Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 112 of 276
Found at i:35494202 original size:3 final size:3
Alignment explanation
Indices: 35494194--35494219 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35494184 AAGAAAGATA
35494194 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
35494220 AAGTTACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:35497465 original size:94 final size:94
Alignment explanation
Indices: 35497303--35497506 Score: 327
Period size: 94 Copynumber: 2.2 Consensus size: 94
35497293 TTAAGGCTTG
* * *
35497303 CTGATTTACGATCACAGCCTAAGTTCATTTATTTATGATCATGAACAATCTTCTATGAGTTAACT
1 CTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACT
* * *
35497368 GATTTACTATCACTACTTCAAACAATTCG
66 GATTTACTATCACTACTCCAAACAACTCA
* * *
35497397 TTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATTTTCTATGAGTTAGCT
1 CTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACT
35497462 GATTTACTATCACTACTCCAAACAACTCA
66 GATTTACTATCACTACTCCAAACAACTCA
35497491 CTGATTTATGATCACA
1 CTGATTTATGATCACA
35497507 ACTGATATTA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (94 bp):
CTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACT
GATTTACTATCACTACTCCAAACAACTCA
Found at i:35501656 original size:17 final size:17
Alignment explanation
Indices: 35501634--35501672 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
35501624 GGGCTGGACG
35501634 GCAAGGGCATGAAATCA
1 GCAAGGGCATGAAATCA
35501651 GCAAGGGCATGAAATCA
1 GCAAGGGCATGAAATCA
35501668 GCAAG
1 GCAAG
35501673 AAAATTGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.31, T:0.10
Consensus pattern (17 bp):
GCAAGGGCATGAAATCA
Found at i:35514995 original size:19 final size:20
Alignment explanation
Indices: 35514952--35514996 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
35514942 CTTAAAATTT
35514952 TTTTAATAGGTGTAAAAAAA
1 TTTTAATAGGTGTAAAAAAA
* *
35514972 ATTTAATAGGTG-AAAAATA
1 TTTTAATAGGTGTAAAAAAA
35514991 TTTTAA
1 TTTTAA
35514997 CGGGTATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTAATAGGTGTAAAAAAA
Found at i:35516076 original size:29 final size:29
Alignment explanation
Indices: 35516044--35516164 Score: 93
Period size: 29 Copynumber: 4.2 Consensus size: 29
35516034 TTTAATATAT
* *
35516044 TATTGCTATTATTATTATGTTTCTATTTA
1 TATTTCTATTATTATTATATTTCTATTTA
* * * * * *
35516073 TATTTATTTTGTTATTCTAATACTA-TTA
1 TATTTCTATTATTATTATATTTCTATTTA
* * *
35516101 TTATTTATCTAATTATTAT-TTATCTATTTA
1 -TATTTCTATTATTATTATATT-TCTATTTA
* *
35516131 TATTTCTACTATTATTATATTTCTATTTC
1 TATTTCTATTATTATTATATTTCTATTTA
35516160 TATTT
1 TATTT
35516165 ATATACTAAT
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
28 4 0.06
29 60 0.87
30 5 0.07
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTTCTATTATTATTATATTTCTATTTA
Found at i:35516117 original size:15 final size:15
Alignment explanation
Indices: 35516097--35516148 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
35516087 TTCTAATACT
35516097 ATTATTATTTATCTA
1 ATTATTATTTATCTA
35516112 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
35516127 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
35516141 ATTATTAT
1 ATTATTAT
35516149 ATTTCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.28
15 23 0.72
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:35516157 original size:58 final size:58
Alignment explanation
Indices: 35516054--35516166 Score: 131
Period size: 58 Copynumber: 1.9 Consensus size: 58
35516044 TATTGCTATT
** * *
35516054 ATTATTATGTTTCTATTTATATTTATTTTGTTATTCTAATACTATTAT-TATTTATCTA
1 ATTATTATGTTTCTATTTATATTTATACTATTATTATAATACTATT-TCTATTTATCTA
* * *
35516112 ATTATTAT-TTATCTATTTATATTTCTACTATTATTATATTTCTATTTCTATTTAT
1 ATTATTATGTT-TCTATTTATATTTATACTATTATTATAATACTATTTCTATTTAT
35516167 ATACTAATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 3 0.07
58 43 0.93
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (58 bp):
ATTATTATGTTTCTATTTATATTTATACTATTATTATAATACTATTTCTATTTATCTA
Found at i:35516306 original size:3 final size:3
Alignment explanation
Indices: 35516298--35516450 Score: 104
Period size: 3 Copynumber: 51.3 Consensus size: 3
35516288 TTTAAAAATT
35516298 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TT- TCTA TTTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA -TTA T-TA
* * * * *
35516344 TTA ATA TCA ATA TT- TT- TTA TT- TTT TTA -TA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
35516388 TTA TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
35516434 GTA TTA TTA TTA GTTA T
1 TTA TTA TTA TTA -TTA T
35516451 AGTATATTTA
Statistics
Matches: 119, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
2 12 0.10
3 95 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:35516462 original size:49 final size:50
Alignment explanation
Indices: 35516359--35516462 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 50
35516349 ATCAATATTT
* *
35516359 TTTATTTTTTTATATTATTATTATTATCATTATTATTACTATTAGTACTA
1 TTTATTATTTTATATTATTATTACTATCATTATTATTACTATTAGTACTA
* *
35516409 -TTATTATTTTCTATTATTATTACTAGT-ATTATTATTAGT-TATAGTA-TA
1 TTTATTATTTTATATTATTATTACTA-TCATTATTATTACTAT-TAGTACTA
35516457 TTTATT
1 TTTATT
35516463 CACAAATTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
48 3 0.06
49 43 0.91
50 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.62
Consensus pattern (50 bp):
TTTATTATTTTATATTATTATTACTATCATTATTATTACTATTAGTACTA
Found at i:35519337 original size:19 final size:19
Alignment explanation
Indices: 35519302--35519339 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35519292 TTGCAATTTA
*
35519302 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
35519321 AATTCTTTA-TTTATTTTCT
1 AATT-TTTATTTTATTTTCT
35519340 TCTGATAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:35522190 original size:413 final size:413
Alignment explanation
Indices: 35521423--35522248 Score: 1652
Period size: 413 Copynumber: 2.0 Consensus size: 413
35521413 GATAGTAACG
35521423 TATCTTTAATTTTAGAACGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTTGGCATAGGT
1 TATCTTTAATTTTAGAACGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTTGGCATAGGT
35521488 GAACTCACACTTCGTGTGGGAGACGAAACAATCACCCTTCAAGCTCGTAATTCGAGTAACACATC
66 GAACTCACACTTCGTGTGGGAGACGAAACAATCACCCTTCAAGCTCGTAATTCGAGTAACACATC
35521553 AAAAATTGAAGGTGGTTGTATAAATCATTCTACTAGTACTGATCACGTGGTGAAACCTTCTGTGC
131 AAAAATTGAAGGTGGTTGTATAAATCATTCTACTAGTACTGATCACGTGGTGAAACCTTCTGTGC
35521618 AGGAAACAGTTACAAAGAACGTATATGAGCCGTGTTCAAACAACAACAAGGGACCTATCTATGAA
196 AGGAAACAGTTACAAAGAACGTATATGAGCCGTGTTCAAACAACAACAAGGGACCTATCTATGAA
35521683 GAACAAAGGCTACAAATTGAGGAGCTAGATGAATGGCGGACATAGAAATCGAGAACACCTGATAG
261 GAACAAAGGCTACAAATTGAGGAGCTAGATGAATGGCGGACATAGAAATCGAGAACACCTGATAG
35521748 GCCGAAACCGAGCCAGGATGAGCTCAATACCTCACCAAATCAACTTAAGGTTGGAGATAAAGTAC
326 GCCGAAACCGAGCCAGGATGAGCTCAATACCTCACCAAATCAACTTAAGGTTGGAGATAAAGTAC
35521813 TACTAGATGCAGCAGATCCTTGC
391 TACTAGATGCAGCAGATCCTTGC
35521836 TATCTTTAATTTTAGAACGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTTGGCATAGGT
1 TATCTTTAATTTTAGAACGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTTGGCATAGGT
35521901 GAACTCACACTTCGTGTGGGAGACGAAACAATCACCCTTCAAGCTCGTAATTCGAGTAACACATC
66 GAACTCACACTTCGTGTGGGAGACGAAACAATCACCCTTCAAGCTCGTAATTCGAGTAACACATC
35521966 AAAAATTGAAGGTGGTTGTATAAATCATTCTACTAGTACTGATCACGTGGTGAAACCTTCTGTGC
131 AAAAATTGAAGGTGGTTGTATAAATCATTCTACTAGTACTGATCACGTGGTGAAACCTTCTGTGC
35522031 AGGAAACAGTTACAAAGAACGTATATGAGCCGTGTTCAAACAACAACAAGGGACCTATCTATGAA
196 AGGAAACAGTTACAAAGAACGTATATGAGCCGTGTTCAAACAACAACAAGGGACCTATCTATGAA
35522096 GAACAAAGGCTACAAATTGAGGAGCTAGATGAATGGCGGACATAGAAATCGAGAACACCTGATAG
261 GAACAAAGGCTACAAATTGAGGAGCTAGATGAATGGCGGACATAGAAATCGAGAACACCTGATAG
35522161 GCCGAAACCGAGCCAGGATGAGCTCAATACCTCACCAAATCAACTTAAGGTTGGAGATAAAGTAC
326 GCCGAAACCGAGCCAGGATGAGCTCAATACCTCACCAAATCAACTTAAGGTTGGAGATAAAGTAC
35522226 TACTAGATGCAGCAGATCCTTGC
391 TACTAGATGCAGCAGATCCTTGC
35522249 ATTACCACTT
Statistics
Matches: 413, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
413 413 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (413 bp):
TATCTTTAATTTTAGAACGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTTGGCATAGGT
GAACTCACACTTCGTGTGGGAGACGAAACAATCACCCTTCAAGCTCGTAATTCGAGTAACACATC
AAAAATTGAAGGTGGTTGTATAAATCATTCTACTAGTACTGATCACGTGGTGAAACCTTCTGTGC
AGGAAACAGTTACAAAGAACGTATATGAGCCGTGTTCAAACAACAACAAGGGACCTATCTATGAA
GAACAAAGGCTACAAATTGAGGAGCTAGATGAATGGCGGACATAGAAATCGAGAACACCTGATAG
GCCGAAACCGAGCCAGGATGAGCTCAATACCTCACCAAATCAACTTAAGGTTGGAGATAAAGTAC
TACTAGATGCAGCAGATCCTTGC
Found at i:35523473 original size:8 final size:9
Alignment explanation
Indices: 35523459--35523489 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
35523449 ACTTATTCTT
35523459 AAAAAAAAG
1 AAAAAAAAG
35523468 AAAAAAAAG
1 AAAAAAAAG
35523477 AAAAAAAAAG
1 -AAAAAAAAG
35523487 AAA
1 AAA
35523490 CAACAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:35523474 original size:10 final size:10
Alignment explanation
Indices: 35523459--35523489 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
35523449 ACTTATTCTT
35523459 AAAAAAAAG-
1 AAAAAAAAGA
35523468 AAAAAAAAGA
1 AAAAAAAAGA
35523478 AAAAAAAAGA
1 AAAAAAAAGA
35523488 AA
1 AA
35523490 CAACAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:35524945 original size:26 final size:26
Alignment explanation
Indices: 35524916--35524970 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
35524906 TAGTAGAGGC
35524916 ATCCATTGGGAAGTTCGCGAGATTTG
1 ATCCATTGGGAAGTTCGCGAGATTTG
35524942 ATCCATTGGGAAGTTCGCGAGATTTG
1 ATCCATTGGGAAGTTCGCGAGATTTG
35524968 ATC
1 ATC
35524971 TTAACATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (26 bp):
ATCCATTGGGAAGTTCGCGAGATTTG
Found at i:35527215 original size:23 final size:23
Alignment explanation
Indices: 35527172--35527215 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
35527162 TAGATTCTTT
*
35527172 TATTCTTTAGACTTTCTTTCAAG
1 TATTCTTTAGACTTTCATTCAAG
*
35527195 TATTCTTTTAGTC-TTCATTCA
1 TATTC-TTTAGACTTTCATTCA
