294 AAAAAAAAAATTCGTG--
1 AAAAAAAAAATTCGTGAA
78502310 -AAAAAAAAATTCGTGAA
1 AAAAAAAAAATTCGTGAA
**
78502327 AAAAAAAATTTTCGTGAA
1 AAAAAAAAAATTCGTGAA
78502345 AAAAA
1 AAAAA
78502350 GAAGAAGCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 15 0.43
18 20 0.57
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAAAAAAAATTCGTGAA
Found at i:78503928 original size:39 final size:39
Alignment explanation
Indices: 78503874--78503957 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
78503864 TGAGTCGGAG
*
78503874 GAAGAGGATGAAAATGAACCTGAAATGCCATCCGATGAT
1 GAAGATGATGAAAATGAACCTGAAATGCCATCCGATGAT
78503913 GAAGATGATGAAAATGAACCTGAAATGCCATCCGATGAT
1 GAAGATGATGAAAATGAACCTGAAATGCCATCCGATGAT
78503952 GAAGAT
1 GAAGAT
78503958 TTAGAGTTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (39 bp):
GAAGATGATGAAAATGAACCTGAAATGCCATCCGATGAT
Found at i:78509021 original size:39 final size:40
Alignment explanation
Indices: 78508920--78509182 Score: 326
Period size: 39 Copynumber: 6.7 Consensus size: 40
78508910 TTGAATGATG
* *
78508920 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
78508959 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
78509000 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
78509039 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78509078 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
78509117 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
78509156 AACCGGACTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78509183 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
39 114 0.56
40 75 0.37
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78515720 original size:37 final size:37
Alignment explanation
Indices: 78515670--78515748 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
78515660 TTATTACGAA
* * *
78515670 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
78515707 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCTG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
78515744 GTCTT
1 GTCTT
78515749 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:78515936 original size:47 final size:47
Alignment explanation
Indices: 78515867--78516367 Score: 669
Period size: 47 Copynumber: 10.4 Consensus size: 47
78515857 CCTTTCGGGA
** * * * * *
78515867 CTTATCACATTTATGCACTTTCACATTCATCACATCAGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78515914 CTTATCACACATATACACTTTCACATTCATCACGTTGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78515961 CTTATCACACATATACACTTTCACATTCATCACGTTGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78516008 CTTATCACACATATACACTTTCACATTCATCACGTTGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
78516055 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78516102 CTTATCACACATATACACTTTCACATTCATCACGTCGGGTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78516149 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78516200 CTTATCACACATATACACTTTCACATTCATCACGTCAGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
78516247 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
78516298 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
*
78516349 CTTATCACATATATACACT
1 CTTATCACACATATACACT
78516368 CTCTTGGCTG
Statistics
Matches: 417, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 270 0.65
48 2 0.00
49 21 0.05
50 2 0.00
51 122 0.29
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:78528394 original size:19 final size:18
Alignment explanation
Indices: 78528358--78528397 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78528348 TTTCCACTCG
*
78528358 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
78528376 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
78528395 TTT
1 TTT
78528398 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:78529471 original size:14 final size:14
Alignment explanation
Indices: 78529452--78529505 Score: 94
Period size: 14 Copynumber: 4.0 Consensus size: 14
78529442 CAAAACTAGC
