Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold425
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1118264
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.29
Warning! 137083 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:333 original size:2 final size:2
Alignment explanation
Indices: 326--372 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
316 TAGTTATTTG
326 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
368 GA GA G
1 GA GA G
373 TCTTAACTGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:626 original size:2 final size:2
Alignment explanation
Indices: 619--656 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
609 ATTATTTAAA
619 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
657 TAGTTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10842 original size:181 final size:180
Alignment explanation
Indices: 10538--10898 Score: 704
Period size: 181 Copynumber: 2.0 Consensus size: 180
10528 AGCACAAAAT
*
10538 ATAGCTGCATGAGTCTTTGAGGTTTAACATTATTAAAAATCTATTTTTGACCCATACTTTTACTT
1 ATAGCTGCATGAGTCTTTGAGGTTTAACATTATTAAAAATCTATTTTGGACCCATACTTTTACTT
10603 GCTTTAAAATTAACAAATTACTTTAAAATATCTTGATTATATTTCTATCTATCTCATTCAGCATC
66 GCTTTAAAATTAACAAATTACTTTAAAATATCTTGATTATATTTCTATCTATCTCATTCAGCATC
10668 TGTAAAGCATTAATCGAAATTGTTTAAATCTGTTATTTTATCATAGAAGG
131 TGTAAAGCATTAATCGAAATTGTTTAAATCTGTTATTTTATCATAGAAGG
10718 NATAGCTGCATGAGTCTTTGAGGTTTAACATTATTAAAAATCTATTTTGGACCCATACTTTTACT
1 -ATAGCTGCATGAGTCTTTGAGGTTTAACATTATTAAAAATCTATTTTGGACCCATACTTTTACT
10783 TGCTTTAAAATTAACAAATTACTTTAAAATATCTTGATTATATTTCTATCTATCTCATTCAGCAT
65 TGCTTTAAAATTAACAAATTACTTTAAAATATCTTGATTATATTTCTATCTATCTCATTCAGCAT
10848 CTGTAAAGCATTAATCGAAATTGTTTAAATCTGTTATTTTATCATAGAAGG
130 CTGTAAAGCATTAATCGAAATTGTTTAAATCTGTTATTTTATCATAGAAGG
10899 CATTTCGTGT
Statistics
Matches: 179, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 179 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (180 bp):
ATAGCTGCATGAGTCTTTGAGGTTTAACATTATTAAAAATCTATTTTGGACCCATACTTTTACTT
GCTTTAAAATTAACAAATTACTTTAAAATATCTTGATTATATTTCTATCTATCTCATTCAGCATC
TGTAAAGCATTAATCGAAATTGTTTAAATCTGTTATTTTATCATAGAAGG
Found at i:36987 original size:14 final size:14
Alignment explanation
Indices: 36965--37051 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
36955 TACCCCAAGC
*
36965 CTGGTTACTAGTAA
1 CTGGCTACTAGTAA
36979 CTGGCTACTAGTAA
1 CTGGCTACTAGTAA
*
36993 CTGGCTACGAGATTAA
1 CTGGCTACTAG--TAA
*
37009 ATAAAAGTTGGCTACTAGTAA
1 CT----G--G-CTACTAGTAA
37030 CTGGCTACTAGTAA
1 CTGGCTACTAGTAA
37044 CTGGCTAC
1 CTGGCTAC
37052 GAGAAGTAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
14 41 0.69
15 1 0.02
16 4 0.07
17 1 0.02
20 1 0.02
21 4 0.07
22 1 0.02
23 6 0.10
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (14 bp):
CTGGCTACTAGTAA
Found at i:37066 original size:51 final size:51
Alignment explanation
Indices: 36970--37088 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
36960 CAAGCCTGGT
* * * *
36970 TACTAGTAACTGGCTACTAGTAACTGGCTACGAGATTAAATAAAAGTTGGC
1 TACTAGTAACTGGCTACTAGTAACTGGCTACGAGAGTAAAGAAAAGCTAGC
*
37021 TACTAGTAACTGGCTACTAGTAACTGGCTACGAGAAGT-AAGAAAAGCTAGT
1 TACTAGTAACTGGCTACTAGTAACTGGCTACGAG-AGTAAAGAAAAGCTAGC
*
37072 TACTAGTAACTAGCTAC
1 TACTAGTAACTGGCTAC
37089 GAGATTAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 59 0.97
52 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (51 bp):
TACTAGTAACTGGCTACTAGTAACTGGCTACGAGAGTAAAGAAAAGCTAGC
Found at i:37113 original size:37 final size:37
Alignment explanation
Indices: 37030--37125 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
37020 CTACTAGTAA
37030 CTGGCTACTAGTAACTGGCTACGAGAAGTAAGAAAAG
1 CTGGCTACTAGTAACTGGCTACGAGAAGTAAGAAAAG
* * * * *
37067 CTAGTTACTAGTAACTAGCTACGAG-ATTAAATAAAAG
1 CTGGCTACTAGTAACTGGCTACGAGAAGT-AAGAAAAG
* *
37104 TTGGCTACTAATAACTGGCTAC
1 CTGGCTACTAGTAACTGGCTAC
37126 TAGTAACTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 2 0.04
37 46 0.96
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (37 bp):
CTGGCTACTAGTAACTGGCTACGAGAAGTAAGAAAAG
Found at i:37124 original size:14 final size:14
Alignment explanation
Indices: 37105--37139 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
37095 AAATAAAAGT
37105 TGGCTACTAATAAC
1 TGGCTACTAATAAC
*
37119 TGGCTACTAGTAAC
1 TGGCTACTAATAAC
37133 TGGCTAC
1 TGGCTAC
37140 GAGAAGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (14 bp):
TGGCTACTAATAAC
Found at i:37127 original size:51 final size:51
Alignment explanation
Indices: 37072--37176 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
37062 AAAAGCTAGT
* * * *
37072 TACTAGTAACTAGCTACGAG-ATTAAATAAAAGTTGGCTACTAATAACTGGC
1 TACTAGTAACTAGCTACGAGAAGT-AAGAAAAGCTAGCTACTAATAACTGGC
* *
37123 TACTAGTAACTGGCTACGAGAAGTAAGAAAAGCTAGCTACTAGTAACTGGC
1 TACTAGTAACTAGCTACGAGAAGTAAGAAAAGCTAGCTACTAATAACTGGC
37174 TAC
1 TAC
37177 GAGATGAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 45 0.96
52 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (51 bp):
TACTAGTAACTAGCTACGAGAAGTAAGAAAAGCTAGCTACTAATAACTGGC
Found at i:37133 original size:88 final size:88
Alignment explanation
Indices: 36982--37181 Score: 373
Period size: 88 Copynumber: 2.3 Consensus size: 88
36972 CTAGTAACTG
*
36982 GCTACTAGTAACTGGCTACGAGATTAAATAAAAGTTGGCTACTAGTAACTGGCTACTAGTAACTG
1 GCTACTAGTAACTGGCTACGAGATTAAATAAAAGTTGGCTACTAATAACTGGCTACTAGTAACTG
37047 GCTACGAGAAGTAAGAAAAGCTA
66 GCTACGAGAAGTAAGAAAAGCTA
* *
37070 GTTACTAGTAACTAGCTACGAGATTAAATAAAAGTTGGCTACTAATAACTGGCTACTAGTAACTG
1 GCTACTAGTAACTGGCTACGAGATTAAATAAAAGTTGGCTACTAATAACTGGCTACTAGTAACTG
37135 GCTACGAGAAGTAAGAAAAGCTA
66 GCTACGAGAAGTAAGAAAAGCTA
37158 GCTACTAGTAACTGGCTACGAGAT
1 GCTACTAGTAACTGGCTACGAGAT
37182 GAAAGAAACT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (88 bp):
GCTACTAGTAACTGGCTACGAGATTAAATAAAAGTTGGCTACTAATAACTGGCTACTAGTAACTG
GCTACGAGAAGTAAGAAAAGCTA
Found at i:39626 original size:14 final size:13
Alignment explanation
Indices: 39604--39642 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
39594 TCCCCGCCAA
39604 AAAAAAAACAAAC
1 AAAAAAAACAAAC
*
39617 AAAAACAAACTAAC
1 AAAAA-AAACAAAC
39631 AAAAAAAACAAA
1 AAAAAAAACAAA
39643 ACGCTTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:44277 original size:5 final size:5
Alignment explanation
Indices: 44255--44296 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
44245 TAGCTAACAC
* *
44255 TGTTT TGGTTT T-TTT TGTTT TGTTT TGTTT TTTTT TTTTT TG
1 TGTTT T-GTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TG
44297 GGGGGGGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TGTTT
Found at i:44280 original size:20 final size:20
Alignment explanation
Indices: 44255--44296 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
44245 TAGCTAACAC
44255 TGTTTTGGTTTTTTTTGTTT
1 TGTTTTGGTTTTTTTTGTTT
* *
44275 TGTTTTGTTTTTTTTTTTTT
1 TGTTTTGGTTTTTTTTGTTT
44295 TG
1 TG
44297 GGGGGGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (20 bp):
TGTTTTGGTTTTTTTTGTTT
Found at i:44472 original size:17 final size:17
Alignment explanation
Indices: 44450--44482 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44440 CTCACTGTGA
*
44450 TATGTTTATTGTAATTG
1 TATGTTTATTATAATTG
44467 TATGTTTATTATAATT
1 TATGTTTATTATAATT
44483 ACTGTCGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (17 bp):
TATGTTTATTATAATTG
Found at i:55918 original size:5 final size:5
Alignment explanation
Indices: 55908--55933 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55898 CTCTTAACTG
55908 GTTCC GTTCC GTTCC GTTCC GTTCC G
1 GTTCC GTTCC GTTCC GTTCC GTTCC G
55934 CAAAGTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (5 bp):
GTTCC
Found at i:57720 original size:2 final size:2
Alignment explanation
Indices: 57713--57737 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57703 TATTTTACAC
57713 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
57738 AATGTATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60735 original size:16 final size:16
Alignment explanation
Indices: 60716--60746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60706 GAAATATGAC
60716 AGAAAATAAATACAAT
1 AGAAAATAAATACAAT
*
60732 AGAATATAAATACAA
1 AGAAAATAAATACAA
60747 AAAAATGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (16 bp):
AGAAAATAAATACAAT
