Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168315.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_54, whole genome shotgun sequence
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: 150814
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 2 of 4
Found at i:55250 original size:20 final size:20
Alignment explanation
Indices: 55221--55261 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
55211 TTTTGTTATT
55221 TTATAATAAATTAATAATAA
1 TTATAATAAATTAATAATAA
* *
55241 TTATATTAAATTATTAATAA
1 TTATAATAAATTAATAATAA
55261 T
1 T
55262 AATAGCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATAATAAATTAATAATAA
Found at i:55520 original size:10 final size:10
Alignment explanation
Indices: 55505--55544 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
55495 TAGATGTCCT
55505 AATTTATTTA
1 AATTTATTTA
55515 AATTTATTTA
1 AATTTATTTA
55525 AA-TTA-TTA
1 AATTTATTTA
*
55533 TATTTATTTA
1 AATTTATTTA
55543 AA
1 AA
55545 CTATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 4 0.15
9 6 0.23
10 16 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTATTTA
Found at i:55616 original size:24 final size:23
Alignment explanation
Indices: 55588--55646 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 23
55578 ATTCATAAGT
55588 ATAAATATTTATTAGT-ACATTATA
1 ATAAATA-TTATTA-TAACATTATA
*
55612 ATAAATA-TATTATAATATTATA
1 ATAAATATTATTATAACATTATA
55634 ATAAATAGTTATT
1 ATAAATA-TTATT
55647 TTATTTTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 1 0.03
22 19 0.61
24 11 0.35
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (23 bp):
ATAAATATTATTATAACATTATA
Found at i:55803 original size:20 final size:20
Alignment explanation
Indices: 55780--55832 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
55770 TATTAATAGT
*
55780 AATTATTAATATTTATGATA
1 AATTATTAATATTTATAATA
55800 AATTA--AA-ATTTATAATA
1 AATTATTAATATTTATAATA
*
55817 AATAATTAATATTTAT
1 AATTATTAATATTTAT
55833 TATTAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 2 0.07
20 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTATTAATATTTATAATA
Found at i:55840 original size:20 final size:20
Alignment explanation
Indices: 55779--55841 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
55769 ATATTAATAG
* *
55779 TAATTATTAATATTTATGA-
1 TAATAATTAATATTTATAAT
*
55798 T-A-AATTAAAATTTATAAT
1 TAATAATTAATATTTATAAT
* *
55816 AAATAATTAATATTTATTAT
1 TAATAATTAATATTTATAAT
55836 TAATAA
1 TAATAA
55842 GTTATATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 12 0.35
18 1 0.03
19 2 0.06
20 19 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATAATTAATATTTATAAT
Found at i:55963 original size:20 final size:19
Alignment explanation
Indices: 55940--55994 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
55930 TAATATTATT
*
55940 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
55960 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
55980 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
55995 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:56214 original size:21 final size:22
Alignment explanation
Indices: 56155--56228 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 22
56145 TAGTTTACTT
*
56155 ATAATAACTTATAGAATAATATTATA
1 ATAATAA-TTA-A-AATAA-ATAATA
*
56181 ATAAT-ATTAAAATTAATAATA
1 ATAATAATTAAAATAAATAATA
*
56202 ATAATAATT-AAATAAATTATA
1 ATAATAATTAAAATAAATAATA
*
56223 TTAATA
1 ATAATA
56229 TAATTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 25 0.60
22 7 0.17
23 1 0.02
24 3 0.07
25 1 0.02
26 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (22 bp):
ATAATAATTAAAATAAATAATA
Found at i:56360 original size:18 final size:18
Alignment explanation
Indices: 56335--56370 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
56325 TATTATTATA
56335 TTTATTATATT-AATAAT
1 TTTATTATATTAAATAAT
56352 TTTAGTTATATTAAATAAT
1 TTTA-TTATATTAAATAAT
56371 AAGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTATTATATTAAATAAT
Found at i:56441 original size:30 final size:29
Alignment explanation
Indices: 56378--56451 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
56368 AATAAGTATA
* *
56378 ATATAATTAATTAATTATAATTATTATTGT
1 ATATAA-TAATTTATTATAATTATAATTGT
56408 ATATAATAATTTATTATAAATTATAAATT-T
1 ATATAATAATTTATTAT-AATTAT-AATTGT
*
56438 ATATTAATAGTTTA
1 ATA-TAATAATTTA
56452 ATATTGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 10 0.26
30 16 0.42
31 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
ATATAATAATTTATTATAATTATAATTGT
Found at i:57324 original size:177 final size:179
Alignment explanation
Indices: 57011--57501 Score: 495
Period size: 177 Copynumber: 2.7 Consensus size: 179
57001 TTGAATTAGT
* * * *
57011 TCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTTTGACCTTTTG-TTTAGTCA
1 TCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTA-TCA
* * * * * *
57075 TAAAATAATTGCTTCAACTCATACATGCTTATTTGAAATAAAATAATATTAATTTATCAACATTC
65 TAAAACAATTGTTTCAATTCATACAAGCTTA-TTGAAATAAAATAATATTAATTTATTAATATT-
57140 A-AAAAATT-ATTAAGTAAGA-AATTAGAAA-A-AAATCTA-TTTA-CTGAA-CAAGC
128 ATAAAAATTGA-TAAGTAAGAGAATTA-AAACATAAATC-AGTTTATC-GAATC--GC
* * * *
57190 TCAAAT-TTTTTGACTATTTGAATAATTATCTATTTAAAATC-TTATGACCTTATGTTTTATCAT
1 TCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCAT
* * *
57253 AAAACAATTGTTTCAGTTCATAAAAGCTTATCTGAAATAAAATAATATTACTTTATTAATATTAT
66 AAAACAATTGTTTCAATTCATACAAGCTTAT-TGAAATAAAATAATATTAATTTATTAATATTAT
* * *
57318 AAAAATTGATAAGTTAGAGATTTAAAACATAAATCAGTTTATCGAATCGT
130 AAAAATTGATAAGTAAGAGAATTAAAACATAAATCAGTTTATCGAATCGC
* * * * * * *
57368 TCAAATAATTATGGCCATTTAAACAATTATCTATTTCAAATCATTAGGAACTTTTGTTTTGTCAT
1 TCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCAT
** * * *
57433 AAAACAATTGTTT-TTTATCATACAAGCCTATTCAAAATAAAATAATACTAATTTATTAATATT-
66 AAAACAATTGTTTCAAT-TCATACAAGCTTATT-GAAATAAAATAATATTAATTTATTAATATTA
57496 TAAAAA
129 TAAAAA
57502 ATAAATTTGT
Statistics
Matches: 261, Mismatches: 37, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
176 2 0.01
177 85 0.33
178 48 0.18
179 54 0.21
180 72 0.28
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (179 bp):
TCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCAT
AAAACAATTGTTTCAATTCATACAAGCTTATTGAAATAAAATAATATTAATTTATTAATATTATA
AAAATTGATAAGTAAGAGAATTAAAACATAAATCAGTTTATCGAATCGC
Found at i:58700 original size:23 final size:23
Alignment explanation
Indices: 58638--58700 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
58628 ATAATTGTAT
*
58638 TATACTATAATTTATA-T-TTAA
1 TATATTATAATTTATATTATTAA
* * *
58659 TAAATTATAAATTACATTATTAA
1 TATATTATAATTTATATTATTAA
*
58682 TATATTATATTTTATATTA
1 TATATTATAATTTATATTA
58701 ATATAATAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 19 0.59
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTATAATTTATATTATTAA
Found at i:59596 original size:19 final size:19
Alignment explanation
Indices: 59567--59622 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
59557 TGTTTATAGC
* *
59567 TAATTTCATATTATATATTA
1 TAATTT-ATATAATATAATA
*
59587 TAGTTTATATAATATAATA
1 TAATTTATATAATATAATA
*
