Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 212 of 356
Found at i:69299121 original size:47 final size:47
Alignment explanation
Indices: 69299070--69299380 Score: 496
Period size: 47 Copynumber: 6.6 Consensus size: 47
69299060 TGTATATATG
69299070 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
69299117 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* *
69299164 TGAATGTGAGAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
*
69299211 TGAATGTGAGAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
*
69299258 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* * * * * * *
69299305 TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* * *
69299352 TGGATGTGAAAGTGCATAAATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
69299381 TCCCGAAAGA
Statistics
Matches: 248, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 248 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
Found at i:69299168 original size:116 final size:116
Alignment explanation
Indices: 69298964--69299188 Score: 414
Period size: 116 Copynumber: 1.9 Consensus size: 116
69298954 CAGCCAAGAC
*
69298964 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
69299029 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATGTGAA
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATGTGAA
69299080 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
69299145 GGCCTAATAGCCGATGTGATGAATGTGAGAGTGTATATGTGTGA
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
69299189 TAAGGCCTAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (116 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATGTGAA
Found at i:69299555 original size:37 final size:37
Alignment explanation
Indices: 69299499--69299577 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
69299489 CCGAGCTCTA
* *
69299499 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
69299536 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
69299573 AAGAC
1 AAGAC
69299578 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:69301793 original size:35 final size:35
Alignment explanation
Indices: 69301632--69301775 Score: 171
Period size: 35 Copynumber: 4.1 Consensus size: 35
69301622 CATGGTTCAC
* * * * *
69301632 AACTCAGTGTGGTTAATACCATACCTAAGTTTCAC
1 AACTCAGTATGGATAATACCATACCTACGTGTCAT
* * * * *
69301667 AACTCGGTATGGAAAATGCCATACCTACGTATTAT
1 AACTCAGTATGGATAATACCATACCTACGTGTCAT
* *
69301702 AGCTCGGTATGGATAATACCATACCTACGTGTCAT
1 AACTCAGTATGGATAATACCATACCTACGTGTCAT
*
69301737 AGCTCAGTATGGATAATACCATACCTACGTGTCAT
1 AACTCAGTATGGATAATACCATACCTACGTGTCAT
69301772 AACT
1 AACT
69301776 TTTTCATGGA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 93 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACGTGTCAT
Found at i:69304080 original size:49 final size:50
Alignment explanation
Indices: 69304027--69304124 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
69304017 TTTAATATGT
* *
69304027 TTAGTATAATTAACTCAGTTGTTTT-AATTTTCTTTACTTTCTTAAATAC
1 TTAGTATAATTAACTAAGTTGTTTTGAATTTTCTTTACTTGCTTAAATAC
* * *
69304076 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTCTTTAGTTGCTTAAATA
1 TTAGTATAATTAACTAAGTTGTTTTGAATTTTCTTTACTTGCTTAAATA
69304125 ATTTTGACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 22 0.51
50 21 0.49
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (50 bp):
TTAGTATAATTAACTAAGTTGTTTTGAATTTTCTTTACTTGCTTAAATAC
Found at i:69304139 original size:50 final size:48
Alignment explanation
Indices: 69304034--69304131 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
69304024 TGTTTAGTAT
* * * * *
69304034 AATTAACTCAGTTGTTTTAATTTTCTTTACTTTCTTAAATACTTAGTTT
1 AATTAATTAAGTTGTTTTAATTTTCTTTACTTGCTTAAATAATTA-TTG
*
69304083 AATTAATTAAGTTGTTTTGAATTTTCTTTAGTTGCTTAAATAATT-TTG
1 AATTAATTAAGTTGTTTT-AATTTTCTTTACTTGCTTAAATAATTATTG
69304131 A
1 A
69304132 CATTTAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 3 0.07
49 16 0.38
50 23 0.55
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (48 bp):
AATTAATTAAGTTGTTTTAATTTTCTTTACTTGCTTAAATAATTATTG
Found at i:69307290 original size:22 final size:22
Alignment explanation
Indices: 69307263--69307306 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
69307253 ATGTAAAATG
69307263 ATTAACTGTTTGAATGTATGTA
1 ATTAACTGTTTGAATGTATGTA
69307285 ATTAACTGTTTGAATGTATGTA
1 ATTAACTGTTTGAATGTATGTA
69307307 TGCTCACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
ATTAACTGTTTGAATGTATGTA
Found at i:69308684 original size:49 final size:51
Alignment explanation
Indices: 69308628--69308726 Score: 166
Period size: 49 Copynumber: 2.0 Consensus size: 51
69308618 TTTAATAAGT
*
69308628 TTAGTTTAATTAATTCAGTTGTTTT-AA-TTTTCTTTAGTTGCTTAAATAC
1 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTCTTTAGTTGCTTAAATAC
*
69308677 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTCTTTTGTTGCTTAAATA
1 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTCTTTAGTTGCTTAAATA
69308727 ATTTCAGCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 24 0.52
50 2 0.04
51 20 0.43
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (51 bp):
TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTCTTTAGTTGCTTAAATAC
Found at i:69309582 original size:272 final size:272
Alignment explanation
Indices: 69309096--69309641 Score: 1002
Period size: 272 Copynumber: 2.0 Consensus size: 272
69309086 TAAAGGGCTA
* *
69309096 TTATGATATCAAGCATTGAACTTAATTAATTCAGCTCATTAGAGCTCATTATTAGCTGATTTGGA
1 TTATGATATCAACCATTGAACTTAATTAATTCAGCTCATTAGAGCTCATTATTAGCTGATTTAGA
69309161 AGATTAAACAAGCTGACCATTGCTGTTACATATGTTAGTGTTCATCAAAGGTCACTTAGTTTTAA
66 AGATTAAACAAGCTGACCATTGCTGTTACATATGTTAGTGTTCATCAAAGGTCACTTAGTTTTAA
* *
69309226 TTGGCTTAATTAAGTTCATCAATAACTTAATTAAGTTGAATGTATGTGTCTATTCGGCTGGGGTT
131 TTGGCTTAATTAAGTTCATCAATAACTCAATTAAGTTGAATGTATGTGTCTATTAGGCTGGGGTT
* *
69309291 TGTCTCATGCCTATAAATACTTTGTTTCCAGATTGTTGTAGGGACTTTTTTTGCTCATTGTTGAA
196 TGTCTCATGCCTATAAATACTTTGTTTCCAGATTGTTGTAGGGACATTTTTTGCTCATTGTTAAA
69309356 TGTTTATAACAT
261 TGTTTATAACAT
* *
69309368 TTATGATATCAACCATTGAACTTAATTAATTCAGTTCATTAGAGCTTATTATTAGCTGATTTAGA
1 TTATGATATCAACCATTGAACTTAATTAATTCAGCTCATTAGAGCTCATTATTAGCTGATTTAGA
*
69309433 AGATTAAACAAGCTGACCATTGCTGTTAGATATGTTAGTGTTCATCAAAGGTCACTTAGTTTTAA
66 AGATTAAACAAGCTGACCATTGCTGTTACATATGTTAGTGTTCATCAAAGGTCACTTAGTTTTAA
*
69309498 TTGGCTTAATTAAGTTCATCAATAGCTCAATTAAGTTGAATGTATGTGTCTATTAGGCTGGGGTT
131 TTGGCTTAATTAAGTTCATCAATAACTCAATTAAGTTGAATGTATGTGTCTATTAGGCTGGGGTT
69309563 TGTCTCATGCCTATAAATACTTTGTTTCCAGATTGTTGTAGGGACATTTTTTGCTCATTGTTAAA
196 TGTCTCATGCCTATAAATACTTTGTTTCCAGATTGTTGTAGGGACATTTTTTGCTCATTGTTAAA
69309628 TGTTTATAACAT
261 TGTTTATAACAT
69309640 TT
1 TT
69309642 GTGAATTTTT
Statistics
Matches: 264, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
272 264 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (272 bp):
TTATGATATCAACCATTGAACTTAATTAATTCAGCTCATTAGAGCTCATTATTAGCTGATTTAGA
AGATTAAACAAGCTGACCATTGCTGTTACATATGTTAGTGTTCATCAAAGGTCACTTAGTTTTAA
TTGGCTTAATTAAGTTCATCAATAACTCAATTAAGTTGAATGTATGTGTCTATTAGGCTGGGGTT
TGTCTCATGCCTATAAATACTTTGTTTCCAGATTGTTGTAGGGACATTTTTTGCTCATTGTTAAA
TGTTTATAACAT
Found at i:69313424 original size:46 final size:46
Alignment explanation
Indices: 69313357--69313482 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
69313347 AACCCGCCCC
* * * * * *
69313357 TAAGTAAACTCGGGCTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
69313403 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
69313449 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69313483 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:69321607 original size:13 final size:13
Alignment explanation
Indices: 69321589--69321631 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
69321579 TAATAAAAAT
69321589 ATAAAGCAAATAC
1 ATAAAGCAAATAC
* *
69321602 ATAAAGAAAATGAA
1 ATAAAGCAAAT-AC
69321616 AT-AAGCAAATAC
1 ATAAAGCAAATAC
69321628 ATAA
1 ATAA
69321632 GTATATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.16
Consensus pattern (13 bp):
ATAAAGCAAATAC
Found at i:69321645 original size:26 final size:25
Alignment explanation
Indices: 69321584--69321631 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
69321574 GCTAGTAATA
69321584 AAAATATA-AAGCAAATACATAAAG
1 AAAATATATAAGCAAATACATAAAG
*
69321608 AAAATGAAATAAGCAAATACATAA
1 AAAAT-ATATAAGCAAATACATAA
69321632 GTATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.17
Consensus pattern (25 bp):
AAAATATATAAGCAAATACATAAAG
Found at i:69321695 original size:3 final size:3
Alignment explanation
Indices: 69321687--69322147 Score: 160
Period size: 3 Copynumber: 157.0 Consensus size: 3
69321677 AAAACGATAG
* * * * *
69321687 TAA TAA TAA TAG TAG TAA AAA TAA TAA TAC TAA TGA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
69321734 GTAA TAA TAA GAA TAT TAA TAT TAG TAT TAA TAA TAA TGA TAA CAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
69321780 TAA TAGGA -AA TAA AAA TAA AAA TAA T-A TAG TAA TAG TAA TAA -AA
1 TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
69321824 -AA GAA -AA T-G TAA TAA TAA TAG TAA TAA T-A CAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
69321868 TAA -AA -AA GGT-A TAA TAA T-A TAT TAGA TAG TAA -AA AAA TAA -AA
1 TAA TAA TAA --TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * * *
69321910 TAA -AA TAA TAA TAA TAG TAA TAA -AA -AA TGA TAA TAG TGA TAT TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
69321955 TAG TAA TAA TAA TAA T-A TGA -AA TAA TAA TAA TATA TAC CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
69321999 CAA CAA TAA T-A TGAA AAA TAA GAAA TAA CAA TACA CTAA TAA GT-A
1 TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TA-A -TAA TAA -TAA
* * * *
69322044 TAG TAA TAGA TCAC TAG TAA TAA TAG TAA -AA -AA TAA TAA TAA T-A
1 TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *** * * * *
69322088 TAT TAC TAA GGG TAA TGA TAC TAA AAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69322136 TAA TAA TAA TAA
1 TAA TAA TAA TAA
69322148 CAACAACTTA
Statistics
Matches: 335, Mismatches: 89, Indels: 68
0.68 0.18 0.14
Matches are distributed among these distances:
2 42 0.13
3 271 0.81
4 18 0.05
5 4 0.01
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:69321830 original size:29 final size:28
Alignment explanation
Indices: 69321778--69321850 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
69321768 TAATGATAAC
*
69321778 AATAATAGGAAATAAAAATAAAAA-TAAT
1 AATAATA-GTAATAAAAATAAAAAGTAAT
69321806 ATAGTAATAGTAATAAAAA-AGAAAATGTAAT
1 A-A-TAATAGTAATAAAAATA-AAAA-GTAAT
69321837 AATAATAGTAATAA
1 AATAATAGTAATAA
69321851 TACAATAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
28 2 0.05
29 26 0.67
30 6 0.15
31 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.25
Consensus pattern (28 bp):
AATAATAGTAATAAAAATAAAAAGTAAT
Found at i:69321849 original size:43 final size:41
Alignment explanation
Indices: 69321802--69321931 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 41
69321792 AAAATAAAAA
*
