Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 226 of 235
Found at i:76243731 original size:34 final size:35
Alignment explanation
Indices: 76243674--76243740 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
76243664 CAAACACCAG
*
76243674 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
76243709 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
76243741 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:76243747 original size:14 final size:14
Alignment explanation
Indices: 76243709--76243748 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
76243699 ACAGAAAAGT
*
76243709 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
76243723 AAATCATTTTACGG
1 AAAACATTTTACAG
76243737 AAAACATTTTAC
1 AAAACATTTTAC
76243749 TGGCTATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:76247362 original size:3 final size:3
Alignment explanation
Indices: 76247348--76247381 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
76247338 ATTTAATACC
*
76247348 ATT ATC ATT ATT ATT AATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
76247382 TACTCATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:76247373 original size:16 final size:16
Alignment explanation
Indices: 76247348--76247379 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
76247338 ATTTAATACC
76247348 ATTATCATTATTATTA
1 ATTATCATTATTATTA
*
76247364 ATTATTATTATTATTA
1 ATTATCATTATTATTA
76247380 TTTACTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATCATTATTATTA
Found at i:76251821 original size:3 final size:3
Alignment explanation
Indices: 76251813--76251849 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
76251803 TATTTCAAAA
76251813 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
76251850 AAAAGAGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:76253190 original size:45 final size:45
Alignment explanation
Indices: 76253141--76253449 Score: 345
Period size: 45 Copynumber: 6.9 Consensus size: 45
76253131 TGAAAGCAGT
* *
76253141 AGATCTTGACTTCCTGTATTGGCAGCGAAGTATATCAAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGC
* * *
76253186 AGATCTTGTCTTCCTGTATTGGCAGCAAAGTAAATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGC
* * *
76253231 ATATCTTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGC
* * * *
76253276 ATG-TCTTATCTTCCTGTATCGGCAGCGAAGTAGA-CTGAAGATAAC
1 A-GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAGC
* * * *
76253321 AGATCTTGTCTTCCTATATTGGCAGCAAAGTTGATTAAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGC
* * *
76253366 AGGTCTTGTCTTCCTATATTGGCAGCAAAGTAGA-CTAAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAGC
* * * * * *
76253411 AGATTTTGCCTTCCTATACTGGCAGTGAAGCAGATCAAA
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAA
76253450 AGCACCAGCC
Statistics
Matches: 227, Mismatches: 31, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
44 2 0.01
45 224 0.99
46 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (45 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGC
Found at i:76253787 original size:45 final size:45
Alignment explanation
Indices: 76253702--76254096 Score: 250
Period size: 45 Copynumber: 8.7 Consensus size: 45
76253692 AGTTGAGGCT
* * * * *
76253702 ACAAGTCTTATCTCACTGAGGTTGCAGTAGAGTGGGCTGAAGATA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
*
76253747 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
** * * * * *
76253792 ACAAACCTTATCTCCCTAAAGTTGCAGTGGGGCA-AGTTAAAGAT-
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CTGAAGATA
* * * * * * * **
76253836 ATAAGTCCTATCTCCCTGAATTTGTAGTGGAGCAGA-TTAAAACG
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
* * * * * **
76253880 ACGAA-TCATATAC-CTCTAAAGTTGCAATAGGTCAGATTAAATCT-ATCATA
1 AC-AAGTCTTAT-CTCCCTGAAGTTGCAGT-GG--AG--TAGA-CTGAAGATA
* * *
76253930 ACAAGTCTTATCTCCCTGAAGGTGCAGTGGAGTAGACTGTAGCTA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
* * *
76253975 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACT-AATGATA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAA-GATA
** * * *
76254020 ACAAACCTTATCTCCCTGAAGTTGCAGTGGGGCA-AGTTGAAGAT-
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CTGAAGATA
* *
76254064 ACAAGTCTTATCTCCCTAAATTTGCAGTGGAGT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
76254097 GGATTAAAAC
Statistics
Matches: 267, Mismatches: 65, Indels: 37
0.72 0.18 0.10
Matches are distributed among these distances:
43 4 0.01
44 74 0.28
45 155 0.58
46 2 0.01
47 4 0.01
49 7 0.03
50 20 0.07
51 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
Found at i:76254104 original size:228 final size:228
Alignment explanation
Indices: 76253702--76254202 Score: 720
Period size: 228 Copynumber: 2.2 Consensus size: 228
76253692 AGTTGAGGCT
* * * * *
76253702 ACAAGTCTTATCTCACTG-AGGTTGCAGTAGAGTGGGCTGAAGATAACAAGTCTTATCTCCCTGA
1 ACAAGTCTTATCTCCCTGAAGG-TGCAGTGGAGTAGACTGTAGATAACAAGTCTTATCTCCCTGA
* *
76253766 AGTTACAGTGGAGTAGACTGAAGATAACAAACCTTATCTCCCTAAAGTTGCAGTGGGGCAAGTTA
65 AGTTACAGTGGAGCAAACTGAAGATAACAAACCTTATCTCCCTAAAGTTGCAGTGGGGCAAGTTA
* * * *
76253831 AAGATATAAGTCCTATCTCCCTGAATTTGTAGTGGAGCAGATTAAAACGACGAATCATATACCTC
130 AAGATACAAGTCCTATCTCCCTAAATTTGCAGTGGAGCAGATTAAAACAACGAATCATATACCTC
76253896 TAAAGTTGCA-ATAGGTCAGATTAAATCTATCATA
195 TAAAGTTGCAGA-AGGTCAGATTAAATCTATCATA
* *
76253930 ACAAGTCTTATCTCCCTGAAGGTGCAGTGGAGTAGACTGTAGCTAACAAGTCTTATCTCCTTGAA
1 ACAAGTCTTATCTCCCTGAAGGTGCAGTGGAGTAGACTGTAGATAACAAGTCTTATCTCCCTGAA
* * *
76253995 GTTGCAGTGGAGCAAACT-AATGATAACAAACCTTATCTCCCTGAAGTTGCAGTGGGGCAAGTTG
66 GTTACAGTGGAGCAAACTGAA-GATAACAAACCTTATCTCCCTAAAGTTGCAGTGGGGCAAGTTA
* ** * *
76254059 AAGATACAAGTCTTATCTCCCTAAATTTGCAGTGGAGTGGATTAAAACAATGAATCCTATACCTC
130 AAGATACAAGTCCTATCTCCCTAAATTTGCAGTGGAGCAGATTAAAACAACGAATCATATACCTC
*
76254124 TGAAGTTGCAGAAGGTCAGATTAAATCTATCATA
195 TAAAGTTGCAGAAGGTCAGATTAAATCTATCATA
* * * *
76254158 ACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGTAGATA
1 ACAAGTCTTATCTCCCTGAAGGTGCAGTGGAGTAGACTGTAGATA
76254203 GTGGATCTTA
Statistics
Matches: 243, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
227 2 0.01
228 237 0.98
229 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (228 bp):
ACAAGTCTTATCTCCCTGAAGGTGCAGTGGAGTAGACTGTAGATAACAAGTCTTATCTCCCTGAA
GTTACAGTGGAGCAAACTGAAGATAACAAACCTTATCTCCCTAAAGTTGCAGTGGGGCAAGTTAA
AGATACAAGTCCTATCTCCCTAAATTTGCAGTGGAGCAGATTAAAACAACGAATCATATACCTCT
AAAGTTGCAGAAGGTCAGATTAAATCTATCATA
Found at i:76255767 original size:3 final size:3
Alignment explanation
Indices: 76255759--76255792 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
76255749 AATAAATTTA
76255759 ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
76255793 TACTCCTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:76260987 original size:3 final size:3
Alignment explanation
Indices: 76260979--76261019 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
76260969 TATTAGTTTG
76260979 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
76261020 AAGAAAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:76264856 original size:25 final size:25
Alignment explanation
Indices: 76264828--76264877 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
76264818 GAGCGTCCCA
* *
76264828 TTATTTAGCTCTTATGAGCATCTCG
1 TTATATAGCTCTCATGAGCATCTCG
* *
76264853 TTATATGGCTCTCATGAGCTTCTCG
1 TTATATAGCTCTCATGAGCATCTCG
76264878 ATAATTGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (25 bp):
TTATATAGCTCTCATGAGCATCTCG
Found at i:76264890 original size:25 final size:24
Alignment explanation
Indices: 76264857--76265070 Score: 166
Period size: 25 Copynumber: 8.7 Consensus size: 24
76264847 ATCTCGTTAT
*
76264857 ATGGCTCTCATGAGCTTCTCGATA
1 ATGGCTCTCATGAGCTTCCCGATA
* * * *
76264881 ATTGGGTCTCTTGAGCTTCCCGTTT
1 A-TGGCTCTCATGAGCTTCCCGATA
**
76264906 ATGGCTCGT-ATGAGCTTCTTGATA
1 ATGGCTC-TCATGAGCTTCCCGATA
76264930 ATTGGCTCTCCA-GAGCTTCCCGATA
1 A-TGGCTCT-CATGAGCTTCCCGATA
**
76264955 ATTGGCTCTCATGAGCTTCATGATTA
1 A-TGGCTCTCATGAGCTTCCCGA-TA
76264981 ATGGCTCTC-TGAAGCTTCCCGATA
1 ATGGCTCTCATG-AGCTTCCCGATA
* * * *
76265005 ATGGCTCACATGAGCTTTCTGATT
1 ATGGCTCTCATGAGCTTCCCGATA
* * * *
76265029 ATAGCTCTTATGAGCTTCTCGTTA
1 ATGGCTCTCATGAGCTTCCCGATA
76265053 CATGGCTCAT-ATGAGCTT
1 -ATGGCTC-TCATGAGCTT
76265071 TCTATTCCCT
Statistics
Matches: 149, Mismatches: 30, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
24 57 0.38
25 87 0.58
26 5 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTCCCGATA
Found at i:76265010 original size:74 final size:73
Alignment explanation
Indices: 76264857--76265070 Score: 209
Period size: 74 Copynumber: 2.9 Consensus size: 73
76264847 ATCTCGTTAT
* * * * *
76264857 ATGGCTCTCATGAGCTTCTCGATAATTGGGTCTCTTGAGCTTCCCGTTTATGGCTCGTATGAGCT
1 ATGGCTCTCATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCACGTTAATGGCTCGTATGAGCT
**
76264922 TCTTGATA
66 TCCCGATA
* *
76264930 ATTGGCTCTCCA-GAGCTTCCCGATAATTGGCTCTCATGAGCTTCATGATTAATGGCTC-TCTGA
1 A-TGGCTCT-CATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCACG-TTAATGGCTCGTATG-
76264993 AGCTTCCCGATA
62 AGCTTCCCGATA
* * * * * * * *
76265005 ATGGCTCACATGAGCTTTCTGATTA-TAGCTCTTATGAGCTTCTCGTTACATGGCTCATATGAGC
1 ATGGCTCTCATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCACGTTA-ATGGCTCGTATGAGC
76265069 TT
65 TT
76265071 TCTATTCCCT
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
72 3 0.03
73 31 0.27
74 60 0.52
75 22 0.19
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (73 bp):
ATGGCTCTCATGAGCTTCCCGATAATTGGCTCTCATGAGCTTCACGTTAATGGCTCGTATGAGCT
TCCCGATA
Found at i:76265029 original size:49 final size:47
Alignment explanation
Indices: 76264857--76265070 Score: 189
