Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 52 of 290
Found at i:17216280 original size:40 final size:40
Alignment explanation
Indices: 17216236--17216312 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
17216226 AGAGTACCAC
17216236 TTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCATAT
1 TTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCATAT
* *
17216276 TTGGTGTGTAGGGCTGGCTGGGTTGATTTTATCCCCA
1 TTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCA
17216313 CATGGTATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.13, C:0.16, G:0.34, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGGGTCGATTTTATCCCCATAT
Found at i:17219600 original size:27 final size:26
Alignment explanation
Indices: 17219569--17219746 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
17219559 TAAATTGTAC
*
17219569 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
17219596 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
17219622 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
17219650 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
17219678 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
17219705 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
17219732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17219747 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:17219684 original size:82 final size:81
Alignment explanation
Indices: 17219570--17219725 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
17219560 AAATTGTACA
* *
17219570 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17219634 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
17219651 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17219716 TGCGAGTTGA
65 TGCGAATTGA
17219726 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17219737 original size:82 final size:81
Alignment explanation
Indices: 17219566--17219746 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
17219556 GATTAAATTG
* * *
17219566 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17219631 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
17219647 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17219711 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17219729 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17219747 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17219757 original size:27 final size:27
Alignment explanation
Indices: 17219651--17219757 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
17219641 TGACCATGCG
* * * *
17219651 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
17219679 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
17219706 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17219733 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
17219758 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:17222648 original size:24 final size:24
Alignment explanation
Indices: 17222621--17222666 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17222611 GGAAAGAAAA
*
17222621 TATGTTACTATGAACATATATACT
1 TATGTTACTACGAACATATATACT
*
17222645 TATGTTGCTACGAACATATATA
1 TATGTTACTACGAACATATATA
17222667 TGTTTCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (24 bp):
TATGTTACTACGAACATATATACT
Found at i:17227989 original size:19 final size:20
Alignment explanation
Indices: 17227965--17228015 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
17227955 CATTCAAACA
17227965 CCAGAAAATATTAT-ATTTT
1 CCAGAAAATATTATCATTTT
*
17227984 CCAGAAAAGTA-AATCATTTT
1 CCAGAAAA-TATTATCATTTT
*
17228004 CTAGAAAATATT
1 CCAGAAAATATT
17228016 TTACTAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
CCAGAAAATATTATCATTTT
Found at i:17229478 original size:32 final size:32
Alignment explanation
Indices: 17229435--17229499 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
17229425 CGGGTCACCC
*
17229435 AAATCGACTGTGAACCTACTGTAGGGTTGGTA
1 AAATCGACTGTGAACCTACTATAGGGTTGGTA
* *
17229467 AAATCGGCTGTGAATCTACTATAGGGTTGGTA
1 AAATCGACTGTGAACCTACTATAGGGTTGGTA
17229499 A
1 A
17229500 GCATCACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (32 bp):
AAATCGACTGTGAACCTACTATAGGGTTGGTA
Found at i:17238872 original size:18 final size:17
Alignment explanation
Indices: 17238839--17238872 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17238829 GTTTGAGCCG
*
17238839 TATGGGCCACATAGGCA
1 TATGGGCCACACAGGCA
17238856 TATGGGCCCACACAGGC
1 TATGGG-CCACACAGGC
17238873 TGGCTACGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (17 bp):
TATGGGCCACACAGGCA
Found at i:17239940 original size:33 final size:33
Alignment explanation
Indices: 17239903--17239968 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
17239893 TATCACATAA
17239903 ACATAGTTTTCAAACACCCTATCATGTGACATT
1 ACATAGTTTTCAAACACCCTATCATGTGACATT
17239936 ACATAGTTTTCAAACACCCTATCATGTGACATT
1 ACATAGTTTTCAAACACCCTATCATGTGACATT
17239969 GCCATCACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (33 bp):
ACATAGTTTTCAAACACCCTATCATGTGACATT
Found at i:17240474 original size:6 final size:6
Alignment explanation
Indices: 17240443--17240481 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
17240433 GGTTTCTGAG
* **
17240443 AATGGA AATGAA AATGGA AACAGA AATGGA AATGGA AAT
1 AATGGA AATGGA AATGGA AATGGA AATGGA AATGGA AAT
17240482 TTGCAATCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (6 bp):
AATGGA
Found at i:17240661 original size:25 final size:25
Alignment explanation
Indices: 17240627--17240717 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
17240617 TTCTTGAAAT
*
17240627 TTTTATTAGGGTAAAATCGTCAAAA
1 TTTTACTAGGGTAAAATCGTCAAAA
* *
17240652 ATTTACTAGGAT-AAATCGTCAAAA
1 TTTTACTAGGGTAAAATCGTCAAAA
* * ** *
17240676 TTTTATTGGGGTAAAAGAGTCAACA
1 TTTTACTAGGGTAAAATCGTCAAAA
*
17240701 TTTTACTAGGTTAAAAT
1 TTTTACTAGGGTAAAAT
17240718 TGGGGTAAGA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 20 0.39
25 31 0.61
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (25 bp):
TTTTACTAGGGTAAAATCGTCAAAA
Found at i:17240690 original size:24 final size:24
Alignment explanation
Indices: 17240627--17240690 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
17240617 TTCTTGAAAT
17240627 TTTTATTAGGGTAAAATCGTCAAAA
1 TTTTATTAGGGT-AAATCGTCAAAA
* * *
17240652 ATTTACTAGGATAAATCGTCAAAA
1 TTTTATTAGGGTAAATCGTCAAAA
*
17240676 TTTTATTGGGGTAAA
1 TTTTATTAGGGTAAA
17240691 AGAGTCAACA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (24 bp):
TTTTATTAGGGTAAATCGTCAAAA
Found at i:17251327 original size:12 final size:12
Alignment explanation
Indices: 17251310--17251340 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17251300 CGCCACACGA
17251310 CCGTGTGGTAGG
1 CCGTGTGGTAGG
17251322 CCGTGTGGTAGG
1 CCGTGTGGTAGG
17251334 CCGTGTG
1 CCGTGTG
17251341 CTAGAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.48, T:0.26
Consensus pattern (12 bp):
CCGTGTGGTAGG
Found at i:17269641 original size:33 final size:34
Alignment explanation
Indices: 17269577--17269687 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
17269567 TTATGCTTAT
* * * *
17269577 TGTCCTAGTAGACTTATCTTTGATCTATATTTAC
1 TGTCCTAGCAGACTTATCTCTGTTCTGTATTTAC
17269611 TGTCCTAGCAGAC-TATCTCTGTTCTGTATTTAC
1 TGTCCTAGCAGACTTATCTCTGTTCTGTATTTAC
* * *
17269644 T-ACCTTAGCTGACTTATCTCTGTTCTGCATTTAC
1 TGTCC-TAGCAGACTTATCTCTGTTCTGTATTTAC
*
17269678 TGTCCCAGCA
1 TGTCCTAGCA
17269688 TATGTCTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 2 0.03
33 25 0.39
34 35 0.55
35 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (34 bp):
TGTCCTAGCAGACTTATCTCTGTTCTGTATTTAC
Found at i:17271413 original size:26 final size:26
Alignment explanation
Indices: 17271384--17271444 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
17271374 AATTTTCTCG
*
17271384 AAATTTTATCAAGGGTAAAATCGTCA
1 AAATTTTACCAAGGGTAAAATCGTCA
* * * *
17271410 AAATTTTACCAGGGGTAAATTTGTTA
1 AAATTTTACCAAGGGTAAAATCGTCA
17271436 AAATTTTAC
1 AAATTTTAC
17271445 TAAAGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCGTCA
Found at i:17282220 original size:13 final size:13
Alignment explanation
Indices: 17282200--17282238 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
17282190 CCATTTCAAA
17282200 TACAGATAA-CAG
1 TACAGATAAGCAG
17282212 TATCAGATAAGCAG
1 TA-CAGATAAGCAG
*
17282226 TACAGATATGCAG
1 TACAGATAAGCAG
17282239 AATCCTACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 2 0.08
13 17 0.71
14 5 0.21
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (13 bp):
TACAGATAAGCAG
Found at i:17284121 original size:53 final size:53
Alignment explanation
Indices: 17284059--17284163 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
17284049 GATTAAATCG
17284059 GTACTGCCTCAAGATTGAGACATGAAACACATCGTAGATACGGTCTAACTCTA
1 GTACTGCCTCAAGATTGAGACATGAAACACATCGTAGATACGGTCTAACTCTA
*
17284112 GTACTGCCTCAAGATTGAGACGTGAAACACATCGTAGATACGGTCTAACTCT
1 GTACTGCCTCAAGATTGAGACATGAAACACATCGTAGATACGGTCTAACTCT
17284164 GGAGGTAGCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (53 bp):
GTACTGCCTCAAGATTGAGACATGAAACACATCGTAGATACGGTCTAACTCTA
Found at i:17291951 original size:13 final size:13
Alignment explanation
Indices: 17291935--17291959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17291925 TTAAATGAGT
17291935 TAATTAGTTTAAA
1 TAATTAGTTTAAA
17291948 TAATTAGTTTAA
1 TAATTAGTTTAA
17291960 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:17297398 original size:6 final size:6
Alignment explanation
Indices: 17297374--17297478 Score: 112
Period size: 6 Copynumber: 17.7 Consensus size: 6
17297364 TCCTCCTATT
*
17297374 TTTTTA TTTATTTA GTTTTA TTTTTA -TTTTA -TTTTA -TTTTA -TTTTA
1 TTTTTA -TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
17297420 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTTTCA TTTTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
17297467 TTATTTTA TTTT
1 -T-TTTTA TTTT