35527216 TGATCATACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTCTTTAGACTTTCATTCAAG
Found at i:35530428 original size:40 final size:40
Alignment explanation
Indices: 35530391--35530656 Score: 374
Period size: 40 Copynumber: 6.7 Consensus size: 40
35530381 GCTACTCGTT
* * *
35530391 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGCCTTAACCCGGATT-TAGTAACTCGCA
*
35530431 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
35530471 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
35530511 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
35530551 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
** ** * * * *
35530591 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAAC-TCGCA
* *
35530632 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCCTTAACCCGGA
35530657 CATCATTCAA
Statistics
Matches: 210, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 200 0.95
41 10 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
Found at i:35538557 original size:79 final size:82
Alignment explanation
Indices: 35538446--35538630 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
35538436 GCTACTCGTT
* *
35538446 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35538509 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35538526 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35538589 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35538606 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35538631 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35538630 original size:40 final size:40
Alignment explanation
Indices: 35538427--35538630 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35538417 CGGAATTTAA
** *
35538427 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35538467 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35538507 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35538546 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35538586 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35538626 CCGGA
1 CCGGA
35538631 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35540837 original size:44 final size:44
Alignment explanation
Indices: 35540780--35541119 Score: 195
Period size: 44 Copynumber: 7.7 Consensus size: 44
35540770 ACCACAAATT
*
35540780 TTATC-TCCTTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTC
1 TTATCTTCC-TGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
* * *
35540824 TTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTGTAGATC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAG-TC
* * * * ** * *
35540869 TTATCTCCCTGAGATAGC-AGTGGAGTAGATCGAAGACGGCGAATC
1 TTATCTTCCTGAGGTAGCAAG-GGAGCAGACCGAAGATTG-TAGTC
* * **** ***** *
35540914 TTATCTTCC-AAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
* * *
35540957 TTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAGTC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
* * * * *
35541001 TTATCTTCCTGAGGTAGCAACGAAGCAAACTGAAGATTTTAGATC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAG-TC
* * * * * * * *
35541046 TTATC-TCATTGAGATAGAAATGGAGCAGATCGAAGATGGCAAATC
1 TTATCTTC-CTGAGGTAGCAAGGGAGCAGACCGAAGATTG-TAGTC
* *
35541091 GTATCTT-CTCGAGGTAGCAGGGGAGCAGA
1 TTATCTTCCT-GAGGTAGCAAGGGAGCAGA
35541120 TTTTAGTCAC
Statistics
Matches: 215, Mismatches: 70, Indels: 21
0.70 0.23 0.07
Matches are distributed among these distances:
43 10 0.05
44 110 0.51
45 92 0.43
46 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (44 bp):
TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
Found at i:35541078 original size:177 final size:178
Alignment explanation
Indices: 35540780--35541184 Score: 623
Period size: 177 Copynumber: 2.3 Consensus size: 178
35540770 ACCACAAATT
* *
35540780 TTATCTCCTTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
* * * * * *
35540845 GAAACAGACTGAAGATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGTAGATCGAAGACGGCG
66 GAAACAAACTGAAGATTGTAGATCTTATCTCACTGAGATAGAAATGGAGCAGATCGAAGACGGCA
*
35540910 AATCTTATCTTC-CAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
131 AATCGTATCTTCTCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
*
35540957 TTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
* * * *
35541022 GAAGCAAACTGAAGATTTTAGATCTTATCTCATTGAGATAGAAATGGAGCAGATCGAAGATGGCA
66 GAAACAAACTGAAGATTGTAGATCTTATCTCACTGAGATAGAAATGGAGCAGATCGAAGACGGCA
* * *
35541087 AATCGTATCTTCTCGAGGTAGCAGGGGAGCAGATTTTAGTCACCTGCC
131 AATCGTATCTTCTCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
* **
35541135 TTATTTCCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCT
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCT
35541185 CCTTGAAGTT
Statistics
Matches: 206, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
177 128 0.62
178 78 0.38
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (178 bp):
TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
GAAACAAACTGAAGATTGTAGATCTTATCTCACTGAGATAGAAATGGAGCAGATCGAAGACGGCA
AATCGTATCTTCTCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
Found at i:35541230 original size:45 final size:44
Alignment explanation
Indices: 35541177--35541597 Score: 314
Period size: 45 Copynumber: 9.4 Consensus size: 44
35541167 AAGATTGTAG
* * **
35541177 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCA-A
* * * ** *
35541222 TCTTATCTCCCTGAAGTTACAGCAGAATAGATCAAAGATTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGC-AA
* * *
35541267 CCTTATCTCTCTGAAGTTGCAGTAGAACATG-TTGAAG-TACCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACA-GATTGAAGATAGCAA
* * * * * * *
35541310 GTCTTATCTCACTAAAGTTGCAGTGGAGCAGACTGAAAATAACAGA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCA-A
* * * **
35541356 TCTTATCTCCCTGAAGTTACAGCAGAATAGATCAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGC-AA
* * * * *
35541401 CCTTATCTCTCTGAAGTTGTAGTAGAGCA-AGTTGAAG-TAACAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGA-TTGAAGATAGCAA
*
35541444 GTCTTATCTCCCTGAAGTTGC-GATGGAACAGATTGAAGATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAG-TAGAACAGATTGAAGATAGCA-A
** * * * *
35541490 TCTTATCTCCCTGAAGTTATAGCAGAATAGATCGAAAATAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAA
* * * *
35541534 ACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAA
1 TC-TTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAA
*
35541578 GTCTTATCTCCCTAAAGTTG
1 -TCTTATCTCCCTGAAGTTG
35541598 AAATGGAGCA
Statistics
Matches: 287, Mismatches: 73, Indels: 33
0.73 0.19 0.08
Matches are distributed among these distances:
43 6 0.02
44 85 0.30
45 190 0.66
46 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAA
Found at i:35541271 original size:134 final size:133
Alignment explanation
Indices: 35541175--35541614 Score: 641
Period size: 134 Copynumber: 3.3 Consensus size: 133
35541165 TAAAGATTGT
*
35541175 AGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
* * *
35541240 ACAGCAGAATAGATCAAAGATTGCAAACCTTATCTCTCTGAAGTTGCAGTAGAACATGTTGAAGT
65 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTTGAAGT
*
35541305 ACCA
130 AACA
* * * *
35541309 AGTCTTATCTCACTAAAGTTGCAGTGGAGCAGACTGAAAATAACAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
*
35541374 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAAGTTGAAGT
65 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTTGAAGT
35541439 AACA
130 AACA
*
35541443 AGTCTTATCTCCCTGAAGTTGC-GATGGAACAGATTGAAGATAGCAGATCTTATCTCCCTGAAGT
1 AGTCTTATCT-CCTGAAGTTGCAG-TGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGT
* * *
35541507 TATAGCAGAATAGATCGAAA-ATAGCAAACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA
64 TACAGCAGAATAGATC-AAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTTGAA
*
35541571 GTAGCA
128 GTAACA
* * * *
35541577 AGTCTTATCTCCCTAAAGTTGAAATGGAGCAAATTGAA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAA
35541615 TACCACAAAC
Statistics
Matches: 276, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
133 1 0.00
134 270 0.98
135 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (133 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTTA
CAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAAGTTGAAGTA
ACA
Found at i:35541624 original size:89 final size:87
Alignment explanation
Indices: 35541263--35541659 Score: 248
Period size: 89 Copynumber: 4.4 Consensus size: 87
35541253 TCAAAGATTG
* * * *
35541263 CAAACCTTATCTCTCTGAAGTTGCAGTAGAACATGTTGAAG-TACCAAGTCTTATCTCACTAAAG
1 CAAA-CTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAG
* * * *
35541327 TTGCAGTGGAGCAGACTGAAAATAA
65 TTGAAATGGAGCAAATTG--AATAA
* * * * * ** ** * *
35541352 CAGATCTTATCTCCCTGAAGTTACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAG
1 CA-AACTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAG
* * * *
35541417 TTGTAGTAGAGCAAGTTGAAGTAA
65 TTGAAATGGAGCAAATTGAA-TAA
* * * *
35541441 CAAGTCTTATCTCCCTGAAGTTGC-GATGGAACAGATTGAAGATAGC-AGATCTTATCTCCCTGA
1 CAA-ACTTATCTCCCTGAAGTTGCAG-TAGAACAGGTTGAAGATAGCAAG-TCTTATCTCCCTAA
* * * * *
35541504 AGTT-ATA-GCAGAATAGATCGAAAATAG
63 AGTTGAAATGGAGCA-A-ATTG--AATAA
* *
35541531 CAAACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTAAAG
1 CAAAC-TTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAG
35541595 TTGAAATGGAGCAAATTGAATACCA
65 TTGAAATGGAGCAAATTGAATA--A
** * * * *
35541620 CAAACCTTATCTAACTAAAGTAGCAGTGGAGCAGGTTGAA
1 CAAA-CTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAA
35541660 ATTACCAACT
Statistics
Matches: 237, Mismatches: 53, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
87 7 0.03
88 6 0.03
89 145 0.61
90 72 0.30
91 7 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (87 bp):
CAAACTTATCTCCCTGAAGTTGCAGTAGAACAGGTTGAAGATAGCAAGTCTTATCTCCCTAAAGT
TGAAATGGAGCAAATTGAATAA
Found at i:35541788 original size:133 final size:133
Alignment explanation
Indices: 35541617--35541883 Score: 374
Period size: 133 Copynumber: 2.0 Consensus size: 133
35541607 AAATTGAATA
*
35541617 CCACAAACCTTATCTAACTAAAGTAGCAGTGGAGCAGGTTGAAATTACCAACTCTTACCTCCTTG
1 CCACAAACCTTATCTAACTAAAGTAGCAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* *
