Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 296 of 373
Found at i:100362380 original size:28 final size:28
Alignment explanation
Indices: 100362337--100362521 Score: 228
Period size: 28 Copynumber: 6.6 Consensus size: 28
100362327 TTTCAATGTC
* * * *
100362337 TCGCACACTAAATGCCGTACTCGATACC
1 TCGCACACTAAGTGCCATCCTCGATACT
* *
100362365 TCGCACACTAAGTGCCATTCTGGATGA-T
1 TCGCACACTAAGTGCCATCCTCGAT-ACT
* *
100362393 TTGCACACTAAGTTCCATCCTCGATACT
1 TCGCACACTAAGTGCCATCCTCGATACT
* * * **
100362421 TAGCACACTAAGTGCCATTCTGGATGTT
1 TCGCACACTAAGTGCCATCCTCGATACT
100362449 TCGCACACTAAGTGCCATCCTCGATACT
1 TCGCACACTAAGTGCCATCCTCGATACT
*
100362477 TCACACACTAAGTGCCATCCTCGATACT
1 TCGCACACTAAGTGCCATCCTCGATACT
100362505 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
100362522 CATTTAGCCG
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
27 1 0.01
28 131 0.98
29 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTCGATACT
Found at i:100366818 original size:26 final size:26
Alignment explanation
Indices: 100366676--100366870 Score: 113
Period size: 26 Copynumber: 7.5 Consensus size: 26
100366666 GTATATAGTA
**
100366676 CCTGCTAAATAGCCACCGGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
** * *
100366702 CCTGCTAAATAAACACTAGCTAAAAA
1 CCTGCTAAATAAACACCGGCTCAAAG
* * *
100366728 CCTACTAAATAAACATCAGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
* * *
100366754 CCTG-TGAAATAAGCATCGGCTCATAG
1 CCTGCT-AAATAAACACCGGCTCAAAG
* * * * *
100366780 CTTGCTTAGTAATCACCTGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
* **** * * *
100366806 CTTGCTAAATAATTGTCAGCTTAAAA
1 CCTGCTAAATAAACACCGGCTCAAAG
* * * *
100366832 CCTACTAAACAATCACTGGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
100366858 CCTGCTAAATAAA
1 CCTGCTAAATAAA
100366871 TATCAGCTTA
Statistics
Matches: 124, Mismatches: 43, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
25 1 0.01
26 122 0.98
27 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (26 bp):
CCTGCTAAATAAACACCGGCTCAAAG
Found at i:100371807 original size:41 final size:41
Alignment explanation
Indices: 100371709--100371791 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
100371699 TAGCATAATA
100371709 AAGCAAACATCAAAATAGTGAGACTTTTGCTTTATAACCAT
1 AAGCAAACATCAAAATAGTGAGACTTTTGCTTTATAACCAT
100371750 AAGCAAACATCAAAATAGTGAGACTTTTGCTTTATAACCAT
1 AAGCAAACATCAAAATAGTGAGACTTTTGCTTTATAACCAT
100371791 A
1 A
100371792 CTTATAACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (41 bp):
AAGCAAACATCAAAATAGTGAGACTTTTGCTTTATAACCAT
Found at i:100373105 original size:22 final size:21
Alignment explanation
Indices: 100373058--100373110 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
100373048 TGTTAGTTTC
*
100373058 TTAATGTTTTAACCTTTAATA
1 TTAATATTTTAACCTTTAATA
* * *
100373079 ATAATATTTTAACATTTTATTA
1 TTAATATTTTAAC-CTTTAATA
100373101 TTAATTATTT
1 TTAA-TATTT
100373111 AATTAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 11 0.44
22 9 0.36
23 5 0.20
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATATTTTAACCTTTAATA
Found at i:100377518 original size:32 final size:32
Alignment explanation
Indices: 100377459--100377662 Score: 214
Period size: 32 Copynumber: 6.3 Consensus size: 32
100377449 ATGGACCTTT
* * * * **
100377459 CCTTTTCTAGTTGTACACTCGAGGTGTACATTC
1 CCTTTTCAAG-TGTACACACAAAGTGTACATAA
* *
100377492 CCTTTTTAA-TGGTACACATAAAGTGTACA-AGA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATA-A
*
100377524 CCTTTTCAAGTGTACACAAAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
100377556 CCTTTTCAAGTGTACACACAAAGTGTATATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * *
100377588 CCTTTTCAATTATACACACAAAGTGTACATAG
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * *
100377620 CCATTTCAGGAGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
100377652 TCTTTTCAAGT
1 CCTTTTCAAGT
100377663 ATCATCCTTT
Statistics
Matches: 141, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
31 1 0.01
32 131 0.93
33 9 0.06
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:100385151 original size:32 final size:32
Alignment explanation
Indices: 100385092--100385199 Score: 137
Period size: 32 Copynumber: 3.3 Consensus size: 32
100385082 GTGGACCTTT
* * * * **
100385092 CCTTTTCCAGTTGTACACCCGAGGTGTACATTC
1 CCTTTTCAAG-TGTACACACAAAGTGTACATAA
100385125 CCTTTTCAA-TGGTACACACAAAGTGTACATAA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
100385157 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
100385189 CCTTTTCAAGT
1 CCTTTTCAAGT
100385200 ACCACCCTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.01
32 57 0.85
33 9 0.13
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:100387279 original size:19 final size:19
Alignment explanation
Indices: 100387255--100387297 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
100387245 GCAGATTGTA
*
100387255 CACACCGGTGTGGAAATCT
1 CACACCCGTGTGGAAATCT
100387274 CACACCCGTGTGGAAATCT
1 CACACCCGTGTGGAAATCT
100387293 CACAC
1 CACAC
100387298 ACTCGTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (19 bp):
CACACCCGTGTGGAAATCT
Found at i:100387298 original size:21 final size:20
Alignment explanation
Indices: 100387253--100387305 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
100387243 AGGCAGATTG
*
100387253 TACACACCGGTGTGGAAATC
1 TACACACCCGTGTGGAAATC
100387273 T-CACACCCGTGTGGAAATC
1 TACACACCCGTGTGGAAATC
*
100387292 TCACACACTCGTGT
1 T-ACACACCCGTGT
100387306 ATGATAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 18 0.62
20 1 0.03
21 10 0.34
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (20 bp):
TACACACCCGTGTGGAAATC
Found at i:100404212 original size:3 final size:3
Alignment explanation
Indices: 100404204--100404239 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100404194 TAATTATGTA
100404204 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100404240 GAAAGAAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100405502 original size:20 final size:20
Alignment explanation
Indices: 100405479--100405519 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
100405469 TTAATAAAAT
*
100405479 TTAAATATTTTAT-ATTTTTA
1 TTAAA-ATTTAATAATTTTTA
100405499 TTAAAATTTAATAATTTTTA
1 TTAAAATTTAATAATTTTTA
100405519 T
1 T
100405520 AACTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAAATTTAATAATTTTTA
Found at i:100405518 original size:10 final size:9
Alignment explanation
Indices: 100405395--100405552 Score: 56
Period size: 9 Copynumber: 16.7 Consensus size: 9
100405385 TTTTTTATGC
100405395 ATTTTT-TA
1 ATTTTTATA
*
100405403 ATTTTTTATG
1 A-TTTTTATA
100405413 ATTTTTATAA
1 ATTTTTAT-A
* * *
100405423 AATTCTACA
1 ATTTTTATA
100405432 ATATTTTATA
1 AT-TTTTATA
*
100405442 ATTTTTTTACA
1 A--TTTTTATA
*
100405453 ATTTTCATTCTA
1 A-TTT--TTATA
100405465 ATTTTTAATA
1 ATTTTT-ATA
**
100405475 AAATTTA-A
1 ATTTTTATA
100405483 ATATTTTAT-
1 AT-TTTTATA
100405492 ATTTTTATTAA
1 ATTTTTA-T-A
* *
100405503 AATTTAATA
1 ATTTTTATA
100405512 ATTTTTATA
1 ATTTTTATA
* *
100405521 ACTTTTATTG
1 ATTTTTA-TA
100405531 ATTTTTAT-
1 ATTTTTATA
100405539 -TTTTTATA
1 ATTTTTATA
100405547 ATTTTT
1 ATTTTT
100405553 TGCCACATGT
Statistics
Matches: 110, Mismatches: 23, Indels: 33
0.66 0.14 0.20
Matches are distributed among these distances:
7 7 0.06
8 8 0.07
9 44 0.40
10 31 0.28
11 15 0.14
12 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:100405847 original size:83 final size:85
Alignment explanation
Indices: 100405656--100405873 Score: 237
Period size: 83 Copynumber: 2.6 Consensus size: 85
100405646 GCCAAAGAGC
* * *
100405656 CTTTTTGATGCATTTTACAGTTCAAGTATCTAATTGAGTGAAAAAAATTCAGTGGCTTAATTATT
1 CTTTTTGATGCATTTTAAAGTTCAAGTATCCAATTGAGTGCAAAAAA-T-AGTGGCTTAATTATT
100405721 TTTTTTCAAAAAGTTTGAGGGT
64 TTTTTTCAAAAAGTTTGAGGGT
* * * * * * *
100405743 CTTTCTAATGCGTTTTGAAAGTTTAAATACCCAATTGAGTGCAAAAAA-A-TGGCTTAATTGTTT
1 CTTTTTGATGCATTTT-AAAGTTCAAGTATCCAATTGAGTGCAAAAAATAGTGGCTTAATTATTT
***
100405806 TTTTT-TTTAAGTTTGAGGG-
65 TTTTTCAAAAAGTTTGAGGGT
*
100405825 CATTTTTGATGCATTTTAAAAGTTCAAGTATCCAATTAAGTGCAAAAAA
1 C-TTTTTGATGCATTTT-AAAGTTCAAGTATCCAATTGAGTGCAAAAAA
100405874 GAAGAAGAAG
Statistics
Matches: 108, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
82 1 0.01
83 50 0.46
84 18 0.17
85 1 0.01
87 13 0.12
88 25 0.23
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (85 bp):
CTTTTTGATGCATTTTAAAGTTCAAGTATCCAATTGAGTGCAAAAAATAGTGGCTTAATTATTTT
TTTTCAAAAAGTTTGAGGGT
Found at i:100406596 original size:40 final size:40
Alignment explanation
Indices: 100406541--100406621 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
100406531 TATCAAATAA
100406541 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
1 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
100406581 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