59606 TAATTTAAATAACTATA
1 TAATTTATATAA-TATA
59623 TAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATTTATATAATATAATA
Found at i:59752 original size:25 final size:23
Alignment explanation
Indices: 59692--59762 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 23
59682 ATTAGATAGT
*
59692 TAATTATTATATTTA-AATAATA
1 TAATTATTAAATTTATAATAATA
*
59714 TAAATA-TAAA--TATAATAATTA
1 TAATTATTAAATTTATAATAA-TA
*
59735 TATATTATTAAATTTATAATAAAA
1 TA-ATTATTAAATTTATAATAATA
59759 TAAT
1 TAAT
59763 AAAAAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 7 0.18
22 8 0.21
23 6 0.15
24 3 0.08
25 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTATTAAATTTATAATAATA
Found at i:59777 original size:45 final size:44
Alignment explanation
Indices: 59694--59780 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
59684 TAGATAGTTA
* * *
59694 ATTATTATATTTAAATAATATAAATATAAATATAATAATTATAT
1 ATTATTAAATTTAAATAAAATAAATAAAAATATAATAATTATAT
*
59738 ATTATTAAATTTATAATAAAAT-AATAAAAAATTTAATAATTAT
1 ATTATTAAATTTA-AATAAAATAAAT-AAAAATATAATAATTAT
59781 TACTTAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (44 bp):
ATTATTAAATTTAAATAAAATAAATAAAAATATAATAATTATAT
Found at i:60098 original size:17 final size:18
Alignment explanation
Indices: 60072--60122 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
60062 ACAAAAGAGA
*
60072 ATAATGATTTGAAATAG-
1 ATAATTATTTGAAATAGC
60089 ATAATTATTT-AAATAGTC
1 ATAATTATTTGAAATAG-C
60107 ATAATTATTTGAAATA
1 ATAATTATTTGAAATA
60123 TTTTTGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 6 0.20
17 9 0.30
18 10 0.33
19 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (18 bp):
ATAATTATTTGAAATAGC
Found at i:60280 original size:22 final size:20
Alignment explanation
Indices: 60242--60281 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
60232 AAATTGACTA
*
60242 TATAAATTATTTAATAATCG
1 TATAAATTAATTAATAATCG
60262 TATAAATATAATTATATAAT
1 TATAAAT-TAATTA-ATAAT
60282 TTTTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
TATAAATTAATTAATAATCG
Found at i:60785 original size:12 final size:12
Alignment explanation
Indices: 60767--60797 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60757 ATTCTTTTGG
60767 ATTATATAATTA
1 ATTATATAATTA
*
60779 TTTATATAATTA
1 ATTATATAATTA
60791 ATTATAT
1 ATTATAT
60798 TAATAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATAATTA
Found at i:60905 original size:26 final size:26
Alignment explanation
Indices: 60857--60952 Score: 83
Period size: 26 Copynumber: 3.7 Consensus size: 26
60847 ATACTATTAT
* *
60857 ATATATAATAAAAT-TAAAGTTAAATA
1 ATATATAATTAAATATATA-TTAAATA
60883 ATATATAATTAAATATATATTAAATA
1 ATATATAATTAAATATATATTAAATA
* * * *
60909 TTAT-TAACTAAATAATATATT-ATTT
1 ATATATAATTAAAT-ATATATTAAATA
60934 ATATAT-ATATAAATATATA
1 ATATATAAT-TAAATATATA
60953 ATTTGATCAG
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
25 19 0.33
26 36 0.62
27 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (26 bp):
ATATATAATTAAATATATATTAAATA
Found at i:60930 original size:19 final size:19
Alignment explanation
Indices: 60877--60932 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
60867 AAATTAAAGT
*
60877 TAAATAATATATAATTAAA
1 TAAATAATATATTATTAAA
*
60896 TATATATTAA-ATATTATTAAC
1 TA-A-A-TAATATATTATTAAA
60917 TAAATAATATATTATT
1 TAAATAATATATTATT
60933 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 3 0.10
19 11 0.35
20 2 0.06
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATAATATATTATTAAA
Found at i:61617 original size:18 final size:20
Alignment explanation
Indices: 61571--61617 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
61561 TTATAAATAT
61571 TATTATAAATTTATATAGTA
1 TATTATAAATTTATATAGTA
*
61591 T-TTATAAATTTA-ATTGTA
1 TATTATAAATTTATATAGTA
61609 TATTA-AAAT
1 TATTATAAAT
61618 AGTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTATAAATTTATATAGTA
Found at i:62079 original size:143 final size:143
Alignment explanation
Indices: 61893--62176 Score: 315
Period size: 143 Copynumber: 2.0 Consensus size: 143
61883 AATAGAACCA
* * *
61893 ATTATTTGATGATAAAATAAAAAGTTATAACAATTCAAAATAGATAATT-TTGAAAATAGTCAAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACAATTCAAAATAGATAATTGTT-AAAATAGTCAAA
* * * * *
61957 ACTATTTAAAATGGTT-TGATAACGA-AATTTACTTTTTAAATCTCTTA-TTGATTAATTTTTTA
65 ACTATTTAAAATGGTTCAG-TAAAGAGAA-TTACTTTTTAAATATCTTACTT-ATAAATTTTTAA
62019 AATATTAATAAATTAGT
127 AATATTAATAAATTAGT
* ** ** * * *
62036 ATTATTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACAATTCAAAATAGATAATTGTTAAAATAGTCAAAA
* * * * *
62101 TTATTTGAACTGGTTCAGTAAATAGAATTATTTTTTAAATATCTTACTTATAAATTTTTAAAATA
66 CTATTTAAAATGGTTCAGTAAAGAGAATTACTTTTTAAATATCTTACTTATAAATTTTTAAAATA
62166 TTAATAAATTA
131 TTAATAAATTA
62177 CTTTCATTCT
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
143 109 0.94
144 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (143 bp):
ATTATTTGATGACAAAACAAAAAGTAATAACAATTCAAAATAGATAATTGTTAAAATAGTCAAAA
CTATTTAAAATGGTTCAGTAAAGAGAATTACTTTTTAAATATCTTACTTATAAATTTTTAAAATA
TTAATAAATTAGT
Found at i:62341 original size:181 final size:175
Alignment explanation
Indices: 62040--64230 Score: 615
Period size: 181 Copynumber: 12.2 Consensus size: 175
62030 ATTAGTATTA
* * * ** * * ** *
62040 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAATTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* ** ** *
62105 TTGAACTG-GTTCAGTAAATAGAATTATTTTTTAAATATCTTACTTATAAATTTTTAAAATATTA
66 TTAAAC-GAGTTCAACAAACGGATTTATTTTTTAAATATCTTA-TTAT--ATTTTTAAAATATTA
* * * * *
62169 ATAAATTACTTTCATTCTATTTCGAATTAGCTTGTATGAGCTGAAATAATTA
127 CTAAATTA-TTT-ATTTTATTTCGAATAAGCTTGTATGAG-TGAAACAATTG
* * * *
62221 TTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAATAATTGTTCATATAGACTTAACTGT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* ** * * *
62286 TTGAAA-GGGTTTGACAAACGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTG
66 TT-AAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTA-TTA-T-ATTTTTAAAATATTA
*
62350 CTAAATTATTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
127 CTAAATTA-T-TTATTTTATTTCGAATAAGCTTGTATG-AGTGAAACAATTG
* * * * *
62402 TTTTATGATAGAACAAAAGCTTGTAACAATTT-AAATAGAA-AATTATTCAAATAGTCATAACTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATA-AATAATTGTTCAAATAGACATAACTA
* * * * *
62465 TTTAAACTAGTTCAATAAACTGATTTATTTTTTAAATGTCTTATTA-ATTCTTAAAATATTACTA
65 TTTAAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTATTATATTTTTAAAATATTACTA
* * * *
62529 AATTGGTATATTTTATTTCAAATAAGCTTGTATG-TTGAAAAACAATTG
130 AATT-ATTTATTTTATTTCGAATAAGCTTGTATGAGTG--AAACAATTG
* * * * * * * *
62577 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAAT-GGCTATAATTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGAC-ATAACTA
* **** ** *
62641 TTTGAACTGA-TTGGGTAAATTGATTTATTCTTTTAAATTAGTTACTTATTA-ATTTTTGAAATA
65 TTTAAAC-GAGTTCAACAAACGGATTTATT-TTTTAAA-TA--T-CTTATTATATTTTTAAAATA
* * * * * * *
62704 TTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAAAACAATTG
124 TTACTAAATTA-T-TTATTTTATTTCGAATAAGCTTGTATG-AGTGAAACAATTG
* * * ** * * *