17297479 GAAAGACATA
Statistics
Matches: 89, Mismatches: 4, Indels: 11
0.86 0.04 0.11
Matches are distributed among these distances:
5 25 0.28
6 51 0.57
7 4 0.04
8 9 0.10
ACGTcount: A:0.18, C:0.02, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:17315063 original size:3 final size:3
Alignment explanation
Indices: 17315055--17315086 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17315045 TGCTCTTTGC
17315055 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17315087 ATAACAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17315132 original size:16 final size:15
Alignment explanation
Indices: 17315091--17315134 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
17315081 TATTATATAA
17315091 CAACACTTA-TTTTT
1 CAACACTTATTTTTT
17315105 CAACACTTATTTTTT
1 CAACACTTATTTTTT
*
17315120 CAACATTTAATTTTT
1 CAACACTT-ATTTTT
17315135 AATTTATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 9 0.33
15 12 0.44
16 6 0.22
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (15 bp):
CAACACTTATTTTTT
Found at i:17323405 original size:33 final size:33
Alignment explanation
Indices: 17323328--17323406 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
17323318 TAAGTCCGCT
*
17323328 GAGACAGTAAACACAAAACAGGATAAGTTCATC
1 GAGACAGTAAACACAAAACAGGATAAGTTCACC
* * **
17323361 GGGACAATAAACACGGAACATGG-TAAG-TCTACC
1 GAGACAGTAAACACAAAACA-GGATAAGTTC-ACC
17323394 GAGACAGTAAACA
1 GAGACAGTAAACA
17323407 TAGGTAAGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
GAGACAGTAAACACAAAACAGGATAAGTTCACC
Found at i:17324824 original size:15 final size:16
Alignment explanation
Indices: 17324798--17324832 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17324788 TTATTATTGA
17324798 TTTTATTTTTAGAATG
1 TTTTATTTTTAGAATG
*
17324814 TTTTA-TTTTAGATTG
1 TTTTATTTTTAGAATG
17324829 TTTT
1 TTTT
17324833 GTAGCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (16 bp):
TTTTATTTTTAGAATG
Found at i:17325804 original size:3 final size:3
Alignment explanation
Indices: 17325798--17325835 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
17325788 CATCAAACAC
*
17325798 AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
17325836 AGAAAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:17327899 original size:21 final size:20
Alignment explanation
Indices: 17327871--17327911 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
17327861 GTATTTTCGG
*
17327871 TTTTTATTGAGAGAAATTAC
1 TTTTTATTGAAAGAAATTAC
*
17327891 TTTTCTATTGAAAGTAATTAC
1 TTTT-TATTGAAAGAAATTAC
17327912 ATTGTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (20 bp):
TTTTTATTGAAAGAAATTAC
Found at i:17330643 original size:27 final size:27
Alignment explanation
Indices: 17330613--17330672 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
17330603 ACAAGGGCAT
* * * *
17330613 TTCCTTCATAGTTCACCATGTATACCG
1 TTCCTTCAAAGTTCACCACGAATACCA
*
17330640 TTCCTTCAAAGTTCGCCACGAATACCA
1 TTCCTTCAAAGTTCACCACGAATACCA
17330667 TTCCTT
1 TTCCTT
17330673 TAGAATTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (27 bp):
TTCCTTCAAAGTTCACCACGAATACCA
Found at i:17330810 original size:27 final size:27
Alignment explanation
Indices: 17330763--17330835 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
17330753 TTCTATTTTT
* ** *
17330763 GCCAGAAAGGCTTTCAATTCATTGTTC
1 GCCACAAAGGCTTTCTTTTCATGGTTC
* *
17330790 GTCACAAAGGCTTTCTTTTCATGGTTT
1 GCCACAAAGGCTTTCTTTTCATGGTTC
* *
17330817 GCCATAAATGCTTTCTTTT
1 GCCACAAAGGCTTTCTTTT
17330836 TTTACATGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (27 bp):
GCCACAAAGGCTTTCTTTTCATGGTTC
Found at i:17332999 original size:99 final size:99
Alignment explanation
Indices: 17332828--17333030 Score: 300
Period size: 99 Copynumber: 2.1 Consensus size: 99
17332818 GAATCACTTC
* * *
17332828 TCACTTTTGGTAAAATTGTGATTAAGTCCTTCATATTTCTCCACTCATTCAATTTGGTCCCTACA
1 TCACTCTTAGTAAAATTATGATTAAGTCCTTCATATTTCTCCACTCATTCAATTTGGTCCCTACA
17332893 CACCAATCCCACGTTACAAGAAATTGGGTTATTT
66 CACCAATCCCACGTTACAAGAAATTGGGTTATTT
* * * **
17332927 TCACTCTTAGTAATATTATGATTAAGTCCCTT-ATATTTCTCCATTTATTCAATTTGGTCTTTAC
1 TCACTCTTAGTAAAATTATGATTAAGT-CCTTCATATTTCTCCACTCATTCAATTTGGTCCCTAC
* *
17332991 ATACCAATCCCATGTTACAAGAAATTGGGTTATTT
65 ACACCAATCCCACGTTACAAGAAATTGGGTTATTT
17333026 TCACT
1 TCACT
17333031 TTTGGTCCTT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
99 89 0.96
100 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (99 bp):
TCACTCTTAGTAAAATTATGATTAAGTCCTTCATATTTCTCCACTCATTCAATTTGGTCCCTACA
CACCAATCCCACGTTACAAGAAATTGGGTTATTT
Found at i:17335011 original size:22 final size:23
Alignment explanation
Indices: 17334955--17335016 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
17334945 TATTTTTTTT
17334955 AAAAATTCTAAAAAT-T-TCAAA
1 AAAAATTCTAAAAATATATCAAA
17334976 AAAAATTCTAAAAAATATAT-AAA
1 AAAAATTCT-AAAAATATATCAAA
* * *
17334999 GAAAATTATAAAATTATA
1 AAAAATTCTAAAAATATA
17335017 AAATTTCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 9 0.26
22 14 0.40
23 11 0.31
24 1 0.03
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAATTCTAAAAATATATCAAA
Found at i:17335690 original size:18 final size:18
Alignment explanation
Indices: 17335667--17335703 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17335657 TAAATATTCA
17335667 ATTT-AAAATAATATAAAT
1 ATTTAAAAATAA-ATAAAT
17335685 ATTTAAAAATAAATAAAT
1 ATTTAAAAATAAATAAAT
17335703 A
1 A
17335704 ATAACATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTTAAAAATAAATAAAT
Found at i:17346492 original size:16 final size:15
Alignment explanation
Indices: 17346471--17346503 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
17346461 ATTTTAATTC
17346471 TTTATTTATTCATCTA
1 TTTATTTATTCAT-TA
17346487 TTTATTTATTCATTA
1 TTTATTTATTCATTA
17346502 TT
1 TT
17346504 CCTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATTTATTCATTA
Found at i:17349998 original size:16 final size:15
Alignment explanation
Indices: 17349977--17350018 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
17349967 TAATTGTTTA
17349977 TAATATTTATATTATG
1 TAATATTTATATT-TG
*
17349993 TAATA-TTATAATTG
1 TAATATTTATATTTG
*
17350007 TGATATTTATAT
1 TAATATTTATAT
17350019 GAGATGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TAATATTTATATTTG
Found at i:17358644 original size:30 final size:30
Alignment explanation
Indices: 17358608--17358668 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
17358598 ATTCTCGAGC
*
17358608 TTAGGGG-AAAAAGTGTAATTATGCAAAAGT
1 TTAGGGGCAAAAA-TATAATTATGCAAAAGT
* *
17358638 TTAGGGGCAAAAATATAATTTTGCCAAAGT
1 TTAGGGGCAAAAATATAATTATGCAAAAGT
17358668 T
1 T
17358669 CATATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TTAGGGGCAAAAATATAATTATGCAAAAGT
Found at i:17360858 original size:3 final size:3
Alignment explanation
Indices: 17360845--17360919 Score: 60
Period size: 3 Copynumber: 24.7 Consensus size: 3
17360835 TTGAAAGGGG
* * * * *
17360845 TTC TTC TTTC TTC TTC TTT TTC TTA TTC TTC TTT TTC TTC CTC GTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
17360891 CTC TTC ATC TTC CTC TTC TTC TTC CTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
17360920 TCTTAAGTGG
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.03, C:0.33, G:0.01, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:17362985 original size:48 final size:48
Alignment explanation
Indices: 17362927--17363292 Score: 323
Period size: 48 Copynumber: 7.6 Consensus size: 48
17362917 TATGTGTGCT
* * *
17362927 AGTGTAAGACCATGTCTAGGACATGGCGTCGGCCATGATATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * * * *
17362975 AGTGTAAGACCATGTCTAGGACATGGCAACGG-CATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCC
* * *
17363023 AGTGTAAGACCATGTCTGGGATATGGCATCGACCA-CATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGAT-ATGAGAGCC
* * * * * * * *
17363071 AGTGTAAGGCGATGCCTAGGACATGGTATCGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCC
* * * * *
17363119 AATGTAAGACGATGTCTGGGACATGGCATCGACCA-CATCATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGAT-ATGAGAGCC
* ** * *
17363167 AGTGTAAGACCATGTCTGGGACATGGCAT-TGATATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCC
* *
17363215 AGTGTGAGACCATGTCTGGGACATGGCATCGGCC-TCGACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-GATATG-AGAGCC
* *
17363263 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
17363293 AGCAATTCAC
Statistics
Matches: 251, Mismatches: 55, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
47 10 0.04
48 232 0.92
49 9 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
Found at i:17363078 original size:96 final size:96
Alignment explanation
Indices: 17362914--17363292 Score: 460
Period size: 96 Copynumber: 3.9 Consensus size: 96
17362904 AACATTTGGG
* * * * *
17362914 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCATGAT-ATGAAAGCCAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CATCATGAGAGCCAGT
*
17362978 GTAAGACCATGTCTAGGACATGGCAACGGCAT
65 GTAAGACCATGTCTAGGACATGGCATCGGCAT
*
17363010 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGACCACATCATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
* * * *
17363075 TAAGGCGATGCCTAGGACATGGTATCGGCAT
66 TAAGACCATGTCTAGGACATGGCATCGGCAT
* * * *
17363106 TGATATGTGCGCTAATGTAAGACGATGTCTGGGACATGGCATCGACCACATCATAAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
* * **
17363171 TAAGACCATGTCTGGGACATGGCATTGATAT
66 TAAGACCATGTCTAGGACATGGCATCGGCAT
* * * * * *
17363202 TGAGATGAGAGCTAGTGTGAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTA-AGCCAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATCATG-AGAGCCAG
*
17363265 TGTAAGACCATGT-TTGGAACATGGCATC
64 TGTAAGACCATGTCTAGG-ACATGGCATC
17363293 AGCAATTCAC
Statistics
Matches: 244, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
95 5 0.02
96 237 0.97
97 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
TAAGACCATGTCTAGGACATGGCATCGGCAT