1 AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
100406621 A
1 A
100406622 TTCTCTCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.32
Consensus pattern (40 bp):
AAGAGTTTGTGAGCTGCCTGTGGTGCTTGCATCTAGCATC
Found at i:100407339 original size:178 final size:175
Alignment explanation
Indices: 100407021--100407375 Score: 620
Period size: 178 Copynumber: 2.0 Consensus size: 175
100407011 CAATTACCCG
100407021 TCCCAATAGCTACCCCACCCAATGATTATTTAAATAGCCATTGAAACCCCCACTAATAGCTCTTT
1 TCCCAATAGCTACCCCACCCAATGATTATTTAAATAGCCATTGAAACCCCCACTAATAGCTCTTT
*
100407086 TTATATATATAAAAACCCCTAATTCTTTTCTTTTTTTTCGATTCAATCTCAACTATCTATGTCTC
66 TTATATATATAAAAACCCCTAATTCTTTTCTTTTTTTTCAATTCAATCTCAACTATCTATGTCTC
100407151 ATATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
131 ATATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
* *
100407196 TCCCAATAGCTACCCCACCCAATGGTTATTTAAATAGCTATTGAAACCTCCCACTAATAGCTCTT
1 TCCCAATAGCTACCCCACCCAATGATTATTTAAATAGCCATTGAAACC-CCCACTAATAGCTCTT
* * * *
100407261 TTTTTTTCTATATAAACCCCTAATTCTTTTCTTTTTTTTTTCAATTCAATCTCAACTATCTATGT
65 TTTATATATATAAAAACCCCTAATTCTTTTC--TTTTTTTTCAATTCAATCTCAACTATCTATGT
100407326 CTCATATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
128 CTCATATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
100407374 TC
1 TC
100407376 TCACTCAATT
Statistics
Matches: 170, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
175 46 0.27
176 43 0.25
178 81 0.48
ACGTcount: A:0.28, C:0.27, G:0.04, T:0.41
Consensus pattern (175 bp):
TCCCAATAGCTACCCCACCCAATGATTATTTAAATAGCCATTGAAACCCCCACTAATAGCTCTTT
TTATATATATAAAAACCCCTAATTCTTTTCTTTTTTTTCAATTCAATCTCAACTATCTATGTCTC
ATATTCACAAATCTCTCTCAAATTTCTCTCAATTCCTTCTTAATT
Found at i:100407407 original size:20 final size:20
Alignment explanation
Indices: 100407352--100407408 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
100407342 TCTCTCAAAT
* * * *
100407352 TTCTCTCAATTCCTTCTTAA
1 TTCTCTCAACTCATTTTTTA
*
100407372 TT-TCTC-ACTCAATTTTTA
1 TTCTCTCAACTCATTTTTTA
100407390 TTCTCTCAACTCATTTTTT
1 TTCTCTCAACTCATTTTTT
100407409 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 9 0.31
19 8 0.28
20 12 0.41
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.54
Consensus pattern (20 bp):
TTCTCTCAACTCATTTTTTA
Found at i:100409021 original size:26 final size:23
Alignment explanation
Indices: 100408979--100409038 Score: 59
Period size: 26 Copynumber: 2.5 Consensus size: 23
100408969 TTTGGTTCTC
*
100408979 GATTTTTATATTGATTTTGGAATAT
1 GATTTTTAGATTGATTTT--AATAT
100409004 AGATTTTTAGACTT-ATTTTAATAT
1 -GATTTTTAGA-TTGATTTTAATAT
*
100409028 GACTTTTAGAT
1 GATTTTTAGAT
100409039 ATTATTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 1 0.03
23 9 0.29
24 5 0.16
26 14 0.45
27 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (23 bp):
GATTTTTAGATTGATTTTAATAT
Found at i:100409043 original size:24 final size:24
Alignment explanation
Indices: 100408999--100409045 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
100408989 TTGATTTTGG
* *
100408999 AATATAGATTTTTAGACTTATTTT
1 AATATAGACTTTTAGAATTATTTT
100409023 AATAT-GACTTTTAGATATTATTT
1 AATATAGACTTTTAGA-ATTATTT
100409046 GGTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (24 bp):
AATATAGACTTTTAGAATTATTTT
Found at i:100409831 original size:22 final size:22
Alignment explanation
Indices: 100409791--100409843 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
100409781 TTTAAAAAAA
* *
100409791 TTATATAATTTTTATATATTTTCT
1 TTATA-AAATTTTAAATATTTT-T
100409815 TT-TAAAATTTTAAATATTTTT
1 TTATAAAATTTTAAATATTTTT
100409836 TTATAAAA
1 TTATAAAA
100409844 AATAGATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 19 0.73
23 2 0.08
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATAAAATTTTAAATATTTTT
Found at i:100409834 original size:32 final size:30
Alignment explanation
Indices: 100409759--100409836 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 30
100409749 ATAACACTAT
100409759 TTTTATATAATTTTTATATTTTTTTAAAAA
1 TTTTATATAATTTTTATATTTTTTTAAAAA
** *
100409789 AATTATATAATTTTTATATATTTTCTTTTAAAA
1 TTTTATATAA-TTTT-TATATTTT-TTTAAAAA
* *
100409822 TTTTAAATATTTTTT
1 TTTTATATAATTTTT
100409837 TATAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 8 0.21
31 5 0.13
32 12 0.32
33 13 0.34
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTATATAATTTTTATATTTTTTTAAAAA
Found at i:100412499 original size:16 final size:16
Alignment explanation
Indices: 100412478--100412511 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
100412468 GGTTAGAGAT
100412478 CATTGGAGCATCATCA
1 CATTGGAGCATCATCA
100412494 CATTGGAGCATCATCA
1 CATTGGAGCATCATCA
100412510 CA
1 CA
100412512 CTATCCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (16 bp):
CATTGGAGCATCATCA
Found at i:100415650 original size:93 final size:93
Alignment explanation
Indices: 100415538--100415709 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
100415528 GCCCATAAGT
*
100415538 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
100415602 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
100415631 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
100415696 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
100415710 CAAACATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:100415705 original size:46 final size:45
Alignment explanation
Indices: 100415530--100415704 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
100415520 TGTAACCCGC
*
100415530 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
100415576 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
100415622 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
* *
100415669 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
100415705 ATGCCCAAAC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.61
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:100415724 original size:46 final size:46
Alignment explanation
Indices: 100415535--100415724 Score: 140
Period size: 46 Copynumber: 4.1 Consensus size: 46
100415525 CCCGCCCATA
* * * * * *
100415535 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCT
* *
100415581 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
100415630 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
100415674 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
100415720 AGTGA
1 AGTGA
100415725 CATATCACTT
Statistics
Matches: 113, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
44 11 0.10
45 2 0.02
46 65 0.58
47 31 0.27
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:100418139 original size:30 final size:30
Alignment explanation
Indices: 100418095--100418183 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
100418085 CAAAGATAAC
*
100418095 AAGAAAACC-GAATAAATAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
100418124 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
100418154 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
100418184 TGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:100418149 original size:15 final size:15
Alignment explanation
Indices: 100418095--100418174 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
100418085 CAAAGATAAC
*
100418095 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
100418109 AATAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
100418124 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
100418139 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
100418154 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
100418169 AAGAAA
1 AAGAAA
100418175 CCCAAGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 8 0.15
15 44 0.83
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:100418183 original size:15 final size:15
Alignment explanation
Indices: 100418106--100418183 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
100418096 AGAAAACCGA
*
100418106 ATAAATAAATCCAAG
1 ATAAAGAAATCCAAG
* *
100418121 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
100418135 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
100418150 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
100418166 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
100418181 ATA
1 ATA
100418184 TGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 4 0.08
15 44 0.86
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:100421240 original size:93 final size:93
Alignment explanation
Indices: 100421128--100421299 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
100421118 GCCCATAAGT
* *
100421128 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
100421192 ACGA-TCTCGGATGCCTAGTTACATCTCTC
65 ACGAGT-TCGGATGCCTAGTTACATCTCTC
*
100421221 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100421286 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
