Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 188 of 240
Found at i:57644360 original size:73 final size:73
Alignment explanation
Indices: 57644258--57644431 Score: 269
Period size: 73 Copynumber: 2.4 Consensus size: 73
57644248 CTGAGCATTA
* * * * **
57644258 GCGGCGCTTTCTTC-AAAACGCCACCAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTA
57644322 GGTTTTTTT
65 GGTTTTTTT
57644331 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
57644396 GTTTTTTT
66 GTTTTTTT
*
57644404 GCGGCGCTTTCCCAAAAACGTCGCTAAA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAA
57644432 GCCCTGAGCA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 1 0.01
73 92 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (73 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
GTTTTTTT
Found at i:57644426 original size:114 final size:114
Alignment explanation
Indices: 57644331--57644657 Score: 415
Period size: 114 Copynumber: 2.9 Consensus size: 114
57644321 AGGTTTTTTT
*
57644331 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTGGGCTTAG
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTAGGCTTAG
57644396 GTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
** * * * **
57644445 GCGGCGCTTTCTTATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAG
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTAGGCTTAG
* * * *
57644510 GTTTTTTTGGGGCGCTTTCCGAAAAACGCCGCTAAAACCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
* * ** * * * * *
57644559 GCGACGCTTACTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGGAAAC-GACGTTGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGA-ATCGTTAGGCTTA
* * *
57644623 GG-TTTTTTGCAGCGCTTTCTCAAAAACGCCGCTAA
65 GGTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAA
57644658 TGCTTATTTT
Statistics
Matches: 187, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
113 30 0.16
114 157 0.84
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGAATCGTTAGGCTTAG
GTTTTTTTGCGGCGCTTTCCCAAAAACGTCGCTAAAGCCCTGAGCATTA
Found at i:57644743 original size:12 final size:12
Alignment explanation
Indices: 57644726--57644751 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57644716 TTTTTTATCC
57644726 AAACGCCGCTAA
1 AAACGCCGCTAA
57644738 AAACGCCGCTAA
1 AAACGCCGCTAA
57644750 AA
1 AA
57644752 GCCTGTTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:57647315 original size:31 final size:29
Alignment explanation
Indices: 57647250--57647307 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
57647240 AACAAATGTG
* *
57647250 CATTGTTATATATGAACTTTGATTTTATA
1 CATTTTTATATATGAACTTTGATTTGATA
* *
57647279 CATTTTTATATATGAGATTTTTATTTGAT
1 CATTTTTATATATGA-ACTTTGATTTGAT
57647308 TCAATTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.55
Consensus pattern (29 bp):
CATTTTTATATATGAACTTTGATTTGATA
Found at i:57655278 original size:7 final size:7
Alignment explanation
Indices: 57655266--57655300 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
57655256 TTAAAAACCC
57655266 ATAAAAA
1 ATAAAAA
57655273 ATAAAAA
1 ATAAAAA
57655280 ATAAAAA
1 ATAAAAA
57655287 ATAAAAA
1 ATAAAAA
57655294 ATAAAAA
1 ATAAAAA
57655301 CTAAGAGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:57658101 original size:20 final size:20
Alignment explanation
Indices: 57658076--57658113 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57658066 CTCAATCGAT
57658076 GATAATTA-ATTATTTAATTA
1 GATAATTAGA-TATTTAATTA
57658096 GATAATTAGATATTTAAT
1 GATAATTAGATATTTAAT
57658114 CGATCATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
GATAATTAGATATTTAATTA
Found at i:57664878 original size:45 final size:45
Alignment explanation
Indices: 57664827--57665043 Score: 260
Period size: 45 Copynumber: 4.9 Consensus size: 45
57664817 GTGCTTTCAT
* * * * *
57664827 ATGATGCCATAGCATTTTTCAGCTATGATTTTACTCATTTCTACC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACC
* * * *
57664872 ATGATGCCATAGCATCTTTCAACTATGTTATTACTCATTTTTACC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACC
57664917 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACC
* * * ** *
57664962 AGGATGTCAT-AC--CATTCAAATATGGTCTTACTTATTTTTACC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACC
* *
57665004 ATGATGTCATAACATCTTTCAGCTATGGTCGTACTCATTT
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTT
57665044 CTAGGTGTAT
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
42 35 0.24
43 2 0.01
44 2 0.01
45 109 0.74
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.41
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACC
Found at i:57665017 original size:87 final size:89
Alignment explanation
Indices: 57664827--57665046 Score: 291
Period size: 87 Copynumber: 2.5 Consensus size: 89
57664817 GTGCTTTCAT
* * * * * *
57664827 ATGATGCCATAGCATTTTTCAGCTATGATTTTACTCATTTCTACCATGATGCCATAGCATCTTTC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTCTACCAGGATGCCATAGCA-CATTC
* *
57664892 AACTATGTTATTACTCATTTTTACC
65 AAATATGGTATTACTCATTTTTACC
* *
57664917 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTTACCAGGATGTCATA-C-CATTCA
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTCTACCAGGATGCCATAGCACATTCA
* *
57664980 AATATGGTCTTACTTATTTTTACC
66 AATATGGTATTACTCATTTTTACC
* *
57665004 ATGATGTCATAACATCTTTCAGCTATGGTCGTACTCATTTCTA
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTCTA
57665047 GGTGTATAGC
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
87 65 0.57
89 1 0.01
90 49 0.43
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (89 bp):
ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTCTACCAGGATGCCATAGCACATTCA
AATATGGTATTACTCATTTTTACC
Found at i:57666469 original size:19 final size:21
Alignment explanation
Indices: 57666445--57666484 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
57666435 GAGAGAATTA
57666445 GAATTG-AAAGAAT-AAGTTT
1 GAATTGAAAAGAATGAAGTTT
57666464 GAATTGAAAAGAATGAAGTTT
1 GAATTGAAAAGAATGAAGTTT
57666485 AGAGAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 7 0.37
21 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (21 bp):
GAATTGAAAAGAATGAAGTTT
Found at i:57668084 original size:15 final size:17
Alignment explanation
Indices: 57668066--57668097 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57668056 TTTTCTTTGA
57668066 AGGTTT-TT-TAAGTTT
1 AGGTTTGTTATAAGTTT
57668081 AGGTTTGTTATAAGTTT
1 AGGTTTGTTATAAGTTT
57668098 GAGTTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (17 bp):
AGGTTTGTTATAAGTTT
Found at i:57674062 original size:113 final size:113
Alignment explanation
Indices: 57673864--57674416 Score: 892
Period size: 113 Copynumber: 4.9 Consensus size: 113
57673854 CAATAAGCAA
* * *
57673864 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
57673929 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
57673977 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* *
57674042 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCATGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
57674090 TAGCGGCG-TTTTGAGAAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
*
57674154 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * **
57674203 TAGCGGCGTTTTTAAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTCGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTT-GTGAGCTT
* *
57674268 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
57674318 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGC-TT
* * *
57674383 TGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
57674417 AAAAAACCTA
Statistics
Matches: 410, Mismatches: 25, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
112 17 0.04
113 233 0.57
114 62 0.15
115 98 0.24
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:57674435 original size:73 final size:73
Alignment explanation
Indices: 57674316--57674474 Score: 228
Period size: 73 Copynumber: 2.2 Consensus size: 73
57674306 TGCTCAGGGC
* * *
57674316 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
*
57674381 TTTGGGGA
66 TTCGGGGA
* * * * *
57674389 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
57674454 TTCGGGGA
66 TTCGGGGA
*
57674462 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
57674475 AATTGATTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:57674859 original size:17 final size:17
Alignment explanation
Indices: 57674828--57674871 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
57674818 TAGGGAGTAT
57674828 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
57674843 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
57674860 TTATGGTTTAAT
1 TTATGGATTAAT