Found at i:17369928 original size:24 final size:24
Alignment explanation
Indices: 17369901--17369951 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
17369891 TTTAGTAGGG
17369901 TTGGTATTTGATGACATTAGCTAA
1 TTGGTATTTGATGACATTAGCTAA
*
17369925 TTGGTATTTTATGACATTAGCTAA
1 TTGGTATTTGATGACATTAGCTAA
17369949 TTG
1 TTG
17369952 AATAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (24 bp):
TTGGTATTTGATGACATTAGCTAA
Found at i:17370852 original size:48 final size:48
Alignment explanation
Indices: 17370794--17371112 Score: 304
Period size: 48 Copynumber: 6.6 Consensus size: 48
17370784 TGTGTGCTAA
* * *
17370794 TGTAAGACCATGTCTAGGACATGGCGTCGGCCATGATATAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAG
* * * * *
17370842 TGTAAAACCATGTCTGGGACATGGCAACGG-CATTGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCCAG
* *
17370890 GGTAAGACCATGTCTGGGACATGGCATCGGCCAT-ATCATAAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGAT-ATGAGAGCCAG
* * * ** * * *
17370938 TGTAAGATCATGTCTAGGACATGGTATCGGCGTTGATATGTGCGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAG
* * * *
17370986 TGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCCAG
* * * * *
17371034 TGTGAA-ACCATGTCTGGGACATGGCATCGACCTTGACATGTGAGGCAG
1 TGT-AAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAG
* * *
17371082 TGTAAGACCATGTTTTGAACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
17371113 AATTCACCCT
Statistics
Matches: 216, Mismatches: 47, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
47 7 0.03
48 202 0.94
49 7 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAG
Found at i:17370950 original size:96 final size:94
Alignment explanation
Indices: 17370779--17371112 Score: 386
Period size: 96 Copynumber: 3.5 Consensus size: 94
17370769 GATATTTGGG
* * *
17370779 TGATATGTGTGCTAATGTAAGACCATGTCTAGGACATGGCGTCGGCCATGATATAAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-ATATAAGAGCCAGTG
*
17370844 TAAAACCATGTCTGGGACATGGCAACGGCAT
65 T-AAACCATGTCTGGGACATGGCATCGGCAT
*
17370875 TGATATGTGTGCTAGGGTAAGACCATGTCTGGGACATGGCATCGGCCATATCATAAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAT-ATAAGAGCCAGTG
* * * *
17370940 TAAGATCATGTCTAGGACATGGTATCGGCGT
65 TAA-ACCATGTCTGGGACATGGCATCGGCAT
* * * *
17370971 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACAT-TGAGACGAGAGCTAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAT-ATA--AGAGCCAG
* *
17371034 TGTGAAACCATGTCTGGGACATGGCATCGACCT
63 TGT-AAACCATGTCTGGGACATGGCATCGGCAT
* * * * *
17371067 TGACATGTGAGGC-AGTGTAAGACCATGTTTTGAACATGGCATCGGC
1 TGATATGTG-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
17371113 AATTCACCCT
Statistics
Matches: 205, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
94 3 0.01
95 8 0.04
96 189 0.92
97 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATATAAGAGCCAGTGT
AAACCATGTCTGGGACATGGCATCGGCAT
Found at i:17371054 original size:144 final size:144
Alignment explanation
Indices: 17370794--17371112 Score: 381
Period size: 144 Copynumber: 2.2 Consensus size: 144
17370784 TGTGTGCTAA
*
17370794 TGTAAGACCATGTCTAGGACATGGCGTCGGCCATGATATAAGAGCCAGTGTAAAACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCATGATATAAGAGCCAGTGTAAAACCATGTCTGG
* * * * *
17370859 GACATGGCAACGGCATTGATATGTGTGCTAGGGTAAGACCATGTCTGGGACATGGCATCGGCCAT
66 GACATGGCAACGACATTGAGACGAGAGCTAGGGTAAGACCATGTCTGGGACATGGCATCGGCCAT
17370924 ATCATAAGAGCCAG
131 ATCATAAGAGCCAG
* * ** ** * * *
17370938 TGTAAGATCATGTCTAGGACATGGTATCGGCGTTGATATGTGCGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCCATGATATAAGAGCCAGTGTAAAACCATGTCTGG
* * * *
17371003 GACATGGCATCGACATTGAGACGAGAGCTAGTGTGAA-ACCATGTCTGGGACATGGCATCGACCT
66 GACATGGCAACGACATTGAGACGAGAGCTAGGGT-AAGACCATGTCTGGGACATGGCATCGGCCA
** *
17371067 TGA-CATGTGAGGCAG
130 T-ATCATAAGAGCCAG
* * *
17371082 TGTAAGACCATGTTTTGAACATGGCATCGGC
1 TGTAAGACCATGTCTAGGACATGGCATCGGC
17371113 AATTCACCCT
Statistics
Matches: 146, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
144 143 0.98
145 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (144 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCCATGATATAAGAGCCAGTGTAAAACCATGTCTGG
GACATGGCAACGACATTGAGACGAGAGCTAGGGTAAGACCATGTCTGGGACATGGCATCGGCCAT
ATCATAAGAGCCAG
Found at i:17378311 original size:45 final size:45
Alignment explanation
Indices: 17378256--17378359 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
17378246 GCAGTAGCAG
* * *
17378256 TAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAATAA
1 TAACGGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAACAA
* *
17378301 TAACGGTAACAGTATTCAACATACAAAGTGTCGAATCGGTAACAG
1 TAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAA
*
17378346 TAATGGTAACAGTA
1 TAACGGTAACAGTA
17378360 ATAGTAGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (45 bp):
TAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAACAA
Found at i:17385266 original size:45 final size:45
Alignment explanation
Indices: 17385209--17385315 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
17385199 GTAGCAATAG
* *
17385209 CAGTAACAGTAACAGTATTCAACACACAAAATG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAATGTC-GAATCGGTAA
* *
17385254 TAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
*
17385299 CAATAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
17385316 ACAGTAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAATGTCGAATCGGTAA
Found at i:17387762 original size:19 final size:19
Alignment explanation
Indices: 17387734--17387776 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
17387724 TAAAGGCTAA
17387734 AATT-GTTGAATTTTTTAG
1 AATTAGTTGAATTTTTTAG
17387752 AATTAGTTGAATTTTTTAG
1 AATTAGTTGAATTTTTTAG
17387771 AATTAG
1 AATTAG
17387777 GACTAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
AATTAGTTGAATTTTTTAG
Found at i:17388045 original size:33 final size:32
Alignment explanation
Indices: 17388007--17388111 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 32
17387997 ATAAATATAT
17388007 TTAAAATATTTTAAAAATAATAAATGTTGAATA
1 TTAAAA-ATTTTAAAAATAATAAATGTTGAATA
**
17388040 TTAAAAATTTT-AAAA-AGGAAA---T--ATA
1 TTAAAAATTTTAAAAATAATAAATGTTGAATA
17388065 --AAAATATTTTAAAAATAATAAATGTTGAATA
1 TTAAAA-ATTTTAAAAATAATAAATGTTGAATA
17388096 TTAAAAATTTTAAAAA
1 TTAAAAATTTTAAAAA
17388112 GTAAATATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
23 4 0.07
24 5 0.09
25 7 0.12
26 4 0.07
27 1 0.02
29 1 0.02
30 4 0.07
31 7 0.12
32 15 0.26
33 10 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (32 bp):
TTAAAAATTTTAAAAATAATAAATGTTGAATA
Found at i:17388084 original size:22 final size:22
Alignment explanation
Indices: 17388036--17388079 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
17388026 ATAAATGTTG
*
17388036 AATATTAAAAATTTTAAAAAGGA
1 AATATAAAAAATTTTAAAAA-GA
17388059 AATATAAAAATATTTTAAAAA
1 AATATAAAAA-ATTTTAAAAA
17388080 TAATAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AATATAAAAAATTTTAAAAAGA
Found at i:17388088 original size:56 final size:56
Alignment explanation
Indices: 17388009--17388137 Score: 249
Period size: 56 Copynumber: 2.3 Consensus size: 56
17387999 AAATATATTT
17388009 AAAATATTTTAAAAATAATAAATGTTGAATATTAAAAATTTTAAAAAGGAAATATA
1 AAAATATTTTAAAAATAATAAATGTTGAATATTAAAAATTTTAAAAAGGAAATATA
*
17388065 AAAATATTTTAAAAATAATAAATGTTGAATATTAAAAATTTTAAAAAGTAAATATA
1 AAAATATTTTAAAAATAATAAATGTTGAATATTAAAAATTTTAAAAAGGAAATATA
17388121 AAAATATTTTAAAAATA
1 AAAATATTTTAAAAATA
17388138 TTTATACCAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (56 bp):
AAAATATTTTAAAAATAATAAATGTTGAATATTAAAAATTTTAAAAAGGAAATATA
Found at i:17389218 original size:32 final size:30
Alignment explanation
Indices: 17389172--17389243 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 30
17389162 AAGAAAAAAT
*
17389172 AAATATAAATTTTTA-AAT-TTTTAGAAATTTA
1 AAATAAAAATTTTTATAATATTTT-G-AA-TTA
*
17389203 ACATAAAAATGTTTTATAATATTTTGAATTA
1 AAATAAAAAT-TTTTATAATATTTTGAATTA
17389234 AAATAAAAAT
1 AAATAAAAAT
17389244 AAAAAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 20 0.57
32 7 0.20
33 4 0.11
34 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATAAAAATTTTTATAATATTTTGAATTA
Found at i:17402478 original size:26 final size:26
Alignment explanation
Indices: 17402425--17402484 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
17402415 CTCATGGTTT
* *
17402425 TCCGACCAACTCAAACTCAAGGGTCC
1 TCCGACCAACTCAAACTCAAGAGACC
* * *
17402451 TCTGACCAATTTAAACTCAAGAGACC
1 TCCGACCAACTCAAACTCAAGAGACC
17402477 TCCGACCA
1 TCCGACCA
17402485 GCTAAAATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.18
Consensus pattern (26 bp):
TCCGACCAACTCAAACTCAAGAGACC
Found at i:17415059 original size:8 final size:8
Alignment explanation
Indices: 17415046--17415073 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
17415036 CTTTTATATT
17415046 TTATTATA
1 TTATTATA
17415054 TTATTATA
1 TTATTATA
17415062 TTATTATA
1 TTATTATA
17415070 TTAT
1 TTAT
17415074 GTACTTAAGT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:17421761 original size:36 final size:36
Alignment explanation
Indices: 17421719--17421989 Score: 140
Period size: 36 Copynumber: 7.3 Consensus size: 36
17421709 GAATAATTAT
*
17421719 TTATTCAGTAACAGTTAGTTATTCTGTAACAATCAA
1 TTATTCAGTAACAGTTAGTTATTCAGTAACAATCAA
* * *** * *
17421755 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAGTTAGTTATTCAGTAACAATCAA
* *
17421791 TTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAGTTAGTTATTCAGTAACAATCA-A
* *
17421835 -TATTCAGTAACTA-TTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AGTT-AGTTATTCAGTAACAATCAA
* * * **
17421870 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAGTTAGTTATTCAGTAACAATCAA
* *
17421907 TTATTCAGTAATA-TTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTT-AGTTATTCAGTAACAATC-AA
* * * * * *
17421944 -TATCCAGAAACAGTTAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTTAGTTATTCAGTAACAATCAA
*
17421979 TTATACAGTAA
1 TTATTCAGTAA
17421990 TAATCAGTTA
Statistics
Matches: 176, Mismatches: 39, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
35 12 0.07
36 115 0.65
37 22 0.12
42 2 0.01
43 6 0.03
44 19 0.11
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAGTTAGTTATTCAGTAACAATCAA
Found at i:17421825 original size:18 final size:18
Alignment explanation
Indices: 17421799--17421989 Score: 133
Period size: 18 Copynumber: 10.6 Consensus size: 18
17421789 AATTGATCGG
*
17421799 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
17421817 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
17421835 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
17421852 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
17421870 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
17421889 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
17421907 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
17421925 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* * *
17421944 -TATCCAGAAACAGTTAA
1 TTATTCAGTAACAGTCAA
* *
17421961 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
17421979 TTATACAGTAA
1 TTATTCAGTAA
17421990 TAATCAGTTA
Statistics
Matches: 134, Mismatches: 27, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
17 19 0.14
18 100 0.75
19 15 0.11
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:17422228 original size:45 final size:45
Alignment explanation
Indices: 17422169--17422366 Score: 297
Period size: 45 Copynumber: 4.4 Consensus size: 45
17422159 ATCCGGAATA
* * **
17422169 GTAACAGTAGCAGTAACAGTATTCAACACACAAAGTGTTGAATCG
1 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
17422214 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
17422259 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
17422304 GTAACAGTAGCAGTAACAATATTCGACACACAAAATGCCGAATCG
1 GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
17422349 GTAACAGTAGCGGTAACA
1 GTAACAGTAGCAGTAACA
17422367 GTAACTAGCA
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:17422777 original size:5 final size:5
Alignment explanation
Indices: 17422766--17422812 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
17422756 AATTAATCAT
* *
17422766 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
17422813 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:17424202 original size:9 final size:9
Alignment explanation
Indices: 17424184--17424218 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
17424174 TTTCTTTTTC
*
17424184 ATTTCTTTT
1 ATTTCATTT
17424193 ATTTCATTT
1 ATTTCATTT
17424202 ATTTC-TTT
1 ATTTCATTT
17424210 ATTTCATTT
1 ATTTCATTT
17424219 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:17424210 original size:17 final size:18
Alignment explanation
Indices: 17424184--17424230 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
17424174 TTTCTTTTTC
17424184 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
17424202 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
17424219 CTTTATTTTATT
1 ATTTCTTTTATT
17424231 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:17424220 original size:13 final size:13
Alignment explanation
Indices: 17424184--17424226 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
17424174 TTTCTTTTTC
* *
17424184 ATTTCTTTTATTT
1 ATTTCATTTCTTT
17424197 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
17424210 ATTTCATTTCTTT
1 ATTTCATTTCTTT
17424223 ATTT
1 ATTT
17424227 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:17429102 original size:36 final size:36
Alignment explanation
Indices: 17429055--17429128 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
17429045 AGAGGAGCAC
* * * *
17429055 ATCAGTTAGAATAGATCCGAAAGGTTGCTAAATTGA
1 ATCAGTCAGAATAGATCCGAAAGGCTACTAAACTGA
17429091 ATCAGTCAGAATAGATCCGAAAGGCTACTAAACTGA
1 ATCAGTCAGAATAGATCCGAAAGGCTACTAAACTGA
17429127 AT
1 AT
17429129 ATAATTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCGAAAGGCTACTAAACTGA
Found at i:17433684 original size:16 final size:18
Alignment explanation
Indices: 17433663--17433695 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17433653 TATACGAATT
17433663 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
17433679 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
17433696 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:17434333 original size:43 final size:43
Alignment explanation
Indices: 17434259--17434466 Score: 267
Period size: 43 Copynumber: 4.8 Consensus size: 43
17434249 CTGAACTCAT
* *
17434259 TCACCGGCATTACA-CCTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* *
17434301 TCACCGGCATTATAGCCTGCTAAGCTCAAAGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* * *
17434344 TCACTC-ACATTATAGCCTGCCAGGCTCGAAGCCTGATATTAAC
1 TCAC-CGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* * *
17434387 TCACCGACATTATAGCCTACAAGGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
** *
17434430 TCACTAGCATTATAGCTTGCTAGGCTCGAAGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGA
17434467 ATAGTACTGT
Statistics
Matches: 144, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
42 14 0.10
43 123 0.85
44 7 0.05
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
Found at i:17434370 original size:86 final size:86
Alignment explanation
Indices: 17434265--17434460 Score: 299
Period size: 86 Copynumber: 2.3 Consensus size: 86
17434255 TCATTCACCG
* * *
17434265 GCATTACA-CCTGCTAGGCTCGAAGCCTGATATTAACTCACCGGCATTATAGCCTGCTAA-GCTC
1 GCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTAC-AAGGCTC
17434328 AAAGCCCGATATTAACTCACTCA
65 AAAGCCCGATATTAACTCACT-A
* *
17434351 -CATTATAGCCTGCCAGGCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTACAAGGCTCG
1 GCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTACAAGGCTCA
17434415 AAGCCCGATATTAACTCACTA
66 AAGCCCGATATTAACTCACTA
*
17434436 GCATTATAGCTTGCTAGGCTCGAAG
1 GCATTATAGCCTGCTAGGCTCGAAG
17434461 GCCCGAATAG
Statistics
Matches: 100, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
85 9 0.09
86 91 0.91
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (86 bp):
GCATTATAGCCTGCTAGGCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTACAAGGCTCA
AAGCCCGATATTAACTCACTA
Found at i:17437355 original size:30 final size:30
Alignment explanation
Indices: 17437320--17437391 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
17437310 CTATGGGAGC
17437320 TGACCGTGTGTCACACACGGCCTAGACACA
1 TGACCGTGTGTCACACACGGCCTAGACACA
17437350 TGACCGTGTGTCACACACGGCCTAGACACA
1 TGACCGTGTGTCACACACGGCCTAGACACA
*
17437380 TGCCCGTGTGTC
1 TGACCGTGTGTC
17437392 TACCCATGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (30 bp):
TGACCGTGTGTCACACACGGCCTAGACACA
Found at i:17443150 original size:47 final size:47
Alignment explanation
Indices: 17443079--17443436 Score: 554
Period size: 47 Copynumber: 7.6 Consensus size: 47
17443069 CCCTTCGGGA
* * * * * *
17443079 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17443126 CCTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17443173 CTTATCACATATATACACTTTCACATTCATCGCATCGGCTATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17443220 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17443267 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17443314 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17443363 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17443410 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17443437 TATTCAAATA
Statistics
Matches: 288, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 243 0.84
49 45 0.16
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17443393 original size:143 final size:141
Alignment explanation
Indices: 17443079--17443436 Score: 554
Period size: 143 Copynumber: 2.5 Consensus size: 141
17443069 CCCTTCGGGA
* * * * * * *
17443079 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
17443144 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCGCATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
17443209 GGCTATTAAGC
131 GGCCATTAAGC
*
17443220 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17443285 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* **
17443350 TTGGCCATTCGGC
129 TCGGCCATTAAGC
* *
17443363 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17443428 TTTCACATT
66 TTTCACATT
17443437 TATTCAAATA
Statistics
Matches: 198, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 93 0.47
143 105 0.53
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAAGC
Found at i:17446933 original size:14 final size:14
Alignment explanation
Indices: 17446914--17446940 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17446904 TAGGAATGAC
17446914 ATATGAAAATTTTG
1 ATATGAAAATTTTG
17446928 ATATGAAAATTTT
1 ATATGAAAATTTT
17446941 ATCGATTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
ATATGAAAATTTTG
Found at i:17447514 original size:19 final size:19
Alignment explanation
Indices: 17447490--17447533 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
17447480 AGGGACTACA
* *
17447490 ATGAAAGTTGTAAAATTTG
1 ATGAAAATTCTAAAATTTG
*
17447509 ATGAAAAATTCTAAAATTTT
1 ATG-AAAATTCTAAAATTTG
17447529 ATGAA
1 ATGAA
17447534 TACATGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGAAAATTCTAAAATTTG
Found at i:17452306 original size:27 final size:29
Alignment explanation
Indices: 17452259--17452314 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
17452249 AGTTTTTATC
17452259 TTTATAATTTTTAAAGATTAAAA-TATATT
1 TTTATAA-TTTTAAAGATTAAAATTATATT
17452288 TTTATAA-TTTAAA-ACTTAAAATTATAT
1 TTTATAATTTTAAAGA-TTAAAATTATAT
17452315 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.04
27 12 0.48
28 5 0.20
29 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TTTATAATTTTAAAGATTAAAATTATATT
Found at i:17463598 original size:47 final size:47