100421300 CAAACATCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 2 0.03
93 71 0.96
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:100421295 original size:46 final size:45
Alignment explanation
Indices: 100421120--100421294 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
100421110 TGTAACCCGC
* *
100421120 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
*
100421166 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGCATTCGC-A--T
* *** *
100421212 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
100421259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
100421295 ATGCCCAAAC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.60
47 30 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:100421314 original size:46 final size:46
Alignment explanation
Indices: 100421125--100421314 Score: 133
Period size: 46 Copynumber: 4.1 Consensus size: 46
100421115 CCCGCCCATA
* * * * * *
100421125 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCT
*
100421171 AGTGAACTCGGACTCAACTCAACGA-TCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGT-TCGGATGCCCA--TACATC-CT
* * * * * *
100421220 --CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
100421264 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
100421310 AGTGA
1 AGTGA
100421315 CATGTCACTT
Statistics
Matches: 110, Mismatches: 21, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
44 11 0.10
45 2 0.02
46 63 0.57
47 29 0.26
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:100424193 original size:44 final size:44
Alignment explanation
Indices: 100424143--100424227 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
100424133 ACATGTAACA
100424143 CATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATGCTCG
* *
100424187 CATCCATAATGAACTCGGACCAACTCAATGAGCTCGGATGC
1 CATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATGC
100424228 CTCATACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.19
Consensus pattern (44 bp):
CATCCATAATGAACTCGAACCAACTCAACGAGCTCGGATGCTCG
Found at i:100431642 original size:13 final size:13
Alignment explanation
Indices: 100431624--100431657 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
100431614 GGGAGCACAC
100431624 GGCCGTGTTGCAT
1 GGCCGTGTTGCAT
100431637 GGCCGTGTTGCAT
1 GGCCGTGTTGCAT
100431650 GGCCGTGT
1 GGCCGTGT
100431658 CTTGCTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.24, G:0.41, T:0.29
Consensus pattern (13 bp):
GGCCGTGTTGCAT
Found at i:100450324 original size:7 final size:7
Alignment explanation
Indices: 100450312--100450366 Score: 92
Period size: 7 Copynumber: 7.9 Consensus size: 7
100450302 CACATTTCTA
100450312 CTCATCC
1 CTCATCC
100450319 CTCATCC
1 CTCATCC
100450326 CTCATCC
1 CTCATCC
100450333 CTCATCC
1 CTCATCC
100450340 CTCATCC
1 CTCATCC
100450347 CTCATCC
1 CTCATCC
*
100450354 TTCATCC
1 CTCATCC
*
100450361 TTCATC
1 CTCATC
100450367 ATTCTCTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.15, C:0.53, G:0.00, T:0.33
Consensus pattern (7 bp):
CTCATCC
Found at i:100464899 original size:27 final size:27
Alignment explanation
Indices: 100464869--100465046 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
100464859 ATATTGAGTC
* * * *
100464869 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
100464896 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
100464923 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
100464951 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
100464978 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
100465005 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
100465032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100465047 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:100465008 original size:82 final size:81
Alignment explanation
Indices: 100464890--100465045 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
100464880 TGCTATATAA
* *
100464890 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
100464955 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
100464972 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
100465036 CACTTAGTGC
65 CACTTAGTGC
100465046 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:100472830 original size:49 final size:49
Alignment explanation
Indices: 100472729--100472822 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
100472719 TGTTATCAGA
* *
100472729 CAACCCAGGGGGGTAGAATGTACATATCCTAGTAGTCATCATTGTCGAG
1 CAACCCAGGGGGATAGAATCTACATATCCTAGTAGTCATCATTGTCGAG
* * * * *
100472778 CAACCCAGGGTGATAGTATCTACATGTTCTAGTAGTCATCGTTGT
1 CAACCCAGGGGGATAGAATCTACATATCCTAGTAGTCATCATTGT
100472823 TGGGCAACTC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (49 bp):
CAACCCAGGGGGATAGAATCTACATATCCTAGTAGTCATCATTGTCGAG
Found at i:100479491 original size:40 final size:39
Alignment explanation
Indices: 100479374--100479503 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
100479364 ATTTGATATG
* * * * **
100479374 ACACTAAGTGCCATACATATCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATA-GCAAAGCTATGTCGTATCGC
*
100479414 ACACTAAGTCCCATATATAGCAAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCAAAGCTATGTCGTATCGC
* * *
100479453 ACACTAAGTGTCATGTATAGCTGAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGC-AAAGCTATGTCGTATCGC
100479493 ACACTAAGTGC
1 ACACTAAGTGC
100479504 TACAAATAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 33 0.43
40 44 0.57
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (39 bp):
ACACTAAGTGCCATATATAGCAAAGCTATGTCGTATCGC
Found at i:100480920 original size:43 final size:41
Alignment explanation
Indices: 100480873--100481010 Score: 105
Period size: 43 Copynumber: 3.2 Consensus size: 41
100480863 ATACACAATT
* *
100480873 CATCATCGGACAAGCCGAAACAATTGTACTAGCACGCTTAGTG
1 CATCATCGGACAAGCCGAAAAAATTATACT-GCAC-CTTAGTG
* * * * * **
100480916 CATCATTGGAATAAACCGAAAAAAATATACTGGTACACAAAGTG
1 CATCATCGG-ACAAGCCGAAAAAATTATACT-GCAC-CTTAGTG
* * *
100480960 CATCATCGGACAAGCTGAAATAATTATACTGACACATATAGTG
1 CATCATCGGACAAGCCGAAAAAATTATACTG-CACCT-TAGTG
100481003 CATCATCG
1 CATCATCG
100481011 AAAACTCCAC
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
42 1 0.01
43 38 0.54
44 32 0.45
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (41 bp):
CATCATCGGACAAGCCGAAAAAATTATACTGCACCTTAGTG
Found at i:100484551 original size:34 final size:34
Alignment explanation
Indices: 100484508--100484576 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
100484498 AAATTTATCT
* *
100484508 TGGTCTTGATGAACATCCATTTAATAATAAAATA
1 TGGTCTTGATGAACATCCACTTAACAATAAAATA
100484542 TGGTCTTGATGAACATCCACTTAACAATAAAATA
1 TGGTCTTGATGAACATCCACTTAACAATAAAATA
100484576 T
1 T
100484577 TCATAATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (34 bp):
TGGTCTTGATGAACATCCACTTAACAATAAAATA
Found at i:100487985 original size:44 final size:43
Alignment explanation
Indices: 100487901--100487987 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 43
100487891 ATTTGAACTA
* *
100487901 GTAAACTTTTAGTTTACTATGCACGTGATTTAACATTACTAAT
1 GTAAACTTCTAGTTTACAATGCACGTGATTTAACATTACTAAT
* *
100487944 GTAAACTTCTGGTTTACAATCGCATGTGATTTAACCA-TACTAAT
1 GTAAACTTCTAGTTTACAAT-GCACGTGATTTAA-CATTACTAAT
100487988 ATATTGATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 17 0.45
44 19 0.50
45 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (43 bp):
GTAAACTTCTAGTTTACAATGCACGTGATTTAACATTACTAAT
Found at i:100488880 original size:21 final size:22
Alignment explanation
Indices: 100488844--100488887 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
100488834 AATAAATATT
*
100488844 AATTAATTAATTTAATTAGATA
1 AATTAATTAATTTAATTAAATA
*
100488866 AATTAATT-TTTTAATTAAATA
1 AATTAATTAATTTAATTAAATA
100488887 A
1 A
100488888 TTTTCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTAATTAATTTAATTAAATA
Found at i:100489018 original size:24 final size:24
Alignment explanation
Indices: 100488991--100489039 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
100488981 ATTCACAATG
100488991 ACTAATTAATTTAATTCTATTTTC
1 ACTAATTAATTTAATTCTATTTTC
100489015 ACTAATTAATTTAATTCTATTTTC
1 ACTAATTAATTTAATTCTATTTTC
100489039 A
1 A
100489040 AACTTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (24 bp):
ACTAATTAATTTAATTCTATTTTC
Found at i:100490283 original size:22 final size:22
Alignment explanation
Indices: 100490253--100490306 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
100490243 TTTAGGGTCG
* *
100490253 ACGTTGTGACATCACCTCCTTC
1 ACGTCGTGACATCACCTCCTCC
**
100490275 ACGTCGTGATGTCACCTCCTCC
1 ACGTCGTGACATCACCTCCTCC
100490297 ACGTCGTGAC
1 ACGTCGTGAC
100490307 GCTGCCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.17, C:0.37, G:0.19, T:0.28
Consensus pattern (22 bp):
ACGTCGTGACATCACCTCCTCC