69321802 TAATATAGTAATAGTAATAAAAAAGAAAATGTAATAATAATAG
1 TAATATAG-AATAGTAATAAAAAA-AAAAAGTAATAATAATAG
* *
69321845 TAATAATACAATAGTAATAATAATAAAAAAGGT-ATAATAATA-
1 TAAT-ATAGAATAGTAATAA-AA-AAAAAAAGTAATAATAATAG
* *
69321887 T-AT-TAG-ATAGTAAAAAAATAAAATAAAATAATAATAATAG
1 TAATATAGAATAGTAATAAAA-AAAA-AAAGTAATAATAATAG
69321927 TAATA
1 TAATA
69321932 AAAAATGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
37 7 0.10
38 12 0.16
39 11 0.15
40 1 0.01
41 4 0.05
42 1 0.01
43 24 0.33
44 11 0.15
45 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.08, T:0.28
Consensus pattern (41 bp):
TAATATAGAATAGTAATAAAAAAAAAAAGTAATAATAATAG
Found at i:69321931 original size:62 final size:62
Alignment explanation
Indices: 69321854--69321987 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 62
69321844 GTAATAATAC
*
69321854 AATAGTAATAATAATAAAAAAGGTATAATAAT-ATATTAGATAGTAA-AAAAATAAAATAAAAT
1 AATAATAATAATAATAAAAAAGG-ATAATAATGATATTAG-TAGTAATAAAAATAAAATAAAAT
* * * * * *
69321916 AATAATAATAGTAATAAAAAATGATAATAGTGATATTAGTAGTAATAATAATAATATGAAAT
1 AATAATAATAATAATAAAAAAGGATAATAATGATATTAGTAGTAATAAAAATAAAATAAAAT
69321978 AATAATAATA
1 AATAATAATA
69321988 TATACCAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
61 13 0.21
62 50 0.79
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (62 bp):
AATAATAATAATAATAAAAAAGGATAATAATGATATTAGTAGTAATAAAAATAAAATAAAAT
Found at i:69323362 original size:30 final size:30
Alignment explanation
Indices: 69323326--69323387 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
69323316 GAGAACAGAG
69323326 CAAAGACTTTTAAGAAAGACCAAATTTGTC
1 CAAAGACTTTTAAGAAAGACCAAATTTGTC
69323356 CAAAGACTTTTAAGAAAGACCAAATTTGTC
1 CAAAGACTTTTAAGAAAGACCAAATTTGTC
69323386 CA
1 CA
69323388 GTCTCACTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (30 bp):
CAAAGACTTTTAAGAAAGACCAAATTTGTC
Found at i:69323766 original size:88 final size:88
Alignment explanation
Indices: 69323655--69323818 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 88
69323645 AGTTTCAATC
* * *** *
69323655 GCTCCAATGCCATTTCAAGGAGAAGATATTCGTAATTTCGATCTAATCTGTTGGAACTTCAAGGA
1 GCTCCAATGCCATTTCAAGGAGAAGAGATTCGTAACTTCGATCTAATCCACTGAAACTTCAAGGA
69323720 GATACGAATTGTGGCTTTGAGCA
66 GATACGAATTGTGGCTTTGAGCA
* * * *
69323743 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCACTGAAACTTCAAGGA
1 GCTCCAATGCCATTTCAAGGAGAAGAGATTCGTAACTTCGATCTAATCCACTGAAACTTCAAGGA
69323808 GATACGAATTG
66 GATACGAATTG
69323819 ATGATTTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 66 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (88 bp):
GCTCCAATGCCATTTCAAGGAGAAGAGATTCGTAACTTCGATCTAATCCACTGAAACTTCAAGGA
GATACGAATTGTGGCTTTGAGCA
Found at i:69324049 original size:44 final size:44
Alignment explanation
Indices: 69324001--69324460 Score: 222
Period size: 44 Copynumber: 10.6 Consensus size: 44
69323991 CATCTTTGAT
*
69324001 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAATCTTCAG-C
1 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAA-CTTCAGAC
* * ** * * *
69324045 CTGTTACCCTACTGCTTAGAGG-GTTAAG-GC-CCATCTT-TGAT
1 CTGTTTCCCTACTGCTTAG-GGTGTTAAGATCTGTAACTTCAGAC
* ** * *
69324086 CTGTTTCCCTACTGCTTAGGGTGATAAGATCCATCATCTTC-GAT
1 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGT-AACTTCAGAC
* * *
69324130 TTGTTTCCCTACTGCTTAGGGTGATAAAATCTGTAA-TTCAG-C
1 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAACTTCAGAC
* * ** ** * *
69324172 CTGTTACCCTACTGCGTAGGG-GTTTAAGGCCCATCACCTTC-GAT
1 CTGTTTCCCTACTGCTTAGGGTG-TTAAGATCTGT-AACTTCAGAC
* * *
69324216 CTGTTTCCCTACTGCTTAAGGG-GTTAAGATTTGTAAATTCA-TC
1 CTGTTTCCCTACTGCTT-AGGGTGTTAAGATCTGTAACTTCAGAC
* ** ** * *
69324259 CTGTTACCCTACTGCTTAGAGGT-TTAAGGCCCATCACCTTC-GAT
1 CTGTTTCCCTACTGCTTAG-GGTGTTAAGATCTGT-AACTTCAGAC
* *
69324303 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG-C
1 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAACTTCAGAC
* ** ** * * *
69324346 CTGTTAT-CCTACTGCTTAGGG-GTTTCAGGCCCATCACCTT-TGAT
1 CTGTT-TCCCTACTGCTTAGGGTG-TTAAGATCTGT-AACTTCAGAC
* * *
69324390 CTGTTCCCCTACTGCTTAGAGG-GTTAAGATTTGTAAATTCAG-C
1 CTGTTTCCCTACTGCTTAG-GGTGTTAAGATCTGTAACTTCAGAC
* * *
69324433 TTGTTACCCTACTGCTTAGGGGGTTAAG
1 CTGTTTCCCTACTGCTTAGGGTGTTAAG
69324461 GCTTGTGAAT
Statistics
Matches: 306, Mismatches: 82, Indels: 57
0.69 0.18 0.13
Matches are distributed among these distances:
40 3 0.01
41 27 0.09
42 33 0.11
43 91 0.30
44 142 0.46
45 10 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAACTTCAGAC
Found at i:69324125 original size:85 final size:85
Alignment explanation
Indices: 69323838--69324148 Score: 353
Period size: 85 Copynumber: 3.6 Consensus size: 85
69323828 ACCTGCTCCA
** * * * *
69323838 CTACTGCTTAGGAAGACAAGATCTGT-A-CTTCAGCCTGTTACCATACTGCTTAGGGGGTTAAGG
1 CTACTGCTTAGGGTGATAAGATCTATAATCTTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
* * **
69323901 CTAGCCGTCTTCGATCT-ACTCC
66 C---CCATCTTTGATCTGTTTCC
* * * *
69323923 ACTACTGCTTAAGGAGATAAGATCTATAATCTTCAGCCTGTTACCCCA-TCGCTTAGTGGGTTAA
1 -CTACTGCTTAGGGTGATAAGATCTATAATCTTCAGCCTGTTACCCTACT-GCTTAGAGGGTTAA
69323987 GGCCCATCTTTGATCTGTTTCC
64 GGCCCATCTTTGATCTGTTTCC
*
69324009 CTACTGCTTAGGGTGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
1 CTACTGCTTAGGGTGATAAGATCTATAATCTTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
69324074 CCCATCTTTGATCTGTTTCC
66 CCCATCTTTGATCTGTTTCC
* * ** *
69324094 CTACTGCTTAGGGTGATAAGATCCATCATCTTC-GATTTGTTTCCCTACTGCTTAG
1 CTACTGCTTAGGGTGATAAGATCTATAATCTTCAG-CCTGTTACCCTACTGCTTAG
69324149 GGTGATAAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
84 1 0.01
85 136 0.69
86 26 0.13
87 2 0.01
88 32 0.16
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (85 bp):
CTACTGCTTAGGGTGATAAGATCTATAATCTTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
CCCATCTTTGATCTGTTTCC
Found at i:69324291 original size:87 final size:86
Alignment explanation
Indices: 69324086--69324462 Score: 524
Period size: 87 Copynumber: 4.3 Consensus size: 86
69324076 CATCTTTGAT
* * ** * *
69324086 CTGTTTCCCTACTGCTTA-GGGTGATAAGATCCATCATCTTCGATTTGTTTCCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGG
* *
69324150 GTGATAAAATCTGT-AATTCAGC
65 G-GTTAAGATCTGTAAATTCAGC
*
69324172 CTGTTACCCTACTGCGTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT-AGG
* *
69324237 GGTTAAGATTTGTAAATTCATC
65 GGTTAAGATCTGTAAATTCAGC
*
69324259 CTGTTACCCTACTGCTTAGAGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA-GG
69324324 GGTTAAGATCTGTAAATTCAGC
65 GGTTAAGATCTGTAAATTCAGC
* * * *
69324346 CTGTTATCCTACTGCTTAGGGGTTTCAGGCCCATCACCTTTGATCTGTTCCCCTACTGCTTAGAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAG-G
*
69324411 GGTTAAGATTTGTAAATTCAGC
65 GGTTAAGATCTGTAAATTCAGC
* *
69324433 TTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGC
69324463 TTGTGAATTC
Statistics
Matches: 261, Mismatches: 25, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
86 60 0.23
87 201 0.77
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (86 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
GTTAAGATCTGTAAATTCAGC
Found at i:69324472 original size:43 final size:43
Alignment explanation
Indices: 69324130--69324473 Score: 160
Period size: 43 Copynumber: 8.0 Consensus size: 43
69324120 CATCTTCGAT
* * * **
69324130 TTGTTTCCCTACTGCTTAGGGTGATAA-AATCTGT-AATTCAGC
1 TTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTAAATTCAGC
* * * *** ** *
69324172 CTGTTACCCTACTGCGTAGGGGTTTAAGGCCCATCACCTTC-GA
1 TTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGT-AAATTCAGC
* * ** *
69324215 TCTGTTTCCCTACTGCTTAAGGGGTTAAGATTTGTAAATTCATC
1 T-TGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTCAGC
* * * *** ** *
69324259 CTGTTACCCTACTGCTTAGAGGTTTAAGGCCCATCACCTTC-GA
1 TTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGT-AAATTCAGC
* *
69324302 TCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAATTCAGC
1 T-TGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTAAATTCAGC
* * * * *** ** * *
69324346 CTGTTATCCTACTGCTTAGGGGTTTCAGGCCCATCACCTT-TGA
1 TTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGT-AAATTCAGC
* * **
69324389 TCTGTTCCCCTACTGCTTAGAGGGTTAAGATTTGTAAATTCAGC
1 T-TGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTCAGC
*
69324433 TTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTGAATTCA
1 TTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTCA
69324474 CCGATTCTAG
Statistics
Matches: 203, Mismatches: 86, Indels: 25
0.65 0.27 0.08
Matches are distributed among these distances:
42 22 0.11
43 96 0.47
44 85 0.42
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
TTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTCAGC
Found at i:69324619 original size:64 final size:64
Alignment explanation
Indices: 69324517--69324646 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
69324507 CCATGTATCT
69324517 ATGCTTATGTCAAATGATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTGAATAAATGTG
1 ATGCTTATGTCAAATGATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTGAATAAATGTG
* * * *
69324581 ATGCTTATGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTGACTAGATGTG
1 ATGCTTATGTCAAATGATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTGAATAAATGTG
69324645 AT
1 AT
69324647 ATGAATGATC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (64 bp):
ATGCTTATGTCAAATGATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTGAATAAATGTG
Found at i:69332424 original size:9 final size:9
Alignment explanation
Indices: 69332410--69332437 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
69332400 AATGCTGATC
69332410 ATGAATGCA
1 ATGAATGCA
69332419 ATGAATGCA
1 ATGAATGCA
69332428 ATGAATGCA
1 ATGAATGCA
69332437 A
1 A
69332438 AAAAAGGCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (9 bp):
ATGAATGCA
Found at i:69333744 original size:31 final size:31
Alignment explanation
Indices: 69333668--69333741 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
69333658 CAAAGTTATC
69333668 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
69333700 TTAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
69333730 TTAAATATAAAA
1 TTAAATATAAAA
69333742 ATATCAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 11 0.28
31 15 0.38
32 13 0.33
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:69338943 original size:495 final size:496
Alignment explanation
Indices: 69337906--69339033 Score: 2069
Period size: 495 Copynumber: 2.3 Consensus size: 496
69337896 TTTTAAGTTT
* * *
69337906 TTTATTTTTGATTTAATCATAGACATTTTAAAAAATAAATATATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
*
69337971 AAATATAAATATTTATGTATGCAATAAATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
* *
69338036 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTTTACCTTGATCCCCATACATT
131 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATACATT
69338101 TATCCCTAAAAGCTAAAAATTAAACCCTGATCCCCAAACACCAAACATTAAATCCTAGATCATAA
196 TATCCCTAAAAGCTAAAAATTAAACCCTGATCCCCAAACACCAAACATTAAATCCTAGATCATAA
*
69338166 ATTCTAAACCCCAAAATAATAAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAA
261 ATCCTAAACCCCAAAATAATAAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAA
69338231 ACATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACAC
326 ACATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACAC
*
69338296 ACCTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATGTAATTGTA
391 ACCTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATATAATTGTA
*
69338361 GATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGGAAC
456 GATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
69338402 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
*
69338467 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATATTATATCAATAATTGTGTTAA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
69338532 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATACATT
131 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATACATT
* * *
69338597 TATCCCTAAACGCTAAAAATTAAACCCTGATCCCCAAACACCAAACCTTAAATCCTAGATTATAA
196 TATCCCTAAAAGCTAAAAATTAAACCCTGATCCCCAAACACCAAACATTAAATCCTAGATCATAA
* *
69338662 ATCCTAAACCCCAAAATAATGAACATTATATCATAA-CCCTATCCCCTAAACTCTAAACTATAAA
261 ATCCTAAACCCCAAAATAATAAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAA
* *
69338726 ACATAAACCCTTAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACAC
326 ACATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACAC
*
69338791 ACCTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATGTATAATTGTA
391 ACCTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATATAATTGTA
69338856 GATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
456 GATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
69338897 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
* *
69338962 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTATGTTCA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
69339027 TAATTTA
131 TAATTTA
69339034 TGCTTTTGGG
Statistics
Matches: 611, Mismatches: 21, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
495 327 0.54
496 284 0.46
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (496 bp):
TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATACATT
TATCCCTAAAAGCTAAAAATTAAACCCTGATCCCCAAACACCAAACATTAAATCCTAGATCATAA
ATCCTAAACCCCAAAATAATAAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAA
ACATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACAC
ACCTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATATAATTGTA
GATGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
Found at i:69339329 original size:41 final size:41
Alignment explanation
Indices: 69339284--69339391 Score: 198
Period size: 41 Copynumber: 2.6 Consensus size: 41
69339274 TTACTTTTTT
*
69339284 GCGGCGTTTTTCCAAAAGTGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
*
69339325 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
69339366 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
69339392 TTGTTCAGTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:69339422 original size:41 final size:41
Alignment explanation
Indices: 69339364--69339455 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
69339354 CCTCGATCTA
** * *
69339364 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
69339404 TAGTGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
69339445 TTGCGGCGTTT
1 TAGCGGCGTTT
69339456 TATTGCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 10 0.23
41 34 0.77
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:69342623 original size:3 final size:3
Alignment explanation
Indices: 69342598--69343065 Score: 202
Period size: 3 Copynumber: 158.0 Consensus size: 3
69342588 AAAACGATAG
* * * * * * *
69342598 TAA TAA TAG TAG TAG TAA AAA TAA TAA TAC TAA TGA TAA TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
69342645 GTAA CAA TAA GAA TAT TAA TAT TAG TAT TAA TAA TAA TGA TAA CAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
69342691 TAA TAA GAAA TAA AAA TAA AAA TAA -AA TAG TAA TAA TAA TAA -AA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
69342735 -AA GAA -AA T-G TAA TAA TAA TAG TAA TAA T-A CAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
69342779 TAA TAA -AA GGT-A TAA TAA T-A TAT TAGA TAG TAA -AA AAA TAA TAAA
1 TAA TAA TAA --TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA T-AA
* * * *
69342824 TAAA TAA -AA TAA TAA TAA TAG TAA TAA -AA -AA TGA TAA TAG TGA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
69342867 TAT TAG TAG TAA TAA TAA TAA T-A TGA -AA TAA TAA TAA TATA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * * * *
69342911 CAA TAA CAA CAA TAA TAA GAA AAA TAA GAAA TAA CAA TACA CTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A -TAA TAA
* * *
69342959 GT-A TAG TAA TAGA TCAC TAA TAA TAA TAG TAA -AA -AA TAA TAA TAA
1 -TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *** *
69343004 T-A TAT TAC TAA GGG TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69343051 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
69343066 CTTATATTAA
Statistics
Matches: 348, Mismatches: 87, Indels: 60
0.70 0.18 0.12
Matches are distributed among these distances:
2 35 0.10
3 285 0.82
4 25 0.07
5 3 0.01
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:69342741 original size:29 final size:29
Alignment explanation
Indices: 69342689--69342853 Score: 78
Period size: 26 Copynumber: 5.8 Consensus size: 29
69342679 TAATGATAAC
*
69342689 AATAATAAGAAATAAAAATAAAAATAAAAT
1 AATAATAA-TAATAAAAATAAAAATAAAAT
* *
69342719 AGTAATAATAATAAAAA-AGAAAAT---GT
1 AATAATAATAATAAAAATA-AAAATAAAAT
* * * *
69342745 AATAATAATAGTAATAAT-ACAAT--AGT
1 AATAATAATAATAAAAATAAAAATAAAAT
* * *
69342771 AATAATAATAATAAAAGGT-ATAATAATAT
1 AATAATAATAATAAAA-ATAAAAATAAAAT
* * *
69342800 ATTAGATAGTAA-AAAAATAATAAATAAATAA
1 AATA-ATAATAATAAAAATAA-AAATAAA-AT
**
69342831 AATAATAATAATAGTAATAAAAA
1 AATAATAATAATAAAAATAAAAA
69342854 ATGATAATAG
Statistics
Matches: 101, Mismatches: 23, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
25 4 0.04
26 31 0.31
27 5 0.05
28 2 0.02
29 22 0.22
30 27 0.27
31 10 0.10
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.26
Consensus pattern (29 bp):
AATAATAATAATAAAAATAAAAATAAAAT
Found at i:69342750 original size:26 final size:27
Alignment explanation
Indices: 69342721--69342786 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
69342711 AATAAAATAG
69342721 TAATAATAATAAAAAAGAAAAT-GTAA
1 TAATAATAATAAAAAAGAAAATAGTAA
* * * *
69342747 TAATAATAGT-AATAATACAATAGTAA
1 TAATAATAATAAAAAAGAAAATAGTAA
69342773 TAATAATAATAAAA
1 TAATAATAATAAAA
69342787 GGTATAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 8 0.25
26 22 0.69
27 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (27 bp):
TAATAATAATAAAAAAGAAAATAGTAA
Found at i:69342768 original size:17 final size:17
Alignment explanation
Indices: 69342684--69342780 Score: 51
Period size: 17 Copynumber: 5.9 Consensus size: 17
69342674 AATAATAATG
* *
69342684 ATAACAATAATAAGA-A
1 ATAATAATAATAATACA
* * *
69342700 ATAAAAATAAAAATAAA
1 ATAATAATAATAATACA
*
69342717 ATAGTAATAATAATA-A
1 ATAATAATAATAATACA
* *
69342733 AAAAGAA-AATGTAAT--A
1 ATAATAATAA--TAATACA
*
69342749 ATAATAGTAATAATACA
1 ATAATAATAATAATACA
*
69342766 ATAGTAATAATAATA
1 ATAATAATAATAATA
69342781 ATAAAAGGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
15 6 0.10
16 22 0.36
17 33 0.54
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (17 bp):
ATAATAATAATAATACA
Found at i:69342782 original size:23 final size:23
Alignment explanation
Indices: 69342673--69343065 Score: 122
Period size: 23 Copynumber: 17.4 Consensus size: 23
69342663 ATATTAGTAT
* *
69342673 TAATAATAATGATAACAATAATAAG
1 TAATAATAATAATAATAA-AAT-AG
* * *
69342698 AAATAAAAATAAAAATAAAATAG
1 TAATAATAATAATAATAAAATAG
* *
69342721 TAATAATAATAAAAAAGAAAAT-G
1 TAATAATAAT-AATAATAAAATAG
* * * *
69342744 TAATAATAATAGTAATAATACAA
1 TAATAATAATAATAATAAAATAG
* *
69342767 TAGTAATAATAATAATAAAA-GG
1 TAATAATAATAATAATAAAATAG
* *
69342789 T-ATAATAAT-AT-ATTAGATAG
1 TAATAATAATAATAATAAAATAG
* * *
69342809 TAA-AAAAATAATAAATAAATAAAA
1 TAATAATAATAAT-AATAAA-ATAG
* *
69342833 TAATAATAATAGTAATAAAA-AA
1 TAATAATAATAATAATAAAATAG
* * * * *
69342855 TGATAATAGTGAT-AT-TAGTAG
1 TAATAATAATAATAATAAAATAG
* *
69342876 TAATAATAATAAT-ATGAAATAA
1 TAATAATAATAATAATAAAATAG
** *
69342898 TAATAATATATACCAATAACA-A-
1 TAATAATA-ATAATAATAAAATAG
* * *
69342920 CAATAATAAGAAAAATAAGAA-A-
1 TAATAATAATAATAATAA-AATAG
* * * *
69342942 TAACAAT-ACACTAATAAGTATAG
1 TAATAATAATAATAATAA-AATAG
*
69342965 TAATAGATCACTAATAAT--AATAG
1 TAATA-AT-AATAATAATAAAATAG
* *
69342988 TAA-AA-AATAATAATAATATAT
1 TAATAATAATAATAATAAAATAG
* *** * *
69343009 TACTAAGGGTAATGATAATAATAA
1 TAATAATAATAATAATAA-AATAG
*
69343033 TAATAATAATAATAATAATAATAA
1 TAATAATAATAATAATAA-AATAG
69343057 TAATAATAA
1 TAATAATAA
69343066 CTTATATTAA
Statistics
Matches: 267, Mismatches: 77, Indels: 49
0.68 0.20 0.12
Matches are distributed among these distances:
19 12 0.04
20 10 0.04
21 47 0.18
22 47 0.18
23 65 0.24
24 61 0.23
25 20 0.07
26 5 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (23 bp):
TAATAATAATAATAATAAAATAG
Found at i:69342834 original size:16 final size:15
Alignment explanation
Indices: 69342809--69342838 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
69342799 TATTAGATAG
69342809 TAAAAAAATAATAAA
1 TAAAAAAATAATAAA
69342824 TAAATAAAATAATAA
1 TAAA-AAAATAATAA
69342839 TAATAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAAATAATAAA
Found at i:69347321 original size:23 final size:24
Alignment explanation
Indices: 69347286--69347330 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
69347276 AATATTGTTA
69347286 ATTATTTCAATT-ACAATATTAAT
1 ATTATTTCAATTAACAATATTAAT
** *
69347309 ATTATTTTTATTAAGAATATTA
1 ATTATTTCAATTAACAATATTA
69347331 TTCTAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTATTTCAATTAACAATATTAAT
Found at i:69347908 original size:16 final size:16
Alignment explanation
Indices: 69347887--69347917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69347877 GTTTATTGTC
69347887 ACATTTTTATATATTA
1 ACATTTTTATATATTA
*
69347903 ACATTTTTATTTATT
1 ACATTTTTATATATT
69347918 TATACTTTGA
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:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ACATTTTTATATATTA
Found at i:69349223 original size:21 final size:21
Alignment explanation
Indices: 69349199--69349250 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
69349189 CACCGTTGTT
69349199 TCTAATCTCACC-ACTACAGTA
1 TCTAATCTCACCTA-TACAGTA
69349220 TCTAATCTCACCTATACAGTA
1 TCTAATCTCACCTATACAGTA
*
69349241 ACTAATCTCA
1 TCTAATCTCA
69349251 TCGCCACCGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACCTATACAGTA
Found at i:69349569 original size:13 final size:13
Alignment explanation
Indices: 69349551--69349579 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
69349541 TCGATGACCT
69349551 AACTCACAAATCA
1 AACTCACAAATCA
69349564 AACTCACAAATCA
1 AACTCACAAATCA
69349577 AAC
1 AAC
69349580 AGAGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (13 bp):
AACTCACAAATCA
