Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 283 of 320
Found at i:91159069 original size:46 final size:46
Alignment explanation
Indices: 91159002--91159096 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
91158992 ACTTAATAAT
*
91159002 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTTTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
*
91159048 ATTTGATTTATTCTAAATATTTATAATCTTTAATTATAATTGTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
91159094 ATT
1 ATT
91159097 CAATTCATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
Found at i:91159998 original size:43 final size:44
Alignment explanation
Indices: 91159969--91160157 Score: 287
Period size: 43 Copynumber: 4.4 Consensus size: 44
91159959 AAAACCGTGA
* *
91159969 CTTTTAGCGGCGCTTTT-CCAATAAACGCCGTTAAAAGTCAAGG
1 CTTTTAGCGGCGCTTTTACCAACAAACGCCGCTAAAAGTCAAGG
*
91160012 CTTTTAGCGGTGCTTTTACCAA-AAACGCCGCTAAAAGTCAAGG
1 CTTTTAGCGGCGCTTTTACCAACAAACGCCGCTAAAAGTCAAGG
* *
91160055 CTTTTAGCGGCGCTTTT-CCCACAGACGCCGCTAAAAGTCAAGG
1 CTTTTAGCGGCGCTTTTACCAACAAACGCCGCTAAAAGTCAAGG
*
91160098 CTTTTAGCGGCGCTTTTACC-ACAGACGCCGCTAAAAGTCAAGG
1 CTTTTAGCGGCGCTTTTACCAACAAACGCCGCTAAAAGTCAAGG
*
91160141 CTTTTAGCGGCGTTTTT
1 CTTTTAGCGGCGCTTTT
91160158 TTTCAATAAA
Statistics
Matches: 137, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
42 3 0.02
43 128 0.93
44 6 0.04
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTTTAGCGGCGCTTTTACCAACAAACGCCGCTAAAAGTCAAGG
Found at i:91166114 original size:131 final size:132
Alignment explanation
Indices: 91165878--91166166 Score: 297
Period size: 131 Copynumber: 2.2 Consensus size: 132
91165868 AGAAATTGCG
* * * * *
91165878 ACCCAGCACGATAGGGTACTATTCCCCGAACTGCCAAACATCGAACACTTCTTTCGTTTTAAAGG
1 ACCCAGCACGATAGGGCACGATTCCCCAAACTGCCAAACATCGAACACTCCTTTCATTTTAAAGG
* * * * *
91165943 GTTTTTAGAAAACGTGAATGAAATTCCGAAGGGATCTTCGATTGTTTAGAACAAATGGAAAAAAG
66 GTTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCGATTGTTTAGAACAAAT-G-AAAAAG
*
91166008 CGCA
129 CACA
*
91166012 ACCCAGCACGATAGGGCACGATT-CTCAAA-TCGCCAAACATCGAACA-TCCTTT-ATTTTGAAA
1 ACCCAGCACGATAGGGCACGATTCCCCAAACT-GCCAAACATCGAACACTCCTTTCATTTT-AAA
* * * * *
91166073 -GGTTTTTA-ATAAACATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTTGATCAAATGAGAG
64 GGGTTTTTAGA-AAACATGAATGAAATACC-AAAGGAATATTCGATTGTTTAGAACAAATGAAAA
*
91166135 ATCACA
127 AGCACA
*
91166141 ACCCAGCACGATAGGGCATGA-TCCCC
1 ACCCAGCACGATAGGGCACGATTCCCC
91166167 GAATTGTCAA
Statistics
Matches: 130, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
128 1 0.01
129 28 0.22
130 4 0.03
131 48 0.37
132 9 0.07
133 19 0.15
134 21 0.16
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (132 bp):
ACCCAGCACGATAGGGCACGATTCCCCAAACTGCCAAACATCGAACACTCCTTTCATTTTAAAGG
GTTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCGATTGTTTAGAACAAATGAAAAAGCA
CA
Found at i:91167420 original size:17 final size:19
Alignment explanation
Indices: 91167400--91167441 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
91167390 TATGCGAAAT
91167400 ATATATGTAT-GTA-CAAA
1 ATATATGTATCGTAGCAAA
91167417 ATATAT-TATCGTAGCAAA
1 ATATATGTATCGTAGCAAA
91167435 ATATATG
1 ATATATG
91167442 CTAAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (19 bp):
ATATATGTATCGTAGCAAA
Found at i:91171568 original size:11 final size:11
Alignment explanation
Indices: 91171552--91171576 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91171542 TAAAAATTTG
91171552 TTTTTATATTA
1 TTTTTATATTA
91171563 TTTTTATATTA
1 TTTTTATATTA
91171574 TTT
1 TTT
91171577 CTTAACGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:91173524 original size:21 final size:23
Alignment explanation
Indices: 91173498--91173557 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
91173488 GTTTTAAAAA
*
91173498 TTGTTTTAGTA-TTATTTTTAT-
1 TTGTTTTAATATTTATTTTTATG
*
91173519 TTGTTTTAATATTTGTTTTTATG
1 TTGTTTTAATATTTATTTTTATG
*
91173542 TT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
91173558 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.48
22 15 0.45
23 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTGTTTTAATATTTATTTTTATG
Found at i:91173578 original size:27 final size:25
Alignment explanation
Indices: 91173527--91173578 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
91173517 ATTTGTTTTA
* *
91173527 ATATTTGTTTTTATGTTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAAT
91173552 ATATTTGATTTATTATATTTTTAAAAT
1 ATATTTG-TTT-TTATATTTTTAAAAT
91173579 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (25 bp):
ATATTTGTTTTTATATTTTTAAAAT
Found at i:91174068 original size:7 final size:7
Alignment explanation
Indices: 91174052--91174080 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91174042 ATATTTTATT
91174052 TAAT-AA
1 TAATAAA
91174058 TAATAAA
1 TAATAAA
91174065 TAATAAA
1 TAATAAA
91174072 TAATAAA
1 TAATAAA
91174079 TA
1 TA
91174081 TCTATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:91176706 original size:30 final size:30
Alignment explanation
Indices: 91176666--91176743 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
91176656 AGCCAACTTT
*
91176666 CCTCCAACTTGCACCTACTCCACCACCTTG
1 CCTCCCACTTGCACCTACTCCACCACCTTG
* *
91176696 CCTCCCACTTGCACCTATTCCACCGCCTTG
1 CCTCCCACTTGCACCTACTCCACCACCTTG
*
91176726 TCTCCCACTTGCACCTAC
1 CCTCCCACTTGCACCTAC
91176744 ACCATCAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.17, C:0.50, G:0.08, T:0.26
Consensus pattern (30 bp):
CCTCCCACTTGCACCTACTCCACCACCTTG
Found at i:91177259 original size:3 final size:3
Alignment explanation
Indices: 91177248--91177446 Score: 53
Period size: 3 Copynumber: 64.3 Consensus size: 3
91177238 TTATTTTTTT
* * *
91177248 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA
**
91177293 TGTA TATA TTA TT- TATA TTA TTA -TA TTA -TA TATA CCA TCTCCA -TA
1 T-TA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA T-T--A TTA
* * *
91177338 TTTA TT- TATA TTA TTA CTA TAA TTA TTG TTA TT- TCTA TTA TT- TT-
1 -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
91177382 TTA TT- TCTGA CTA CTA TTA TTA TATA TATA TGTA TTA TTG TT- TGTA
1 TTA TTA T-T-A TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA T-TA
91177428 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
91177447 CACCCCTATT
Statistics
Matches: 149, Mismatches: 21, Indels: 52
0.67 0.09 0.23
Matches are distributed among these distances:
2 17 0.11
3 102 0.68
4 29 0.19
6 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:91177264 original size:9 final size:9
Alignment explanation
Indices: 91177236--91177314 Score: 53
Period size: 9 Copynumber: 9.1 Consensus size: 9
91177226 GAGAGCTTTG
91177236 TTTTATT-T
1 TTTTATTAT
91177244 TTTT-TTA-
1 TTTTATTAT
91177251 TTTTATTAT
1 TTTTATTAT
*
91177260 TTTTACTAT
1 TTTTATTAT
91177269 TATTTA-TAT
1 T-TTTATTAT
*
91177278 TATTATTAT
1 TTTTATTAT
91177287 TTCTTATGTA-
1 TT-TTAT-TAT
*
91177297 -TATATTAT
1 TTTTATTAT
*
91177305 TTATATTAT
1 TTTTATTAT
91177314 T
1 T
91177315 ATATTATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
7 8 0.14
8 13 0.22
9 27 0.47
10 8 0.14
11 2 0.03
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (9 bp):
TTTTATTAT
Found at i:91177322 original size:24 final size:23
Alignment explanation
Indices: 91177254--91177325 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 23
91177244 TTTTTTATTT
* *
91177254 TATTATTTTTACTATTATTTATA
1 TATTATTTATATTATTATTTATA
* *
91177277 TTATTA-TTAT-TTCTTATGTATA
1 -TATTATTTATATTATTATTTATA
91177299 TATTATTTATATTATTATATTATA
1 TATTATTTATATTATTAT-TTATA
91177323 TAT
1 TAT
91177326 ACCATCTCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.13
22 13 0.33
23 9 0.23
24 12 0.31
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTATTTATATTATTATTTATA
Found at i:91177694 original size:17 final size:17
Alignment explanation
Indices: 91177669--91177712 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
91177659 TGTGTATTTC
91177669 TATTATATACATA-TAT
1 TATTATATACATAGTAT
* *
91177685 ATATTTTATATATAGTAT
1 -TATTATATACATAGTAT
91177703 TATTATATAC
1 TATTATATAC
91177713 TTTACTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTATATACATAGTAT
Found at i:91177697 original size:13 final size:15
Alignment explanation
Indices: 91177679--91177711 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
91177669 TATTATATAC
91177679 ATATATA-TATT-TT
1 ATATATAGTATTATT
91177692 ATATATAGTATTATT
1 ATATATAGTATTATT
91177707 ATATA
1 ATATA
91177712 CTTTACTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 4 0.22
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATATATAGTATTATT
Found at i:91179621 original size:19 final size:19
Alignment explanation
Indices: 91179599--91179644 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
91179589 ATTCATTTCT
*
91179599 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
91179618 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
91179637 TTTGCATT
1 TTTGCATT
91179645 AGGCTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:91187742 original size:86 final size:86
Alignment explanation
Indices: 91187597--91188245 Score: 813
Period size: 86 Copynumber: 7.5 Consensus size: 86
91187587 ATCAGTGAAT
* * * ** * *
91187597 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAACAAATCGAGGTTGATGGGCCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
*
91187661 AGCAGTAGGGTAACAGACCGAA
65 AGCAGTAGGGTAACAGACCAAA
* * *
91187683 TTGCAGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
91187748 GCAGTAGGGTAACAGACCAAA
66 GCAGTAGGGTAACAGACCAAA
*
91187769 TTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
91187834 GCAGTAGGGTAACAGACCAAA
66 GCAGTAGGGTAACAGACCAAA
* * *