62759 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAATTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* ** **** ** * * ** *
62824 TCAAACTTGTTTGGTAAACATATTTATTTTTTTAAATCTCATGATTATTAATTTTTTGAATGTTA
66 TTAAACGAGTTCAACAAACGGATTTA-TTTTTTAAATATC-TTATTA-T-ATTTTTAAAATATTA
* * * * * * *
62889 ATAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTA
127 CTAAATTA-T-TTATTTTATTTCGAATAAGCTTGTATG-AGTGAAACAATTG
** * * * * ** ** * * * * *
62941 TTACATGACT-GAAGAAAAGGTCAGAATGATTTGAAATTGATAATTATTCTAATAGTCTTAATTA
1 TTTTATGA-TAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTA
* *** ** * * ** *
63005 TTTGAACTG-GTTCGGTAAACACATTTATTTTTTGAATCTCTTATTA-A-TTTTGGAATATTATT
65 TTTAAAC-GAGTTCAACAAACGGATTTATTTTTTAAATATCTTATTATATTTTTAAAATATTACT
* * * * * *
63067 AAATTAGTAATATTTT-TATCTAAATAAGCTTGTATGA-TCATAAATAATTA
129 AAATTA-T-TTATTTTATTTC-GAATAAGCTTGTATGAGT--GAAACAATTG
* * * ** * * * *
63117 TTTTATGAGAAAAC-AAAGATCA-AGACAATTT-AAGATTGATATTTATTCAAATAGCCATAATT
1 TTTTATGATAAAACAAAAGGTTATA-ACAATTTGAA-ATAAATAATTGTTCAAATAGACATAACT
* * * ** * * * * *
63179 ATTTGAACTAATTTGGA-AAAC-AATTTTAGTTTTTAAAAATCTTGCTTATTAATTTTCAAAATA
64 ATTTAAAC-GAGTTCAACAAACGGA-TTTATTTTTTAAATATCTT-ATTA-T-ATTTTTAAAATA
* * * * * * * *
63242 TTAATAAAGTAGTATTATTTCATTT-TAGATAAGTTTTTATAAATTGAAACAATTG
124 TTACTAAATTA-T-TTATTTTATTTCGA-ATAAGCTTGTAT-GAGTGAAACAATTG
* * * * * * *
63297 TTTTATGACAAAACAAAAGGTCATAATGACTTT-AAATAGATAATTGTTTAAATA-ATCA-AATA
1 TTTTATGATAAAACAAAAGGTTATAA-CAATTTGAAATAAATAATTGTTCAAATAGA-CATAA-C
*** * * * * **
63359 TATTTTAATTTA-TTCGATAAGCAGATTTATTTTTTTAAATCACATGCTTATTA-ATTTTTTGAA
63 TA-TTTAAACGAGTTCAACAAACGGATTTA-TTTTTTAAAT---AT-CTTATTATATTTTTAAAA
* * * * * *
63422 TGTTAATAAATTATATTAATTTA-TTCTAAATAAGCTTGTATGAATTGAAATAATTG
122 TATTACTAAATTAT-TTATTTTATTTC-GAATAAGCTTGTATG-AGTGAAACAATTG
* * * * ** * * * * ***
63478 TCTTGTAACT-AAACAAAAGGTTAAAATGATCTGAAATAGATAATT-ATCTTAATAGTTTTAACT
1 TTTTATGA-TAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTC-AAATAGACATAACT
* ** ** * **
63541 ATTTGAACTG-GTTTGACAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATAT
64 ATTTAAAC-GAGTTCAACAAACGGATTTATTTTTTAAATATCTTA-TTA-T-ATTTTTAAAATAT
* * * * **
63605 TATTAAATTAGTATTATTTTAATAT-GAACAAGCTTATATGAAAAGAAACAATTG
125 TACTAAATTA-T-TTATTTT-ATTTCGAATAAGCTTGTATG-AGTGAAACAATTG
* * * * * *
63659 TTTTATGACAAAA-TAAAGATCATAACAATTTGATATAAATAATTGTTCAAATAGTCATAACTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* * ** *** * * * *
63723 TTGAACTG-CTTCAGTAAATAAATTTAGTTTTTAAATCTCTTATTA-ATTTTCAAAATATTAATA
66 TTAAAC-GAGTTCAACAAACGGATTTATTTTTTAAATATCTTATTATATTTTTAAAATATTACTA
* * ** * **
63786 GATTAGTATTATTTGA-TTCTGAATAATTTTGCATGAACAGAAACAATTG
130 AATTA-T-TTATTTTATTTC-GAATAAGCTTGTATG-AGTGAAACAATTG
* * ** * * * *
63835 TTTTATGACAAAA-AAAAGGTCATAACTTTTTTAAATAGATAATTGTTCAAATGGACATGACTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
** * ** ** * * * * * *
63899 TTGGACTTA-TTCAGTAAATAGATTTATTTTTTAAA-ACTCCTAGCTACTAACTTTCAAAGTTTT
66 TTAAAC-GAGTTCAACAAACGGATTTATTTTTTAAATA-TCTTA-TTA-T-ATTTTTAAAATATT
* * * * * * *** *
63962 AATCAACTAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAATAATTG
126 ACTAAATTA-T-TTATTTTATTTCGAATAAGCTTGTATG-AGTGAAACAATTG
* * * * * * * * **
64015 TTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAAACAGTCATAAGGAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
* *** * ** ** * * * * *
64080 TTGAATTTGCTCAGTAAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTCAAATATTAA
66 TTAAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTA-TTA-T-ATTTTTAAAATATTAC
* * ***
64145 TAAATTAGTATTATTTTATTTCAAATATGCTTGTATGAACAAAAACAATTG
128 TAAATTA-T-TTATTTTATTTCGAATAAGCTTGTATG-AGTGAAACAATTG
* * * * *
64196 GTTTATGACAAAACAAAGGGTCATAACTATTTGAA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAA
64231 CATGTTTAGA
Statistics
Matches: 1547, Mismatches: 370, Indels: 186
0.74 0.18 0.09
Matches are distributed among these distances:
173 1 0.00
174 6 0.00
175 131 0.08
176 266 0.17
177 15 0.01
178 2 0.00
179 17 0.01
180 293 0.19
181 525 0.34
182 277 0.18
183 5 0.00
184 1 0.00
185 5 0.00
186 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (175 bp):
TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAAATAATTGTTCAAATAGACATAACTAT
TTAAACGAGTTCAACAAACGGATTTATTTTTTAAATATCTTATTATATTTTTAAAATATTACTAA
ATTATTTATTTTATTTCGAATAAGCTTGTATGAGTGAAACAATTG
Found at i:63215 original size:538 final size:527
Alignment explanation
Indices: 62068--63886 Score: 1588
Period size: 538 Copynumber: 3.4 Consensus size: 527
62058 AGTAATAATG
* ** * * * * *
62068 ATTTGAAATAGATAATTGTTTAAATAGTTATAATTATTTGAACTGGTTCAGTAAATAGAATTATT
1 ATTT-AAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTGATTCGGAAAATA-ATTTAGT
* * * * * *
62133 TTTTAAATATCTTACTTATAAATTTTTAAAATATTAATAAATTACT-TTCA-TTCTATTTCGAAT
64 TTTTAAATA--TT-CTTATTAATTTTCAAAATATTAATAAAGTAGTATT-ATTTC-ATTTTGGA-
** * * * * * * * * ** * *
62196 TAGCTTGTATGAGCTGAAATAATTATTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAA
123 TAAATTTTATGAACTAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATTATTTTAAATAGA
* * * * * ** * *
62261 TAATTGTTCATATAGACTTAACTGT-TTGAAAGGGT-TT-GACAAACGGATTTA-TTTTTTAAAT
188 TAATTGTTCAAATA-AC-CAAATATATTCAAA-CTTATTCGATAAACAGATTTATTTTTTTAAAT
* * * * ** * *
62322 CTC-TTAGTTATTCATTTTTAGAATATTGCTAAATTATTATTATTTTATTTCGAATAAGCTTGTA
250 CTCATGA-TTATTAATTTTTTGAATGTTAATAAATTA-TATTATTTTATTCCAAATAAGCTTGTA
** * * * ** *
62386 TGAAGAGAAACAATTGTTTTATGA-TAGAACAAAAGCTTGTAACAATTT-AAATAGAAAATTATT
313 TGAACTGAAACAA-T-TTTCATGACT-GAACAAAAGGTAG-AATGATTTGAAATAGATAATTATT
* * * * * ** *
62449 CAAATAGTCATAACTATTTAAACTAGTTCAATAAACTGATTTATTTTTTAAATGTCTTATTAATT
374 CTAATAGTCTTAACTATTTGAACTGGTTCGATAAACACATTTATTTTTTAAATCTCTTATTAATT
** * * * * *
62514 CTTAAAATATTACTAAATTGGT-ATA-TTTTATTTCAAATAAGCTTGTATGTTGAAAAACAATTG
439 -TTGGAATATTATTAAATTAGTAATATTTTTATAT-AAATAAGCTTGTATGATAAAAAACAATTG
* *
62577 TTTTATGACAAAAGAAAAGGTAATAACA
502 TTTTATGACAAAA-AAAAGATCA-AACA
* * * * * * * *
62605 ATTTGAAATAGATAGTTGTTTAAATGGCTATAATTATTTGAACTGATTGGGTAAATTGATTTATT
1 ATTT-AAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTGATTCGG-AAAATAATTTAGT
** * *
62670 CTTTTAAATTAGTTACTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATA
64 -TTTTAAA-TA-TT-CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTGGATA
* *
62735 AACTTTTATGAACTAAAACAATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAAT
125 AA-TTTTATGAACTAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATTATTTTAAATAGAT
* * * * *
62800 AATTGTTCAAATAGCCATAAT-TATTCAAACTTGTTTGGTAAACATATTTATTTTTTTAAATCTC
189 AATTGTTCAAATAACCA-AATATATTCAAACTTATTCGATAAACAGATTTATTTTTTTAAATCTC
*
62864 ATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAA
253 ATGATTATTAATTTTTTGAATGTTAATAAATTA-TATTATTTTATTCCAAATAAGCTTGTATGAA
* * *
62929 CTGAAGCAATTATTACATGACTGAAGAAAAGGTCAGAATGATTTGAAATTGATAATTATTCTAAT
317 CTGAAACAATT-TT-CATGACTGAACAAAAGGT-AGAATGATTTGAAATAGATAATTATTCTAAT
* * *
62994 AGTCTTAATTATTTGAACTGGTTCGGTAAACACATTTATTTTTTGAATCTCTTATTAATTTTGGA
379 AGTCTTAACTATTTGAACTGGTTCGATAAACACATTTATTTTTTAAATCTCTTATTAATTTTGGA