Alignment explanation
Indices: 17463546--17463700 Score: 183
Period size: 47 Copynumber: 3.3 Consensus size: 47
17463536 ACTCGGACTC
17463546 AACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGGTTT
1 AACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGGTTT
* * * * * ** *
17463593 AACTCAACGAGTTC-GA--AC-ATTTGCATCTATAAGTGAACTCGGACTC
1 AACTCAACGAGTTCGGATGCCTAGTTACATC--TCA-CGAACTCGGGTTT
17463639 AACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGGTTT
1 AACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGGTTT
17463686 AACTCAACGAGTTCG
1 AACTCAACGAGTTCG
17463701 AACATTTGCA
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
43 7 0.08
44 1 0.01
45 2 0.02
46 25 0.29
47 40 0.47
48 2 0.02
49 1 0.01
50 7 0.08
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (47 bp):
AACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGGTTT
Found at i:17463619 original size:93 final size:93
Alignment explanation
Indices: 17463522--17463751 Score: 442
Period size: 93 Copynumber: 2.5 Consensus size: 93
17463512 TCGGGCGTTC
* *
17463522 GCATCCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTC
1 GCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTC
17463587 GGGTTTAACTCAACGAGTTCGAACATTT
66 GGGTTTAACTCAACGAGTTCGAACATTT
17463615 GCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTC
1 GCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTC
17463680 GGGTTTAACTCAACGAGTTCGAACATTT
66 GGGTTTAACTCAACGAGTTCGAACATTT
17463708 GCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
17463752 TCAACCATCC
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 135 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (93 bp):
GCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTC
GGGTTTAACTCAACGAGTTCGAACATTT
Found at i:17463645 original size:46 final size:45
Alignment explanation
Indices: 17463435--17463746 Score: 218
Period size: 46 Copynumber: 6.8 Consensus size: 45
17463425 GTAACCCGCC
* * * * * *
17463435 CATAAGCGAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
* * * ** * *
17463480 CCATGAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
* * * *
17463526 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-ATTTGCAT
* * ** *
17463576 C-TCA-CGAACTCGGGTTTAACTCAACGAGTTCGAACATTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
* * *
17463619 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-ATTTGCAT
* * ** *
17463669 C-TCA-CGAACTCGGGTTTAACTCAACGAGTTCGAACATTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
17463712 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 C-ATAAGTGAACTCGGACTCAACTCAACGAGTTCG
17463747 GATGCTCAAC
Statistics
Matches: 212, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
43 14 0.07
44 2 0.01
45 4 0.02
46 125 0.59
47 49 0.23
48 4 0.02
49 3 0.01
50 11 0.05
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
Found at i:17465373 original size:51 final size:51
Alignment explanation
Indices: 17465318--17465584 Score: 140
Period size: 51 Copynumber: 5.1 Consensus size: 51
17465308 TGTCTCAGAC
17465318 CGTGTGAAACATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
1 CGTGTGAAACATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
* * * ** ** * *
17465369 CGTGTG--CCA-G-ACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTC-AGAT
1 CGTGTGAAACATGCACC-T-AAAAT-A--AAAAT-G-ACACACGACCATGTCGCAAG-T
*
17465423 CGTGTGAAACCTGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
1 CGTGTGAAACATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
* * * ** ** * *
17465474 CGTGTG--CCA-G-ACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTC-AGAT
1 CGTGTGAAACATGCACC-T-AAAAT-A--AAAAT-G-ACACACGACCATGTCGCAAG-T
*
17465528 CGTGTGAAACCTGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
1 CGTGTGAAACATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
17465579 CGTGTG
1 CGTGTG
17465585 CCAGACCGTG
Statistics
Matches: 151, Mismatches: 39, Indels: 52
0.62 0.16 0.21
Matches are distributed among these distances:
47 6 0.04
48 4 0.03
49 9 0.06
50 2 0.01
51 46 0.30
52 12 0.08
53 12 0.08
54 40 0.26
55 2 0.01
56 8 0.05
57 4 0.03
58 6 0.04
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (51 bp):
CGTGTGAAACATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
Found at i:17465375 original size:105 final size:105
Alignment explanation
Indices: 17465256--17465676 Score: 763
Period size: 105 Copynumber: 4.0 Consensus size: 105
17465246 CACAGCTGTA
* * * * * *
17465256 TCGCAAGCCGTGTGCCGGACCGTGTAACTT-ATTGACTTGCTACACACGGTCGTGTCTCAGACCG
1 TCGCAAGTCGTGTGCCAGACCGTGTAA-TTCACTAACTTGGTACACACGGTCGTGTCTCAGATCG
*
17465320 TGTGAAACATGCACCTAAAATAAAAATGACACACGACCATG
65 TGTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
17465361 TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
1 TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
17465426 GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
66 GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
17465466 TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
1 TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
17465531 GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
66 GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
17465571 TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
1 TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
17465636 GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
66 GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
17465676 T
1 T
17465677 GGCCAGGCCG
Statistics
Matches: 308, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
104 2 0.01
105 306 0.99
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (105 bp):
TCGCAAGTCGTGTGCCAGACCGTGTAATTCACTAACTTGGTACACACGGTCGTGTCTCAGATCGT
GTGAAACCTGCACCTAAAATAAAAATGACACACGACCATG
Found at i:17470257 original size:20 final size:19
Alignment explanation
Indices: 17470227--17470276 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
17470217 TTGGAGTAGG
* *
17470227 AATATCGATACCATAGGAA
1 AATATCAATACCATAAGAA
*
17470246 ATATATCAATACCTTAAGAA
1 A-ATATCAATACCATAAGAA
17470266 AAGTATCAATA
1 AA-TATCAATA
17470277 TTGGATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (19 bp):
AATATCAATACCATAAGAA
Found at i:17473394 original size:22 final size:22
Alignment explanation
Indices: 17473359--17473407 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17473349 TCATGGACAT
*
17473359 GGAAGGTCACACTAATGAGCAA
1 GGAAGATCACACTAATGAGCAA
* * *
17473381 GGAAGATCATACTAATGGGCGA
1 GGAAGATCACACTAATGAGCAA
17473403 GGAAG
1 GGAAG
17473408 TAATTGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.33, T:0.14
Consensus pattern (22 bp):
GGAAGATCACACTAATGAGCAA
Found at i:17478415 original size:14 final size:14
Alignment explanation
Indices: 17478396--17478427 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17478386 AGGTCATTTA
17478396 GCCCAACCAAACTG
1 GCCCAACCAAACTG
17478410 GCCCAACCAAACTG
1 GCCCAACCAAACTG
17478424 GCCC
1 GCCC
17478428 GGTGATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:17483538 original size:14 final size:14
Alignment explanation
Indices: 17483519--17483550 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17483509 AGGTCATTTA
17483519 GCCCAACCAAACTG
1 GCCCAACCAAACTG
17483533 GCCCAACCAAACTG
1 GCCCAACCAAACTG
17483547 GCCC
1 GCCC
17483551 GGTGATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:17494002 original size:22 final size:22
Alignment explanation
Indices: 17493946--17494005 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
17493936 TTTAAGTAAT
17493946 TTTATTTTT-TTCTTTTATGTTC
1 TTTATTTTTATTCTTTTA-GTTC
17493968 TTTAAATTTTTATTCTTTTA-TTC
1 TTT--ATTTTTATTCTTTTAGTTC
17493991 TTTATTTTTTATTCT
1 TTTA-TTTTTATTCT
17494006 CTTTTGCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.03
22 13 0.38
23 6 0.18
24 6 0.18
25 8 0.24
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTTTTATTCTTTTAGTTC
Found at i:17498594 original size:40 final size:40
Alignment explanation
Indices: 17498549--17498629 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
17498539 CAGAAAACCT
*
17498549 TGGTGTTGAGTTTTTCAAAGGTACTGTTGTGGTATAATAA
1 TGGTGTTGAGCTTTTCAAAGGTACTGTTGTGGTATAATAA
17498589 TGGTGTTGAGCTTTTCAAAGGTACTGTTGTGGTATAATAA
1 TGGTGTTGAGCTTTTCAAAGGTACTGTTGTGGTATAATAA
17498629 T
1 T
17498630 CTTCCCATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (40 bp):
TGGTGTTGAGCTTTTCAAAGGTACTGTTGTGGTATAATAA
Found at i:17499483 original size:46 final size:44
Alignment explanation
Indices: 17499399--17499490 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 44
17499389 ATATCTATTC
**
17499399 CATTCAACCAAACACAATAATACTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGGCCTATTCCATTA
17499443 CATTCAA-CAAA-ACAATTGAATTACTGATTACAGGCCTATTCCATTA
1 CATTCAACCAAACACAA-T-AA-TACT-ATTACAGGCCTATTCCATTA
17499489 CA
1 CA
17499491 GCTCTATTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 4 0.10
43 5 0.12
44 9 0.21
45 4 0.10
46 20 0.48
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGGCCTATTCCATTA
Found at i:17499490 original size:16 final size:16
Alignment explanation
Indices: 17499469--17499519 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
17499459 TGAATTACTG
17499469 ATTACAGGCCTATTCC
1 ATTACAGGCCTATTCC
17499485 ATTACA-GCTCTATTCC
1 ATTACAGGC-CTATTCC
*
17499501 ATTACAGCCCTATTCC
1 ATTACAGGCCTATTCC
17499517 ATT
1 ATT
17499520 CCAGTGAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.06
16 29 0.91
17 1 0.03
ACGTcount: A:0.25, C:0.31, G:0.08, T:0.35
Consensus pattern (16 bp):
ATTACAGGCCTATTCC
Found at i:17500427 original size:12 final size:12
Alignment explanation
Indices: 17500410--17500435 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17500400 CTTTTCTTTT
17500410 CTTTTTCATAAA
1 CTTTTTCATAAA
17500422 CTTTTTCATAAA
1 CTTTTTCATAAA
17500434 CT
1 CT