78529452 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
78529466 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
78529480 TTTTTTTTTCA-AA
1 TTTTTTTTTCACAA
78529493 -TTTTTTTTCACAA
1 TTTTTTTTTCACAA
78529506 CTTGATATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
12 10 0.26
13 4 0.10
14 25 0.64
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:78529496 original size:26 final size:28
Alignment explanation
Indices: 78529452--78529505 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 28
78529442 CAAAACTAGC
78529452 TTTTTTTTTCACAATTTTTTTTTCACAA
1 TTTTTTTTTCACAATTTTTTTTTCACAA
78529480 TTTTTTTTTCA-AA-TTTTTTTTCACAA
1 TTTTTTTTTCACAATTTTTTTTTCACAA
78529506 CTTGATATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 13 0.50
27 2 0.08
28 11 0.42
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTTTTTCACAATTTTTTTTTCACAA
Found at i:78529561 original size:12 final size:12
Alignment explanation
Indices: 78529544--78529588 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
78529534 GGAAACTAGT
78529544 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
78529556 TTTTTTTTTTGAA
1 -TTTTTTTTCGAA
*
78529569 TTTTTTTTCGAG
1 TTTTTTTTCGAA
78529581 TTTTTTTT
1 TTTTTTTT
78529589 GAGAAACTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:78529561 original size:13 final size:13
Alignment explanation
Indices: 78529543--78529588 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
78529533 TGGAAACTAG
78529543 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
*
78529556 TTTTTTTTTTGAA
1 TTTTTTTTTCGAA
*
78529569 -TTTTTTTTCGAG
1 TTTTTTTTTCGAA
78529581 TTTTTTTT
1 TTTTTTTT
78529589 GAGAAACTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:78533823 original size:15 final size:15
Alignment explanation
Indices: 78533803--78533859 Score: 105
Period size: 15 Copynumber: 3.7 Consensus size: 15
78533793 TAGCTTCTTC
78533803 TTTTTTTTTCACGAA
1 TTTTTTTTTCACGAA
78533818 TTTTTTTTTTCACGAA
1 -TTTTTTTTTCACGAA
78533834 TTTTTTTTTCACGAA
1 TTTTTTTTTCACGAA
78533849 TTTTTTTTTCA
1 TTTTTTTTTCA
78533860 ACTTGATATC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
15 26 0.63
16 15 0.37
ACGTcount: A:0.18, C:0.12, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTTTTTCACGAA
Found at i:78533824 original size:16 final size:16
Alignment explanation
Indices: 78533803--78533857 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
78533793 TAGCTTCTTC
78533803 TTTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAT
78533819 TTTTTTTTTCACGAA-
1 TTTTTTTTTCACGAAT
78533834 TTTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAT
78533850 TTTTTTTT
1 TTTTTTTT
78533858 CAACTTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.39
16 23 0.61
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTCACGAAT
Found at i:78533916 original size:12 final size:12
Alignment explanation
Indices: 78533899--78533943 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
78533889 GGAAACCAAT
78533899 TTTTTTTTTGAA
1 TTTTTTTTTGAA
78533911 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
78533923 TTTTTTTTTGAG
1 TTTTTTTTTGAA
78533935 TTTTTTTTT
1 TTTTTTTTT
78533944 CGAGAAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:78534981 original size:21 final size:23
Alignment explanation
Indices: 78534936--78534982 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
78534926 TCACCTGCAA
* *
78534936 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
78534959 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
78534980 TAA
1 TAA
78534983 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:78540342 original size:15 final size:16
Alignment explanation
Indices: 78540321--78540362 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
78540311 TAGCTTCTTC
*
78540321 TTTTTTTTTCCCGAAA
1 TTTTTTTTTCACGAAA
78540337 TTTTTTTTTCACG-AA
1 TTTTTTTTTCACGAAA
78540352 TTTTTTTTTCA
1 TTTTTTTTTCA
78540363 ACTTGATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.17, C:0.14, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTCACGAAA
Found at i:78540417 original size:12 final size:12
Alignment explanation
Indices: 78540400--78540447 Score: 78
Period size: 12 Copynumber: 3.9 Consensus size: 12
78540390 ATGGAAACCA
78540400 AATTTTTTTTTT
1 AATTTTTTTTTT
78540412 AATTTTTTTTTT
1 AATTTTTTTTTT
*
78540424 AATTTTTTTTGTG
1 AATTTTTTTT-TT
78540437 AATTTTTTTTT
1 AATTTTTTTTT
78540448 CGAGAAACTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 23 0.68
13 11 0.32
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (12 bp):
AATTTTTTTTTT
Found at i:78540420 original size:13 final size:13
Alignment explanation
Indices: 78540402--78540447 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
78540392 GGAAACCAAA
78540402 TTTTTTTTTTAA-
1 TTTTTTTTTTAAT
78540414 TTTTTTTTTTAAT
1 TTTTTTTTTTAAT
* *
78540427 TTTTTTTGTGAAT
1 TTTTTTTTTTAAT
78540440 TTTTTTTT
1 TTTTTTTT
78540448 CGAGAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 12 0.40
13 18 0.60
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTAAT
Found at i:78542298 original size:79 final size:79
Alignment explanation
Indices: 78542167--78543036 Score: 1731
Period size: 79 Copynumber: 11.0 Consensus size: 79
78542157 CATGCTGATA
78542167 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542232 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542246 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542311 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542325 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542390 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542404 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542469 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542483 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542548 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542562 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542627 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542641 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542706 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542720 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542785 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542799 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542864 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542878 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
78542943 TGTTGTTTATGTTT
66 TGTTGTTTATGTTT
78542957 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
1 TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
*
78543022 TGTTGTTTGTGTTT
66 TGTTGTTTATGTTT
78543036 T
1 T
78543037 AATGAATAAG
Statistics
Matches: 790, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 790 1.00
ACGTcount: A:0.19, C:0.04, G:0.23, T:0.54
Consensus pattern (79 bp):
TGTGACGTATTTAGGTTCTACTATGTATTATGTGTGTATTTAAGTATGTTTTGGTATTGATTTGA
TGTTGTTTATGTTT
Found at i:78543324 original size:52 final size:52
Alignment explanation
Indices: 78543240--78543340 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
78543230 TAAGGCAACG
* *
78543240 TAATGGACAACAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAACAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
* *
78543292 TAATAGACAGCAGCTTACGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAACAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
78543341 TATGTGCATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (52 bp):
TAATAGACAACAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:78549913 original size:52 final size:52
Alignment explanation
Indices: 78549830--78549930 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
78549820 TAAGGCAACG
* *
78549830 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
78549882 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
78549931 TATGTGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:78552184 original size:49 final size:49
Alignment explanation
Indices: 78552122--78552218 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