35541682 AA-GTTCGAGCAGAGTAGATCGAAGCTACAACTATCTTCTCCCTAAAATTACATTGGAGCAGATC
66 AACGTTC-AGCAGAGTAGATCGAAGCTACAAATATATTCTCCCTAAAATTACATTGGAGCAGATC
35541746 GAAG
130 GAAG
* ** * * * *
35541750 CCACAATCCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACCAATTCTTATCTCCTTG
1 CCACAAACCTTATCTAACTAAAGTAGCAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* * * * * *
35541815 AACTTTCAGCGGAGTAGATCGAAGCTACAAATTTATTTTCCCTGAAATTACATTGGAGCGGATCG
66 AACGTTCAGCAGAGTAGATCGAAGCTACAAATATATTCTCCCTAAAATTACATTGGAGCAGATCG
35541880 AAG
131 AAG
35541883 C
1 C
35541884 ACCAATTCCT
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
133 114 0.97
134 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (133 bp):
CCACAAACCTTATCTAACTAAAGTAGCAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
AACGTTCAGCAGAGTAGATCGAAGCTACAAATATATTCTCCCTAAAATTACATTGGAGCAGATCG
AAG
Found at i:35541809 original size:45 final size:44
Alignment explanation
Indices: 35541177--35541816 Score: 233
Period size: 45 Copynumber: 14.3 Consensus size: 44
35541167 AAGATTGTAG
* * * * *
35541177 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCA-A
* * ** * * *
35541222 TCTTATCTCCCTGAAGTTACAGCAGAATAGA-TCAAAGATTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAA-A-TACCAA
* * * *
35541267 CCTTATCTCTCTGAAGTTGCAGTAGAACATG-TTG-AAGTACCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCA-GATTGAAAATACCAA
* * * * *
35541310 GTCTTATCTCACTAAAGTTGCAGTGGAGCAGACTGAAAATAACAGA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCA-A
* * ** * *
35541356 TCTTATCTCCCTGAAGTTACAGCAGAATAGA-TCAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAA-ATA-CCAA
* * * * *
35541401 CCTTATCTCTCTGAAGTTGTAGTAGAGCA-AGTTG-AAGTAACAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TTGAAAATACCAA
* * * *
35541444 GTCTTATCTCCCTGAAGTTGC-GATGGAACAGATTGAAGATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAG-TAGAGCAGATTGAAAATACCA-A
** * ** * *
35541490 TCTTATCTCCCTGAAGTTATAGCAGAATAGATCGAAAATAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCAA
* * * * *
35541534 ACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTG-AAGTAGCAA
1 TC-TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCAA
* * * * * ** *
35541578 GTCTTATCTCCCTAAAGTTGAAATGGAGCAAATTGAATACCACAAA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAA-AATACCAA
* ** * * * * *
35541624 CCTTATCTAACTAAAGTAGCAGTGGAGCAGGTTGAAATTACCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCAA
* * * * * **
35541668 CTCTTACCTCCTTGAAGTT-CGAGCAGAGTAGATCGAAGCTA-CAA
1 -TCTTATCTCCCTGAAGTTGC-AGTAGAGCAGATTGAAAATACCAA
* * * * * * * ***
35541712 -CTATCTTCTCCCTAAAATTACATTGGAGCAGATCGAAGCCA-CAA
1 TCT-T-ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCAA
* * * *
35541756 TCCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACCAA
1 T-CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCAA
*
35541801 TTCTTATCTCCTTGAA
1 -TCTTATCTCCCTGAA
35541817 CTTTCAGCGG
Statistics
Matches: 432, Mismatches: 132, Indels: 62
0.69 0.21 0.10
Matches are distributed among these distances:
42 2 0.00
43 9 0.02
44 157 0.36
45 248 0.57
46 16 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAAATACCAA
Found at i:35541913 original size:133 final size:132
Alignment explanation
Indices: 35541617--35541915 Score: 345
Period size: 133 Copynumber: 2.2 Consensus size: 132
35541607 AAATTGAATA
* * * *
35541617 CCACAAACCTTATCTAACTAAAG-TAGCAGTGGAGCAGGTTGAAATTACCAACTCTTACCTCCTT
1 CCACAATCCTTATCT-CCTGAAGATA-CAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTT
* *
35541681 GAAGTTCGAGCAGAGTAGATCGAAGCTACAACTATCTTCTCCCTAAAATTACATTGGAGCAGATC
64 GAAGTTCGAGCAGAGTAGATCGAAGCTACAAATATATTCTCCCTAAAATTACATTGGAGCAGATC
35541746 GAAG
129 GAAG
* * * *
35541750 CCACAATCCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAATTACCAATTCTTATCTCCTTG
1 CCACAATCCTTATCT-CCTGAAGATACAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* * * * * *
35541815 AACTTTC-AGCGGAGTAGATCGAAGCTACAAATTTATTTTCCCTGAAATTACATTGGAGCGGATC
65 AA-GTTCGAGCAGAGTAGATCGAAGCTACAAATATATTCTCCCTAAAATTACATTGGAGCAGATC
35541879 GAAG
129 GAAG
* *
35541883 -CACCAATTCCTATATCT-TTGAGGATACAGTGGA
1 CCA-CAA-TCCT-TATCTCCTGAAGATACAGTGGA
35541916 TTGGAACGAG
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
132 2 0.01
133 126 0.89
134 8 0.06
135 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (132 bp):
CCACAATCCTTATCTCCTGAAGATACAGTGGAACAGGTTGAAATTACCAACTCTTACCTCCTTGA
AGTTCGAGCAGAGTAGATCGAAGCTACAAATATATTCTCCCTAAAATTACATTGGAGCAGATCGA
AG
Found at i:35542812 original size:15 final size:14
Alignment explanation
Indices: 35542756--35542826 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
35542746 TTATTATGTT
*
35542756 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
35542770 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
35542784 TACTATTATTATTTA
1 T-CTATTTTTATTTA
35542799 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
*
35542814 TCTATTTATATTT
1 TCTATTTTTATTT
35542827 CTACTATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 2 0.04
14 14 0.30
15 15 0.33
16 2 0.04
17 7 0.15
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:35542825 original size:29 final size:28
Alignment explanation
Indices: 35542756--35542826 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
35542746 TTATTATGTT
35542756 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
35542784 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
35542814 TCTATTTATATTT
1 TCTATTTATATTT
35542827 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:35542841 original size:17 final size:16
Alignment explanation
Indices: 35542819--35542861 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
35542809 ATTTATCTAT
*
35542819 TTATATTTCTACTATTA
1 TTATATTTCTAAT-TTA
35542836 TTATATTTC-AATTTA
1 TTATATTTCTAATTTA
35542851 TTATATTTCTA
1 TTATATTTCTA
35542862 TTTCTGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATTTCTAATTTA
Found at i:35542948 original size:4 final size:4
Alignment explanation
Indices: 35542939--35542980 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
35542929 TTATTAACAT
*
35542939 TTTA TTTA TTTA TTTA TATCA TGTTA -TTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA TTTA T
35542981 GTCCTCCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
3 3 0.09
4 25 0.76
5 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:35543014 original size:3 final size:3
Alignment explanation
Indices: 35543006--35543175 Score: 104
Period size: 3 Copynumber: 56.7 Consensus size: 3
35542996 TTTAAAACTT
*
35543006 TTA TTA TTA TTA TAA TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA
* * *
35543049 TCTA TTTA TGTA TTA ATA TCA TTA TT- TTT TTA TT- TT- TTA TATA TTA
1 T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * * *
35543095 TTG TTA TTA TCA TTA TTA TTA CTA TCA GTA CTA TTA TTA TTT TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
35543141 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35543176 TATAGTATAT
Statistics
Matches: 130, Mismatches: 23, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
2 13 0.10
3 101 0.78
4 15 0.12
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:35545667 original size:20 final size:18
Alignment explanation
Indices: 35545620--35545668 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
35545610 CAAGATAAAC
35545620 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
35545637 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
35545657 ATTAAATTAATA
1 ATTAAATTAATA
35545669 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:35545717 original size:5 final size:6
Alignment explanation
Indices: 35545691--35545716 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35545681 GATAAGTTTT
35545691 AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AA
35545717 TCTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:35558316 original size:17 final size:18
Alignment explanation
Indices: 35558290--35558323 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35558280 TTTTTGTTTA
35558290 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
35558307 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
35558324 ATATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:35558877 original size:25 final size:24
Alignment explanation
Indices: 35558840--35558907 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 24
35558830 TTTTCTCCTA
*
35558840 AATTTTAATTTTAATTAATTATT-T
1 AATTTTTA-TTTAATTAATTATTAT
35558864 AATTTTTCAATTT-ATTGAATTATTAAT
1 AATTTTT--ATTTAATT-AATTATT-AT
35558891 AATTTTTATTTAATTAA
1 AATTTTTATTTAATTAA
35558908 ATTTTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
24 9 0.24
25 16 0.43
26 4 0.11
27 8 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (24 bp):
AATTTTTATTTAATTAATTATTAT
Found at i:35587736 original size:40 final size:40
Alignment explanation
Indices: 35587692--35587953 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
35587682 GCTCCTCGTT
* *
35587692 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
35587732 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35587772 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35587811 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35587850 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
35587889 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
35587930 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35587954 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35591795 original size:23 final size:20
Alignment explanation
Indices: 35591768--35591829 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 20
35591758 TTTGCCGATT
35591768 AGGCACTTTATGTGTCGTATATC
1 AGGCAC-TTATGTGTC--ATATC
* * *
35591791 AGGCACCTCATGTATCATTTC
1 AGGCA-CTTATGTGTCATATC
35591812 AGGCACTTATGTGTCATA
1 AGGCACTTATGTGTCATA
35591830 AACTGATCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 10 0.31
21 9 0.28
23 12 0.38
24 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
AGGCACTTATGTGTCATATC