17500436 ATTATCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
CTTTTTCATAAA
Found at i:17502784 original size:31 final size:31
Alignment explanation
Indices: 17502738--17502800 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
17502728 CACTTTTTCG
* *
17502738 TTTAGTAGGAGAATTTAGTGCTATATGACAT
1 TTTAGTAGGACAATTTAATGCTATATGACAT
*
17502769 TTTATTAGGACAATTTAATGCTATATGACAT
1 TTTAGTAGGACAATTTAATGCTATATGACAT
17502800 T
1 T
17502801 CTTCATCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (31 bp):
TTTAGTAGGACAATTTAATGCTATATGACAT
Found at i:17507151 original size:46 final size:46
Alignment explanation
Indices: 17507052--17507177 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
17507042 GAGGCATCCA
* * * *
17507052 AACTTGTTGAGTTGCGTTCCGAGTTCACCTATGGATGCAAGCATCCG
1 AACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGCAAGCACCCG
17507099 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CACCCG
1 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGC-AAGCACCCG
*
17507145 AGCTCGTTGAGTTGTGTTCCGAGTTCATTATGG
1 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
17507178 GTGAGATTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
46 46 0.63
47 27 0.37
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (46 bp):
AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAAGCACCCG
Found at i:17509070 original size:89 final size:86
Alignment explanation
Indices: 17508875--17509246 Score: 279
Period size: 87 Copynumber: 4.3 Consensus size: 86
17508865 AATTCAAAGT
* * *
17508875 AATAAAATCTATTTCGGGATTTATT-CATGCCATTCAATGGATTTTATTCCATTTT--TTATTAT
1 AATAAAATCTGTTTC-GGATTTATTCCA--CCTTTCAATGGATTTTATTTCATTTTGATT-TTAT
* * *
17508937 TTCTAAACAGGA-AATTAAAGTTAA
62 TTCTAAAAACGAGAATTAAAATTAA
*
17508961 AA-AAAATCCGTTTCGAGATTTATTACCACCTTTCAATGGATTTTATTTCGATTTTGATTTTATT
1 AATAAAATCTGTTTCG-GATTTATT-CCACCTTTCAATGGATTTTATTTC-ATTTTGATTTTATT
* *
17509025 TCTAAAAATGAGTATTAAAATTAA
63 TCTAAAAACGAGAATTAAAATTAA
* * * * * *
17509049 AATAAAATCTGTTTCAGGATTTACTCCCGCCTTTCAACGGA-TTTATTACATTTTGATTTTGTTG
1 AATAAAATCTGTTTC-GGATTTA-TTCCACCTTTCAATGGATTTTATTTCATTTTGATTTTATTT
*
17509113 CCAAAAACGAGAAATTAAAATT-A
64 CTAAAAACGAG-AATTAAAATTAA
* *
17509136 AATAAAATTCAT-TTT-GGATTTATTCCCGCCGTTTAACAAT--ATTTTATTTAATTTT-ATTTT
1 AATAAAA-TC-TGTTTCGGATTTATT-CCACC-TTT--CAATGGATTTTATTTCATTTTGATTTT
* **
17509196 GTTT-T-AAAATTAGAATT-AAATTAA
60 ATTTCTAAAAACGAGAATTAAAATTAA
* *
17509220 AAAAAAATATGTTTCGGAATTTATTCC
1 AATAAAATCTGTTTCGG-ATTTATTCC
17509247 TGCAGTTTAA
Statistics
Matches: 236, Mismatches: 28, Indels: 46
0.76 0.09 0.15
Matches are distributed among these distances:
82 1 0.00
83 9 0.04
84 16 0.07
85 51 0.22
86 19 0.08
87 58 0.25
88 46 0.19
89 34 0.14
90 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (86 bp):
AATAAAATCTGTTTCGGATTTATTCCACCTTTCAATGGATTTTATTTCATTTTGATTTTATTTCT
AAAAACGAGAATTAAAATTAA
Found at i:17513118 original size:34 final size:34
Alignment explanation
Indices: 17513079--17513152 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
17513069 ATTGATTTAC
17513079 ATATTTGACAACTTAAATATAAAT-TAT-TCTATTT
1 ATATTTGAC-A-TTAAATATAAATATATGTCTATTT
* * * *
17513113 ATATTTTACATTATATATAAATATGTGTTTATTT
1 ATATTTGACATTAAATATAAATATATGTCTATTT
17513147 ATATTT
1 ATATTT
17513153 AAATATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 11 0.32
33 3 0.09
34 20 0.59
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (34 bp):
ATATTTGACATTAAATATAAATATATGTCTATTT
Found at i:17516407 original size:52 final size:52
Alignment explanation
Indices: 17516328--17516431 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
17516318 ACAAAACTTA
** *
17516328 GAAAATTTTTGCTATGAACAGAGGTCACACGCTTGTGTGGCTTGGGACACGC
1 GAAAATTTTTGCTATGAACAGAGGTCACACGCTCATGTGGCTTAGGACACGC
* *
17516380 GAAATTTTTTGCTATGAACAGGGGTCACACGCTCATGTGGCTTAGGACACGC
1 GAAAATTTTTGCTATGAACAGAGGTCACACGCTCATGTGGCTTAGGACACGC
17516432 CCGTGTGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (52 bp):
GAAAATTTTTGCTATGAACAGAGGTCACACGCTCATGTGGCTTAGGACACGC
Found at i:17521816 original size:26 final size:26
Alignment explanation
Indices: 17521787--17521990 Score: 109
Period size: 26 Copynumber: 7.9 Consensus size: 26
17521777 AGTCTTTTCT
*
17521787 TATATTATTCATTTTAAATTGTTTTA
1 TATATTATTCATTTTAAATTATTTTA
* * *
17521813 TATAGTATTCATTTCAAATTGTTTTA
1 TATATTATTCATTTTAAATTATTTTA
* * *
17521839 T-TGTACATT-ATTTTAAGTTATTTT-
1 TATAT-TATTCATTTTAAATTATTTTA
* * * *
17521863 T-TATTTTTTATTTTAAGTT-TTTTG
1 TATATTATTCATTTTAAATTATTTTA
* * *
17521887 CAT-TTGTT-ATTTTAAACTATTTTA
1 TATATTATTCATTTTAAATTATTTTA
** * *
17521911 CCTATTATTTATTTTAAATATTTTTTA
1 TATATTATTCATTTTAAAT-TATTTTA
* * *
17521938 TATATTTTTATTTATTTTAAACTATTATA
1 TATA---TTATTCATTTTAAATTATTTTA
17521967 TATATTA-TCTATTTTAAATTATTT
1 TATATTATTC-ATTTTAAATTATTT
17521991 GTTTTAAACC
Statistics
Matches: 138, Mismatches: 28, Indels: 24
0.73 0.15 0.13
Matches are distributed among these distances:
23 14 0.10
24 23 0.17
25 19 0.14
26 51 0.37
27 8 0.06
29 9 0.07
30 14 0.10
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (26 bp):
TATATTATTCATTTTAAATTATTTTA
Found at i:17521891 original size:23 final size:24
Alignment explanation
Indices: 17521846--17521901 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
17521836 TTATTGTACA
** *
17521846 TTATTTTAAGTTATTTTTTATTTT
1 TTATTTTAAGTTATTTTGCATTTG
17521870 TTATTTTAAGTT-TTTTGCATTTG
1 TTATTTTAAGTTATTTTGCATTTG
17521893 TTATTTTAA
1 TTATTTTAA
17521902 ACTATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (24 bp):
TTATTTTAAGTTATTTTGCATTTG
Found at i:17521989 original size:40 final size:42
Alignment explanation
Indices: 17521945--17522038 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 42
17521935 TTATATATTT
*
17521945 TTATTTATTTTAAACTA-TT-A-TATATATTATCTATTTTAAA
1 TTATTTATTTTAAACCATTTCATTATATATTATCTATTTT-AA
* *
17521985 TTATTTGTTTTAAACCATTTCATTTATTTATTATCTATTTTAA
1 TTATTTATTTTAAACCATTTCA-TTATATATTATCTATTTTAA
*
17522028 TTTTTTATTTT
1 TTATTTATTTT
17522039 GTTATTTAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 15 0.33
41 2 0.04
42 1 0.02
43 11 0.24
44 16 0.36
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (42 bp):
TTATTTATTTTAAACCATTTCATTATATATTATCTATTTTAA
Found at i:17522061 original size:50 final size:51
Alignment explanation
Indices: 17522007--17522127 Score: 113
Period size: 50 Copynumber: 2.4 Consensus size: 51
17521997 AACCATTTCA
* * * *
17522007 TTTATTTATTATCTATTTTAATTTTTTATTTTGTTATTTAGT-TATA-CTAT
1 TTTATTTATTATCTATTTTAAATTCTT-TTTTATTATTTAGTGTAAACCTAT
* * * * * *
17522057 TTTATATGTTAACTGTTTTAAATTCTTTTTTATTATTTATTGTAAACCTTT
1 TTTATTTATTATCTATTTTAAATTCTTTTTTATTATTTAGTGTAAACCTAT
*
17522108 TTTA-TTATTATTTATTTTAA
1 TTTATTTATTATCTATTTTAA
17522128 GAGTTCATAT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
49 12 0.22
50 35 0.65
51 7 0.13
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (51 bp):
TTTATTTATTATCTATTTTAAATTCTTTTTTATTATTTAGTGTAAACCTAT
Found at i:17530307 original size:79 final size:81
Alignment explanation
Indices: 17530206--17530388 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
17530196 GCTACTCGTT
* * *
17530206 CAAATGCCTTCGGGACATAGCCCG-ATTATAGTAACTCGCACAATTGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGTAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC
* *
17530268 TGGATTTAGTAAC-TCGCA
64 -GGATATAGTAACTTAGCA
* *
17530286 CAAATGCCTTCGGG-CTTAGCCCGTAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGTAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
* *
17530350 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
17530366 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
17530389 GACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 35 0.39
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGTAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
ATATAGTAACTTAGCA
Found at i:17530390 original size:40 final size:40
Alignment explanation
Indices: 17530187--17530390 Score: 204
Period size: 40 Copynumber: 5.1 Consensus size: 40
17530177 CGGAATTTAA
** *
17530187 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17530227 CC-GATTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGA-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17530267 CTGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
17530306 CCGTA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
17530346 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
17530386 CCGGA
1 CCGGA
17530391 CATCATTCAA
Statistics
Matches: 135, Mismatches: 20, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 86 0.64
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:17537588 original size:30 final size:30
Alignment explanation
Indices: 17537554--17537714 Score: 125
Period size: 30 Copynumber: 5.3 Consensus size: 30
17537544 ATTTTTTTTA
17537554 AATTAATTTAGAAGGACCTACTTGATCTTT
1 AATTAATTTAGAAGGACCTACTTGATCTTT
* * ** * *
17537584 AATTATTTTACAAAGG-TTTAATT-ATTTTT
1 AATTAATTTA-GAAGGACCTACTTGATCTTT
17537613 AAAATTAATTTAGAAGGACCTACTTGATCTTT
1 --AATTAATTTAGAAGGACCTACTTGATCTTT
* * ** * *
17537645 AATTATTTTACAAAGG-TTTAATT-ATTTTT
1 AATTAATTTA-GAAGGACCTACTTGATCTTT
17537674 AAAATTAATTTAGAAGGACCTACTTGATCTTT
1 --AATTAATTTAGAAGGACCTACTTGATCTTT
17537706 AATT-ATTTA
1 AATTAATTTA
17537715 AGCCCAAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
29 15 0.15
30 38 0.39
31 34 0.35
32 10 0.10
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (30 bp):
AATTAATTTAGAAGGACCTACTTGATCTTT
Found at i:17537642 original size:61 final size:61
Alignment explanation
Indices: 17537512--17537713 Score: 377
Period size: 61 Copynumber: 3.3 Consensus size: 61
17537502 GATGATTTAT
*
17537512 TTGATCTTTAATTATTTTACAAAGGTTTAATTATTTTTTTTAAATTAATTTAGAAGGACCTAC
1 TTGATCTTTAATTATTTTACAAAGGTTTAATTA--TTTTTAAAATTAATTTAGAAGGACCTAC
17537575 TTGATCTTTAATTATTTTACAAAGGTTTAATTATTTTTAAAATTAATTTAGAAGGACCTAC