57674872 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:57675182 original size:14 final size:15
Alignment explanation
Indices: 57675152--57675189 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
57675142 CTACTACATA
57675152 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
57675167 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
57675181 TATGG-TTTA
1 TATGGATTTA
57675190 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:57675264 original size:14 final size:14
Alignment explanation
Indices: 57675219--57675267 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
57675209 GATTTAAGGT
57675219 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
57675233 TTTAGGGGTT-AGACG
1 -TTAGGGGTTAAGA-G
*
57675248 TTAGTGGTTAAGAG
1 TTAGGGGTTAAGAG
57675262 TTAGGG
1 TTAGGG
57675268 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:57675280 original size:29 final size:30
Alignment explanation
Indices: 57675209--57675280 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
57675199 CGTTGGTCGA
*
57675209 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGTTAAGAGTTTAGG
* * *
57675239 G-GTTAGACG-TTAGTGGTTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGTTAAGAGTTTAGG
57675267 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
57675281 AGTTTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 7 0.21
29 24 0.73
30 2 0.06
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGTTAAGAGTTTAGG
Found at i:57675754 original size:45 final size:45
Alignment explanation
Indices: 57675686--57675781 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
57675676 TAATGAAATA
* * *
57675686 AAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACTT
1 AAAA-ACTAAAATTTTAAATTTATCTAATTTTTATAAATATAACTT
57675732 AAAAACTAAAATTTTAAATTTATCTAATTTTTATAAATATAACTT
1 AAAAACTAAAATTTTAAATTTATCTAATTTTTATAAATATAACTT
57675777 AAAAA
1 AAAAA
57675782 AACCTATGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 43 0.91
46 4 0.09
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (45 bp):
AAAAACTAAAATTTTAAATTTATCTAATTTTTATAAATATAACTT
Found at i:57678908 original size:14 final size:14
Alignment explanation
Indices: 57678889--57678918 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
57678879 ACATAAAGCA
57678889 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
57678903 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
57678917 AC
1 AC
57678919 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:57680368 original size:16 final size:16
Alignment explanation
Indices: 57680344--57680377 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57680334 TAATACTAAT
*
57680344 TAATTTTTTATATTAA
1 TAATGTTTTATATTAA
*
57680360 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
57680376 TA
1 TA
57680378 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:57680556 original size:43 final size:43
Alignment explanation
Indices: 57680449--57680632 Score: 199
Period size: 43 Copynumber: 4.3 Consensus size: 43
57680439 ATGGTGTTTT
* ** * * * *
57680449 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTGAGCTA
* * * * *
57680493 TAGTGGCGTTTG-TGGTAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGAGCTA
* **
57680536 TAGTGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCCAAGCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
*
57680579 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
57680622 TAGCGGCGTTT
1 TAGCGGCGTTT
57680633 ATTTCTAAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
43 91 0.75
44 31 0.25
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTGAGCTA
Found at i:57680806 original size:9 final size:10
Alignment explanation
Indices: 57680788--57680829 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
57680778 TAGTGAAAAT
*
57680788 AAATATTATA
1 AAATAATATA
57680798 AAAT-ATATA
1 AAATAATATA
* *
57680807 AAATCATAAA
1 AAATAATATA
57680817 AAATAATATA
1 AAATAATATA
57680827 AAA
1 AAA
57680830 ATTACGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATAATATA
Found at i:57680950 original size:28 final size:28
Alignment explanation
Indices: 57680919--57680982 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
57680909 ATTATATAAA
* **
57680919 TAATAAAAATTGAAAAAA-AATTCAAAAT
1 TAATAAAAAAT-AAAAAAGAATGAAAAAT
57680947 TAATAAAAAATAAAAAAGAATGAAAAAT
1 TAATAAAAAATAAAAAAGAATGAAAAAT
57680975 TATATAAA
1 TA-ATAAA
57680983 TTACAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.19
28 20 0.65
29 5 0.16
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (28 bp):
TAATAAAAAATAAAAAAGAATGAAAAAT
Found at i:57681057 original size:21 final size:20
Alignment explanation
Indices: 57681028--57681096 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
57681018 ATATTTAAAA
*
57681028 TATAGAAAATTAATAAATTAT
1 TATA-AAAAATAATAAATTAT
* *
57681049 TATAAAAAAGATAA-AACTAAT
1 TAT-AAAAA-ATAATAAATTAT
* *
57681070 TA-AAAATATAATAAAATAT
1 TATAAAAAATAATAAATTAT
57681089 TATAAAAA
1 TATAAAAA
57681097 CAAATTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
18 4 0.11
19 10 0.28
20 4 0.11
21 14 0.39
22 4 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (20 bp):
TATAAAAAATAATAAATTAT
Found at i:57681344 original size:19 final size:17
Alignment explanation
Indices: 57681292--57681354 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
57681282 CCAATTCTTT
57681292 TATAA-TTTTATAATTTA
1 TATAATTTTTAT-ATTTA
*
57681309 TATAATTTTTGTCATTTA
1 TATAATTTTTAT-ATTTA
*
57681327 TAATAATTTTCTATATTTT
1 T-ATAATTTT-TATATTTA
57681346 TAT-ATTTTT
1 TATAATTTTT
57681355 GCACTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.03
17 10 0.26
18 13 0.33
19 13 0.33
20 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTATATTTA
Found at i:57694205 original size:13 final size:14
Alignment explanation
Indices: 57694177--57694208 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
57694167 AGTCAAAGAA
57694177 GACAAAAAACACTT
1 GACAAAAAACACTT
57694191 GACAAAAAACA-TT
1 GACAAAAAACACTT
57694204 GACAA
1 GACAA
57694209 GTGTTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.59, C:0.19, G:0.09, T:0.12
Consensus pattern (14 bp):
GACAAAAAACACTT
Found at i:57695153 original size:19 final size:19
Alignment explanation
Indices: 57695103--57695163 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
57695093 TTATTTCTTT
*
57695103 ATAAAC-AAGTATATAAAA
1 ATAAACAAAGTAAATAAAA
* * *
57695121 ATAAAAAAATTAAATTAAA
1 ATAAACAAAGTAAATAAAA
*
57695140 TTAAACAAAGTAAA-AAGAA
1 ATAAACAAAGTAAATAA-AA
57695159 ATAAA
1 ATAAA
57695164 ATAAAATCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (19 bp):
ATAAACAAAGTAAATAAAA
Found at i:57695163 original size:29 final size:28
Alignment explanation
Indices: 57695122--57695177 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
57695112 TATATAAAAA
* * *
57695122 TAAAAAAATTAAATTAAATTAAACAAAG
1 TAAAAAAAATAAAATAAAATAAACAAAG
*
57695150 TAAAAAGAAATAAAATAAAATCAACAAA
1 TAAAAA-AAATAAAATAAAATAAACAAA
57695178 AATGACCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (28 bp):
TAAAAAAAATAAAATAAAATAAACAAAG
Found at i:57695660 original size:28 final size:28
Alignment explanation
Indices: 57695629--57695684 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
57695619 AAAACTTATG
* *
57695629 ATTATTTATAAAAATAATTCATTTTAAA
1 ATTATGTACAAAAATAATTCATTTTAAA
*
57695657 ATTATGTACATAAATAATTCATTTTAAA
1 ATTATGTACAAAAATAATTCATTTTAAA
57695685 TAGTAAATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTATGTACAAAAATAATTCATTTTAAA
Found at i:57702664 original size:41 final size:43
Alignment explanation
Indices: 57702597--57702710 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
57702587 TAACACATTT
* * * *
57702597 CGATGCCACTGTCCCAGATAGGGTCTTATACG-ACTCAT-A-TA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTACTC-TCACTA
* * *
57702638 CGATGCCAATGTCCCAGACATAGTCTTACACGTTCTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTACTCTCACTA
*
57702681 CGATGCCAAAGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
57702711 TGAAATCACA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 28 0.46
42 4 0.07
43 29 0.48
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTACTCTCACTA
Found at i:57715756 original size:24 final size:24
Alignment explanation
Indices: 57715729--57715774 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
57715719 CAAACAATCC
57715729 TGAACTAGTAGAGCCAAATGTTGT
1 TGAACTAGTAGAGCCAAATGTTGT
*
57715753 TGAACTAGTGGAGCCAAATGTT
1 TGAACTAGTAGAGCCAAATGTT
57715775 AATCTTGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (24 bp):
TGAACTAGTAGAGCCAAATGTTGT
Found at i:57718103 original size:20 final size:20