Found at i:100498367 original size:20 final size:21
Alignment explanation
Indices: 100498324--100498368 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
100498314 ATATTCTGAT
* *
100498324 ACATATCAATCACATATAAGC
1 ACATATCAATCACATACAACC
*
100498345 ACATAT-AATTACATACAACC
1 ACATATCAATCACATACAACC
100498365 ACAT
1 ACAT
100498369 TTAGTCATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
ACATATCAATCACATACAACC
Found at i:100498401 original size:13 final size:13
Alignment explanation
Indices: 100498383--100498409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100498373 TCATAGTGTA
100498383 TGATAATTTGGCT
1 TGATAATTTGGCT
100498396 TGATAATTTGGCT
1 TGATAATTTGGCT
100498409 T
1 T
100498410 TTGAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TGATAATTTGGCT
Found at i:100501953 original size:27 final size:27
Alignment explanation
Indices: 100501905--100502063 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
100501895 GCGAGGTTGC
* * *
100501905 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
100501932 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
100501958 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
100501985 CAGATAATTGTGGCATAGCCACTAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
100502012 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
100502039 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
100502064 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:100502066 original size:54 final size:54
Alignment explanation
Indices: 100501905--100502066 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
100501895 GCGAGGTTGC
* * * * *
100501905 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
100501958 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACTAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
100502012 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
100502066 C
1 C
100502067 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 88 0.88
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:100503690 original size:26 final size:26
Alignment explanation
Indices: 100503659--100503766 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
100503649 TGAAATGCCC
*
100503659 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
100503685 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
100503711 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
100503737 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100503763 ATCA
1 ATCA
100503767 ATTTATACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100511987 original size:2 final size:2
Alignment explanation
Indices: 100511980--100512011 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
100511970 TAAAAATCTC
100511980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100512012 TCATGCCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100516862 original size:40 final size:40
Alignment explanation
Indices: 100516811--100517005 Score: 338
Period size: 40 Copynumber: 4.9 Consensus size: 40
100516801 AGATATAGCT
*
100516811 ACTCGCTCAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
100516851 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
*
100516891 ACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
100516931 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
*
100516971 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTAT
100517006 CAATCCAAAT
Statistics
Matches: 149, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
39 13 0.09
40 136 0.91
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:100516921 original size:80 final size:80
Alignment explanation
Indices: 100516785--100517005 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
100516775 AAACCAAGTA
** * *
100516785 CCTTCGGGGTTTAG-CCAGATATAGCT-ACTCGCTCAATTGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATA
*
100516848 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* *
100516864 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAG
100516929 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
100516944 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTAT
100517006 CAATCCAAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 26 0.20
80 104 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:100534589 original size:23 final size:23
Alignment explanation
Indices: 100534563--100534607 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
100534553 TGGGTATGAG
*
100534563 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
100534586 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
100534608 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:100540238 original size:17 final size:17
Alignment explanation
Indices: 100540216--100540255 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
100540206 GTAATTTTTA
100540216 CTTACTAAGC-ATATGAG
1 CTTACTAAGCTATAT-AG
*
100540233 CTTACTAAGCTTTATAG
1 CTTACTAAGCTATATAG
100540250 CTTACT
1 CTTACT
100540256 CTGTTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (17 bp):
CTTACTAAGCTATATAG
Found at i:100542837 original size:17 final size:17
Alignment explanation
Indices: 100542801--100542849 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
100542791 AAATAAGGAA
* * *
100542801 AAAATTAATAATGAATT
1 AAAATTAAAAATAAAGT
*
100542818 AAAATTAAAATTAAAGT
1 AAAATTAAAAATAAAGT
*
100542835 AAATTTAAAAATAAA
1 AAAATTAAAAATAAA
100542850 CAAATCTCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
AAAATTAAAAATAAAGT
Found at i:100543336 original size:2 final size:2
Alignment explanation
Indices: 100543329--100543355 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100543319 TACTCTTATC
100543329 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
100543356 ACAAAGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100544741 original size:15 final size:15
Alignment explanation
Indices: 100544721--100544777 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
100544711 ATTCAATATT
100544721 AATATTTTAATAATA
1 AATATTTTAATAATA
*
100544736 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
100544755 AATATATTAATAATA
1 AATATTTTAATAATA
*
100544770 AATGTTTT
1 AATATTTT
100544778 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:100564069 original size:20 final size:21
Alignment explanation
Indices: 100564030--100564069 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100564020 GTCAAAATCA
*
100564030 CCACACGGGGGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
100564051 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
100564070 GTTTTAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.33, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:100573009 original size:113 final size:113
Alignment explanation
Indices: 100572811--100573037 Score: 352
Period size: 113 Copynumber: 2.0 Consensus size: 113
100572801 AAAAGGCAAC
* * *
100572811 TTCTCTATCCTTGCTAGGCAGTATGACACTATTTCAATATTTTTTATCTACTATTACTTATTATA
1 TTCTCTACCCTTGCTAGGCAGTATGACACTAATTCAATATTTTTTATCTACTAGTACTTATTATA
100572876 CTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
66 CTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
* *
100572924 TTCTCTACCCTTG-TCAGGCCGTATGACACTAATTCAATATTTTTTGT-TGACTAGTA-TGTATT
1 TTCTCTACCCTTGCT-AGGCAGTATGACACTAATTCAATATTTTTTATCT-ACTAGTACT-TATT
*
100572986 ATACTATGGAAACTATTTTGCTTCCTTTGAGTTGTTGTAATCACATTAAAA
63 ATACTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
100573037 T
1 T
100573038 GGTCTAACAT
Statistics
Matches: 105, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
112 3 0.03
113 102 0.97
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (113 bp):
TTCTCTACCCTTGCTAGGCAGTATGACACTAATTCAATATTTTTTATCTACTAGTACTTATTATA
CTATGGAAACTATTTTGCTTCCTTTGAGTTGTTATAATCACATTAAAA
Found at i:100588628 original size:48 final size:49
Alignment explanation
Indices: 100588555--100588662 Score: 173
Period size: 48 Copynumber: 2.2 Consensus size: 49
100588545 TACAAGATAA
* *
100588555 ATATATATATGTGTCGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTG-CGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
100588605 ATATGTATATGTG-GTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGCGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
100588653 ATGTGTATAT
1 ATATGTATAT
100588663 ATTGTGGTCG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 43 0.78
50 12 0.22
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.33
Consensus pattern (49 bp):
ATATGTATATGTGCGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:100588850 original size:37 final size:37
Alignment explanation
Indices: 100588796--100588867 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
100588786 GAAATATATT
*
100588796 CCGGGTAAGACCTGATGACTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