Found at i:35597414 original size:26 final size:26
Alignment explanation
Indices: 35597367--35597424 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
35597357 TGGCTATCCA
* *
35597367 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTAATTAAAAGCTCTTCGT
* *
35597392 GAGCTTCCTAATTAAAAGTTCTTTGT
1 GAGCTTCCTAATTAAAAGCTCTTCGT
*
35597418 GAACTTC
1 GAGCTTC
35597425 ATGATTATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (26 bp):
GAGCTTCCTAATTAAAAGCTCTTCGT
Found at i:35597431 original size:26 final size:26
Alignment explanation
Indices: 35597374--35597431 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
35597364 CCAGAGCTCC
* * *
35597374 TGATTAAAGGCTCTTCGTGAGCTTCC
1 TGATTAAAAGCTCTTCGTGAACTTCA
* * *
35597400 TAATTAAAAGTTCTTTGTGAACTTCA
1 TGATTAAAAGCTCTTCGTGAACTTCA
35597426 TGATTA
1 TGATTA
35597432 TAGATTTCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCGTGAACTTCA
Found at i:35598723 original size:28 final size:28
Alignment explanation
Indices: 35598680--35598735 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
35598670 AGATTTTGCA
35598680 AAAAATTCTCTAAGTACCCGGCTTAGTC
1 AAAAATTCTCTAAGTACCCGGCTTAGTC
*
35598708 AAAAATTCTCTGAGTACCCGGCTTAGTC
1 AAAAATTCTCTAAGTACCCGGCTTAGTC
35598736 CAGACTCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
AAAAATTCTCTAAGTACCCGGCTTAGTC
Found at i:35604729 original size:30 final size:30
Alignment explanation
Indices: 35604695--35604752 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35604685 CCGAGCCTAA
*
35604695 GGGCAAAAGTGTAAATATGCAAACGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * *
35604725 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
35604753 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:35607177 original size:53 final size:53
Alignment explanation
Indices: 35607097--35607202 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
35607087 TTTGACATTG
*
35607097 ACATGATATTATGTGTCTAACTTATTTGACTGAGTGAATGTGATAAATAGATT
1 ACATGATATTATGTGTCTAACTTATTTGACTAAGTGAATGTGATAAATAGATT
35607150 ACATGATATTATGTGTCTAACTTATTTGACTAAGTGAATGTGATAAATAGATT
1 ACATGATATTATGTGTCTAACTTATTTGACTAAGTGAATGTGATAAATAGATT
35607203 TACTCAAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (53 bp):
ACATGATATTATGTGTCTAACTTATTTGACTAAGTGAATGTGATAAATAGATT
Found at i:35609259 original size:30 final size:30
Alignment explanation
Indices: 35609225--35609282 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
35609215 CCGAGCCTAA
35609225 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * *
35609255 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
35609283 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:35609846 original size:68 final size:68
Alignment explanation
Indices: 35609732--35609858 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
35609722 CAGATGGTAT
* *
35609732 GTAGCTAGGTCACATGTGTAATACGAGATGTATACCATGTGTACAAGAGAGCTACGAGACATTAT
1 GTAGCTAGGTCACATGGGTAATACGAGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
35609797 GAG
66 GAG
* * *
35609800 GTAGCTAGGTTACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGGGTAATACGA-GATGTACACCATGT-GTACAAGAGAGCTACGAGA
35609859 TAAATGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
68 50 0.96
69 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGGGTAATACGAGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
GAG
Found at i:35612733 original size:16 final size:17
Alignment explanation
Indices: 35612712--35612745 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35612702 AGTGAAAAAA
*
35612712 TTAA-TTTTCAATTGAT
1 TTAATTTTTCAATAGAT
35612728 TTAATTTTTCAATAGAT
1 TTAATTTTTCAATAGAT
35612745 T
1 T
35612746 ACCAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TTAATTTTTCAATAGAT
Found at i:35613815 original size:9 final size:9
Alignment explanation
Indices: 35613798--35613834 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35613788 TGAGTTTTGG
35613798 AATTCGAAT
1 AATTCGAAT
*
35613807 AACTCGAAT
1 AATTCGAAT
*
35613816 AATTCAAAT
1 AATTCGAAT
35613825 AATTCGAAT
1 AATTCGAAT
35613834 A
1 A
35613835 TTAAAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35620336 original size:5 final size:6
Alignment explanation
Indices: 35620320--35620345 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35620310 TGTTGCTTTG
35620320 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
35620346 AGTTTAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:35621317 original size:274 final size:277
Alignment explanation
Indices: 35620826--35621384 Score: 883
Period size: 274 Copynumber: 2.0 Consensus size: 277
35620816 ACAATGATTG
* *
35620826 ATTTAAAATAGAGGTGAAAATTATCTTTCAACTTAAGTAAAAAAGTTACATAATCCTCTTATTTA
1 ATTTAAAATAGAGGTGAAAAATATATTTCAACTTAAGTAAAAAAGTTACATAATCCTCTTATTTA
* * * * *
35620891 TCAAGATTATCAAATATCTTTTTTTTTTAAATCTCATGTGATAATTACTTAATAAATGAGCTATC
66 TCAAGACTATCAAATATCTCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATC
* * *
35620956 ACGTCAGTTTTAAGTAAGCTAAACGGGCCATTAGTACAATATACAAACAGAATTACAAATCCAAA
131 ACGCCAGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAACAGAATTACAAATCCAAA
* *
35621021 CAATAAATCTATATCATGACCAAAATCAAACTATTACAAGTAA-AACTTCTTATCACAAGGTTAT
196 CAATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAGAA-TTCTTATCACAAGATTAT
*
35621085 ACGTG-TGAAAATCATAT
260 ACGTGTTAAAAATCATAT
*
35621102 ATTTAAAATATAGGTGAAAAATATATTTCAACTTAAGTAAAAAAGTTACATAATCCTCTTATTTA
1 ATTTAAAATAGAGGTGAAAAATATATTTCAACTTAAGTAAAAAAGTTACATAATCCTCTTATTTA
35621167 TCAAGACTATCAAATATC-CTTTTATTT-AAGCTCATGTGATAATTACGTAATAAATGAGCTATC
66 TCAAGACTATCAAATATCTCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATC
* * ** *
35621230 ATGCCGGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAATGGAATTACAAATCCAAT
131 ACGCCAGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAACAGAATTACAAATCCAAA
* *
35621295 CAATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAGAATTTTTATCACAAGATTATG
196 CAATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAGAATTCTTATCACAAGATTATA
*
35621360 CGTGTTAAAAATCATGT
261 CGTGTTAAAAATCATAT
35621377 ATTTAAAA
1 ATTTAAAA
35621385 AACATGTGAA
Statistics
Matches: 259, Mismatches: 22, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
274 153 0.59
275 27 0.10
276 79 0.31
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (277 bp):
ATTTAAAATAGAGGTGAAAAATATATTTCAACTTAAGTAAAAAAGTTACATAATCCTCTTATTTA
TCAAGACTATCAAATATCTCTTTTATTTAAAGCTCATGTGATAATTACGTAATAAATGAGCTATC
ACGCCAGTTTCAAGTAAACTAAACGGGCCATTAGTACAATATACAAACAGAATTACAAATCCAAA
CAATAAATCTATATCATGACCAAAATAAAACTATTACAAGTAAGAATTCTTATCACAAGATTATA
CGTGTTAAAAATCATAT
Found at i:35622346 original size:12 final size:13
Alignment explanation
Indices: 35622310--35622347 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
35622300 AAATATTTGA
35622310 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
35622323 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
35622337 CTTG-TCTTAAT
1 CTTGTTCTTAAT
35622348 ATTCCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:35623538 original size:21 final size:22
Alignment explanation
Indices: 35623499--35623539 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35623489 ACAATTATTT
*
35623499 TTTATTTAATAATATCATTTAC
1 TTTATTTAATAATAACATTTAC
*
35623521 TTTATTT-GTAATAACATTT
1 TTTATTTAATAATAACATTT
35623540 TTGGTACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTATTTAATAATAACATTTAC
Found at i:35632302 original size:21 final size:20
Alignment explanation
Indices: 35632271--35632309 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
35632261 TATAAATTCA
35632271 AAAAATTTTAAAAAATATTT
1 AAAAATTTTAAAAAATATTT
*
35632291 AAAAATTATTAAAATATAT
1 AAAAATT-TTAAAAAATAT
35632310 AAAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTTAAAAAATATTT
Found at i:35632304 original size:29 final size:30
Alignment explanation
Indices: 35632255--35632314 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
35632245 AAATTTTATT
* *
35632255 AATATTTATAAATTCAAAAAAT-TTTAAAA
1 AATATTTAAAAATTCAAAAAATATATAAAA
*
35632284 AATATTTAAAAATT-ATTAAAATATATAAAA
1 AATATTTAAAAATTCA-AAAAATATATAAAA
35632314 A
1 A
35632315 TGGAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.04
29 18 0.69
30 7 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
AATATTTAAAAATTCAAAAAATATATAAAA
Found at i:35639721 original size:44 final size:44
Alignment explanation
Indices: 35639647--35639730 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
35639637 TACATATGAG
* * *
35639647 GCATTCGAACTCATTGAGTTGGTCGAGGTTCATTATGGATGCGA
1 GCATCCGAACTCATTGAGCTGGTCGAGGTTCATAATGGATGCGA
*
35639691 GCATCCGAACTCGTTGAGCTGGTCCG-GGTTCATAATGGAT
1 GCATCCGAACTCATTGAGCTGGT-CGAGGTTCATAATGGAT
35639731 ACGATACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (44 bp):
GCATCCGAACTCATTGAGCTGGTCGAGGTTCATAATGGATGCGA
Found at i:35643207 original size:46 final size:46
Alignment explanation
Indices: 35643105--35643278 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
35643095 GGGTAAGTTA
* * * *
35643105 CCGATGCCATGTCCTAGACATGGTCTTATACTGAC-ACATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTCTCG-AG
*
35643151 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACGTCTCGA-G
* * *
35643197 CCGATG-CATGTCCCAGACAT-GTCTTACATTAGC-ACCCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA--CGTCTCGA-G
* * *
35643243 CCAATGCCATGTTCTAGACATGGTCTTACACTGGCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
35643279 CTCATAGTGT
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 12 0.11
45 14 0.13
46 56 0.53
47 12 0.11
48 11 0.10
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACGTCTCGAG
Found at i:35644611 original size:46 final size:47
Alignment explanation
Indices: 35644505--35644624 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 47
35644495 AAGCTAACGT
* * *
35644505 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGTG
1 CATGTCCCAAACATGTCTTACACTAGCTTGCATATATCGAGGCCGTG
* *
35644552 CATGTCCCAAACATGTCTTACACTGGCTCT-CATA-AT-GTGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCT-TGCATATATCGAGGCCG-TG