Alignment explanation
Indices: 57718075--57718123 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
57718065 TACATATTAT
*
57718075 CACTATTCATGATTTGACTC
1 CACTATTCATGACTTGACTC
*
57718095 CACTGTTCATGACTTGAC-C
1 CACTATTCATGACTTGACTC
*
57718114 CTCTATTCAT
1 CACTATTCAT
57718124 AGGACTGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (20 bp):
CACTATTCATGACTTGACTC
Found at i:57718431 original size:56 final size:56
Alignment explanation
Indices: 57718361--57718470 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
57718351 GGTGACCCAT
57718361 ATCTTATATAGGTTTCGAGTT-GGTGACT-ATTAGTGTATAACAAAGTTGTTAAATAG
1 ATCTTATATAGGTTTCGA-TTCGGTGACTGA-TAGTGTATAACAAAGTTGTTAAATAG
*
57718417 ATCTTATATGGGTTTCGATTCGGTGACTGATAGTGTATAACAAAGTTGTTAAAT
1 ATCTTATATAGGTTTCGATTCGGTGACTGATAGTGTATAACAAAGTTGTTAAAT
57718471 GAAAGAAGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
55 2 0.04
56 48 0.94
57 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (56 bp):
ATCTTATATAGGTTTCGATTCGGTGACTGATAGTGTATAACAAAGTTGTTAAATAG
Found at i:57718585 original size:17 final size:17
Alignment explanation
Indices: 57718549--57718585 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
57718539 GTTAACTAGT
*
57718549 AAAGGAAAAAATGAAAA
1 AAAGGAAAAAATAAAAA
57718566 AAAGGAAAAAATAAAAA
1 AAAGGAAAAAATAAAAA
57718583 AAA
1 AAA
57718586 ATTATGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAGGAAAAAATAAAAA
Found at i:57721580 original size:20 final size:20
Alignment explanation
Indices: 57721555--57721594 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
57721545 CCAAAGATTA
57721555 GAATGAATATAATCCAATGT
1 GAATGAATATAATCCAATGT
*
57721575 GAATGAATATAGTCCAATGT
1 GAATGAATATAATCCAATGT
57721595 TCCCTTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (20 bp):
GAATGAATATAATCCAATGT
Found at i:57725717 original size:15 final size:15
Alignment explanation
Indices: 57725699--57725729 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57725689 ATAGGTAAAT
*
57725699 AAGAAATAAAAATAA
1 AAGAAAGAAAAATAA
57725714 AAGAAAGAAAAATAA
1 AAGAAAGAAAAATAA
57725729 A
1 A
57725730 CTATCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAGAAAGAAAAATAA
Found at i:57726781 original size:66 final size:66
Alignment explanation
Indices: 57726701--57726832 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
57726691 TAAAGGAAAG
* *
57726701 GAAAAGGAAATGTTACGACTATATGTTTAGCACACTTTGTGTGAGCTTCCCCGCATATCTGATGT
1 GAAAAGCAAATGTTACGACTATATGTTTAGCACACTTTATGTGAGCTTCCCCGCATATCTGATGT
57726766 T
66 T
* * *
57726767 GAAAAGCAAATGTTACGACTCTATGTTTAGTACACTTTATGTGAGCTTCCCCGCGTATCTGATGT
1 GAAAAGCAAATGTTACGACTATATGTTTAGCACACTTTATGTGAGCTTCCCCGCATATCTGATGT
57726832 T
66 T
57726833 ATTCTGAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (66 bp):
GAAAAGCAAATGTTACGACTATATGTTTAGCACACTTTATGTGAGCTTCCCCGCATATCTGATGT
T
Found at i:57743701 original size:17 final size:17
Alignment explanation
Indices: 57743662--57743695 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57743652 GAATTGAGTT
*
57743662 GAAAATTTATTTAATTA
1 GAAAATTAATTTAATTA
57743679 GAAAATTAATTTAATTA
1 GAAAATTAATTTAATTA
57743696 ATAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
GAAAATTAATTTAATTA
Found at i:57746257 original size:18 final size:18
Alignment explanation
Indices: 57746236--57746279 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
57746226 TATGATTATC
57746236 TTAATTTTTATATAAAAA
1 TTAATTTTTATATAAAAA
* * *
57746254 TTAATTGTTATTTTAAAA
1 TTAATTTTTATATAAAAA
*
57746272 CTAATTTT
1 TTAATTTT
57746280 GAACTTTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTAATTTTTATATAAAAA
Found at i:57747486 original size:45 final size:45
Alignment explanation
Indices: 57747418--57747505 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
57747408 ACTTCACCAA
**
57747418 AGTATAAATAATTAGCAACAAATAATTTATAATTTAGTTAAATTT
1 AGTATAAATAATTAGCAACAAATAATAGATAATTTAGTTAAATTT
* * * *
57747463 AGTATAAATAATTTA-TAATAAATACTAGATAATTTATTTAAAT
1 AGTATAAATAA-TTAGCAACAAATAATAGATAATTTAGTTAAAT
57747506 ATTTATAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 33 0.92
46 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (45 bp):
AGTATAAATAATTAGCAACAAATAATAGATAATTTAGTTAAATTT
Found at i:57748701 original size:22 final size:22
Alignment explanation
Indices: 57748672--57748716 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57748662 CTTGCTACCC
*
57748672 TTTCCTCCAATTTCTCC-ATTT
1 TTTCCTCCAATTTCACCTATTT
*
57748693 TTTCTCTCCATTTTCACCTATTT
1 TTTC-CTCCAATTTCACCTATTT
57748716 T
1 T
57748717 CTCCCTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTCCTCCAATTTCACCTATTT
Found at i:57750235 original size:50 final size:50
Alignment explanation
Indices: 57750052--57750231 Score: 216
Period size: 50 Copynumber: 3.6 Consensus size: 50
57750042 TAAATGGCAA
* *
57750052 TATATATGCATATCAATGGTGGCTTGTCCACAAAATGTTATCAGTGGTAG
1 TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
* * * * *
57750102 TATATCTGCATATCAGTGGTGGCTTGGCCACAAAGTATTATTAGTGATAG
1 TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
* * * * *
57750152 TATATCTGCATATTAGTGGTGGCTTGTCCATAAAGTGTTATCAATGGCAG
1 TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
* * * *
57750202 TTTATCTACAAATCAATGGTGACTTGTCCA
1 TATATCTGCATATCAATGGTGGCTTGTCCA
57750232 TAAATGATGT
Statistics
Matches: 109, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 109 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (50 bp):
TATATCTGCATATCAATGGTGGCTTGTCCACAAAGTGTTATCAGTGGTAG
Found at i:57751586 original size:24 final size:24
Alignment explanation
Indices: 57751559--57751605 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
57751549 TGTGTGACCC
57751559 ACACAAACTGCCACATGGCCTACT
1 ACACAAACTGCCACATGGCCTACT
***
57751583 ACACGGTCTGCCACATGGCCTAC
1 ACACAAACTGCCACATGGCCTAC
57751606 CACATGACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (24 bp):
ACACAAACTGCCACATGGCCTACT
Found at i:57751610 original size:12 final size:12
Alignment explanation
Indices: 57751569--57751611 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
57751559 ACACAAACTG
57751569 CCACATGGCCTA
1 CCACATGGCCTA
* * * *
57751581 CTACACGGTCTG
1 CCACATGGCCTA
57751593 CCACATGGCCTA
1 CCACATGGCCTA
57751605 CCACATG
1 CCACATG
57751612 ACCATGTGAC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.40, G:0.19, T:0.19
Consensus pattern (12 bp):
CCACATGGCCTA
Found at i:57753955 original size:6 final size:6
Alignment explanation
Indices: 57753946--57753979 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
57753936 TTAAATTTTG
*
57753946 TTTTGT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
57753980 CCTTTATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:57761000 original size:20 final size:20
Alignment explanation
Indices: 57760959--57761001 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
57760949 ATCCTAGTAT
* *
57760959 ATATTTTTTATATTATTAAA
1 ATATTTTTAAAATTATTAAA
57760979 ATATTTTTAAAATT-TTACAA
1 ATATTTTTAAAATTATTA-AA
57760999 ATA
1 ATA
57761002 CAAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTTAAAATTATTAAA
Found at i:57763126 original size:16 final size:17
Alignment explanation
Indices: 57763093--57763127 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
57763083 ATAAAATTAC
*
57763093 TAAATAATTAATACAAA
1 TAAATAATTAACACAAA
57763110 TAAATAA-TAACACAAA
1 TAAATAATTAACACAAA
57763126 TA
1 TA
57763128 TTCATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAATTAACACAAA
Found at i:57764954 original size:42 final size:42
Alignment explanation
Indices: 57764895--57764988 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
57764885 AACAGTGTAT
* *
57764895 GAAGGTGTTCTGTTGATGGAAAATAATGCTTCATGTAAAATC
1 GAAGGTGTTGTGTTGATGGAAAATAATGCTTCATGCAAAATC
*
57764937 GAAGGTGTTGTTTTGATGGAAAATAATGCTTCATGCAAAATC
1 GAAGGTGTTGTGTTGATGGAAAATAATGCTTCATGCAAAATC
*
57764979 GCAGGTGTTG
1 GAAGGTGTTG
57764989 GAACGATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (42 bp):
GAAGGTGTTGTGTTGATGGAAAATAATGCTTCATGCAAAATC
Found at i:57768032 original size:29 final size:29
Alignment explanation
Indices: 57767972--57768032 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
57767962 GAAGAGGTGG
* * *
57767972 AGAACTTGTTTGTTAAGTGTTCATGATGA
1 AGAACTTGTTTGTTAAGTATTCAGGATCA
*
57768001 AGAACTTGTTTGTTGAAGTATTC-GGGTCA
1 AGAACTTGTTTGTT-AAGTATTCAGGATCA
57768030 AGA
1 AGA
57768033 TGGAGATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (29 bp):
AGAACTTGTTTGTTAAGTATTCAGGATCA
Found at i:57768929 original size:43 final size:43
Alignment explanation