Period size: 49 Copynumber: 4.4 Consensus size: 47
76264847 ATCTCGTTAT
* * * *
76264857 ATGGCTCTCATGAGCTTCTCGATAATTGGGTCTCTTGAGCTTCCCGTTT
1 ATGGCTCACATGAGCTTCT-GATAATTGGCTCTC-TGAGCTTCCCGATA
** *
76264906 ATGGCTCGTATGAGCTTCTTGATAATTGGCTCTCCAGAGCTTCCCGATA
1 ATGGCTCACATGAGCTTC-TGATAATTGGCTCT-CTGAGCTTCCCGATA
*
76264955 ATTGGCTCTCATGAGCTTCATGATTAA-TGGCTCTCTGAAGCTTCCCGATA
1 A-TGGCTCACATGAGCTTC-TGA-TAATTGGCTCTCTG-AGCTTCCCGATA
* * * * *
76265005 ATGGCTCACATGAGCTTTCTGATTA-TAGCTCTTATGAGCTTCTCGTTA
1 ATGGCTCACATGAGC-TTCTGATAATTGGCTC-TCTGAGCTTCCCGATA
*
76265053 CATGGCTCATATGAGCTT
1 -ATGGCTCACATGAGCTT
76265071 TCTATTCCCT
Statistics
Matches: 140, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
48 19 0.14
49 75 0.54
50 43 0.31
51 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (47 bp):
ATGGCTCACATGAGCTTCTGATAATTGGCTCTCTGAGCTTCCCGATA
Found at i:76276818 original size:20 final size:20
Alignment explanation
Indices: 76276760--76276820 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
76276750 AATATTAACC
76276760 CATAAT-ATAATATTGTTATA
1 CATAATAATAA-ATTGTTATA
* ***
76276780 -ATTAATAACAAAAAATTATA
1 CA-TAATAATAAATTGTTATA
76276800 CATAATAATAAATTGTTATA
1 CATAATAATAAATTGTTATA
76276820 C
1 C
76276821 GCAATTTATT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAATAATAAATTGTTATA
Found at i:76285546 original size:9 final size:9
Alignment explanation
Indices: 76285532--76285592 Score: 86
Period size: 9 Copynumber: 6.8 Consensus size: 9
76285522 TTTGGTTAAA
76285532 AATTAACCG
1 AATTAACCG
76285541 AATTAACCG
1 AATTAACCG
*
76285550 AATTACCCG
1 AATTAACCG
*
76285559 AATTACCCG
1 AATTAACCG
*
76285568 AATTAACCA
1 AATTAACCG
*
76285577 AATTAACCA
1 AATTAACCG
76285586 AATTAAC
1 AATTAAC
76285593 AAAATTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:76285597 original size:9 final size:9
Alignment explanation
Indices: 76285531--76285598 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
76285521 TTTTGGTTAA
76285531 AAATTAACC
1 AAATTAACC
*
76285540 GAATTAACC
1 AAATTAACC
* *
76285549 GAATTACCC
1 AAATTAACC
* *
76285558 GAATTACCC
1 AAATTAACC
*
76285567 GAATTAACC
1 AAATTAACC
76285576 AAATTAACC
1 AAATTAACC
*
76285585 AAATTAACA
1 AAATTAACC
76285594 AAATT
1 AAATT
76285599 GAATCACTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:76296053 original size:29 final size:29
Alignment explanation
Indices: 76296012--76296069 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
76296002 GTTACATGTC
* *
76296012 CCATTACACGGCCT-GCCATACGGCCATG
1 CCATTACACGGCCTAGACATACGCCCATG
76296040 CCATTCACACGGCCTAGACATACGCCCATG
1 CCATT-ACACGGCCTAGACATACGCCCATG
76296070 TTTCTGGCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 9 0.35
30 12 0.46
ACGTcount: A:0.24, C:0.40, G:0.19, T:0.17
Consensus pattern (29 bp):
CCATTACACGGCCTAGACATACGCCCATG
Found at i:76312957 original size:71 final size:71
Alignment explanation
Indices: 76312841--76312985 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 71
76312831 GACTAACTCC
76312841 ATGATTGTGGATCCATTTACTAAGGAACTATCACTTGAGGTTTTTATGAGCACACTTCTCATATG
1 ATGATTGTGGATCCATTTACTAAGGAACTATCACTTGAGGTTTTTATGAGCACACTTCTCATATG
76312906 GGTGTA
66 GGTGTA
* ** *
76312912 ATGATTGTGGATCCATTTACTGAGGGGCTATCACTTGAGGTTTTTATGAGCACACTTCTCATGTG
1 ATGATTGTGGATCCATTTACTAAGGAACTATCACTTGAGGTTTTTATGAGCACACTTCTCATATG
76312977 GGTGTA
66 GGTGTA
76312983 ATG
1 ATG
76312986 TCATTTCTGG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (71 bp):
ATGATTGTGGATCCATTTACTAAGGAACTATCACTTGAGGTTTTTATGAGCACACTTCTCATATG
GGTGTA
Found at i:76313423 original size:2 final size:2
Alignment explanation
Indices: 76313411--76313440 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
76313401 TATGCAATTA
*
76313411 TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
76313441 GTCCAAGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:76315587 original size:13 final size:13
Alignment explanation
Indices: 76315569--76315594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76315559 ACTTTACGCA
76315569 AACAAATGGTTTT
1 AACAAATGGTTTT
76315582 AACAAATGGTTTT
1 AACAAATGGTTTT
76315595 TGGAAACACG
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:76317460 original size:29 final size:28
Alignment explanation
Indices: 76317419--76317484 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
76317409 ATAAATGTTT
*
76317419 TAAATATATATAAATAAATTT-AAAAATATA
1 TAAA-ATACATAAAT-AATTTCAAAAA-ATA
*
76317449 TAAAATACATAAATATTTTCAAAAAATA
1 TAAAATACATAAATAATTTCAAAAAATA
76317477 TAATAATA
1 TAA-AATA
76317485 AATTTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 10 0.31
29 18 0.56
30 4 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAAATACATAAATAATTTCAAAAAATA
Found at i:76317461 original size:48 final size:51
Alignment explanation
Indices: 76317393--76317492 Score: 145
Period size: 50 Copynumber: 2.0 Consensus size: 51
76317383 AAATTCAAAG
* *
76317393 AAATATATAAAAATACATAAATGTTTT--AAATATAT-ATAAATAAATTTAA
1 AAATATATAAAAATACATAAATATTTTCAAAAAATATAAT-AATAAATTTAA
76317442 AAATATAT-AAAATACATAAATATTTTCAAAAAATATAATAATAAATTTAA
1 AAATATATAAAAATACATAAATATTTTCAAAAAATATAATAATAAATTTAA
76317492 A
1 A
76317493 TTTCATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 17 0.37
49 8 0.17
50 19 0.41
51 2 0.04
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (51 bp):
AAATATATAAAAATACATAAATATTTTCAAAAAATATAATAATAAATTTAA
Found at i:76317678 original size:95 final size:97
Alignment explanation
Indices: 76317506--76317730 Score: 248
Period size: 96 Copynumber: 2.4 Consensus size: 97
76317496 CATATAACAA
* * * *
76317506 TAATT-TTTTTTTTGAAAAAGTTTGAAGACCTTTTTTTGTGCATTTTAGTAGTTCAAGTACCCAA
1 TAATTGTTTTTTTTGAAAAAGTTTGAAGACCTTTTTTTATGCATTTGAGAAGTACAAGTACCCAA
* * **
76317570 TTGAGTGCAAAAAA-TTAAAAG-GCAAG-GACT
66 TTGAATACAAAAAAGAAAAAAGAGCAAGAG-CT
* * *
76317600 TAATTGCTTTTTTTTGAAAAAATTTGAAGGCC-TTTTTTATGCACTTTGA-AAGTACAAGTGCCC
1 TAATTG-TTTTTTTTGAAAAAGTTTGAAGACCTTTTTTTATGCA-TTTGAGAAGTACAAGTACCC
*
76317663 AATTGAATACAAAAAAGAAAAAAGAGTAAGAGCT
64 AATTGAATACAAAAAAGAAAAAAGAGCAAGAGCT
* *
76317697 TAATTGATTTTTTTGAAAAAGTTTG-AGAGCTTTT
1 TAATTGTTTTTTTTGAAAAAGTTTGAAGACCTTTT
76317731 CACACCTTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
94 5 0.05
95 38 0.35
96 52 0.48
97 12 0.11
98 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (97 bp):
TAATTGTTTTTTTTGAAAAAGTTTGAAGACCTTTTTTTATGCATTTGAGAAGTACAAGTACCCAA
TTGAATACAAAAAAGAAAAAAGAGCAAGAGCT
Found at i:76329314 original size:231 final size:230
Alignment explanation
Indices: 76328910--76329377 Score: 855
Period size: 231 Copynumber: 2.0 Consensus size: 230
76328900 AAATACTATG
76328910 GAATTGAATGGATTATAAATGGTTGAATGTTATATGATATAGGTTAGATTTGTATAAATTGAACT
1 GAATTGAATGGATTATAAATGGTTGAATGTTATATGATATAGGTTAGATTTGTATAAATTGAACT
*
76328975 GGTATGATTTAGGTACCATTTTGAAGTACATTAGTTTAGTTGAATGGAAATTAGTGGATGTTATG
66 GGTATGATTTAGGTACCATTTTGAAGTACATTAGTGTAGTTGAATGGAAATTAGTGGATGTTATG
76329040 ATTGATTATGAAATTGATATGTATATATTGATATTACATGGTTAAAATGTATATGAATTGCTATT
131 ATTGATTATGAAATTGATATGTATATATTGATATTACATGGTTAAAATGTATATGAATTGCTATT
76329105 TGAAATATGAAAAAGTGTATACAGCTACAAAGGTT
196 TGAAATATGAAAAAGTGTATACAGCTACAAAGGTT
* * *
76329140 GAAATTGAATGGATTATAAATGGTTGCATGTTATATGATATGGGTTAGATTTGTATAAATTGAAT
1 G-AATTGAATGGATTATAAATGGTTGAATGTTATATGATATAGGTTAGATTTGTATAAATTGAAC
*
76329205 TGGTATGATTTAGGTACCATTTTGAGGTACATTAGTGTAGTTGAATGGAAATTAGTGGATGTTAT
65 TGGTATGATTTAGGTACCATTTTGAAGTACATTAGTGTAGTTGAATGGAAATTAGTGGATGTTAT
*
76329270 GATTGATTATGAAATTGATATGTATATGTTGATATTACATGGTTAAAATGTATATGAATTGCTAT
130 GATTGATTATGAAATTGATATGTATATATTGATATTACATGGTTAAAATGTATATGAATTGCTAT
**
76329335 TTGAAATATGAAAGCGTGTATACAGCTACAAAGGTT
195 TTGAAATATGAAAAAGTGTATACAGCTACAAAGGTT
76329371 GAATTGA
1 GAATTGA
76329378 TACGAATTCG
Statistics
Matches: 229, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
230 7 0.03
231 222 0.97
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (230 bp):
GAATTGAATGGATTATAAATGGTTGAATGTTATATGATATAGGTTAGATTTGTATAAATTGAACT
GGTATGATTTAGGTACCATTTTGAAGTACATTAGTGTAGTTGAATGGAAATTAGTGGATGTTATG
ATTGATTATGAAATTGATATGTATATATTGATATTACATGGTTAAAATGTATATGAATTGCTATT
TGAAATATGAAAAAGTGTATACAGCTACAAAGGTT
Found at i:76331294 original size:24 final size:25
Alignment explanation
Indices: 76331243--76331294 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
76331233 AGCCATATCA
* **
76331243 AGCTTCCCGTTAAATAGTTCTTGTG
1 AGCTTCCCGTTAAATAGCTCTTCAG
76331268 AGCTTCCCGTTAAAT-GCTCTTCAG
1 AGCTTCCCGTTAAATAGCTCTTCAG
76331292 AGC
1 AGC
76331295 ATCTCGATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTTCCCGTTAAATAGCTCTTCAG
Found at i:76337945 original size:7 final size:7
Alignment explanation
Indices: 76337936--76337972 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
76337926 TCGATTCGTG
*
76337936 TTTAGTG
1 TTTAGTA
76337943 TTTAGTA
1 TTTAGTA
*
76337950 TGTAGTA
1 TTTAGTA
76337957 TTTAGTA
1 TTTAGTA
76337964 TTTAGTA
1 TTTAGTA
76337971 TT
1 TT
76337973 ATGTATCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (7 bp):
TTTAGTA
Found at i:76338610 original size:18 final size:18
Alignment explanation
Indices: 76338578--76338621 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
76338568 ATGTCAGGTG
** *
76338578 TGTATCCTAGTCCTTTTA
1 TGTATCCTAACCCTTATA
76338596 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
76338614 TGTTTCCT
1 TGTATCCT
76338622 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:76342146 original size:126 final size:126
Alignment explanation
Indices: 76341987--76342231 Score: 411
Period size: 126 Copynumber: 1.9 Consensus size: 126
76341977 CTGTAGTAAA
* * *
76341987 AGAGCTTCTTTCAGTACTTTTGCTGACATTGCATCCT-GCTTGAAGCGTTTTTGACACTATTTGC