91187855 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGAAGGGCCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
* * *
91187920 GCAGTAGGGTAACAGGCTGAAT
66 GCAGTAGGGTAACAGAC-CAAA
* * * * *
91187942 TTCCAGATCTTAACCCCCTATGCAGTAG-GGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCCCTA
91188006 AGCAGTAGGGTAACAGACCAAA
65 AGCAGTAGGGTAACAGACCAAA
*
91188028 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGTCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
* * *
91188093 GCAGTAGGGTAACAGGCTGAAT
66 GCAGTAGGGTAACAGAC-CAAA
* * * * * * *
91188115 TTACAGATCTTATCCCCCTAAACAGTAGTGGAGTAGATCGAAGGCG-ATGGCCTT-AACCCTCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCC-CTA
** * *
91188178 AGCAGTAGGGTAGTAGGCTAAA
65 AGCAGTAGGGTAACAGACCAAA
* * * * *
91188200 TTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGTAGAC
1 -TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGAC
91188246 CAAAACACCA
Statistics
Matches: 497, Mismatches: 58, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
85 9 0.02
86 370 0.74
87 118 0.24
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (86 bp):
TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAA
GCAGTAGGGTAACAGACCAAA
Found at i:91188027 original size:173 final size:173
Alignment explanation
Indices: 91187592--91188245 Score: 861
Period size: 173 Copynumber: 3.8 Consensus size: 173
91187582 CTAGAATCAG
* * * ** *
91187592 TGAATTTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 TGAATTTGCAGATCTTATCCCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGGGCCTTAAAC
* * *
91187656 CCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATTTCCCTAAGCAGTAGTGGAGTAGAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
91187721 TGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC
130 CGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * * *
91187765 -CAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACC
1 TGAATTTGCAGATCTTATCCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACC
91187829 CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
66 CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
91187894 AAAGATGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
131 GAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
91187937 TGAATTTCCAGATCTTAACCCCCTATGCAGTAG-GGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTGCAGATCTTATCCCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGGGCCTTAAAC
*
91188001 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
91188066 CGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
130 CGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
91188110 TGAATTTACAGATCTTATCCCCCTAAACAGTAGTGGAGTAGATCGAAGGCG-ATGGCCTT-AACC
1 TGAATTTGCAGATCTTATCCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACC
** * * * * * *
91188173 CTCTAAGCAGTAGGGTAGTAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAG
66 C-CTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAG
*
91188237 ATCGTAGAC
128 ATCGAAGAC
91188246 CAAAACACCA
Statistics
Matches: 427, Mismatches: 47, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
171 5 0.01
172 182 0.43
173 238 0.56
174 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (173 bp):
TGAATTTGCAGATCTTATCCCCCTAAGCAGTAGTGGAACAGATCGAAGACGAAGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
GAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:91188057 original size:259 final size:260
Alignment explanation
Indices: 91187597--91188245 Score: 932
Period size: 259 Copynumber: 2.5 Consensus size: 260
91187587 ATCAGTGAAT
* * * * *
91187597 TTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAACAAATCGAGGTTGATGGGCCTTAAACCCCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGATGAAGGGCCTTAAACCCCTA
* * * *** ** *
91187661 AGCAGTAGGGTAACAGACCGAA-TTGCAGATCTTATTTCCCTAAGCAGTAGTGG-AGTAGATTGA
65 AGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGA
91187724 AGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTA
129 AGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTA
* *
91187789 AGTAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CA
194 AGCAGTAGTGGAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACTCA
91187853 AA
259 AA
*
91187855 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGAAGGGCCTTAAACCCCTAA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGGGCCTTAAACCCCTAA
* *
91187920 GCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTATGCAGTAGGGAAACAGATCGAAG
66 GCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAG
91187985 ACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAG
131 ACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAG
* * *
91188050 CAGTAGTGGAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAT
196 CAGTAGTGGAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACTCAAA
* * * * ** *
91188115 TTACAGATCTTATCCCCCTAAACAGTAGTGGAGTAGATCGAAGGCG-ATGGCCTT-AACCCTCTA
1 TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGGGCCTTAAACCC-CTA
** * *
91188178 AGCAGTAGGGTAGTAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGTA
65 AGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA
91188243 GAC
130 GAC
91188246 CAAAACACCA
Statistics
Matches: 351, Mismatches: 35, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
258 82 0.23
259 228 0.65
260 41 0.12
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (260 bp):
TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGGGCCTTAAACCCCTAA
GCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAG
ACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAG
CAGTAGTGGAACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACTCAAA
Found at i:91189015 original size:125 final size:125
Alignment explanation
Indices: 91188793--91189021 Score: 298
Period size: 125 Copynumber: 1.8 Consensus size: 125
91188783 CGATAGCTTT
* * * * *
91188793 TTAAAATGAGGAAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCTACCGTGTTGGGTTTCG
1 TTAAAATGAGGAAATATTTTGCGTTTGGAAATTCGAGAAATCGTACCCAACCGTGCTGAGTTTCG
* ** * **
91188858 ATTTTTCGTTCAACCGAATAACTGAATATCCTTTTGAAACTTCGTCCATGTTTTTTTAAA
66 ACTTACCGTTCAACCAAATAACCAAATATCCTTTTGAAACTTCGTCCATGTTTTTTTAAA
* * *
91188918 TTAAAATGAGGCAATATTTTGCGTTTGGAAATTCGAGAAATCGTACCCAATCGTGCTGAGTTTTG
1 TTAAAATGAGGAAATATTTTGCGTTTGGAAATTCGAGAAATCGTACCCAACCGTGCTGAGTTTCG
* *
91188983 ACTTACCGCTT-GACCAAATAGCCAAATATCCTTTTGAAA
66 ACTTACCG-TTCAACCAAATAACCAAATATCCTTTTGAAA
91189022 TTTCAAATGC
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
125 85 0.98
126 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (125 bp):
TTAAAATGAGGAAATATTTTGCGTTTGGAAATTCGAGAAATCGTACCCAACCGTGCTGAGTTTCG
ACTTACCGTTCAACCAAATAACCAAATATCCTTTTGAAACTTCGTCCATGTTTTTTTAAA
Found at i:91189964 original size:20 final size:20
Alignment explanation
Indices: 91189942--91189979 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91189932 TTCTATAATT
*
91189942 TTTTTTAT-ATTTTTATAAC
1 TTTTTTATAATTATTATAAC
91189961 TTTTTTATAATTATTATAA
1 TTTTTTATAATTATTATAA
91189980 TATTACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTTATAATTATTATAAC
Found at i:91191431 original size:41 final size:40
Alignment explanation
Indices: 91191363--91191529 Score: 237
Period size: 40 Copynumber: 4.1 Consensus size: 40
91191353 GCAAAAATTG
* *
91191363 TAAAACACAGAGCAATAGCAGCG-TTTTTGGTAAAACGTCGC
1 TAAAA-ACAGAGCACTAGCAGCGCTTTTT-GTAAAACGCCGC
*
91191404 TAAAAACAGAGCACTAGCAGCGCTTTTTGTAAAACGTCGC
1 TAAAAACAGAGCACTAGCAGCGCTTTTTGTAAAACGCCGC
91191444 TAAAAACAGAGCACTAGCAGCGCTTTTTGTAAAACGCCGC
1 TAAAAACAGAGCACTAGCAGCGCTTTTTGTAAAACGCCGC
* * * *
91191484 TAAAGACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAAC-AGAGCACTAGCAGCGCTTTTTGTAAAACGCCGC
91191525 TAAAA
1 TAAAA
91191530 GTCATATAAC
Statistics
Matches: 117, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
40 73 0.62
41 44 0.38
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCACTAGCAGCGCTTTTTGTAAAACGCCGC
Found at i:91191512 original size:80 final size:82
Alignment explanation
Indices: 91191363--91191529 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 82
91191353 GCAAAAATTG
*
91191363 TAAAACACAGAGCAATAGCAGCGTTTTTGGTAAAACGTCGCTAAAAACAGAGCACTAGCAGCGCT
1 TAAAACACAGAGCAATAGCAGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCACTAGCAGCGCT
*
91191428 TTTT-GTAAAACGTCGC
66 TTTTGGTAAAACGCCGC
* * * *
91191444 TAAAA-ACAGAGCACTAGCAGCGCTTTTT-GTAAAACGCCGCTAAAGACTAGAGCATTAGCGGCG
1 TAAAACACAGAGCAATAGCAGCG-TTTTTGGTAAAACGCCGCTAAAAAC-AGAGCACTAGCAGCG
91191507 C-TTTTGGTAAAACGCCGC
64 CTTTTTGGTAAAACGCCGC
91191525 TAAAA
1 TAAAA
91191530 GTCATATAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
80 37 0.48
81 40 0.52
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (82 bp):
TAAAACACAGAGCAATAGCAGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCACTAGCAGCGCT
TTTTGGTAAAACGCCGC
Found at i:91191719 original size:14 final size:14
Alignment explanation
Indices: 91191702--91191764 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
91191692 GTTAAAGGTT
91191702 TATGGTTTAAGATA
1 TATGGTTTAAGATA
* *
91191716 TATGGGTTTAAGGTT
1 TAT-GGTTTAAGATA
*
91191731 TATGAG-TT-A-A-C
1 TATG-GTTTAAGATA
91191742 TATGGTTTAAGATA
1 TATGGTTTAAGATA
91191756 TATGGTTTA
1 TATGGTTTA
91191765 GGGTTTAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
10 1 0.03
11 6 0.16
12 1 0.03
13 2 0.05
14 15 0.39
15 13 0.34
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (14 bp):
TATGGTTTAAGATA
Found at i:91192550 original size:17 final size:18
Alignment explanation
Indices: 91192518--91192552 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
91192508 CTTAACGAAT
*
91192518 TTAATAGCTACCATTTAA
1 TTAATAGCTACAATTTAA
91192536 TTAATA-CTACAATTTAA