78552112 AAACTTAATT
*
78552122 ATTATGTCTAGAATTTATCTCATTTATTTGATCTTAACTATTTAACTAG
1 ATTATGTCCAGAATTTATCTCATTTATTTGATCTTAACTATTTAACTAG
78552171 ATTATGTCCAGAATTTATCTCATTTATTTGATCTTAACTATTTAACTA
1 ATTATGTCCAGAATTTATCTCATTTATTTGATCTTAACTATTTAACTA
78552219 ACTGAATTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.48
Consensus pattern (49 bp):
ATTATGTCCAGAATTTATCTCATTTATTTGATCTTAACTATTTAACTAG
Found at i:78556564 original size:12 final size:12
Alignment explanation
Indices: 78556549--78556619 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 12
78556539 TCATTCTCAT
78556549 TTTCTTTTTCAA
1 TTTCTTTTTCAA
78556561 TTTCTTGTTTTC--
1 TTTC-T-TTTTCAA
* * *
78556573 TTTCATGTTCAT
1 TTTCTTTTTCAA
78556585 TTTCTTTTTCAA
1 TTTCTTTTTCAA
***
78556597 TTTCTTTTTGTT
1 TTTCTTTTTCAA
78556609 TTTCTTTTTCA
1 TTTCTTTTTCA
78556620 CATGCTGTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
10 4 0.09
12 35 0.78
13 1 0.02
14 5 0.11
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:78557650 original size:12 final size:12
Alignment explanation
Indices: 78557633--78557666 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
78557623 AAACAAATAC
*
78557633 AACTTTTTTTTG
1 AACTTTTTTTTA
78557645 AAC-TTTTTTTA
1 AACTTTTTTTTA
78557656 AACTTTTTTTT
1 AACTTTTTTTT
78557667 CAATTCACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.68
Consensus pattern (12 bp):
AACTTTTTTTTA
Found at i:78567206 original size:16 final size:18
Alignment explanation
Indices: 78567185--78567231 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
78567175 TTTCTCACAG
78567185 TCTTTTCTTTTTTCA-T-
1 TCTTTTCTTTTTTCACTC
78567201 TCTTTTCTTTTTTTCACTC
1 TCTTTTC-TTTTTTCACTC
78567220 TCTTTTCTTTTT
1 TCTTTTCTTTTT
78567232 CTCTCACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 6 0.21
19 7 0.25
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TCTTTTCTTTTTTCACTC
Found at i:78567214 original size:17 final size:19
Alignment explanation
Indices: 78567185--78567231 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
78567175 TTTCTCACAG
78567185 TCTTTTC-TTTTTTCA-T-
1 TCTTTTCTTTTTTTCACTC
78567201 TCTTTTCTTTTTTTCACTC
1 TCTTTTCTTTTTTTCACTC
78567220 TCTTTTCTTTTT
1 TCTTTTCTTTTT
78567232 CTCTCACTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 1 0.04
19 12 0.43
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TCTTTTCTTTTTTTCACTC
Found at i:78571506 original size:33 final size:34
Alignment explanation
Indices: 78571455--78571529 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
78571445 AGATTTAAAC
78571455 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
78571489 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
78571522 AATTTAAT
1 AAATTAAT
78571530 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:78573037 original size:12 final size:13
Alignment explanation
Indices: 78573013--78573045 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
78573003 TCATTTTCTC
78573013 TTCTTTCTTCAA-T
1 TTCTTT-TTCAATT
78573026 TTCTTTTTCAATT
1 TTCTTTTTCAATT
78573039 TTCTTTT
1 TTCTTTT
78573046 CTGTTTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (13 bp):
TTCTTTTTCAATT
Found at i:78573063 original size:31 final size:31
Alignment explanation
Indices: 78573005--78573063 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
78572995 TTTCTAACTC
* *
78573005 ATTTTCTCTTCTTTCTTCAATTTCTTTTTCA
1 ATTTTCTCTTCTGTCTTCAATTCCTTTTTCA
*
78573036 ATTTTCTTTTCTGT-TTCACATTCCTTTT
1 ATTTTCTCTTCTGTCTTCA-ATTCCTTTT
78573064 CACTCTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (31 bp):
ATTTTCTCTTCTGTCTTCAATTCCTTTTTCA
Found at i:78583312 original size:33 final size:34
Alignment explanation
Indices: 78583261--78583335 Score: 134
Period size: 33 Copynumber: 2.2 Consensus size: 34
78583251 AGATTTAAAC
78583261 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
78583295 AAATTAATT-CTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
78583328 AATTTAAT
1 AAATTAAT
78583336 AAACTAACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 31 0.77