1 AGAGCTTCTTTCAGTACTTTTGCTAACACTGCATCCTAG-TTAAAGCGTTTTTGACACTATTTGC
*
76342051 TCAGAAACATATTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTTTACGTG
65 TCAGAAACATATTCTCAAAATTATTTTTTCAAAAACTACTGTAGCAAAAGAGCGTTTACGTG
*
76342113 AGAGCTTCTTTTAGTACTTTTGCTAACACTGCATCCTAGTTAAAGCGTTTTTGACACTATTTGCT
1 AGAGCTTCTTTCAGTACTTTTGCTAACACTGCATCCTAGTTAAAGCGTTTTTGACACTATTTGCT
* *
76342178 CAGAAACGTCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGCAAAAGAGCGT
66 CAGAAACATATTCTCAAAATTATTTTTTCAAAAACTACTGTAGCAAAAGAGCGT
76342232 CCACATGGGA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
126 110 0.99
127 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (126 bp):
AGAGCTTCTTTCAGTACTTTTGCTAACACTGCATCCTAGTTAAAGCGTTTTTGACACTATTTGCT
CAGAAACATATTCTCAAAATTATTTTTTCAAAAACTACTGTAGCAAAAGAGCGTTTACGTG
Found at i:76342539 original size:98 final size:97
Alignment explanation
Indices: 76342282--76342560 Score: 492
Period size: 97 Copynumber: 2.9 Consensus size: 97
76342272 AGTAACCCTA
76342282 AACCCCAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCAAAACACTAAATCCTAATCTAATT
1 AACCCCAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCAAAACACTAAATCCTAATCTAATT
76342347 TTTTTAAAAATTTATAATTAATTTACTCAAGT
66 TTTTTAAAAATTTATAATTAATTTACTCAAGT
76342379 AACCCCAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCAAAACACTAAATCCTAATCTAATT
1 AACCCCAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCAAAACACTAAATCCTAATCTAATT
76342444 TTTTTAAAAATTTATAATTAATTTACTCAAGT
66 TTTTTAAAAATTTATAATTAATTTACTCAAGT
* * *
76342476 AACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAA-CCATAAACACTAAACCCCAATCTAA
1 AACCCCAAACCCTAATTTATTTGA-TTTTTCTTTAAAAACCCA-AAACACTAAATCCTAATCTAA
76342540 -TTTTTT-AAAATTTATAATTAA
64 TTTTTTTAAAAATTTATAATTAA
76342561 CCTAAACCCT
Statistics
Matches: 177, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
96 15 0.08
97 130 0.73
98 32 0.18
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (97 bp):
AACCCCAAACCCTAATTTATTTGATTTTTCTTTAAAAACCCAAAACACTAAATCCTAATCTAATT
TTTTTAAAAATTTATAATTAATTTACTCAAGT
Found at i:76352838 original size:125 final size:125
Alignment explanation
Indices: 76352616--76352868 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 125
76352606 GATTAACTAG
76352616 ATTGATAGTATATCGTACATAACCCAAGTAGAATAGACCCTAAATCCATTTATGGATTTATTCAC
1 ATTGATAGTATATCGTACATAACCCAAGTAGAATAGACCCTAAATCCATTTATGGATTTATTCAC
*
76352681 TTGTGACGTTCACAGTGTGTCATACATTAATATAAGTAAAAGCTTGAGTTTAAATAGATA
66 TTGTGACGTTCACAGTGTGTCATACATTAATATAAGTAAAAGCCTGAGTTTAAATAGATA
76352741 ATTGATAGTATATCGTACATAACCCAAGTAGAATAGACCCTAAATCCATTTATGGATTTATTCAC
1 ATTGATAGTATATCGTACATAACCCAAGTAGAATAGACCCTAAATCCATTTATGGATTTATTCAC
76352806 TTGTGACGTTCACAGTGTGTCATACATTAATATAAGTAAAAGCCTGAGTTTAAATAGATA
66 TTGTGACGTTCACAGTGTGTCATACATTAATATAAGTAAAAGCCTGAGTTTAAATAGATA
76352866 ATT
1 ATT
76352869 AACCAAATGT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (125 bp):
ATTGATAGTATATCGTACATAACCCAAGTAGAATAGACCCTAAATCCATTTATGGATTTATTCAC
TTGTGACGTTCACAGTGTGTCATACATTAATATAAGTAAAAGCCTGAGTTTAAATAGATA
Found at i:76353927 original size:25 final size:21
Alignment explanation
Indices: 76353869--76353915 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
76353859 TTAACAAGGG
76353869 TATTTTCTATTAAATAAATAT
1 TATTTTCTATTAAATAAATAT
76353890 TATTTTCTATTAAATAAATAT
1 TATTTTCTATTAAATAAATAT
76353911 TATTT
1 TATTT
76353916 GTGTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTTCTATTAAATAAATAT
Found at i:76361427 original size:25 final size:25
Alignment explanation
Indices: 76361399--76361448 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
76361389 CCCGAGCTGT
* *
76361399 ATATCGAGAAGCTCTTGCGAGCCAA
1 ATATCGAGAAGCTCATGAGAGCCAA
76361424 ATATCGAGAAGCTCATGAGAGCCAA
1 ATATCGAGAAGCTCATGAGAGCCAA
76361449 GCATCAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (25 bp):
ATATCGAGAAGCTCATGAGAGCCAA
Found at i:76361661 original size:15 final size:14
Alignment explanation
Indices: 76361628--76361661 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
76361618 ATCACATACA
*
76361628 ACAATATTTAATTT
1 ACAATATTTAATAT
76361642 ACAATATTTAAATAT
1 ACAATATTT-AATAT
76361657 ACAAT
1 ACAAT
76361662 TTAGTTACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
ACAATATTTAATAT
Found at i:76363397 original size:13 final size:13
Alignment explanation
Indices: 76363379--76363406 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76363369 TAAAGGAAAG
76363379 TTAGGATTATGGT
1 TTAGGATTATGGT
76363392 TTAGGATTATGGT
1 TTAGGATTATGGT
76363405 TT
1 TT
76363407 TTTCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (13 bp):
TTAGGATTATGGT
Found at i:76363669 original size:20 final size:21
Alignment explanation
Indices: 76363646--76363689 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
76363636 AAAAGGAAGC
*
76363646 AAAAACTTTAAAAAATC-TAA
1 AAAAAATTTAAAAAATCATAA
**
76363666 AAAAAATTTAGGAAATCATAA
1 AAAAAATTTAAAAAATCATAA
76363687 AAA
1 AAA
76363690 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAAAATTTAAAAAATCATAA
Found at i:76363733 original size:21 final size:21
Alignment explanation
Indices: 76363707--76363747 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
76363697 ATAATTTCCA
* *
76363707 AAAAATTTTAAAAAATAAAAT
1 AAAAATATCAAAAAATAAAAT
*
76363728 AAAAATATCCAAAAATAAAA
1 AAAAATATCAAAAAATAAAA
76363748 AAAGCATAAA
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:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATATCAAAAAATAAAAT
Found at i:76363886 original size:19 final size:20
Alignment explanation
Indices: 76363849--76363887 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
76363839 AAGAGCAAAG
*
76363849 AGTTTAGAAAATCTCAAAAA
1 AGTTTAGAAAATCACAAAAA
*
76363869 AGTTTA-AAAATCAGAAAAA
1 AGTTTAGAAAATCACAAAAA
76363888 TATAGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (20 bp):
AGTTTAGAAAATCACAAAAA
Found at i:76364416 original size:18 final size:17
Alignment explanation
Indices: 76364395--76364437 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
76364385 TAAATTTAAT
76364395 TATTTTTAATAATTATTA
1 TATTTTTAATAATT-TTA
76364413 TATTTTCT-ATAATTTTA
1 TATTTT-TAATAATTTTA
76364430 -ATTTTTAA
1 TATTTTTAA
76364438 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 6 0.26
17 3 0.13
18 12 0.52
19 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTAATAATTTTA
Found at i:76364510 original size:12 final size:13
Alignment explanation
Indices: 76364487--76364515 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
76364477 TGTTTTGTAA
76364487 TTTTTATAAATTT
1 TTTTTATAAATTT
76364500 TTTTTAT-AATTT
1 TTTTTATAAATTT
76364512 TTTT
1 TTTT
76364516 GGGATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATAAATTT
Found at i:76366071 original size:31 final size:31
Alignment explanation
Indices: 76366014--76366076 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
76366004 TTAACAGCTG
* *
76366014 AATGACTTGAATTAATATTTTCGAATAATTC
1 AATGACTTAAATGAATATTTTCGAATAATTC
* *
76366045 AATGACTTAAATGAA-AGTTTTTGAATAGTTC
1 AATGACTTAAATGAATA-TTTTCGAATAATTC
76366076 A
1 A
76366077 GCGACATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (31 bp):
AATGACTTAAATGAATATTTTCGAATAATTC
Found at i:76372598 original size:13 final size:13
Alignment explanation
Indices: 76372580--76372604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76372570 TAATTATACG
76372580 AAAAAAAATTTTA
1 AAAAAAAATTTTA
76372593 AAAAAAAATTTT
1 AAAAAAAATTTT
76372605 GGGTGCTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAAAATTTTA
Found at i:76372649 original size:111 final size:110
Alignment explanation
Indices: 76372390--76372776 Score: 503
Period size: 111 Copynumber: 3.6 Consensus size: 110
76372380 AAAATTTATT
* * * *
76372390 TTTTGGGTGCTGGCCTGTCAATGGTCGGCACCC--TAC-A-GTAAAAAAAATTCCTTTTTTTT--
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATCTTTTTTTTTCA
* * * * *
76372449 TGTCAGAATAATATATAAATATACG-AAAAAA--GTAAAAAAAAA
66 TGTCAGAGTCAGATATAATTATACGAAAAAAATTATAAAAAAAAA
*
76372491 -TTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATCTTTTTTTTTCA
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATCTTTTTTTTTCA
*
76372555 TGTCAGAGTCAGATATAATTATACGAAAAAAAATTTTAAAAAAAAA
66 TGTCAGAGTCAGATATAATTATACG-AAAAAAATTATAAAAAAAAA
*
76372601 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAAATTTAAAAAAAAAT-TTCTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AATTTAAAAAAAAATCTT-TTTTTTT
76372665 CCATGTCAGAGTCAGATATAATTATACGAAAAAAATTAT-AAAAAAAA
64 -CATGTCAGAGTCAGATATAATTATACGAAAAAAATTATAAAAAAAAA
* *
76372712 TTTTGGGTGCTGGCCTGTCAATGGCAGGCACCCAGTACAAATTTTAAAAAAAAAT-TATTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AA-TTTAAAAAAAAATCTTTTTTTTT
76372776 C
64 C
76372777 GTATATTTAT
Statistics
Matches: 255, Mismatches: 16, Indels: 21
0.87 0.05 0.07
Matches are distributed among these distances:
100 30 0.12
102 3 0.01
103 1 0.00
104 19 0.07
106 21 0.08
108 6 0.02
110 11 0.04
111 91 0.36
112 46 0.18
113 27 0.11
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (110 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATCTTTTTTTTTCA
TGTCAGAGTCAGATATAATTATACGAAAAAAATTATAAAAAAAAA
Found at i:76373165 original size:110 final size:111
Alignment explanation
Indices: 76372768--76373167 Score: 451
Period size: 110 Copynumber: 3.6 Consensus size: 111
76372758 AAAAAAAATT
* * * *
76372768 ATTTTTTTCGTATATTTATATCTGACTCTAAAACGAAAAAAATGGAAAAAAAAATTTTTTTAA-T
1 ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAAT-G-AAAAAAAA-TTTTTAAATT
* ** *
76372832 TGTACTGGGTGTCGGCCATTGACAGGCCTACACCC--AAAATTTTTTTTT
63 TGTACTGGGTGCCGGCCATTGACAGGCC-ACACCCAAAAAAAATTTTTTA
* *****
76372880 ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAAAGAAATTTTTTTTTTAAATTTGT