Found at i:81492 original size:2 final size:2
Alignment explanation
Indices: 81485--81578 Score: 170
Period size: 2 Copynumber: 47.0 Consensus size: 2
81475 ATGGTTATTC
81485 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
81527 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
81569 AG AG AG AG AG
1 AG AG AG AG AG
81579 CTTTAATGTT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:82758 original size:2 final size:2
Alignment explanation
Indices: 82751--82786 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
82741 AATATACATG
*
82751 TA TA TA TA TA TA TA TA -A TA TC TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82787 TATTTTGCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89398 original size:135 final size:135
Alignment explanation
Indices: 89213--89496 Score: 326
Period size: 135 Copynumber: 2.1 Consensus size: 135
89203 GCATGACCAC
* * * * * * *
89213 TAAACCATATATATTCTTGTTTCTTATATCAAGGTGTATTAAATGTTATGTAGGTCATGGGCCCT
1 TAAACCATATATATTCTTGTTCCTTATATCAAGGTGCATCAAACGGTATGTAGGTCATGAGCCCC
* * * *
89278 GTGGGTGGTCCTGACCCCCCTTGAACAGCAAGT-CCCTTAATATCTTC-AAAACAGTTGAGATCC
66 GGGGGTGGTCCTGA-CCCCCTCGAACAGCAAGTGCAC-AAATAT-TTCGAAAACAGTTGAGATCC
89341 CCA-CCCT
128 CCACCCCT
* *
89348 TAAACCATATATATTCTTGTTCCTTGTGTCAAGG-GACATCAAACGGTATGTAGGTCATGAGCCC
1 TAAACCATATATATTCTTGTTCCTTATATCAAGGTG-CATCAAACGGTATGTAGGTCATGAGCCC
** * * *
89412 CGGGGGTGGTTGTGACCCCCTCGAAGAGGAAGTGCACAAATATTTCGAAAACGGTTGAGATCCCC
65 CGGGGGTGGTCCTGACCCCCTCGAACAGCAAGTGCACAAATATTTCGAAAACAGTTGAGATCCCC
89477 ACCCCT
130 ACCCCT
*
89483 T-AACCATAAATATT
1 TAAACCATATATATT
89497 TTTCATCCTT
Statistics
Matches: 126, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
133 3 0.02
134 51 0.40
135 72 0.57
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (135 bp):
TAAACCATATATATTCTTGTTCCTTATATCAAGGTGCATCAAACGGTATGTAGGTCATGAGCCCC
GGGGGTGGTCCTGACCCCCTCGAACAGCAAGTGCACAAATATTTCGAAAACAGTTGAGATCCCCA
CCCCT
Found at i:89829 original size:164 final size:165
Alignment explanation
Indices: 89568--89941 Score: 536
Period size: 164 Copynumber: 2.3 Consensus size: 165
89558 TTTCAAAACC
* * * *
89568 GTAATGCACATTTATAGAACACCCCCTATCATATCCCAAGATATGATGTGTCCATCTATTAAATC
1 GTAATGCACATCTATAGAACAGCCCATATCATATCCCAAGATATGATGTGTCCATCCATTAAATC
* *
89633 ATAAGAGGAGTTCTGAGATCTATGGGTTTTTTTTAGTGATAAACGTCAATTTTCTGCTACTA-TT
66 ATAAGAGGAGATCTGAGATCTATGGGTTTTTTTAAGTGATAAACGTCAATTTTCTGCTACTATTT
*
89697 TGACTCCCTGGATGAAATTTAAATTTTAAAAAAAT
131 TGACTCCCTCGATGAAATTTAAATTTTAAAAAAAT
* * *
89732 GTAATGCACATCTATAGAATAGTCCATATCATATCCCAAGATATGATGTGTCTATCCATTAAATC
1 GTAATGCACATCTATAGAACAGCCCATATCATATCCCAAGATATGATGTGTCCATCCATTAAATC
* * ** * *
89797 ATAAGAGGAGATCTGTGATCTCTGTTTTTTTTTAATTGATAAACGTCAATTTTTTGCTACTATTT
66 ATAAGAGGAGATCTGAGATCTATGGGTTTTTTTAAGTGATAAACGTCAATTTTCTGCTACTATTT
**
89862 TGACTCCCTCGATGAAATTTAAATTTTAAAAACCT
131 TGACTCCCTCGATGAAATTTAAATTTTAAAAAAAT
* * * *
89897 -TATTGCACATCTATAGAACAGCCCTTATTATATCCCAAGAGATGA
1 GTAATGCACATCTATAGAACAGCCCATATCATATCCCAAGATATGA
89942 CGTCGCTACT
Statistics
Matches: 185, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
164 151 0.82
165 34 0.18
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (165 bp):
GTAATGCACATCTATAGAACAGCCCATATCATATCCCAAGATATGATGTGTCCATCCATTAAATC
ATAAGAGGAGATCTGAGATCTATGGGTTTTTTTAAGTGATAAACGTCAATTTTCTGCTACTATTT
TGACTCCCTCGATGAAATTTAAATTTTAAAAAAAT
Found at i:97889 original size:15 final size:15
Alignment explanation
Indices: 97869--97898 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
97859 CGTCCTGTAC
97869 ATCAACAGAAACAAT
1 ATCAACAGAAACAAT
97884 ATCAACAGAAACAAT
1 ATCAACAGAAACAAT
97899 GTAGAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.07, T:0.13
Consensus pattern (15 bp):
ATCAACAGAAACAAT
Found at i:99455 original size:22 final size:22
Alignment explanation
Indices: 99405--99457 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
99395 TATATGTGTT
*
99405 GCTTAAAGGTGGCTTAAAGAAA
1 GCTTAAAGATGGCTTAAAGAAA
* **
99427 GCGTAAAGATGGCTTAAAGGCA
1 GCTTAAAGATGGCTTAAAGAAA
99449 GCTTAAAGA
1 GCTTAAAGA
99458 CTATCTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (22 bp):
GCTTAAAGATGGCTTAAAGAAA
Found at i:99478 original size:11 final size:11
Alignment explanation
Indices: 99462--99486 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99452 TAAAGACTAT
99462 CTTTAAGCCAC
1 CTTTAAGCCAC
99473 CTTTAAGCCAC
1 CTTTAAGCCAC
99484 CTT
1 CTT
99487 AAAGGACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:99542 original size:11 final size:11
Alignment explanation
Indices: 99526--99553 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
99516 AAACTTCTTA
99526 AAGCCACCTTT
1 AAGCCACCTTT
99537 AAGCCACCTTT
1 AAGCCACCTTT
99548 AAGCCA
1 AAGCCA
99554 TTAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.36, G:0.11, T:0.21
Consensus pattern (11 bp):
AAGCCACCTTT
Found at i:100904 original size:2 final size:2
Alignment explanation
Indices: 100897--100970 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
100887 CAGATGAACT
*
100897 GA GA GA GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
100939 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
100971 TTGAGATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:124804 original size:4 final size:4
Alignment explanation
Indices: 124797--124828 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
124787 GATAGGTGTG
*
124797 TATT TATT TATT TATT TATT TATC TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
124829 ATATGACAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:133311 original size:14 final size:14
Alignment explanation
Indices: 133292--133324 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
133282 TACTTCTCGA
*
133292 AGCCAGTTACTAGT
1 AGCCAGTTACGAGT
133306 AGCCAGTTACGAGT
1 AGCCAGTTACGAGT
133320 AGCCA
1 AGCCA
133325 ACTTTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (14 bp):
AGCCAGTTACGAGT
Found at i:133313 original size:51 final size:50
Alignment explanation
Indices: 133253--133359 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 50
133243 CTTTCATTTC
* * *
133253 GTAGCCAGTTACTAGTAGCTAGCTTT-TCTTACTTCTCGAAGCCAGTTACTA
1 GTAGCCAGTTACGAGTAGCCAACTTTATCTTA--TCTCGAAGCCAGTTACTA
* *
133304 GTAGCCAGTTACGAGTAGCCAACTTTGATTTTATCTCGTAGCCAGTTACTA
1 GTAGCCAGTTACGAGTAGCCAACTTT-ATCTTATCTCGAAGCCAGTTACTA
133355 GTAGC
1 GTAGC
133360 TAGGTTTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 45 0.92
53 4 0.08
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (50 bp):
GTAGCCAGTTACGAGTAGCCAACTTTATCTTATCTCGAAGCCAGTTACTA
Found at i:133358 original size:37 final size:36
Alignment explanation
Indices: 133304--133398 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
133294 CCAGTTACTA
* *
133304 GTAGCCAGTTACGAGTAGCCAACTTTGATTTTA-TCTC
1 GTAGCCAGTTACTAGTAGCCAACTTT--TCTTACTCTC
* **
133341 GTAGCCAGTTACTAGTAGCTAGGTTTTCTTACTTCTC
1 GTAGCCAGTTACTAGTAGCCAACTTTTCTTAC-TCTC
133378 GTAGCCAGTTACTAGTAGCCA
1 GTAGCCAGTTACTAGTAGCCA
133399 GTTACTACTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
35 4 0.08
37 46 0.92
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (36 bp):
GTAGCCAGTTACTAGTAGCCAACTTTTCTTACTCTC
Found at i:133397 original size:14 final size:14
Alignment explanation
Indices: 133378--133410 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
133368 CTTACTTCTC
133378 GTAGCCAGTTACTA
1 GTAGCCAGTTACTA
133392 GTAGCCAGTTACTA
1 GTAGCCAGTTACTA
*
133406 CTAGC
1 GTAGC
133411 TAACTTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (14 bp):
GTAGCCAGTTACTA
Found at i:133400 original size:88 final size:88
Alignment explanation
Indices: 133251--133417 Score: 289
Period size: 88 Copynumber: 1.9 Consensus size: 88
133241 TTCTTTCATT
133251 TCGTAGCCAGTTACTAGTAGCTAGCTTTTCTTACTTCTCGAAGCCAGTTACTAGTAGCCAGTTAC
1 TCGTAGCCAGTTACTAGTAGCTAGCTTTTCTTACTTCTCGAAGCCAGTTACTAGTAGCCAGTTAC
*
133316 GAGTAGCCAACTTTGATTTTATC
66 GACTAGCCAACTTTGATTTTATC
* *
133339 TCGTAGCCAGTTACTAGTAGCTAGGTTTTCTTACTTCTCGTAGCCAGTTACTAGTAGCCAGTTAC
1 TCGTAGCCAGTTACTAGTAGCTAGCTTTTCTTACTTCTCGAAGCCAGTTACTAGTAGCCAGTTAC
* *
133404 TACTAGCTAACTTT
66 GACTAGCCAACTTT
133418 ACCTATCTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 74 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (88 bp):