* * * * *
63059 ATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTGTATGATCATAAATAATTATTTTATG
444 ATATTATTAAATTAGTAATATTTTTATATAAATAAGCTTGTATGATAAAAAACAATTGTTTTATG
* *
63124 AGAAAACAAAGATCAAGACA
509 ACAAAAAAAAGATCAA-ACA
* * * * * *
63144 ATTTAAGATTGATATTTATTCAAATAGCCATAATTATTTGAACTAATTTGGAAAACAATTTTAGT
1 ATTTAA-ATAGATAATTGTTCAAATAGCCATAATTATTTGAACTGATTCGGAAAATAA-TTTAGT
* *
63209 TTTTAAAAATCTTGCTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAA
64 TTTT--AAATATT-CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTGGATAA
* * * * * *
63274 GTTTTTATAAATTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAGATA
126 -ATTTTATGAACTAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATTATTTTAAATAGATA
* * ** * * *
63339 ATTGTTTAAATAATCAAATATATTTTAATTTATTCGATAAGCAGATTTATTTTTTTAAATCACAT
190 ATTGTTCAAATAACCAAATATATTCAAACTTATTCGATAAACAGATTTATTTTTTTAAATCTCAT
* * * *
63404 GCTTATTAATTTTTTGAATGTTAATAAATTATATTAATTTATTCTAAATAAGCTTGTATGAATTG
255 GATTATTAATTTTTTGAATGTTAATAAATTATATTATTTTATTCCAAATAAGCTTGTATGAACTG
* * * * * *
63469 AAATAATTGTCTTGTAACTAAACAAAAGGTTAAAATGATCTGAAATAGATAATTA-TCTTAATAG
320 AAACAATTTTCATG--ACTGAACAAAAGG-TAGAATGATTTGAAATAGATAATTATTC-TAATAG
* * *
63533 TTTTAACTATTTGAACTGGTTTGACAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTT
381 TCTTAACTATTTGAACTGGTTCGATAAACACATTTATTTTTTAAATCTCTTA--T--TAA-TTTT
* * * * *
63598 GGAATATTATTAAATTAGTATTATTTTAATATGAACAAGCTTATATGA-AAAGAAACAATTGTTT
441 GGAATATTATTAAATTAGTAATATTTTTATATAAATAAGCTTGTATGATAAA-AAACAATTGTTT
*
63662 TATGACAAAATAAAGATCATAACA
505 TATGACAAAAAAAAGATCA-AACA
* * * * * * *
63686 ATTTGATATAAATAATTGTTCAAATAGTCATAACTATTTGAACTGCTTCAGTAAATAAATTTAGT
1 ATTT-AAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTGATTCGGAAAAT-AATTTAGT
* * * * * *
63751 TTTTAAAT-CTCTTATTAATTTTCAAAATATTAATAGATTAGTATTATTTGATTCTGAAT-AATT
64 TTTTAAATATTCTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTGGATAAATT
63814 TTGCATGAAC-AGAAACAATTGTTTTATGACAAAA-AAAAGGTCATAACTT-TTTTAAATAGATA
129 TT--ATGAACTA-AAACAATTGTTTTATGACAAAACAAAAGGTCATAA-TTATTTTAAATAGATA
63876 ATTGTTCAAAT
190 ATTGTTCAAAT
63887 GGACATGACT
Statistics
Matches: 1051, Mismatches: 188, Indels: 86
0.79 0.14 0.06
Matches are distributed among these distances:
535 3 0.00
536 10 0.01
537 222 0.21
538 387 0.37
539 170 0.16
540 117 0.11
541 11 0.01
542 127 0.12
543 4 0.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (527 bp):
ATTTAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTGATTCGGAAAATAATTTAGTTT
TTAAATATTCTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTGGATAAATTTT
ATGAACTAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATTATTTTAAATAGATAATTGTT
CAAATAACCAAATATATTCAAACTTATTCGATAAACAGATTTATTTTTTTAAATCTCATGATTAT
TAATTTTTTGAATGTTAATAAATTATATTATTTTATTCCAAATAAGCTTGTATGAACTGAAACAA
TTTTCATGACTGAACAAAAGGTAGAATGATTTGAAATAGATAATTATTCTAATAGTCTTAACTAT
TTGAACTGGTTCGATAAACACATTTATTTTTTAAATCTCTTATTAATTTTGGAATATTATTAAAT
TAGTAATATTTTTATATAAATAAGCTTGTATGATAAAAAACAATTGTTTTATGACAAAAAAAAGA
TCAAACA
Found at i:64031 original size:537 final size:526
Alignment explanation
Indices: 62040--64230 Score: 1576
Period size: 537 Copynumber: 4.1 Consensus size: 526
62030 ATTAGTATTA
* ** * **
62040 TTTTATGACAAAACAAAA-AGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAATTA
1 TTTTATGACAAAA-AAAAGA-TCATAACAATTTGAAATAGATAATTGTTCAAATAGCCATAATTA
* * * * *
62104 TTTGAACTGGTTCAGTAAATAGAA-TTATTTTTTAAATATCTTACTTATAAATTTTTAAAATATT
64 TTTGAACTGATTCGGTAAATA-AATTTAGTTTTT-AA-ATC-TACTTATTAATTTTCAAAATATT
* * * * * * * * *
62168 AATAAATTACT-TTCA-TTCTATTTCGAATTAGCTTGTATGAGCTGAAATAATTATTTTATGATA
125 AATAAAGTAGTATT-ATTTC-ATTT-GAA-TAACTTTTATGAACAGAAACAATTGTTTTATGACA
* * ** * * * * * **
62231 AAATAAAAGGTTATAACAATTTGAAATAAATAATTGTTCATATAGACTTAACTGTTTGAAAGGGT
186 AAACAAAAGGTCATAA-TTTTTTAAATAGATAATTGTTCAAAT-GACAT-A-TATTT-AAA-CTT
* * * * * * * * ** *
62296 -TT-GACAAACGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGCTAAATTAT
245 ATTCG-TAAACAGATTTATTTTTTAAAACTCCTAGCTATTAATTTTTTGAATGTTAATAAATTAG
* * ** * *
62359 TATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTGTTTTATGA-TAGAACAAAAGCT
309 TATTATTTTATTCCAAATAAGCTTGTATGAACTGAAATAATTGTTTTA-GACTA-AACAAAAGGT
*** ** * * * * * * * * **
62423 TGTAACAAT-TTAAATAGAAAATTATTCAAATAGTCATAACTATTTAAACTAGTTCAATAAACTG
372 CAAAATGATCTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGACAAACAC
* ** * * *
62487 ATTTATTTTTTAAATGTCTTATTAATTCTTAAAATATTACTAAATTGGT-ATATTTT-ATTTCAA
437 ATTTATTTTTTAAATCTCTTATTAATT-TTGGAATATTATTAAATTAGTAATATTTTAATAT-AA
* * **
62550 ATAAGCTTGTATGTTGAA-AAACAATTG
500 ACAAGCTTATATG-AAAAGAAACAATTG
* * * * * *
62577 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAATGGCTATAATTAT
1 TTTTATGACAAAA-AAAAGATCATAACAATTTGAAATAGATAATTGTTCAAATAGCCATAATTAT
* ** * * **
62642 TTGAACTGATTGGGTAAATTGATTTATTCTTTTAAATTAGTTACTTATTAATTTTTGAAATATTA
65 TTGAACTGATTCGGTAAATAAATTTAGT-TTTTAAA-T--CTACTTATTAATTTTCAAAATATTA
* * *
62707 CTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTA-AAACAATTGTTTTATGACAAA
126 ATAAAGTAGTATTATTTCA-TTTGAAT-AACTTTTATGAAC-AGAAACAATTGTTTTATGACAAA
* * * * *
62771 ACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAATTATTCAAACTTGTTT
188 ACAAAAGGTCATAATT-TTTTAAATAGATAATTGTTCAAAT-GACAT-A-TATTTAAACTT-ATT
* * * * *
62836 GGTAAACATATTTATTTTTTTAAATCTCAT-GATTATTAATTTTTTGAATGTTAATAAATTAGTA
248 CGTAAACAGATTTA-TTTTTTAAAACTCCTAG-CTATTAATTTTTTGAATGTTAATAAATTAGTA
* ** * ** * * *
62900 TTATTTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTATTACATGACTGAAGAAAAGGTCAG
311 TTATTTTATTCCAAATAAGCTTGTATGAACTGAAATAATTGTTTTA-GACTAAACAAAAGGTCAA
* * * **
62965 AATGATTTGAAATTGATAATTATTCTAATAGTCTTAATTATTTGAACTGGTTCGGTAAACACATT
375 AATGATCTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGACAAACACATT
* * * *
63030 TATTTTTTGAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAAG
440 TATTTTTTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTAATATAAACAAG
* ** * * *
63095 CTTGTATGATCATAAATAATTA
505 CTTATATGAAAAGAAACAATTG
* * * * *
63117 TTTTATGAGAAAACAAAGATCA-AGACAATTT-AAGATTGATATTTATTCAAATAGCCATAATTA
1 TTTTATGACAAAAAAAAGATCATA-ACAATTTGAA-ATAGATAATTGTTCAAATAGCCATAATTA
* * * * * *
63180 TTTGAACTAATTTGGAAAACAATTTTAGTTTTTAAAAATCTTGCTTATTAATTTTCAAAATATTA
64 TTTGAACTGATTCGGTAAATAAATTTAGTTTTT--AAATC-TACTTATTAATTTTCAAAATATTA
* * * **
63245 ATAAAGTAGTATTATTTCATTTTAGATAAGTTTTTATAAATTGAAACAATTGTTTTATGACAAAA
126 ATAAAGTAGTATTATTTCATTTGA-ATAA-CTTTTATGAACAGAAACAATTGTTTTATGACAAAA
** * * * *
63310 CAAAAGGTCATAATGACTTTAAATAGATAATTGTTTAAATAATCAAATATATTTTAATTTATTCG
189 CAAAAGGTCATAAT-TTTTTAAATAGATAATTGTTCAAATGA-C--ATATATTTAAACTTATTCG
* *
63375 ATAAGCAGATTTATTTTTTTAAA-TCAC-ATGCTTATTAATTTTTTGAATGTTAATAAATTA-TA
250 -TAAACAGATTTATTTTTTAAAACTC-CTA-GC-TATTAATTTTTTGAATGTTAATAAATTAGTA
* * * *
63437 TTAATTTATTCTAAATAAGCTTGTATGAATTGAAATAATTGTCTTGTA-ACTAAACAAAAGGTTA
311 TTATTTTATTCCAAATAAGCTTGTATGAACTGAAATAATTGT-TT-TAGACTAAACAAAAGGTCA
* *
63501 AAATGATCTGAAATAGATAATTA-TCTTAATAGTTTTAACTATTTGAACTGGTTTGACAAACACA