1 ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAATGAAAAAAAATTTTTAAATTTGT
* *
76372945 ACTGGGTGCCGGCCATTGACAGGCCA-ACACAAAAAAAA-ATTTTA
66 ACTGGGTGCCGGCCATTGACAGGCCACACCCAAAAAAAATTTTTTA
* * ***
76372989 ATTTTTTTCATATAATTATATCTGACTCTGACAC-AAAAAAA--AAGAATTTTTTTTAAAAAAAT
1 ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAATGAAAAAAAATTTTT----AAAT
*
76373051 TTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAAAAAATTTTTTA
62 TTGTACTGGGTGCCGGCCATTGACAGGCCA-CACCCAAAAAAAATTTTTTA
76373102 ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAATGAAAAAAAATTTTT-AA-TTGT
1 ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAATGAAAAAAAATTTTTAAATTTGT
76373165 ACT
66 ACT
76373168 TTTTTTACTT
Statistics
Matches: 247, Mismatches: 28, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
106 10 0.04
108 10 0.04
109 45 0.18
110 75 0.30
111 3 0.01
112 50 0.20
113 38 0.15
114 7 0.03
116 9 0.04
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (111 bp):
ATTTTTTTCGTATAATTATATCTGACTCTGACACGAAAAAAATGAAAAAAAATTTTTAAATTTGT
ACTGGGTGCCGGCCATTGACAGGCCACACCCAAAAAAAATTTTTTA
Found at i:76384518 original size:16 final size:16
Alignment explanation
Indices: 76384489--76384523 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
76384479 TTAATAAAAA
* *
76384489 TTTAACCATTTTTATT
1 TTTAAACATATTTATT
76384505 TTTAAACATATTTATT
1 TTTAAACATATTTATT
76384521 TTT
1 TTT
76384524 TTTTGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAAACATATTTATT
Found at i:76384621 original size:49 final size:49
Alignment explanation
Indices: 76384549--76384645 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
76384539 AAAATTTAAC
*
76384549 TAAATTTGTTAATTTTGTTTTCAATTTATATATATACTCTTTGTTTTTG
1 TAAATTTGTTAATTTTATTTTCAATTTATATATATACTCTTTGTTTTTG
* *
76384598 TAAATTTGTTATTTTTATTTTCAATTTTTATATATACTCTTTGTTTTT
1 TAAATTTGTTAATTTTATTTTCAATTTATATATATACTCTTTGTTTTT
76384646 CAATTTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (49 bp):
TAAATTTGTTAATTTTATTTTCAATTTATATATATACTCTTTGTTTTTG
Found at i:76384661 original size:51 final size:49
Alignment explanation
Indices: 76384561--76384664 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 49
76384551 AATTTGTTAA
* * * *
76384561 TTTTGTTTTCAATTTATATATATACTCTTTGTTTTTGTAAATTTGTTAT
1 TTTTATTTTCAATTTATATATATACTCTTTGTTTTTGCAAATATATTAT
*
76384610 TTTTATTTTCAATTTTTATATATACTCTTTGTTTTT-CAATTTATATATTAT
1 TTTTATTTTCAATTTATATATATACTCTTTGTTTTTGCAA---ATATATTAT
76384661 TTTT
1 TTTT
76384665 TATTGTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.04
49 34 0.72
51 11 0.23
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (49 bp):
TTTTATTTTCAATTTATATATATACTCTTTGTTTTTGCAAATATATTAT
Found at i:76384966 original size:15 final size:15
Alignment explanation
Indices: 76384942--76384978 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
76384932 TTTAACCTAA
* *
76384942 AATAAGACGCGGAAT
1 AATAAAACGCGAAAT
76384957 AATAAAACGCGAAAT
1 AATAAAACGCGAAAT
76384972 AATAAAA
1 AATAAAA
76384979 TAACATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.16, T:0.14
Consensus pattern (15 bp):
AATAAAACGCGAAAT
Found at i:76385342 original size:21 final size:23
Alignment explanation
Indices: 76385318--76385394 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
76385308 AATAGGATTT
76385318 GCATGTAATAA-C-CTAGGGTTC
1 GCATGTAATAAGCACTAGGGTTC
* *
76385339 GCATGTTATAAGCAATTAGGGTTC
1 GCATGTAATAAGC-ACTAGGGTTC
** *
76385363 GCATGTTGTAAGCAATTAGGGTTC
1 GCATGTAATAAGC-ACTAGGGTTC
76385387 GCATGTAA
1 GCATGTAA
76385395 GATTCTGACT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.21
22 1 0.02
24 37 0.77
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (23 bp):
GCATGTAATAAGCACTAGGGTTC
Found at i:76385363 original size:24 final size:24
Alignment explanation
Indices: 76385331--76385392 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
76385321 TGTAATAACC
76385331 TAGGGTTCGCATGTTATAAGCAAT
1 TAGGGTTCGCATGTTATAAGCAAT
*
76385355 TAGGGTTCGCATGTTGTAAGCAAT
1 TAGGGTTCGCATGTTATAAGCAAT
76385379 TAGGGTTCGCATGT
1 TAGGGTTCGCATGT
76385393 AAGATTCTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (24 bp):
TAGGGTTCGCATGTTATAAGCAAT
Found at i:76387790 original size:41 final size:40
Alignment explanation
Indices: 76387745--76387825 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
76387735 TGTTACTAAA
* *
76387745 TACTGCATGA-CTGCTACTGATACTGTGATGGGCTAAGGCCC
1 TACTGCAT-ATCTGATACTG-TACTGAGATGGGCTAAGGCCC
*
76387786 TACTGCATATTTGATACTGTACTGAGATGGGCTAAGGCCC
1 TACTGCATATCTGATACTGTACTGAGATGGGCTAAGGCCC
76387826 AAACTGTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 21 0.58
41 15 0.42
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
TACTGCATATCTGATACTGTACTGAGATGGGCTAAGGCCC
Found at i:76392467 original size:26 final size:25
Alignment explanation
Indices: 76392412--76392462 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
76392402 ATGAAGAATG
*
76392412 TTTTAATAGAGGTGTTAAAGTTATT
1 TTTTAATAGAGATGTTAAAGTTATT
* *
76392437 TTTTAATAGATATGTTTAA-TTATT
1 TTTTAATAGAGATGTTAAAGTTATT
76392461 TT
1 TT
76392463 ATTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (25 bp):
TTTTAATAGAGATGTTAAAGTTATT
Found at i:76402179 original size:47 final size:47
Alignment explanation
Indices: 76402128--76402346 Score: 350
Period size: 47 Copynumber: 4.6 Consensus size: 47
76402118 TTAGGATTCT
* * *
76402128 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
* *
76402175 ATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCAAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
76402222 ATGTGATGAATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCG
*
76402271 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
76402318 ATGTGATGAATGTGAAAGTGTATATATGT
1 ATGTGATGAATGTGAAAGTGTATATATGT
76402347 AGATGGGCAT
Statistics
Matches: 161, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 115 0.71
49 45 0.28
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:76402267 original size:96 final size:96
Alignment explanation
Indices: 76402128--76402350 Score: 355
Period size: 96 Copynumber: 2.4 Consensus size: 96
76402118 TTAGGATTCT
* *
76402128 ATGTGATGGATGTGAACA-TGCATATA--TGAGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
76402190 AAGTGTATATATGTGGTAAGGCCAAATGGCCG
65 AAGTGTATATATGTGATAAGGCCAAATAGCCG
*
76402222 ATGTGATGAATGTGAAAGTGTATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
76402287 AGTGTATATATGTGATAAGGCCTAATAGCCG
66 AGTGTATATATGTGATAAGGCCAAATAGCCG
76402318 ATGTGATGAATGTGAAAGTGTATATATGT-AGAT
1 ATGTGATGAATGTGAAAGTGTATATATGTGAGAT
76402351 GGGCATATGA
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
93 1 0.01
94 22 0.18
95 3 0.03
96 93 0.78
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCAAATAGCCG
Found at i:76404647 original size:46 final size:46
Alignment explanation
Indices: 76404582--76404669 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
76404572 TCGAAAAATT
76404582 ATTAATTTTGGTAAGTTTTGTAGGTAGGACCCATTTTGATTTGATA
1 ATTAATTTTGGTAAGTTTTGTAGGTAGGACCCATTTTGATTTGATA
* * *
76404628 ATTAATTTTGGTAAGTTTTGTATGTTGGACTCATTTTGATTT
1 ATTAATTTTGGTAAGTTTTGTAGGTAGGACCCATTTTGATTT
76404670 AATACTACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.50
Consensus pattern (46 bp):
ATTAATTTTGGTAAGTTTTGTAGGTAGGACCCATTTTGATTTGATA
Found at i:76406281 original size:13 final size:13
Alignment explanation
Indices: 76406263--76406287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76406253 TTTGCCTAAT
76406263 TTTGTTGTTGTTG
1 TTTGTTGTTGTTG
76406276 TTTGTTGTTGTT
1 TTTGTTGTTGTT
76406288 TGCCACCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (13 bp):
TTTGTTGTTGTTG
Found at i:76406564 original size:15 final size:15
Alignment explanation
Indices: 76406544--76406573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76406534 ATATACTTTT
*
76406544 ATATAAATAATAATA
1 ATATAAAAAATAATA
76406559 ATATAAAAAATAATA
1 ATATAAAAAATAATA
76406574 TGGGCGGGTC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATAAAAAATAATA
Found at i:76407940 original size:102 final size:102
Alignment explanation
Indices: 76407764--76407965 Score: 386
Period size: 102 Copynumber: 2.0 Consensus size: 102
76407754 TATCGATTAG
* *
76407764 TATCTTAACGGCATCCGTTCGTCTTTTAAACGATGCTCGATGTAATGTGGTCCATCCATGTTGAT
1 TATCTTAACGGCATCCGTTCGTCCTTTAAACGATGCTCGATGTAATGCGGTCCATCCATGTTGAT
76407829 CTCTCCCGTTGATCGCTGCCCCGTTTTCGACCAGCAA
66 CTCTCCCGTTGATCGCTGCCCCGTTTTCGACCAGCAA
76407866 TATCTTAACGGCATCCGTTCGTCCTTTAAACGATGCTCGATGTAATGCGGTCCATCCATGTTGAT
1 TATCTTAACGGCATCCGTTCGTCCTTTAAACGATGCTCGATGTAATGCGGTCCATCCATGTTGAT
76407931 CTCTCCCGTTGATCGCTGCCCCGTTTTCGACCAGC
66 CTCTCCCGTTGATCGCTGCCCCGTTTTCGACCAGC
76407966 TTCTGGATGG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.33
Consensus pattern (102 bp):
TATCTTAACGGCATCCGTTCGTCCTTTAAACGATGCTCGATGTAATGCGGTCCATCCATGTTGAT
CTCTCCCGTTGATCGCTGCCCCGTTTTCGACCAGCAA
Found at i:76409483 original size:18 final size:18
Alignment explanation
Indices: 76409442--76409486 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
76409432 AAAAATTATT
76409442 TATAAAATATCTTATTAAA
1 TATAAAA-ATCTTATTAAA
*
76409461 AATAAAAAT-TTATATAAA
1 TATAAAAATCTTAT-TAAA
76409479 TATAAAAA
1 TATAAAAA
76409487 AAGATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAAAATCTTATTAAA
Found at i:76410585 original size:13 final size:13
Alignment explanation
Indices: 76410567--76410591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76410557 TTTGCCTAAT
76410567 TTTGTTGTTGTTG
1 TTTGTTGTTGTTG
76410580 TTTGTTGTTGTT
1 TTTGTTGTTGTT
76410592 TGCCACCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (13 bp):
TTTGTTGTTGTTG
Found at i:76411138 original size:10 final size:12