TCGTAGCCAGTTACTAGTAGCTAGCTTTTCTTACTTCTCGAAGCCAGTTACTAGTAGCCAGTTAC
GACTAGCCAACTTTGATTTTATC
Found at i:145215 original size:2 final size:2
Alignment explanation
Indices: 145208--145232 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
145198 CATCAATAAC
145208 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
145233 GAGAGTACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:150678 original size:15 final size:15
Alignment explanation
Indices: 150658--150698 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
150648 TGATACAATT
150658 ATATTGTATCATAAA
1 ATATTGTATCATAAA
**
150673 ATATTGTATTGTAAA
1 ATATTGTATCATAAA
150688 ATATTGTATCA
1 ATATTGTATCA
150699 ATATGATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (15 bp):
ATATTGTATCATAAA
Found at i:154394 original size:15 final size:14
Alignment explanation
Indices: 154374--154403 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
154364 TTTTTCAAAG
154374 TATATACATTATACA
1 TATATACATT-TACA
154389 TATATACATTTACA
1 TATATACATTTACA
154403 T
1 T
154404 TTGTAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATACATTTACA
Found at i:160785 original size:2 final size:2
Alignment explanation
Indices: 160778--160813 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
160768 TAAAGATTTT
160778 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
160814 TTTATATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:166701 original size:21 final size:19
Alignment explanation
Indices: 166662--166701 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
166652 AATGTATTTG
*
166662 AAAAAAAAATAAAAGGATA
1 AAAAAAAAATAAAAAGATA
166681 AAAAAAAAATTAAACAAGATA
1 AAAAAAAAA-TAAA-AAGATA
166702 TATCGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATAAAAAGATA
Found at i:178895 original size:2 final size:2
Alignment explanation
Indices: 178888--178913 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
178878 TTTTGGATTT
178888 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
178914 GGTAAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:186870 original size:13 final size:13
Alignment explanation
Indices: 186852--186877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
186842 AATACGTCCT
186852 GAACTTAAATAGG
1 GAACTTAAATAGG
186865 GAACTTAAATAGG
1 GAACTTAAATAGG
186878 AAGGAACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
GAACTTAAATAGG
Found at i:187573 original size:12 final size:12
Alignment explanation
Indices: 187556--187580 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
187546 TGCACTATTT
187556 AGGTGTACAAAC
1 AGGTGTACAAAC
187568 AGGTGTACAAAC
1 AGGTGTACAAAC
187580 A
1 A
187581 TTGTCCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (12 bp):
AGGTGTACAAAC
Found at i:193767 original size:21 final size:21
Alignment explanation
Indices: 193743--193784 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
193733 TTCTAAGATA
193743 TTTTGACATCGCTGCCATAAG
1 TTTTGACATCGCTGCCATAAG
193764 TTTTGACATCGCTGCCATAAG
1 TTTTGACATCGCTGCCATAAG
193785 AAGTAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTTGACATCGCTGCCATAAG
Found at i:200149 original size:14 final size:14
Alignment explanation
Indices: 200130--200168 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
200120 CGTTAAAATG
200130 AATTATTATTATGT
1 AATTATTATTATGT
*
200144 AATTATAATTATGT
1 AATTATTATTATGT
*
200158 CATTATTATTA
1 AATTATTATTA
200169 AATGAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (14 bp):
AATTATTATTATGT
Found at i:201385 original size:171 final size:164
Alignment explanation
Indices: 201005--201420 Score: 566
Period size: 164 Copynumber: 2.5 Consensus size: 164
200995 AACCCCAACA
* *
201005 TACCCCTGGGGGTCATGATTTTCACAACTTTGAATGTACACTACATGGGGATG-TATCCACACAA
1 TACCCCTGGGGGTCATGATTTTCACAACTTTGAATATACACTACCTGGGGATGCT-TCCACACAA
* ** *
201069 ATTTCAGCTTTCCAAGCCGATTAGTTTCTGAGAAGATGATTTTAAAGATTTACTCTATATATTCC
65 GTTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGATAATTTTAAAGATTTACTCTATATATTCC
* *
201134 TATGTAAAACTTTGACCCCCATTGTGGCCCCACCC
130 CATGTAAAACTTTGACCCCCATTGTGGCCCAACCC
* * * *
201169 TACCCCTGGGGGTCATGATTTTCACCACTTTGAATTTGCACTACCTGAGGATGCTTCCACACAAG
1 TACCCCTGGGGGTCATGATTTTCACAACTTTGAATATACACTACCTGGGGATGCTTCCACACAAG
** *
201234 TTTCAGCTTTCCTGGTTGATTAGTTTCTGAGGAGATAATTTTTAAAGATTTACTCTATATATTCC
66 TTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGATAA-TTTTAAAGATTTACTCTATATATTCC
201299 CATGTAAAACTTTGACCCCCCCCCCCATTGTGGCCCAACCC
130 CATGTAAAACTTTGA------CCCCCATTGTGGCCCAACCC
* * * *
201340 TACCCCTGGGGGTCATGATATTCACAACGTTT-TATATAAACTACCTGGGGATGCTTTCACACAA
1 TACCCCTGGGGGTCATGATTTTCACAAC-TTTGAATATACACTACCTGGGGATGCTTCCACACAA
201404 GTTTCAGCTTTCCTGGC
65 GTTTCAGCTTTCCTGGC
201421 TTTATGGTTC
Statistics
Matches: 220, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
164 89 0.40
165 41 0.19
171 87 0.40
172 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (164 bp):
TACCCCTGGGGGTCATGATTTTCACAACTTTGAATATACACTACCTGGGGATGCTTCCACACAAG
TTTCAGCTTTCCTGGCCGATTAGTTTCTGAGAAGATAATTTTAAAGATTTACTCTATATATTCCC
ATGTAAAACTTTGACCCCCATTGTGGCCCAACCC
Found at i:206002 original size:110 final size:111
Alignment explanation
Indices: 205794--205995 Score: 325
Period size: 110 Copynumber: 1.8 Consensus size: 111
205784 AAATCTACGT
* * * *
205794 AAACGATCTAACCATATATTTGCAAAATTTTCCATTACAAGGCAATTTAAATAGCTTTTTATAAA
1 AAACAATCTAACCATAAATTGGCAAAATTTTCCATTACAAGGCAATCTAAATAGCTTTTTATAAA
205859 ATACATGAACTAGTTTATTAGCTGGGCCTTAAAATTAAATCTGCAC
66 ATACATGAACTAGTTTATTAGCTGGGCCTTAAAATTAAATCTGCAC
* **
205905 AAACAATCTAACCATAAATTGGCAAAA-TTTCCATTACAAGGTAATCTAAATAGCTTTTTATTTA
1 AAACAATCTAACCATAAATTGGCAAAATTTTCCATTACAAGGCAATCTAAATAGCTTTTTATAAA
*
205969 ATACATGAACTAGTTTATTTGCTGGGC
66 ATACATGAACTAGTTTATTAGCTGGGC
205996 TATAAAAATA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 59 0.71
111 24 0.29
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (111 bp):
AAACAATCTAACCATAAATTGGCAAAATTTTCCATTACAAGGCAATCTAAATAGCTTTTTATAAA
ATACATGAACTAGTTTATTAGCTGGGCCTTAAAATTAAATCTGCAC
Found at i:212724 original size:12 final size:13
Alignment explanation
Indices: 212707--212735 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
212697 AATTATTCAA
212707 CGTTTGAGAATC-
1 CGTTTGAGAATCT
212719 CGTTTGAGAATCT
1 CGTTTGAGAATCT
212732 CGTT
1 CGTT
212736 ATTTTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (13 bp):
CGTTTGAGAATCT
Found at i:212939 original size:12 final size:12
Alignment explanation
Indices: 212922--212946 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
212912 AATTAAGCCT
212922 ACCCAGAAATAG
1 ACCCAGAAATAG
212934 ACCCAGAAATAG
1 ACCCAGAAATAG
212946 A
1 A
212947 GAAGATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.16, T:0.08
Consensus pattern (12 bp):
ACCCAGAAATAG
Found at i:227100 original size:166 final size:166
Alignment explanation
Indices: 226829--227184 Score: 441
Period size: 166 Copynumber: 2.2 Consensus size: 166
226819 AAAGAATCAT
* * *
226829 CTGGCTGATTAGTTTCT--G-AGAAGATTTTTAAAGATTTACCCTATATATTCCTTTGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACCCTATATATTCCTATGTAAAACA
* * * *** **
226891 TTGACCCCCCATTGTGGCCCCACCCTACCCCTGAGGATCATGATTTTCACATCCTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCAAACCTACCAAAGAGGATCATGATTTTCACAAACTTGAATCTACA
* * **
226956 CAACCTGAGGATGTTTTCACACAAGTTTCAGCTTTC
131 CAACCTGAGGATGCTTCCACACAAGTGCCAGCTTTC
* * * * *
226992 CTGGCTGATTAGTTTTTGAGAAGAAGATTTTTAAATATTTACTCTGTTTATTCCTATGTAAAACA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACCCTATATATTCCTATGTAAAACA
* * *
227057 TCGACCTCCCATTGTGGCCCAAACCTATCCAAAG-GGGTCATGATTTTCACAAATTTGAATCTAC
66 TCGACCCCCCATTGTGGCCCAAACCTA-CCAAAGAGGATCATGATTTTCACAAACTTGAATCTAC
* *
227121 ACTACTTGAGGATGCTTCCACACAAGTGCCAGCTTTC
130 ACAACCTGAGGATGCTTCCACACAAGTGCCAGCTTTC
*
227158 CTGGCTAATTAGTTTCTGAGAAGAAGA
1 CTGGCTGATTAGTTTCTGAGAAGAAGA
227185 NNNNNNNNNN
Statistics
Matches: 162, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
163 16 0.10
165 1 0.01
166 142 0.88
167 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (166 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACCCTATATATTCCTATGTAAAACA
TCGACCCCCCATTGTGGCCCAAACCTACCAAAGAGGATCATGATTTTCACAAACTTGAATCTACA
CAACCTGAGGATGCTTCCACACAAGTGCCAGCTTTC
Found at i:229032 original size:12 final size:12
Alignment explanation