1 TTAATAGCTACAATTTAA
91192553 AAATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (18 bp):
TTAATAGCTACAATTTAA
Found at i:91196513 original size:168 final size:168
Alignment explanation
Indices: 91196235--91196569 Score: 636
Period size: 168 Copynumber: 2.0 Consensus size: 168
91196225 TTTGATTGTG
91196235 GTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGCGAACTGTCTGA
1 GTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGCGAACTGTCTGA
91196300 TTTTGCATGGTGGTATGTTCTTTTGTTATGTCAAAGTGATCTAAGTTTGGCTCTCTCTTTCAATA
66 TTTTGCATGGTGGTATGTTCTTTTGTTATGTCAAAGTGATCTAAGTTTGGCTCTCTCTTTCAATA
*
91196365 AAAAAGCTGAAATCAGGGAACGAGATTGGTGCAATGTA
131 AAAAAGATGAAATCAGGGAACGAGATTGGTGCAATGTA
91196403 GTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGC-AGACTGTCTG
1 GTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGCGA-ACTGTCTG
*
91196467 ATTTTGTATGGTGGTATGTTCTTTTGTTATGTCAAAGTGATCTAAGTTTGGCTCTCTCTTTCAAT
65 ATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAAAGTGATCTAAGTTTGGCTCTCTCTTTCAAT
91196532 AAAAAAGATGAAATCAGGGAACGAGATTGGTGCAATGT
130 AAAAAAGATGAAATCAGGGAACGAGATTGGTGCAATGT
91196570 GGTTACATGC
Statistics
Matches: 164, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
167 1 0.01
168 163 0.99
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (168 bp):
GTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGCGAACTGTCTGA
TTTTGCATGGTGGTATGTTCTTTTGTTATGTCAAAGTGATCTAAGTTTGGCTCTCTCTTTCAATA
AAAAAGATGAAATCAGGGAACGAGATTGGTGCAATGTA
Found at i:91197873 original size:43 final size:43
Alignment explanation
Indices: 91197806--91197987 Score: 195
Period size: 43 Copynumber: 4.2 Consensus size: 43
91197796 CTAAAGGTTT
*
91197806 GTTTTGTAGCGGCGTTTGTAAAAAAAGTGTCGCTAAAGGTCATG
1 GTTTT-TAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATG
* * ** * *
91197850 GTTTTTAGCGGCATTTGTGAAAAAA-TATCGTTAAAGGTTATG
1 GTTTTTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATG
* *** *
91197892 ATTTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCATG
1 GTTTTTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATG
* * * *
91197935 GTCTTTAGCCGCGTTTGTAAAAAAAGCGCCGCTAAAGGTTATG
1 GTTTTTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATG
*
91197978 GTCTTTAGCG
1 GTTTTTAGCG
91197988 ACTTTTTTTA
Statistics
Matches: 113, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
42 35 0.31
43 73 0.65
44 5 0.04
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (43 bp):
GTTTTTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATG
Found at i:91197901 original size:85 final size:84
Alignment explanation
Indices: 91197797--91197959 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
91197787 AAAGCGCCAC
* * *
91197797 TAAAGGTTTGTTTTGTAGCGGCGTTTGTAAAAAAAGTGTCGCTAAAGGTCATGGTTTTTAGCGGC
1 TAAAGGTTTGTTTTGTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCCGC
*
91197862 ATTTGTGAAAAAATATCGT
66 ATTTGTAAAAAAATATCGT
*** *
91197881 TAAAGGTTATGATTTT-TAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCATGGTCTTTAGCC
1 TAAAGGTT-TG-TTTTGTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCC
*
91197945 GCGTTTGTAAAAAAA
64 GCATTTGTAAAAAAA
91197960 GCGCCGCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 8 0.12
85 56 0.82
86 4 0.06
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.34
Consensus pattern (84 bp):
TAAAGGTTTGTTTTGTAGCGGCGTTTGTAAAAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCCGC
ATTTGTAAAAAAATATCGT
Found at i:91200803 original size:37 final size:38
Alignment explanation
Indices: 91200748--91200830 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 38
91200738 ATAATATATT
*
91200748 TTATCATAACACTCATCACTTGTTGAC-TGACTGTCTTTA
1 TTAT-ATAACACTCATCACTTATTGACTTG-CTGTCTTTA
*
91200787 TTATATAATACT-ATCACTTATTGACTTGCTGTCTTTA
1 TTATATAACACTCATCACTTATTGACTTGCTGTCTTTA
91200824 TTATATA
1 TTATATA
91200831 TAACTGTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 28 0.68
38 9 0.22
39 4 0.10
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (38 bp):
TTATATAACACTCATCACTTATTGACTTGCTGTCTTTA
Found at i:91202268 original size:35 final size:35
Alignment explanation
Indices: 91202149--91202279 Score: 136
Period size: 35 Copynumber: 3.6 Consensus size: 35
91202139 CCTCATTGAA
* * ***
91202149 ATACCATACCTACATTTTACAACTCGGTATGGGCA
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
* **
91202184 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
*
91202221 ATAATACCATACCTACATATCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
91202259 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
91202280 CTTTGCCATG
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 47 0.60
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:91205258 original size:40 final size:40
Alignment explanation
Indices: 91205214--91205440 Score: 339
Period size: 40 Copynumber: 5.7 Consensus size: 40
91205204 CCAACCCAAT
* * * *
91205214 TGCCTTCGGGATTTAGCCC-GAATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAA-ATAACAACCAGCACGAA
* *
91205254 TGCCTTCGGGACTTAACCCGGAAATAGCGACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
91205294 TGCCTTCGGGGCTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
91205334 TGCCTTCAGGACTTAACTCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
91205374 TGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
91205414 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
91205441 TCCTCAATTG
Statistics
Matches: 169, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 166 0.98
41 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:91210266 original size:23 final size:22
Alignment explanation
Indices: 91210218--91210268 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
91210208 AATTTTGTCT
* **
91210218 TTTTTATTTTCTGTTTTCCTTA
1 TTTTTATTTTCAGTTTTCAATA
*
91210240 TTTTTATTTTCAGTTTTCAAATC
1 TTTTTATTTTCAGTTTTC-AATA
91210263 TTTTTA
1 TTTTTA
91210269 AAACAGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTATTTTCAGTTTTCAATA
Found at i:91211016 original size:3 final size:3
Alignment explanation
Indices: 91211008--91211043 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
91210998 GTCCTTTCAA
*
91211008 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
91211044 CGTCCATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:91211260 original size:3 final size:3
Alignment explanation
Indices: 91211252--91211343 Score: 91
Period size: 3 Copynumber: 30.7 Consensus size: 3
91211242 AAAGTTTAGG
*
91211252 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TCTA TT- TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
91211296 TTA TTA TCA CTA TCGTA TTA CTA CTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91211342 TT
1 TT
91211344 TTCCTTTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
2 5 0.07
3 67 0.88
4 1 0.01
5 3 0.04
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:91212360 original size:253 final size:253
Alignment explanation
Indices: 91211907--91212375 Score: 706
Period size: 253 Copynumber: 1.9 Consensus size: 253
91211897 AAAAAGATTC
* * *
91211907 TTTAAACAAGGCAATATCTCTTGTTTGGAAATTGGAGAAAATTGTGCCCTACGTGTTGGGTTTCG
1 TTTAAACAAGGCAATATCTCGTGTTTGGAAATTCGAGAAAATTGTGCCCTAAGTGTTGGGTTTCG
* *
91211972 ATTTATCATTTGGCCAAACAACCGAATATCCTTTTTAAAATTTCAACGCATAAGTTTTGAAAATC
66 ATTTATCATTTGACCAAACAACCGAATATCCTTTTTAAAATTTCAACGCATAAATTTTGAAAATC
* * * *
91212037 ATGAGATGATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTGCAGGATGTGGTATTTTAT
131 ATGAGACGATTTTGATATCGAAGGTTTGAAATATCATGTCCTACGTGCAGGATATGATATTTTAT
91212102 TTCTTCAAAATAAGAGAATCTTAATCGTTTCATACTATTGCATTTTTATTCAATACTT
196 TTCTTCAAAATAAGAGAATCTTAATCGTTTCATACTATTGCATTTTTATTCAATACTT
* *
91212160 TTTAGACAAGGCAATATTTCGTGTTTGGAAATTTCGAG-AAATTGTGCCCTAAGTGTTGGGTTTC
1 TTTAAACAAGGCAATATCTCGTGTTTGGAAA-TTCGAGAAAATTGTGCCCTAAGTGTTGGGTTTC
* * * * * **
91212224 GATTTATCGTTTGACCGAACGACCGAATATCCTTTTTAAATTTTCAATGCATAAATTTTGGGAAT
65 GATTTATCATTTGACCAAACAACCGAATATCCTTTTTAAAATTTCAACGCATAAATTTTGAAAAT
* * ** *
91212289 TATGAGACGATTTTGATATCGAAGGTTTGAAATGTTGTGTCCTACGTGCTGGATATGATATTTTA
130 CATGAGACGATTTTGATATCGAAGGTTTGAAATATCATGTCCTACGTGCAGGATATGATATTTTA
*
91212354 TTTCTTCGAAATAAGAGAATCT
195 TTTCTTCAAAATAAGAGAATCT
91212376 CAATATTCAC
Statistics
Matches: 191, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
253 186 0.97
254 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (253 bp):
TTTAAACAAGGCAATATCTCGTGTTTGGAAATTCGAGAAAATTGTGCCCTAAGTGTTGGGTTTCG
ATTTATCATTTGACCAAACAACCGAATATCCTTTTTAAAATTTCAACGCATAAATTTTGAAAATC
ATGAGACGATTTTGATATCGAAGGTTTGAAATATCATGTCCTACGTGCAGGATATGATATTTTAT
TTCTTCAAAATAAGAGAATCTTAATCGTTTCATACTATTGCATTTTTATTCAATACTT
Found at i:91213754 original size:14 final size:14
Alignment explanation
Indices: 91213735--91213765 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
91213725 AGTCATCTCG
91213735 AAACATAATTTTAT
1 AAACATAATTTTAT
91213749 AAACATAATTTTAT
1 AAACATAATTTTAT
91213763 AAA
1 AAA
91213766 TATTAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AAACATAATTTTAT
Found at i:91215554 original size:22 final size:22
Alignment explanation
Indices: 91215528--91215572 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
91215518 AATAAGAATT
91215528 AAAGCTACCTTAGTTTGGCCTA
1 AAAGCTACCTTAGTTTGGCCTA
91215550 AAAGCTACCTTAGTTTGGCCTA
1 AAAGCTACCTTAGTTTGGCCTA
91215572 A
1 A
91215573 CTTGGCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (22 bp):
AAAGCTACCTTAGTTTGGCCTA
Found at i:91216949 original size:3 final size:3
Alignment explanation
Indices: 91216941--91216965 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
91216931 TTTTGGTATG
91216941 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