1 TTGATCTTTAATTATTTTACAAAGGTTTAATTATTTTTAAAATTAATTTAGAAGGACCTAC
17537636 TTGATCTTTAATTATTTTACAAAGGTTTAATTATTTTTAAAATTAATTTAGAAGGACCTAC
1 TTGATCTTTAATTATTTTACAAAGGTTTAATTATTTTTAAAATTAATTTAGAAGGACCTAC
17537697 TTGATCTTTAATTATTT
1 TTGATCTTTAATTATTT
17537714 AAGCCCAAAA
Statistics
Matches: 138, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
61 105 0.76
63 33 0.24
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (61 bp):
TTGATCTTTAATTATTTTACAAAGGTTTAATTATTTTTAAAATTAATTTAGAAGGACCTAC
Found at i:17537894 original size:18 final size:17
Alignment explanation
Indices: 17537852--17537903 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
17537842 TGAACATATT
*
17537852 ATATAAATAATAT-AAA
1 ATATAAAAAATATAAAA
*
17537868 ATTTAAAAAATATAAAA
1 ATATAAAAAATATAAAA
17537885 ACTATAAAAAAATATAAAA
1 A-TAT-AAAAAATATAAAA
17537904 GAGATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
18 2 0.07
19 13 0.43
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
ATATAAAAAATATAAAA
Found at i:17537903 original size:9 final size:9
Alignment explanation
Indices: 17537852--17537903 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
17537842 TGAACATATT
*
17537852 ATATAAATA
1 ATATAAAAA
17537861 ATAT--AAA
1 ATATAAAAA
*
17537868 ATTTAAAAA
1 ATATAAAAA
17537877 ATATAAAAA
1 ATATAAAAA
*
17537886 CTATAAAAAA
1 ATAT-AAAAA
17537896 ATATAAAA
1 ATATAAAA
17537904 GAGATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 5 0.14
9 22 0.63
10 8 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
ATATAAAAA
Found at i:17545383 original size:40 final size:40
Alignment explanation
Indices: 17545300--17545522 Score: 166
Period size: 40 Copynumber: 5.6 Consensus size: 40
17545290 TTGAATGCTG
* * * * *
17545300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
17545340 TCCGGACTAAGAT-CCGAGGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
17545380 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * **
17545420 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
17545460 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
17545499 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
17545523 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.22
40 114 0.71
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:17545449 original size:80 final size:79
Alignment explanation
Indices: 17545300--17545522 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
17545290 TTGAATGCTG
* * * * * * * * * *
17545300 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAGGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
17545364 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * *
17545380 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
17545445 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
17545460 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
17545523 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 82 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:17545504 original size:39 final size:40
Alignment explanation
Indices: 17545365--17545522 Score: 228
Period size: 40 Copynumber: 4.0 Consensus size: 40
17545355 GAGGGCCTTT
*
17545365 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
17545405 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
17545445 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
17545484 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
17545523 TGAACGAGGA
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.31
40 75 0.69
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
Found at i:17545542 original size:79 final size:80
Alignment explanation
Indices: 17545375--17545557 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
17545365 GTGCGAGATA
* * *
17545375 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
17545440 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
17545455 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
17545519 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
17545534 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
17545558 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:17553533 original size:33 final size:33
Alignment explanation
Indices: 17553496--17553558 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
17553486 ACATAGTAAG
* *
17553496 CATGAATAAATGCTTGTTTAAAAAGAAAAAGAC
1 CATGAATAAATGCTTCTTTAAAAACAAAAAGAC
17553529 CATGAATAAATGCTTCTTTAAAAACAAAAA
1 CATGAATAAATGCTTCTTTAAAAACAAAAA
17553559 AGACTAAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.25
Consensus pattern (33 bp):
CATGAATAAATGCTTCTTTAAAAACAAAAAGAC
Found at i:17564876 original size:91 final size:92
Alignment explanation
Indices: 17564770--17565009 Score: 290
Period size: 91 Copynumber: 2.7 Consensus size: 92
17564760 GATCAGATGG
* * * *
17564770 TGGTACGTAGCGTAGCTAACGTACTTGTGGTACACTTCAATGCTGTAGTCCACTATACCAATATG
1 TGGTACGTAGCGTAGCTAACGTACATGCGGTACACTGCAATGCAGTAGTCCACTATACCAATATG
***
17564835 TTGCAGTAAAACTG-TTGTTCAGTCAA
66 TTGCAGTAAAACTGCCAATTCAGTCAA
* * * *
17564861 TGGTACATAGCGTAGCTAATGTACATGCGGTACAGTGCAATGCAGTAGTCCGCTATACCAATATG
1 TGGTACGTAGCGTAGCTAACGTACATGCGGTACACTGCAATGCAGTAGTCCACTATACCAATATG
17564926 TTGCAGTAAAACTGCCAATTCAGTCAA
66 TTGCAGTAAAACTGCCAATTCAGTCAA
* * * ** * *
17564953 TGGTACGTAGC---GCTAACGTACATGCAGTATAGTGCAATGTGGTAATCCACTAGACCA
1 TGGTACGTAGCGTAGCTAACGTACATGCGGTACACTGCAATGCAGTAGTCCACTATACCA
17565010 TTATCAGTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
89 38 0.30
91 71 0.55
92 19 0.15
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (92 bp):
TGGTACGTAGCGTAGCTAACGTACATGCGGTACACTGCAATGCAGTAGTCCACTATACCAATATG
TTGCAGTAAAACTGCCAATTCAGTCAA
Found at i:17565170 original size:18 final size:18
Alignment explanation
Indices: 17565147--17565184 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17565137 CAAAATAGTT
*
17565147 TATGCATATGTATGTATG
1 TATGCAAATGTATGTATG
17565165 TATGCAAATGTATGTATG
1 TATGCAAATGTATGTATG
17565183 TA
1 TA
17565185 GATAAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (18 bp):
TATGCAAATGTATGTATG
Found at i:17567392 original size:50 final size:50
Alignment explanation
Indices: 17567337--17567436 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
17567327 GTTTAGTGAT
*
17567337 TATGGTTTGTAAATAAGAACTGTGCTAAT-AAGTTGTACGACATCGGAAGA
1 TATGGTTTGTAAATAAGAACTATGCTAATCAA-TTGTACGACATCGGAAGA
* *
17567387 TATGGTTTGTAAATAAGAACTATGCTAATCAATTGTAGGACATTGGAAGA
1 TATGGTTTGTAAATAAGAACTATGCTAATCAATTGTACGACATCGGAAGA
17567437 GATCTCAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 44 0.96
51 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (50 bp):
TATGGTTTGTAAATAAGAACTATGCTAATCAATTGTACGACATCGGAAGA
Found at i:17574110 original size:40 final size:40
Alignment explanation
Indices: 17574040--17574215 Score: 293
Period size: 40 Copynumber: 4.4 Consensus size: 40
17574030 AAACCAAGTA
* *
17574040 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
17574079 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17574119 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
17574159 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
17574199 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
17574216 AGTTATCATC
Statistics
Matches: 131, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.11
40 117 0.89
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:17583076 original size:56 final size:56
Alignment explanation
Indices: 17582990--17583101 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
17582980 TCGGGATTAT
*
17582990 TGCAACCTGTGAAAATTCCGTTATGGAAGTGGGAAAGAGAAACAATGGACTTTGTG
1 TGCAACCTGTGAAAATTCCGCTATGGAAGTGGGAAAGAGAAACAATGGACTTTGTG
*
17583046 TGCAACCTGTGAAAATTCCGCTATGGAAGTGGGAAAGAGTAACAATGGACTTTGTG
1 TGCAACCTGTGAAAATTCCGCTATGGAAGTGGGAAAGAGAAACAATGGACTTTGTG
17583102 AGTGGGTTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (56 bp):
TGCAACCTGTGAAAATTCCGCTATGGAAGTGGGAAAGAGAAACAATGGACTTTGTG
Found at i:17585595 original size:60 final size:60
Alignment explanation
Indices: 17585499--17585618 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 60
17585489 TGTAGGACAT
* * *
17585499 CGGAAGAACTCTCGGTAGCAGTCATTGCGAAACAGGTGTGTACCGAACACCCTTTCTTAG
1 CGGAAGAACTCTCAGTAGCAGTCATCGCGAAACAGGTATGTACCGAACACCCTTTCTTAG
* * *
17585559 CGGAAGAGA-TCTCAGTAGCGGTCGTCGCGAATCAGGTATGTACCGAACACCCTTTCTTAG
1 CGGAAGA-ACTCTCAGTAGCAGTCATCGCGAAACAGGTATGTACCGAACACCCTTTCTTAG
17585619 TTCAATTCGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 52 0.98
61 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (60 bp):
CGGAAGAACTCTCAGTAGCAGTCATCGCGAAACAGGTATGTACCGAACACCCTTTCTTAG
Found at i:17590739 original size:24 final size:24
Alignment explanation
Indices: 17590703--17590752 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17590693 GAGTTCAAGC
*
17590703 GATCCATGTCAGGAAGCTCAT-AA
1 GATCCATATCAGGAAGCTCATGAA
*
17590726 GATCCTATATCAGGACGCTCATGAA
1 GATCC-ATATCAGGAAGCTCATGAA
17590751 GA
1 GA
17590753 GGAGCTACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (24 bp):
GATCCATATCAGGAAGCTCATGAA
Found at i:17591685 original size:322 final size:322
Alignment explanation
Indices: 17591100--17591743 Score: 1261
Period size: 322 Copynumber: 2.0 Consensus size: 322
17591090 CAATTTAATC
17591100 ATATAAATAAACACGATTTAGTTATACGAATTTACCTCTTTACTTGTTCATACACAAAAATCTAC
1 ATATAAATAAACACGATTTAGTTATACGAATTTACCTCTTTACTTGTTCATACACAAAAATCTAC
17591165 TAATCTGGCACTTTTTCTTTTCCTCGATCTAACTTTGTATTTGAGTTTTTCGGATCTATATAAAT
66 TAATCTGGCACTTTTTCTTTTCCTCGATCTAACTTTGTATTTGAGTTTTTCGGATCTATATAAAT
17591230 GAGTTTAACATGAATTTAATTGTAACACCCCGAACCCGAGTCCGACACCGGAGTCGAACACGAGG
131 GAGTTTAACATGAATTTAATTGTAACACCCCGAACCCGAGTCCGACACCGGAGTCGAACACGAGG
17591295 TGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCTGTGTACTAGTCACTTTAAAAATCA
196 TGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCTGTGTACTAGTCACTTTAAAAATCA