Indices: 229015--229046 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
229005 TTTACAGACT
229015 GACAGACGGACA
1 GACAGACGGACA
229027 GACAGACGGACA
1 GACAGACGGACA
*
229039 GACGGACG
1 GACAGACG
229047 ACGGACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.38, T:0.00
Consensus pattern (12 bp):
GACAGACGGACA
Found at i:230592 original size:12 final size:12
Alignment explanation
Indices: 230570--230631 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
230560 ATTTTAAGAT
230570 TTTTGGAATTTGA
1 TTTT-GAATTTGA
*
230583 TTTTGAATTTCA
1 TTTTGAATTTGA
* *
230595 TTTAGATTTTTAGA
1 TTTTGA-ATTT-GA
230609 TTTTTGGAATTTGA
1 -TTTT-GAATTTGA
230623 TTTTGAATT
1 TTTTGAATT
230632 AAATTTAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
12 17 0.44
13 11 0.28
14 3 0.08
15 6 0.15
16 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.58
Consensus pattern (12 bp):
TTTTGAATTTGA
Found at i:230611 original size:40 final size:40
Alignment explanation
Indices: 230557--230663 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 40
230547 TGATGTTAGA
* **
230557 TAGATTTTAAGATTTTTGGAATTTGATTTTGAATTTCATT
1 TAGATTTTTAGATTTTTGGAATTTGATTTTGAATTAAATT
230597 TAGATTTTTAGATTTTTGGAATTTGATTTTGAATTAAATT
1 TAGATTTTTAGATTTTTGGAATTTGATTTTGAATTAAATT
* *
230637 TAGATATTTATATTTTTGAGAATTTGA
1 TAGATTTTTAGATTTTTG-GAATTTGA
230664 GAATTCTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 53 0.87
41 8 0.13
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (40 bp):
TAGATTTTTAGATTTTTGGAATTTGATTTTGAATTAAATT
Found at i:248702 original size:36 final size:37
Alignment explanation
Indices: 248651--248720 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
248641 ATCATCCGGG
248651 CTATTTCATGACTGATGCAATGC-AAATACCCGTGGC
1 CTATTTCATGACTGATGCAATGCAAAATACCCGTGGC
* *
248687 CTATTTCATGGCTGATGCGATGCAAAATACCCGT
1 CTATTTCATGACTGATGCAATGCAAAATACCCGT
248721 AGACTTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 21 0.68
37 10 0.32
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (37 bp):
CTATTTCATGACTGATGCAATGCAAAATACCCGTGGC
Found at i:251799 original size:36 final size:36
Alignment explanation
Indices: 251747--251828 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
251737 TCAATGATGG
* *
251747 TGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGA
1 TGCAGCTCCGAGAAAGACTTGTCAGCTCGGTGTCGA
* *
251783 TGCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTGA
1 TGCAGCTCCGAGAAAGACTTGTCAGCTCGGTGTCGA
251819 TGCAGCTCCG
1 TGCAGCTCCG
251829 GAGGGACTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (36 bp):
TGCAGCTCCGAGAAAGACTTGTCAGCTCGGTGTCGA
Found at i:252139 original size:369 final size:371
Alignment explanation
Indices: 251412--252258 Score: 1500
Period size: 369 Copynumber: 2.3 Consensus size: 371
251402 ATTCTGGATC
* ** *
251412 GCAGATCCGAGAAAGACTTGGGGGCTCTGTGTTGATGCAGCTCCGAGAGGGACTGTGGGGCTGAG
1 GCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTGATGCAGCTCCG-GAGGGACTGTGGGGCTGAG
* * *
251477 GGTCACTCTAGCTACAGGAGATACTACCACGTTCTGTGTTGTCGCAGCTCCTGGGGGCACCCCTG
65 GGTCGCTCTAGCTACAGGAGATACTACCACGTTCTGTGTTGTCCCAGCTCCTGGAGGCACCCCTG
251542 CCGTATTGGCAACCCCAAACAAGTCCAAATCCAACCCTGAAAAAATAAAACAAGTTCAATAACAT
130 CCGTATTGGCAACCCCAAACAAGTCCAAATCCAACCCTGAAAAAATAAAACAAGTTCAATAACAT
*
251607 AGATTGAATAATCAGACACTTCAATTGTAGGTTATTTCAATTGTTTAGTTCATACCTCTCCTTCC
195 AGATTGAATAATCAGACAATTCAATTGTAGGTTATTTCAATTGTTTAGTTCATACCTCTCCTTCC
* **
251672 CCTTGACTTTTGGGCATTCTTTACTCCAGAGATCGGTGTTTCAGCCTCTTAATGCTCAACAGGGC
260 CCTTGACTTTTGGGCATTCTTAACTCCAGAGATCGGTGGCTCAGCCTCTTAATGCTCAACAGGGC
251737 TCAATGATGGTGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGAT
325 TCAATGATGGTGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGAT
*
251784 GCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTGATGCAGCTCCGGAGGGACTGTGGGGTTGAGG
1 GCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTGATGCAGCTCCGGAGGGACTGTGGGGCTGAGG
*
251849 GTCGCTCTAGCTACAGGAAATACTACCACGTT-TGTGTTGTCCCAGCTCCTGGAGGCACCCCTGC
66 GTCGCTCTAGCTACAGGAGATACTACCACGTTCTGTGTTGTCCCAGCTCCTGGAGGCACCCCTGC
* *
251913 CGTATTGTCATCCCCAAACAAGTCCAAATCCAACCCT-AAAAAATAAAACAAGTTCAATAACATA
131 CGTATTGGCAACCCCAAACAAGTCCAAATCCAACCCTGAAAAAATAAAACAAGTTCAATAACATA
251977 GATTGAATAATCAGACAATTCAATTGTAGGTTATTTCAATTGTTTAGTTCATACCTCTCCTTCCC
196 GATTGAATAATCAGACAATTCAATTGTAGGTTATTTCAATTGTTTAGTTCATACCTCTCCTTCCC
* *
252042 CTTGACTTTTGGGCATTCTTAACTCCAGAGATCGTTGGCTCAGCCTCTTGATGCTCAACAGGGCT
261 CTTGACTTTTGGGCATTCTTAACTCCAGAGATCGGTGGCTCAGCCTCTTAATGCTCAACAGGGCT
252107 CAATGATGGTGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGAT
326 CAATGATGGTGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGAT
*
252153 GCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTAATGCAGCTCCGGAGGGACTGTGGGGCTGAGG
1 GCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTGATGCAGCTCCGGAGGGACTGTGGGGCTGAGG
*
252218 GTCGCTCTAGCTACAGGAGAGACTACCACGTTCTGTGTTGT
66 GTCGCTCTAGCTACAGGAGATACTACCACGTTCTGTGTTGT
252259 TAGTTATTTC
Statistics
Matches: 453, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
369 290 0.64
370 73 0.16
371 49 0.11
372 41 0.09
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (371 bp):
GCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTGATGCAGCTCCGGAGGGACTGTGGGGCTGAGG
GTCGCTCTAGCTACAGGAGATACTACCACGTTCTGTGTTGTCCCAGCTCCTGGAGGCACCCCTGC
CGTATTGGCAACCCCAAACAAGTCCAAATCCAACCCTGAAAAAATAAAACAAGTTCAATAACATA
GATTGAATAATCAGACAATTCAATTGTAGGTTATTTCAATTGTTTAGTTCATACCTCTCCTTCCC
CTTGACTTTTGGGCATTCTTAACTCCAGAGATCGGTGGCTCAGCCTCTTAATGCTCAACAGGGCT
CAATGATGGTGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGAT
Found at i:252168 original size:36 final size:36
Alignment explanation
Indices: 252116--252197 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
252106 TCAATGATGG
* * *
252116 TGCATCTCCGAGAAAGACTTGTCAGCTCTGTGTCGA
1 TGCAGCTCCGAGAAAGACTTGTCAGCTCGGTGTCAA
* *
252152 TGCAGCTCCGAGAAAGACTTGTCGGCTCGGTGTTAA
1 TGCAGCTCCGAGAAAGACTTGTCAGCTCGGTGTCAA
252188 TGCAGCTCCG
1 TGCAGCTCCG
252198 GAGGGACTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (36 bp):
TGCAGCTCCGAGAAAGACTTGTCAGCTCGGTGTCAA
Found at i:252417 original size:36 final size:36
Alignment explanation
Indices: 252365--252447 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
252355 TTGGTGACGG
* * *
252365 TGCATCTCCGAGAAAGACTTGGCGGCTCTGTGTCGA
1 TGCAGCTCCGAGAAAGACTTGGCGACTCGGTGTCGA
* *
252401 TGCAGCTCCGAGAAAGACTTGTCGACTCGGTGTTGA
1 TGCAGCTCCGAGAAAGACTTGGCGACTCGGTGTCGA
252437 TGCAGCTCCGA
1 TGCAGCTCCGA
252448 AAGGGACTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (36 bp):
TGCAGCTCCGAGAAAGACTTGGCGACTCGGTGTCGA
Found at i:255813 original size:32 final size:33
Alignment explanation
Indices: 255773--255847 Score: 134
Period size: 32 Copynumber: 2.3 Consensus size: 33
255763 AGCCATCTTT
255773 CCCCCCGGAAGAATGGCTATATAGCAG-TTTTC
1 CCCCCCGGAAGAATGGCTATATAGCAGTTTTTC
255805 CCCCCCGGAAGAATGGCTATATAGCAGTTTTTC
1 CCCCCCGGAAGAATGGCTATATAGCAGTTTTTC
*
255838 CCCCACGGAA
1 CCCCCCGGAA
255848 AGCTGACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 27 0.66
33 14 0.34
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (33 bp):
CCCCCCGGAAGAATGGCTATATAGCAGTTTTTC
Found at i:255858 original size:33 final size:32
Alignment explanation
Indices: 255770--255861 Score: 116
Period size: 33 Copynumber: 2.9 Consensus size: 32
255760 CCTAGCCATC
*
255770 TTTCCCCC-CGGAAGAATGGCTATATAGCAGT
1 TTTCCCCCACGGAAGAATGACTATATAGCAGT
* *
255801 TTTCCCCCCCGGAAGAATGGCTATATAGCAGTT
1 TTTCCCCCACGGAAGAATGACTATATAGCAG-T
*
255834 TTTCCCCCACGGAA-AGCTGACTATATAG
1 TTTCCCCCACGGAAGA-ATGACTATATAG
255862 TGGGTTTCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
31 8 0.15
32 23 0.42
33 24 0.44
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (32 bp):
TTTCCCCCACGGAAGAATGACTATATAGCAGT
Found at i:260095 original size:12 final size:12
Alignment explanation
Indices: 260078--260103 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
260068 AAATATGTTT
260078 ATTGTTGTTAGA
1 ATTGTTGTTAGA
260090 ATTGTTGTTAGA
1 ATTGTTGTTAGA
260102 AT
1 AT
260104 AAATAAAATG
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:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATTGTTGTTAGA
Found at i:261069 original size:2 final size:2
Alignment explanation