91216966 ATAGGTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:91217898 original size:6 final size:6
Alignment explanation
Indices: 91217887--91217913 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
91217877 GCTAAATGCT
91217887 TTCTCC TTCTCC TTCTCC TTCTCC TTC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTC
91217914 CTCTTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCTCC
Found at i:91217919 original size:12 final size:13
Alignment explanation
Indices: 91217889--91217924 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
91217879 TAAATGCTTT
91217889 CTCCTTCTCCTT-
1 CTCCTTCTCCTTC
91217901 CTCCTTCTCCTTC
1 CTCCTTCTCCTTC
91217914 CT-CTTC-CCTTC
1 CTCCTTCTCCTTC
91217925 ATTGTGTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 16 0.70
13 2 0.09
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (13 bp):
CTCCTTCTCCTTC
Found at i:91217919 original size:18 final size:17
Alignment explanation
Indices: 91217887--91217924 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
91217877 GCTAAATGCT
91217887 TTCTCCTTCTCCTTCTCC
1 TTCTCCTTCTCCTTC-CC
91217905 TTCTCCTTC-CTCTTCCC
1 TTCTCCTTCTC-CTTCCC
91217922 TTC
1 TTC
91217925 ATTGTGTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (17 bp):
TTCTCCTTCTCCTTCCC
Found at i:91220053 original size:3 final size:3
Alignment explanation
Indices: 91220034--91220455 Score: 139
Period size: 3 Copynumber: 141.7 Consensus size: 3
91220024 TGGTTTAATG
* * *
91220034 TTA TTA -TA TTTA CTA TTA TTA TT- TTA CTA TTA TTA -TA TAA TATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * * *
91220078 TTT TTA TTA TCA TAA TTT TTA TTA TT- TTA CTA TTA TAA CTTAA CGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TT-A -TTA
* * * **
91220125 TTA TTA TTA CTA TTA TTT TTA TTT TTA TTA CCA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
91220172 CTT- GTA TT- TATA TTTA TT- TTA TT- CTA ATA CCA TTA TTA TTA TTA
1 -TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
91220216 CTT- CTA TTA TT- TT- TTA TT- TCTAA CTA TTA TTA TTCA TATA TATA
1 -TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TT-A T-TA T-TA
* * *
91220260 TTA TTA TT- TGTA TTA TTG TTA TTA TTA CTA TTA TTA ATA -TA CTTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * *
91220305 TTA TTG CTA TTA TTA TTT TTA CTA TTA TTA TTA TT- TTA TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
91220351 CTT- TTA TTA TTA TTA ATA TTA TTA TTA TCA -TC TTA TT- TTA TTG
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
91220394 CTA TTA TCA TTG TTG TAA TTA CTA TTA CTA GTA TTA TTA TT- TTT TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
*
91220442 CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
91220456 GGTAGTAGTA
Statistics
Matches: 304, Mismatches: 79, Indels: 72
0.67 0.17 0.16
Matches are distributed among these distances:
2 34 0.11
3 239 0.79
4 26 0.09
5 5 0.02
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:91220115 original size:23 final size:22
Alignment explanation
Indices: 91220047--91220115 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
91220037 TTATATTTAC
*
91220047 TATTATTATTTTACTATTATTA
1 TATTATTATTTTACTATTATAA
* * *
91220069 TATAATATATTTTTATTATCATAA
1 TATTAT-TA-TTTTACTATTATAA
*
91220093 TTTTTATTATTTTACTATTATAA
1 -TATTATTATTTTACTATTATAA
91220116 CTTAACGTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
22 5 0.14
23 14 0.39
24 13 0.36
25 4 0.11
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATTTTACTATTATAA
Found at i:91220132 original size:47 final size:47
Alignment explanation
Indices: 91220049--91220161 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 47
91220039 ATATTTACTA
* * *
91220049 TTATTATTTTACTATTATTATATAATATATTTTTATTA-TCATAATTT
1 TTATTATTTTACTATTATAATATAACATATTATTATTACT-ATAATTT
* *
91220096 TTATTATTTTACTATTATAACT-TAACGTATTATTATTACTATTATTT
1 TTATTATTTTACTATTATAA-TATAACATATTATTATTACTATAATTT
* *
91220143 TTATTTTTATTACCATTAT
1 TTATTATT-TTACTATTAT
91220162 TATTATTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
47 45 0.80
48 11 0.20
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (47 bp):
TTATTATTTTACTATTATAATATAACATATTATTATTACTATAATTT
Found at i:91220374 original size:43 final size:43
Alignment explanation
Indices: 91220270--91220455 Score: 139
Period size: 43 Copynumber: 4.3 Consensus size: 43
91220260 TTATTATTTG
* * * * * *
91220270 TATTATTGTTATTATTACTATTATTAATATACTTA--TTATTGC
1 TATTATTATTATTAATACTATTATTATTAT-TTTATTTTTTTAC
91220312 TATTATTATT-TT--TACTATTATTATTATTTTATTTTTTTAC
1 TATTATTATTATTAATACTATTATTATTATTTTATTTTTTTAC
* * * * * *
91220352 TTTTATTATTATTAATATTATTATTATCATCTTATTTTATTGC
1 TATTATTATTATTAATACTATTATTATTATTTTATTTTTTTAC
* * * *
91220395 TATTATCATTGTTGTAATTACTATTACTAGTATTATTATTTTTTTAAC
1 TATTATTATT-AT-TAA-TACTATTATTATTATT-TTATTTTTTT-AC
91220443 TATTATTATTATT
1 TATTATTATTATT
91220456 GGTAGTAGTA
Statistics
Matches: 111, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
38 3 0.03
39 14 0.13
40 14 0.13
41 4 0.04
42 9 0.08
43 31 0.28
44 1 0.01
45 3 0.03
46 12 0.11
47 10 0.09
48 10 0.09
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (43 bp):
TATTATTATTATTAATACTATTATTATTATTTTATTTTTTTAC
Found at i:91220716 original size:18 final size:18
Alignment explanation
Indices: 91220693--91220776 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
91220683 AATTTCTCTT
91220693 ATTATTAATATTATTCTC
1 ATTATTAATATTATTCTC
* *
91220711 ATTATTAACA-CATT-T-
1 ATTATTAATATTATTCTC
91220726 -TT-TTAAT-TTATTTGCTC
1 ATTATTAATATTA-TT-CTC
91220743 ATTATTAATATTATTCTC
1 ATTATTAATATTATTCTC
91220761 ATTATTAATATCTATT
1 ATTATTAATAT-TATT
91220777 TGCTCATTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
13 5 0.09
14 4 0.08
16 2 0.04
17 3 0.06
18 25 0.47
19 11 0.21
20 3 0.06
ACGTcount: A:0.32, C:0.11, G:0.01, T:0.56
Consensus pattern (18 bp):
ATTATTAATATTATTCTC
Found at i:91222190 original size:21 final size:21
Alignment explanation
Indices: 91222160--91222201 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
91222150 GTTGATCCTG
*
91222160 AACTTTTTGCAAGAGAGACAA
1 AACTTCTTGCAAGAGAGACAA
91222181 AACTTCTTGCAAGAGAGACAA
1 AACTTCTTGCAAGAGAGACAA
91222202 TTTATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (21 bp):
AACTTCTTGCAAGAGAGACAA
Found at i:91223753 original size:18 final size:18
Alignment explanation
Indices: 91223732--91223774 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
91223722 ATAATTTAAA
91223732 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
91223750 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
91223768 ATGTAAA
1 ATATAAA
91223775 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:91225519 original size:37 final size:37
Alignment explanation
Indices: 91225469--91225542 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
91225459 TGATTAAAAG
91225469 AAAATTTATGTCCATATGCAACGATTTCAGCTATCTT
1 AAAATTTATGTCCATATGCAACGATTTCAGCTATCTT
91225506 AAAATTTATGTCCATATGCAACGATTTCAGCTATCTT
1 AAAATTTATGTCCATATGCAACGATTTCAGCTATCTT
91225543 CTTCCTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (37 bp):
AAAATTTATGTCCATATGCAACGATTTCAGCTATCTT
Found at i:91226915 original size:18 final size:18
Alignment explanation
Indices: 91226894--91226933 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
91226884 ATCTAGTTTC
91226894 ATTTTTCATTCTACGACT
1 ATTTTTCATTCTACGACT
91226912 ATTTTTCATTCTACGACT
1 ATTTTTCATTCTACGACT
91226930 ATTT
1 ATTT
91226934 CTTGATAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTTCATTCTACGACT
Found at i:91232418 original size:14 final size:14
Alignment explanation
Indices: 91232399--91232425 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91232389 ACGGTTTGAC
91232399 AATAATACGACATA
1 AATAATACGACATA
91232413 AATAATACGACAT
1 AATAATACGACAT
91232426 TCCAAGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (14 bp):
AATAATACGACATA
Found at i:91238257 original size:21 final size:21
Alignment explanation
Indices: 91238228--91238268 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
91238218 ATGCCATTAG
* *
91238228 GGTTTAAACAAAAAAGGAAAT
1 GGTTCAAACAAAAAACGAAAT
*
91238249 GGTTCAAACGAAAAACGAAA
1 GGTTCAAACAAAAAACGAAA
91238269 ATGGGTGTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.15
Consensus pattern (21 bp):
GGTTCAAACAAAAAACGAAAT
Found at i:91238270 original size:22 final size:21
Alignment explanation
Indices: 91238228--91238272 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
91238218 ATGCCATTAG
* *
91238228 GGTTTAAACAAAAAAGGAAAT
1 GGTTCAAACAAAAAAGAAAAT
*
91238249 GGTTCAAACGAAAAACGAAAAT
1 GGTTCAAAC-AAAAAAGAAAAT
91238271 GG
1 GG
91238273 GTGTTCGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.09, G:0.22, T:0.16
Consensus pattern (21 bp):
GGTTCAAACAAAAAAGAAAAT
Found at i:91243393 original size:11 final size:11
Alignment explanation
Indices: 91243373--91243414 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
91243363 TTAGAATATA
*
91243373 CCCATTCCTTG
1 CCCATACCTTG
91243384 CCCATACCTTG
1 CCCATACCTTG
*
91243395 CCCATACCTTT
1 CCCATACCTTG
91243406 CCCATACCT
1 CCCATACCT
91243415 ACTCATACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.17, C:0.48, G:0.05, T:0.31
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:91243989 original size:18 final size:18
Alignment explanation
Indices: 91243966--91244036 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
91243956 TTTACGACAT
*
91243966 TATTTACGTATACAGCAC
1 TATTTACGTATACAGTAC
* *
91243984 TATTTATGTATA-TGATAC
1 TATTTACGTATACAG-TAC
*
91244002 TATTTACGTATATAGTAC
1 TATTTACGTATACAGTAC
* *
91244020 TGTTCACGTATACAGTA
1 TATTTACGTATACAGTA
91244037 GTTGGGATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 1 0.02
18 41 0.95