34 9 0.22
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:78585102 original size:18 final size:18
Alignment explanation
Indices: 78585074--78585117 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
78585064 TCAATCTCTT
78585074 TTTTCTCTTTTTC-ATTCTC
1 TTTT-TCTTTTTCAATT-TC
78585093 TTTTTCTTTTTCAATTTC
1 TTTTTCTTTTTCAATTTC
78585111 TTTTTCT
1 TTTTTCT
78585118 ATGTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTTTCAATTTC
Found at i:78595183 original size:22 final size:22
Alignment explanation
Indices: 78595157--78595199 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
78595147 GTCTCCAAAG
*
78595157 CTAGGAATGTTCAAGGAAGCTT
1 CTAGGAACGTTCAAGGAAGCTT
* *
78595179 CTAGGGACGTTCTAGGAAGCT
1 CTAGGAACGTTCAAGGAAGCT
78595200 ATATGGAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (22 bp):
CTAGGAACGTTCAAGGAAGCTT
Found at i:78596358 original size:33 final size:33
Alignment explanation
Indices: 78596316--78596379 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
78596306 TCCAATTTTG
78596316 CTGTTTTGAGCAATTTCAAGAATCAAGAAAATT
1 CTGTTTTGAGCAATTTCAAGAATCAAGAAAATT
*
78596349 CTGTTTTGAGCGATTTCAAGAATCAAGAAAA
1 CTGTTTTGAGCAATTTCAAGAATCAAGAAAA
78596380 CCAAGATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
CTGTTTTGAGCAATTTCAAGAATCAAGAAAATT
Found at i:78598874 original size:18 final size:20
Alignment explanation
Indices: 78598853--78598901 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
78598843 AAAAGAAGAC
78598853 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
78598871 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
78598891 AGCAAAAAGAG
1 AG-AAAAAGAG
78598902 TTTTCGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.33
19 8 0.30
20 2 0.07
21 8 0.30
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:78600318 original size:679 final size:679
Alignment explanation
Indices: 78598990--78601019 Score: 3404
Period size: 679 Copynumber: 3.0 Consensus size: 679
78598980 AGCTAAAATC
* * *
78598990 ATGATACGAGTCACAAAGG--C-A--CAA-CTCAAGAACGTGATGGGCTCAAATTACCATAAGAC
1 ATGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGC
* * * * * * *
78599049 ACAATCACAAGGTCAAAGGCCACG-CAAATGCGTAT-GAAACTAAATGGAACCATTCAAGACTTC
66 CCAATAACGAGGTCAAAGGCCA-GACAAATGCGT-TCAAAACTAAATGGAACCATTTAAGAATTT
* * * * *
78599112 ATTAGCAAGGCCTTAGATGCGTATACAAAGGAAAAAGAAAATCAAGATTCACTTTCTAGTTTTTA
129 ATTAGCAAGGCCTTAGATGCGTACACGAAGGAAAAGGAAAATCAAGATTCACTTTCTTGTTTTCA
*
78599177 AGAAAATCAAGAAACCGAATCTTGGCCCAATTTTGGTT-TTTTGAGCGATTTCAAGAATCAAGAA
194 AGAAAATCAAGAAACCGAATCTTGGTCCAATTTT-GTTGTTTTGAGCGATTTCAAGAATCAAGAA
* * *
78599241 AATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAACTGAATCTTGCAGCTAAGGTGGATTG
258 AATCAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCGCATTG
* * * * *
78599306 GATCTCAGTTACTG-GCATCAACGAGCCAATTTTGGGAGAGAATGGATTACAAGCCCAAGTTCTT
323 GATCTCAGTTAC-GAGCATCAACGAACCAATTTCGGGAGAGAACGGATTACAAGCCCAAATGCTT
* * * * * *
78599370 AAGGATACGACCCAATAAGATGTTCCAAGCCCAACCAAGAAGTTTAAATTAGACTTCA-TTGAAA
387 GATGAAACGGCCCAATAAGATGTTCCAAGCCCAATCAAGAAATTTAAATTAGACTT-AGTTGAAA
** * **
78599434 ATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAAATACTTAGTTTTAA
451 ATCAGGCCAAATTGTCAAACAGGCCCAATTTGTTAAGCTTTAATTCTTTAAATACTTAGTTTTAA
78599499 TTTTTAGACTTTATGAATAAATTTCTATGTAAGAATTCAGTCCAAGAGGCCCATTTAAAGGCCTT
516 TTTTTAGACTTTATGAATAAATTTCTATGTAAGAATTCAGTCCAAGAGGCCCATTTAAAGGCCTT
78599564 GGACAAAATTCCATTGAAAGGCAAAAAATTTAGGGTTTTTTTAGTTTTCCTAGTAGGGATAGGAA
581 GGACAAAATTCCATTGAAAGGCAAAAAATTTAGGGTTTTTTTAGTTTTCCTAGTAGGGATAGGAA
78599629 AGTAGTTAGGAGGCCTCTATATATGGCTTGGCAG
646 AGTAGTTAGGAGGCCTCTATATATGGCTTGGCAG
78599663 ATGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGC
1 ATGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGC
78599728 CCAATAACGAGGTCAAAGGCCAGACAAATGCGTTCAAAACTAAATGGAACCATTTAAGAATTTAT
66 CCAATAACGAGGTCAAAGGCCAGACAAATGCGTTCAAAACTAAATGGAACCATTTAAGAATTTAT
78599793 TAGCAAGGCCTTAGATGCGTACACGAAGGAAAAGGAAAATCAAGATTCACTTTCTTGTTTTCAAG