Found at i:69353821 original size:21 final size:22
Alignment explanation
Indices: 69353765--69353822 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
69353755 ATATTGTTAT
69353765 ACATGATATGAC-ATG-GTATGC
1 ACATGATATG-CTATGAGTATGC
*
69353786 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
69353807 ACATGATATGCTATGA
1 ACATGATATGCTATGA
69353823 TATACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:69361838 original size:25 final size:26
Alignment explanation
Indices: 69361794--69361843 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
69361784 TTATAATATG
**
69361794 AAAAATGACTATT-TTGCCCCTAGGT
1 AAAAATGACTATTATACCCCCTAGGT
69361819 AAAAATGACTATTATACCCCCTAGG
1 AAAAATGACTATTATACCCCCTAGG
69361844 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (26 bp):
AAAAATGACTATTATACCCCCTAGGT
Found at i:69361936 original size:21 final size:22
Alignment explanation
Indices: 69361880--69361937 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
69361870 ATATTGTTAT
69361880 ACATGATATGAC-ATG-GTATGC
1 ACATGATATG-CTATGAGTATGC
*
69361901 ACATGATATGTTATGAG-ATGC
1 ACATGATATGCTATGAGTATGC
69361922 ACATGATATGCTATGA
1 ACATGATATGCTATGA
69361938 TATACTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
ACATGATATGCTATGAGTATGC
Found at i:69362043 original size:24 final size:24
Alignment explanation
Indices: 69361988--69362058 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
69361978 AGGAAGTGCG
*
69361988 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
69362012 AAAA-AGGCTTTGCCCCAGTTATT
1 AAAAGAGGCTTTGCCCCAGTTATC
**
69362035 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
69362059 ATGATAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.17
24 25 0.62
25 8 0.20
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:69365208 original size:22 final size:22
Alignment explanation
Indices: 69365183--69365232 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
69365173 CATGTATGTT
69365183 TAAATGCTTATTTTGTCTCTAA
1 TAAATGCTTATTTTGTCTCTAA
69365205 TAAATGCTTATTTTGTCTCTAA
1 TAAATGCTTATTTTGTCTCTAA
69365227 TAAATG
1 TAAATG
69365233 GCCTTTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (22 bp):
TAAATGCTTATTTTGTCTCTAA
Found at i:69366262 original size:30 final size:28
Alignment explanation
Indices: 69366228--69366286 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
69366218 TAGGAAGACA
*
69366228 CCTTTGTGGCTATCTAATGTTATATGGATG
1 CCTTTGTGGCTATCT-AT-CTATATGGATG
*
69366258 CCTTTGTGGTTATCTATCTATATGGATG
1 CCTTTGTGGCTATCTATCTATATGGATG
69366286 C
1 C
69366287 TTCTATAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 11 0.41
29 2 0.07
30 14 0.52
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (28 bp):
CCTTTGTGGCTATCTATCTATATGGATG
Found at i:69369299 original size:20 final size:20
Alignment explanation
Indices: 69369212--69369298 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
69369202 GCATCATAGA
69369212 TGCATAACAGAGGCATCGAAG
1 TGCA-AACAGAGGCATCGAAG
*
69369233 TGCAGACAGAGGCATCGAAG
1 TGCAAACAGAGGCATCGAAG
* * *
69369253 TGCAAACAGAAGCACCAAAG
1 TGCAAACAGAGGCATCGAAG
*
69369273 TGCAAATAGAGGCA-CTGAAG
1 TGCAAACAGAGGCATC-GAAG
69369293 TGCAAA
1 TGCAAA
69369299 TCCTGTACAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.02
20 52 0.91
21 4 0.07
ACGTcount: A:0.41, C:0.20, G:0.28, T:0.11
Consensus pattern (20 bp):
TGCAAACAGAGGCATCGAAG
Found at i:69377115 original size:50 final size:50
Alignment explanation
Indices: 69377040--69377134 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
69377030 TCAGGAAAGA
* * * *
69377040 TGAGCACTTTAGTCAGAATAGATCTGAAATGTTGCTAAACTGAGTAAAAT
1 TGAGCACTTCAATCAGAATAGATCTGAAAGGCTGCTAAACTGAGTAAAAT
*
69377090 TGAGCACTTCAATCAGAATAGATCTGAAAGGCTGCTGAACTGAGT
1 TGAGCACTTCAATCAGAATAGATCTGAAAGGCTGCTAAACTGAGT
69377135 CAGTCAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
TGAGCACTTCAATCAGAATAGATCTGAAAGGCTGCTAAACTGAGTAAAAT
Found at i:69379152 original size:43 final size:41
Alignment explanation
Indices: 69379052--69379132 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 41
69379042 CTTCAGCGGT
*
69379052 GCTTTTCCCAAAAACGCCGCTAAAGAACATGAATTTTAAAA
1 GCTTTTCCCACAAACGCCGCTAAAGAACATGAATTTTAAAA
* *
69379093 GCATTATTCCCACAAACGCTGCTAAAGAACATGACTTTTA
1 GC-TT-TTCCCACAAACGCCGCTAAAGAACATGAATTTTA
69379133 GCGACGCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 2 0.06
43 31 0.89
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (41 bp):
GCTTTTCCCACAAACGCCGCTAAAGAACATGAATTTTAAAA
Found at i:69382778 original size:27 final size:26
Alignment explanation
Indices: 69382721--69382779 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
69382711 TTCATCTTCA
69382721 CTCTT-TTCTTCTTCCTCCTCCTCCT
1 CTCTTCTTCTTCTTCCTCCTCCTCCT
* *
69382746 CTTCTTCTTCTTCTTCCTCGTTCTCCTT
1 C-TCTTCTTCTTCTTCCTCCTCCTCC-T
69382774 CTCTTC
1 CTCTTC
69382780 AAAATTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 4 0.14
27 22 0.76
28 2 0.07
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.54
Consensus pattern (26 bp):
CTCTTCTTCTTCTTCCTCCTCCTCCT
Found at i:69383166 original size:7 final size:7
Alignment explanation
Indices: 69383145--69383183 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
69383135 TTTTTAAGCT
*
69383145 TTTTATA
1 TTTTAAA
69383152 TTTT-AA
1 TTTTAAA
69383158 TTTTAAA
1 TTTTAAA
69383165 TTTTTAAA
1 -TTTTAAA
69383173 TTTTAAA
1 TTTTAAA
69383180 TTTT
1 TTTT
69383184 TCTTGAAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTAAA
Found at i:69383176 original size:15 final size:15
Alignment explanation
Indices: 69383123--69383184 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
69383113 TACTGAAATA
*
69383123 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* *
69383138 TTAAGCTTTT-TATATT
1 TTAA-ATTTTAAAT-TT
69383154 TT-AATTTTAAATTT
1 TTAAATTTTAAATTT
69383168 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
69383183 TT
1 TT
69383185 CTTGAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
14 8 0.21
15 23 0.61
16 7 0.18
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:69383211 original size:8 final size:8
Alignment explanation
Indices: 69383130--69383184 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
69383120 ATATTAAATA
69383130 TTAAATTT
1 TTAAATTT
*
69383138 TTAAGCTTT
1 TTAA-ATTT
*
69383147 TTATA-TT
1 TTAAATTT
69383154 TT-AA-TT
1 TTAAATTT
69383160 TTAAATTT
1 TTAAATTT
69383168 TTAAA-TT
1 TTAAATTT
69383175 TTAAATTT
1 TTAAATTT
69383183 TT
1 TT
69383185 CTTGAAGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 5 0.13
7 13 0.33
8 15 0.38
9 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:69384373 original size:40 final size:40
Alignment explanation
Indices: 69384320--69384397 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
69384310 GTTTTGCAGT
* * * *
69384320 AAGCGCCGTTAATGGTCGACCTATAGCGGCGTTTTTTAAA
1 AAGCACCGCTAATGCTCAACCTATAGCGGCGTTTTTTAAA
*
69384360 AAGCACCGCTAATGCTCAATCTATAGCGGCGTTTTTTA
1 AAGCACCGCTAATGCTCAACCTATAGCGGCGTTTTTTA
69384398 TCCAAACACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (40 bp):
AAGCACCGCTAATGCTCAACCTATAGCGGCGTTTTTTAAA
Found at i:69387930 original size:22 final size:22
Alignment explanation
Indices: 69387890--69387931 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
69387880 AGGACCAATT
*
69387890 TGTAAAAGGGTTATAAAATGTG
1 TGTAAAAGGGTGATAAAATGTG
* *
69387912 TGTAAAAGTGTGATTAAATG
1 TGTAAAAGGGTGATAAAATG
69387932 AAAAATGAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.33
Consensus pattern (22 bp):
TGTAAAAGGGTGATAAAATGTG
Found at i:69388457 original size:42 final size:42
Alignment explanation
Indices: 69388398--69388490 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
69388388 CTAAAGCTAT
*
69388398 GTGTAAGACCATATCTAGGATATGGCATCTA-TATGAGACTTC
1 GTGTAAGACCATATCTAGGATATGGCATC-AGTATAAGACTTC
* *
69388440 GTGTAAGACCATATCTAGGATATGTCATCAGTTTAAGACTTC
1 GTGTAAGACCATATCTAGGATATGGCATCAGTATAAGACTTC
69388482 GTGTAAGAC
1 GTGTAAGAC
69388491 TATAACTGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCATCAGTATAAGACTTC
Found at i:69391914 original size:48 final size:49
Alignment explanation
Indices: 69391846--69391952 Score: 189
Period size: 48 Copynumber: 2.2 Consensus size: 49
69391836 CAGATAATAC
*
69391846 TATATGATTGATGTCAAATTTCTTATGAATATGATGTTGAATAGGTGGA
1 TATATGCTTGATGTCAAATTTCTTATGAATATGATGTTGAATAGGTGGA
*
69391895 TATATGCTT-ATGTCAAATTTCTTATGAATATGATGTTGAATTGGTGGA
1 TATATGCTTGATGTCAAATTTCTTATGAATATGATGTTGAATAGGTGGA
69391943 TATATGCTTG
1 TATATGCTTG
69391953 TGAGTTTTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 47 0.85
49 8 0.15
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (49 bp):
TATATGCTTGATGTCAAATTTCTTATGAATATGATGTTGAATAGGTGGA
Found at i:69399020 original size:175 final size:175
Alignment explanation
Indices: 69398720--69399302 Score: 988
Period size: 175 Copynumber: 3.3 Consensus size: 175
69398710 ATAAACACGT
* * * * *
69398720 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTAG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
69398785 ATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGA
* *
69398849 GATGCTAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
* *
69398895 GAAAGTCAAATCTGCTATGTTTTCGATTTGTTCCTTGTAAACATAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
69398960 ATCTGCTTCAGTATAAACATCTGAAGGTTAAACCTGCTATGTACCTACTCTCCATCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
*
69399025 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
*
69399070 GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
69399135 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCTGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
*
69399200 ATGCCAGATCTGTTATCTTGGATATGCTTTGGTGTAAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
69399245 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATC
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATC
69399303 TACTATCTTC
Statistics
Matches: 383, Mismatches: 24, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
175 380 0.99
176 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCC
Found at i:69399089 original size:88 final size:85
Alignment explanation
Indices: 69398816--69399264 Score: 297
Period size: 88 Copynumber: 5.1 Consensus size: 85
69398806 TGAAGGTTAG
* *
69398816 ATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCTAGATCTATTATCTTGGATCTGCTTTG
1 ATCTGCTATGTACCTACTCTCC-TCGAAATGGAGATGCCAGATCT-TTATCTTGGATCTGCTTTG
69398881 GTGTAAGAACATCCGAAAGTCAA
64 GTGT-AGAACATCCGAAAGTCAA
** * * * * * *
69398904 ATCTGCTATGTTTTCGATTTGTTCCTTGTAAACAT-AAGAATGCCAAATC---ATCTTGGATCTG
1 ATCTGCTATG-TACCTA-CT-CTCCTCG--AA-ATGGAG-ATGCCAGATCTTTATCTTGGATCTG
** * * * *
69398965 CTTCAGTATA-AACATCTGAAGGTTAA
59 CTTTGGTGTAGAACATCCGAAAGTCAA
*
69398991 ACCTGCTATGTACCTACTCTCCATCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTG
1 ATCTGCTATGTACCTACTCTCC-TCGAAATGGAGATGCCAGATCT-TTATCTTGGATCTGCTTTG
69399056 GTGTGAGAACATCCGAAAGTCAA
64 GTGT-AGAACATCCGAAAGTCAA
* * * * *** *
69399079 ATCTGCTATGT-CTTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATC---ATCTTGGATCTG