35644598 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
35644625 ACACATATCA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
45 6 0.09
46 29 0.45
47 29 0.45
48 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGCATATATCGAGGCCGTG
Found at i:35645955 original size:14 final size:14
Alignment explanation
Indices: 35645936--35645971 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
35645926 TTGTAGACAT
35645936 TAAAATAATAATAA
1 TAAAATAATAATAA
35645950 TAAAATAATAATAA
1 TAAAATAATAATAA
*
35645964 TACAATAA
1 TAAAATAA
35645972 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAATAATAATAA
Found at i:35649696 original size:16 final size:16
Alignment explanation
Indices: 35649648--35649696 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
35649638 AATTTATCCA
*
35649648 ATTTTTAT-TAAAA-T
1 ATTTTTATAAAAAATT
*
35649662 ATTTTT-TAAAATATAT
1 ATTTTTATAAAAAAT-T
35649678 ATTTTTATAAAAAATT
1 ATTTTTATAAAAAATT
35649694 ATT
1 ATT
35649697 GTATTATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
16 11 0.39
17 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTATAAAAAATT
Found at i:35649927 original size:12 final size:12
Alignment explanation
Indices: 35649899--35649937 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
35649889 AAAACAATTA
35649899 TATATTTATAATTT
1 TATATTTAT--TTT
35649913 TATATTTATTTT
1 TATATTTATTTT
*
35649925 TATATGTATTTT
1 TATATTTATTTT
35649937 T
1 T
35649938 TAATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 15 0.62
14 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TATATTTATTTT
Found at i:35650466 original size:39 final size:40
Alignment explanation
Indices: 35650391--35650467 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 40
35650381 TATCTTTATA
* **
35650391 TTATATAACTTTTTGTATTCTTCCAAATTTGGAATTTAAT
1 TTATATAACTTTTTGTATTCTTCAAAATTTAAAATTTAAT
*
35650431 TTATATAA-TTTTT-TAATTTTTCAAAATTTAAAATTTA
1 TTATATAACTTTTTGT-ATTCTTCAAAATTTAAAATTTA
35650468 TATTCAACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.03
39 23 0.72
40 8 0.25
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (40 bp):
TTATATAACTTTTTGTATTCTTCAAAATTTAAAATTTAAT
Found at i:35652062 original size:14 final size:14
Alignment explanation
Indices: 35652043--35652070 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35652033 TTTCAGTCAA
35652043 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
35652057 ATTTAAAAAATAAT
1 ATTTAAAAAATAAT
35652071 CTTTCAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTTAAAAAATAAT
Found at i:35658364 original size:4 final size:4
Alignment explanation
Indices: 35658352--35658385 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
35658342 TTTTTATCTA
*
35658352 TCTT GCTT TCTT TCTT TCTT TCTT TCTT T-TT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
35658386 CATTCAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (4 bp):
TCTT
Found at i:35658485 original size:20 final size:21
Alignment explanation
Indices: 35658456--35658503 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
35658446 TAATCATAGC
35658456 AAAA-AATTAATATCAAAT-A
1 AAAATAATTAATATCAAATGA
*
35658475 AAAATAATTAATATCAACTGA
1 AAAATAATTAATATCAAATGA
35658496 AAAATAAT
1 AAAATAAT
35658504 AATTTATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 13 0.50
21 9 0.35
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATAATTAATATCAAATGA
Found at i:35662734 original size:8 final size:8
Alignment explanation
Indices: 35662721--35662748 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
35662711 AGGGTTAATT
35662721 TGTGAAAA
1 TGTGAAAA
35662729 TGTGAAAA
1 TGTGAAAA
35662737 TGTGAAAA
1 TGTGAAAA
35662745 TGTG
1 TGTG
35662749 GGGTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (8 bp):
TGTGAAAA
Found at i:35664286 original size:3 final size:3
Alignment explanation
Indices: 35664280--35664639 Score: 524
Period size: 3 Copynumber: 119.3 Consensus size: 3
35664270 TTAACTAATA
* * *
35664280 TAT TAT TGT TAT TAC TAT TAT TAT TAT T-T TAC TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * *
35664325 TAT CAT TAT TAT TAT TAC TAT GAT TAT TAT TAT TTT TAC TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * * * *
35664371 TAT TAT TAC CAT TAT TAT TAC TGT TAA TAT TAT TTT TAT TAC TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
35664419 TGT TCTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35664465 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35664513 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35664561 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35664609 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35664640 GTCATTTGTA
Statistics
Matches: 318, Mismatches: 35, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
2 2 0.01
3 308 0.97
4 8 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:35664685 original size:4 final size:4
Alignment explanation
Indices: 35664661--35664717 Score: 60
Period size: 4 Copynumber: 14.2 Consensus size: 4
35664651 TTTGTTATAT
* * * * *
35664661 TTTA TTTT TTTA TTTA CTTA TTTA TTTG TTTA TTTC TTTT TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
35664709 TTTG TTTA T
1 TTTA TTTA T
35664718 CAGGGATTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:35665335 original size:43 final size:43
Alignment explanation
Indices: 35665236--35665357 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
35665226 TCGAGATGTG
* * * * **
35665236 ATTACATGTAAGACCATGCCTGGGACATTGGCATTGTATTGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGCA
* *
35665279 ATTACGTGCAAGACCATGTCTGGGACATTGGTATCGTTAAT-CA
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGCA
* * * *
35665322 ATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
35665358 ACATGTGATA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 61 0.95
44 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGCA
Found at i:35673252 original size:39 final size:39
Alignment explanation
Indices: 35673208--35673440 Score: 340
Period size: 39 Copynumber: 6.0 Consensus size: 39
35673198 ATTATATTAT
* * *
35673208 CAGCACAAAGCCTGCGGCACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
35673247 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATTCATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
35673286 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
35673325 CAGCACGAAGCCTGCGAGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* **
35673364 CAACACGAAGCCTGCGGGACTTTAGCCCGGATATGTTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
35673403 CAGCATGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
35673441 TCAGTGTCTT
Statistics
Matches: 173, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 173 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:35679487 original size:43 final size:43
Alignment explanation
Indices: 35679342--35679498 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
35679332 TGTGTTTTGG
* *
35679342 TGTAAGACCACATCTGGGATATTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACATCTGGGACATTGGCATCGA-TATTTGA-TTACA
* * ** * * * *
35679386 CGTAAGATCATGTCTAGGACATTGACATCG-TATTTGATTTCG
1 TGTAAGACCACATCTGGGACATTGGCATCGATATTTGATTACA
*
35679428 TGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCGATATTTGATTACA
* **
35679471 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
35679499 TGTAAGAGCT
Statistics
Matches: 86, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 26 0.30
43 36 0.42
44 24 0.28
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACATTGGCATCGATATTTGATTACA
Found at i:35681593 original size:29 final size:29
Alignment explanation
Indices: 35681551--35681608 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
35681541 TTATCCGTCA
35681551 ATTCATCATTTGCATAAGACGATTGTACT
1 ATTCATCATTTGCATAAGACGATTGTACT
*
35681580 ATTCATTATTTGCATAAGACGATTGTACT
1 ATTCATCATTTGCATAAGACGATTGTACT
35681609 CAATCCTGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (29 bp):
ATTCATCATTTGCATAAGACGATTGTACT
Found at i:35683195 original size:28 final size:28
Alignment explanation
Indices: 35683163--35683221 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
35683153 TTTAGGGACT
*
35683163 AAATTGAGCAAATCATAAAATTTTGGGC
1 AAATTGAGCAAATAATAAAATTTTGGGC
35683191 AAATTGAGCAAATAATAAAATTTTGGGC
1 AAATTGAGCAAATAATAAAATTTTGGGC
35683219 AAA
1 AAA
35683222 CTTGTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.27
Consensus pattern (28 bp):
AAATTGAGCAAATAATAAAATTTTGGGC
Found at i:35691098 original size:47 final size:47
Alignment explanation
Indices: 35691027--35691190 Score: 265
Period size: 47 Copynumber: 3.5 Consensus size: 47
35691017 CCCTTCGGGA
* * * *
35691027 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
35691074 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35691121 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
35691168 CTTATCACATATATACACTTTCA
1 CTTATCACATATATACACTTTCA
35691191 TATTTATTCA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:35691105 original size:25 final size:25
Alignment explanation
Indices: 35691077--35691155 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
35691067 ACTCGGCCCT
35691077 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
35691102 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
35691124 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
35691149 ATCACAT
1 ATCACAT
35691156 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:35700445 original size:41 final size:41
Alignment explanation
Indices: 35700394--35700478 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
35700384 TACACTTAAA
*
35700394 GAGGGAAAGAGGCCAAAGTGAAAACCCGCAAAGGGCACTTT
1 GAGGGAAAGAGGCCAAAGTGAAAACCCACAAAGGGCACTTT
* *
35700435 GAGGGAAAGAGGCCAAAGTGAAAACCCACATAGGGCGCTTT
1 GAGGGAAAGAGGCCAAAGTGAAAACCCACAAAGGGCACTTT
35700476 GAG
1 GAG
35700479 ATCTTCTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.33, T:0.11
Consensus pattern (41 bp):
GAGGGAAAGAGGCCAAAGTGAAAACCCACAAAGGGCACTTT
Found at i:35712171 original size:16 final size:16