Indices: 261062--261093 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
261052 TTTAGATAAT
261062 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
261094 TTTAACGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:261492 original size:9 final size:10
Alignment explanation
Indices: 261476--261513 Score: 60
Period size: 11 Copynumber: 3.8 Consensus size: 10
261466 GTAGGAACTT
261476 ATTTATTTTA
1 ATTTATTTTA
261486 A-TTATTTTA
1 ATTTATTTTA
261495 ATTTAATTTTA
1 ATTT-ATTTTA
261506 ATTTATTT
1 ATTTATTT
261514 GTTGTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
11 10 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATTTTA
Found at i:261505 original size:20 final size:20
Alignment explanation
Indices: 261476--261513 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
261466 GTAGGAACTT
261476 ATTTATTTTAA-TTATTTTA
1 ATTTATTTTAATTTATTTTA
261495 ATTTAATTTTAATTTATTT
1 ATTT-ATTTTAATTTATTT
261514 GTTGTCAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTATTTTAATTTATTTTA
Found at i:265283 original size:2 final size:2
Alignment explanation
Indices: 265276--265317 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
265266 TTTTAAGGCA
265276 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
265318 AAAACGTCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:265569 original size:5 final size:5
Alignment explanation
Indices: 265561--265690 Score: 117
Period size: 5 Copynumber: 26.4 Consensus size: 5
265551 GTTTAAATTC
* * *
265561 CGTTT CGTTT CGTTT CGATT --TTT GGTTT CGTTT CGTTT -GATTT CTTTT
1 CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CG-TTT CGTTT
* ** * *
265609 CGTTT CGATT -AATT CGTTT CGTTT CGATT GGTTT CGTTT CGTTT CGTTT
1 CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT CGTTT
*
265658 -GATTT CATTT CGTTT CGTTT CGATTT CGTTT CG
1 CG-TTT CGTTT CGTTT CGTTT CG-TTT CGTTT CG
265691 CACTTTACAG
Statistics
Matches: 102, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
3 2 0.02
4 5 0.05
5 90 0.88
6 5 0.05
ACGTcount: A:0.07, C:0.16, G:0.19, T:0.58
Consensus pattern (5 bp):
CGTTT
Found at i:265611 original size:20 final size:20
Alignment explanation
Indices: 265561--265690 Score: 154
Period size: 20 Copynumber: 6.3 Consensus size: 20
265551 GTTTAAATTC
265561 CGTTTCGTTTCGTTTCGATTTTT
1 CGTTTCGTTTCGTTT-GA--TTT
*
265584 GGTTTCGTTTCGTTTGATTT
1 CGTTTCGTTTCGTTTGATTT
* * *
265604 CTTTTCGTTTCGATT-AATT
1 CGTTTCGTTTCGTTTGATTT
* *
265623 CGTTTCGTTTCGATTGGTTT
1 CGTTTCGTTTCGTTTGATTT
265643 CGTTTCGTTTCGTTTGATTT
1 CGTTTCGTTTCGTTTGATTT
*
265663 CATTTCGTTTCGTTTCGATTT
1 CGTTTCGTTTCGTTT-GATTT
265684 CGTTTCG
1 CGTTTCG
265691 CACTTTACAG
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.18
20 49 0.53
21 11 0.12
22 2 0.02
23 14 0.15
ACGTcount: A:0.07, C:0.16, G:0.19, T:0.58
Consensus pattern (20 bp):
CGTTTCGTTTCGTTTGATTT
Found at i:269737 original size:10 final size:10
Alignment explanation
Indices: 269722--269747 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
269712 AGTTTAGTAC
269722 AGTAAAGTTT
1 AGTAAAGTTT
269732 AGTAAAGTTT
1 AGTAAAGTTT
269742 AGTAAA
1 AGTAAA
269748 ATGTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (10 bp):
AGTAAAGTTT
Found at i:283364 original size:2 final size:2
Alignment explanation
Indices: 283359--283410 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
283349 ATATATATAT
283359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
283401 AG AG AG AG AG
1 AG AG AG AG AG
283411 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:283737 original size:2 final size:2
Alignment explanation
Indices: 283730--283754 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
283720 NNNNNNNNNN
283730 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
283755 TCGACGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:285039 original size:2 final size:2
Alignment explanation
Indices: 285034--285068 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
285024 TCAGCGATTC
285034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
285069 CCCTTAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:286030 original size:21 final size:21
Alignment explanation
Indices: 286005--286056 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
285995 AGATTGTACT
*
286005 CTATGGTATGAAATTCCAATG
1 CTATGATATGAAATTCCAATG
* * *
286026 CTATGCTATGAGATTTCAATG
1 CTATGATATGAAATTCCAATG
*
286047 CCATGATATG
1 CTATGATATG
286057 CTATGGGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (21 bp):
CTATGATATGAAATTCCAATG
Found at i:291608 original size:114 final size:115
Alignment explanation
Indices: 291397--291622 Score: 262
Period size: 114 Copynumber: 2.0 Consensus size: 115
291387 TCTGATTCAA
* * * *
291397 ACCTTACTGCCAAAATGTAACGAATGTTTGGCAAAGAATTGGTGATCGAAAGAAAACCGACCAAA
1 ACCTTACCGCCAAAATGTAACAAATGGTTGGCAAAGAATTGGAGATCGAAAGAAAACCGACCAAA
*
291462 TAGTCAATGCAATTATTACGAGAAAAAGGAATGAGATAGTGTTTATGAAT
66 TAGTCAATGCAATTATTACGAGAAAAAGGAATGAGATAGTATTTATGAAT
* * * * *
291512 ACCTTACCGCCAAACTTTAACAAATGGTTGGGAAAGGATTGGAGATCGCAA-AAAACCGA-CAAC
1 ACCTTACCGCCAAAATGTAACAAATGGTTGGCAAAGAATTGGAGATCGAAAGAAAACCGACCAA-
* * * * *
291575 GTATTCAGTGCAATT-TTGACGA-AAATGAGGAATGAGATATTATTTATG
65 ATAGTCAATGCAATTATT-ACGAGAAA-AAGGAATGAGATAGTATTTATG
291623 GAAAAACATC
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
113 8 0.09
114 43 0.46
115 42 0.45
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (115 bp):
ACCTTACCGCCAAAATGTAACAAATGGTTGGCAAAGAATTGGAGATCGAAAGAAAACCGACCAAA
TAGTCAATGCAATTATTACGAGAAAAAGGAATGAGATAGTATTTATGAAT
Found at i:294306 original size:30 final size:30
Alignment explanation
Indices: 294272--294361 Score: 146
Period size: 30 Copynumber: 3.0 Consensus size: 30
294262 TATACGTTGC
* *
294272 CGGTCCAATAGATCACAGTCTAATGACCGG
1 CGGTCCAATAGATCGCAGTCTATTGACCGG
294302 CGGTCCAATAGATCGCAGTCTATTGACCGG
1 CGGTCCAATAGATCGCAGTCTATTGACCGG
294332 CGG-CCTAATAGATCGCAGTCTATTGACCGG
1 CGGTCC-AATAGATCGCAGTCTATTGACCGG
294362 TAGTTCAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
29 2 0.04
30 55 0.96
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.22
Consensus pattern (30 bp):
CGGTCCAATAGATCGCAGTCTATTGACCGG
Found at i:295832 original size:54 final size:54
Alignment explanation
Indices: 295759--295883 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
295749 CGATTAATTC
* *
295759 AGTAGCTTTGATTGTTACGTTACCATCAGTAACAATGAGTGATGCGTCACTGCT
1 AGTAACTTTGATTGTTACGTTACCATCAGTAACAATGAGTGATACGTCACTGCT
* * * * * * *
295813 AGTCACTTTCATTGTTACGTTACTATCAGTGACTATGAGTGATACGTTACTGTT
1 AGTAACTTTGATTGTTACGTTACCATCAGTAACAATGAGTGATACGTCACTGCT
295867 AGTAACTTTGATTGTTA
1 AGTAACTTTGATTGTTA
295884 GCACTGCATG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (54 bp):
AGTAACTTTGATTGTTACGTTACCATCAGTAACAATGAGTGATACGTCACTGCT
Found at i:311248 original size:15 final size:15
Alignment explanation
Indices: 311230--311262 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
311220 AAAACGGAGA
311230 AAACAAAAACAAAAC
1 AAACAAAAACAAAAC
311245 AAACAAAAACAAAAC
1 AAACAAAAACAAAAC
311260 AAA
1 AAA
311263 AAACCTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAACAAAAC
Found at i:312551 original size:2 final size:2
Alignment explanation
Indices: 312544--312751 Score: 159
Period size: 2 Copynumber: 103.5 Consensus size: 2
312534 CCAAAATTTC
312544 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * * *
312586 AG AG AG AG AG AG AG AG AG AG AG AG AN A- AA AA ACC CG AA ATC AT
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG A-G AG
** * * *
312629 TC ATT A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AC
1 AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
312671 AG AC AG AG AG AC AG AG AA AG AG AC AG AG AC AG AG AG AG AA AA
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * *
312713 AG AG AC AC AG AG AG AG AC AG AG AG AA AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
312752 ATTATTTAAG
Statistics
Matches: 167, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
1 2 0.01
2 163 0.98
3 2 0.01
ACGTcount: A:0.52, C:0.07, G:0.38, T:0.02
Consensus pattern (2 bp):
AG
Found at i:320772 original size:16 final size:16
Alignment explanation
Indices: 320738--320771 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
320728 ATGTTTTAAA
320738 TTTGTAGATACGTTAT