Indices: 57768811--57768932 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
57768801 TGAAAAAATG
* * * * * *
57768811 CCGCTAAAGACTATGACCTTTAGCGGCGCGTATGTCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCAGCACTTTTGTCACAAACA
* *
57768854 CCGCTAAAGACCATGAGCTTTAGCAGCCCTTTTGTCACAAACA
1 CCGCTAAAGACCATGACCTTTAGCAGCACTTTTGTCACAAACA
*
57768897 CCGCTAAAGACCATGACCTTTAGCTGCACTTTTGTC
1 CCGCTAAAGACCATGACCTTTAGCAGCACTTTTGTC
57768933 GGATAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCAGCACTTTTGTCACAAACA
Found at i:57771054 original size:15 final size:15
Alignment explanation
Indices: 57771034--57771063 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57771024 AGCGATGATT
*
57771034 CTATATACTAATTTA
1 CTATATAATAATTTA
57771049 CTATATAATAATTTA
1 CTATATAATAATTTA
57771064 AACCTATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
CTATATAATAATTTA
Found at i:57772700 original size:150 final size:151
Alignment explanation
Indices: 57772467--57772760 Score: 518
Period size: 150 Copynumber: 2.0 Consensus size: 151
57772457 GCCGCTATTG
* * *
57772467 TTTATGAAAAACGCCGCAAAAAAATTTTTCATTTTGAATAAAATTACGTCGTTTTGCTATGTTAT
1 TTTATGAAAAACGCCGCAAAAAAATTTTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTAT
* *
57772532 GCTATAAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCACTA
66 GCTAAAAGGGGGCAATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCACTA
57772597 TTGCTTACATTTAGCAGTGTT
131 TTGCTTACATTTAGCAGTGTT
57772618 TTTATGAAAAACGCCGCAAAAAAA-TTTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTAT
1 TTTATGAAAAACGCCGCAAAAAAATTTTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTAT
*
57772682 GCTAAAAGGGGGCAATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCGCTA
66 GCTAAAAGGGGGCAATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCACTA
*
57772747 TTGCTTACCTTTAG
131 TTGCTTACATTTAG
57772761 AAACGCCACA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
150 112 0.82
151 24 0.18
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (151 bp):
TTTATGAAAAACGCCGCAAAAAAATTTTTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTAT
GCTAAAAGGGGGCAATTTTTTTAAAGTAAAATTATTTTGTGGCGTTTTTTATAAAAACGCCACTA
TTGCTTACATTTAGCAGTGTT
Found at i:57772909 original size:105 final size:103
Alignment explanation
Indices: 57772777--57773084 Score: 380
Period size: 103 Copynumber: 3.0 Consensus size: 103
57772767 CACAAAAAAA
* * *
57772777 TTCATTTTGAACAAAACT-ACGCTGTTTTGTTATTCTAAAAAAATTTTATTTTGTTTTTTATAAA
1 TTCATTTTGAACAAAA-TGACGCCGTTTTGCTATGCT--AAAAATTTT-TTTTGTTTTTTATAAA
57772841 TTGAATTATTTTTGCGGCGTTTTTT-ATAAAAACGCCGCAAT
62 TTGAATTATTTTTGCGGCGTTTTTTAATAAAAACGCCGCAAT
* *
57772882 TTCATTTTGAACAAAATGACACCGTTTTGCTATGCT--AAATTTTTTTTATTTTTTACTAAATTG
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTTTGTTTTTTA-TAAATTG
* * **
57772945 ATTTATTTTTTGCGGCGTTTTTTAAAAAAAACGCCGTTAT
65 AATTA-TTTTTGCGGCGTTTTTTAATAAAAACGCCGCAAT
*
57772985 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCCAAAAATTTTTTTTTGATTTTTT-TAAAAT
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAA-TTTTTTTTG-TTTTTTAT-AAAT
57773049 TG-ATT-TTTTTGCGG-GTTTTTTTAATAAAAACGCCGC
63 TGAATTATTTTTGCGGCG-TTTTTTAATAAAAACGCCGC
57773085 TATTGCTTAT
Statistics
Matches: 178, Mismatches: 15, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
100 11 0.06
101 18 0.10
102 18 0.10
103 74 0.42
104 1 0.01
105 36 0.20
106 14 0.08
107 6 0.03
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (103 bp):
TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTTTGTTTTTTATAAATTGA
ATTATTTTTGCGGCGTTTTTTAATAAAAACGCCGCAAT
Found at i:57773776 original size:14 final size:14
Alignment explanation
Indices: 57773742--57773812 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
57773732 ACCCCTGAAT
* *
57773742 CCCTAAACCTTAAAT
1 CCCTAACCCTT-AAC
*
57773757 CCCTAACTCTTAAC
1 CCCTAACCCTTAAC
*
57773771 CCCTAA-CATCTAAC
1 CCCTAACCCT-TAAC
*
57773785 CCCTAAACCCCTAAC
1 CCCT-AACCCTTAAC
57773800 CCCTAACCCTTAA
1 CCCTAACCCTTAA
57773813 ATCCAAACAC
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
13 1 0.02
14 24 0.53
15 19 0.42
16 1 0.02
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:57773777 original size:7 final size:7
Alignment explanation
Indices: 57773757--57773808 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
57773747 AACCTTAAAT
57773757 CCCTAAC
1 CCCTAAC
* *
57773764 TCTTAAC
1 CCCTAAC
57773771 CCCTAAC
1 CCCTAAC
**
57773778 ATCTAAC
1 CCCTAAC
57773785 CCCTAAAC
1 CCCT-AAC
57773793 CCCTAAC
1 CCCTAAC
57773800 CCCTAAC
1 CCCTAAC
57773807 CC
1 CC
57773809 TTAAATCCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:57773794 original size:22 final size:22
Alignment explanation
Indices: 57773768--57773813 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
57773758 CCTAACTCTT
*
57773768 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACACCTAACCCCTA
* *
57773790 AACCCCTAACCCCTAACCCTTA
1 AACCCCTAACACCTAACCCCTA
57773812 AA
1 AA
57773814 TCCAAACACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAACACCTAACCCCTA
Found at i:57773800 original size:15 final size:15
Alignment explanation
Indices: 57773767--57773805 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57773757 CCCTAACTCT
*
57773767 TAACCCCT-AACATC
1 TAACCCCTAAACACC
*
57773781 TAACCCCTAAACCCC
1 TAACCCCTAAACACC
57773796 TAACCCCTAA
1 TAACCCCTAA
57773806 CCCTTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (15 bp):
TAACCCCTAAACACC
Found at i:57774090 original size:15 final size:15
Alignment explanation
Indices: 57774056--57774125 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
57774046 CCCTAACTTT
* *
57774056 TAACCCCTAGCACGTC
1 TAACCCCTA-AACCTC
57774072 TAACCCCTAAACCTC
1 TAACCCCTAAACCTC
*
57774087 TAACCCTCT-AACCCC
1 TAACCC-CTAAACCTC
*
57774102 TAACCCTTAAATCC-C
1 TAACCCCTAAA-CCTC
57774117 -AACCCCTAA
1 TAACCCCTAA
57774126 TCCATAATCC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 9 0.20
15 24 0.52
16 13 0.28
ACGTcount: A:0.31, C:0.46, G:0.03, T:0.20
Consensus pattern (15 bp):
TAACCCCTAAACCTC
Found at i:57774098 original size:8 final size:8
Alignment explanation
Indices: 57774070--57774108 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
57774060 CCCTAGCACG
57774070 TCTAACCC
1 TCTAACCC
*
57774078 -CTAAACC
1 TCTAACCC
57774085 TCTAACCC
1 TCTAACCC
57774093 TCTAACCC
1 TCTAACCC
57774101 -CTAACCC
1 TCTAACCC
57774108 T
1 T
57774109 TAAATCCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.28, C:0.49, G:0.00, T:0.23
Consensus pattern (8 bp):
TCTAACCC
Found at i:57774107 original size:7 final size:7
Alignment explanation
Indices: 57774071--57774139 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
57774061 CCTAGCACGT
57774071 CTAACCC
1 CTAACCC
*
57774078 CTAAACCT
1 CT-AACCC
57774086 CTAACCC
1 CTAACCC
57774093 TCTAACCC
1 -CTAACCC
57774101 CTAACCC
1 CTAACCC
* *
57774108 TTAAATCC
1 CT-AACCC
57774116 C-AACCC
1 CTAACCC
*
57774122 CTAATCC
1 CTAACCC
* *
57774129 ATAATCC
1 CTAACCC
57774136 CTAA
1 CTAA
57774140 ACCCATACTC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
6 5 0.10
7 27 0.55
8 17 0.35
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAACCC
Found at i:57774519 original size:115 final size:114
Alignment explanation
Indices: 57774308--57774731 Score: 688
Period size: 114 Copynumber: 3.7 Consensus size: 114
57774298 TATTTTTTTG
* *
57774308 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTA-TTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
*
57774372 TTAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
* *
57774421 ACCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTTGCGGCGATTT
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGG-TTTTTTTGCGGCGCTTT
*
57774486 CTCAAAAACGCCGTTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
65 CTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
* * *
57774536 GCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
** * * * *
57774601 TCAAAAACGCTTCTAAAGCCCTGACCATTAGCAGTGCTTTCTTAAAAAC
66 TCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
*
57774650 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCTGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
57774715 TCAAAAACGCCGCTAAA
66 TCAAAAACGCCGCTAAA
57774732 TCCTCAAAAG
Statistics
Matches: 285, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
113 43 0.15
114 135 0.47
115 107 0.38
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (114 bp):
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
TCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAAC
Found at i:57774723 original size:73 final size:73