Alignment explanation
Indices: 35712150--35712183 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35712140 TGAGTCTGGT
35712150 TATACGCGGTGCTTGG
1 TATACGCGGTGCTTGG
35712166 TATACGCGGTGCTTGG
1 TATACGCGGTGCTTGG
35712182 TA
1 TA
35712184 ACTCACCCTT
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:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (16 bp):
TATACGCGGTGCTTGG
Found at i:35712645 original size:24 final size:24
Alignment explanation
Indices: 35712618--35712669 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
35712608 TTCACATGTC
35712618 AAATAAATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* *
35712642 AAATATATTATACTAATAAGTACT
1 AAATAAATTATACTAATAAATACT
35712666 AAAT
1 AAAT
35712670 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:35721313 original size:41 final size:41
Alignment explanation
Indices: 35721256--35721535 Score: 363
Period size: 41 Copynumber: 6.8 Consensus size: 41
35721246 GAATATAATA
* *
35721256 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
35721297 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
35721338 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
35721379 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
35721420 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
35721461 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
35721502 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
35721536 ATCTGTTTAA
Statistics
Matches: 222, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 209 0.94
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:35729120 original size:41 final size:41
Alignment explanation
Indices: 35728954--35729109 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
35728944 TTTATCGTTA
* * * *
35728954 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
35728995 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
35729036 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
35729077 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
35729110 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:35729404 original size:33 final size:33
Alignment explanation
Indices: 35729340--35729404 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
35729330 ATATATATTT
* * ** *
35729340 CATTCGGCATAGGTGGATATATTTATGTGTATG
1 CATTCGGCATAGGTGAAAATAAGTATATGTATG
*
35729373 CATTCGGCATAGGTGAAAATAAGTGTATGTAT
1 CATTCGGCATAGGTGAAAATAAGTATATGTAT
35729405 CTATGCATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (33 bp):
CATTCGGCATAGGTGAAAATAAGTATATGTATG
Found at i:35738047 original size:90 final size:91
Alignment explanation
Indices: 35737887--35738056 Score: 254
Period size: 90 Copynumber: 1.9 Consensus size: 91
35737877 TATGCATGTC
* *
35737887 ACATCCATTAAACTTACATTCAACACATAGGGGTATTTTGGTCATTTTTGCCCTTAAGGGTATTT
1 ACATCCATTAAACTTACATTCAACACATAGGGGTATTTTGGTCATTTTCGCCCTTAAGGGCATTT
35737952 AGGTAATTTTCCCTTATATACATATA
66 AGGTAATTTTCCCTTATATACATATA
* * *
35737978 ACATCC-TTAAATCTTACCTTCAACGCAT-GGGGTATTTTGGTCATTTTCGCCCTTAGGGGCATT
1 ACATCCATTAAA-CTTACATTCAACACATAGGGGTATTTTGGTCATTTTCGCCCTTAAGGGCATT
* *
35738041 TCGGTAATTTTTCCTT
65 TAGGTAATTTTCCCTT
35738057 TATTACGATT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
90 51 0.72
91 20 0.28
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (91 bp):
ACATCCATTAAACTTACATTCAACACATAGGGGTATTTTGGTCATTTTCGCCCTTAAGGGCATTT
AGGTAATTTTCCCTTATATACATATA
Found at i:35738381 original size:29 final size:29
Alignment explanation
Indices: 35738310--35738461 Score: 132
Period size: 29 Copynumber: 5.3 Consensus size: 29
35738300 ACCCCTACAT
*
35738310 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
** * *
35738338 TTATTTATATGGCCCATCCGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
35738367 ACGTTCATATTGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * *
35738396 ACATTCATATGGCCCGTTAGGCCTAA-TC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * * * *
35738424 TCATTTATATGGCCCATCCGGGCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
35738453 ACATT-ATAT
1 ACATTCATAT
35738462 TCATGCTCAC
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
28 44 0.45
29 53 0.55
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:35742583 original size:10 final size:10
Alignment explanation
Indices: 35742568--35742598 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
35742558 AAATATCTAG
35742568 ATTTCTCTTC
1 ATTTCTCTTC
35742578 ATTTCTCTTC
1 ATTTCTCTTC
35742588 ATTTCTCTTC
1 ATTTCTCTTC
35742598 A
1 A
35742599 ATTCCAGTAN
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.13, C:0.29, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTCTCTTC
Found at i:35745742 original size:28 final size:23
Alignment explanation
Indices: 35745685--35745730 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35745675 TACAATATAA
35745685 AATATTAAATTAAATTTTTTATT
1 AATATTAAATTAAATTTTTTATT
*
35745708 AATATTAAATTAAATTTATTATT
1 AATATTAAATTAAATTTTTTATT
35745731 TTTAATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTAAATTAAATTTTTTATT
Found at i:35746008 original size:19 final size:20
Alignment explanation
Indices: 35745984--35746024 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
35745974 TTTATTTATT
35745984 TATTTTAATT-ATAATAAAA
1 TATTTTAATTAATAATAAAA
*
35746003 TATTTTATTTAATAATAAAA
1 TATTTTAATTAATAATAAAA
35746023 TA
1 TA
35746025 ATTAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTTAATTAATAATAAAA
Found at i:35748929 original size:18 final size:18
Alignment explanation
Indices: 35748906--35748959 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
35748896 TTAAAAAGTT
*
35748906 TAAAAATAAATAAATAGA
1 TAAAAATAAATAAATAAA
35748924 TAAAAATATGTAATAAACTAAA
1 TAAAAATA---AATAAA-TAAA
35748946 TAAAAATAAA-AAAT
1 TAAAAATAAATAAAT
35748960 CTAACTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
17 1 0.03
18 11 0.35
19 2 0.06
21 6 0.19
22 11 0.35
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAAAATAAATAAATAAA
Found at i:35751651 original size:62 final size:62
Alignment explanation
Indices: 35751554--35751673 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
35751544 GCTTTTGATG
*
35751554 CAGTGAAATGTAAAGTTTTCTTGATGACTTTTAGGGAAACGCCAAAGATTGGTATTTTAATA
1 CAGTGAAATGTAAAGTTTTCTTGATGAATTTTAGGGAAACGCCAAAGATTGGTATTTTAATA
*
35751616 CAGTGAAATGTAAATTTTTCTTGATGAATTTTAGGGAAACGCCAAAGATTGGTATTTT
1 CAGTGAAATGTAAAGTTTTCTTGATGAATTTTAGGGAAACGCCAAAGATTGGTATTTT
35751674 TCTTTGCCAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (62 bp):
CAGTGAAATGTAAAGTTTTCTTGATGAATTTTAGGGAAACGCCAAAGATTGGTATTTTAATA
Found at i:35754852 original size:11 final size:12
Alignment explanation
Indices: 35754836--35754868 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
35754826 AATTGGTTTG
35754836 ATTAAAAAATT-
1 ATTAAAAAATTC
35754847 ATTAAAAAATTC
1 ATTAAAAAATTC
*
35754859 ATAAAAAAAT
1 ATTAAAAAAT
35754869 AAAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAAAAATTC
Found at i:35762775 original size:130 final size:130
Alignment explanation
Indices: 35762528--35763115 Score: 673
Period size: 130 Copynumber: 4.5 Consensus size: 130
35762518 GATTTAATAG
* * * * *
35762528 CTGATTTATGATTATAACGTAAGTTCATTGATTTACTATCATAAACAATCTTCTCTAAGTTAGTT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
* * * **
35762593 GATTTGCTATCGCTACTCCAAATAGCTTGTAGATTTAATATCACAGGAGATATTATTAAGGCTCA
66 GATTTACTATCGCTACTCCAAACAGCTCGTAGATTTAATATCACAGCTGATATTATTAAGGCTCA
* * *
35762658 CTGATTTACGATTACAACCTAAGTTCATTGATTTACTATCATGAATAATATTCTCTAAGTTCA-T
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTT-AGT
* * * ** * *
35762722 TGATTTACTATCGTTACTTCAAATAGCTCGCTA-ATTTAAGGTTACAGTTGATATTATTAAGGCT
65 TGATTTACTATCGCTACTCCAAACAGCTCG-TAGATTTAATATCACAGCTGATATTATTAAGGCT
**
35762786 TG
129 CA
* * * * * *
35762788 CTGATTTACGATCACAACCCAAGTTCATTGATTTACTATCATGAAAAATTTTCTTTGAGTTAGCT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
* * * * *
35762853 GATTTATTATCACTACTCCAAACAGCTCACTAG-TTTAATATCATAGCTGATATTATTAAGGCTT
66 GATTTACTATCGCTACTCCAAACAGCTC-GTAGATTTAATATCACAGCTGATATTATTAAGGCTC
*
35762917 G
130 A
* * ** *
35762918 TTGATTTACAATCAGGACCTAAATTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
* * *
35762983 GATTTACTATTGCTACTCCAAACAACTCGTAGATTTAATATCATAGCTGATATTATTAAGGCTCA
66 GATTTACTATCGCTACTCCAAACAGCTCGTAGATTTAATATCACAGCTGATATTATTAAGGCTCA
* * * * * *
35763048 CTGATTTACGATAACAACCAAAGTTCATTTATTTACAATCATGAATAATCCTTC-CTGAGTT-GT
1 CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAAT-CTTCTCTAAGTTAGT
35763111 TGATT
65 TGATT
35763116 CCCGATAATA
Statistics
Matches: 387, Mismatches: 64, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
129 11 0.03
130 369 0.95
131 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (130 bp):
CTGATTTACGATCACAACCTAAGTTCATTGATTTACTATCATGAACAATCTTCTCTAAGTTAGTT
GATTTACTATCGCTACTCCAAACAGCTCGTAGATTTAATATCACAGCTGATATTATTAAGGCTCA
Found at i:35764230 original size:29 final size:29
Alignment explanation
Indices: 35764188--35764247 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
35764178 TCTTTCCACG
35764188 GAAATAATGTTTGTACCTCACCACCAGTA
1 GAAATAATGTTTGTACCTCACCACCAGTA
*
35764217 GAAATAATGTTTGTGCCTCACCACCAGTA
1 GAAATAATGTTTGTACCTCACCACCAGTA
35764246 GA
1 GA
35764248 CACAAAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (29 bp):
GAAATAATGTTTGTACCTCACCACCAGTA
Found at i:35764257 original size:29 final size:29
Alignment explanation
Indices: 35764196--35764257 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
35764186 CGGAAATAAT
* *
35764196 GTTTGTACCTCACCACCAGTAGAAATAAT
1 GTTTGTACCTCACCACCAGTAGAAACAAA
* *
35764225 GTTTGTGCCTCACCACCAGTAGACACAAA
1 GTTTGTACCTCACCACCAGTAGAAACAAA
35764254 GTTT
1 GTTT
35764258 ATTGAACCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (29 bp):
GTTTGTACCTCACCACCAGTAGAAACAAA
Found at i:35766698 original size:72 final size:72
Alignment explanation
Indices: 35766580--35766870 Score: 555
Period size: 72 Copynumber: 4.0 Consensus size: 72
35766570 CAATATTTAT
* *
35766580 TTTTAATACAAATGAAAGTCGGGGATACATAAAAAGGATGGATGTGTATATATACATGCATGTAA