Alignment explanation
Indices: 76411107--76411131 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76411097 TGGCTGCTAG
76411107 TGTAAAAACTCT
1 TGTAAAAACTCT
76411119 TGTAAAAACTCT
1 TGTAAAAACTCT
76411131 T
1 T
76411132 AAAAACTAGT
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TGTAAAAACTCT
Found at i:76418506 original size:12 final size:12
Alignment explanation
Indices: 76418467--76418507 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
76418457 AACACCAAAA
*
76418467 TTGAAAGGAAAT
1 TTGAGAGGAAAT
*
76418479 TT-AGAAGAAA-
1 TTGAGAGGAAAT
76418489 TTGAGAGGAAAT
1 TTGAGAGGAAAT
76418501 TTGAGAG
1 TTGAGAG
76418508 AGGATTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 2 0.08
11 13 0.54
12 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.24
Consensus pattern (12 bp):
TTGAGAGGAAAT
Found at i:76427151 original size:66 final size:64
Alignment explanation
Indices: 76427080--76427290 Score: 203
Period size: 66 Copynumber: 3.4 Consensus size: 64
76427070 AAATATATTT
76427080 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
76427145 G
64 G
* * * * **
76427146 AATATTAATTATTAAGAATTTTA-TTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
76427200 AATAATAATTATGTT-AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
76427264 AG
63 AG
*
76427266 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
76427291 AATTATATAT
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:76427202 original size:15 final size:15
Alignment explanation
Indices: 76427167--76427218 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
76427157 TTAAGAATTT
*
76427167 TATTAAATTAT-ATA
1 TATTTAATTATAATA
76427181 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
76427195 TATTTAATAATAAT-
1 TATTTAATTATAATA
76427209 TATGTTAATT
1 TAT-TTAATT
76427219 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:76427302 original size:16 final size:16
Alignment explanation
Indices: 76427295--76427336 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
76427285 TTTATTAATT
76427295 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
76427311 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
76427326 AT-TATGTTTAA
1 ATATAT-TTTAA
76427337 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:76427307 original size:13 final size:15
Alignment explanation
Indices: 76427289--76427327 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
76427279 AAGAATTTTA
76427289 TTAATTAT-ATAT-T
1 TTAATTATAATATAT
76427302 TTAATTATAATATAT
1 TTAATTATAATATAT
*
76427317 TTAATAATAAT
1 TTAATTATAAT
76427328 TATGTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTATAATATAT
Found at i:76427333 original size:119 final size:120
Alignment explanation
Indices: 76427060--76427338 Score: 476
Period size: 120 Copynumber: 2.3 Consensus size: 120
76427050 TAAACAATAA
* *
76427060 ATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCATTTATAGTATCATATATTAT
1 ATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATTTATAGTATCATATATTAT
76427124 GATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
65 GATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
76427180 ATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATTTTATAGTATCATATATTA
1 ATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-TTTATAGTATCATATATTA
76427243 TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT-AATTATAT
64 TGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
76427299 ATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 ATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
76427339 ATGATTAAAT
Statistics
Matches: 152, Mismatches: 2, Indels: 9
0.93 0.01 0.06
Matches are distributed among these distances:
119 47 0.31
120 100 0.66
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
ATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTTATAGTATCATATATTATG
ATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
Found at i:76427467 original size:18 final size:17
Alignment explanation
Indices: 76427439--76427473 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76427429 ATTATTAAGA
*
76427439 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
76427456 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
76427474 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:76427479 original size:157 final size:156
Alignment explanation
Indices: 76427271--76427579 Score: 564
Period size: 157 Copynumber: 2.0 Consensus size: 156
76427261 ATAAGAATAT
*
76427271 TAATTATTAAGAATTTTATTAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTTATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
* *
76427336 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
76427401 AATAATTTACCAAAACAAATTTCTGC
131 AATAATTTACCAAAACAAATTTCTGC
76427427 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATT-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
76427492 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACCA
65 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
76427557 TAATCATTTACCAAAACAAATTT
130 TAATAATTTACCAAAACAAATTT
76427580 ATGTTAAGGG
Statistics
Matches: 147, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 20 0.14
157 127 0.86
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTCTGC
Found at i:76427729 original size:16 final size:16
Alignment explanation
Indices: 76427708--76427759 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
76427698 GATTTGCTAT
76427708 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
76427724 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
* * *
76427740 TACGCGTCTAATCTAA
1 TACACCTCTAATCCAA
76427756 TACA
1 TACA
76427760 GCGAACCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:76436680 original size:145 final size:145
Alignment explanation
Indices: 76436439--76436747 Score: 609
Period size: 145 Copynumber: 2.1 Consensus size: 145
76436429 TGTGTCAGAC
76436439 TTAAAAAAATTATTTTTTTGGGTTCTGGCCTGTCAATGGCCCAGAACCCATGTATTTTTTTTAAA
1 TTAAAAAAATTATTTTTTTGGGTTCTGGCCTGTCAATGGCCCAGAACCCATGTATTTTTTTTAAA
*
76436504 ATTGTATAATACTGATATACGAAAAAGAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
66 ATTGTATAATACTGATATACGAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
76436569 CCCAGTACAAATTTT
131 CCCAGTACAAATTTT
76436584 TTAAAAAAATTATTTTTTTGGGTTCTGGCCTGTCAATGGCCCAGAACCCATGTATTTTTTTTAAA
1 TTAAAAAAATTATTTTTTTGGGTTCTGGCCTGTCAATGGCCCAGAACCCATGTATTTTTTTTAAA
76436649 ATTGTATAATACTGATATACGAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
66 ATTGTATAATACTGATATACGAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
76436714 CCCAGTACAAATTTT
131 CCCAGTACAAATTTT
76436729 TTAAAAAAATTATTTTTTT
1 TTAAAAAAATTATTTTTTT
76436748 CGTATATTTA
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 163 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (145 bp):
TTAAAAAAATTATTTTTTTGGGTTCTGGCCTGTCAATGGCCCAGAACCCATGTATTTTTTTTAAA
ATTGTATAATACTGATATACGAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCA
CCCAGTACAAATTTT
Found at i:76436857 original size:104 final size:106
Alignment explanation
Indices: 76436740--76436939 Score: 280
Period size: 110 Copynumber: 1.9 Consensus size: 106
76436730 TAAAAAAATT
* *
76436740 ATTTTTTTCGTATATTTATATTTGACTCTGACACGAAAAAAA-AA-TTTAAATTTGTACTGGGTG
1 ATTTTTTTCGTATATTTATATATGACTCTGACACAAAAAAAAGAATTTTAAATTTGTACTGGGTG
*
76436803 -CAGGCCATTGATAGGCCAGCACCCAAAAAAAATTTTTTTTA
66 CCA-GCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTA
* * *
76436844 ATTTTTTTCGTATATTTATATATGATTTTGACACAAAAAAAAGAATTTTTTTTTAATTTGTACTG
1 ATTTTTTTCGTATATTTATATATGACTCTGACACAAAAAAAAGAA----TTTTAAATTTGTACTG
76436909 GGTGCCAGCCATTGACAGGCCAGCACCCAAA
62 GGTGCCAGCCATTGACAGGCCAGCACCCAAA
76436940 TTTTTTTTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
104 38 0.46
105 2 0.02
110 41 0.49
111 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (106 bp):
ATTTTTTTCGTATATTTATATATGACTCTGACACAAAAAAAAGAATTTTAAATTTGTACTGGGTG
CCAGCCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTA
Found at i:76438328 original size:108 final size:108
Alignment explanation
Indices: 76438186--76438743 Score: 718
Period size: 111 Copynumber: 5.1 Consensus size: 108
76438176 GACCCAACAG
** * *
76438186 TAAAAAAATTTTACTTTTTTTTCATTTCAGAGTCAGATATAAATATACGGAAAAAATTTAAAAAA
1 TAAAAAAA-TTT-CTTTTTTTTTGTGTCAGAGTCAGATATAAATATACGAAAAAAATTTAAAAAA
* * * *
76438251 AAATTTTGGTTGGTGGCCTGTTAATGGCCGGCACCTAGTACAATT
64 AAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
*
76438296 TAAAAAAATTTCTTTTTTTTTGTGTCAAAGTCAGATATAAATATACGAAAAAAATTTAAAAAAAA
1 TAAAAAAATTTCTTTTTTTTTGTGTCAGAGTCAGATATAAATATACGAAAAAAATTT-AAAAAAA
*
76438361 AAGTTTTTTTTGGGTG-TTGCCTGTCAATGGCCGGCACCCAGTACAAATTT
65 AA-----TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AA-TT
*
76438411 TAAAAAAAAATTCTTTTTTTTTGTGTCAGAGTCAGATATAAATATACGAAAAAAA-TTAAAAAAA
1 T-AAAAAAATTTCTTTTTTTTTGTGTCAGAGTCAGATATAAATATACGAAAAAAATTTAAAAAAA
* *
76438475 ATTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAGTACAAATT
65 A--ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AATT
* * *
76438522 T--AAAAA--TATTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTT-TAAAAAA
1 TAAAAAAATTTCTTTTTTTTTGTGTCAGAGTCAGATATAAATATACGAAAAAAATTTAAAAAAAA
76438582 ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT
66 ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TT
* * *
76438626 TAAAAAAATTTCTTTTTTTTT-TCGCATCAAAGTCAGATATAAATATACGAAAAAAACTAAAAAA
1 TAAAAAAATTTCTTTTTTTTTGT-G--TCAGAGTCAGATATAAATATACGAAAAAAATTTAAAAA
*
76438690 AAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAT
63 AAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
76438736 TAAAAAAA
1 TAAAAAAA
76438744 AAATTTAAAT