100588833 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
100588868 TTGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:100591433 original size:53 final size:54
Alignment explanation
Indices: 100591361--100591567 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
100591351 TTCCTTTTTA
* *
100591361 AACTTACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
100591414 AACTCACCATTGCCGTGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
100591468 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
100591523 AACTTACCAATGCCATGCCTTGGCAAGGCCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
100591568 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 40 0.33
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:100598558 original size:6 final size:6
Alignment explanation
Indices: 100598488--100598540 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
100598478 TTAATTTAAT
100598488 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
100598536 TTTTT
1 TTTTT
100598541 CTAGTCATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:100600128 original size:6 final size:6
Alignment explanation
Indices: 100600093--100600137 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
100600083 TGTCTTTTCT
* * *
100600093 TTTTTA GTTTTA GTTTTA TTTTTA TTTTTA TGTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
100600138 CTTAGACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:100604271 original size:11 final size:12
Alignment explanation
Indices: 100604255--100604287 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
100604245 TGCTGAAGAC
100604255 ATTAAAATAA-A
1 ATTAAAATAATA
100604266 ATTAAAATAATA
1 ATTAAAATAATA
100604278 A-TAAAATAAT
1 ATTAAAATAAT
100604288 TATTTCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.90
12 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAAATAATA
Found at i:100605538 original size:19 final size:19
Alignment explanation
Indices: 100605516--100605562 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
100605506 TTAAAATTCT
100605516 AAATTCT-ATATTTTTAAAA
1 AAATTCTAAT-TTTTTAAAA
*
100605535 AAATTATAATTTTTTAAAA
1 AAATTCTAATTTTTTAAAA
*
100605554 AAAATCTAA
1 AAATTCTAA
100605563 AGAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTCTAATTTTTTAAAA
Found at i:100605914 original size:21 final size:21
Alignment explanation
Indices: 100605888--100605927 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
100605878 ACCTTTTCTA
*
100605888 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
100605909 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
100605928 CATTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:100608564 original size:31 final size:29
Alignment explanation
Indices: 100608529--100608603 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
100608519 ACGGCTCAAC
* *
100608529 GACTAAAATGTTACAATGCGATAACGTAAGT
1 GACTAAAATGTAACAATGC-A-AACATAAGT
* *
100608560 GACTAAAATGTAACATTTCAAACATAAGT
1 GACTAAAATGTAACAATGCAAACATAAGT
100608589 GACTAAAATGTAACA
1 GACTAAAATGTAACA
100608604 CTCCTAACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.57
30 1 0.03
31 16 0.40
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (29 bp):
GACTAAAATGTAACAATGCAAACATAAGT
Found at i:100609959 original size:33 final size:33
Alignment explanation
Indices: 100609922--100609999 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
100609912 TGGCTCTGTC
* * *
100609922 ATGGTCTTACATTC-GTAGTGTCATAACCTAGTT
1 ATGGTCTTACATTCAG-AATGTCATAACCCAGCT
100609955 ATGGTCTTATCA-TCAGAATGTCATAACCCAGCT
1 ATGGTCTTA-CATTCAGAATGTCATAACCCAGCT
*
100609988 ATAGTCTTACAT
1 ATGGTCTTACAT
100610000 ATAAATACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 33 0.87
34 3 0.08
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAATGTCATAACCCAGCT
Found at i:100610344 original size:31 final size:31
Alignment explanation
Indices: 100610306--100610364 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
100610296 ATCTAAAATA
100610306 TAAAATTATTCATTCATTAGCATATATTATG
1 TAAAATTATTCATTCATTAGCATATATTATG
100610337 TAAAATTATTCATTCATTAGCATATATT
1 TAAAATTATTCATTCATTAGCATATATT
100610365 TCAATTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (31 bp):
TAAAATTATTCATTCATTAGCATATATTATG
Found at i:100611506 original size:39 final size:37
Alignment explanation
Indices: 100611457--100611554 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
100611447 TTTTTTATAT
100611457 TTTTTAAATTTTAAATAATTTTTTAGAATTTTTACATGC
1 TTTTT-AATTTTAAATAATTTTTTAGAATTTTTA-ATGC
* ** * *
100611496 TTTTTGAATTTTAAAAAATGATTTATAATTTTTAATGG
1 TTTTT-AATTTTAAATAATTTTTTAGAATTTTTAATGC
* *
100611534 TTTTTCATTTT-CATAATTTTT
1 TTTTTAATTTTAAATAATTTTT
100611555 ATATTTTTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 6 0.12
37 5 0.10
38 8 0.17
39 29 0.60
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (37 bp):
TTTTTAATTTTAAATAATTTTTTAGAATTTTTAATGC
Found at i:100611554 original size:10 final size:9
Alignment explanation
Indices: 100611540--100611587 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 9
100611530 ATGGTTTTTC
*
100611540 ATTTTCATA
1 ATTTTTATA
100611549 ATTTTTAT-
1 ATTTTTATA
100611557 ATTTTTAT-
1 ATTTTTATA
*
100611565 ATTTTTTTA
1 ATTTTTATA
100611574 TATTTTTATA
1 -ATTTTTATA
100611584 ATTT
1 ATTT
100611588 GTTTTTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 15 0.44
9 11 0.32
10 8 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTTATA
Found at i:100611571 original size:18 final size:21
Alignment explanation
Indices: 100611550--100611602 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 21
100611540 ATTTTCATAA
100611550 TTTTTATATTTTTAT-A-TT-
1 TTTTTATATTTTTATAATTTG
100611568 TTTTTATATTTTTATAATTTG
1 TTTTTATATTTTTATAATTTG
100611589 TTTTTATATGTTTT
1 TTTTTATAT-TTTT
100611603 TACATTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.48
19 1 0.03
20 2 0.06
21 9 0.29
22 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTATATTTTTATAATTTG
Found at i:100611602 original size:10 final size:9
Alignment explanation
Indices: 100611550--100611610 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
100611540 ATTTTCATAA
100611550 TTTTTATA-
1 TTTTTATAT
100611558 TTTTTATATT
1 TTTTTATA-T
100611568 TTTTTATAT
1 TTTTTATAT
*
100611577 TTTTATAATTT
1 TTTT-T-ATAT
100611588 GTTTTTATAT
1 -TTTTTATAT
*
100611598 GTTTTTACAT
1 -TTTTTATAT
100611608 TTT
1 TTT
100611611 AAAAAATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 8 0.18
9 8 0.18
10 21 0.47
11 4 0.09
12 4 0.09
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:100633348 original size:33 final size:33
Alignment explanation
Indices: 100633311--100633377 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
100633301 AATTTGAAAG
* *
100633311 TTCTCTCTCGAAAATTGCCTTGAAAATAACGTC
1 TTCTCTCTCGAAAATTACCTTGAAAATAAAGTC
*
100633344 TTCTCTCTCGAAAATTACCTTGAAAGTAAAGTC
1 TTCTCTCTCGAAAATTACCTTGAAAATAAAGTC
100633377 T
1 T
100633378 CAGTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
TTCTCTCTCGAAAATTACCTTGAAAATAAAGTC
Found at i:100640424 original size:3 final size:3
Alignment explanation
Indices: 100640416--100640442 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
100640406 TGGGCTGTGA
100640416 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
100640443 AAATTAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:100642794 original size:35 final size:35
Alignment explanation
Indices: 100642754--100642821 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
100642744 ATTTTTTAAA
*
100642754 ATTATTTTTCAAGTAAACAAAATAATTAATCTTGT
1 ATTATTTTCCAAGTAAACAAAATAATTAATCTTGT
*
100642789 ATTATTTTCCAAGTAAATAAAATAATTAATCTT
1 ATTATTTTCCAAGTAAACAAAATAATTAATCTT
100642822 TTTTGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (35 bp):
ATTATTTTCCAAGTAAACAAAATAATTAATCTTGT
Found at i:100656354 original size:238 final size:238
Alignment explanation
Indices: 100655899--100656371 Score: 736
Period size: 237 Copynumber: 2.0 Consensus size: 238
100655889 AATTGTTAAA
* *
100655899 AATACAAAAAAATAAAAATCAATCTAGCCCATCTCAAGGAAGGCTATACACATGATGCTAAAAAT
1 AATACAAAAAAATAAAAATCAAACTAGCCCATCTCAAGGAAGGCTATACACATAATGCTAAAAAT
*
100655964 AAAAACAAACAATAATTGTGCACAGCACAGTAATTAGGTCCATGTTACACCAGAGCTAAATATTT
66 AAAAACAAACAATAATTGTGCACAGCACAGTAATTAGGCCCATGTTACACCAGAGCTAAATATTT
* * *
100656029 TGCTAAATACCCAGGATACGTATTTGCTAGAGAAGTACATGTAATAATGAACAATATGTCATTTA
131 TGATAAATACCCAAGATACGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCATTTA
* * *
100656094 TGCCTACAAAAGGAATCCTAAAGAATACAAAAGAATCTGCTCT
196 TACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGCTCT
* * * * * *
100656137 AATAC-AAATAATAAATATCAAACTAGCCTATCTTAAGGAA-GTTATACACATAATGGTTAAAAA