Alignment explanation
Indices: 57774636--57774775 Score: 226
Period size: 73 Copynumber: 1.9 Consensus size: 73
57774626 CATTAGCAGT
* * *
57774636 GCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTT
1 GCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTTT
57774701 TTTGCTGC
66 TTTGCTGC
* * *
57774709 GCTTTCTCAAAAACGCCGCTAAATCCTCAAAAGCTTAGAAAACGGCATCGTTGGGCTTAGGTTTT
1 GCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTTT
57774774 TT
66 TT
57774776 GTGACGCTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (73 bp):
GCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTTT
TTTGCTGC
Found at i:57775760 original size:16 final size:16
Alignment explanation
Indices: 57775739--57775769 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57775729 ATATATACTC
57775739 TGTTTAAGCTATTGAA
1 TGTTTAAGCTATTGAA
*
57775755 TGTTTAAGTTATTGA
1 TGTTTAAGCTATTGA
57775770 TTGGGTTGGT
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:0.29, C:0.03, G:0.19, T:0.48
Consensus pattern (16 bp):
TGTTTAAGCTATTGAA
Found at i:57780258 original size:21 final size:22
Alignment explanation
Indices: 57780228--57780270 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
57780218 AGAATAAGAG
* *
57780228 TTTATGTTTTTA-AAATTTTAT
1 TTTATATTTTTATAAATATTAT
57780249 TTTATATTTTTATAAATATTAT
1 TTTATATTTTTATAAATATTAT
57780271 AAATGAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATATTTTTATAAATATTAT
Found at i:57786008 original size:34 final size:34
Alignment explanation
Indices: 57785963--57786030 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
57785953 AATTTTGTCA
57785963 AAATATCTGTCTCTTGATGTTTAGTTGAAACTCT
1 AAATATCTGTCTCTTGATGTTTAGTTGAAACTCT
*
57785997 AAATATTTGTCTCTTGATGTTTAGTTGAAACTCT
1 AAATATCTGTCTCTTGATGTTTAGTTGAAACTCT
57786031 GAACATTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (34 bp):
AAATATCTGTCTCTTGATGTTTAGTTGAAACTCT
Found at i:57788405 original size:50 final size:50
Alignment explanation
Indices: 57788350--57788452 Score: 113
Period size: 51 Copynumber: 2.0 Consensus size: 50
57788340 AAAATATATA
* * *
57788350 TTGAATTATTT-ATATTTTATCTAA-TTATATATCAT-TTTTGAGTTTTTATT
1 TTGAA-TATTTCATATTTT-TCTAATTTATACAT-ATCTTTTAACTTTTTATT
*
57788400 TTGAATATTTCGATATTTTTTTAATTTATACATATCTTTTAACTTTTTATT
1 TTGAATATTTC-ATATTTTTCTAATTTATACATATCTTTTAACTTTTTATT
57788451 TT
1 TT
57788453 TTAAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
49 5 0.11
50 11 0.24
51 29 0.64
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (50 bp):
TTGAATATTTCATATTTTTCTAATTTATACATATCTTTTAACTTTTTATT
Found at i:57790517 original size:50 final size:51
Alignment explanation
Indices: 57790454--57790578 Score: 147
Period size: 50 Copynumber: 2.5 Consensus size: 51
57790444 AAAATTATTG
* *
57790454 TTAAATATAATTTATTAAAAA-A-ATAATTTAATCATATT-TTAACATAATTA
1 TTAAATATAATTTA--AAAAATACATAATTTAATAACATTCTTAACATAATTA
*
57790504 TTAAATATAATTTAAAAAATACATAATTTAATAACATTCTTAATATAATTA
1 TTAAATATAATTTAAAAAATACATAATTTAATAACATTCTTAACATAATTA
57790555 TT--ATATGAA-TTAAAAAAT-CATAAT
1 TTAAATAT-AATTTAAAAAATACATAAT
57790579 ATATAATACT
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
48 11 0.16
49 14 0.21
50 30 0.44
51 13 0.19
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (51 bp):
TTAAATATAATTTAAAAAATACATAATTTAATAACATTCTTAACATAATTA
Found at i:57795122 original size:28 final size:28
Alignment explanation
Indices: 57795088--57795142 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
57795078 GATTGAAATG
57795088 GATTGAATTGGTATGTACATTATGAATT
1 GATTGAATTGGTATGTACATTATGAATT
57795116 GATTGAATTGGTATGTACATTATGAAT
1 GATTGAATTGGTATGTACATTATGAAT
57795143 GTATTGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.42
Consensus pattern (28 bp):
GATTGAATTGGTATGTACATTATGAATT
Found at i:57795148 original size:28 final size:28
Alignment explanation
Indices: 57795084--57795149 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
57795074 AGTTGATTGA
*
57795084 AATGGATTGAATTGGTATGTACATTATG
1 AATGTATTGAATTGGTATGTACATTATG
57795112 AAT-TGATTGAATTGGTATGTACATTATG
1 AATGT-ATTGAATTGGTATGTACATTATG
57795140 AATGTATTGA
1 AATGTATTGA
57795150 TTATTTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (28 bp):
AATGTATTGAATTGGTATGTACATTATG
Found at i:57799410 original size:17 final size:18
Alignment explanation
Indices: 57799388--57799424 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
57799378 GTACATTAAT
57799388 AGAAAAAAAAAG-AAGAA
1 AGAAAAAAAAAGAAAGAA
*
57799405 AGAAAAATAAAGAAAGAA
1 AGAAAAAAAAAGAAAGAA
57799423 AG
1 AG
57799425 GAAAGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AGAAAAAAAAAGAAAGAA
Found at i:57802993 original size:24 final size:24
Alignment explanation
Indices: 57802966--57803067 Score: 75
Period size: 24 Copynumber: 4.2 Consensus size: 24
57802956 CTATATAACG
57802966 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
** *
57802990 GGAAGCTCATGTGAGCCAATAA-CG
1 GGAAGCTCATAAGAGCC-ATAATCA
* * *
57803014 GGTAGCTCAGAAGAGCCATTAAT-G
1 GGAAGCTCATAAGAGCCA-TAATCA
* *
57803038 GGAAGCTACA-GATAGCCATATATCA
1 GGAAGCT-CATAAGAGCCATA-ATCA
57803063 GGAAG
1 GGAAG
57803068 TTCAAGTTAG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
23 3 0.05
24 47 0.77
25 11 0.18
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:57804655 original size:30 final size:30
Alignment explanation
Indices: 57804621--57804677 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
57804611 GGCGTGAGTC
57804621 ACACACGGGCAACACACATGGGCATGTATA
1 ACACACGGGCAACACACATGGGCATGTATA
*
57804651 ACACACGGGCAACATACATGGGCATGT
1 ACACACGGGCAACACACATGGGCATGT
57804678 GACCCAAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.25, T:0.14
Consensus pattern (30 bp):
ACACACGGGCAACACACATGGGCATGTATA
Found at i:57804758 original size:30 final size:30
Alignment explanation
Indices: 57804724--57804781 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57804714 GGCGTGAGTT
57804724 ACACACGGGCAACACAGATGGGCATGTGTC
1 ACACACGGGCAACACAGATGGGCATGTGTC
* * *
57804754 ACACACGTGCAACACATATGGGCGTGTG
1 ACACACGGGCAACACAGATGGGCATGTG
57804782 ACCCAAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (30 bp):
ACACACGGGCAACACAGATGGGCATGTGTC
Found at i:57804783 original size:103 final size:103
Alignment explanation
Indices: 57804603--57804822 Score: 323
Period size: 103 Copynumber: 2.1 Consensus size: 103
57804593 ACACAGCCTG
*
57804603 GCCACACGGGCGTGAGTCACACACGGGCAACACACATGGGCATGTATAACACACGGGCAACATAC
1 GCCACACGGGCGTGAGTCACACACGGGCAACACACATGGGCATGTATAACACACGGGCAACACAC
* * *
57804668 ATGGGCATGTGACCCAAGTCAGAGAGTTACACGGCCTA
66 ATGGGCATGTGACCCAAGTCAGAAAGCTACACGACCTA
* * * * * * *
57804706 TCCACACGGGCGTGAGTTACACACGGGCAACACAGATGGGCATGTGTCACACACGTGCAACACAT
1 GCCACACGGGCGTGAGTCACACACGGGCAACACACATGGGCATGTATAACACACGGGCAACACAC
*
57804771 ATGGGCGTGTGACCCAAGTCAGAAAGCTACACGACCTA
66 ATGGGCATGTGACCCAAGTCAGAAAGCTACACGACCTA
*
57804809 GCCACACAGGCGTG
1 GCCACACGGGCGTG
57804823 TGTCTCGGCC
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.30, C:0.29, G:0.27, T:0.14
Consensus pattern (103 bp):
GCCACACGGGCGTGAGTCACACACGGGCAACACACATGGGCATGTATAACACACGGGCAACACAC
ATGGGCATGTGACCCAAGTCAGAAAGCTACACGACCTA
Found at i:57806501 original size:29 final size:29
Alignment explanation
Indices: 57806444--57806500 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
57806434 TAGTATAATA
* *
57806444 TGCAATTCTATACATGGACTTTGATTTTG
1 TGCAATTCTATACATGAAATTTGATTTTG
*
57806473 TGCAATTTTATACATGAAAATTTGATTT
1 TGCAATTCTATACATG-AAATTTGATTT
57806501 GATCCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (29 bp):
TGCAATTCTATACATGAAATTTGATTTTG
Found at i:57816749 original size:34 final size:34
Alignment explanation
Indices: 57816614--57816751 Score: 103
Period size: 34 Copynumber: 4.2 Consensus size: 34
57816604 TTCTCGCTCG
*
57816614 TTTCTTTTATTTTCTTCATGGATTATCTCTGTTA
1 TTTCTTTTATTTTCTTCATGGATTATCTCTGTAA
* **
57816648 TTGT-TGTTATTTTCTTCATGGATTATCTC-GTTCG
1 TT-TCTTTTATTTTCTTCATGGATTATCTCTG-TAA
* * ** ** *
57816682 GTTCTTCTA-TCACTTC-T-TCTTAT-T-T-TAT
1 TTTCTTTTATTTTCTTCATGGATTATCTCTGTAA
57816710 TTTCTTTTATTTTCTTCATGGATTATCTCTGTAA
1 TTTCTTTTATTTTCTTCATGGATTATCTCTGTAA
57816744 TTTCTTTT
1 TTTCTTTT
57816752 CCCTTCCATC
Statistics
Matches: 75, Mismatches: 19, Indels: 20
0.66 0.17 0.18
Matches are distributed among these distances:
28 8 0.11
29 5 0.07
30 2 0.03
31 8 0.11
32 2 0.03
33 8 0.11
34 41 0.55
35 1 0.01
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (34 bp):
TTTCTTTTATTTTCTTCATGGATTATCTCTGTAA
Found at i:57822825 original size:35 final size:36
Alignment explanation