Statistics
Matches: 400, Mismatches: 26, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
103 2 0.00
104 40 0.10
106 53 0.13
107 3 0.01
108 56 0.14
109 12 0.03
110 47 0.12
111 59 0.15
112 29 0.07
113 25 0.06
114 18 0.05
115 5 0.01
116 51 0.13
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (108 bp):
TAAAAAAATTTCTTTTTTTTTGTGTCAGAGTCAGATATAAATATACGAAAAAAATTTAAAAAAAA
ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
Found at i:76438675 original size:216 final size:216
Alignment explanation
Indices: 76438216--76438742 Score: 717
Period size: 215 Copynumber: 2.4 Consensus size: 216
76438206 TTCATTTCAG
* * * *
76438216 AGTCAGATATAAATATACGGAAAAAATTTAAAAAAAAATTTTGGTTGGTGGCCTGTTAATGGCCG
1 AGTCAGATATAAATATAC-GAAAAAAATTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG
* * *
76438281 GCACCTAGTAC-AATTTAAAAAAATTTCTTTTTTTTTGTGTCAAAGTCAGATATAAATATACGAA
65 GCACCCAGTACAAATTT--AAAAA-TTATTTTTTTTCGTGTCAAAGTCAGATATAAATATACGAA
*
76438345 AAAAATTTAAAAAAAAAAGTTTTTTTTGGGTGTTGCCTGTCAATGGCCGGCACCCAGTACAAATT
127 AAAAATTT-AAAAAAAAA----TTTTTGGGTGTGGCCTGTCAATGGCCGGCACCCAGTACAAATT
*
76438410 TTAAAAAAAAATTCTTTTTTTTTGTGTCAG
187 TTAAAAAAAAATTCTTTTTTTTTGTGTCAA
* *
76438440 AGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTTGGGTGCAGGCCTGTCAATGGCC
1 AGTCAGATATAAATATACGAAAAAAATTAAAAAAAA--ATTTTGGGTGCTGGCCTGTCAATGGCC
*
76438505 GGCACCCAGTACAAATTTAAAAA-TATTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAA
64 GGCACCCAGTACAAATTTAAAAATTATTTTTTTTCGTGTCAAAGTCAGATATAAATATACGAAAA
*
76438569 AAATTT-TAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AATTTT-AAA
129 AAATTTAAAAAAAAATTTTTGGGTG-TGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAA
*
76438630 AAAATTTCTTTTTTTTT-TCGCATCAA
193 AAAAATTCTTTTTTTTTGT-G--TCAA
*
76438656 AGTCAGATATAAATATACGAAAAAAACTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG
1 AGTCAGATATAAATATACGAAAAAAA-TTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG
*
76438721 GCACCCAGTACAAATTAAAAAA
65 GCACCCAGTACAAATTTAAAAA
76438743 AAAATTTAAA
Statistics
Matches: 277, Mismatches: 18, Indels: 25
0.87 0.06 0.08
Matches are distributed among these distances:
213 1 0.00
214 20 0.07
215 62 0.22
216 56 0.20
217 9 0.03
220 7 0.03
222 44 0.16
223 17 0.06
224 23 0.08
225 33 0.12
226 5 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (216 bp):
AGTCAGATATAAATATACGAAAAAAATTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGG
CACCCAGTACAAATTTAAAAATTATTTTTTTTCGTGTCAAAGTCAGATATAAATATACGAAAAAA
ATTTAAAAAAAAATTTTTGGGTGTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTTAAAAAAA
AATTCTTTTTTTTTGTGTCAA
Found at i:76439000 original size:105 final size:102
Alignment explanation
Indices: 76438753--76439067 Score: 353
Period size: 105 Copynumber: 3.0 Consensus size: 102
76438743 AAAATTTAAA
* *
76438753 TTTTTTTCGTATATTTATATTTGACTCTGACACGAAAAAAAAAG-AATTTTTTTTTTAATTTATA
1 TTTTTTTCGTATATTTATA--TGACTCTGACACGAAAAAAAAAGAAATTTTTTTTTTAAATTGTA
76438817 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTTT
64 CTGGGTGCCGGCCATTGACAGGCCAGCACCC-----AAATTTTT
*
76438861 AATTTTTTTTGTATA-TT-TAT-A-TCTGACACG-AAAAAAAAGAAATTTTTTTTTTAAAATTGT
1 --TTTTTTTCGTATATTTATATGACTCTGACACGAAAAAAAAAGAAATTTTTTTTTT-AAATTGT
76438921 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTT
63 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTT
* * * *
76438961 TTTTTTTCATATATTTATATCCGACTCTGACACGAAAAAAAAAGTAAAAATATTTTTTT--ACTG
1 TTTTTTTCGTATATTTATAT--GACTCTGACACGAAAAAAAAAG--AAATTTTTTTTTTAAATTG
* *
76439024 T--TGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTT
62 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTT
76439063 TTTTT
1 TTTTT
76439068 CTTTTTTTTT
Statistics
Matches: 184, Mismatches: 10, Indels: 30
0.82 0.04 0.13
Matches are distributed among these distances:
98 11 0.06
99 2 0.01
100 11 0.06
102 41 0.22
103 10 0.05
104 34 0.18
105 47 0.26
106 1 0.01
107 11 0.06
108 2 0.01
109 2 0.01
110 12 0.07
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (102 bp):
TTTTTTTCGTATATTTATATGACTCTGACACGAAAAAAAAAGAAATTTTTTTTTTAAATTGTACT
GGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTT
Found at i:76439075 original size:11 final size:10
Alignment explanation
Indices: 76439059--76439083 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
76439049 GCACCCAAAA
76439059 TTTTTTTTTC
1 TTTTTTTTTC
76439069 TTTTTTTTTC
1 TTTTTTTTTC
76439079 TTTTT
1 TTTTT
76439084 CGTATATCAG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:76440824 original size:26 final size:26
Alignment explanation
Indices: 76440793--76440845 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
76440783 GAATTTGAAG
76440793 AATGATATTTTTAATGTTCTCTTGCA
1 AATGATATTTTTAATGTTCTCTTGCA
76440819 AATGATATTTTTAATGTTCTCTTGCA
1 AATGATATTTTTAATGTTCTCTTGCA
76440845 A
1 A
76440846 GACAGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (26 bp):
AATGATATTTTTAATGTTCTCTTGCA
Found at i:76447472 original size:31 final size:31
Alignment explanation
Indices: 76447437--76447505 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
76447427 GCTAAACAAC
* *
76447437 CCGGGATGGTAAGTCATCGTTGTCGGGTAAT
1 CCGGGATGGCAAGTCATCGTTGTCGGGCAAT
*
76447468 CCGGGGTGGCAAGTCATCGTTGTCGGGCAAT
1 CCGGGATGGCAAGTCATCGTTGTCGGGCAAT
76447499 CCGGGAT
1 CCGGGAT
76447506 AATAGATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.38, T:0.25
Consensus pattern (31 bp):
CCGGGATGGCAAGTCATCGTTGTCGGGCAAT
Found at i:76452224 original size:31 final size:31
Alignment explanation
Indices: 76452186--76452246 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
76452176 AGCCCATTTT
76452186 TATTTTAAAA-ATTTTTAAAAATTAAAAAAAG
1 TATTTTAAAATATTTTT-AAAATTAAAAAAAG
76452217 TATTTTAAAATATTTTTAAAATTAAAAAAA
1 TATTTTAAAATATTTTTAAAATTAAAAAAA
76452247 TTAAAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAATATTTTTAAAATTAAAAAAAG
Found at i:76452283 original size:17 final size:17
Alignment explanation
Indices: 76452261--76452322 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
76452251 AAAAAGTATT
76452261 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
* **
76452278 TTAAAAAAATTAAAAAAGTA
1 TTAAAAATATT-TTAAA--A
76452298 TGTAAAAATATTTTAAAA
1 T-TAAAAATATTTTAAAA
76452316 TTAAAAA
1 TTAAAAA
76452323 AATATTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 16 0.46
18 5 0.14
20 5 0.14
21 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:76452284 original size:39 final size:40
Alignment explanation
Indices: 76452202--76452325 Score: 209
Period size: 40 Copynumber: 3.1 Consensus size: 40
76452192 AAAAATTTTT
76452202 AAAAATTAAAAAAAGTATTTT-AAAATATTTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATA-TTTTAAAATTAA
76452242 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
76452282 AAAAATT-AAAAAAGTA-TGTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
76452320 AAAAAT
1 AAAAAT
76452326 ATTTATTATT
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 27 0.33
39 9 0.11
40 40 0.49
41 6 0.07
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:76452287 original size:19 final size:18
Alignment explanation
Indices: 76452263--76452329 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
76452253 AAAGTATTTT
76452263 AAAAATATTTTAAAATTA
1 AAAAATATTTTAAAATTA
** *
76452281 AAAAA-ATTAAAAAAGTATGT
1 AAAAATATTTTAAAA-T-T-A
76452301 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATT-A
76452320 AAAAATATTT
1 AAAAATATTT
76452330 ATTATTTCGG
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
17 7 0.18
18 6 0.16
19 12 0.32
20 6 0.16
21 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATATTTTAAAATTA
Found at i:76452842 original size:21 final size:23
Alignment explanation
Indices: 76452801--76452856 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
76452791 ATTAAACATA
76452801 AATAAAAAAAATTATATAAT-CT
1 AATAAAAAAAATTATATAATCCT
*
76452823 ACTAAAAACAAATTA-A-AATCCT
1 AATAAAAA-AAATTATATAATCCT
76452845 AATAAAATAAAA
1 AATAAAA-AAAA
76452857 GTCAAATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 3 0.10
22 19 0.66
23 7 0.24
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
AATAAAAAAAATTATATAATCCT
Found at i:76455129 original size:19 final size:21
Alignment explanation
Indices: 76455104--76455150 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
76455094 TTTGTTATTG
*
76455104 AATTTTTATG-AACTTTTTAT
1 AATTTTTATGAAAATTTTTAT
76455124 -ATTTTT-TGAAAATTTTTAT
1 AATTTTTATGAAAATTTTTAT
76455143 AATTTTTA
1 AATTTTTA
76455151 AATTATTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.09
19 15 0.65
20 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
AATTTTTATGAAAATTTTTAT
Found at i:76456086 original size:60 final size:61
Alignment explanation
Indices: 76455943--76456095 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 61
76455933 CCTTTGGTCT
* *
76455943 CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCTTTTTCTTTTTTCTTTTTTTTTGACT
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTGG-CTCT-CTTTTTCTCTTTTCTTTTTTTTTGACC
* * * * *
76456006 CAAAGCGCTCTTTACAGGTTTTCACCTTTG-TCT-TTTTT-TCTTTTCTTTTTTTTTAAGACC
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCTCTCTTTTTCTCTTTTCTTTTTTTTT--GACC
*
76456066 CAAGGCGCCCTTTGTGGGTTTTCACCTTGG
1 CAAGGCGCCCTTTGCGGGTTTTCACCTTGG
76456096 TTTCTTCTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
58 15 0.20
59 5 0.07
60 27 0.36
61 3 0.04
63 25 0.33
ACGTcount: A:0.10, C:0.25, G:0.16, T:0.48
Consensus pattern (61 bp):
CAAGGCGCCCTTTGCGGGTTTTCACCTTGGCTCTCTTTTTCTCTTTTCTTTTTTTTTGACC
Found at i:76457913 original size:19 final size:20
Alignment explanation
Indices: 76457889--76457935 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
76457879 TGTGAAAATC