1 TTTGTAGATACGTTAT
*
320754 TTTGTATATACGTT-T
1 TTTGTAGATACGTTAT
320769 TTT
1 TTT
320772 TCTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (16 bp):
TTTGTAGATACGTTAT
Found at i:321253 original size:144 final size:144
Alignment explanation
Indices: 320993--321359 Score: 664
Period size: 144 Copynumber: 2.5 Consensus size: 144
320983 ATCTTCGGGG
*
320993 ACCTT-GAAAGAAAACCAAATATTAAAATAAGGCCAAAATATAAAGTTTATTAATTTAGATTGCA
1 ACCTTCGAAATAAAACCAAATATTAAAATAA-GCCAAAATATAAAGTTTATTAATTTAGATTGCA
* *
321057 AATTTCAAAAGGTGTAAACTCACAATAAAAACAGTTCTTTAAATTGACAAAGAAAAATAACATAA
65 AATTTCAAAAGGTGAAAACTCACAATAAAAACAGTTCTTAAAATTGACAAAGAAAAATAACATAA
321122 AATGAAAATATATTT
130 AATGAAAATATATTT
* *
321137 ACCTTCGAAATAAAACCAAATATCAAAATAAGCCAAAATATAAAGTTTATTATTTTAGATTGCAA
1 ACCTTCGAAATAAAACCAAATATTAAAATAAGCCAAAATATAAAGTTTATTAATTTAGATTGCAA
321202 ATTTCAAAAGGTGAAAACTCACAATAAAAACAGTTCTTAAAATTGACAAAGAAAAATAACATAAA
66 ATTTCAAAAGGTGAAAACTCACAATAAAAACAGTTCTTAAAATTGACAAAGAAAAATAACATAAA
321267 ATGAAAATATATTT
131 ATGAAAATATATTT
321281 ACCTTCGAAATAAAACCAAATATTAAAATAAGCCAAAATATAAAGTTTATTAATTTAGATTGCAA
1 ACCTTCGAAATAAAACCAAATATTAAAATAAGCCAAAATATAAAGTTTATTAATTTAGATTGCAA
*
321346 ATGTCAAAAGGTGA
66 ATTTCAAAAGGTGA
321360 CAATTTGCGT
Statistics
Matches: 214, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
144 191 0.89
145 23 0.11
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.28
Consensus pattern (144 bp):
ACCTTCGAAATAAAACCAAATATTAAAATAAGCCAAAATATAAAGTTTATTAATTTAGATTGCAA
ATTTCAAAAGGTGAAAACTCACAATAAAAACAGTTCTTAAAATTGACAAAGAAAAATAACATAAA
ATGAAAATATATTT
Found at i:326640 original size:14 final size:14
Alignment explanation
Indices: 326621--326648 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
326611 TTCGGAGTAG
326621 CCGAACTAAAGCCA
1 CCGAACTAAAGCCA
326635 CCGAACTAAAGCCA
1 CCGAACTAAAGCCA
326649 AAGTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.36, G:0.14, T:0.07
Consensus pattern (14 bp):
CCGAACTAAAGCCA
Found at i:345361 original size:10 final size:10
Alignment explanation
Indices: 345348--345372 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
345338 AAATTCAAGA
345348 AAAATCCCAT
1 AAAATCCCAT
345358 AAAATCCCAT
1 AAAATCCCAT
345368 AAAAT
1 AAAAT
345373 TGTACAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATCCCAT
Found at i:346589 original size:17 final size:18
Alignment explanation
Indices: 346552--346586 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
346542 TAGAAAATTG
* *
346552 TTTAAAAAAACTTTCAAA
1 TTTAAAAAAAATTACAAA
346570 TTTAAAAAAAATTACAA
1 TTTAAAAAAAATTACAA
346587 TTTCTTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTAAAAAAAATTACAAA
Found at i:354555 original size:22 final size:22
Alignment explanation
Indices: 354505--354557 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
354495 TATATGTATT
*
354505 GCTTAAAGGTGGCTTAAAGAAA
1 GCTTAAAGATGGCTTAAAGAAA
* **
354527 GCGTAAAGATGGCTTAAAGGCA
1 GCTTAAAGATGGCTTAAAGAAA
354549 GCTTAAAGA
1 GCTTAAAGA
354558 CTATCTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (22 bp):
GCTTAAAGATGGCTTAAAGAAA
Found at i:355642 original size:2 final size:2
Alignment explanation
Indices: 355637--355674 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
355627 AAAAATTCAT
355637 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
355675 TGTCACTGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:359972 original size:43 final size:44
Alignment explanation
Indices: 359908--359991 Score: 136
Period size: 43 Copynumber: 1.9 Consensus size: 44
359898 GTTCCATATC
359908 GCCATTTAGTTAAAATCTATTAAATCTTTA-A-AATCTTCTTATG
1 GCCATTTAGTTAAAATCTATTAAATC-TTAGAGAATCTTCTTATG
*
359951 GCCATTTAGTTAAAATGTATTAAATCTTAGAGAATCTTCTT
1 GCCATTTAGTTAAAATCTATTAAATCTTAGAGAATCTTCTT
359992 CTCTACCCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 3 0.08
43 26 0.68
44 9 0.24
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (44 bp):
GCCATTTAGTTAAAATCTATTAAATCTTAGAGAATCTTCTTATG
Found at i:360852 original size:11 final size:11
Alignment explanation
Indices: 360838--360888 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
360828 ACATGAGTGT
360838 TCATATGATTC
1 TCATATGATTC
360849 TCATATGATCTGCC
1 TCATATGAT-T--C
* *
360863 ACATGTGATTC
1 TCATATGATTC
360874 TCATATGATTC
1 TCATATGATTC
360885 TCAT
1 TCAT
360889 TTGAAATACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 23 0.70
12 1 0.03
13 1 0.03
14 8 0.24
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (11 bp):
TCATATGATTC
Found at i:380042 original size:21 final size:21
Alignment explanation
Indices: 380016--380057 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
380006 TAGAAACGTA
*
380016 TGCAACGAATGCGAGAGCTCG
1 TGCAACGAATGCAAGAGCTCG
*
380037 TGCAACGTATGCAAGAGCTCG
1 TGCAACGAATGCAAGAGCTCG
380058 CGCGAAGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.17
Consensus pattern (21 bp):
TGCAACGAATGCAAGAGCTCG
Found at i:389299 original size:60 final size:60
Alignment explanation
Indices: 389227--389346 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
389217 TAAAATTTAC
* *
389227 AGTATGTTATATTGTGAGTTTTGTTTTTGCACTTACTGAGTTTGTTAAAACTGGGATTAT
1 AGTATGTCATATTGTGAGTTTTGTTTTTGCACTCACTGAGTTTGTTAAAACTGGGATTAT
*
389287 AGTATGTCATATTGTGAGTTTTGTTTTTGCACTCACTGAGTTTGTTAAAACTGTGATTAT
1 AGTATGTCATATTGTGAGTTTTGTTTTTGCACTCACTGAGTTTGTTAAAACTGGGATTAT
389347 CTGAATTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.47
Consensus pattern (60 bp):
AGTATGTCATATTGTGAGTTTTGTTTTTGCACTCACTGAGTTTGTTAAAACTGGGATTAT
Found at i:392550 original size:31 final size:32
Alignment explanation
Indices: 392495--392569 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 32
392485 GATTTTGGAC
392495 TCAATTTTCAACATTGAAAAATGACCCCCGGG
1 TCAATTTTCAACATTGAAAAATGACCCCCGGG
* *
392527 TCAATATTCAACGTTG-AAAATGACCCCCGGG
1 TCAATTTTCAACATTGAAAAATGACCCCCGGG
392558 TCAATTTTCAAC
1 TCAATTTTCAAC
392570 CCGGGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (32 bp):
TCAATTTTCAACATTGAAAAATGACCCCCGGG
Found at i:392974 original size:177 final size:177
Alignment explanation
Indices: 392669--393109 Score: 731
Period size: 177 Copynumber: 2.5 Consensus size: 177
392659 GGTTCACCAA
* * * * *
392669 CAGTTTCCGTTCATTTTCTTAGCAGAGTATGAGCATATTGAAATAAAATTTGGTATACAGGTTTA
1 CAGTTTCTGTTCATTTTCTTTGCAGAGTATGAACATACTGAAATGAAATTTGGTATACAGGTTTA
*
392734 TCATGATAATATCTAGGTCAAGTTCGATATTGGGCACGAACGAGCAATTTTCATCAGAGTTGATT
66 TCATGATAATATCTAGGTCAAGTTCGATATTGGGCACGAACGAGCAATTTTCATCACAGTTGATT
* *
392799 TTCGACAGAGTTATGGCCTTTGGACGTAGAAAAATTATAGTTTTTTG
131 TTCGACAGAGTTATGGCCCTTGGAAGTAGAAAAATTATAGTTTTTTG
392846 CAGTTTCTGTTCATTTTCTTTGCAGAGTATGAACATACTGAAATGAAATTTGGTATACAGGTTTA
1 CAGTTTCTGTTCATTTTCTTTGCAGAGTATGAACATACTGAAATGAAATTTGGTATACAGGTTTA
* * *
392911 TCATGATAATATCTAGGTCAAGTTCGATATTGGGTACGATCGAGCACTTTTCGA-CACAGTTGAT
66 TCATGATAATATCTAGGTCAAGTTCGATATTGGGCACGAACGAGCAATTTTC-ATCACAGTTGAT
* * *
392975 TTTCGACATAGTTATGGCCCTTGGAATTAGAAAAATTCTAGTTTTTTG
130 TTTCGACAGAGTTATGGCCCTTGGAAGTAGAAAAATTATAGTTTTTTG
393023 CAGTTTCTGTTCATTTTCTTTGCAGAGTATGAACATACTGAAATGAAATTTGGTATACAGGTTTA
1 CAGTTTCTGTTCATTTTCTTTGCAGAGTATGAACATACTGAAATGAAATTTGGTATACAGGTTTA
*
393088 TCAAGATAATATCTAGGTCAAG
66 TCATGATAATATCTAGGTCAAG
393110 ATGTTGTAAT
Statistics
Matches: 248, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
177 247 1.00
178 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (177 bp):
CAGTTTCTGTTCATTTTCTTTGCAGAGTATGAACATACTGAAATGAAATTTGGTATACAGGTTTA
TCATGATAATATCTAGGTCAAGTTCGATATTGGGCACGAACGAGCAATTTTCATCACAGTTGATT
TTCGACAGAGTTATGGCCCTTGGAAGTAGAAAAATTATAGTTTTTTG
Found at i:394352 original size:13 final size:13
Alignment explanation
Indices: 394334--394359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
394324 GGGGAAGAGG
394334 GAGAGAGAGAGAA
1 GAGAGAGAGAGAA
394347 GAGAGAGAGAGAA
1 GAGAGAGAGAGAA
394360 ACAATAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (13 bp):
GAGAGAGAGAGAA
Found at i:397012 original size:17 final size:18
Alignment explanation
Indices: 396976--397021 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
396966 AAATTGGCCA
*
396976 TTCTCTTCTCCTTTCGTT
1 TTCTCTTCTCCTATCGTT
396994 TTCT-TTCTCCTATC-TT
1 TTCTCTTCTCCTATCGTT
* *
397010 TTTTCTCCTCCT
1 TTCTCTTCTCCT
397022 GTACGTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.61