1 TTTTAATACAAATGAATGTC-GGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAA
35766645 AAATTAGC
65 AAATTAGC
35766653 TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
1 TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
35766718 AATTAGC
66 AATTAGC
35766725 TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
1 TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
35766790 AATTAGC
66 AATTAGC
35766797 TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
1 TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
35766862 AATTAGC
66 AATTAGC
35766869 TT
1 TT
35766871 CATCTTTTTA
Statistics
Matches: 216, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
72 197 0.91
73 19 0.09
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (72 bp):
TTTTAATACAAATGAATGTCGGGATACTTAAAAAGGATGGATGTGTATATATACATGCATGTAAA
AATTAGC
Found at i:35789212 original size:31 final size:31
Alignment explanation
Indices: 35789174--35789242 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
35789164 CTTAACCACC
* **
35789174 CAATGACTTGAATAAAAACTTTTGAATAATT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
* *
35789205 CAATGACTTAAATGAAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAATT
35789236 CAATGAC
1 CAATGAC
35789243 CATTTTATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAATT
Found at i:35800353 original size:31 final size:31
Alignment explanation
Indices: 35800318--35800400 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
35800308 CTTCCTGCAT
* *
35800318 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
35800349 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
35800380 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
35800401 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:35800707 original size:21 final size:21
Alignment explanation
Indices: 35800632--35800731 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
35800622 TCTGCTGCCA
* *
35800632 TCGCTGCTGCCTCTGCCTCCT
1 TCGCTGCTGCCGCTGCCTCCC
* * * *
35800653 TAGCT-CGTGCCTCTGCCACCT
1 TCGCTGC-TGCCGCTGCCTCCC
* * * *
35800674 TCGTTACTACCGCTGCCTCTC
1 TCGCTGCTGCCGCTGCCTCCC
35800695 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
* *
35800716 TCTCTGCTGCCTCTGC
1 TCGCTGCTGCCGCTGC
35800732 TCTAAGTTGC
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.04, C:0.46, G:0.19, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCCC
Found at i:35806232 original size:9 final size:9
Alignment explanation
Indices: 35806214--35806548 Score: 103
Period size: 9 Copynumber: 37.7 Consensus size: 9
35806204 TAAGTATAAT
35806214 TAAGTTATG
1 TAAGTTATG
*
35806223 TAAGTCATG
1 TAAGTTATG
35806232 T-A-TTATG
1 TAAGTTATG
35806239 TAAGTTATG
1 TAAGTTATG
35806248 T-A-TTATG
1 TAAGTTATG
35806255 TAAGTTATG
1 TAAGTTATG
*
35806264 TAAATTATG
1 TAAGTTATG
* *
35806273 TAAATCATG
1 TAAGTTATG
* *
35806282 -AATTTTGATCCT
1 TAA-GTT-AT--G
*
35806294 TAAATTATG
1 TAAGTTATG
35806303 TAAGTTATG
1 TAAGTTATG
*
35806312 -CA-TTATG
1 TAAGTTATG
35806319 TAAGTTATG
1 TAAGTTATG
*
35806328 -AAATT-TG
1 TAAGTTATG
* **
35806335 -AACTTTAAA
1 TAA-GTTATG
35806344 TAA-TTATG
1 TAAGTTATG
*
35806352 TCAGTTATG
1 TAAGTTATG
*
35806361 TAAATTATG
1 TAAGTTATG
*
35806370 TAACTTATG
1 TAAGTTATG
* * * *
35806379 AAATTTGGTCTT
1 TAA---GTTATG
*
35806391 TAAATTATG
1 TAAGTTATG
35806400 TAAGTTATG
1 TAAGTTATG
*
35806409 T-A-TCATG
1 TAAGTTATG
35806416 TAAGTTATG
1 TAAGTTATG
* * *
35806425 AAATTTGATCTT
1 TAAGTT-A--TG
*
35806437 TAAATTATG
1 TAAGTTATG
*
35806446 TAAGTCATG
1 TAAGTTATG
35806455 T-AG-TATG
1 TAAGTTATG
*
35806462 TAAGTTAAG
1 TAAGTTATG
*
35806471 TAAATTATG
1 TAAGTTATG
35806480 TAAGTTATG
1 TAAGTTATG
* * *
35806489 AAATTTGAACTT
1 TAAGTT--A-TG
*
35806501 TAAATTATG
1 TAAGTTATG
35806510 TAAGTTATG
1 TAAGTTATG
35806519 T-A--TATG
1 TAAGTTATG
*
35806525 TAAATTATG
1 TAAGTTATG
*
35806534 TAAATTATG
1 TAAGTTATG
*
35806543 TGAGTT
1 TAAGTT
35806549 GCTGGTGAAC
Statistics
Matches: 238, Mismatches: 57, Indels: 62
0.67 0.16 0.17
Matches are distributed among these distances:
6 5 0.02
7 30 0.13
8 26 0.11
9 149 0.63
10 6 0.03
11 4 0.02
12 16 0.07
13 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:35806239 original size:16 final size:16
Alignment explanation
Indices: 35806218--35806281 Score: 83
Period size: 16 Copynumber: 3.9 Consensus size: 16
35806208 TATAATTAAG
35806218 TTATGTAAGTCATGTA
1 TTATGTAAGTCATGTA
*
35806234 TTATGTAAGTTATGTA
1 TTATGTAAGTCATGTA
*
35806250 TTATGTAAGTTATGTAAA
1 TTATGTAAGTCATGT--A
*
35806268 TTATGTAAATCATG
1 TTATGTAAGTCATG
35806282 AATTTTGATC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
16 30 0.70
18 13 0.30
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTCATGTA
Found at i:35806318 original size:16 final size:16
Alignment explanation
Indices: 35806297--35806327 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35806287 TGATCCTTAA
35806297 ATTATGTAAGTTATGC
1 ATTATGTAAGTTATGC
35806313 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
35806328 AAATTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
ATTATGTAAGTTATGC
Found at i:35806335 original size:46 final size:46
Alignment explanation
Indices: 35806249--35806468 Score: 251
Period size: 46 Copynumber: 4.6 Consensus size: 46
35806239 TAAGTTATGT
* * * *
35806249 ATTATGTAAGTTATGTAAATTATGTAAATCATGAATTTTGATCCTTAA
1 ATTATGTAAGTTATG--AATTATGTAAGTTATGAAATTTGATCTTTAA
* *
35806297 ATTATGTAAGTTATGCATTATGTAAGTTATGAAATTTGAACTTTAAATA
1 ATTATGTAAGTTATGAATTATGTAAGTTATGAAATTTGATCTTT--A-A
* * *
35806346 ATTATGTCAGTTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAA
1 ATTATGTAAGTTATG--AATTATGTAAGTTATGAAATTTGATCTTTAA
* *
35806394 ATTATGTAAGTTATGTATCATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGAATTATGTAAGTTATGAAATTTGATCTTTAA
* * *
35806440 ATTATGTAAGTCATGTAGTATGTAAGTTA
1 ATTATGTAAGTTATGAATTATGTAAGTTA
35806469 AGTAAATTAT
Statistics
Matches: 148, Mismatches: 19, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
46 76 0.51
48 31 0.21
49 16 0.11
51 25 0.17
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (46 bp):
ATTATGTAAGTTATGAATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:35806363 original size:97 final size:97
Alignment explanation
Indices: 35806249--35806456 Score: 305
Period size: 97 Copynumber: 2.2 Consensus size: 97
35806239 TAAGTTATGT
*
35806249 ATTATGTAAGTTATGTAAATTATGTAAATCATGAATTTTGATCCTTAAATTATGTAAGTTATGCA
1 ATTATGTAAGTTATGTAAATTATGTAAATCATGAAATTTGATCCTTAAATTATGTAAGTTATGCA
*
35806314 TTATGTAAGTTATGAAATTTGAACTTTAAATA
66 TCATGTAAGTTATGAAATTTGAACTTTAAATA
* * * * * *
35806346 ATTATGTCAGTTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTAAATTATGTAAATCATGAAATTTGATCCTTAAATTATGTAAGTTATGCA
*
35806411 TCATGTAAGTTATGAAATTTGATCTTT--A-A
66 TCATGTAAGTTATGAAATTTGAACTTTAAATA
*
35806440 ATTATGTAAGTCATGTA
1 ATTATGTAAGTTATGTA
35806457 GTATGTAAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
94 16 0.16
95 1 0.01
97 83 0.83
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.44
Consensus pattern (97 bp):
ATTATGTAAGTTATGTAAATTATGTAAATCATGAAATTTGATCCTTAAATTATGTAAGTTATGCA
TCATGTAAGTTATGAAATTTGAACTTTAAATA
Found at i:35806449 original size:30 final size:30
Alignment explanation
Indices: 35806313--35806518 Score: 125
Period size: 30 Copynumber: 6.5 Consensus size: 30
35806303 TAAGTTATGC
35806313 ATTATGTAAGTTATGAAATTTGAACTTTAAATA
1 ATTATGTAAGTTATGAAATTTGAACTTT--A-A
*
35806346 ATTATGTCAGTTATGTAAATTATGTAACTTATGAA
1 ATTATGTAAGTTATG-AAATT-TG-AACTT-T-AA
* * **
35806381 ATT-TG---GTCT-TTAAATTATGTAAGTTATGT
1 ATTATGTAAGT-TATGAAATT-TG-AACTT-TAA
* *
35806410 ATCATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGAAATTTGAACTTTAA
* * * * *
35806440 ATTATGTAAGTCATGTAGTATGTAAGTTAAGTAA
1 ATTATGTAAGTTATGAAATTTG-AACTT---TAA
35806474 ATTATGTAAGTTATGAAATTTGAACTTTAA
1 ATTATGTAAGTTATGAAATTTGAACTTTAA
35806504 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
35806519 TATATGTAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 31
0.71 0.13 0.16
Matches are distributed among these distances:
29 2 0.01
30 53 0.39
31 9 0.07
32 4 0.03
33 26 0.19
34 28 0.21
35 6 0.04
36 6 0.04
37 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTATGTAAGTTATGAAATTTGAACTTTAA
Found at i:35806478 original size:34 final size:32
Alignment explanation
Indices: 35806437--35806548 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 32
35806427 ATTTGATCTT
* *
35806437 TAAATTATGTAAGTCATGTAGTATGTAAGTTAAG
1 TAAATTATGTAAGTTATGTA-TATGTAAATT-AG
* * *
35806471 TAAATTATGTAAGTTATG-AAATTTGAACTT--
1 TAAATTATGTAAGTTATGTATATGT-AAATTAG
35806501 TAAATTATGTAAGTTATGTATATGTAAATTATG
1 TAAATTATGTAAGTTATGTATATGTAAATTA-G
*
35806534 TAAATTATGTGAGTT
1 TAAATTATGTAAGTT
35806549 GCTGGTGAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
30 22 0.34
31 4 0.06
32 3 0.05
33 19 0.29
34 17 0.26
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (32 bp):
TAAATTATGTAAGTTATGTATATGTAAATTAG
Found at i:35806481 original size:64 final size:63
Alignment explanation
Indices: 35806396--35806548 Score: 229
Period size: 64 Copynumber: 2.4 Consensus size: 63
35806386 GTCTTTAAAT
* *
35806396 TATGTAAGTTATGT--ATCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTA
1 TATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
* *
35806457 GTATGTAAGTTAAGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTA
1 -TATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
* *
35806521 TATGTAAATTATGTAAATTATGTGAGTT
1 TATGTAAGTTATGTAAATTATGTAAGTT
35806549 GCTGGTGAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
62 13 0.16
63 25 0.30
64 44 0.54
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.44
Consensus pattern (63 bp):
TATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
Found at i:35806493 original size:97 final size:94
Alignment explanation
Indices: 35806257--35806479 Score: 232
Period size: 97 Copynumber: 2.3 Consensus size: 94
35806247 GTATTATGTA
* * * *
35806257 AGTTATGTAAATTATGTAAATCATGAATTTTGATCCTT-AAATTATGTAAGTTATGCATTATGTA
1 AGTTATGTAAATTAAGTAAATTATGAA--ATG-T-CTTGAAATTATGTAAGTTATGCATCATGTA