*
76457889 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
76457908 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
76457928 -AATGCAAA
1 TAATGCAAA
76457936 AAGAAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:76459942 original size:73 final size:74
Alignment explanation
Indices: 76459789--76459926 Score: 235
Period size: 73 Copynumber: 1.9 Consensus size: 74
76459779 TCTCGGATTT
* *
76459789 AGAAAAG-GAATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAA
1 AGAAAAGAGAATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
76459853 AACTTAAAG
66 AACTTAAAG
*
76459862 AAAAAAGAG-ATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
1 AGAAAAGAGAATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
76459926 A
66 A
76459927 CTTGAGTTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (74 bp):
AGAAAAGAGAATCATACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
AACTTAAAG
Found at i:76460846 original size:124 final size:124
Alignment explanation
Indices: 76460634--76460996 Score: 532
Period size: 124 Copynumber: 2.9 Consensus size: 124
76460624 GGTCTGGGAA
* *
76460634 GAAATAA-TTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCGCATATAGCAGGATGCTATTTG
1 GAAATAATTTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG
* *
76460698 AGAAGAAATTT-TGAAATCGCGCCCTCGTGGACGCGCTCTTGCTACAGTAGGTCATGGAT
66 AGAAG-AATTTGTAAAATCGCGCCCTCGTGGACGCGCTATTGCTACAGTAGGTCATGGAT
* * *
76460757 GAAATAATTTTTTTTGACCTTTCTGAGAAAATAGTATAAATTCGCTTCTAGCAAGATGCTATTTG
1 GAAATAATTTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG
* * **
76460822 AGAAGAATTTGTAAAATCGTGCCCTTGTGGACGCGGAATTGCTACAGTAGGTCATGGAT
66 AGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTATTGCTACAGTAGGTCATGGAT
* *
76460881 GAAATAATTTTTTTTTACCTTTCCGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG
1 GAAATAATTTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG
* * * * *
76460946 AAAAGAATTTGTGAAATTTGCGCCCTCGAGGACGCGCTTTTGCTACAGTAG
66 AGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTATTGCTACAGTAG
76460997 CATGTTTGGG
Statistics
Matches: 212, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
123 12 0.06
124 170 0.80
125 30 0.14
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (124 bp):
GAAATAATTTTTTTTGACCTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG
AGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTATTGCTACAGTAGGTCATGGAT
Found at i:76464441 original size:20 final size:20
Alignment explanation
Indices: 76464404--76464441 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
76464394 TTTATTTTTA
*
76464404 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
76464424 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
76464442 TACCTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:76465432 original size:51 final size:51
Alignment explanation
Indices: 76465373--76465507 Score: 173
Period size: 51 Copynumber: 2.6 Consensus size: 51
76465363 TATTTTAAAA
* * *
76465373 AAGGAAATTGAGAGCAAATTGAAATTAAATATGGGTTTGA-GAGATTTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTT-ATGAGAATTTTGG
* * *
76465424 AATGAAATTGAGAGGAAATTGAAATTAATTATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
* * *
76465475 AAGGAAATTTAGAGAAAATTGAGATGAAATATG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATG
76465508 AGAGAGGATT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 1 0.01
51 71 0.99
ACGTcount: A:0.43, C:0.01, G:0.25, T:0.31
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:76465812 original size:25 final size:26
Alignment explanation
Indices: 76465783--76465840 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
76465773 TAAAATGCCC
76465783 ATGTATATAGATATAAATTA-AAAAT
1 ATGTATATAGATATAAATTATAAAAT
* * *
76465808 ATGTATGTATATGTAAATTATAAAAT
1 ATGTATATAGATATAAATTATAAAAT
*
76465834 ATATATA
1 ATGTATA
76465841 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.40
Consensus pattern (26 bp):
ATGTATATAGATATAAATTATAAAAT
Found at i:76465850 original size:26 final size:27
Alignment explanation
Indices: 76465796--76465866 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
76465786 TATATAGATA
* *
76465796 TAAATTA-AAAATATGTAT-GTATATG
1 TAAATTATAAAATATATATAATATATG
*
76465821 TAAATTATAAAATATATATAATAT-TT
1 TAAATTATAAAATATATATAATATATG
*
76465847 TAAAATATAAAGA-ATATATA
1 TAAATTATAAA-ATATATATA
76465867 CAAGTATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 7 0.18
26 28 0.72
27 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (27 bp):
TAAATTATAAAATATATATAATATATG
Found at i:76465852 original size:19 final size:18
Alignment explanation
Indices: 76465815--76465855 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
76465805 AATATGTATG
*
76465815 TATATGTAAATTATAAAA
1 TATATATAAATTATAAAA
*
76465833 TATATATAATATTTTAAAA
1 TATATATAA-ATTATAAAA
76465852 TATA
1 TATA
76465856 AAGAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TATATATAAATTATAAAA
Found at i:76465941 original size:25 final size:25
Alignment explanation
Indices: 76465908--76465988 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
76465898 ATATGTAGGT
76465908 ATATAAAAATTATGAAATATGAAA-A
1 ATATAAAAATTATGAAATAT-AAAGA
* *
76465933 ATATAAAAA-TATG-TATATAAATGT
1 ATATAAAAATTATGAAATATAAA-GA
76465957 ATATAAAAATTATGAAA-ATAAAGTA
1 ATATAAAAATTATGAAATATAAAG-A
76465982 ATATAAA
1 ATATAAA
76465989 TATATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
22 3 0.06
23 4 0.09
24 14 0.30
25 25 0.53
26 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (25 bp):
ATATAAAAATTATGAAATATAAAGA
Found at i:76465968 original size:49 final size:48
Alignment explanation
Indices: 76465906--76466003 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 48
76465896 ATATATGTAG
*
76465906 GTATATAAAAATTATGAAATATGAAA-AATATAAAAATATGTATATAAAT
1 GTATATAAAAATTATGAAA-AT-AAAGAATATAAAAATATATATATAAAT
*
76465955 GTATATAAAAATTATGAAAATAAAGTAATATAAATATATATATATAAAT
1 GTATATAAAAATTATGAAAATAAAG-AATATAAAAATATATATATAAAT
76466004 ATGTGTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 3 0.07
48 2 0.04
49 40 0.89
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (48 bp):
GTATATAAAAATTATGAAAATAAAGAATATAAAAATATATATATAAAT
Found at i:76465976 original size:33 final size:34
Alignment explanation
Indices: 76465924--76466005 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 34
76465914 AAATTATGAA
* *
76465924 ATATGAAAAATATAAAAAT-ATGT-ATATAAATGT
1 ATAT-AAAAATATAAAAATAAAGTAATATAAATAT
*
76465957 ATATAAAAATTATGAAAATAAAGTAATATAAATAT
1 ATATAAAAA-TATAAAAATAAAGTAATATAAATAT
76465992 ATATATATAAATAT
1 ATATA-A-AAATAT
76466006 GTGTATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 5 0.12
33 12 0.29
34 3 0.07
35 14 0.34
36 4 0.10
37 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (34 bp):
ATATAAAAATATAAAAATAAAGTAATATAAATAT
Found at i:76466729 original size:14 final size:16
Alignment explanation
Indices: 76466710--76466742 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
76466700 ATATATTTTT
76466710 TATATTTA-T-ATGCA
1 TATATTTATTGATGCA
76466724 TATATTTATTGATGCA
1 TATATTTATTGATGCA
76466740 TAT
1 TAT
76466743 TCTAAGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (16 bp):
TATATTTATTGATGCA
Found at i:76467751 original size:13 final size:13
Alignment explanation
Indices: 76467735--76467759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76467725 AAAATTAATA
76467735 AACCCAATTACCC
1 AACCCAATTACCC
76467748 AACCCAATTACC
1 AACCCAATTACC
76467760 ATTTACCAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:76467789 original size:23 final size:23
Alignment explanation
Indices: 76467763--76467833 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
76467753 AATTACCATT
76467763 TACCAACACAACAAACTAAAGTC
1 TACCAACACAACAAACTAAAGTC
* *
76467786 TACC--CA-AACCCAATTAACA-TC
1 TACCAACACAA-CAAACTAA-AGTC
* *
76467807 TACCAACCCAATAAACTAAAGTC
1 TACCAACACAACAAACTAAAGTC
76467830 TACC
1 TACC
76467834 CAAACCCGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 2 0.06
23 16 0.44
24 2 0.06
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.17
Consensus pattern (23 bp):
TACCAACACAACAAACTAAAGTC
Found at i:76467798 original size:44 final size:44
Alignment explanation
Indices: 76467743--76467853 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 44
76467733 TAAACCCAAT
76467743 TACCC-AACCCAATTACCATTTACCAACACAACAAACTAAAGTC
1 TACCCAAACCCAATTACCATTTACCAACACAACAAACTAAAGTC
* * * *
76467786 TACCCAAACCCAATTAACATCTACCAACCCAATAAACTAAAGTC
1 TACCCAAACCCAATTACCATTTACCAACACAACAAACTAAAGTC
*
76467830 TACCCAAACCCGATTACCATTTAC
1 TACCCAAACCCAATTACCATTTAC
76467854 TAATTACTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
43 5 0.08
44 55 0.92
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (44 bp):
TACCCAAACCCAATTACCATTTACCAACACAACAAACTAAAGTC
Found at i:76467839 original size:25 final size:25
Alignment explanation
Indices: 76467775--76467840 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 25
76467765 CCAACACAAC
76467775 AAACTAAAGTCTACCCAAACCCAAT
1 AAACTAAAGTCTACCCAAACCCAAT
*
76467800 TAAC---A-TCTA-CC-AACCCAAT
1 AAACTAAAGTCTACCCAAACCCAAT
76467819 AAACTAAAGTCTACCCAAACCC
1 AAACTAAAGTCTACCCAAACCC
76467841 GATTACCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
19 11 0.33
20 2 0.06
21 4 0.12
22 2 0.06
23 4 0.12
24 2 0.06
25 8 0.24
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.17
Consensus pattern (25 bp):
AAACTAAAGTCTACCCAAACCCAAT
Found at i:76468482 original size:23 final size:23
Alignment explanation
Indices: 76468452--76468527 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
76468442 GTAATTCCAT
76468452 TTTATGAATTTATGGCTTTCTAG
1 TTTATGAATTTATGGCTTTCTAG