1 ATCTGCTATGTAC--CTA-CT-CTCCTCG-AAA-TGGAG-ATGCCAGATCTTTATCTTGGATCTG
** * * * * *
69399140 CTTCAGTATA-AACATCTGAAGGTTAG
59 CTTTGGTGTAGAACATCCGAAAGTCAA
* * * *
69399166 ACCTGCTATGTACCTGCTCTCTGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATATGCTTTG
1 ATCTGCTATGTACCTACTCTC-CTCGAAATGGAGATGCCAGATCT-TTATCTTGGATCTGCTTTG
69399231 GTGTAAGAACATCCGAAAGTCAA
64 GTGT-AGAACATCCGAAAGTCAA
69399254 ATCTGCTATGT
1 ATCTGCTATGT
69399265 CTTCGATTTG
Statistics
Matches: 266, Mismatches: 65, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
82 20 0.08
83 6 0.02
84 8 0.03
85 6 0.02
86 39 0.15
87 47 0.18
88 58 0.22
89 42 0.16
90 6 0.02
91 9 0.03
92 6 0.02
93 19 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (85 bp):
ATCTGCTATGTACCTACTCTCCTCGAAATGGAGATGCCAGATCTTTATCTTGGATCTGCTTTGGT
GTAGAACATCCGAAAGTCAA
Found at i:69399176 original size:87 final size:86
Alignment explanation
Indices: 69398679--69399302 Score: 330
Period size: 87 Copynumber: 7.1 Consensus size: 86
69398669 GACAATACAG
* * * *
69398679 AGATGCCAAATCATCTTAGATCTACTTCAGCATAAACA-CGTGAAAGCCAAATCTGCTATGTCTT
1 AGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGTCAAATCTGCTATGTCTT
*
69398743 CGATTTGCTCCTTGTGAACACA
65 CGATTTGCTCCTTGTAAACACA
* * * * *
69398765 AGGATGCCAAATCATCTTAGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGT-A
1 A-GATGCCAAATCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAAGTCAAATCTGCTATGTCT
* * * ***
69398828 TCTA-CT-CTCCGTCG-AAA-TGG
64 TCGATTTGCTCC-TTGTAAACACA
* * ** * *
69398848 AGATGCTAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCA-A---ATCATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAAGTCAAATCTGCTAT
* * *
69398913 GTTTTCGATTTGTTCCTTGTAAACATA
60 GTCTTCGATTTGCTCCTTGTAAACACA
* * *
69398940 AGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAACCTGCTATGTAC-
1 AG-ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGT-CT
* * * ***
69399004 -CTA-CT-CTCCATCG-AAA-TGG
64 TCGATTTGCTCC-TTGTAAACACA
* ** * *
69399023 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAAGTCAAATCTGCTAT
* *
69399088 GTCTTCAATTTGTTCCTTGTAAACACA
60 GTCTTCGATTTGCTCCTTGTAAACACA
* * * * *
69399115 AGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACC
1 AG-ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGT-CT
* * * * ***
69399180 T-GCTCT-CT-GTCG-AAA-TGG
64 TCGATTTGCTCCTTGTAAACACA
* * ** * *
69399198 AGATGCCAGATCTGTTATCTTGGATATGCTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTAT
1 AGATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAAGTCAAATCTGCTAT
*
69399263 GTCTTCGATTTGTTCCTTGTAAACACA
60 GTCTTCGATTTGCTCCTTGTAAACACA
69399290 AGAATGCCAAATC
1 AG-ATGCCAAATC
69399303 TACTATCTTC
Statistics
Matches: 390, Mismatches: 103, Indels: 83
0.68 0.18 0.14
Matches are distributed among these distances:
82 24 0.06
83 6 0.02
84 15 0.04
85 8 0.02
86 63 0.16
87 100 0.26
88 75 0.19
89 46 0.12
90 8 0.02
91 15 0.04
92 7 0.02
93 23 0.06
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (86 bp):
AGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGTCTTC
GATTTGCTCCTTGTAAACACA
Found at i:69399341 original size:44 final size:44
Alignment explanation
Indices: 69399282--69399474 Score: 147
Period size: 44 Copynumber: 4.4 Consensus size: 44
69399272 TTGTTCCTTG
*
69399282 TAAACACAAGAATGCCAAATCTACTATCTTCAACTCGTTCCCTA
1 TAAACACAGGAATGCCAAATCTACTATCTTCAACTCGTTCCCTA
* * ** ** ** * * * *
69399326 TAAACATAGGGATGCCATGT-TAAAATCTTTGATTTGTTTCGCTG
1 TAAACACAGGAATGCCAAATCTACTATCTTCAACTCG-TTCCCTA
* * * * *
69399370 TAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCTGTTCCCTA
1 TAAACACAGGAATGCCAAATCTACTATCTTCAACTC-GTTCCCTA
* * * *
69399414 TAAAAACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTA
1 TAAACACAGGAATGCCAAATCTACTATCTTCAACTCGTTCCCTA
*
69399458 TAAACATAGGAATGCCA
1 TAAACACAGGAATGCCA
69399475 TGCTGAAATC
Statistics
Matches: 109, Mismatches: 36, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
43 10 0.09
44 89 0.82
45 10 0.09
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (44 bp):
TAAACACAGGAATGCCAAATCTACTATCTTCAACTCGTTCCCTA
Found at i:69399397 original size:88 final size:87
Alignment explanation
Indices: 69399264--69399430 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 87
69399254 ATCTGCTATG
69399264 TCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCTACTATCTTCAA-CTCGTTCCCTATA
1 TCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCTACTATCTTCAATCT-GTTCCCTATA
* *
69399328 AACATAGGGATGCCATGTTAAAA
65 AAAACAGGGATGCCATGTTAAAA
* * * * * * *
69399351 TCTTTGATTTGTTTCGC-TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
1 TCTTCGATTTG-TTC-CTTGTAAACACAAGAATGCCAAATCTACTATCTTCAATCTGTTCCCTAT
69399415 AAAAACAGGGATGCCA
64 AAAAACAGGGATGCCA
69399431 AATCTGCTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
87 10 0.15
88 55 0.81
89 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (87 bp):
TCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCTACTATCTTCAATCTGTTCCCTATAA
AAACAGGGATGCCATGTTAAAA
Found at i:69399501 original size:132 final size:132
Alignment explanation
Indices: 69399249--69399568 Score: 442
Period size: 132 Copynumber: 2.4 Consensus size: 132
69399239 ACATCCGAAA
* * * * * *
69399249 GTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCTACTATCTTCA
1 GTCAGATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCA
* * * * **
69399314 ACTCGTTCCCTATAAACATAGGGATGCCATGTTAAAATCTTTGATTTGTTTCGCTGTAAGCACAG
64 ACTCGTTCCCTATAAACATAGGAATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAG
69399379 GAAT
129 GAAT
* *
69399383 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAAACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAAC
* * *
69399448 TTGTTCCCTATAAACATAGGAATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACATGA
66 TCGTTCCCTATAAACATAGGAATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAGGA
*
69399513 GT
131 AT
*
69399515 GTCAGATTTGCTATCTTCGATCTGTTTCCCTATAAACACAGGGATGCCAAATCT
1 GTCAGATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCT
69399569 TGTTTCTTTA
Statistics
Matches: 165, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
132 125 0.76
133 28 0.17
134 12 0.07
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (132 bp):
GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAAC
TCGTTCCCTATAAACATAGGAATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAGGA
AT
Found at i:69400488 original size:18 final size:19
Alignment explanation
Indices: 69400465--69400511 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
69400455 TCTCCATTTT
69400465 TTTTTC-TTT-TTTTTTCTC
1 TTTTTCTTTTGTTTTTTC-C
69400483 TTTTTCTTTTGTTTTTTCC
1 TTTTTCTTTTGTTTTTTCC
69400502 TTTTT-TTTTG
1 TTTTTCTTTTG
69400512 AAATAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTGTTTTTTCC
Found at i:69406201 original size:19 final size:19
Alignment explanation
Indices: 69406166--69406299 Score: 204
Period size: 19 Copynumber: 7.2 Consensus size: 19
69406156 AGATTACAAG
69406166 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
69406187 ATCACATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
69406204 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
69406223 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
69406242 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
69406259 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
69406278 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
69406297 ATC
1 ATC
69406300 CTTAAAGATT
Statistics
Matches: 105, Mismatches: 4, Indels: 10
0.88 0.03 0.08
Matches are distributed among these distances:
17 32 0.30
19 65 0.62
20 1 0.01
21 7 0.07
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:69406221 original size:36 final size:36
Alignment explanation
Indices: 69406166--69406299 Score: 182
Period size: 36 Copynumber: 3.6 Consensus size: 36
69406156 AGATTACAAG
*
69406166 ATCATATCTTCAAGATTGCATATCACATCTAAGATTGT
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGT
69406204 ATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTG--T
*
69406242 ATCATATCTAAGATTG--TATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCATATCATATCTAAGATT--GT
69406278 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTGCATATC
69406300 CTTAAAGATT
Statistics
Matches: 88, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
36 58 0.66
37 1 0.01
38 29 0.33
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (36 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:69406240 original size:55 final size:55
Alignment explanation
Indices: 69406155--69406299 Score: 236
Period size: 55 Copynumber: 2.6 Consensus size: 55
69406145 TTAAATCTCC
*
69406155 AAGATTACAAGATCATATCTTCAAGATTGCATATCACATCTAAGATTGTATCATATCT
1 AAGATTAC-ATATCATATC-T-AAGATTGCATATCACATCTAAGATTGTATCATATCT
* *
69406213 AAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTACATATCATATCTAAGATTGCATATCACATCTAAGATTGTATCATATCT
69406268 AAGATTACATATCATATCTAAGATTGCATATC
1 AAGATTACATATCATATCTAAGATTGCATATC
69406300 CTTAAAGATT
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
55 66 0.80
56 1 0.01
57 9 0.11
58 7 0.08
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (55 bp):
AAGATTACATATCATATCTAAGATTGCATATCACATCTAAGATTGTATCATATCT
Found at i:69406308 original size:36 final size:36
Alignment explanation
Indices: 69406155--69406310 Score: 133
Period size: 36 Copynumber: 4.2 Consensus size: 36
69406145 TTAAATCTCC
* *
69406155 AAGATTACAAGATCATATCTTCAAGATTGCATATCACATCT
1 AAGATTAC-ATATCATATC-T-AAGATTGCATATC-C-TAT
* *
69406196 AAGATT--GTATCATATCTAAGATTGCATATCATATCT
1 AAGATTACATATCATATCTAAGATTGCATATCCTA--T
* *
69406232 AAGATTGCATATCATATCTAAGATTG--TATCATATCT
1 AAGATTACATATCATATCTAAGATTGCATATCCTA--T
69406268 AAGATTACATATCATATCTAAGATTGCATATCCT-T
1 AAGATTACATATCATATCTAAGATTGCATATCCTAT
69406303 AAAGATTA
1 -AAGATTA
69406311 TATTTCCATA
Statistics
Matches: 101, Mismatches: 7, Indels: 19
0.80 0.06 0.15
Matches are distributed among these distances:
34 1 0.01
35 1 0.01
36 62 0.61
37 1 0.01
38 30 0.30
41 6 0.06
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (36 bp):
AAGATTACATATCATATCTAAGATTGCATATCCTAT
Found at i:69410499 original size:27 final size:26
Alignment explanation
Indices: 69410437--69410537 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 26
69410427 AGCATGGCTG
* *
69410437 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
69410463 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
69410491 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
69410518 CCAGATCAGATAATTGTGGC
1 CCAGAACAGATAA-TGTGGC
69410538 GTAGCCATCA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.08
27 45 0.68
28 16 0.24
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:69433944 original size:31 final size:29
Alignment explanation
Indices: 69433909--69433968 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 29
69433899 ATACCTCACA
69433909 TTGTTCATTATCGGCTTAAACTAACCCCAGG
1 TTGTTCATTATCGGCTT-AA-TAACCCCAGG
*
69433940 TTGTTCATTTTCGGCTTAATAACCCCAGG