374 AAATGATCTGAAATAGATAATTATTC-TAATAGTCTTAACTATTTGAACTGGTTCGACAAACACA
*
63565 TTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTTAATAT
438 TTTATTTTTTAAATCTCTTA--T--TAA-TTTTGGAATATTATTAAATTAGTAATATTTTAATAT
*
63630 GAACAAGCTTATATGAAAAGAAACAATTG
498 AAACAAGCTTATATGAAAAGAAACAATTG
* * * * *
63659 TTTTATGACAAAATAAAGATCATAACAATTTGATATAAATAATTGTTCAAATAGTCATAACTATT
1 TTTTATGACAAAAAAAAGATCATAACAATTTGAAATAGATAATTGTTCAAATAGCCATAATTATT
* * *
63724 TGAACTGCTTCAGTAAATAAATTTAGTTTTTAAATCT-CTTATTAATTTTCAAAATATTAATAGA
66 TGAACTGATTCGGTAAATAAATTTAGTTTTTAAATCTACTTATTAATTTTCAAAATATTAATAAA
* *
63788 TTAGTATTATTTGATTCTGAATAA-TTTTGCATGAACAGAAACAATTGTTTTATGACAAAA-AAA
131 GTAGTATTATTTCATT-TGAATAACTTTT--ATGAACAGAAACAATTGTTTTATGACAAAACAAA
**
63851 AGGTCATAACTTTTTTAAATAGATAATTGTTCAAATGGACATGACTATTTGGACTTATTCAGTAA
193 AGGTCATAA-TTTTTTAAATAGATAATTGTTCAAAT-GACAT-A-TATTTAAACTTATTC-GTAA
* * * ** * * *
63916 ATAGATTTATTTTTTAAAACTCCTAGCTACTAA-CTTTCAAAGTTTTAATCAACTAGTATTATTT
253 ACAGATTTATTTTTTAAAACTCCTAGCTATTAATTTTTTGAA-TGTTAATAAATTAGTATTATTT
* ** * * *
63980 TATTCCAAATAAACTTGTATGAACAAAAATAATTGTTTTAGGACAAAACAAAAGATCATAACT-A
317 TATTCCAAATAAGCTTGTATGAACTGAAATAATTGTTTTA-GACTAAACAAAAGGTCA-AAATGA
* * * * * * * ** * * * * *
64044 TTTGAAATAAAAAATTGTTCAAACAGTCATAAGGATTTGAATTTGCTC-AGTAAACAAATTTATT
380 TCTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGA-CAAACACATTTATT
* * ** * * * *
64108 TTTAAAATTTTTTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTT-ATTTCAAATA
444 TTTTAAA---TCT-CTTATTAA-TTTTGGAATATTATTAAATTAGTAATATTTTAATAT-AAACA
* *
64172 TGCTTGTATGAACAA-AAACAATTG
503 AGCTTATATGAA-AAGAAACAATTG
* * * *
64196 GTTTATGACAAAACAAAGGGTCATAACTATTTGAA
1 TTTTATGACAAAA-AAAAGATCATAACAATTTGAA
64231 CATGTTTAGA
Statistics
Matches: 1327, Mismatches: 254, Indels: 145
0.77 0.15 0.08
Matches are distributed among these distances:
535 9 0.01
536 33 0.02
537 459 0.35
538 379 0.29
539 183 0.14
540 122 0.09
541 10 0.01
542 130 0.10
543 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (526 bp):
TTTTATGACAAAAAAAAGATCATAACAATTTGAAATAGATAATTGTTCAAATAGCCATAATTATT
TGAACTGATTCGGTAAATAAATTTAGTTTTTAAATCTACTTATTAATTTTCAAAATATTAATAAA
GTAGTATTATTTCATTTGAATAACTTTTATGAACAGAAACAATTGTTTTATGACAAAACAAAAGG
TCATAATTTTTTAAATAGATAATTGTTCAAATGACATATATTTAAACTTATTCGTAAACAGATTT
ATTTTTTAAAACTCCTAGCTATTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTCCAAA
TAAGCTTGTATGAACTGAAATAATTGTTTTAGACTAAACAAAAGGTCAAAATGATCTGAAATAGA
TAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGACAAACACATTTATTTTTTAAATCTCT
TATTAATTTTGGAATATTATTAAATTAGTAATATTTTAATATAAACAAGCTTATATGAAAAGAAA
CAATTG
Found at i:64365 original size:145 final size:146
Alignment explanation
Indices: 64095--64375 Score: 381
Period size: 145 Copynumber: 1.9 Consensus size: 146
64085 TTTGCTCAGT
* *
64095 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATT
1 AAACAAATTTATTTTTAAAATTTTTTAATTATTAATTTTTCAAATATTAATAAATTAGTAATATT
* * * *
64160 TTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTA
66 TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAGGATCATAACAA
64225 TTTGAACATGTTTAGA
131 TTTGAACATGTTTAGA
* * *
64241 AAACATATTTATTTTTTAAA-TTTTTAATTATTAATTTTTGAAATATTAATAAATTTA-TAATAT
1 AAACAAATTTATTTTTAAAATTTTTTAATTATTAATTTTTCAAATATTAATAAA-TTAGTAATAT
* * * * *
64304 TTTA-TTCAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAACGAAA-TATCATAA
65 TTTATTTCA-AATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAAC-AAAGGATCATAA
64367 CAATTTGAA
128 CAATTTGAA
64376 ATAGATAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 4 0.03
145 90 0.76
146 24 0.20
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (146 bp):
AAACAAATTTATTTTTAAAATTTTTTAATTATTAATTTTTCAAATATTAATAAATTAGTAATATT
TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAGGATCATAACAA
TTTGAACATGTTTAGA
Found at i:64591 original size:326 final size:320
Alignment explanation
Indices: 63975--64721 Score: 752
Period size: 326 Copynumber: 2.3 Consensus size: 320
63965 CAACTAGTAT
*
63975 TATTTTATTCCAAATAAACTTGTATGAACAAAAATAATTGTTTTAGGACAAAACAAAAGATCATA
1 TATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTAGGACAAAACAAAAGATCATA
* * * * *
64040 ACTATTTGAAATAAAAAATTGTTCAAACAGTCATAAGGATTTGAATTTGCTCAGTAAACAAATTT
66 ACAATTTGAAATAAAAAATAGTTCAAACAGACATAACGATTTAAATTTGCTCAGTAAACAAATTT
* ***
64105 ATTTTTAAAATTTTTTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTCAAA
131 ATTTTTAAAATCTCCAACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTCAAA
**
64170 TATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTATTTGAACATG
196 TAAACTTGTATGAACAAAAACAATTGGTTTATGACAAAAC--A----CATAACTATTTGAACATG
64235 TTTAGAAAACATATTTATTTTTTAAATTTTTAATTATTAATTTTTGAAATATTAATAAATTTATA
255 TTTAGAAAACATATTTATTTTTTAAATTTTTAATTATTAATTTTTGAAATATTAATAAATTTATA
64300 A
320 A
* * * * * *
64301 TATTTTATT-CAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAACGAAATATCAT
1 TATTTTATTCCA-AATAAACTTGTATGAACAAAAACAATTGTTTTAGGACAAAACAAAAGATCAT
* * ** * * * **
64365 AACAATTTGAAATAGATAATAGTTCAAATGGACATGACTATTTAAATTTGTTTGGTAAACAAATT
65 AACAATTTGAAATAAAAAATAGTTCAAACAGACATAACGATTTAAATTTGCTCAGTAAACAAATT
* * ** *
64430 T-TTTTTTAAATCTCCAACTTTTTAATTTTT-AGAATATTAATTGATTAGTATTATTTTATTTCG
130 TATTTTTAAAATCTCCAACTTATTAATTTTTCA-AATATTAATAAATTAGTATTATTTTATTTCA
* * *
64493 AATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAAC-C-TAACTATTTGAAC-TGGTT
194 AATAAACTTGTATGAACAAAAACAAT-TGGTTTATGACAAAACACATAACTATTTGAACAT-GTT
* * * * * * * * *
64554 TGGTAAACACA-TT-TTTTTTAAA--TCT-CTTACTAATTTTTGTAATATTATTAAA-TTAGTAT
257 TAGAAAACATATTTATTTTTTAAATTTTTAATTATTAATTTTTGAAATATTAATAAATTTA-TAA
* *** * * *
64613 TATTTTAATATGAATAAGCTTGTATGAA-AAGAAACAATTGTTTTATGACAAAATAAAA-ATCAT
1 TATTTTATTCCAAATAAACTTGTATGAACAA-AAACAATTGTTTTAGGACAAAACAAAAGATCAT
* * * * * *
64676 AACAATTTGATATAGATAATTA-TTCAAATAGTCATAACTATTTAAA
65 AACAATTTGAAATA-AAAAATAGTTCAAACAGACATAACGATTTAAA
64722 CTATTTCGAT
Statistics
Matches: 353, Mismatches: 60, Indels: 31
0.80 0.14 0.07
Matches are distributed among these distances:
311 43 0.12
312 75 0.21
313 2 0.01
315 9 0.03
316 3 0.01
317 24 0.07
318 1 0.00
324 3 0.01
325 87 0.25
326 106 0.30
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (320 bp):
TATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTAGGACAAAACAAAAGATCATA
ACAATTTGAAATAAAAAATAGTTCAAACAGACATAACGATTTAAATTTGCTCAGTAAACAAATTT
ATTTTTAAAATCTCCAACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTCAAA
TAAACTTGTATGAACAAAAACAATTGGTTTATGACAAAACACATAACTATTTGAACATGTTTAGA
AAACATATTTATTTTTTAAATTTTTAATTATTAATTTTTGAAATATTAATAAATTTATAA
Found at i:64612 original size:132 final size:134
Alignment explanation
Indices: 64414--64665 Score: 336
Period size: 132 Copynumber: 1.9 Consensus size: 134
64404 ATTTAAATTT
** *
64414 GTTTGGTAAACAAATTTTTTTTTAAATCTCCAACTTTTTAATTTTTAGAATATTAATTGATTAGT
1 GTTTGGTAAACAAATTTTTTTTTAAATCT---ACTTACTAATTTTTAGAATATTAATTAATTAGT
* *
64479 ATTATTTT-ATTTCGAATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAACCTAACTA
63 ATTATTTTAATAT-GAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAACCTAACTA
64542 TTTGAACTG