*** *** * *
76468475 TTTATGAAAGCA-GTAATTCCAC
1 TTTATGAATTTATGGCTTTCTAG
76468497 TTTATGAATTTATGGCTTTCTAG
1 TTTATGAATTTATGGCTTTCTAG
76468520 TTTATGAA
1 TTTATGAA
76468528 AGCAGTAATT
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (23 bp):
TTTATGAATTTATGGCTTTCTAG
Found at i:76468485 original size:45 final size:45
Alignment explanation
Indices: 76468430--76468537 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
76468420 AATTTATGAA
*
76468430 TTTATGAAAGCAGTAATTCCATTTTATGAATTTATGGCTTTCTAG
1 TTTATGAAAGCAGTAATTCCACTTTATGAATTTATGGCTTTCTAG
76468475 TTTATGAAAGCAGTAATTCCACTTTATGAATTTATGGCTTTCTAG
1 TTTATGAAAGCAGTAATTCCACTTTATGAATTTATGGCTTTCTAG
76468520 TTTATGAAAGCAGTAATT
1 TTTATGAAAGCAGTAATT
76468538 ATTATGGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTATGAAAGCAGTAATTCCACTTTATGAATTTATGGCTTTCTAG
Found at i:76468503 original size:22 final size:22
Alignment explanation
Indices: 76468430--76468504 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
76468420 AATTTATGAA
*
76468430 TTTATGAAAGCAGTAATTCCAT
1 TTTATGAAAGCAGTAATTCCAC
*** *** * *
76468452 TTTATGAATTTATGGCTTTCTAG
1 TTTATGAAAGCA-GTAATTCCAC
76468475 TTTATGAAAGCAGTAATTCCAC
1 TTTATGAAAGCAGTAATTCCAC
76468497 TTTATGAA
1 TTTATGAA
76468505 TTTATGGCTT
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (22 bp):
TTTATGAAAGCAGTAATTCCAC
Found at i:76471123 original size:17 final size:17
Alignment explanation
Indices: 76471103--76471237 Score: 72
Period size: 17 Copynumber: 7.4 Consensus size: 17
76471093 ATTTTAAGAC
76471103 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
76471120 TTATCTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
76471139 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
76471157 TTATGTAGTGATTCAAAGAA
1 TTATGTAATG-TT--TTTAA
76471177 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
76471194 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
76471213 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
76471231 TTATGTA
1 TTATGTA
76471238 GTGATTCAAA
Statistics
Matches: 83, Mismatches: 26, Indels: 18
0.65 0.20 0.14
Matches are distributed among these distances:
17 35 0.42
18 10 0.12
19 10 0.12
20 28 0.34
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:76471139 original size:37 final size:37
Alignment explanation
Indices: 76471098--76471280 Score: 330
Period size: 37 Copynumber: 4.9 Consensus size: 37
76471088 TGTTAATTTT
*
76471098 AAGACTTATGTAATGTTTTTAATTATCTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
76471135 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
76471172 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
76471209 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
76471246 AAGACTTATGTAATTTTTTTAACTATGTAGTGATT
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATT
76471281 TAAAATCGGT
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 141 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:76471297 original size:9 final size:9
Alignment explanation
Indices: 76471283--76471352 Score: 85
Period size: 8 Copynumber: 8.2 Consensus size: 9
76471273 TAGTGATTTA
76471283 AAATCGGTT
1 AAATCGGTT
76471292 AAATCGGTT
1 AAATCGGTT
*
76471301 -AATTGGTT
1 AAATCGGTT
*
76471309 -AATTGGTT
1 AAATCGGTT
76471317 -AATCGGTT
1 AAATCGGTT
76471325 AAATCGGTT
1 AAATCGGTT
*
76471334 AAATCTGTT
1 AAATCGGTT
76471343 -AATCGGTT
1 AAATCGGTT
76471351 AA
1 AA
76471353 TTTTTAACCA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
8 29 0.53
9 26 0.47
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (9 bp):
AAATCGGTT
Found at i:76471310 original size:17 final size:16
Alignment explanation
Indices: 76471288--76471354 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 16
76471278 ATTTAAAATC
76471288 GGTTAAATCGGTTAATT
1 GGTT-AATCGGTTAATT
* *
76471305 GGTTAATTGGTTAATC
1 GGTTAATCGGTTAATT
76471321 GGTTAAATCGGTTAAATCT
1 GGTT-AATCGGTT-AAT-T
76471340 -GTTAATCGGTTAATT
1 GGTTAATCGGTTAATT
76471355 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 1 0.02
16 17 0.40
17 19 0.44
18 6 0.14
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (16 bp):
GGTTAATCGGTTAATT
Found at i:76472552 original size:21 final size:22
Alignment explanation
Indices: 76472510--76472555 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
76472500 TGTTATAGTT
**
76472510 AATGACCAAATTTAACTTAAAA
1 AATGACCAAATTTAACAAAAAA
*
76472532 AATGACCTAA-TTAACAAAAAA
1 AATGACCAAATTTAACAAAAAA
76472553 AAT
1 AAT
76472556 ATAAACGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.13, G:0.04, T:0.24
Consensus pattern (22 bp):
AATGACCAAATTTAACAAAAAA
Found at i:76475423 original size:32 final size:29
Alignment explanation
Indices: 76475363--76475424 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 29
76475353 TAATAATTAT
*
76475363 TAAATGATTAAAATTTATTTTACCTTAAA
1 TAAATGATTAAAATTTATTTTACATTAAA
*
76475392 TAAATTATTAAAAATTTTATATTTACATTAAA
1 TAAATGATT-AAAA-TTTAT-TTTACATTAAA
76475424 T
1 T
76475425 TTATCATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.29
30 4 0.14
31 5 0.18
32 11 0.39
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (29 bp):
TAAATGATTAAAATTTATTTTACATTAAA
Found at i:76476521 original size:30 final size:29
Alignment explanation
Indices: 76476487--76476554 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
76476477 TTACGGTTTT
* * *
76476487 ATTATAAAAATAATATTAGAAAACTAATTA
1 ATTATAAAAATAAGATGA-AAAACAAATTA
* *
76476517 ATTATAAAAATGAGGTGAAAAACAAATTA
1 ATTATAAAAATAAGATGAAAAACAAATTA
76476546 ATTATAAAA
1 ATTATAAAA
76476555 TTAAAGTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (29 bp):
ATTATAAAAATAAGATGAAAAACAAATTA
Found at i:76478263 original size:20 final size:21
Alignment explanation
Indices: 76478218--76478256 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
76478208 TAAAATTTTA
76478218 GAAAAAAATATATAAAAAAGG
1 GAAAAAAATATATAAAAAAGG
*
76478239 GAAAAAAAT-TATCAAAAA
1 GAAAAAAATATATAAAAAA
76478257 TGTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (21 bp):
GAAAAAAATATATAAAAAAGG
Found at i:76478265 original size:18 final size:17
Alignment explanation
Indices: 76478242--76478282 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
76478232 AAAAAGGGAA
76478242 AAAAATTATCAAAAATGT
1 AAAAATTATCAAAAAT-T
* *
76478260 AAAAATTATTAAATATT
1 AAAAATTATCAAAAATT
76478277 AAAAAT
1 AAAAAT
76478283 ATGACAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATTATCAAAAATT
Found at i:76478344 original size:20 final size:21
Alignment explanation
Indices: 76478321--76478365 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
76478311 TAAACTTAAT
* *
76478321 TAAACAGAT-TTAAAATTTTA
1 TAAACACATATTAAAATTCTA
76478341 TAAACACATATTAAAATTCTA
1 TAAACACATATTAAAATTCTA
76478362 TAAA
1 TAAA
76478366 AGTCATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAACACATATTAAAATTCTA
Found at i:76479039 original size:21 final size:23
Alignment explanation
Indices: 76479013--76479069 Score: 91
Period size: 21 Copynumber: 2.5 Consensus size: 23
76479003 TATAGATAAC
76479013 ATAATTTTATAAAGAAAA-TG-T
1 ATAATTTTATAAAGAAAAGTGTT
76479034 ATAATTTTATAAAGAAAATGTGTT
1 ATAATTTTATAAAGAAAA-GTGTT
76479058 ATAATTTTATAA
1 ATAATTTTATAA
76479070 TATTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.55
23 2 0.06
24 13 0.39
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (23 bp):
ATAATTTTATAAAGAAAAGTGTT
Found at i:76480440 original size:16 final size:16
Alignment explanation
Indices: 76480419--76480487 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
76480409 TTTGGTTCGC
76480419 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
76480435 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
76480451 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
76480468 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
76480484 TGTA
1 TGTA
76480488 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:76480465 original size:33 final size:32
Alignment explanation
Indices: 76480419--76480487 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
76480409 TTTGGTTCGC
76480419 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
76480451 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
76480484 TGTA
1 TGTA
76480488 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:76480552 original size:44 final size:45
Alignment explanation
Indices: 76480468--76480558 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
76480458 GGATTAGAGG
* * *
76480468 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
76480513 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
76480557 TG
1 TG
76480559 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:76480810 original size:157 final size:157
Alignment explanation
Indices: 76480610--76480926 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
76480600 TAGAATACCC
*
76480610 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
76480675 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
76480740 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
76480767 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
76480832 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
76480897 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
76480924 TTA
1 TTA
76480927 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:76480897 original size:16 final size:16
Alignment explanation
Indices: 76480860--76480901 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
76480850 TTAATCATAT
*
76480860 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
76480876 TT-AAATATATTATAA
1 TTAAAATATATTATAA
76480891 TTAAAATATAT
1 TTAAAATATAT
76480902 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Done.