1 TTGTTCATTATCGGCTTAATAACCCCAGG
69433969 CAAAATGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 2 0.07
31 16 0.57
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (29 bp):
TTGTTCATTATCGGCTTAATAACCCCAGG
Found at i:69444301 original size:28 final size:28
Alignment explanation
Indices: 69444261--69444330 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
69444251 ATAGTAAGTC
*
69444261 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
69444289 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
69444317 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69444331 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:69449574 original size:94 final size:91
Alignment explanation
Indices: 69449319--69449586 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 91
69449309 CTCCATCGAG
* * *
69449319 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCGTGTATAC-ATGCTGATGCATGTCC
1 GCCAATGCCATGTCCCAGAC-TGGTCTTACACTGGCTATCATG-AT-CGA-GCTGATGCATGTCC
*
69449383 CAGACATGTCTTACGCTAGCAAGAAACTTA
62 CAGACATGTCTTACACTAGCAAGAAACTTA
** * * ** * *
69449413 GCTGATG-TATGTCCCAAACACGTCTTACACTGGCTAACATCATCGAGGCTGATGCATGTCCCAG
1 GCCAATGCCATGTCCCAGACTGGTCTTACACTGGCTATCATGATCGA-GCTGATGCATGTCCCAG
* *** *
69449477 ACATGTCTTACACTGGCACTCACCTCTA
65 ACATGTCTTACACTAGCAAGAAACT-TA
*
69449505 CGCCAATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATGCGA-CTGATGCATGTCCC
1 -GCCAATGCCATGTCCCAGAC-TGGTCTTACACTGGCTATCATGAT-CGAGCTGATGCATGTCCC
69449569 AGACATGTCTTA-ACTAGC
63 AGACATGTCTTACACTAGC
69449587 CCTCCTCTCA
Statistics
Matches: 140, Mismatches: 28, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
90 1 0.01
91 39 0.28
92 17 0.12
93 20 0.14
94 41 0.29
95 19 0.14
96 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (91 bp):
GCCAATGCCATGTCCCAGACTGGTCTTACACTGGCTATCATGATCGAGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCAAGAAACTTA
Found at i:69450030 original size:30 final size:30
Alignment explanation
Indices: 69449973--69450030 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
69449963 AAATTTATAT
* *
69449973 CTTTGATAAAATGACCATTTTGCCCCTAGA
1 CTTTGACAAAATGACCATTTTACCCCTAGA
*
69450003 CTTTGACAAAATGACCATTTTATCCCTA
1 CTTTGACAAAATGACCATTTTACCCCTA
69450031 TGCTCGAAAG
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:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTGACAAAATGACCATTTTACCCCTAGA
Found at i:69452742 original size:57 final size:56
Alignment explanation
Indices: 69452650--69452762 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 56
69452640 CTCGGGGCAC
69452650 AGGCTATAACCTTGCCTTTTGCATTAGCACACTCCCTAAACCGTTTAGGGAGGCGT
1 AGGCTATAACCTTGCCTTTTGCATTAGCACACTCCCTAAACCGTTTAGGGAGGCGT
69452706 AGGCTATAACCTTGCCTTTTTGCATTAGCACACTCCCTAAACCGTTTAGGGAGGCGT
1 AGGCTATAACCTTGCC-TTTTGCATTAGCACACTCCCTAAACCGTTTAGGGAGGCGT
69452763 CATTAAAAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 16 0.29
57 40 0.71
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (56 bp):
AGGCTATAACCTTGCCTTTTGCATTAGCACACTCCCTAAACCGTTTAGGGAGGCGT
Found at i:69456019 original size:55 final size:54
Alignment explanation
Indices: 69455960--69456078 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 54
69455950 CGTGTGCGAC
* * * **
69455960 ACTGACTTTAGGGCACGGCCATGACACACGC-CTGTGTGGCCTACCCGTGGGTAAT
1 ACTGACTTTA-GACACAGCCATGACACACGCTC-GTGTGGCCTAACCGTGGACAAT
* *
69456015 ACTGACTTATAGACACAGCTATGGCACACGCTCGTGTGGCCTAACCGTGGACAAT
1 ACTGACTT-TAGACACAGCCATGACACACGCTCGTGTGGCCTAACCGTGGACAAT
69456070 ACTGA-TTTA
1 ACTGACTTTA
69456079 AAAATTTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 48 0.87
56 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (54 bp):
ACTGACTTTAGACACAGCCATGACACACGCTCGTGTGGCCTAACCGTGGACAAT
Found at i:69456943 original size:49 final size:48
Alignment explanation
Indices: 69456838--69457199 Score: 193
Period size: 47 Copynumber: 7.7 Consensus size: 48
69456828 AAGTTACCGC
*
69456838 TGCCATGTCCCAGACATGGTCTTACGCTAGCTATCTCCATCGAGGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTCCATC-AGGTCGA
* ** *
69456887 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTAT-ATGTGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATC-TCCATCAGGT-C-GA
*** *
69456937 TG-CATGTCCCAGACAT-GTCTTACACTAGC-A-CGAAACTCA-GCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTCCA-TCAGGTCGA
* ** * * *
69456981 TG-CATGTCCCTGACA-CATCTTACACTGGCTAACAT-CATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATC-TCCATC-AGGTCGA
* * * * *
69457028 TG-CATGTCCTAGACAT-GTCTTACACTGGC-A-CTCACCTCTACGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTC-CATC-AGGTCGA
* * ** * * *
69457074 TGCCATGTCCCAGACGTAGTCTTACACGGGCTATCAT-GATGTAGCT-GA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATC-TCCAT-CAGGTCGA
** * * *
69457122 TG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTTAATGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATC-TCCATCAGGTCGA
*
69457168 TGCCATGTCCCAGACATGGTCTTATACTAGCT
1 TGCCATGTCCCAGACATGGTCTTACACTAGCT
69457200 CTCACATAAC
Statistics
Matches: 247, Mismatches: 43, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
44 28 0.11
45 8 0.03
46 37 0.15
47 70 0.28
48 44 0.18
49 51 0.21
50 8 0.03
51 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTCCATCAGGTCGA
Found at i:69457127 original size:94 final size:93
Alignment explanation
Indices: 69456841--69457191 Score: 320
Period size: 94 Copynumber: 3.7 Consensus size: 93
69456831 TTACCGCTGC
* * * * *
69456841 CATGTCCCAGACATGGTCTTACGCTAGCTATCTCCA-TCGAGGTCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCAACTCTA-GCCGATGCCATGTCCCAGACATA
* * *
69456905 GTCTTACACTAGCTCTCGTGTATATGT-GCTGATG
62 GTCTTACACTGGCTATCATG---ATGTAGCTGATG
** * *
69456939 CATGTCCCAGACATGTCTTACACTAGCACGAAACTC-AGCCGATG-CATGTCCCTGACACA-TCT
1 CATGTCCCAGACATGTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCCAGACATAGTCT
* * *
69457001 TACACTGGCTAACATCATCG-AGGCCGATG
66 TACACTGGCTATCATGAT-GTA-GCTGATG
* * * *
69457030 CATGTCCTAGACATGTCTTACACTGGCACTCACCTCTACGCCGATGCCATGTCCCAGACGTAGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCCAGACATAGTC
*
69457095 TTACACGGGCTATCATGATGTAGCTGATG
65 TTACACTGGCTATCATGATGTAGCTGATG
* ** * *
69457124 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCT-TAATGTCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCACTCAACTCT-A-GCCGATGCCATGTCCCAGACATAGT
69457188 CTTA
64 CTTA
69457192 TACTAGCTCT
Statistics
Matches: 208, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
89 2 0.01
90 1 0.00
91 37 0.18
92 15 0.07
93 20 0.10
94 82 0.39
95 22 0.11
96 3 0.01
97 12 0.06
98 14 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCCAGACATAGTCT
TACACTGGCTATCATGATGTAGCTGATG
Found at i:69460260 original size:21 final size:21
Alignment explanation
Indices: 69460230--69460283 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
69460220 GTTCCATTTG
* *
69460230 GTATCGGTAGAACCCGTTAAA
1 GTATCAGTAGAACCCGTCAAA
69460251 GTATCAGTAGAACCCGTCAAA
1 GTATCAGTAGAACCCGTCAAA
* *
69460272 TTATCAATAGAA
1 GTATCAGTAGAA
69460284 GTGCAGGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (21 bp):
GTATCAGTAGAACCCGTCAAA
Found at i:69461575 original size:8 final size:8
Alignment explanation
Indices: 69461562--69461592 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
69461552 AAGCAAATTA
69461562 AAAAAAAC
1 AAAAAAAC
69461570 AAAAAAAC
1 AAAAAAAC
69461578 AAAAAAAC
1 AAAAAAAC
69461586 AAAAAAA
1 AAAAAAA
69461593 AAGTGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:69467306 original size:75 final size:75
Alignment explanation
Indices: 69467102--69467294 Score: 323
Period size: 75 Copynumber: 2.6 Consensus size: 75
69467092 TTGATCGCGT
* *
69467102 TCACTCTCGTGTCTCCTCAACCTACTACTGCTTCTCTCTCTCCTATCTCTCTCCCGCTCCCTCTC
1 TCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCCTATCTCTCTCCCGCTCCCTCTC
*
69467167 TAGCTCACGA
66 AAGCTCACGA
* *
69467177 TCACTCTCGTGCCTCCTCGACCTACTACTGCTCCTCTCTCTCCTATCTCTCTCCCGTTCCCTCTC
1 TCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCCTATCTCTCTCCCGCTCCCTCTC
*
69467242 AATCTCACGA
66 AAGCTCACGA
*
69467252 TCACTTTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCC
1 TCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCC
69467295 GGTCTACCTC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 110 1.00
ACGTcount: A:0.11, C:0.46, G:0.08, T:0.35
Consensus pattern (75 bp):
TCACTCTCGTGCCTCCTCGACCTACTACTGCTTCTCTCTCTCCTATCTCTCTCCCGCTCCCTCTC
AAGCTCACGA
Found at i:69467331 original size:20 final size:20
Alignment explanation
Indices: 69467306--69467364 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
69467296 GTCTACCTCC
69467306 CTCTCTTTCTCCTTTTCCTT
1 CTCTCTTTCTCCTTTTCCTT
69467326 CTCTCTTTC-CC--TT-C-T
1 CTCTCTTTCTCCTTTTCCTT
69467341 CTCTC--TCTCCTTTTCCTT
1 CTCTCTTTCTCCTTTTCCTT
69467359 CTCTCT
1 CTCTCT
69467365 CCTATCCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
13 2 0.06
14 2 0.06
15 6 0.18
16 3 0.09
17 3 0.09
18 6 0.18
19 2 0.06
20 9 0.27
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (20 bp):
CTCTCTTTCTCCTTTTCCTT
Found at i:69467338 original size:13 final size:13
Alignment explanation
Indices: 69467312--69467344 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
69467302 CTCCCTCTCT
*
69467312 TTCTC-CTTTTCC
1 TTCTCTCTTTCCC
69467324 TTCTCTCTTTCCC
1 TTCTCTCTTTCCC
69467337 TTCTCTCT
1 TTCTCTCT
69467345 CTCTCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (13 bp):
TTCTCTCTTTCCC
Found at i:69467376 original size:33 final size:32
Alignment explanation
Indices: 69467303--69467446 Score: 105
Period size: 33 Copynumber: 4.4 Consensus size: 32
69467293 CCGGTCTACC
*
69467303 TCCCTCTCTTTCTCCTTTTCCTTCTCTCT-T-
1 TCCCTCTCTCTCTCCTTTTCCTTCTCTCTCTA
69467333 TCCCTTCTCTCTCTCTCCTTTTCCTTCTCTCTCCTA
1 T-CC--CTCTCTCTCTCCTTTTCCTTCTCTCT-CTA
* * * * *
69467369 TCCCTCTCTTTCTCCTTATCTTTTTCTCTTCTT
1 TCCCTCTCTCTCTCCTTTTCCTTCTCTC-TCTA
* * * * *
69467402 TCTCTCTCCCTTTCCTTCTCCCTCTCTCTGCTA
1 TCCCTCTCTCTCTCCTTTTCCTTCTCTCT-CTA
*
69467435 CCCCTC-CTCTCT
1 TCCCTCTCTCTCT
69467447 AAATCCTTAT
Statistics
Matches: 87, Mismatches: 19, Indels: 14
0.73 0.16 0.12
Matches are distributed among these distances:
30 1 0.01
31 2 0.02
32 5 0.06
33 74 0.85
34 1 0.01
35 3 0.03
36 1 0.01
ACGTcount: A:0.02, C:0.46, G:0.01, T:0.51
Consensus pattern (32 bp):
TCCCTCTCTCTCTCCTTTTCCTTCTCTCTCTA
Found at i:69467428 original size:66 final size:66
Alignment explanation
Indices: 69467303--69467440 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 66
69467293 CCGGTCTACC
* * *
69467303 TCCCTCTCTTTCTCCTTTTCCTTCTCTCTTTCCCTTCTCTCTCTCTCCTTTTCCTTCTCTCTCCT
1 TCCCTCTCTTTCTCCTTATCCTTCTCTCTTTCCCTTCTCTCTCTCTCCTTCTCCCTCTCTCTCCT
69467368 A
66 A
* * * * *
69467369 TCCCTCTCTTTCTCCTTATCTTTTTCTC-TT-CTTTCTCTCTCCCTTTCCTTCTCCCTCTCTCTG
1 TCCCTCTCTTTCTCCTTATCCTTCTCTCTTTCCCTTCTCTCT--CTCTCCTTCTCCCTCTCTCTC
69467432 CTA
64 CTA
*
69467435 CCCCTC
1 TCCCTC
69467441 CTCTCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 9 0.15
65 2 0.03
66 50 0.82
ACGTcount: A:0.02, C:0.46, G:0.01, T:0.51