126 TTTGAACTG
*
64551 GTTTGGTAAACACA-TTTTTTTTAAATCT-CTTACTAATTTTT-GTAATATT-ATTAAATTAGTA
1 GTTTGGTAAACAAATTTTTTTTTAAATCTACTTACTAATTTTTAG-AATATTAATT-AATTAGTA
*
64612 TTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
64 TTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
64666 TAAAAATCAT
Statistics
Matches: 104, Mismatches: 7, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
131 4 0.04
132 68 0.65
133 5 0.05
136 14 0.13
137 13 0.12
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (134 bp):
GTTTGGTAAACAAATTTTTTTTTAAATCTACTTACTAATTTTTAGAATATTAATTAATTAGTATT
ATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAACCTAACTATTTGA
ACTG
Found at i:65096 original size:181 final size:181
Alignment explanation
Indices: 64810--65235 Score: 491
Period size: 181 Copynumber: 2.3 Consensus size: 181
64800 TACATGAACG
* * *
64810 GAAACAA-TGTTTTTATGACAAAATAAAAAAGGTCATAACAATTTAAAATAAATAATTGTTCAAA
1 GAAACAATTG-TTTTATGAC-AAA-ACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAA
** * *** * *
64874 TGGACATGACTATTTAAACTTGTTCGACGAACATATTTATTTTTTAAA-TCTCCTAC-CTACTAA
63 TCAACATGACAATTTAAACTAACTCGACAAACAGATTTA-TTTTTAAATTCTCCTACTC-ACTAA
* ** *
64937 TTTTTAGAGTATTAATCAATTAGTATTATTTTATTCCAAATAAACTTGTATGAATA
126 TTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGTATGAATA
* *
64993 GAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAA-CA
1 GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATCA
* * ** *
65057 ATCATGACAATTTAAACTAACTCGATAAACAGATTTATTTTTAAATTTTTTTACTCATTAATTTT
66 A-CATGACAATTTAAACTAACTCGACAAACAGATTTATTTTTAAATTCTCCTACTCACTAATTTT
* * * * *
65122 TGGAATATTAAGAAATTAGAATTATTTTATTTCGAATACATTTGTATGAATA
130 TAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGTATGAATA
* * * *
65174 GAAACAATTGGTTTATGACAAAACAAAGGGTCGTAACTATTTGAAATAGATAATTGTTCAAA
1 GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAA
65236 AAGTCATAAC
Statistics
Matches: 206, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
180 9 0.04
181 176 0.85
182 4 0.02
183 15 0.07
184 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (181 bp):
GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATCA
ACATGACAATTTAAACTAACTCGACAAACAGATTTATTTTTAAATTCTCCTACTCACTAATTTTT
AGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGTATGAATA
Found at i:65431 original size:23 final size:23
Alignment explanation
Indices: 65405--65452 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
65395 ATTAATATAA
*
65405 TATTTTATTAACAAATGTTTAAT
1 TATTTAATTAACAAATGTTTAAT
* * *
65428 TATTTAATTATCGATTGTTTAAT
1 TATTTAATTAACAAATGTTTAAT
65451 TA
1 TA
65453 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (23 bp):
TATTTAATTAACAAATGTTTAAT
Found at i:65546 original size:22 final size:21
Alignment explanation
Indices: 65515--65555 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
65505 GATTTTAATT
65515 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
65536 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
65556 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:65673 original size:6 final size:6
Alignment explanation
Indices: 65662--65696 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
65652 AAACATTTAT
*
65662 TAATTA TAATTA TAATTA TAATTA AATATTA TAAT
1 TAATTA TAATTA TAATTA TAATTA TA-ATTA TAAT
65697 ATTATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:65711 original size:15 final size:14
Alignment explanation
Indices: 65693--65758 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
65683 TTAAATATTA
65693 TAATATTATATTAAT
1 TAATATT-TATTAAT
65708 TAATATTTTATT-AT
1 TAATA-TTTATTAAT
*
65722 TAAATATTTAAATAAT
1 T-AATATTT-ATTAAT
*
65738 TAATATTTATTTAT
1 TAATATTTATTAAT
65752 TAATATT
1 TAATATT
65759 GTTTAGTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 17 0.39
15 22 0.50
16 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATATTTATTAAT
Found at i:66511 original size:22 final size:20
Alignment explanation
Indices: 66486--66537 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
66476 TAGTAAAAAT
*
66486 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
66508 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
66530 TATTTTAT
1 TATTTTAT
66538 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:66683 original size:13 final size:13
Alignment explanation
Indices: 66665--66706 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
66655 TTGATTGTAT
*
66665 TTATTAATTATAC
1 TTATTAATTATAA
66678 TTATTAATTATAA
1 TTATTAATTATAA
66691 TTA-TAATTATTAA
1 TTATTAATTA-TAA
66704 TTA
1 TTA
66707 AAAAAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:66691 original size:19 final size:19
Alignment explanation
Indices: 66669--66751 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
66659 TTGTATTTAT
*
66669 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
66688 TAATTATAATTATTAATTA
1 TAATTATAATTATTAATTA
* **
66707 AAAAAAT-ATTAGTTAA-TA
1 TAATTATAATTA-TTAATTA
66725 TTAATTA-AATTA-TAA-TA
1 -TAATTATAATTATTAATTA
*
66742 AAATTATAAT
1 TAATTATAAT
66752 ACAAGTTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
16 5 0.10
17 8 0.15
18 6 0.12
19 33 0.63
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:67638 original size:23 final size:21
Alignment explanation
Indices: 67616--67740 Score: 87
Period size: 19 Copynumber: 6.4 Consensus size: 21
67606 AAATGTATTA
67616 AATTATTATTATTATATAAATT
1 AATTATTATTA-TATATAAATT
*
67638 AA-T-TTA-TACTAAATAAATT
1 AATTATTATTA-TATATAAATT
67657 -ATTATTATTATAT-TAAATT
1 AATTATTATTATATATAAATT
*
67676 AA-T-TTA-TACTAAATAAATT
1 AATTATTATTA-TATATAAATT
* *
67695 -ATTATTATTATATTTAACTT
1 AATTATTATTATATATAAATT
*
67715 -ATTATTA-TA-ATA-AGATT
1 AATTATTATTATATATAAATT
67732 AATTATTAT
1 AATTATTAT
67741 ATTATACAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
17 5 0.06
18 16 0.20
19 28 0.34
20 26 0.32
21 5 0.06
22 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (21 bp):
AATTATTATTATATATAAATT
Found at i:67644 original size:14 final size:15
Alignment explanation
Indices: 67627--67694 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 15
67617 ATTATTATTA
67627 TTATA-TAAATTAAT
1 TTATACTAAATTAAT
*
67641 TTATACTAAA-TAAA
1 TTATACTAAATTAAT
67655 TTAT--T--ATT-A-
1 TTATACTAAATTAAT
*
67664 TTATATTAAATTAAT
1 TTATACTAAATTAAT
*
67679 TTATACTAAATAAAT
1 TTATACTAAATTAAT
67694 T
1 T
67695 ATTATTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
9 4 0.09
10 2 0.05
11 2 0.05
12 1 0.02
13 3 0.07
14 13 0.30
15 18 0.42
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATACTAAATTAAT
Found at i:67708 original size:38 final size:38
Alignment explanation
Indices: 67614--67746 Score: 189
Period size: 38 Copynumber: 3.5 Consensus size: 38
67604 ATAAATGTAT
67614 TAAATTATTATTATTATA-TAAATTAATTTATACTAAA
1 TAAATTATTATTATTATATTAAATTAATTTATACTAAA
67651 TAAATTATTATTATTATATTAAATTAATTTATACTAAA
1 TAAATTATTATTATTATATTAAATTAATTTATACTAAA
* * *
67689 TAAATTATTATTATTATATTTAACTTATTATTATAATAAGA
1 TAAATTATTATTATTATA-TTAAATTAAT-TTATACTAA-A
*
67730 TTAATTATTA-TATTATA
1 TAAATTATTATTATTATA
67747 CAATATTGTA