1 AATACAAAAAAATAAAAATCAAACTAGCCCATCTCAAGGAAGGCTATACACATAAT-GCTAAAAA
* *
100656200 -AACAAACAAACAATAATTGTTCACAGCACGGTAATTAGGCCCATGTTACACCAGAGCTAAATAT
65 TAA-AAACAAACAATAATTGTGCACAGCACAGTAATTAGGCCCATGTTACACCAGAGCTAAATAT
*
100656264 TTTGATAAATACCCAAGATATTGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCAT
129 TTTGATAAATACCCAAGATA-CGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCAT
100656329 TTATACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGC
193 TTATACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGC
100656372 ACTATTGTAG
Statistics
Matches: 214, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
236 14 0.07
237 113 0.53
238 87 0.41
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (238 bp):
AATACAAAAAAATAAAAATCAAACTAGCCCATCTCAAGGAAGGCTATACACATAATGCTAAAAAT
AAAAACAAACAATAATTGTGCACAGCACAGTAATTAGGCCCATGTTACACCAGAGCTAAATATTT
TGATAAATACCCAAGATACGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCATTTA
TACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGCTCT
Found at i:100658368 original size:12 final size:12
Alignment explanation
Indices: 100658351--100658387 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
100658341 ATCCGGTCCG
100658351 TTTATATTAATT
1 TTTATATTAATT
*
100658363 TTTATATTATTT
1 TTTATATTAATT
100658375 TTTATA-TAATT
1 TTTATATTAATT
100658386 TT
1 TT
100658388 AAAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTAATT
Found at i:100658434 original size:24 final size:23
Alignment explanation
Indices: 100658398--100658442 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
100658388 AAAATATATA
* *
100658398 TAATACATCAAAATAAATATTTCT
1 TAATAAATCAAAA-AAAAATTTCT
*
100658422 TAATAAATTAAAAAAAAATTT
1 TAATAAATCAAAAAAAAATTT
100658443 TAAAAATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
TAATAAATCAAAAAAAAATTTCT
Found at i:100658517 original size:34 final size:33
Alignment explanation
Indices: 100658479--100658549 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 33
100658469 AAGATGCAAC
*
100658479 TTAACAAGCAAATTTCTCTAAAATAATAACAAAA
1 TTAACAA-CAAATGTCTCTAAAATAATAACAAAA
*
100658513 TT---AACAAATGTCTTTAAAATAATAACAAAA
1 TTAACAACAAATGTCTCTAAAATAATAACAAAA
100658543 TTAACAA
1 TTAACAA
100658550 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
30 26 0.81
31 2 0.06
33 2 0.06
34 2 0.06
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (33 bp):
TTAACAACAAATGTCTCTAAAATAATAACAAAA
Found at i:100658521 original size:30 final size:30
Alignment explanation
Indices: 100658487--100658549 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
100658477 ACTTAACAAG
*
100658487 CAAATTTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
100658517 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
100658547 CAA
1 CAA
100658550 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:100659160 original size:27 final size:27
Alignment explanation
Indices: 100659097--100659160 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
100659087 CGTTTGAATC
*
100659097 AAAACTGAAATATCAAATTTTGAAAATA
1 AAAACT-AAATATCAAATTTGGAAAATA
*
100659125 ACGAA--AAATGATCAAA-TTGGAAAATA
1 A-AAACTAAAT-ATCAAATTTGGAAAATA
100659151 AAAACTAAAT
1 AAAACTAAAT
100659161 CCACAGCTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
25 2 0.07
26 14 0.48
27 10 0.34
28 1 0.03
29 2 0.07
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.23
Consensus pattern (27 bp):
AAAACTAAATATCAAATTTGGAAAATA
Found at i:100660564 original size:42 final size:42
Alignment explanation
Indices: 100660500--100660626 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
100660490 CTTTGTTTTC
** * *
100660500 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* * *
100660543 T-GATGCCATAGCCCAGTTATGGTCTTATACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
100660584 TCGATGCCATAGCCTAGCTATGGTCTTACAC-TAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
100660625 TC
1 TC
100660627 TCACTGATGC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
41 12 0.17
42 58 0.82
43 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:100660768 original size:31 final size:31
Alignment explanation
Indices: 100660733--100660881 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
100660723 CTTGTCACTT
*
100660733 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100660764 GTAGCCGGAGCTACCACTTTTCGCTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100660795 GTAGCCGGAGCTACCACTTTTCACTGATCAC
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
100660826 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
100660857 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
100660882 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:100660963 original size:50 final size:51
Alignment explanation
Indices: 100660857--100660985 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
100660847 CACTGATCAG
* * *
100660857 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
100660908 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
100660958 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
100660986 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:100663840 original size:31 final size:32
Alignment explanation
Indices: 100663768--100663845 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 32
100663758 TCAAAATTAC
* *
100663768 ACATGAAA-TTTGGTTTTATGTCCAATTTTAT
1 ACATAAAATTTTGATTTTATGTCCAATTTTAT
*
100663799 ACA-AAAATTTTGATTTT-TGTGCAATTTTAT
1 ACATAAAATTTTGATTTTATGTCCAATTTTAT
100663829 ACATAAAATTTTGATTT
1 ACATAAAATTTTGATTT
100663846 GATTTAATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 18 0.43
31 24 0.57
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (32 bp):
ACATAAAATTTTGATTTTATGTCCAATTTTAT
Found at i:100669092 original size:25 final size:24
Alignment explanation
Indices: 100669050--100669096 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
100669040 TTTTATTTTA
* *
100669050 ATATTAGTACTAATTAAATATAATT
1 ATATTAATACTAAATAAA-ATAATT
*
100669075 ATATTAATATTAAATAAAATAA
1 ATATTAATACTAAATAAAATAA
100669097 AAATCTCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATTAATACTAAATAAAATAATT
Found at i:100671613 original size:21 final size:21
Alignment explanation
Indices: 100671589--100671656 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
100671579 ACTCCTATGA
*
100671589 GTTTCAGTTTAGCCCTTCTGG
1 GTTTCAATTTAGCCCTTCTGG
* * **
100671610 GTTTTAATTTAGCTCTTCTTA
1 GTTTCAATTTAGCCCTTCTGG
* * *
100671631 GCTTCAATTTAACCCTTATGG
1 GTTTCAATTTAGCCCTTCTGG
100671652 GTTTC
1 GTTTC
100671657 CGTTCAGCTC
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (21 bp):
GTTTCAATTTAGCCCTTCTGG
Found at i:100671671 original size:21 final size:21
Alignment explanation
Indices: 100671645--100671713 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
100671635 CAATTTAACC
*
100671645 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCA
* * * *
100671666 CTTATGAGCTTCCGTTCAACC
1 CTTATGGGTTTCCGTTCAGCA
* * *
100671687 CTTACGGGTTTCTGTTTAGCA
1 CTTATGGGTTTCCGTTCAGCA
100671708 CTTATG
1 CTTATG
100671714 TGCTTTTGTG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTCAGCA
Found at i:100686513 original size:48 final size:47
Alignment explanation
Indices: 100686421--100686690 Score: 170
Period size: 48 Copynumber: 5.6 Consensus size: 47
100686411 CCATGTCCGG
* * * *
100686421 GTATAAGACCATAT-TAGGGATATAGCTTCGGCATC-GTTAAGTGATTTC
1 GTATAAGACCATGTCT-GGGATATGGCATCGGCATCAG--ATGTGATTTC
* **
100686469 GTCTAAGACCATGTCTGGGATATGGCATCGGCATCAAGATGTGATCCC
1 GTATAAGACCATGTCTGGGATATGGCATCGGCATC-AGATGTGATTTC
* * * * * * * **
100686517 GTATAAAACCATGTTTGGAACATGGCATCAGTATCAGTATGAGATCCC
1 GTATAAGACCATGTCTGGGATATGGCATCGGCATCAG-ATGTGATTTC
* * * *
100686565 ATGTAAGACCATATCTGGGATATGGCATTGGCATCA-ATGTGAGGTCTT-
1 GTATAAGACCATGTCTGGGATATGGCATCGGCATCAGATGTGA--T-TTC
** * * * * *
100686613 GTATAAGACCATGTCTGGGGCATGGCATCGACACCGATATGAGACTTC
1 GTATAAGACCATGTCTGGGATATGGCATCGGCATC-AGATGTGATTTC
* *
100686661 GTATAAGACCATATCTGGAATATGGCATCG
1 GTATAAGACCATGTCTGGGATATGGCATCG
100686691 ATATGTGGTC
Statistics
Matches: 170, Mismatches: 42, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
46 5 0.03
47 4 0.02
48 153 0.90
49 2 0.01
50 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (47 bp):
GTATAAGACCATGTCTGGGATATGGCATCGGCATCAGATGTGATTTC
Found at i:100686654 original size:96 final size:96
Alignment explanation
Indices: 100686472--100686690 Score: 234
Period size: 96 Copynumber: 2.3 Consensus size: 96
100686462 TGATTTCGTC
* *
100686472 TAAGACCATGTCTGGGATATGGCATCGGCATCAAGATGTGATCCCGTATAAAACCATGTTTGGAA
1 TAAGACCATATCTGGGATATGGCATCGGCATCAAGATGTGATCCCGTATAAAACCATGTCTGGAA
*
100686537 CATGGCATCAGTATCAGTATGAGA-TCCCATG
66 CATGGCATCAGTATCAGTATGAGACT-CCATA
* ** *
100686568 TAAGACCATATCTGGGATATGGCATTGGCATC-A-ATGTGAGGTCTTGTATAAGACCATGTCTGG