*
35806321 AGTTATGAAATTTGAACTTTAAATAATTATGTC
62 AGTTATGAAATTTGAACTTTAAATAATTAAGTC
* * * *
35806354 AGTTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAAATTATGTAAGTTATGTATCATGTAA
1 AGTTATGTAAATTAAGTAAATTATGAAA--T-GTCTTGAAATTATGTAAGTTATGCATCATGTAA
* *
35806419 GTTATGAAATTTGATCTTTAAATTATGTAAGTC
63 GTTATGAAATTTGAACTTTAAATAAT-TAAGTC
*
35806452 ATGTAGTATGTAAGTTAAGTAAATTATG
1 A-GT--TATGTAAATTAAGTAAATTATG
35806480 TAAGTTATGA
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
96 3 0.03
97 76 0.71
98 7 0.07
99 2 0.02
101 19 0.18
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.43
Consensus pattern (94 bp):
AGTTATGTAAATTAAGTAAATTATGAAATGTCTTGAAATTATGTAAGTTATGCATCATGTAAGTT
ATGAAATTTGAACTTTAAATAATTAAGTC
Found at i:35806526 original size:15 final size:15
Alignment explanation
Indices: 35806506--35806535 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35806496 AACTTTAAAT
*
35806506 TATGTAAGTTATGTA
1 TATGTAAATTATGTA
35806521 TATGTAAATTATGTA
1 TATGTAAATTATGTA
35806536 AATTATGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
TATGTAAATTATGTA
Found at i:35806590 original size:17 final size:17
Alignment explanation
Indices: 35806568--35806601 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35806558 CTTGAAAAAA
*
35806568 ATATATTACTTTTGAAT
1 ATATATTAATTTTGAAT
35806585 ATATATTAATTTTGAAT
1 ATATATTAATTTTGAAT
35806602 TAGAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATATTAATTTTGAAT
Found at i:35808045 original size:14 final size:13
Alignment explanation
Indices: 35808026--35808055 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
35808016 CAATATAATT
35808026 TTACTTCATATATA
1 TTACTTCATATA-A
35808040 TTACTTCATATAA
1 TTACTTCATATAA
35808053 TTA
1 TTA
35808056 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:35811192 original size:14 final size:14
Alignment explanation
Indices: 35811149--35811194 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
35811139 CTTAAACCAT
35811149 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
35811163 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
35811176 TAAACTATATCCCC
1 TAAACTATATCCCC
35811190 TAAAC
1 TAAAC
35811195 CTTAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:35811243 original size:15 final size:15
Alignment explanation
Indices: 35811212--35811265 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
35811202 CACAAAATAA
*
35811212 TAACCCCT-AAGCAT
1 TAACCCCTAAACCAT
35811226 TAACCCCTAAACCAT
1 TAACCCCTAAACCAT
* *
35811241 TAACCCATAACCCAT
1 TAACCCCTAAACCAT
*
35811256 AAACCCCTAA
1 TAACCCCTAA
35811266 CCACTGACCC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 8 0.24
15 26 0.76
ACGTcount: A:0.41, C:0.39, G:0.02, T:0.19
Consensus pattern (15 bp):
TAACCCCTAAACCAT
Found at i:35811263 original size:100 final size:99
Alignment explanation
Indices: 35811072--35811264 Score: 221
Period size: 100 Copynumber: 1.9 Consensus size: 99
35811062 ATTAATCATA
* * * * *
35811072 ACCCTAAACTATATCCCCTGATCCTTAAACCACAAAATAATAACACTGATTAATCAATACTCTAA
1 ACCCTAAACTATATCCCCTAAACCTTAAACCACAAAATAATAACAC-GACTAAGCAATACCCTAA
* *
35811137 ACCTTAAACCATTAAACTATATCCCCTACTAAAGT
65 ACCTTAAACCATTAAACCATAACCCCTACTAAAGT
* *
35811172 ACCCTAAACTATATCCCCTAAACCTTAAACCACAAAATAATAAC-C-CCTAAGCATTAACCCCTA
1 ACCCTAAACTATATCCCCTAAACCTTAAACCACAAAATAATAACACGACTAAGCAAT-A-CCCTA
* *
35811235 AACCATTAACCCA-TAACCCATAAACCCCTA
64 AACC-TTAAACCATTAAACCAT-AACCCCTA
35811265 ACCACTGACC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
97 6 0.08
98 1 0.01
99 15 0.19
100 56 0.72
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.23
Consensus pattern (99 bp):
ACCCTAAACTATATCCCCTAAACCTTAAACCACAAAATAATAACACGACTAAGCAATACCCTAAA
CCTTAAACCATTAAACCATAACCCCTACTAAAGT
Found at i:35811266 original size:22 final size:23
Alignment explanation
Indices: 35811213--35811267 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
35811203 ACAAAATAAT
* *
35811213 AACCCCTAA-GCATTAACCCCTA
1 AACCCCTAACCCATTAACCCATA
**
35811235 AACCATTAACCCA-TAACCCATA
1 AACCCCTAACCCATTAACCCATA
35811257 AACCCCTAACC
1 AACCCCTAACC
35811268 ACTGACCCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.40, C:0.42, G:0.02, T:0.16
Consensus pattern (23 bp):
AACCCCTAACCCATTAACCCATA
Found at i:35812270 original size:12 final size:12
Alignment explanation
Indices: 35812253--35812281 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35812243 GTTTTCTATT
35812253 AAAACGCCGCTA
1 AAAACGCCGCTA
35812265 AAAACGCCGCTA
1 AAAACGCCGCTA
35812277 AAAAC
1 AAAAC
35812282 CTATTGCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.31, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:35814251 original size:54 final size:53
Alignment explanation
Indices: 35814071--35814314 Score: 178
Period size: 53 Copynumber: 4.6 Consensus size: 53
35814061 CTTACCATTT
* * * *
35814071 CCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATG-AACTCACCAATG
* * *
35814120 GCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATGAACTCACCAATG
* * * * * * *
35814173 TCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACTTCTAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGACTTAT-G-AACTCACCAATG
* *** * *
35814227 CCATGTCTTGACATTGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATG-AA-CTCACCAA-TG
* * *
35814282 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
35814315 AAACCCTAAT
Statistics
Matches: 155, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 28 0.18
50 1 0.01
52 8 0.05
53 41 0.26
54 40 0.26
55 37 0.24
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATGAACTCACCAATG
Found at i:35821934 original size:39 final size:39
Alignment explanation
Indices: 35821875--35821993 Score: 184
Period size: 39 Copynumber: 3.1 Consensus size: 39
35821865 TGTGAATATA
* *
35821875 TATACGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
35821914 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
35821953 TATATGCGAGAATTATATCCAGACTTTAGGTCCGCAGGC
1 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
35821992 TA
1 TA
35821994 CGTGCTGGAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (39 bp):
TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:35826144 original size:5 final size:5
Alignment explanation
Indices: 35826134--35826158 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35826124 AATAAGGAAA
35826134 GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT
35826159 TGTGCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:35826530 original size:12 final size:12
Alignment explanation
Indices: 35826513--35826545 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
35826503 CGGCCCACCC
35826513 ATATTAATTTTT
1 ATATTAATTTTT
35826525 ATATT-ATTTTT
1 ATATTAATTTTT
35826536 ATA-TAATTTT
1 ATATTAATTTT
35826546 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:35826703 original size:30 final size:30
Alignment explanation
Indices: 35826669--35826731 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
35826659 ACTTAACAAG
35826669 CAAATATCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
35826699 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
35826729 CAA
1 CAA
35826732 TAAAATAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:35827671 original size:66 final size:66
Alignment explanation
Indices: 35827588--35827785 Score: 240
Period size: 66 Copynumber: 3.0 Consensus size: 66
35827578 TGAAAGCTCG
* *
35827588 GACAAGGACCCT-AAAAGGGATTATTAAACCAAGAGGAAGACATTAGAAAATAGAGTAGAACAAG
1 GACAA-GACCCTCAAAAGGGGTTATTAAACCAAGAGGAAGACATTAAAAAATAGAGTAGAACAAG
35827652 GA
65 GA
* * * * * *
35827654 GACAAGACCCTCGAAAGGGGTTATTAAACCGAGAGGAGGACATCAAAAAACAAAGTAGAACAAGG
1 GACAAGACCCTCAAAAGGGGTTATTAAACCAAGAGGAAGACATTAAAAAATAGAGTAGAACAAGG
35827719 A
66 A
* * * **
35827720 GATAAGACCCCCAAAAGGGGTTATTAAATCAAGAGG-AGTACA-TAAAAAATAGAAAAGAACAAG
1 GACAAGACCCTCAAAAGGGGTTATTAAACCAAGAGGAAG-ACATTAAAAAATAGAGTAGAACAAG
35827783 GA
65 GA
35827785 G
1 G
35827786 GATGATGACC
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 26 0.23
66 85 0.77
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.13
Consensus pattern (66 bp):
GACAAGACCCTCAAAAGGGGTTATTAAACCAAGAGGAAGACATTAAAAAATAGAGTAGAACAAGG
A
Found at i:35831775 original size:18 final size:19
Alignment explanation
Indices: 35831754--35831801 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
35831744 ATTACAAAAT
35831754 AATTTAAAATAATTT-T-AA
1 AATTTAAAAT-ATTTATAAA
*
35831772 AATTCAAAATATTTATAAA
1 AATTTAAAATATTTATAAA
35831791 AATTCTAAAAT
1 AATT-TAAAAT
35831802 TTATTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.16
18 10 0.40
19 6 0.24
20 5 0.20
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAATATTTATAAA
Found at i:35831794 original size:27 final size:29
Alignment explanation
Indices: 35831741--35831802 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
35831731 ACTCTCAACA
*
35831741 AAAATTACAAAATAATTTAAAATAATTTT
1 AAAATTACAAAATAATTTAAAATAATTCT
35831770 AAAATT-CAAAAT-ATTTATAAA-AATTCT
1 AAAATTACAAAATAATTTA-AAATAATTCT
35831797 AAAATT
1 AAAATT
35831803 TATTCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 16 0.52
28 9 0.29
29 6 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATTACAAAATAATTTAAAATAATTCT
Found at i:35831803 original size:18 final size:19
Alignment explanation
Indices: 35831770--35831805 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35831760 AAATAATTTT
35831770 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
*
35831789 AAAATTCTAAA-ATTTAT
1 AAAATTCAAAATATTTAT
35831806 TCTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:35842332 original size:42 final size:42
Alignment explanation
Indices: 35842285--35842365 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
35842275 CCTAATTGGA
* *
35842285 AAAATAATTCTCTTATTTTAATAAACTACTAAAACATAAGGG
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
* * *
35842327 AAAATAGTTCCCTTATTCTAATAAACTATTAAAAGATAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
35842366 AATAAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGG
Done.