Consensus pattern (18 bp):
TTCTCTTCTCCTATCGTT
Found at i:400025 original size:1 final size:1
Alignment explanation
Indices: 400019--400050 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
400009 TGTTCTCTAT
*
400019 AAAAAAAAAAAAAAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
400051 TCATAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:406228 original size:2 final size:2
Alignment explanation
Indices: 406216--406283 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
406206 GTCCATCGCT
406216 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
406257 TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
406284 GGACTTTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:414396 original size:2 final size:2
Alignment explanation
Indices: 414389--414422 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
414379 TTGTATTACG
*
414389 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
414423 GTTTACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:417307 original size:12 final size:12
Alignment explanation
Indices: 417290--417330 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
417280 ACTAAACTAT
417290 GGGTTTACTTTG
1 GGGTTTACTTTG
*
417302 GGGTTTAC-TCG
1 GGGTTTACTTTG
417313 GGGTTTACTTT-
1 GGGTTTACTTTG
417324 GGGTTTA
1 GGGTTTA
417331 ATCGGGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.10, C:0.10, G:0.34, T:0.46
Consensus pattern (12 bp):
GGGTTTACTTTG
Found at i:417330 original size:22 final size:23
Alignment explanation
Indices: 417290--417336 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
417280 ACTAAACTAT
*
417290 GGGTTTACTTTGGGGTTTACTCG
1 GGGTTTACTTTGGGGTTTAATCG
417313 GGGTTTACTTT-GGGTTTAATCG
1 GGGTTTACTTTGGGGTTTAATCG
417335 GG
1 GG
417337 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.11, C:0.11, G:0.36, T:0.43
Consensus pattern (23 bp):
GGGTTTACTTTGGGGTTTAATCG
Found at i:423035 original size:11 final size:11
Alignment explanation
Indices: 423021--423056 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
423011 ATACATTTTA
423021 AAAGCATTTCT
1 AAAGCATTTCT
423032 AAAGCATTTCT
1 AAAGCATTTCT
*
423043 AAAGCATCTCT
1 AAAGCATTTCT
423054 AAA
1 AAA
423057 AAGAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (11 bp):
AAAGCATTTCT
Found at i:460292 original size:21 final size:21
Alignment explanation
Indices: 460249--460355 Score: 137
Period size: 21 Copynumber: 5.1 Consensus size: 21
460239 ATTCAAATAT
460249 TTGTACCTATCTTCAAA-T-AA
1 TTGTACCTATCTT-AAATTCAA
* *
460269 TTGTACCTCTCTTAAATTTAA
1 TTGTACCTATCTTAAATTCAA
*
460290 TTGTACCTATCTTCAATTCAA
1 TTGTACCTATCTTAAATTCAA
*
460311 TTGTACCTATCTTCAATTCAA
1 TTGTACCTATCTTAAATTCAA
*
460332 TTGTACCTATCTTCAAATTGAA
1 TTGTACCTATCTT-AAATTCAA
460354 TT
1 TT
460356 AGAGATAGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
19 3 0.04
20 13 0.17
21 54 0.69
22 8 0.10
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.44
Consensus pattern (21 bp):
TTGTACCTATCTTAAATTCAA
Found at i:460334 original size:42 final size:41
Alignment explanation
Indices: 460249--460349 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 41
460239 ATTCAAATAT
* *
460249 TTGTACCTATCTTCAAATAATTGTACCTCTCTTAAATTTAA
1 TTGTACCTATCTTCAAATAATTGTACCTATCTTAAATTCAA
* *
460290 TTGTACCTATCTTCAATTCAATTGTACCTATCTTCAATTCAA
1 TTGTACCTATCTTCAAAT-AATTGTACCTATCTTAAATTCAA
460332 TTGTACCTATCTTCAAAT
1 TTGTACCTATCTTCAAAT
460350 TGAATTAGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 17 0.31
42 37 0.69
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.44
Consensus pattern (41 bp):
TTGTACCTATCTTCAAATAATTGTACCTATCTTAAATTCAA
Found at i:460420 original size:21 final size:21
Alignment explanation
Indices: 460396--460489 Score: 109
Period size: 21 Copynumber: 4.2 Consensus size: 21
460386 TTTTATTCAT
*
460396 TTGAAGATAGGTACAATTGAT
1 TTGAAGATAGGTACAATTGAA
460417 TTGAAGATAGGTACAAATGCAATGAA
1 TTGAAGATAGGTAC-AAT----TGAA
460443 TTGAAGATAGGTACAATTGAA
1 TTGAAGATAGGTACAATTGAA
*
460464 -TGAAAGATAGGCACAATTGAA
1 TTG-AAGATAGGTACAATTGAA
460485 TTGAA
1 TTGAA
460490 CCTATCTTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.03
21 37 0.58
22 5 0.08
25 3 0.05
26 17 0.27
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (21 bp):
TTGAAGATAGGTACAATTGAA
Found at i:460446 original size:26 final size:25
Alignment explanation
Indices: 460396--460467 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
460386 TTTTATTCAT
*
460396 TTGAAGATAGGTAC-AAT---TGAT
1 TTGAAGATAGGTACAAATGAATGAA
460417 TTGAAGATAGGTACAAATGCAATGAA
1 TTGAAGATAGGTACAAATG-AATGAA
*
460443 TTGAAGATAGGTACAATTGAATGAA
1 TTGAAGATAGGTACAAATGAATGAA
460468 AGATAGGCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
21 14 0.32
22 3 0.07
25 6 0.14
26 21 0.48
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (25 bp):
TTGAAGATAGGTACAAATGAATGAA
Found at i:460806 original size:12 final size:12
Alignment explanation
Indices: 460789--460821 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
460779 AGTTTGCAAA
*
460789 AAAAAAAATTTT
1 AAAAAAAATTCT
460801 AAAAAAAA-TCT
1 AAAAAAAATTCT
460812 AAAAAAAATT
1 AAAAAAAATT
460822 AATTTCTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTCT
Found at i:462404 original size:16 final size:16
Alignment explanation
Indices: 462371--462414 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
462361 TATGGCCATC
*
462371 ATAATTATATATTAATA
1 ATAATTATA-AATAATA
462388 ATAATTATAAATAATA
1 ATAATTATAAATAATA
462404 ATAATTATAAA
1 ATAATTATAAA
462415 CATATTTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTATAAATAATA
Found at i:463154 original size:12 final size:11
Alignment explanation
Indices: 463128--463161 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
463118 CATATACATA
*
463128 TTTATTTATTT
1 TTTATTTTTTT
463139 TTTATTTTTATT
1 TTTATTTTT-TT
463151 TTTATTTTTTT
1 TTTATTTTTTT
463162 AGCTTAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTATTTTTTT
Found at i:464097 original size:24 final size:26
Alignment explanation
Indices: 464045--464098 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
464035 TCCGGTACAT
464045 TCCTTAGTTAATAGTGTATAATATGTG
1 TCCTTAGTTAATAGTG-ATAATATGTG
464072 TCCTTAGTTAATAGTG-T-ATATGTG
1 TCCTTAGTTAATAGTGATAATATGTG
464096 TCC
1 TCC
464099 AAATAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 10 0.37
25 1 0.04
27 16 0.59
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
TCCTTAGTTAATAGTGATAATATGTG
Found at i:464637 original size:21 final size:21
Alignment explanation
Indices: 464611--464687 Score: 127
Period size: 21 Copynumber: 3.6 Consensus size: 21
464601 TGCGTCTTTT
*
464611 TACCCCAATGAACCCCATTGA
1 TACCCCAATGAACCCCAATGA
*
464632 TACCCCAATGATACCCTAATGA
1 TACCCCAATGA-ACCCCAATGA
464654 TACCCCAATGAACCCCAATGA
1 TACCCCAATGAACCCCAATGA
464675 TACCCCAATGAAC
1 TACCCCAATGAAC
464688 TTTGAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
21 33 0.63
22 19 0.37
ACGTcount: A:0.36, C:0.36, G:0.09, T:0.18
Consensus pattern (21 bp):
TACCCCAATGAACCCCAATGA
Found at i:464638 original size:11 final size:11
Alignment explanation
Indices: 464611--464685 Score: 118
Period size: 11 Copynumber: 7.0 Consensus size: 11
464601 TGCGTCTTTT
464611 TACCCCAATGA
1 TACCCCAATGA
*
464622 -ACCCCATTGA
1 TACCCCAATGA
464632 TACCCCAATGA
1 TACCCCAATGA
*
464643 TACCCTAATGA
1 TACCCCAATGA
464654 TACCCCAATGA
1 TACCCCAATGA
464665 -ACCCCAATGA
1 TACCCCAATGA
464675 TACCCCAATGA
1 TACCCCAATGA
464686 ACTTTGAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
10 19 0.33
11 39 0.67
ACGTcount: A:0.36, C:0.36, G:0.09, T:0.19
Consensus pattern (11 bp):
TACCCCAATGA
Found at i:466871 original size:2 final size:2
Alignment explanation
Indices: 466866--466946 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
466856 CACACACACA
466866 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
466908 CT CT CT CT CT CT CT CT CT CT CT CT AT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
466947 ATTTATACAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.01, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:467902 original size:21 final size:21
Alignment explanation
Indices: 467873--468027 Score: 204
Period size: 21 Copynumber: 7.3 Consensus size: 21
467863 TGACACCCCC
*
467873 CCATGCATGTAATGTTAAAGTA
1 CCAT-CATGTAATGTTGAAGTA