Consensus pattern (66 bp):
TCCCTCTCTTTCTCCTTATCCTTCTCTCTTTCCCTTCTCTCTCTCTCCTTCTCCCTCTCTCTCCT
A
Found at i:69468044 original size:9 final size:9
Alignment explanation
Indices: 69468030--69468056 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
69468020 GGATACGATA
69468030 TGTGTGAAG
1 TGTGTGAAG
69468039 TGTGTGAAG
1 TGTGTGAAG
69468048 TGTGTGAAG
1 TGTGTGAAG
69468057 CGTACGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (9 bp):
TGTGTGAAG
Found at i:69468388 original size:20 final size:18
Alignment explanation
Indices: 69468351--69468389 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
69468341 TTTATTTTTA
*
69468351 AAAATATTTAAAATTATT
1 AAAATATTTAAAAATATT
69468369 AAAATATTAATAAAAATATT
1 AAAATATT--TAAAAATATT
69468389 A
1 A
69468390 TATTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATATTTAAAAATATT
Found at i:69468432 original size:26 final size:26
Alignment explanation
Indices: 69468371--69468420 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
69468361 AAATTATTAA
*
69468371 AATATTAATAAAAATATTATATTTTT
1 AATATTATTAAAAATATTATATTTTT
*
69468397 AATATTATTAAACATA-TATATTTT
1 AATATTATTAAAAATATTATATTTT
69468421 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AATATTATTAAAAATATTATATTTTT
Found at i:69468453 original size:94 final size:98
Alignment explanation
Indices: 69468355--69468575 Score: 276
Period size: 95 Copynumber: 2.3 Consensus size: 98
69468345 TTTTTAAAAA
* * *
69468355 TATTTAAAATTATTAAAATATTAATAAAAATATTATAT-TTTTAATATTATTAAACATATATATT
1 TATTTATAATTATTAAAATATTAATAAAAATATTATATCTTTCAATATTATTAAACATACATATT
*
69468419 TTATTATTT-TATTATA-TT-GATAATAAATT-T
66 TAATTATTTATATT-TAGTTAGATAATAAATTAT
* *
69468449 TATTT-TTATTTTTAAAAATATTAATAAAAATATTATATCTTTCAATATTATTAAACATACATAT
1 TATTTATAATTATT-AAAATATTAATAAAAATATTATATCTTTCAATATTATTAAACATACATAT
*
69468513 TTAATTATTTATATTTAGTTATATAATAAATTAT
65 TTAATTATTTATATTTAGTTAGATAATAAATTAT
**
69468547 T-TTTATAATTAATATAATTTATTAATAAA
1 TATTTATAATT-AT-TAAAATATTAATAAA
69468576 TTATTTAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
93 5 0.05
94 29 0.27
95 34 0.32
96 6 0.06
97 13 0.12
98 6 0.06
99 13 0.12
100 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (98 bp):
TATTTATAATTATTAAAATATTAATAAAAATATTATATCTTTCAATATTATTAAACATACATATT
TAATTATTTATATTTAGTTAGATAATAAATTAT
Found at i:69468555 original size:16 final size:16
Alignment explanation
Indices: 69468534--69468581 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
69468524 TATTTAGTTA
69468534 TATAATAAATTATTTT
1 TATAATAAATTATTTT
* *
69468550 TATAATTAA-TATAATT
1 TATAATAAATTAT-TTT
69468566 TATTAATAAATTATTT
1 TA-TAATAAATTATTT
69468582 AATATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
17 7 0.28
18 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATAATAAATTATTTT
Found at i:69468592 original size:33 final size:34
Alignment explanation
Indices: 69468531--69468611 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
69468521 TTATATTTAG
*
69468531 TTATATAATAAATTATTTTTATAATTAA-TATAAT
1 TTAT-TAATAAATTATTTATATAATTAATTATAAT
* * *
69468565 TTATTAATAAATTATTTA-ATATTTTAATTTTATT
1 TTATTAATAAATTATTTATATA-ATTAATTATAAT
*
69468599 TTAATAATAAATT
1 TTATTAATAAATT
69468612 TTAAAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 3 0.08
33 17 0.43
34 20 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
TTATTAATAAATTATTTATATAATTAATTATAAT
Found at i:69468636 original size:16 final size:17
Alignment explanation
Indices: 69468600--69468636 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
69468590 AATTTTATTT
69468600 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
69468617 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
69468632 TAATA
1 TAATA
69468637 TTATTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:69469474 original size:16 final size:15
Alignment explanation
Indices: 69469441--69469477 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
69469431 AGCACTCAAA
69469441 TTTTCAACATTTATT
1 TTTTCAACATTTATT
*
69469456 TTTTCAACATTTAAT
1 TTTTCAACATTTATT
69469471 TTTTCAA
1 TTTTCAA
69469478 TTTATCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTCAACATTTATT
Found at i:69470103 original size:20 final size:22
Alignment explanation
Indices: 69470067--69470113 Score: 80
Period size: 20 Copynumber: 2.2 Consensus size: 22
69470057 CTTTTAATAA
69470067 TAAATTTTAACAATAATATTTT
1 TAAATTTTAACAATAATATTTT
69470089 TAAATTTT-A-AATAATATTTT
1 TAAATTTTAACAATAATATTTT
69470109 TAAAT
1 TAAAT
69470114 AATATTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 16 0.64
21 1 0.04
22 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATTTTAACAATAATATTTT
Found at i:69470111 original size:13 final size:13
Alignment explanation
Indices: 69470093--69470119 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69470083 TATTTTTAAA
69470093 TTTTAAATAATAT
1 TTTTAAATAATAT
69470106 TTTTAAATAATAT
1 TTTTAAATAATAT
69470119 T
1 T
69470120 GAAAAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAATAATAT
Found at i:69470223 original size:22 final size:24
Alignment explanation
Indices: 69470173--69470224 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
69470163 AATTTATAGA
* *
69470173 TATTTAATAATAAATAAAATATTAT
1 TATTTAATAAT-AATAAAATATAAG
69470198 TATTTAATAAT-AT-AAATATAAG
1 TATTTAATAATAATAAAATATAAG
69470220 TATTT
1 TATTT
69470225 GTTTAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
25 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TATTTAATAATAATAAAATATAAG
Found at i:69470223 original size:25 final size:24
Alignment explanation
Indices: 69470173--69470223 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
69470163 AATTTATAGA
*
69470173 TATTTAATAATAAATAAAATATTAT
1 TATTTAATAAT-AATAAAATAGTAT
69470198 TATTTAATAAT-ATAAATATAAGTAT
1 TATTTAATAATAATAAA-AT-AGTAT
69470223 T
1 T
69470224 TGTTTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.22
24 2 0.09
25 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TATTTAATAATAATAAAATAGTAT
Found at i:69471190 original size:22 final size:22
Alignment explanation
Indices: 69471148--69471192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
69471138 AAATATGTCG
*
69471148 TTTTTTTTAATTGGTTAAAAATA
1 TTTTTTTTAATT-GTAAAAAATA
69471171 TTTTTTTTAATT-TAAGAAAATA
1 TTTTTTTTAATTGTAA-AAAATA
69471193 GGTTGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 6 0.30
23 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTTTTTTAATTGTAAAAAATA
Found at i:69476696 original size:14 final size:14
Alignment explanation
Indices: 69476673--69476705 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
69476663 ATGGAAATTC
*
69476673 GATTTCTACTAGTT
1 GATTTATACTAGTT
69476687 GATTTATACTAGTT
1 GATTTATACTAGTT
69476701 GATTT
1 GATTT
69476706 CCTAACATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (14 bp):
GATTTATACTAGTT
Found at i:69477317 original size:26 final size:26
Alignment explanation
Indices: 69477266--69477317 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
69477256 TTTTCTTCAT
*
69477266 GTTTTTAATAACATAAAGAGCTATGA
1 GTTTTTAATAACATAAAGAGCAATGA
*
69477292 GTTTTTGAATAACATAAA-ATCAATGA
1 GTTTTT-AATAACATAAAGAGCAATGA
69477318 TTATGGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (26 bp):
GTTTTTAATAACATAAAGAGCAATGA
Found at i:69477750 original size:34 final size:35
Alignment explanation
Indices: 69477706--69477780 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
69477696 TTCTTAATAA
69477706 TAAT-ATTATATTAA-AATTGTTATTAAATAT-TA-T
1 TAATAATTATATTAAGAA-TGTTATTAAAT-TGTATT
69477739 TAATAATTATATTAAGAATGTTATTAAATTGTATT
1 TAATAATTATATTAAGAATGTTATTAAATTGTATT
69477774 TAATAAT
1 TAATAAT
69477781 AATTATGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
33 5 0.13
34 23 0.61
35 10 0.26
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (35 bp):
TAATAATTATATTAAGAATGTTATTAAATTGTATT
Found at i:69477860 original size:25 final size:26
Alignment explanation
Indices: 69477811--69477860 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
69477801 AAATTATTTT
*
69477811 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
69477837 TTATTAAAATTTA-ATAACAATAAT
1 TTATTAAAATATATATAACAATAAT
69477861 TAACTATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:69478123 original size:16 final size:16
Alignment explanation
Indices: 69478091--69478125 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
69478081 TGGTTGGGGG
*
69478091 AATGGAATAGGACTGT
1 AATGGAATAGAACTGT
*
69478107 AATGGAATAGAATTGT
1 AATGGAATAGAACTGT
69478123 AAT
1 AAT
69478126 TAGTAATTCA
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:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (16 bp):
AATGGAATAGAACTGT
Found at i:69478777 original size:26 final size:27
Alignment explanation
Indices: 69478750--69478839 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
69478740 ATAAAAAATC
69478750 AAAACTCATAGTTTTTTATGTTATTCA
1 AAAACTCATAGTTTTTTATGTTATTCA
*
69478777 AAAAC-CATAATTCTTGATTTTATGTTATTCA
1 AAAACTCAT-A--GTT--TTTTATGTTATTCA
* * * *
69478808 AAAACTTATAGTTCTTTATATTATTAA
1 AAAACTCATAGTTTTTTATGTTATTCA
69478835 AAAAC
1 AAAAC
69478840 ATGAAGAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.06
27 22 0.43
29 4 0.08
31 20 0.39
32 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (27 bp):
AAAACTCATAGTTTTTTATGTTATTCA
Found at i:69479462 original size:25 final size:25
Alignment explanation
Indices: 69479433--69479483 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
69479423 CAAAGGAAAA
**
69479433 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
69479458 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
69479483 T
1 T
69479484 TTATAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:69484127 original size:25 final size:25
Alignment explanation
Indices: 69484098--69484148 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
69484088 CAAAAGAAAA
**
69484098 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
69484123 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
69484148 T
1 T
69484149 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:69485326 original size:30 final size:30
Alignment explanation
Indices: 69485233--69485329 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
69485223 GTTTAAATAC
69485233 ATAAACCTATACCTTTCCCAGCATATGCTCAT
1 ATAAACCTATACCTTTCCCAGC--ATGCTCAT
* * *
69485265 ACAAACTTATACCCTTCCCAGCATGCTCAT
1 ATAAACCTATACCTTTCCCAGCATGCTCAT
* *
69485295 ATAAACCTATACCTTTTCTAGCATGCTCAT
1 ATAAACCTATACCTTTCCCAGCATGCTCAT
69485325 ATAAA
1 ATAAA
69485330 ATTTCAAACC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 38 0.67
32 19 0.33
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.31
Consensus pattern (30 bp):
ATAAACCTATACCTTTCCCAGCATGCTCAT
Found at i:69485789 original size:133 final size:129
Alignment explanation
Indices: 69485637--69485876 Score: 374
Period size: 133 Copynumber: 1.8 Consensus size: 129
69485627 GTTTGCCAAT
69485637 AGCTAAGAACAATAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAGAAAAAG
1 AGCTAAGAACAATAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGT---AAAGAAAAAG
* *
69485702 TAAAAACAGACAAACCCATTTAAATTTGAACTGAAAGAACACAAAAACAAAGATTGTAATTTACA
63 TAAAAACAAACAAACCCATTTAAA-TTGAACTAAAAGAACACAAAAACAAAGATTGTAATTTACA
69485767 AAG
127 AAG
* * *
69485770 AGCTAAGAAC-ATCAAAATCAACAAAAGGGGCAATCAATAAGAATCAAATAGTATAGAAAAAGTA
1 AGCTAAGAACAAT-AAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTAAAGAAAAAGTA
*
69485834 AAAACAAACAAACCCATTTTAATTGAACTAAAAGAACACAAAA
65 AAAACAAACAAACCCATTTAAATTGAACTAAAAGAACACAAAA
69485877 GCGAAGACCG
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
129 20 0.20
130 31 0.31
132 2 0.02
133 47 0.47
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.16
Consensus pattern (129 bp):
AGCTAAGAACAATAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTAAAGAAAAAGTAA
AAACAAACAAACCCATTTAAATTGAACTAAAAGAACACAAAAACAAAGATTGTAATTTACAAAG
Found at i:69485917 original size:133 final size:130
Alignment explanation
Indices: 69485639--69485905 Score: 362
Period size: 133 Copynumber: 2.1 Consensus size: 130
69485629 TTGCCAATAG
69485639 CTAAGAACAAT-AAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAGAAAAAGT
1 CTAAGAAC-ATCAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGT--AAAAGAAAAAGT
* * **
69485703 AAAAACAGACAAACCCATTTAAATTTGAACTGAAAGAACACAAAAACAAAGATTGTAATTTACAA
63 AAAAACAAACAAACCCATTTAAATTTGAACTAAAAGAACACAAAAACAAAGACCGTAATTTA-AA
*
69485768 AGAG
127 AGAA
* * *
69485772 CTAAGAACATCAAAATCAACAAAAGGGGCAATCAATAAGAATCAAATAGT-ATAGAAAAAGTAAA
1 CTAAGAACATCAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTAAAAGAAAAAGTAAA
* * * *
69485836 AACAAACAAACCCATTTTAA-TTGAACTAAAAGAACACAAAAGCGAAGACCGTAGTTT-AAAGAA
66 AACAAACAAACCCATTTAAATTTGAACTAAAAGAACACAAAAACAAAGACCGTAATTTAAAAGAA
69485899 CTAAGAA
1 CTAAGAA
69485906 TAGCTAAATC
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
127 12 0.10
129 31 0.26
130 31 0.26
132 2 0.02
133 45 0.37
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.16
Consensus pattern (130 bp):
CTAAGAACATCAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTAAAAGAAAAAGTAAA
AACAAACAAACCCATTTAAATTTGAACTAAAAGAACACAAAAACAAAGACCGTAATTTAAAAGAA
Found at i:69486719 original size:16 final size:16
Alignment explanation
Indices: 69486683--69486730 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
69486673 GATTGTTTCA
* *
69486683 CTGTAATAGAATAGGG
1 CTGTAATTGAATAGAG
*
69486699 TTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
69486715 CTGTAA-TGTAATAGAG
1 CTGTAATTG-AATAGAG
69486731 TTATAATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:69487004 original size:17 final size:17
Alignment explanation
Indices: 69486982--69487014 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
69486972 AATTATTATT
69486982 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
69486999 AAATATAATTTAATAA
1 AAATATAATTTAATAA
69487015 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:69487423 original size:14 final size:14
Alignment explanation
Indices: 69487404--69487430 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69487394 ACAAACACAA
69487404 AAAAATACAAAATG
1 AAAAATACAAAATG
69487418 AAAAATACAAAAT
1 AAAAATACAAAAT
69487431 AAATTCACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAAATACAAAATG
Found at i:69487849 original size:28 final size:30
Alignment explanation
Indices: 69487803--69487862 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
69487793 AAAGGACTTG
69487803 AAAATTAAATATAAGTTAACTTTAAT-TTTT
1 AAAATTAAATATAAGTTAA-TTTAATATTTT
* *
69487833 AAAATTATAT-TAA-TTAATTTATTATTTT
1 AAAATTAAATATAAGTTAATTTAATATTTT
69487861 AA
1 AA
69487863 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 3 0.11
30 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
AAAATTAAATATAAGTTAATTTAATATTTT
Found at i:69490308 original size:3 final size:3
Alignment explanation
Indices: 69490302--69490333 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
69490292 AGTGAAAAAA
*
69490302 AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
69490334 AAATGGTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:69495611 original size:19 final size:19
Alignment explanation
Indices: 69495587--69495681 Score: 149
Period size: 19 Copynumber: 5.0 Consensus size: 19
69495577 CTTTAAGGAC
69495587 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
69495606 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
69495625 A--CAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
69495642 ATGCAATCTTAAATATGAT
1 ATGCAATCTTAGATATGAT
69495661 ATGCAATCTTGAAGATATGAT
1 ATGCAATCTT--AGATATGAT
69495682 CTTGTAATCT
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
17 17 0.24
19 45 0.64
21 8 0.11
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGCAATCTTAGATATGAT
Found at i:69495614 original size:36 final size:35
Alignment explanation
Indices: 69495574--69495651 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
69495564 ATGGAAATAT
69495574 AATCTTTAAGGACATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GACATGACAATCTTAGATATGATATGC
*
69495610 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGACATG--ACAATCTTAGATATGATATGC
69495646 AATCTT
1 AATCTT
69495652 AAATATGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 5 0.14
34 1 0.03
35 2 0.05
36 28 0.76
37 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
AATCTTTAGACATGACAATCTTAGATATGATATGC
Found at i:69495622 original size:14 final size:15
Alignment explanation
Indices: 69495603--69495640 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
69495593 TCTTAGATAT
69495603 GATATG-CAATCTTA
1 GATATGACAATCTTA
69495617 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
69495634 GATATGA
1 GATATGA
69495641 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:69495652 original size:36 final size:37
Alignment explanation
Indices: 69495589--69495681 Score: 143
Period size: 36 Copynumber: 2.5 Consensus size: 37
69495579 TTAAGGACAT
*
69495589 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAAATATGATA
69495626 -CAATCTTAGATATGATATGCAATCTTAAATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAAATATGATA
69495662 TGCAATCTTGAAGATATGAT
1 -GCAATCTT--AGATATGAT
69495682 CTTGTAATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 35 0.69
38 7 0.14
40 9 0.18
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (37 bp):
GCAATCTTAGATATGATATGCAATCTTAAATATGATA
Found at i:69497448 original size:24 final size:24
Alignment explanation
Indices: 69497421--69497468 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
69497411 TGTAATTTTA
69497421 AATCTTGAAAAATTTTTAATCATT
1 AATCTTGAAAAATTTTTAATCATT
69497445 AATCTTGAAAAATTTTTAATCATT
1 AATCTTGAAAAATTTTTAATCATT
69497469 CTTTTTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (24 bp):
AATCTTGAAAAATTTTTAATCATT
Found at i:69497839 original size:13 final size:14
Alignment explanation
Indices: 69497815--69497843 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
69497805 TTCATCCAAA
69497815 ATAATCCTTTTTTG
1 ATAATCCTTTTTTG
69497829 ATAAT-CTTTTTTG
1 ATAATCCTTTTTTG
69497842 AT
1 AT
69497844 TGCTTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (14 bp):
ATAATCCTTTTTTG
Found at i:69503840 original size:209 final size:213
Alignment explanation
Indices: 69503479--69503870 Score: 643
Period size: 209 Copynumber: 1.9 Consensus size: 213
69503469 ACTGTTTTGC
* *
69503479 AAATTTTCAAGTTTTTCTAAAACTTTCTGATTTGATTCAATTTGATCCTGGATCATCCTCAAATT
1 AAATTTTCAAGTTTTTCTAAAACTTTCTGATTTGATGCAATTTGATCCTAGATCATCCTCAAATT
*
69503544 GTTTTTTAGGGCTCCATAAGTTCGATTTAAGGTCCATAAGTGATTTATTCTATAAATTGATTTCG
66 GTTTTTTAGGGCTCCATAAGTTCGATTTAAGGTCCATAAGTGATTTATTCTATAAATTGATTTCA
* *
69503609 TTTGTTATATGTTTGTT-A-ATT-ATTTGTTTAATTGGTCTGAAATGAAATGAAATGTTCTATAT
131 TTTGTTACATGTTTGTTAATATTAATTTGGTTAATTGGTCTGAAATGAAATGAAATGTTCTATAT
69503671 TGCTTAGTAACACTCTGT
196 TGCTTAGTAACACTCTGT
69503689 AAATTTTCAAGATTTTT-TAAAACTTTCTGATTTGATGCAATTTGATCCTAGATC-TCCTCAAAT
1 AAATTTTCAAG-TTTTTCTAAAACTTTCTGATTTGATGCAATTTGATCCTAGATCATCCTCAAAT
* * *
69503752 TGTTTTTTAGGGCTCCGT-ATTTCGATTTAAGGTGCATAAGTGTATTTATTCTATAAATTGATTT
65 TGTTTTTTAGGGCTCCATAAGTTCGATTTAAGGTCCATAAGTG-ATTTATTCTATAAATTGATTT
69503816 CATTTGTTACATGTTTGTTAATTATTAATTTGGTTAATTGGTCTGAAATGAAATG
129 CATTTGTTACATGTTTGTTAA-TATTAATTTGGTTAATTGGTCTGAAATGAAATG
69503871 TTCTATATTG
Statistics
Matches: 168, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
208 22 0.13
209 64 0.38
210 47 0.28
211 5 0.03
212 3 0.02
213 27 0.16
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (213 bp):
AAATTTTCAAGTTTTTCTAAAACTTTCTGATTTGATGCAATTTGATCCTAGATCATCCTCAAATT
GTTTTTTAGGGCTCCATAAGTTCGATTTAAGGTCCATAAGTGATTTATTCTATAAATTGATTTCA
TTTGTTACATGTTTGTTAATATTAATTTGGTTAATTGGTCTGAAATGAAATGAAATGTTCTATAT
TGCTTAGTAACACTCTGT
Found at i:69503941 original size:209 final size:206
Alignment explanation
Indices: 69503511--69503941 Score: 480
Period size: 209 Copynumber: 2.1 Consensus size: 206
69503501 CTTTCTGATT
* *
69503511 TGATTCAATTTGATCCTGGATCATCCTCAAATTGTTTTTTAGGGCTCCATAAGTTCGATTTAAGG
1 TGATACAATTTGATCCTAGATCATCCTCAAATTGTTTTTTAGGGCTCCATAAGTTCGATTTAAGG
* * *
69503576 TCCATAAGTGATTTATTCTATAAATTGATTTCGTTTGTTATATGTTTGTTAATTATTTGTTTAAT
66 TCCATAAGTGATTTATTCTATAAATTGATTTCATTTGTTACATGTTTGTTAATTATTTGGTTAAT
* ** * * **
69503641 TGGTCTGAAATGAAATGAAATGTTCTATATTGCTTAGTAACACTCTGTAAATTTTCAAGATTTTT
131 TGGTC----ATGAAATGAAATGTTCTATATTGCTCAGTAACACTCTGTAAACCTTCAACATATAA
* * **
69503706 TAAAACTTTCTGATT
192 TAAAACGTTCGGAGG
* * *
69503721 TGATGCAATTTGATCCTAGATC-TCCTCAAATTGTTTTTTAGGGCTCCGT-ATTTCGATTTAAGG
1 TGATACAATTTGATCCTAGATCATCCTCAAATTGTTTTTTAGGGCTCCATAAGTTCGATTTAAGG
*
69503784 TGCATAAGTGTATTTATTCTATAAATTGATTTCATTTGTTACATGTTTGTTAATTATTAATTTGG
66 TCCATAAGTG-ATTTATTCTATAAATTGATTTCATTTGTTACATGTTTGTT-A--ATT-ATTTGG
* *
69503849 TTAATTGGTC-TGAAATGAAATGTTCTATATTGCTCGGTAACATTCTGT-AACCTT-AACCCA-A
126 TTAATTGGTCATGAAATGAAATGTTCTATATTGCTCAGTAACACTCTGTAAACCTTCAA--CATA
69503910 TAATAAAGACAAGTT-GGAGG
189 TAATAAA-AC--GTTCGGAGG
*
69503930 TGTTACAATTTG
1 TGATACAATTTG
69503942 GATTAATAAA
Statistics
Matches: 188, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
206 2 0.01
207 9 0.05
208 60 0.32
209 76 0.40
210 23 0.12
212 3 0.02
213 15 0.08
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (206 bp):
TGATACAATTTGATCCTAGATCATCCTCAAATTGTTTTTTAGGGCTCCATAAGTTCGATTTAAGG
TCCATAAGTGATTTATTCTATAAATTGATTTCATTTGTTACATGTTTGTTAATTATTTGGTTAAT
TGGTCATGAAATGAAATGTTCTATATTGCTCAGTAACACTCTGTAAACCTTCAACATATAATAAA
ACGTTCGGAGG
Found at i:69513300 original size:11 final size:11
Alignment explanation
Indices: 69513284--69513331 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
69513274 TTAATTTTAG
69513284 TTATTTTAATT
1 TTATTTTAATT
*
69513295 TTATTTTATTT
1 TTATTTTAATT
69513306 TTCGATTATTAATT
1 TT--ATT-TTAATT
*
69513320 TTATTTCAATT
1 TTATTTTAATT
69513331 T
1 T
69513332 CTCTTAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 18 0.58
12 3 0.10
13 3 0.10
14 7 0.23
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (11 bp):
TTATTTTAATT
Done.