1 TAAGACCATATCTGGGATATGGCATCGGCATCAAGATGTGA--TCCCGTATAAAACCATGTCTGG
** * *
100686631 GGCATGGCATC-G-A-CACCGATATGAGACTTCGTA
64 AACATGGCATCAGTATCA--G-TATGAGACTCCATA
*
100686664 TAAGACCATATCTGGAATATGGCATCG
1 TAAGACCATATCTGGGATATGGCATCG
100686691 ATATGTGGTC
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
93 2 0.02
94 7 0.07
95 3 0.03
96 91 0.88
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (96 bp):
TAAGACCATATCTGGGATATGGCATCGGCATCAAGATGTGATCCCGTATAAAACCATGTCTGGAA
CATGGCATCAGTATCAGTATGAGACTCCATA
Found at i:100703731 original size:21 final size:23
Alignment explanation
Indices: 100703687--100703732 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
100703677 AAGTTAAATA
* *
100703687 AATATTCATATTTGTATAATTAT
1 AATACTCATATATGTATAATTAT
100703710 AATACTCATATAT-TAT-ATTAT
1 AATACTCATATATGTATAATTAT
100703731 AA
1 AA
100703733 AATATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 3 0.14
23 11 0.52
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
AATACTCATATATGTATAATTAT
Found at i:100704941 original size:17 final size:18
Alignment explanation
Indices: 100704919--100704952 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100704909 TTCAATATGA
100704919 TATTTTAGT-TTTTTTCC
1 TATTTTAGTATTTTTTCC
*
100704936 TATTTTGGTATTTTTTC
1 TATTTTAGTATTTTTTC
100704953 AGTTTAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (18 bp):
TATTTTAGTATTTTTTCC
Found at i:100707894 original size:29 final size:29
Alignment explanation
Indices: 100707852--100707907 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
100707842 TGTAACTAAC
100707852 TTAAAATAAATATATTA-TAAATTATTTAT
1 TTAAAATAAATATATTATTAAA-TATTTAT
*
100707881 TTAAATTAAATATATTATTAAATATTT
1 TTAAAATAAATATATTATTAAATATTT
100707908 TAAAATAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAAAATAAATATATTATTAAATATTTAT
Found at i:100708414 original size:22 final size:22
Alignment explanation
Indices: 100708384--100708429 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
100708374 ATAAAATTTT
*
100708384 AAAACATTATA-AAAATTTATAA
1 AAAACATTAAATAAAATTTA-AA
*
100708406 AAAATATTAAATAAAATTTAAA
1 AAAACATTAAATAAAATTTAAA
100708428 AA
1 AA
100708430 GTTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAACATTAAATAAAATTTAAA
Found at i:100709066 original size:23 final size:23
Alignment explanation
Indices: 100709040--100709093 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
100709030 TGATTTTTAA
*
100709040 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
100709063 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
100709086 ATTTAGAA
1 ATTTAGAA
100709094 AAAAATCTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:100709067 original size:13 final size:13
Alignment explanation
Indices: 100709049--100709091 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
100709039 AATTTTGAAT
100709049 TATTTAGTGATAA
1 TATTTAGTGATAA
100709062 TATTTAG-GAT--
1 TATTTAGTGATAA
100709072 TATTTAGTGATAA
1 TATTTAGTGATAA
100709085 TATTTAG
1 TATTTAG
100709092 AAAAAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:100718497 original size:57 final size:56
Alignment explanation
Indices: 100718407--100718534 Score: 166
Period size: 57 Copynumber: 2.3 Consensus size: 56
100718397 TGTGAAAACG
** *
100718407 GCACTTAGTGTGTGAATTATTGAGGATGACACTTACTGTGCGAAACATCCAGAAATA
1 GCACTTAGTGTGCAAATTATTGAAGATGACACTTACTGTGCGAAACATCCAG-AATA
* * ** * *
100718464 GCACTTAGTGTGCAAATTATTGAAGATGGCACTTATTGTGCGAGTCATCCAGGATG
1 GCACTTAGTGTGCAAATTATTGAAGATGACACTTACTGTGCGAAACATCCAGAATA
100718520 GCACTTAGTGTGCAA
1 GCACTTAGTGTGCAA
100718535 TACATCTGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
56 17 0.27
57 45 0.73
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (56 bp):
GCACTTAGTGTGCAAATTATTGAAGATGACACTTACTGTGCGAAACATCCAGAATA
Found at i:100718540 original size:28 final size:28
Alignment explanation
Indices: 100718406--100718540 Score: 85
Period size: 28 Copynumber: 4.8 Consensus size: 28
100718396 TTGTGAAAAC
* ** **
100718406 GGCACTTAGTGTGTGAATTATTGAGGAT
1 GGCACTTAGTGTGCGAAACATCCAGGAT
* * *
100718434 GACACTTACTGTGCGAAACATCCAGAAAT
1 GGCACTTAGTGTGCGAAACATCCAG-GAT
* * ** *
100718463 AGCACTTAGTGTGC-AAATTATTGAAGAT
1 GGCACTTAGTGTGCGAAA-CATCCAGGAT
* **
100718491 GGCACTTATTGTGCGAGTCATCCAGGAT
1 GGCACTTAGTGTGCGAAACATCCAGGAT
100718519 GGCACTTAGTGTGC-AATACATC
1 GGCACTTAGTGTGCGAA-ACATC
100718541 TGTGAAGGCA
Statistics
Matches: 76, Mismatches: 27, Indels: 8
0.68 0.24 0.07
Matches are distributed among these distances:
27 1 0.01
28 58 0.76
29 17 0.22
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAAACATCCAGGAT
Found at i:100722573 original size:20 final size:20
Alignment explanation
Indices: 100722548--100722590 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
100722538 TAATATTTTT
*
100722548 ATATTTTATTAGTAAATATA
1 ATATTTTATTAGAAAATATA
* *
100722568 ATATTTTTTTTGAAAATATA
1 ATATTTTATTAGAAAATATA
100722588 ATA
1 ATA
100722591 ATATTTCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATATTTTATTAGAAAATATA
Found at i:100736635 original size:8 final size:8
Alignment explanation
Indices: 100736618--100736662 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
100736608 AATATATGCT
*
100736618 TTATTTTA
1 TTATTATA
100736626 TTATTATA
1 TTATTATA
100736634 TTATATTATA
1 -T-TATTATA
*
100736644 TTAATATA
1 TTATTATA
100736652 TTATTATA
1 TTATTATA
100736660 TTA
1 TTA
100736663 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:100736640 original size:13 final size:13
Alignment explanation
Indices: 100736619--100736662 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
100736609 ATATATGCTT
*
100736619 TATTTTATTATTA
1 TATTATATTATTA
100736632 TATTATATTA-TA
1 TATTATATTATTA
*
100736644 TTAATATATTATTA
1 -TATTATATTATTA
100736658 TATTA
1 TATTA
100736663 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:100736659 original size:16 final size:17
Alignment explanation
Indices: 100736617--100736664 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
100736607 TAATATATGC
* *
100736617 TTTATTTTATTATTATA
1 TTTATTATATTAATATA
100736634 TTATATTATATTAATATA
1 TT-TATTATATTAATATA
100736652 -TTATTATATTAAT
1 TTTATTATATTAAT
100736665 TTTTTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 12 0.43
17 3 0.11
18 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTATATTAATATA
Found at i:100739118 original size:52 final size:51
Alignment explanation
Indices: 100739001--100739179 Score: 213
Period size: 51 Copynumber: 3.5 Consensus size: 51
100738991 TCACTAGTGA
* * * *
100739001 CACAAGTGTGGTACTATGTGAAGGCTACTTTGAGAAG-AGATAAC-TTGGT
1 CACAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGATAGCTTTGGT
*
100739050 CACAAGTGCGGTACTATGTGAAGGCCATTTTGTGAAGAAAGATAGCTTTGGT
1 CACAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAG-AAGATAGCTTTGGT
* *
100739102 CACAAGTGTGGTACTATGTGAAGGCCACTTTT-TGAAGAAGGTAGCTTT-GA
1 CACAAGTGTGGTACTATGTGAAGGCCA-TTTTGTGAAGAAGATAGCTTTGGT
* * *
100739152 CGACAAGGGTGGTACTACGTGTAGGCCA
1 C-ACAAGTGTGGTACTATGTGAAGGCCA
100739180 CCGGGTATCC
Statistics
Matches: 114, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
49 33 0.29
50 2 0.02
51 39 0.34
52 36 0.32
53 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (51 bp):
CACAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGATAGCTTTGGT
Found at i:100741304 original size:6 final size:6
Alignment explanation
Indices: 100741293--100741322 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
100741283 GCTGATTGCC
100741293 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
100741323 GGCCATTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:100743954 original size:43 final size:44
Alignment explanation
Indices: 100743880--100743963 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
100743870 TTGAGGTCTG
*
100743880 AAAATGAAACCTAGATCCTTTATTAATTTAATAAAATGATTTCA
1 AAAATGAAACCTAGATCCTTTAATAATTTAATAAAATGATTTCA
* * * *
100743924 AAAATGAAATCTGGATGC-TTAATAATTTAATACAATGATT
1 AAAATGAAACCTAGATCCTTTAATAATTTAATAAAATGATT
100743964 GATAGAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 20 0.57
44 15 0.43
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (44 bp):
AAAATGAAACCTAGATCCTTTAATAATTTAATAAAATGATTTCA
Found at i:100749699 original size:18 final size:19
Alignment explanation
Indices: 100749664--100749700 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
100749654 ATTATTAAGA
100749664 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
100749683 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
100749701 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:100749930 original size:44 final size:45
Alignment explanation
Indices: 100749865--100749955 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
100749855 ACCTCTATTC