467895 CCATCATGTAATGTTGAAGTA
1 CCATCATGTAATGTTGAAGTA
* * * *
467916 TCAGCACGTAATGTTAAAGTA
1 CCATCATGTAATGTTGAAGTA
*
467937 CCATCATGTAATGTTGAAATA
1 CCATCATGTAATGTTGAAGTA
* *
467958 TCAGT-ATGTAATGGTGAAGTA
1 CCA-TCATGTAATGTTGAAGTA
467979 CCATCATGTAATGTTGAAGTA
1 CCATCATGTAATGTTGAAGTA
468000 CCATCATGTAATGTTGAAGTA
1 CCATCATGTAATGTTGAAGTA
*
468021 TCATCAT
1 CCATCAT
468028 ATTATGAAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
20 1 0.01
21 109 0.95
22 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
CCATCATGTAATGTTGAAGTA
Found at i:468871 original size:21 final size:22
Alignment explanation
Indices: 468849--469007 Score: 163
Period size: 21 Copynumber: 7.5 Consensus size: 22
468839 ATTTCAAAGT
*
468849 TCATTAGGGTATCATTGGGGT-
1 TCATTGGGGTATCATTGGGGTA
* *
468870 TCATTGGGATATCATT-TGGTA
1 TCATTGGGGTATCATTGGGGTA
* *
468891 TCATAGGGGTATCATTAGGTGTA
1 TCATTGGGGTATCATT-GGGGTA
468914 T--TT-GGGTATCATTGGGGTA
1 TCATTGGGGTATCATTGGGGTA
*
468933 TCATTGGGGTAACATTGGGGT-
1 TCATTGGGGTATCATTGGGGTA
*
468954 TCATTGGGGGTACCATTGGGGTA
1 TCATT-GGGGTATCATTGGGGTA
* *
468977 TCATT-TGGTTTCATTGGGGT-
1 TCATTGGGGTATCATTGGGGTA
468997 TCATTGGGGTA
1 TCATTGGGGTA
469008 AAAAGACGCA
Statistics
Matches: 113, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
19 6 0.05
20 18 0.16
21 51 0.45
22 29 0.26
23 9 0.08
ACGTcount: A:0.19, C:0.09, G:0.33, T:0.38
Consensus pattern (22 bp):
TCATTGGGGTATCATTGGGGTA
Found at i:468875 original size:10 final size:11
Alignment explanation
Indices: 468849--469007 Score: 163
Period size: 11 Copynumber: 15.0 Consensus size: 11
468839 ATTTCAAAGT
*
468849 TCATTAGGGTA
1 TCATTGGGGTA
468860 TCATTGGGGT-
1 TCATTGGGGTA
*
468870 TCATTGGGATA
1 TCATTGGGGTA
*
468881 TCATT-TGGTA
1 TCATTGGGGTA
*
468891 TCATAGGGGTA
1 TCATTGGGGTA
*
468902 TCATTAGGTGTA
1 TCATT-GGGGTA
468914 T--TT-GGGTA
1 TCATTGGGGTA
468922 TCATTGGGGTA
1 TCATTGGGGTA
468933 TCATTGGGGTA
1 TCATTGGGGTA
*
468944 ACATTGGGGT-
1 TCATTGGGGTA
468954 TCATTGGGGGTA
1 TCATT-GGGGTA
*
468966 CCATTGGGGTA
1 TCATTGGGGTA
* *
468977 TCATT-TGGTT
1 TCATTGGGGTA
468987 TCATTGGGGT-
1 TCATTGGGGTA
468997 TCATTGGGGTA
1 TCATTGGGGTA
469008 AAAAGACGCA
Statistics
Matches: 122, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
8 5 0.04
10 42 0.34
11 65 0.53
12 10 0.08
ACGTcount: A:0.19, C:0.09, G:0.33, T:0.38
Consensus pattern (11 bp):
TCATTGGGGTA
Found at i:470369 original size:21 final size:21
Alignment explanation
Indices: 470343--470383 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
470333 AAAACCGTTG
*
470343 TACCTATCTTTAAATGAATTT
1 TACCTATCTTCAAATGAATTT
*
470364 TACCTATGTTCAAATGAATT
1 TACCTATCTTCAAATGAATT
470384 AGAGATAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (21 bp):
TACCTATCTTCAAATGAATTT
Found at i:470521 original size:20 final size:21
Alignment explanation
Indices: 470481--470526 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
470471 AATTATTTAC
* *
470481 ACCTATCTTCAATTCAATTGT
1 ACCTATATTCAAATCAATTGT
470502 ACCTATATTCAAAT-AATTGT
1 ACCTATATTCAAATCAATTGT
470522 ACCTA
1 ACCTA
470527 CACATAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (21 bp):
ACCTATATTCAAATCAATTGT
Found at i:471712 original size:53 final size:53
Alignment explanation
Indices: 471632--471743 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
471622 AAATATATTA
471632 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
*
471685 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTC
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
471738 TTATTA
1 TTATTA
471744 TTATTATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (53 bp):
TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
Found at i:471796 original size:69 final size:69
Alignment explanation
Indices: 471685--471828 Score: 279
Period size: 69 Copynumber: 2.1 Consensus size: 69
471675 GTACTGTTTC
471685 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTATTATTATTA
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTATTATTATTA
471750 TTTA
66 TTTA
*
471754 TTATTAAGGTCTTCCGTTTCCAGCGGAAGACCTTATTGTTTTCGTACTGTTTCTTATTATTATTA
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTATTATTATTA
471819 TTTA
66 TTTA
471823 TTATTA
1 TTATTA
471829 TTATTATTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 74 1.00
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (69 bp):
TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTATTATTATTA
TTTA
Found at i:471815 original size:3 final size:3
Alignment explanation
Indices: 471807--471836 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
471797 GTACTGTTTC
471807 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
471837 TTTTTCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:471825 original size:13 final size:13
Alignment explanation
Indices: 471807--471833 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
471797 GTACTGTTTC
471807 TTATTATTATTAT
1 TTATTATTATTAT
471820 TTATTATTATTAT
1 TTATTATTATTAT
471833 T
1 T
471834 ATTTTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:471828 original size:16 final size:16
Alignment explanation
Indices: 471807--471837 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
471797 GTACTGTTTC
471807 TTATTATTATTATTTA
1 TTATTATTATTATTTA
471823 TTATTATTATTATTT
1 TTATTATTATTATTT
471838 TTTTCCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTTA
Found at i:499340 original size:139 final size:139
Alignment explanation
Indices: 499140--499392 Score: 357
Period size: 139 Copynumber: 1.8 Consensus size: 139
499130 CTTCCTCAAT
* * * *
499140 TGACCTTGGGTCAAGGTCATGACACAGCCTCAGGTTAAAAGCAATTTTTATGTGAATTAAGAACT
1 TGACCTTGGGTCAACGTCATGACACACCCTCAGGTTAAAAGCAATCTTTATGTGAAGTAAGAACT
* * * *
499205 TCCAATCATTT-TCCATGAGAAAGATATTGACCGGATATGAATTGTGCACTTTTCTGCCAATGAC
66 TCCAAT-ATTTCTCCATAAGAAAGATATGGACCGGACACGAATTGTGCACTTTTCTGCCAATGAC
499269 CTTGCTCGAA
130 CTTGCTCGAA
* *
499279 TGACCTTGGGTCAACGTCATGACACACCCTCAGGTCT-TAAGCAATCTTTATGTTAAGTAAGAAC
1 TGACCTTGGGTCAACGTCATGACACACCCTCAGGT-TAAAAGCAATCTTTATGTGAAGTAAGAAC
* * *
499343 TTCCAATGTTTCTTCATAAGAAAGATATGGACCGGACACGAATTTTGCAC
65 TTCCAATATTTCTCCATAAGAAAGATATGGACCGGACACGAATTGTGCAC
499393 AGACAGACGG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
138 3 0.03
139 95 0.96
140 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (139 bp):
TGACCTTGGGTCAACGTCATGACACACCCTCAGGTTAAAAGCAATCTTTATGTGAAGTAAGAACT
TCCAATATTTCTCCATAAGAAAGATATGGACCGGACACGAATTGTGCACTTTTCTGCCAATGACC
TTGCTCGAA
Found at i:501347 original size:29 final size:29
Alignment explanation
Indices: 501315--501370 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
501305 TAAAGTTATA
*
501315 TTCCCTTGCTTCTTCATAATGGAATTAGC
1 TTCCCTTGCTTCCTCATAATGGAATTAGC
501344 TTCCCTTGCTTCCTCATAATGGAATTA
1 TTCCCTTGCTTCCTCATAATGGAATTA
501371 ACAAATTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.41
Consensus pattern (29 bp):
TTCCCTTGCTTCCTCATAATGGAATTAGC
Found at i:515878 original size:21 final size:21
Alignment explanation
Indices: 515852--515948 Score: 133
Period size: 21 Copynumber: 4.7 Consensus size: 21
515842 CAACATACAC
515852 CATAGCATAGCATTGAAATCT
1 CATAGCATAGCATTGAAATCT
*
515873 CATAGCATAGCATTAAAATCT
1 CATAGCATAGCATTGAAATCT
*
515894 CATAGCATAGCATTGGAATCT
1 CATAGCATAGCATTGAAATCT
* *
515915 CATACCATAGCA-TGCAATCT
1 CATAGCATAGCATTGAAATCT
* *
515935 CATAGAATCGCATT
1 CATAGCATAGCATT
515949 CGTCATATCA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.24
21 51 0.76
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
CATAGCATAGCATTGAAATCT
Found at i:516153 original size:15 final size:15
Alignment explanation
Indices: 516133--516161 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
516123 CTTCAAATCT
516133 CATAGCATACCATAG
1 CATAGCATACCATAG
516148 CATAGCATACCATA
1 CATAGCATACCATA
516162 TCATTAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (15 bp):
CATAGCATACCATAG
Found at i:516216 original size:21 final size:21
Alignment explanation
Indices: 516187--516229 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
516177 TTTCAATTTC
*
516187 TCATTGCATAGCATACAAATA
1 TCATAGCATAGCATACAAATA
516208 TCATAGCATAGCATACAAATA
1 TCATAGCATAGCATACAAATA
516229 T
1 T
516230 AGCATATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (21 bp):
TCATAGCATAGCATACAAATA
Done.