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
37 18 0.20
38 37 0.42
39 8 0.09
40 15 0.17
41 10 0.11
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (38 bp):
TAAATTATTATTATTATATTAAATTAATTTATACTAAA
Found at i:67716 original size:20 final size:19
Alignment explanation
Indices: 67611--67722 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 19
67601 ATTATAAATG
67611 TATTAAATTATTATTATTA
1 TATTAAATTATTATTATTA
*
67630 TA-TAAATTAAT-TTA-TA
1 TATTAAATTATTATTATTA
*
67646 CTAAATAAATTATTATTATTA
1 -T-ATTAAATTATTATTATTA
*
67667 TATTAAATTAAT-TTA-TA
1 TATTAAATTATTATTATTA
*
67684 CTAAATAAATTATTATTATTA
1 -T-ATTAAATTATTATTATTA
*
67705 TATTTAACTTATTATTAT
1 TA-TTAAATTATTATTAT
67723 AATAAGATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 19
0.74 0.08 0.19
Matches are distributed among these distances:
16 2 0.03
17 6 0.08
18 13 0.17
19 29 0.39
20 21 0.28
21 4 0.05
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATTATTATTATTA
Found at i:67787 original size:16 final size:18
Alignment explanation
Indices: 67766--67803 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
67756 ATTTTAAATG
67766 ATTATTTAAT-TTA-TAT
1 ATTATTTAATGTTATTAT
67782 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
67800 ATTA
1 ATTA
67804 ACTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:68094 original size:29 final size:28
Alignment explanation
Indices: 68041--68095 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
68031 TAATTTAATA
*
68041 ATAATATTAAATAATTAGTTTAATTATG
1 ATAATATTAAATAATTAGTTAAATTATG
*
68069 ATAATATTGATATAATTTA-TTAAATTA
1 ATAATATT-AAATAA-TTAGTTAAATTA
68096 GTTATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 12 0.52
30 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
ATAATATTAAATAATTAGTTAAATTATG
Found at i:68968 original size:16 final size:15
Alignment explanation
Indices: 68939--68980 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
68929 ATACAATTAT
68939 ATTTA-AAACAATAA
1 ATTTATAAACAATAA
*
68953 ACTTTATAAACTATAA
1 A-TTTATAAACAATAA
68969 ATTATATAAACA
1 ATT-TATAAACA
68981 TTAGTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 6 0.26
16 16 0.70
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTTATAAACAATAA
Found at i:70086 original size:12 final size:12
Alignment explanation
Indices: 70071--70111 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
70061 TAATAAGTTA
70071 ATAAATATTAAT
1 ATAAATATTAAT
70083 ATAAATACTTAAT
1 ATAAATA-TTAAT
* *
70096 ATTATTATTAAT
1 ATAAATATTAAT
70108 ATAA
1 ATAA
70112 TTGTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTAAT
Found at i:70493 original size:28 final size:28
Alignment explanation
Indices: 70461--70517 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
70451 AATAATTAAA
70461 AATTTTAAATATTTAAATTA-AAATATTT
1 AATTTTAAATATTT-AATTATAAATATTT
* * *
70489 AATTTTTATTATTTAATTATAGATATTT
1 AATTTTAAATATTTAATTATAAATATTT
70517 A
1 A
70518 TTAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTTTAAATATTTAATTATAAATATTT
Found at i:70664 original size:27 final size:27
Alignment explanation
Indices: 70632--70694 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
70622 ATATACATTT
*
70632 AATTATTATACT-ATTTGATTGCT-ATAA
1 AATTATTA-ACTAATTTAATTG-TAATAA
70659 AATTATTAACTAATTTAATTGTAATAA
1 AATTATTAACTAATTTAATTGTAATAA
*
70686 ATTTATTAA
1 AATTATTAA
70695 AATATACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (27 bp):
AATTATTAACTAATTTAATTGTAATAA
Found at i:71368 original size:16 final size:17
Alignment explanation
Indices: 71345--71411 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
71335 TATATTATAC
71345 TTAA-ATTATTATTAAA
1 TTAATATTATTATTAAA
71361 -TAATATTATTATTTAAA
1 TTAATATTATTA-TTAAA
* *
71378 TTAAT-TTA-AATAAAGA
1 TTAATATTATTATTAA-A
*
71394 TTAAAATTATTATTAAA
1 TTAATATTATTATTAAA
71411 T
1 T
71412 AAGTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 6 0.15
16 13 0.32
17 13 0.32
18 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
TTAATATTATTATTAAA
Found at i:71369 original size:27 final size:26
Alignment explanation
Indices: 71323--71413 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 26
71313 AATATAATAT
*
71323 AATT-TTATT-AATTATATTATACTTA
1 AATTATTATTAAATAATATTATA-TTA
71348 AATTATTATTAAATAATATTATTATTTA
1 AATTATTATTAAATAATATTA-TA-TTA
* * *
71376 AATTAAT-TTAAATAA-A-GAT-TAA
1 AATTATTATTAAATAATATTATATTA
71398 AATTATTATTAAATAA
1 AATTATTATTAAATAA
71414 GTTATTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.14
23 8 0.14
24 1 0.02
25 5 0.09
26 6 0.11
27 17 0.30
28 11 0.20
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
AATTATTATTAAATAATATTATATTA
Found at i:72053 original size:13 final size:14
Alignment explanation
Indices: 72007--72055 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
71997 ATAAATTCTT
72007 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
72019 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
72035 ATTAATTAATATT-
1 ATTAATTAATATTA
72048 ATTAATTA
1 ATTAATTA
72056 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:72131 original size:17 final size:17
Alignment explanation
Indices: 72103--72144 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
72093 TTCAATTGTT
*
72103 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTGA
*
72120 TTATATAATTAAATTGA
1 TAATATAATTAAATTGA
72137 TAATATAA
1 TAATATAA
72145 CTATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TAATATAATTAAATTGA
Found at i:72181 original size:28 final size:31
Alignment explanation
Indices: 72127--72183 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
72117 TTATTATATA
72127 ATTAAATTGATAATATAACTATATAATATTT
1 ATTAAATTGATAATATAACTATATAATATTT
* *
72158 ATTATATT-ATAATA-AA-TATTTAATAT
1 ATTAAATTGATAATATAACTATATAATAT
72184 ACAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 2 0.08
30 6 0.25
31 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTAAATTGATAATATAACTATATAATATTT
Found at i:72190 original size:21 final size:21
Alignment explanation
Indices: 72151--72192 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
72141 ATAACTATAT
* **
72151 AATATTTATTATATTATAATA
1 AATATTTAATATACAATAATA
72172 AATATTTAATATACAATAATA
1 AATATTTAATATACAATAATA
72193 TTATATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTTAATATACAATAATA
Found at i:72212 original size:17 final size:17
Alignment explanation
Indices: 72119--72212 Score: 57
Period size: 17 Copynumber: 5.2 Consensus size: 17
72109 AATTAATATT
**
72119 ATTATATAATTAAATTG
1 ATTATATAATTAAATAA
* * *
72136 ATAATATAACTATATAA
1 ATTATATAATTAAATAA
72153 TATT-TATTATATTATAATAA
1 -ATTATA-TA-ATTA-AATAA
*
72173 A-TATTTAATATACAATAA
1 ATTATATAAT-TA-AATAA
72191 TATTATATAATTAAATAA
1 -ATTATATAATTAAATAA
72209 ATTA
1 ATTA
72213 AATATATTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
17 20 0.34
18 19 0.33
19 8 0.14
20 11 0.19
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (17 bp):
ATTATATAATTAAATAA
Found at i:72814 original size:181 final size:179
Alignment explanation
Indices: 72460--73029 Score: 571
Period size: 181 Copynumber: 3.2 Consensus size: 179