19 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (18 bp):
TATTTACGTATACAGTAC
Found at i:91248632 original size:18 final size:18
Alignment explanation
Indices: 91248609--91248677 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
91248599 CAGTTACGGT
*
91248609 ACTATTCACGTATATGAC
1 ACTATTCACGTATACGAC
* *
91248627 ACTATTCACGTTTACGAT
1 ACTATTCACGTATACGAC
* *
91248645 ACTATTTACGTATAC-AGT
1 ACTATTCACGTATACGA-C
*
91248663 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
91248678 AGTAGCTGGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 1 0.02
18 42 0.98
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:91250323 original size:11 final size:11
Alignment explanation
Indices: 91250304--91250345 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
91250294 TAGAATATAT
*
91250304 CCATTCCTTGC
1 CCATACCTTGC
*
91250315 CCATACCTTTC
1 CCATACCTTGC
*
91250326 CCATACC-TAC
1 CCATACCTTGC
91250336 CCATACCTTG
1 CCATACCTTG
91250346 GAAAGGTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.19, C:0.45, G:0.05, T:0.31
Consensus pattern (11 bp):
CCATACCTTGC
Found at i:91250898 original size:18 final size:18
Alignment explanation
Indices: 91250875--91250945 Score: 97
Period size: 18 Copynumber: 3.9 Consensus size: 18
91250865 CCATTTATAG
*
91250875 CACTATTCACATATACAA
1 CACTATTCACGTATACAA
*
91250893 CACTATTCACGTATACGA
1 CACTATTCACGTATACAA
* *
91250911 CACTATTTACGTATACAG
1 CACTATTCACGTATACAA
*
91250929 TACTATTCACGTATACA
1 CACTATTCACGTATACA
91250946 GTAGTTGGGA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (18 bp):
CACTATTCACGTATACAA
Found at i:91252601 original size:10 final size:11
Alignment explanation
Indices: 91252585--91252626 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
91252575 TGACCTTTCC
91252585 AAGGTATGGG-
1 AAGGTATGGGA
*
91252595 TAGGTATGGGA
1 AAGGTATGGGA
*
91252606 AAGGTATGGGC
1 AAGGTATGGGA
*
91252617 AAGGAATGGG
1 AAGGTATGGG
91252627 TATATTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:91259054 original size:22 final size:21
Alignment explanation
Indices: 91259015--91259076 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
91259005 TTTTTATAAA
* **
91259015 TTTTAATTTTAATTTTTATAT
1 TTTTATTTTTAAGATTTATAT
*
91259036 TTTTATTTTTAAGAATTTAATTT
1 TTTTATTTTTAAG-ATTT-ATAT
91259059 TTTTATTTTTAAGATTTA
1 TTTTATTTTTAAGATTTA
91259077 AAAAATTCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.34
22 7 0.20
23 16 0.46
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTATTTTTAAGATTTATAT
Found at i:91259077 original size:22 final size:23
Alignment explanation
Indices: 91259035--91259077 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
91259025 AATTTTTATA
91259035 TTTTTATTTTTAAGAATTTAATT
1 TTTTTATTTTTAAGAATTTAATT
91259058 TTTTTATTTTTAAG-ATTTAA
1 TTTTTATTTTTAAGAATTTAA
91259078 AAAATTCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
TTTTTATTTTTAAGAATTTAATT
Found at i:91269371 original size:25 final size:25
Alignment explanation
Indices: 91269342--91269389 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
91269332 TTATAATATG
* * *
91269342 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
91269367 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
91269390 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:91269441 original size:9 final size:9
Alignment explanation
Indices: 91269427--91269501 Score: 53
Period size: 9 Copynumber: 7.8 Consensus size: 9
91269417 TTTGATAAAC
91269427 TGATATGTA
1 TGATATGTA
*
91269436 TGATATGCACA
1 TGATATG--TA
91269447 TGATATGTA
1 TGATATGTA
*
91269456 TGAT-TGCAGA
1 TGATATG--TA
*
91269466 TGACATGTA
1 TGATATGTA
*
91269475 TGATATGCACA
1 TGATATG--TA
91269486 TGATATGTA
1 TGATATGTA
91269495 TGATATG
1 TGATATG
91269502 CACACGAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
8 2 0.04
9 27 0.53
10 4 0.08
11 18 0.35
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (9 bp):
TGATATGTA
Found at i:91269513 original size:20 final size:20
Alignment explanation
Indices: 91269427--91269505 Score: 133
Period size: 20 Copynumber: 4.0 Consensus size: 20
91269417 TTTGATAAAC
91269427 TGATATGTATGATATGCACA
1 TGATATGTATGATATGCACA
*
91269447 TGATATGTATGAT-TGCAGA
1 TGATATGTATGATATGCACA
*
91269466 TGACATGTATGATATGCACA
1 TGATATGTATGATATGCACA
91269486 TGATATGTATGATATGCACA
1 TGATATGTATGATATGCACA
91269506 CGAGATGTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.31
20 37 0.69
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
TGATATGTATGATATGCACA
Found at i:91269584 original size:24 final size:24
Alignment explanation
Indices: 91269557--91269704 Score: 246
Period size: 24 Copynumber: 6.2 Consensus size: 24
91269547 GAGGAAGTGC
*
91269557 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91269581 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91269605 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91269629 AAAAGGGCTTATGTCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91269653 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91269676 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
91269700 AAAAG
1 AAAAG
91269705 AAGCTAGGCC
Statistics
Matches: 117, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 27 0.23
24 81 0.69
25 9 0.08
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:91269674 original size:71 final size:72
Alignment explanation
Indices: 91269557--91269704 Score: 246
Period size: 71 Copynumber: 2.1 Consensus size: 72
91269547 GAGGAAGTGC
91269557 AAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCC
1 AAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCC
*
91269621 TAGTTATT
65 CAGTTATT
* *
91269629 AAAAGGGCTTATGTCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCC
1 AAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCC
91269693 AGTTATT
66 AGTTATT
91269700 AAAAG
1 AAAAG
91269705 AAGCTAGGCC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
71 40 0.56
72 32 0.44
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCC
AGTTATT
Found at i:91277159 original size:25 final size:25
Alignment explanation
Indices: 91277130--91277177 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
91277120 TTATAATATG
* * *
91277130 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
91277155 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
91277178 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:91277228 original size:9 final size:9
Alignment explanation
Indices: 91277216--91277292 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
91277206 TTTGATAAAC
91277216 ATGATATGT
1 ATGATATGT
*
91277225 ATGATATGCAC
1 ATGATATG--T
91277236 ATGATATGT
1 ATGATATGT
*
91277245 ATGATATGAAG
1 ATGATATG--T
*
91277256 ATGACATGT
1 ATGATATGT
91277265 ATGATATGT
1 ATGATATGT
91277274 ACATGATATGT
1 --ATGATATGT
91277285 ATGATATG
1 ATGATATG
91277293 CACACGAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:91277304 original size:20 final size:20
Alignment explanation
Indices: 91277214--91277296 Score: 130
Period size: 20 Copynumber: 4.2 Consensus size: 20
91277204 ATTTTGATAA
91277214 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
91277234 ACATGATATGTATGATATGA
1 ACATGATATGTATGATATGC
* * *
91277254 AGATGACATGTATGATATGT
1 ACATGATATGTATGATATGC
91277274 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
91277294 ACA
1 ACA
91277297 CGAGATGTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:91277488 original size:25 final size:24
Alignment explanation
Indices: 91277349--91277492 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
91277339 GAGGAAGTGC
*
91277349 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91277373 AAAAGGGCTTATGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91277397 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91277421 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91277444 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
91277469 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
91277493 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
23 28 0.26
24 50 0.46
25 21 0.19
26 9 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:91277720 original size:31 final size:31
Alignment explanation
Indices: 91277685--91277748 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
91277675 CGTTTACCGT
91277685 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
91277716 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
91277747 AA
1 AA
91277749 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:91282888 original size:13 final size:13
Alignment explanation
Indices: 91282870--91282905 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
91282860 GCAGTGTGAA
91282870 GGACACGGGCCAG
1 GGACACGGGCCAG
91282883 GGACACGGGCCAG
1 GGACACGGGCCAG
91282896 GGACACGGGC
1 GGACACGGGC
91282906 GTGTGCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.47, T:0.00
Consensus pattern (13 bp):
GGACACGGGCCAG
Found at i:91284418 original size:18 final size:18
Alignment explanation
Indices: 91284397--91284682 Score: 112
Period size: 18 Copynumber: 15.3 Consensus size: 18
91284387 GAACAATTAT
91284397 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
91284415 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
91284433 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
91284451 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
91284477 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * * *
91284495 TTATTTAGTAA-AATAAA
1 TTATTCAGTAACAGTCAG
* * * *
91284512 ATATTCAGTAGCAATTTAAG
1 TTATTCAGTAAC-A-GTCAG
91284532 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
91284549 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