*
17591360 TATCTTGAGCTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAATTAGACTCATAT
261 TATCTTGAGCTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATAT
17591422 ATATAAATAAACACGATTTAGTTATACGAATTTACCTCTTTACTTGTTCATACACAAAAATCTAC
1 ATATAAATAAACACGATTTAGTTATACGAATTTACCTCTTTACTTGTTCATACACAAAAATCTAC
17591487 TAATCTGGCACTTTTTCTTTTCCTCGATCTAACTTTGTATTTGAGTTTTTCGGATCTATATAAAT
66 TAATCTGGCACTTTTTCTTTTCCTCGATCTAACTTTGTATTTGAGTTTTTCGGATCTATATAAAT
17591552 GAGTTTAACATGAATTTAATTGTAACACCCCGAACCCGAGTCCGACACCGGAGTCGAACACGAGG
131 GAGTTTAACATGAATTTAATTGTAACACCCCGAACCCGAGTCCGACACCGGAGTCGAACACGAGG
*
17591617 TGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCTGTGTACTAGTCGCTTTAAAAATCA
196 TGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCTGTGTACTAGTCACTTTAAAAATCA
*
17591682 TATCTTGAGCTTCACAACTTGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATAT
261 TATCTTGAGCTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATAT
17591744 GCCCATCTAC
Statistics
Matches: 319, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
322 319 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (322 bp):
ATATAAATAAACACGATTTAGTTATACGAATTTACCTCTTTACTTGTTCATACACAAAAATCTAC
TAATCTGGCACTTTTTCTTTTCCTCGATCTAACTTTGTATTTGAGTTTTTCGGATCTATATAAAT
GAGTTTAACATGAATTTAATTGTAACACCCCGAACCCGAGTCCGACACCGGAGTCGAACACGAGG
TGTTAACAAACTTTGAAAAATTTCCAGACACTGCCCAATCTGTGTACTAGTCACTTTAAAAATCA
TATCTTGAGCTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATAT
Found at i:17592953 original size:39 final size:40
Alignment explanation
Indices: 17592908--17593039 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
17592898 GCTCCTCGTT
* * *
17592908 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
17592948 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
17592987 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
17593027 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
17593040 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:17593101 original size:41 final size:41
Alignment explanation
Indices: 17593024--17593101 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17593014 TTAGTATCTC
* * *
17593024 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17593065 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17593102 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17600178 original size:253 final size:253
Alignment explanation
Indices: 17599730--17600234 Score: 947
Period size: 253 Copynumber: 2.0 Consensus size: 253
17599720 GACTACCCTG
*
17599730 CCTTTGCGCATTACGACTTGGATATCTCCTTGTACAGGGCTCCAATACTGATGCCGTTTATTTCT
1 CCTTTGCGCATTACGACTTGGATATATCCTTGTACAGGGCTCCAATACTGATGCCGTTTATTTCT
*
17599795 ATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAA
66 ATAGAAAATAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAA
*
17599860 TTTATAATCAATTTCCAAAGTCGGAACAAGGAATCCAGAACCCGTTCTGGCCCTGTCTCACGAGA
131 TTTATAATCAATTTACAAAGTCGGAACAAGGAATCCAGAACCCGTTCTGGCCCTGTCTCACGAGA
*
17599925 ACCTGAATATCTCTTAACATACTATCCATATTATTGTTTCGTTACTTTCCTATGAAAA
196 ACCTGAATATCTCTTAACATACTATCCATATGATTGTTTCGTTACTTTCCTATGAAAA
*
17599983 CCTTTGCGCATTCCGACTTGGATATATCCTTGTACAGGGCTCCAATACTGATGCCGTTTATTTCT
1 CCTTTGCGCATTACGACTTGGATATATCCTTGTACAGGGCTCCAATACTGATGCCGTTTATTTCT
*
17600048 ATAGAAAATAGACTCAGAGAGGAATCTATACATATATGGTATGGCTCCTAATTATCTCTGGTTAA
66 ATAGAAAATAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAA
17600113 TTTATAATCAATTTACAAAGTCGGAACAAGGAATCCAGAACCCGTTCTGGCCCTGTCTCACGAGA
131 TTTATAATCAATTTACAAAGTCGGAACAAGGAATCCAGAACCCGTTCTGGCCCTGTCTCACGAGA
*
17600178 ACCTGAATATCTCTTAACATACTGTCCATATGATTGTTTCGTTACTTTCCTATGAAA
196 ACCTGAATATCTCTTAACATACTATCCATATGATTGTTTCGTTACTTTCCTATGAAA
17600235 GTATATTCTT
Statistics
Matches: 245, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
253 245 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (253 bp):
CCTTTGCGCATTACGACTTGGATATATCCTTGTACAGGGCTCCAATACTGATGCCGTTTATTTCT
ATAGAAAATAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAA
TTTATAATCAATTTACAAAGTCGGAACAAGGAATCCAGAACCCGTTCTGGCCCTGTCTCACGAGA
ACCTGAATATCTCTTAACATACTATCCATATGATTGTTTCGTTACTTTCCTATGAAAA
Found at i:17601183 original size:59 final size:59
Alignment explanation
Indices: 17601091--17601207 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
17601081 AGAAGCTTTG
*
17601091 GGTACCAAGCTGCATTTTAGCACTACTTTTCACCCCCAAACTGATGGTCAATCTGAGCA
1 GGTACCAAGCTGCATTTTAGCACTACTTTTCACCCCCAAACTGATGGTCAATCCGAGCA
17601150 GGTACCAAGCTGCATTTTAGCACTACTTTTCACCCCCAAACTGATGGTCAATCCGAGC
1 GGTACCAAGCTGCATTTTAGCACTACTTTTCACCCCCAAACTGATGGTCAATCCGAGC
17601208 GGATAATTCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (59 bp):
GGTACCAAGCTGCATTTTAGCACTACTTTTCACCCCCAAACTGATGGTCAATCCGAGCA
Found at i:17603739 original size:40 final size:40
Alignment explanation
Indices: 17603587--17603732 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
17603577 TTGAATGATG
* * * *
17603587 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
17603627 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17603667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17603708 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17603733 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17603739 original size:80 final size:80
Alignment explanation
Indices: 17603587--17603765 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
17603577 TTGAATGATG
* * * *
17603587 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATTCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
17603652 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
17603667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
17603730 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
17603747 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
17603766 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 58 0.70
81 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:17609584 original size:18 final size:18
Alignment explanation
Indices: 17609517--17609587 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
17609507 ACAATAAGTG
*
17609517 ACATTTTGAAAATTAATA
1 ACATTTTGAAAATGAATA
** *
17609535 ATGTTTTGAAAGA-GTATA
1 ACATTTTGAAA-ATGAATA
**
17609553 AC-TTTGTGGTAATGAATA
1 ACATTT-TGAAAATGAATA
17609571 ACATTTTGAAAATGAAT
1 ACATTTTGAAAATGAAT
17609588 GACACGTCCT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.79
19 4 0.10
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (18 bp):
ACATTTTGAAAATGAATA
Found at i:17611992 original size:48 final size:48
Alignment explanation
Indices: 17611916--17612287 Score: 369
Period size: 48 Copynumber: 7.8 Consensus size: 48
17611906 TGATATGTGT
*
17611916 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * *** * *
17611964 GCTAATGTAAGACTATGTCTGGGACATGGCATCGGCGTTGA-TATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGA
**
17612012 GCTAGTGTAAGACCATGTCTAAGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * * * *** * *
17612060 GCCAGTGTAAGACCACGTCTGAGACATGGCATCGACGTTGA-TATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGA
*
17612108 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * ** *
17612156 GCCAGTGTAAGATCATGTCTATGACATGGCATCGG---CATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGA
* * * *
17612204 GCTAGTGTAAGACCATGTCTGGGACGTGGCATCGGCCTCGA-CATGCGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGA
* *
17612252 ACTAGTGTAAGACCATGTCTGAGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
17612288 AATCTACCCT
Statistics
Matches: 261, Mismatches: 52, Indels: 22
0.78 0.16 0.07
Matches are distributed among these distances:
45 3 0.01
47 2 0.01
48 252 0.97
49 2 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:17612070 original size:96 final size:96
Alignment explanation
Indices: 17611906--17612287 Score: 534
Period size: 96 Copynumber: 4.0 Consensus size: 96
17611896 GATAATTGGG
* * *
17611906 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCTAATG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
17611971 TAAGACTATGTCTGGGACATGGCATCGGCGT
66 TAAGACCATGTCTGAGACATGGCATCGGCGT
**
17612002 TGATATGTGTGCTAGTGTAAGACCATGTCTAAGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
17612067 TAAGACCACGTCTGAGACATGGCATCGACGT
66 TAAGACCATGTCTGAGACATGGCATCGGCGT
*
17612098 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
17612163 TAAGATCATGTCT-ATGACATGGCATCGGCAT
66 TAAGACCATGTCTGA-GACATGGCATCGGCGT
* * * * * * * * * *
17612194 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACGTGGCATCGGCCTCGA-CATGCGAACTAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
17612258 GTAAGACCATGTCTGAGACATGGCATCGGC
65 GTAAGACCATGTCTGAGACATGGCATCGGC
17612288 AATCTACCCT
Statistics
Matches: 255, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
95 1 0.00
96 252 0.99
97 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGAGACATGGCATCGGCGT
Found at i:17614712 original size:23 final size:22
Alignment explanation
Indices: 17614669--17614712 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
17614659 GAGGGAATAG
**
17614669 TGAATATTATTTTGAGGTTAAT
1 TGAATATTATTTTGAAATTAAT
*
17614691 TGAATATTTATTTTTAAATTAA
1 TGAATA-TTATTTTGAAATTAA
17614713 ATATTTATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
TGAATATTATTTTGAAATTAAT
Found at i:17615620 original size:32 final size:29
Alignment explanation
Indices: 17615583--17615664 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 29
17615573 ATTATTATTT
17615583 TTTTTGAAAATTTTAATTAAGCTCCTTTA-AAA
1 TTTTTGAAAATTTTAATTAA--T-C-TTACAAA
*
17615615 TTTTTGAAAATTTTCATTAATCTTACAAA
1 TTTTTGAAAATTTTAATTAATCTTACAAA
*
17615644 TCTTTTAAAAATTTTAATTAA
1 T-TTTTGAAAATTTTAATTAA
17615665 ACCCATAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.07
29 5 0.11
30 18 0.40
32 19 0.42
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTTTGAAAATTTTAATTAATCTTACAAA
Done.