Indices: 57822777--57822853 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
57822767 ATTTGTTAGA
*
57822777 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
*
57822813 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
57822848 TATTGA
1 TATTGA
57822854 CAATGACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
Found at i:57823865 original size:43 final size:43
Alignment explanation
Indices: 57823809--57823908 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 43
57823799 GTGGTGTAAT
* * *
57823809 ATTATGCACTTGGACAATGTTGTTACTATGTGGTGTATTACTA
1 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
*
57823852 ATTATGTATTTGGACAATGTTGTTACTGTGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
57823895 ATTATGTATTTGGA
1 ATTATGTATTTGGA
57823909 TAATATTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (43 bp):
ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
Found at i:57824265 original size:20 final size:20
Alignment explanation
Indices: 57824237--57824274 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57824227 TATTTTTCAG
*
57824237 TAAATCATTTTACAGAAAAT
1 TAAAACATTTTACAGAAAAT
*
57824257 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
57824275 TCATTTTCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAT
Found at i:57824281 original size:14 final size:14
Alignment explanation
Indices: 57824258--57824295 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
57824248 ACAGAAAATT
57824258 AAAACATTTTCCAG
1 AAAACATTTTCCAG
* *
57824272 AAATCATTTTCCGG
1 AAAACATTTTCCAG
57824286 AAAACATTTT
1 AAAACATTTT
57824296 ACTGCCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (14 bp):
AAAACATTTTCCAG
Found at i:57825679 original size:40 final size:41
Alignment explanation
Indices: 57825634--57825770 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 41
57825624 GGCGTTTGGA
*
57825634 TAAAAAACACCGCTAAAAATC-AATCATTAGCGGCGC-TATC
1 TAAAAAACGCCGCTAAAAATCGAAT-ATTAGCGGCGCTTATC
* * *
57825674 TAAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTC
1 TAAAAAACGCCGCTAAAAATCGAATATTAGCGGCGCTTATC
* * *
57825715 T-AAAAACGCCACTAAAAAT-GAGA-ATTAGCGGC-TTTTTC
1 TAAAAAACGCCGCTAAAAATCGA-ATATTAGCGGCGCTTATC
* *
57825753 CAAAAAGCGCCGCTAAAA
1 TAAAAAACGCCGCTAAAA
57825771 CCTAAACCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
38 5 0.06
39 25 0.30
40 46 0.56
41 6 0.07
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (41 bp):
TAAAAAACGCCGCTAAAAATCGAATATTAGCGGCGCTTATC
Found at i:57825867 original size:41 final size:41
Alignment explanation
Indices: 57825810--57825964 Score: 292
Period size: 41 Copynumber: 3.8 Consensus size: 41
57825800 TTTTTGGGGA
* *
57825810 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTCTGTTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
57825851 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
57825892 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
57825933 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAAT
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAAT
57825965 GCTTAATTGG
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
Found at i:57826258 original size:14 final size:14
Alignment explanation
Indices: 57826241--57826290 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
57826231 AGGGTTTTTA
57826241 GTTTAAGGAGTTGG
1 GTTTAAGGAGTTGG
* *
57826255 GTTTAGGGA-TTATG
1 GTTTAAGGAGTT-GG
57826269 GTTTAAGG-GTTGG
1 GTTTAAGGAGTTGG
57826282 GATTTAAGG
1 G-TTTAAGG
57826291 TTTAGGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 4 0.14
14 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
GTTTAAGGAGTTGG
Found at i:57826272 original size:28 final size:27
Alignment explanation
Indices: 57826227--57826287 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
57826217 TATCACTATA
* *
57826227 GTTTAGGGTTTTTAGTTTAAGGAGTTGG
1 GTTTAGGGATTATAGTTTAAGG-GTTGG
*
57826255 GTTTAGGGATTATGGTTTAAGGGTTGG
1 GTTTAGGGATTATAGTTTAAGGGTTGG
57826282 GATTTA
1 G-TTTA
57826288 AGGTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (27 bp):
GTTTAGGGATTATAGTTTAAGGGTTGG
Found at i:57826294 original size:21 final size:20
Alignment explanation
Indices: 57826260--57826300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57826250 GTTGGGTTTA
*
57826260 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
57826280 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
57826301 AGGGGTTAGT
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:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:57826578 original size:15 final size:15
Alignment explanation
Indices: 57826558--57826586 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57826548 TGAGATTTAA
57826558 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
57826573 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
57826587 ATGTTAAGGT
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:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:57826584 original size:36 final size:36
Alignment explanation
Indices: 57826537--57826622 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
57826527 TAGTGATTAT
* *
57826537 GGTTTAAGGGTTGAGAT-TTAAGGTTTAGGGGTTAGG
1 GGTTTAAGGGTT-AGATGTTAAGGTTTAAGAGTTAGG
*
57826573 GGTTTAGGGGTTAGATGTTAAGGTTTAAGAGTTAGG
1 GGTTTAAGGGTTAGATGTTAAGGTTTAAGAGTTAGG
* *
57826609 GATTTAAGGTTTAG
1 GGTTTAAGGGTTAG
57826623 GGATTCAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.37
Consensus pattern (36 bp):
GGTTTAAGGGTTAGATGTTAAGGTTTAAGAGTTAGG
Found at i:57827638 original size:21 final size:20
Alignment explanation
Indices: 57827614--57827652 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57827604 TATCTCCAAA
*
57827614 TTCCCCCTGAAACCTCTAATT
1 TTCCCACTGAAACC-CTAATT
57827635 TTCCCACTGAAACCCTAA
1 TTCCCACTGAAACCCTAA
57827653 CTTTGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.28
Consensus pattern (20 bp):
TTCCCACTGAAACCCTAATT
Found at i:57831206 original size:41 final size:41
Alignment explanation
Indices: 57831022--57831214 Score: 178
Period size: 42 Copynumber: 4.6 Consensus size: 41
57831012 TAATTTTTTT
* * * *
57831022 TAAA-GTTATGTT-TTTAGCGGCGTTTTTGCAAGAAGCGTCAC
1 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTGGAA-AAGCGCCGC
* * * *
57831063 TAAAGGTTTGATCTATAGCGGCGTTTGTGATAAAAGCGCTGC
1 TAAAGGTTTGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
* * *
57831105 TAAAGGTTATAG-TCTTTAGCGGCGATTGTTGATAAGCGCCGC
1 TAAAGGTT-T-GTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
* *
57831147 TAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGAAAAGCGCCGC
1 TAAAGGT-TTGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
57831189 T-AAGGTCTTGTTCTTTAGCGGCGTTT
1 TAAAGGT-TTGTTCTTTAGCGGCGTTT
57831215 ATTTCTAAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
41 31 0.25
42 75 0.60
43 19 0.15
44 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
TAAAGGTTTGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:57832245 original size:40 final size:40
Alignment explanation
Indices: 57832170--57832291 Score: 149
Period size: 40 Copynumber: 3.0 Consensus size: 40
57832160 TTGAGTTTTT
* * * *
57832170 GGGGCTTTAGTGGCGGTTTTTCAAGAAGCGTCGCTAATGCTC
1 GGGGCTTTAGCGAC-GTTTTT-GAGAAGCGCCGCTAATGCTC
*
57832212 GGGGCTTTAGCGTC-TTTTCTG-GAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGACGTTTT-TGAG-AAGCGCCGCTAATGCTC
57832252 GGGGCTTTAGCGACGTTTTTGAGAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGACGTTTTTGAGAAGCGCCGCTAATGCTC
57832292 TATTTTTAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
39 1 0.01
40 52 0.73
41 6 0.08
42 12 0.17
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (40 bp):
GGGGCTTTAGCGACGTTTTTGAGAAGCGCCGCTAATGCTC
Found at i:57832506 original size:29 final size:29
Alignment explanation
Indices: 57832452--57832507 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
57832442 TTTGAATGAA
* *
57832452 AAAAATTTAAAATATTTTGTTAAAAATGG
1 AAAAATTTAAAATATATTATTAAAAATGG
*
57832481 AAAAA-TTAAAATACTATTATTCAAAAT
1 AAAAATTTAAAATA-TATTATTAAAAAT
57832508 ATTTTTAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAAATTTAAAATATATTATTAAAAATGG
Found at i:57836867 original size:50 final size:50
Alignment explanation
Indices: 57836809--57837384 Score: 402
Period size: 50 Copynumber: 11.5 Consensus size: 50
57836799 GCAGTGGAGC
* * * *
57836809 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACACTACAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * * ** *
57836859 AGATTAAAGCTACAGCAAG-GAATCTTACTTCCTAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAAC-GGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * *
57836909 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * ** *
57836959 AGATTAAAGCTACAGCAGTGAATCTTACCTCACAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * *
57837009 AGATTAAAGCCACAATGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * ** *
57837059 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* ** * **
57837109 AGATTAAAGCCACAATGGTGAATCTTGCCTCCTTGACATTGGGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * * ** *
57837159 AGATTAAAGCTACAGCAGCGAATCTTACTTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * *
57837209 AGATTAAAGCCACAACGGTGAA-CTTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATC-TTGCCTCCCAGACAGTGCAGTTAAAA
* * * * * * * ** *
57837259 AGATTAAAGCTACAGCAGCT-AATCTTACCTCCCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAAC-GGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* * * * *
57837309 AGATTAAAGCCACAACGATAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
* *
57837359 AGATTAAAGCCACAACAGCGAATCTT
1 AGATTAAAGCCACAACGGTGAATCTT
57837385 ACTTTCCAAA
Statistics
Matches: 377, Mismatches: 143, Indels: 12
0.71 0.27 0.02
Matches are distributed among these distances:
49 4 0.01
50 369 0.98
51 4 0.01
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCCTCCCAGACAGTGCAGTTAAAA
Found at i:57836914 original size:100 final size:100
Alignment explanation
Indices: 57836778--57837388 Score: 929
Period size: 100 Copynumber: 6.1 Consensus size: 100
57836768 GAAAATTTGA
* * * *
57836778 AATCTTACTCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCC
1 AATCTTACT-TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
* * *
57836843 GACACTACAGTTAAAAAGATTAAAGCTACAGCAAG-G
65 GACATTGCGGTTAAAAAGATTAAAGCTACAGC-AGCG
*
57836879 AATCTTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
57836944 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
* * *
57836979 AATCTTACCTCACAGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCCTCCCTG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
57837044 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
* * * *
57837079 AATCTTACCTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACAATGGTGAATCTTGCCTCCTTG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
57837144 ACATTGGGGTTAAAAAGATTAAAGCTACAGCAGCG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
57837179 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAA-CTTTGCCTCCCT
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATC-TTGCCTCCCT
*
57837243 GACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCT
65 GACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * *
57837279 AATCTTACCTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGATAAATCTTGCTTCCCCG
1 AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* * *
57837344 ACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
66 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
57837379 AATCTTACTT
1 AATCTTACTT
57837389 TCCAAAAGTT
Statistics
Matches: 473, Mismatches: 34, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
99 3 0.01
100 460 0.97
101 10 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
Found at i:57856713 original size:26 final size:26
Alignment explanation
Indices: 57856684--57856733 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
57856674 AGTAATTAGG
* *
57856684 GATAAATTGTAACAATAATAAATTGA
1 GATAAATTATAAAAATAATAAATTGA
57856710 GATAAATTATAAAAATAATAAATT
1 GATAAATTATAAAAATAATAAATT
57856734 TAGGGACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (26 bp):
GATAAATTATAAAAATAATAAATTGA
Found at i:57857334 original size:43 final size:43
Alignment explanation
Indices: 57857258--57857388 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 43
57857248 ATAGGATTTC
* * * *
57857258 TGATATGTGTTCTCATGTAAGACAACGTTTGGGATATTGGCAT
1 TGATATGTGTGCTCATGTAAGACAACGTCTGGGACAGTGGCAT
* *
57857301 TGATATGTGTGCTCGTGTAAGAC-CCTGTCTGGGACAGTGGCAT
1 TGATATGTGTGCTCATGTAAGACAAC-GTCTGGGACAGTGGCAT
* * * * *
57857344 CGATA--TGTGCTTACATGTAAGACCACATCTGAGACATTGGCAT
1 TGATATGTGTGC-T-CATGTAAGACAACGTCTGGGACAGTGGCAT
57857387 TG
1 TG
57857389 TACGATATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 5 0.07
42 2 0.03
43 63 0.89
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATATGTGTGCTCATGTAAGACAACGTCTGGGACAGTGGCAT
Found at i:57857582 original size:21 final size:21
Alignment explanation
Indices: 57857553--57857603 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
57857543 GAAATAAATC
*
57857553 TTACAGAAATAGGACGAGGCG
1 TTACCGAAATAGGACGAGGCG
57857574 TTACCGAAATAGGACGAGGCG
1 TTACCGAAATAGGACGAGGCG
57857595 TTACCGAAA
1 TTACCGAAA
57857604 ACTAGAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (21 bp):
TTACCGAAATAGGACGAGGCG
Found at i:57857621 original size:29 final size:29
Alignment explanation
Indices: 57857579--57857637 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
57857569 AGGCGTTACC
*
57857579 GAAATAGGACGAGGCGTTACCGAAAACTA
1 GAAATAGGACGAGGCGTTACCAAAAACTA
57857608 GAAATAGGACGAGGCGTTACCAAAAACTA
1 GAAATAGGACGAGGCGTTACCAAAAACTA
57857637 G
1 G
57857638 GAATCCGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.14
Consensus pattern (29 bp):
GAAATAGGACGAGGCGTTACCAAAAACTA
Found at i:57858961 original size:47 final size:47
Alignment explanation
Indices: 57858898--57859002 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
57858888 CCCTTCGGGA
* *
57858898 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
57858945 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
57858992 CTTATCACATA
1 CTTATCACATA
57859003 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:57859658 original size:20 final size:21
Alignment explanation
Indices: 57859620--57859659 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
57859610 AAATATTATC
*
57859620 TTATAATCATTTTTGTAAAAT
1 TTATAATCATTTTTCTAAAAT
*
57859641 TTATAATGA-TTTTCTAAAA
1 TTATAATCATTTTTCTAAAA
57859660 ACAGAATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATAATCATTTTTCTAAAAT
Found at i:57860189 original size:40 final size:39
Alignment explanation
Indices: 57860121--57860255 Score: 134
Period size: 39 Copynumber: 3.5 Consensus size: 39
57860111 GGCGTTTGGA
* * *
57860121 TAAAAAACACCGCTAAAATC-AATCATTAGCGGCGCTATC
1 TAAAAAACGCCGCTAAAATCGAGT-ATTAGCGGCGCTTTC
57860160 TAAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTC
1 TAAAAAACGCCGCTAAA-ATCGAGTATTAGCGGCGC-TTTC
* * *
57860201 T-AAAAACGCCACTAAAAAT-GAGAATTAGCGGC-TTTTC
1 TAAAAAACGCCGCT-AAAATCGAGTATTAGCGGCGCTTTC
* *
57860238 CAAAAAGCGCCGCTAAAA
1 TAAAAAACGCCGCTAAAA
57860256 CCTAAACCTA
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
37 8 0.10
38 10 0.12
39 28 0.34
40 27 0.33
41 9 0.11
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAATCGAGTATTAGCGGCGCTTTC
Found at i:57860384 original size:41 final size:41
Alignment explanation
Indices: 57860295--57860448 Score: 283
Period size: 41 Copynumber: 3.8 Consensus size: 41
57860285 TTTTTGGGGA
* *
57860295 TTTAGCGGCGCTTTTGAAGAAGCGCCGCT-ATGCTCTGTTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
57860335 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
57860376 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
57860417 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAAT
1 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAAT
57860449 GCTTAATTGG
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
40 29 0.26
41 82 0.74
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATACTCTGGTC
Found at i:57860742 original size:14 final size:14
Alignment explanation
Indices: 57860725--57860774 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
57860715 AGGGTTTTTA
57860725 GTTTAAGGAGTTGG
1 GTTTAAGGAGTTGG
* *
57860739 GTTTAGGGA-TTATG
1 GTTTAAGGAGTT-GG
57860753 GTTTAAGG-GTTGG
1 GTTTAAGGAGTTGG
57860766 GATTTAAGG
1 G-TTTAAGG
57860775 TTTAGGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 4 0.14
14 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
GTTTAAGGAGTTGG
Found at i:57860756 original size:28 final size:27
Alignment explanation
Indices: 57860711--57860771 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
57860701 TATCACTATA
* *
57860711 GTTTAGGGTTTTTAGTTTAAGGAGTTGG
1 GTTTAGGGATTATAGTTTAAGG-GTTGG
*
57860739 GTTTAGGGATTATGGTTTAAGGGTTGG
1 GTTTAGGGATTATAGTTTAAGGGTTGG
57860766 GATTTA
1 G-TTTA
57860772 AGGTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (27 bp):
GTTTAGGGATTATAGTTTAAGGGTTGG
Found at i:57860778 original size:21 final size:20
Alignment explanation
Indices: 57860744--57860784 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57860734 GTTGGGTTTA
*