131 TAGCAAGGCCTTAGATGCGTACACGAAGGAAAAGGAAAATCAAGATTCACTTTCTTGTTTTCAAG
78599858 AAAATCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAAT
196 AAAATCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAAT
*
78599923 CAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAGCCGAATCTTGCAGCTAAGGCGCATTGGAT
261 CAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCGCATTGGAT
*
78599988 CTCAGTTGCGAGCATCAACGAACCAATTTCGGGAGAGAACGGATTACAAGCCCAAATGCTTGATG
326 CTCAGTTACGAGCATCAACGAACCAATTTCGGGAGAGAACGGATTACAAGCCCAAATGCTTGATG
78600053 AAACGGCCCAATAAGATGTTCCAAGCCCAATCAAGAAATTTAAATTAGACTTAGTTGAAAATCAG
391 AAACGGCCCAATAAGATGTTCCAAGCCCAATCAAGAAATTTAAATTAGACTTAGTTGAAAATCAG
78600118 GCCAAATTGTCAAACAGGCCCAATTTGTTAAGCTTTAATTCTTTAAATACTTAGTTTTAATTTTT
456 GCCAAATTGTCAAACAGGCCCAATTTGTTAAGCTTTAATTCTTTAAATACTTAGTTTTAATTTTT
78600183 AGACTTTATGAATAAATTTCTATGTAAGAATTCAGTCCAAGAGGCCCATTTAAAGGCCTTGGACA
521 AGACTTTATGAATAAATTTCTATGTAAGAATTCAGTCCAAGAGGCCCATTTAAAGGCCTTGGACA
78600248 AAATTCCATTGAAAGGCAAAAAATTTAGGGTTTTTTTAGTTTTCCTAGTAGGGATAGGAAAGTAG
586 AAATTCCATTGAAAGGCAAAAAATTTAGGGTTTTTTTAGTTTTCCTAGTAGGGATAGGAAAGTAG
78600313 TTAGGAGGCCTCTATATATGGCTTGGCAG
651 TTAGGAGGCCTCTATATATGGCTTGGCAG
78600342 ATGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGC
1 ATGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGC
78600407 CCAATAACGAGGTCAAAGGCCAGACAAATGCGTTCAAAACTAAATGGAACCATTTAAGAATTTAT
66 CCAATAACGAGGTCAAAGGCCAGACAAATGCGTTCAAAACTAAATGGAACCATTTAAGAATTTAT
78600472 TAGCAAGGCCTTAGATGCGTACACGAAGGAAAAGGAAAATCAAGATTCACTTTCTTGTTTTCAAG
131 TAGCAAGGCCTTAGATGCGTACACGAAGGAAAAGGAAAATCAAGATTCACTTTCTTGTTTTCAAG
78600537 AAAATCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAAT
196 AAAATCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAAT
78600602 CAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCGCATTGGAT
261 CAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCGCATTGGAT
* *
78600667 CTCAGTTATGAGCATCAATGAACCAATTTCGGGAGAGAACGGATTACAAGCCCAAATGCTTGATG
326 CTCAGTTACGAGCATCAACGAACCAATTTCGGGAGAGAACGGATTACAAGCCCAAATGCTTGATG
78600732 AAACGGCCCAATAAGATGTTCCAAGCCCAATCAAGAAATTTAAATTAGACTTAGTTGAAAATCAG
391 AAACGGCCCAATAAGATGTTCCAAGCCCAATCAAGAAATTTAAATTAGACTTAGTTGAAAATCAG
78600797 GCCAAATTGTCAAACAGGCCCAATTTGTTAAGCTTTAATTCTTTAAATACTTAGTTTTAATTTTT
456 GCCAAATTGTCAAACAGGCCCAATTTGTTAAGCTTTAATTCTTTAAATACTTAGTTTTAATTTTT
* *
78600862 AGACTTTATGAATAAATTTCTATGTTAA-AATTCAGTGCAAGAGGCCCATTTAAAGTCCTTGG-C
521 AGACTTTATGAATAAATTTCTATG-TAAGAATTCAGTCCAAGAGGCCCATTTAAAGGCCTTGGAC
* * * ** * * *
78600925 TGAATTTCCCCTTGAAAGTAAAAAAAATTAGGTTTTTTTTAGTTTTCCTATTA-GGACTAGGAAA
585 -AAAATT-CCATTGAAAGGCAAAAAATTTAGGGTTTTTTTAGTTTTCCTAGTAGGGA-TAGGAAA
* * * *
78600989 ATAGTTAGAAGGCCTATATGTATGGCTTGGC
647 GTAGTTAGGAGGCCTCTATATATGGCTTGGC
78601020 CAGCCACCCT
Statistics
Matches: 1287, Mismatches: 55, Indels: 23
0.94 0.04 0.02
Matches are distributed among these distances:
673 19 0.01
675 1 0.00
676 1 0.00
678 11 0.01
679 1179 0.92
680 76 0.06
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (679 bp):
ATGATACGAGTCACAAAGGCCCAATTCAAGCTCAAGGACGTGATGGGCTCAAATTACCACAAGGC
CCAATAACGAGGTCAAAGGCCAGACAAATGCGTTCAAAACTAAATGGAACCATTTAAGAATTTAT
TAGCAAGGCCTTAGATGCGTACACGAAGGAAAAGGAAAATCAAGATTCACTTTCTTGTTTTCAAG
AAAATCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATTTCAAGAATCAAGAAAAT
CAAGATTTCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCTAAGGCGCATTGGAT
CTCAGTTACGAGCATCAACGAACCAATTTCGGGAGAGAACGGATTACAAGCCCAAATGCTTGATG
AAACGGCCCAATAAGATGTTCCAAGCCCAATCAAGAAATTTAAATTAGACTTAGTTGAAAATCAG
GCCAAATTGTCAAACAGGCCCAATTTGTTAAGCTTTAATTCTTTAAATACTTAGTTTTAATTTTT
AGACTTTATGAATAAATTTCTATGTAAGAATTCAGTCCAAGAGGCCCATTTAAAGGCCTTGGACA
AAATTCCATTGAAAGGCAAAAAATTTAGGGTTTTTTTAGTTTTCCTAGTAGGGATAGGAAAGTAG
TTAGGAGGCCTCTATATATGGCTTGGCAG
Found at i:78603706 original size:12 final size:12
Alignment explanation
Indices: 78603691--78603745 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
78603681 CTTCTCTCGA