* * *
100749865 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
100749909 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
100749954 CA
1 CA
100749956 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:100749957 original size:16 final size:16
Alignment explanation
Indices: 100749936--100750004 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
100749926 GATTAGCTAT
100749936 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100749952 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
100749969 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100749985 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100750001 TACA
1 TACA
100750005 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:100749978 original size:33 final size:32
Alignment explanation
Indices: 100749936--100750004 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
100749926 GATTAGCTAT
100749936 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
100749969 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
100750001 TACA
1 TACA
100750005 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:100754365 original size:42 final size:42
Alignment explanation
Indices: 100754265--100754440 Score: 160
Period size: 42 Copynumber: 4.0 Consensus size: 42
100754255 CTTCATTTTC
** * * *
100754265 TCGATGCCATAGTTCAACTATGGTCATACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
100754308 T-GATGCCATAACCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* * *
100754349 TCGATGTCATAGCCCAGCTATGATCTTACATGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTAC-----A-CATAT-TCACATA
100754398 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
100754439 TC
1 TC
100754441 TCACTGATGC
Statistics
Matches: 110, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
41 11 0.10
42 56 0.51
43 3 0.03
44 2 0.02
47 1 0.01
48 4 0.04
49 33 0.30
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:100754409 original size:49 final size:48
Alignment explanation
Indices: 100754335--100754440 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
100754325 TATGGTCTTA
* * *
100754335 CACATATTCATATATCGATGTCATAGCCCAGCTATGATCTTACATGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGATCTTACACG-AAT
*
100754385 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGATCTTACACGAAT
100754433 CACATATC
1 CACATATC
100754441 TCACTGATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.67
50 6 0.12
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGATCTTACACGAAT
Found at i:100754575 original size:31 final size:31
Alignment explanation
Indices: 100754540--100754688 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
100754530 CTTGTCACTT
*
100754540 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
100754571 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
100754602 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100754633 GTAGCAGAAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
100754664 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
100754689 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:100754767 original size:50 final size:50
Alignment explanation
Indices: 100754664--100754840 Score: 300
Period size: 50 Copynumber: 3.5 Consensus size: 50
100754654 CATTGATCAG
* *
100754664 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
100754715 GTAGCCAAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
100754765 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
100754815 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
100754841 GTTGCCATGG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 95 0.81
51 23 0.19
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:100759850 original size:20 final size:20
Alignment explanation
Indices: 100759822--100759862 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
100759812 GTTGGAAATA
*
100759822 ATATGGTTGTTTAATGTATG
1 ATATGGTTGTTTAAGGTATG
*
100759842 ATATTGTTGTTTAAGGTATG
1 ATATGGTTGTTTAAGGTATG
100759862 A
1 A
100759863 GATGATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
ATATGGTTGTTTAAGGTATG
Found at i:100760538 original size:11 final size:11
Alignment explanation
Indices: 100760522--100760547 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
100760512 AAGTAACAGA
100760522 CATTTCACAAG
1 CATTTCACAAG
100760533 CATTTCACAAG
1 CATTTCACAAG
100760544 CATT
1 CATT
100760548 GTATTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (11 bp):
CATTTCACAAG
Found at i:100763343 original size:17 final size:16
Alignment explanation
Indices: 100763300--100763356 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 16
100763290 ATAAATGATG
100763300 ATTTTTCATCTTTTTA
1 ATTTTTCATCTTTTTA
*
100763316 TTATTTATCATCTTTTTA
1 --ATTTTTCATCTTTTTA
*
100763334 ATTTTGTCATTTTCTTTA
1 ATTTT-TCATCTT-TTTA
100763352 ATTTT
1 ATTTT
100763357 ATTTTCCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 24 0.71
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTTCATCTTTTTA
Found at i:100769712 original size:12 final size:12
Alignment explanation
Indices: 100769695--100769761 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 12
100769685 TTTTTTAAGA
100769695 AAAATAATATAT
1 AAAATAATATAT
100769707 AAAATAGAAAGTATAT
1 AAAAT---AA-TATAT
* *
100769723 AAAATAATTTAC
1 AAAATAATATAT
100769735 AAAATAAT-TAT
1 AAAATAATATAT
*
100769746 ATAATAA-ATA-
1 AAAATAATATAT
100769756 AAAATA
1 AAAATA
100769762 TCACATAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.11
11 10 0.22
12 16 0.36
13 2 0.04
15 2 0.04
16 10 0.22
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (12 bp):
AAAATAATATAT
Found at i:100769912 original size:28 final size:28
Alignment explanation
Indices: 100769842--100769912 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
100769832 TTACAAATTC
100769842 TAAAATTATAAATAATATAATGAGTAATA
1 TAAAA-TATAAATAATATAATGAGTAATA
* * *
100769871 TAAAACATATATAATATGAT-AGATAATA
1 TAAAATATAAATAATATAATGAG-TAATA
* *
100769899 TATAATATACATAA
1 TAAAATATAAATAA
100769913 CATATAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 2 0.06
28 28 0.80
29 5 0.14
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.34
Consensus pattern (28 bp):
TAAAATATAAATAATATAATGAGTAATA
Found at i:100772449 original size:205 final size:206
Alignment explanation
Indices: 100771849--100772524 Score: 1048
Period size: 205 Copynumber: 3.3 Consensus size: 206
100771839 CAAATGTGCT
*
100771849 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
1 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
* * *
100771914 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGATGGAGATGCCAAATTTCGATTT
66 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAG-TGGAGATGCCAGACTTCGATTT
* * *
100771979 GTTCTCTGACAAAACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAACACGCGAAAGCC
130 GTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCC
100772044 AAATCAGCTATG
195 AAATCAGCTATG
* * * *
100772056 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATATTTCTTCAGTCTAATC
1 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
* * *
100772121 ATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
66 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTG
100772186 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
100772251 AATCAGCTATG
196 AATCAGCTATG
** ** *
100772262 TCTTCGATTTGTTCCTTGTAAGCACAAGAATATCAAACCATCTTGGATC-TGCTTCAGTAAAAAC
1 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
* * * *
100772326 ATCTGAAGGTGAGATCTGCTATGTATCTTCTCCCCGTTGAAGTGGAAATGCCTGACTTCAATTTG
66 ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTG
* * * *
100772391 CTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCT
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
100772456 AATCAGCTATG
196 AATCAGCTATG
* ** * *
100772467 TCTTCGGTTCATTCCTTGTAAGCACAAGGATTCCAAACCATCTTGGATCTTGCTTCAG
1 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATCTTGCTTCAG
100772525 CCTGATCCGC
Statistics
Matches: 430, Mismatches: 38, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
205 184 0.43
206 146 0.34
207 100 0.23
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (206 bp):
TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
ATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
AATCAGCTATG
Found at i:100780605 original size:15 final size:15
Alignment explanation
Indices: 100780563--100780612 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
100780553 ATAACTTTGA
*
100780563 ATGCAAATG-ATGCG
1 ATGCAAATGCATGAG
100780577 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
100780592 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
100780606 ATGCAAA
1 ATGCAAA
100780613 AAGGATATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Done.