57860744 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
57860764 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
57860785 AGGGGTTAGT
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:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:57861069 original size:28 final size:28
Alignment explanation
Indices: 57861028--57861085 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
57861018 TATGGTTTAA
* *
57861028 GGGTTGAGATTTAAGGTTTAGGGGTTAG
1 GGGTTGAGATTTAAGGTTTAAGAGTTAG
57861056 GGGTT-AGATGTTAAGGTTTAAGAGTTAG
1 GGGTTGAGAT-TTAAGGTTTAAGAGTTAG
57861084 GG
1 GG
57861086 ATTTAAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.34
Consensus pattern (28 bp):
GGGTTGAGATTTAAGGTTTAAGAGTTAG
Found at i:57862111 original size:21 final size:20
Alignment explanation
Indices: 57862087--57862125 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57862077 TATCTCCAAA
*
57862087 TTCCCCCTGAAACCTCTAATT
1 TTCCCACTGAAACC-CTAATT
57862108 TTCCCACTGAAACCCTAA
1 TTCCCACTGAAACCCTAA
57862126 CTTTGCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.28
Consensus pattern (20 bp):
TTCCCACTGAAACCCTAATT
Found at i:57865570 original size:42 final size:43
Alignment explanation
Indices: 57865504--57865685 Score: 180
Period size: 42 Copynumber: 4.3 Consensus size: 43
57865494 AAGTTATGTT
* * * *
57865504 TTTAGCGGCGTTTTTGCA-AGAAGCGTCACTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTG-ATAAAAGCGCCGCTAAAGGTCTTGATC
* *
57865546 TATAGCGGCGTTTGTGATAAAAGCGCTGCTAAAGGT-TAT-AGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCT-TGA-TC
* *
57865589 TTTAGCGGCGATTGTTGAT--AAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTG-TGATAAAAGCGCCGCTAAAGGTCTTGATC
* * *
57865631 TTTAGTGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGATC
57865673 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
57865686 ATTTCTAAAA
Statistics
Matches: 117, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.03
42 94 0.80
43 16 0.14
44 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGATC
Found at i:57865982 original size:18 final size:17
Alignment explanation
Indices: 57865960--57866094 Score: 86
Period size: 18 Copynumber: 8.0 Consensus size: 17
57865950 AATACTAAGA
57865960 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
57865977 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
57865993 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
57866007 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
57866026 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
57866042 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
57866060 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
57866077 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
57866095 TTAATAATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 10 0.11
17 18 0.20
18 41 0.46
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:57866347 original size:16 final size:16
Alignment explanation
Indices: 57866326--57866395 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
57866316 AGAATTACCT
*
57866326 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
* *
57866342 ATTACGCATCTATTCC
1 ATTACACCTCTATTCC
*
57866358 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
57866374 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
57866390 ATTACA
1 ATTACA
57866396 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:57867165 original size:28 final size:28
Alignment explanation
Indices: 57867108--57867162 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
57867098 ATAGAACCTT
*
57867108 CCCTCTAGCTTTTATGGCTCAACTAAAA
1 CCCTCTAGCTTTGATGGCTCAACTAAAA
*
57867136 CCCTCTAGCTTTGGT-GCTCAACTAAAA
1 CCCTCTAGCTTTGATGGCTCAACTAAAA
57867163 ACCTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (28 bp):
CCCTCTAGCTTTGATGGCTCAACTAAAA
Found at i:57868255 original size:6 final size:6
Alignment explanation
Indices: 57868244--57868282 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
57868234 TTATTTAAGT
57868244 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA
57868283 ATTTAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:57873090 original size:17 final size:17
Alignment explanation
Indices: 57873068--57873100 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57873058 ATATTTACCT
*
57873068 AATAAAAATTAATATTA
1 AATAAAAAATAATATTA
57873085 AATAAAAAATAATATT
1 AATAAAAAATAATATT
57873101 CAATTTGATT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAAAAATAATATTA
Found at i:57893458 original size:20 final size:20
Alignment explanation
Indices: 57893435--57893479 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57893425 ATACATACTA
*
57893435 TCACTGTTTATGACATGACC
1 TCACTGTTCATGACATGACC
*
57893455 TCACTGTTCATGACTTGACC
1 TCACTGTTCATGACATGACC
*
57893475 CCACT
1 TCACT
57893480 ATTCCTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.33
Consensus pattern (20 bp):
TCACTGTTCATGACATGACC
Found at i:57897297 original size:23 final size:23
Alignment explanation
Indices: 57897271--57897315 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57897261 ATATATTAAG
*
57897271 ATTAAAT-TTTATAAATAATTTAT
1 ATTAAATATTTAAAAAT-ATTTAT
*
57897294 ATTAATTATTTAAAAATATTTA
1 ATTAAATATTTAAAAATATTTA
57897316 AAATTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTAAATATTTAAAAATATTTAT
Found at i:57898170 original size:29 final size:30
Alignment explanation
Indices: 57898114--57898171 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
57898104 AAACAATTCA
*
57898114 ACTCTTTTTAAAAGGTTGATGGTAAAATTG
1 ACTCTTTTTAAAAAGTTGATGGTAAAATTG
*
57898144 ACTCTTTTTAAAAAGTTGATTG-AAAATT
1 ACTCTTTTTAAAAAGTTGATGGTAAAATT
57898172 TTAGCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (30 bp):
ACTCTTTTTAAAAAGTTGATGGTAAAATTG
Found at i:57902586 original size:5 final size:5
Alignment explanation
Indices: 57902578--57902611 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
57902568 AGAAGAGATG
57902578 TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
57902612 CATGTATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:57907292 original size:50 final size:50
Alignment explanation
Indices: 57907173--57907365 Score: 253
Period size: 50 Copynumber: 3.8 Consensus size: 50
57907163 GATAATAACA
* * ** *
57907173 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
57907224 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
57907274 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* *
57907324 TGCCCATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57907366 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
49 1 0.01
50 91 0.73
51 32 0.26
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:57907350 original size:100 final size:101
Alignment explanation
Indices: 57907173--57907353 Score: 294
Period size: 100 Copynumber: 1.8 Consensus size: 101
57907163 GATAATAACA
**
57907173 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATGT
57907238 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
* * *
57907274 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCATG
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCCTCTCGTGAT-GGTGCCCATGCCATG
57907337 TCCCAGACATGGTCTTA
65 TCCCAGACATGGTCTTA
57907354 CATGGGATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
99 1 0.01
100 38 0.51
101 35 0.47
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
Found at i:57907738 original size:30 final size:30
Alignment explanation
Indices: 57907703--57907760 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57907693 CCTCGACTCT
*
57907703 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
57907733 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
57907761 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:57909218 original size:21 final size:21
Alignment explanation
Indices: 57909189--57909229 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57909179 ATCTGCTCAA
* *
57909189 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
*
57909210 ACTCTACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57909230 TTGCTCGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57918292 original size:16 final size:16
Alignment explanation
Indices: 57918270--57918307 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57918260 TTGAAACCAA
57918270 ATTTTTAATA-AAAAT
1 ATTTTTAATAGAAAAT
*
57918285 ACTTTTTAGTAGAAAAT
1 A-TTTTTAATAGAAAAT
57918302 ATTTTT
1 ATTTTT
57918308 GAACTAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 6 0.30
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTTTTAATAGAAAAT
Done.