78603691 TCTTTCTTTTCT
1 TCTTTCTTTTCT
78603703 TCTTTCTTTCTCAT
1 TCTTTCTTT-TC-T
*
78603717 T-TTTATTTTCT
1 TCTTTCTTTTCT
78603728 T-TTTCGTTTTCT
1 TCTTTC-TTTTCT
78603740 CTCTTT
1 -TCTTT
78603746 TGTTACATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 5 0.14
12 17 0.47
13 9 0.25
14 5 0.14
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.73
Consensus pattern (12 bp):
TCTTTCTTTTCT
Found at i:78603746 original size:26 final size:25
Alignment explanation
Indices: 78603678--78603732 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
78603668 GTGCTCAATT
* *
78603678 TTTCTTCTCTCGATCTTTCTTTTCTTC
1 TTTCTT-TCTC-ATTTTTATTTTCTTC
78603705 TTTCTTTCTCATTTTTATTTTCTT-
1 TTTCTTTCTCATTTTTATTTTCTTC
78603729 TTTC
1 TTTC
78603733 GTTTTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 12 0.46
26 4 0.15
27 6 0.23
ACGTcount: A:0.05, C:0.24, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTCTTTCTCATTTTTATTTTCTTC
Found at i:78618637 original size:30 final size:31
Alignment explanation
Indices: 78618602--78618664 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
78618592 TTTCAGTTAC
* *
78618602 AATTAAAGGGGCTGTT-ATAAAGGGAGCTTA
1 AATTAAAGGGGCTGTTAAAAAAAGGAGCTTA
78618632 AATTAAAGGGGCTGTTAAAAAAAGGAGCTTA
1 AATTAAAGGGGCTGTTAAAAAAAGGAGCTTA
78618663 AA
1 AA
78618665 GATCATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.43, C:0.06, G:0.27, T:0.24
Consensus pattern (31 bp):
AATTAAAGGGGCTGTTAAAAAAAGGAGCTTA
Found at i:78619220 original size:46 final size:46
Alignment explanation
Indices: 78619168--78619261 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
78619158 ATAGTGTGGC
*
78619168 GTTCATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAG
78619214 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
78619260 GT
1 GT
78619262 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:78620481 original size:14 final size:15
Alignment explanation
Indices: 78620430--78620484 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
78620420 GCTTTCGTCA
*
78620430 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
78620445 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
**
78620460 TTGGTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
78620474 TTCTTTT-TCTC
1 TTCTTTTCTCTC
78620485 GCTCAATGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.73
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:78623773 original size:16 final size:16
Alignment explanation
Indices: 78623752--78623782 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78623742 AAATCGGCTA
*
78623752 AGACAAATTTATTAGG
1 AGACAAATTAATTAGG
78623768 AGACAAATTAATTAG
1 AGACAAATTAATTAG
78623783 CAGCTCCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (16 bp):
AGACAAATTAATTAGG
Found at i:78632096 original size:56 final size:56
Alignment explanation
Indices: 78632031--78632150 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
78632021 ACAAGGGATG
78632031 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
78632087 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
78632143 ATGGGCAA
1 ATGGGCAA
78632151 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:78633364 original size:40 final size:39
Alignment explanation
Indices: 78633280--78633504 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 39
78633270 TCGAATGATG
* * *
78633280 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
78633320 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
78633360 TCCGGGCTAAGCCCGGAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
* * *
78633399 TCCGGGTTAAGTCCCGAAGGCATTTGTGGGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGATACTAAA
*
78633439 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGATACTATAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTA-AA
78633480 -CCGGGCTATA-TCCTGAAGGCATTTG
1 TCCGGGCTA-AGTCC-GAAGGCATTTG
78633505 AATGAGTAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.23
40 107 0.68
41 14 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Done.