91284568 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
91284586 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
91284604 TTATTCAGTAACAATCTA-
1 TTATTCAGTAACAGTC-AG
* * *
91284622 ATATCCAGTAACAGTCAAAA
1 TTATTCAGTAACAGTC--AG
* * *
91284642 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
91284660 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
91284678 TTATT
1 TTATT
91284683 TTATACCTTT
Statistics
Matches: 199, Mismatches: 51, Indels: 36
0.70 0.18 0.13
Matches are distributed among these distances:
17 14 0.07
18 135 0.68
19 7 0.04
20 27 0.14
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:91284437 original size:36 final size:36
Alignment explanation
Indices: 91284384--91284682 Score: 183
Period size: 36 Copynumber: 8.0 Consensus size: 36
91284374 TCATTAACAC
* * *
91284384 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
91284419 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
91284455 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
* * * * *
91284499 TTAGTAA-AATAAAATATTCAGTAGCAATTTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAA--TCAGTTAT
* *
91284536 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * *
91284572 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * *
91284608 TCAGTAACAATCTAA-TATCCAGTAACAGTCAAAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAATC--AGTTAT
* * * *
91284646 CCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
91284682 T
1 T
91284683 TTATACCTTT
Statistics
Matches: 195, Mismatches: 51, Indels: 35
0.69 0.18 0.12
Matches are distributed among these distances:
35 10 0.05
36 99 0.51
37 23 0.12
38 38 0.19
42 2 0.01
43 6 0.03
44 17 0.09
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:91284859 original size:59 final size:59
Alignment explanation
Indices: 91284787--91284988 Score: 332
Period size: 59 Copynumber: 3.4 Consensus size: 59
91284777 CCGAAGCCGA
* *
91284787 AACAGTAACAGTAACAGTAGCAGTACGGTACATAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
*
91284846 AACAGTAATAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
* * * *
91284905 AACAATAACAGTAACAGTAGCAGTATGGTACACAGAGTAACTCATCGGAATAAATTCGG
1 AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
*
91284964 AACAGTAACAGTAACAGTAACAGTA
1 AACAGTAACAGTAACAGTAGCAGTA
91284989 GCAGTATGGT
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 133 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (59 bp):
AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
Found at i:91284975 original size:6 final size:6
Alignment explanation
Indices: 91284964--91284994 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
91284954 ATAAATTCGG
*
91284964 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
91284995 TGGTAACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:91285212 original size:59 final size:59
Alignment explanation
Indices: 91285140--91285345 Score: 315
Period size: 59 Copynumber: 3.5 Consensus size: 59
91285130 CCGAAGCCGA
* * *
91285140 AACAGTAACAGTAACAGTAGCAGTACGGTACATAGAGTACCTCATCGGAACAAATCCGT
1 AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
* * *
91285199 AACAGTAATAGTAACAGTAGCAGTATGGTACACAGGGTACCTCATTGGAACAAATCCGG
1 AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
* * *
91285258 AACAATAACAGTAACAGTAGCAGTATGGTACACAGAGTAACTCATCGGAATAAAT-CGG
1 AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
*
91285316 AATAGTAACAGTAACAGTAGCAGTATGGTA
1 AACAGTAACAGTAACAGTAGCAGTATGGTA
91285346 ACAATATCTG
Statistics
Matches: 133, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 31 0.23
59 102 0.77
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (59 bp):
AACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGG
Found at i:91285578 original size:59 final size:59
Alignment explanation
Indices: 91285486--91285690 Score: 268
Period size: 59 Copynumber: 3.4 Consensus size: 59
91285476 CTGAAGCCGA
* * * *
91285486 AACAGTAACAGTACGGTACATAGAGTACCTCATCGGAACAAATCCGGAACAGTAATAGT
1 AACAGTAGCAGTATGGTACACAAAGTACCTCATCGGAACAAATCCGGAACAGTAATAGT
* *
91285545 AACAGTAGCAGTTTGGTACACAAAGTACCTCATCGGAACAAATCTGGAACAGTAACAGTAACAGT
1 AACAGTAGCAGTATGGTACACAAAGTACCTCATCGGAACAAATCCGGAACAGT-A-A-T---AGT
* * *
91285610 AACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAATAAATCCGGAACAGTAACAGT
1 AACAGTAGCAGTATGGTACACAAAGTACCTCATCGGAACAAATCCGGAACAGTAATAGT
91285669 AACAGTAGCAGTATGGTA-ACAA
1 AACAGTAGCAGTATGGTACACAA
91285691 TATCTGACAC
Statistics
Matches: 128, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
58 3 0.02
59 68 0.53
60 1 0.01
61 1 0.01
62 1 0.01
63 1 0.01
64 1 0.01
65 52 0.41
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (59 bp):
AACAGTAGCAGTATGGTACACAAAGTACCTCATCGGAACAAATCCGGAACAGTAATAGT
Found at i:91285603 original size:6 final size:6
Alignment explanation
Indices: 91285592--91285622 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
91285582 ACAAATCTGG
*
91285592 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
91285623 TGGTACACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:91285637 original size:65 final size:65
Alignment explanation
Indices: 91285486--91285681 Score: 278
Period size: 65 Copynumber: 3.1 Consensus size: 65
91285476 CTGAAGCCGA
* * *
91285486 AACAGTAACAGTACGGTACATAGAGTACCTCATCGGAACAAATCCGGAACAGT-A-A-T---AGT
1 AACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAGTAACAGT
* * *
91285545 AACAGTAGCAGTTTGGTACACAAAGTACCTCATCGGAACAAATCTGGAACAGTAACAGTAACAGT
1 AACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAGTAACAGT
*
91285610 AACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAATAAATCCGGAACAGTAACAGTAACAGT
1 AACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAGTAACAGT
*
91285675 AGCAGTA
1 AACAGTA
91285682 TGGTAACAAT
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
59 47 0.39
60 1 0.01
61 1 0.01
62 1 0.01
65 70 0.58
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (65 bp):
AACAGTAGCAGTATGGTACACAGAGTACCTCATCGGAACAAATCCGGAACAGTAACAGTAACAGT
Found at i:91285735 original size:45 final size:45
Alignment explanation
Indices: 91285684--91285812 Score: 206
Period size: 45 Copynumber: 2.9 Consensus size: 45
91285674 TAGCAGTATG
* *
91285684 GTAACAATA-TCTGACACACAAAGTGCTGAATCAGTAACGGTAACA
1 GTAACAATATTC-GACACACAAAGTGCCGAATCGGTAACGGTAACA
*
91285729 GTAACAATATTCGACACACAAAGTGCCAAATCGGTAACGGTAACA
1 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACA
*
91285774 GTAACAATATTCGACACATAAAGTGCCGAATCGGTAACG
1 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
91285813 ATAATGTAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 76 0.97
46 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACA
Found at i:91290058 original size:37 final size:37
Alignment explanation
Indices: 91290008--91290086 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
91289998 TTATTACGAA
* * * *
91290008 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAACCCCCACACGAAGTCATCGG
*
91290045 GTCTTACCCGGACAAAACCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAACCCCCACACGAAGTCATCGG
91290082 GTCTT
1 GTCTT
91290087 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:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAACCCCCACACGAAGTCATCGG
Found at i:91290266 original size:49 final size:47
Alignment explanation
Indices: 91290204--91290312 Score: 182
Period size: 49 Copynumber: 2.3 Consensus size: 47
91290194 GCCCTTCGGG
91290204 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
91290254 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
91290301 ACTTTCACATTC
1 ACTTTCACATTC
91290313 TCAAAGTAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
47 20 0.34
49 34 0.59
50 4 0.07
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:91290631 original size:24 final size:23
Alignment explanation
Indices: 91290583--91290640 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
91290573 TAATCAAACA
91290583 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
91290607 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
91290631 TTATT-TTATA
1 TTATTATTATA
91290641 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:91293845 original size:40 final size:40
Alignment explanation
Indices: 91293786--91293982 Score: 225
Period size: 40 Copynumber: 4.9 Consensus size: 40
91293776 TGAATACACG
* * * * *
91293786 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * * * *
91293826 ACACCAGCACGAATGCTCTTTTGGG-TTTAGCACAGATATA
1 TCACTAGCATGAATGCTC-TTCGGGACTTAGCCCGGATACA
* **
91293866 TCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
91293906 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
91293946 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
91293983 TTAGTAACTC
Statistics
Matches: 133, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 3 0.02
40 125 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:91294007 original size:40 final size:40
Alignment explanation
Indices: 91293801--91294061 Score: 205
Period size: 40 Copynumber: 6.5 Consensus size: 40
91293791 AGCATGATTA
* * *
91293801 CTCTTCGGGACCTAGCCCGGATATA-ACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
* * * *
91293841 CTCTTTTGGG-TTTAGCACAGATATA-TCACTAGCACGAATG
1 CTC-TTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
** * *
91293881 CTCTTCGAAACTTAGCCCGGATACA-TCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAATG
* * *
91293921 CTCTTCGGGACTTAGCCCGGATACA-TCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAATG
* * *
91293961 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAATG
* * *
91294002 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAG
1 CTCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAATG
*
91294042 C-CTTTGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
91294062 CATCGTTCGA
Statistics
Matches: 181, Mismatches: 33, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
39 6 0.03
40 152 0.84
41 23 0.13
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
Found at i:91294007 original size:120 final size:120
Alignment explanation
Indices: 91293786--91294023 Score: 264
Period size: 120 Copynumber: 2.0 Consensus size: 120
91293776 TGAATACACG
* * *
91293786 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTTGGG
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTTCGGG
* * *
91293851 TTTAGCACAGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
66 CTTAGCACAGATATATAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATACA
* * * * * * *
91293906 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTC-TTCGGG
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTTCGGG
* * * * * * *
91293970 ACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATA
66 -CTTAGCACAGATATA-TAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATA
91294024 TGGTCACTTA
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
119 5 0.05
120 78 0.81
121 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATACAACACCAGCACGAATGCTCTTTCGGG
CTTAGCACAGATATATAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATACA
Found at i:91294406 original size:29 final size:29
Alignment explanation
Indices: 91294367--91294445 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
91294357 CTTAATAATC
*
91294367 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
91294397 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
91294426 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
91294446 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:91294485 original size:43 final size:43
Alignment explanation
Indices: 91294427--91294529 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
91294417 TGCATTTCAA
*
91294427 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCAAATCTCACAACCGTGAACACTTATT
*
91294470 TCCCGCACACTTAGTGCAAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCAAATCTCACAACCGTGAACACTTATT
91294513 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
91294530 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCAAATCTCACAACCGTGAACACTTATT
Found at i:91296445 original size:37 final size:37
Alignment explanation
Indices: 91296395--91296473 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
91296385 TTATTACGAA
* * *
91296395 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
91296432 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
91296469 GTCTT
1 GTCTT
91296474 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:91296668 original size:49 final size:49
Alignment explanation
Indices: 91296591--91296748 Score: 275
Period size: 49 Copynumber: 3.2 Consensus size: 49
91296581 GCCCTTCGGG
91296591 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
91296641 ACTTTCACATTCATCACATCGGCCATTAGACCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
91296690 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
91296737 ACTTTCACATTC
1 ACTTTCACATTC
91296749 TCAAAGTAAG
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
47 20 0.19
49 81 0.77
50 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
Found at i:91297067 original size:24 final size:23
Alignment explanation
Indices: 91297019--91297076 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
91297009 TAATCAAACA
91297019 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
91297043 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
91297067 TTATT-TTATA
1 TTATTATTATA
91297077 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:91300478 original size:3 final size:3
Alignment explanation
Indices: 91300470--91300498 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
91300460 GTTTTATATT
91300470 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
91300499 TATTATTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:91306098 original size:16 final size:16
Alignment explanation
Indices: 91306077--91306109 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
91306067 AGTCTTAGAA
91306077 AAAGAGGACTATGTTT
1 AAAGAGGACTATGTTT
91306093 AAAGAGGACTATGTTT
1 AAAGAGGACTATGTTT
91306109 A
1 A
91306110 CTTGCTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (16 bp):
AAAGAGGACTATGTTT
Found at i:91308375 original size:29 final size:29
Alignment explanation
Indices: 91308333--91308406 Score: 148
Period size: 29 Copynumber: 2.6 Consensus size: 29
91308323 GTGCCGATAT
91308333 CATGGCCCGAAGCCAACTCATTCAACATC
1 CATGGCCCGAAGCCAACTCATTCAACATC
91308362 CATGGCCCGAAGCCAACTCATTCAACATC
1 CATGGCCCGAAGCCAACTCATTCAACATC
91308391 CATGGCCCGAAGCCAA
1 CATGGCCCGAAGCCAA
91308407 ATCGATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.15
Consensus pattern (29 bp):
CATGGCCCGAAGCCAACTCATTCAACATC
Found at i:91312088 original size:33 final size:34
Alignment explanation
Indices: 91312023--91312090 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
91312013 TTAAACCCTA
* *
91312023 ACTTAATTTATTTAAAACACTAAAACTCTAATTT
1 ACTTAATCTATTTAAAACACAAAAACTCTAATTT
91312057 ACTTAATCTATTTAAAA-ACAAAAAC-CTTAATTT
1 ACTTAATCTATTTAAAACACAAAAACTC-TAATTT
91312090 A
1 A
91312091 ATCAACCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.03
33 14 0.45
34 16 0.52
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (34 bp):
ACTTAATCTATTTAAAACACAAAAACTCTAATTT
Found at i:91312123 original size:22 final size:22
Alignment explanation
Indices: 91312098--91312151 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
91312088 TTAATCAACC
*
91312098 TTAAACCCTAATTTAATTTATT
1 TTAAACCCTAACTTAATTTATT
* *
91312120 TTAAACACTAACTTATTTTATT
1 TTAAACCCTAACTTAATTTATT
* *
91312142 TAAAATCCTA
1 TTAAACCCTA
91312152 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (22 bp):
TTAAACCCTAACTTAATTTATT
Found at i:91312222 original size:24 final size:23
Alignment explanation
Indices: 91312192--91312241 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
91312182 CATAAACCAT
91312192 AAACCCTAAGTCCTAATTTA-TTTA
1 AAACCCTAA--CCTAATTTATTTTA
*
91312216 AAACCCTAACTTAATTTATTTTA
1 AAACCCTAACCTAATTTATTTTA
91312239 AAA
1 AAA
91312242 TCATTAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 7 0.29
24 9 0.38
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (23 bp):
AAACCCTAACCTAATTTATTTTA
Found at i:91312272 original size:94 final size:92
Alignment explanation
Indices: 91312094--91312273 Score: 227
Period size: 94 Copynumber: 1.9 Consensus size: 92
91312084 TAATTTAATC
* * * * *
91312094 AACCTTAAACCCTAATTTAATTTATTTTAAACACTAACTTATTTTATTTAAAATCCTAGAACCCT
1 AACCATAAACCCTAATCTAATTTATTTAAAACACTAACTTAATTTATTTAAAATCATAGAACCCT
**
91312159 AATTTACTTAATCTATTTAAAACCATA
66 AATTTAAATAATCTATTTAAAACCATA
* *
91312186 AACCATAAACCCTAAGTCCTAATTTATTTAAAACCCTAACTTAATTTATTTTAAAATCAT-TAAC
1 AACCATAAACCCTAA-T-CTAATTTATTTAAAACACTAACTTAATTTA-TTTAAAATCATAGAAC
* *
91312250 CCTAATTTAAATAATTTTTTTAAA
63 CCTAATTTAAATAATCTATTTAAA
91312274 TAACACTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
92 14 0.19
93 1 0.01
94 49 0.66
95 10 0.14
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (92 bp):
AACCATAAACCCTAATCTAATTTATTTAAAACACTAACTTAATTTATTTAAAATCATAGAACCCT
AATTTAAATAATCTATTTAAAACCATA
Found at i:91321068 original size:12 final size:12
Alignment explanation
Indices: 91321051--91321089 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
91321041 TATATATTTT
91321051 TCTTTTATTAAA
1 TCTTTTATTAAA
91321063 TCTTTT-TTATAA
1 TCTTTTATTA-AA
*
91321075 TCTTTTATTTAA
1 TCTTTTATTAAA
91321087 TCT
1 TCT
91321090 AAATATACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.12
12 19 0.79
13 2 0.08
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (12 bp):
TCTTTTATTAAA
Found at i:91321138 original size:19 final size:19
Alignment explanation
Indices: 91321114--91321158 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
91321104 TAACATTTTT
91321114 TAATAT-TTAAATTATAATA
1 TAATATATT-AATTATAATA
* *
91321133 TAATATATTTATTATTATA
1 TAATATATTAATTATAATA
91321152 TAATATA
1 TAATATA
91321159 AATTGCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATATTAATTATAATA
Found at i:91322584 original size:17 final size:17
Alignment explanation
Indices: 91322544--91322584 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
91322534 TTATTATAAA
*
91322544 ATTAATTTTTATTTTTT
1 ATTAAATTTTATTTTTT
*
91322561 AAT-AATTTTATTTTTT
1 ATTAAATTTTATTTTTT
91322577 ATTAAATT
1 ATTAAATT
91322585 AATTCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTAAATTTTATTTTTT
Found at i:91323026 original size:19 final size:18
Alignment explanation
Indices: 91322989--91323032 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
91322979 GTTCGACTTT
*
91322989 TTTTAATAATTTGAATTA
1 TTTTGATAATTTGAATTA
**
91323007 TTTGTGATAATTTGGTTTA
1 TTT-TGATAATTTGAATTA
91323026 TTTTGAT
1 TTTTGAT
91323033 TTTTCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (18 bp):
TTTTGATAATTTGAATTA
Found at i:91323112 original size:19 final size:21
Alignment explanation
Indices: 91323088--91323134 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
91323078 ACAATGTGTT
*
91323088 TTATTTTATGAA-TTTTAG-A
1 TTATTTTATAAATTTTTAGAA
*
91323107 TTATTTGATAAATTTTTAGAA
1 TTATTTTATAAATTTTTAGAA
91323128 TTATTTT
1 TTATTTT
91323135 TATAGATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 10 0.43
20 6 0.26
21 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (21 bp):
TTATTTTATAAATTTTTAGAA
Found at i:91327375 original size:13 final size:13
Alignment explanation
Indices: 91327357--91327381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91327347 AAAATAATCA
91327357 AATAAATTACAGC
1 AATAAATTACAGC
91327370 AATAAATTACAG
1 AATAAATTACAG
91327382 TTAATAGGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
AATAAATTACAGC
Found at i:91328099 original size:13 final size:13
Alignment explanation
Indices: 91328064--91328120 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
91328054 AATTTTTATG
*
91328064 ATTGAGTTGGGTA
1 ATTGGGTTGGGTA
* *
91328077 ATTAGATTGGGTA
1 ATTGGGTTGGGTA
91328090 ATTGGGTTGGGT-
1 ATTGGGTTGGGTA
91328102 -TT-GGTTGGGTA
1 ATTGGGTTGGGTA
*
91328113 CTTGGGTT
1 ATTGGGTT
91328121 TATATATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
10 8 0.22
11 2 0.06
12 2 0.06
13 24 0.67
ACGTcount: A:0.16, C:0.02, G:0.40, T:0.42
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:91334078 original size:126 final size:126
Alignment explanation
Indices: 91333853--91334350 Score: 766
Period size: 126 Copynumber: 4.0 Consensus size: 126
91333843 TTAGGTTAAT
*
91333853 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
1 TGAGTAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
* *
91333918 TTTGGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGTTCGTAGAAAAATAATTC
66 TTTAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
* * * * *
91333979 TGAGTAGACGTTTCTAAATAAATAGTGTCAAAAATGCTTCAAGCAAGATGCATTGTAAGCAAAAT
1 TGAGTAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
*
91334044 TTTAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCATAGAAAAATAATTC
66 TTTAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
* * *
91334105 TGAGTAGACGTTTCTGAAA-AAATAGTTTCAAAAATGCTTCAAGCAGGATGCACTGTCAGTAAAA
1 TGAGTAGACGTTTCT-AAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAA
** * * * * *
91334169 TTTCGGAAAAAAGCTCCTACGTGGACGTGTTTTTCCTACAGTAGTTCGTAGAAAAATAATTT
65 TTTTAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
* *
91334231 TGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAG-AAAAT
1 TGAGTAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
* *
91334295 TTTAGAAAAAAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGTTTGTAGAAAAAT
66 TTTAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAAT
91334351 TGAGGCTATA
Statistics
Matches: 336, Mismatches: 34, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
125 55 0.16
126 278 0.83
127 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (126 bp):
TGAGTAGACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
TTTAGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCGTAGAAAAATAATTC
Found at i:91337717 original size:23 final size:22
Alignment explanation
Indices: 91337672--91337718 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
91337662 TTTGAAAAAG
* * *
91337672 AATTATTTTATTAATTTTGTAT
1 AATTATTATATTAATTATCTAT
91337694 AATTATATATATTAATTATCTAT
1 AATTAT-TATATTAATTATCTAT
91337717 AA
1 AA
91337719 GAATGACGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTATTATATTAATTATCTAT
Found at i:91338600 original size:30 final size:28
Alignment explanation
Indices: 91338566--91338644 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 28
91338556 GTTGAACTGT
* *
91338566 TGGGCCCGGTGATTGTGGCAGCGCTATTGA
1 TGGGCCTGCTGATTGTGG--GCGCTATTGA
* *
91338596 TGGGCTTGCTGATTGTATGGGCGCTGTTGA
1 TGGGCCTGCTGATTG--TGGGCGCTATTGA
91338626 TGGGCCTGCTGATTGTGGG
1 TGGGCCTGCTGATTGTGGG
91338645 GGTGCTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 4 0.10
30 35 0.83
32 3 0.07
ACGTcount: A:0.10, C:0.16, G:0.42, T:0.32
Consensus pattern (28 bp):
TGGGCCTGCTGATTGTGGGCGCTATTGA
Found at i:91338636 original size:15 final size:16
Alignment explanation
Indices: 91338591--91338660 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
91338581 TGGCAGCGCT
*
91338591 ATTGATGGGCTTGCTG
1 ATTGATGGGCCTGCTG
91338607 ATTGTATGGG-C-GCTG
1 ATTG-ATGGGCCTGCTG
91338622 -TTGATGGGCCTGCTG
1 ATTGATGGGCCTGCTG
**
91338637 ATTG-TGGGGGTGCTG
1 ATTGATGGGCCTGCTG
91338652 -TTGATGGGC
1 ATTGATGGGC
91338661 TTGCGTCGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
13 5 0.11
14 7 0.16
15 21 0.47
16 7 0.16
17 5 0.11
ACGTcount: A:0.10, C:0.13, G:0.43, T:0.34
Consensus pattern (16 bp):
ATTGATGGGCCTGCTG
Found at i:91338652 original size:30 final size:30
Alignment explanation
Indices: 91338586--91338660 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
91338576 GATTGTGGCA
* * *
91338586 GCGCTATTGATGGGCTTGCTGATTGTATGG
1 GCGCTGTTGATGGGCCTGCTGATTGTAGGG
*
91338616 GCGCTGTTGATGGGCCTGCTGATTGTGGGG
1 GCGCTGTTGATGGGCCTGCTGATTGTAGGG
*
91338646 GTGCTGTTGATGGGC
1 GCGCTGTTGATGGGC
91338661 TTGCGTCGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.09, C:0.15, G:0.43, T:0.33
Consensus pattern (30 bp):
GCGCTGTTGATGGGCCTGCTGATTGTAGGG
Found at i:91340222 original size:21 final size:20
Alignment explanation
Indices: 91340187--91340240 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
91340177 AAAATTAAAT
91340187 TAAA-AAAATTTAAATTTGCA
1 TAAATAAAA-TTAAATTTGCA
91340207 TAAATGAAAATTAAATTTGCA
1 TAAAT-AAAATTAAATTTGCA
91340228 TAAAT-AAATTAAA
1 TAAATAAAATTAAA
91340241 GTATCACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.25
20 4 0.12
21 16 0.50
22 4 0.12
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
TAAATAAAATTAAATTTGCA
Found at i:91341656 original size:29 final size:29
Alignment explanation
Indices: 91341625--91341702 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
91341615 TAAAATGCAA
*
91341625 AAAAATTATAAAATTATTTTTAA-AAATT
1 AAAAATTTTAAAATTATTTTTAATAAATT
*
91341653 AAAAATCTTTAAAATTA--TTAAATAAATTT
1 AAAAAT-TTTAAAATTATTTTTAATAAA-TT
*
91341682 AAAAATTTTAAAAATATTTTT
1 AAAAATTTTAAAATTATTTTT
91341703 TTAATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 4 0.10
28 18 0.44
29 17 0.41
30 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
AAAAATTTTAAAATTATTTTTAATAAATT
Found at i:91341672 original size:19 final size:18
Alignment explanation
Indices: 91341650--91341696 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
91341640 ATTTTTAAAA
*
91341650 ATTAAAAATCTTTAAAATT
1 ATTAAAAAT-TTAAAAATT
91341669 ATTAAATAAATTTAAAAATT
1 ATT-AA-AAATTTAAAAATT
91341689 -TTAAAAAT
1 ATTAAAAAT
91341697 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.16
18 2 0.08
19 5 0.20
20 10 0.40
21 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAAAATTTAAAAATT
Found at i:91341691 original size:9 final size:9
Alignment explanation
Indices: 91341642--91341696 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
91341632 ATAAAATTAT
91341642 TTTTAAAAA
1 TTTTAAAAA
91341651 --TTAAAAA
1 TTTTAAAAA
91341658 TCTTT-AAAA
1 T-TTTAAAAA
91341667 TTATTAAATAA
1 TT-TTAAA-AA
*
91341678 ATTTAAAAA
1 TTTTAAAAA
91341687 TTTTAAAAA
1 TTTTAAAAA
91341696 T
1 T
91341697 ATTTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
7 7 0.18
8 1 0.03
9 18 0.47
10 9 0.24
11 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:91341700 original size:19 final size:19
Alignment explanation
Indices: 91341643--91341700 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
91341633 TAAAATTATT
*
91341643 TTTAAAAA--TTAAAAATC
1 TTTAAAAATTTTAAAAATA
91341660 TTT-AAAATTATTAAATAA-A
1 TTTAAAAATT-TTAAA-AATA
91341679 TTTAAAAATTTTAAAAATA
1 TTTAAAAATTTTAAAAATA
91341698 TTT
1 TTT
91341701 TTTTAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 2 0.06
19 17 0.50
20 8 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAAAAATTTTAAAAATA
Found at i:91344967 original size:18 final size:18
Alignment explanation
Indices: 91344944--91344987 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
91344934 GTTATATTGC
*
91344944 TCACATGATAAAATCAAT
1 TCACATAATAAAATCAAT
91344962 TCACATAATAAAATCAAT
1 TCACATAATAAAATCAAT
91344980 TCACATAA
1 TCACATAA
91344988 CATAACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.27
Consensus pattern (18 bp):
TCACATAATAAAATCAAT
Found at i:91345023 original size:5 final size:5
Alignment explanation
Indices: 91344982--91345015 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
91344972 AAATCAATTC
91344982 ACATA ACATA ACATA ACATA ACATA ATCATA ACA
1 ACATA ACATA ACATA ACATA ACATA A-CATA ACA
91345016 CATAACATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
ACATA
Found at i:91350071 original size:18 final size:17
Alignment explanation
Indices: 91350037--91350078 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
91350027 TAATATGATC
*
91350037 AATAATAAAATAAAAATA
1 AATAA-AAAAGAAAAATA
91350055 AATAAAAAAGAAGAAATA
1 AATAAAAAAGAA-AAATA
91350073 AATAAA
1 AATAAA
91350079 TGAATAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AATAAAAAAGAAAAATA
Found at i:91350295 original size:23 final size:24
Alignment explanation
Indices: 91350242--91350298 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
91350232 AAAAAATAGT
*
91350242 AAATAATAATATATTAATAAGAATT
1 AAATAAT-ATATATTAATAAGAATC
*
91350267 ATAATAATATATATTAATAATAA-C
1 A-AATAATATATATTAATAAGAATC
91350291 AAATAATA
1 AAATAATA
91350299 AAAAATAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.24
24 1 0.03
25 15 0.52
26 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAATATATATTAATAAGAATC
Found at i:91350370 original size:33 final size:35
Alignment explanation
Indices: 91350316--91350395 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
91350306 ACAATGGGTT
* *
91350316 AATAAAGATAAT-AGTAATAATAGAGGTAA-AATA
1 AATAAATATAATAAGTAATAATAGAGATAATAATA
* *
91350349 AATAAATATAATAAG-AGTAATAGTGATAATAATA
1 AATAAATATAATAAGTAATAATAGAGATAATAATA
*
91350383 CA-AAATATAATAA
1 AATAAATATAATAA
91350396 TAACAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 33 0.82
34 7 0.17
ACGTcount: A:0.61, C:0.01, G:0.11, T:0.26
Consensus pattern (35 bp):
AATAAATATAATAAGTAATAATAGAGATAATAATA
Done.