72450 TAAGTAGGAG
* *
72460 ATTTAAACAATTAGCTATTTCAAATTGTTATGACCTTTTGTTTTG-CTATAAAACAATTGTTTCT
1 ATTTAAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC-ATAAAACAATTGTTTCT
* * * ** *
72524 GTTCATACAAGTTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCCAAAGATTAATAAG
65 ATTCATA-AAGCTTA-TTCAAAATAAAATAATACT-AATTTATTAATATTTAAAAAATTAATAAG
* * * *
72587 T-AAAAATATATAAAATAAATTTGTTTTTTGA-ACATGTTAAAAATAATTATGACT
127 TGAAAAATTTAAAAAATAAATTTG-TTTATGAGACA-GTT-CAAATAATTATGACT
* * * *
72641 ATTTGAACAATTATCTATTTCAAATCGTTATGGCCTTTTGTTTTGTCGTAAACCAATTGTTTCTA
1 ATTTAAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
*
72706 TTCATAAAAGCTTATTCAAAATAAAATAATACTAATTTATTAAAATTTAAAAAATTAATAAGTGA
66 TTCAT-AAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTGA
* **
72771 AATATTTAAAAAATAAATTTGTTTACTGAGTGAGTTCAAATAATTATGACT
130 AAAATTTAAAAAATAAATTTGTTTA-TGAGACAGTTCAAATAATTATGACT
* * * *
72822 ATTTAAATAATTATTTATTTCAAATCGTTATGATCC-CTTGTTTTGTAATAAAACAATTGTTTCT
1 ATTTAAACAATTATCTATTTCAAATCGTTATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTCT
* *
72886 ATTCAT--A-C--A--AAAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAA--G-
65 ATTCATAAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTGA
* * * * * * *
72941 -AGATTTAAAAACTATATCTGTTTATCAGACCAATTCAAATAGTTATGACT
130 AAAATTTAAAAAATAAATTTGTTTATGAGA-CAGTTCAAATAATTATGACT
* * * * * *
72991 ATTTGAATAATTATCTATCTCAAATTGGTATGATCTTTT
1 ATTTAAACAATTATCTATTTCAAATCGTTATGACCTTTT
73030 TTTAATAAGT
Statistics
Matches: 332, Mismatches: 47, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
168 4 0.01
169 67 0.20
171 1 0.00
173 42 0.13
175 1 0.00
177 1 0.00
178 1 0.00
180 3 0.01
181 181 0.55
182 30 0.09
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
ATTTAAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA
TTCATAAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTGAA
AAATTTAAAAAATAAATTTGTTTATGAGACAGTTCAAATAATTATGACT
Found at i:73198 original size:22 final size:21
Alignment explanation
Indices: 73172--73216 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
73162 GAATAATATT
73172 TAAATAGATAATAATCTATAAC
1 TAAATAGATAATAAT-TATAAC
***
73194 TAAATCTTTAATAATTATAAC
1 TAAATAGATAATAATTATAAC
73215 TA
1 TA
73217 TTACACTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATAGATAATAATTATAAC
Found at i:73282 original size:16 final size:15
Alignment explanation
Indices: 73263--73295 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
73253 AAACTTTTGA
73263 ATAATATTATATAAAT
1 ATAATATTATA-AAAT
73279 ATAATATTATAAAAT
1 ATAATATTATAAAAT
73294 AT
1 AT
73296 TATAGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTATAAAAT
Found at i:73958 original size:31 final size:31
Alignment explanation
Indices: 73897--73958 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
73887 TTTTAAACTT
**
73897 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
73928 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
73959 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:75107 original size:14 final size:14
Alignment explanation
Indices: 75098--75127 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
75088 AGTAATTAGT
75098 ATATTATAATTATA
1 ATATTATAATTATA
75112 ATATTATAATTATA
1 ATATTATAATTATA
75126 AT
1 AT
75128 TAATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTATAATTATA
Found at i:75330 original size:13 final size:13
Alignment explanation
Indices: 75307--75340 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
75297 TAAATATTAG
75307 TATTATGAATTAAA
1 TATTAT-AATTAAA
*
75321 TATTATAATTTAA
1 TATTATAATTAAA
75334 TATTATA
1 TATTATA
75341 TTCATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TATTATAATTAAA
Found at i:75911 original size:181 final size:180
Alignment explanation
Indices: 75587--75911 Score: 377
Period size: 181 Copynumber: 1.8 Consensus size: 180
75577 AAAATATTAT
* * * *
75587 TAGTATTATTTTAATCCAAATAAACTTATACGAACAAAACAATTGTTTTATGTTAAAAGAAAATG
1 TAGTATTATTTTAATCCAAATAAACATATACGAACAAAACAATTGTTTGATGATAAAAGAAAAGG
* * * ** **
75652 TCATAACGATTTGAAATAGATAATCATTCATAGAGTCTTAACTATTTAAACTGGTTCGATAATTA
66 TCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAACTGGTTCGATAAGCA
75717 AATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAAAA
131 AATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAAAA
* * * * * *
75767 TAGTATTATTTTATTCTAAATAAA-ATAGTATGAATAGAACCAATTGTTTGATGATAAAATAAAA
1 TAGTATTATTTTAATCCAAATAAACATA-TACGAACA-AAACAATTGTTTGATGATAAAAGAAAA
* * * * * *
75831 GGTTATAACGATTTAAAATAAATAATTATTGAAATAGTCAAAACTATTTGAAA-TGGTTTGGTAA
64 GGTCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTT-AAACTGGTTCGATAA
*
75895 GCAGATTT-TCTTTTTAA
128 GCAAATTTAT-TTTTTAA
75912 ATCTCTTATA
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
179 2 0.02
180 29 0.25
181 83 0.71
182 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (180 bp):
TAGTATTATTTTAATCCAAATAAACATATACGAACAAAACAATTGTTTGATGATAAAAGAAAAGG
TCATAACGATTTAAAATAAATAATCATTCAAAGAGTCAAAACTATTTAAACTGGTTCGATAAGCA
AATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCAAAATATTATTAAAA
Found at i:76624 original size:181 final size:179
Alignment explanation
Indices: 76278--77179 Score: 637
Period size: 181 Copynumber: 5.0 Consensus size: 179
76268 AATTATTAAT
* * * * ** * * *
76278 TTATTATGATTTGAAATAAATAAATGTTCAAATTGTTATATAACTAATTGAACTAGTATTG-TAA
1 TTATAATGATTTGAAATAAATAATTATTCAAATAG--CCATAACTATTTGAACT-GAATCGATAA
* * * * * *
76342 ATAGATTTATTTATTAAA--T-CT-CTTATTAATTTTTGAAATATTAATAAATTAATATTATTTT
63 ACAAATTTATTTTTTAAATCTCCTACTTATTAATATTTCAAATATTAAT-AATTAGTATTATTTT
* * * * *
76403 ATTTCAAACTAA-CTTATATGAATAAAAACATTTGTTTTATGACAAAACAAAAGG
127 ATTTTAAA-TAAGCTTGTATGAAGAAAAACAATTATTTTATGACAAAACAAAA-G
* * * * * ** *
76457 TTATAACGATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTGGTTCGGTAAACA
1 TTATAATGATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTGAACTGAATCGATAAACA
* ** * *
76522 ATTTTATTTTTTAAAT-TTATCAGTTATTAA-ATTTCATAATATTACTAGATTAGTATTATTTTA
66 AATTTATTTTTTAAATCTCCT-ACTTATTAATATTTCA-AATATTAATA-ATTAGTATTATTTTA
* * *
76585 TTTTGAATAAGCTTGTATGAAGATAAATAATTATTTTATGACAAAACAAAATG
128 TTTTAAATAAGCTTGTATGAAGAAAAACAATTATTTTATGACAAAACAAAA-G
* * * * * *
76638 TTATAATAATTGGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTGAATCGATAAGCA
1 TTATAATGATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTGAACTGAATCGATAAACA
*
76703 AATTTATTTTTTAAATCTCCTACTTATTAATTTTTCAAATATTAATAAGTTAGTATTATTTTATT
66 AATTTATTTTTTAAATCTCCTACTTATTAATATTTCAAATATTAATAA-TTAGTATTATTTTATT
* * *
76768 CTAAATAGGCTTGTATGATGAAAAACAATTATTTTATGACAAAACAAAAG
130 TTAAATAAGCTTGTATGAAGAAAAACAATTATTTTATGACAAAACAAAAG
* * * * * *
76818 TTCATAATGATTTGAAATAAATAATTGTTTAAATGGCCATAATTATTTGAACTGATTTGATAAAC
1 TT-ATAATGATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTGAACTGAATCGATAAAC
* * * * * * * *
76883 TAATTTATGTTTTAAATCT-CTAACTTATCAAT-TTTTATAATAGTAATAAAGTAATATTACTTT
65 AAATTTATTTTTTAAATCTCCT-ACTTATTAATATTTCA-AATATTAAT-AATTAGTATTATTTT
* * **** * * * *
76946 ATTTCATATAAGCCTT-TATGAACTGGAACAATTGTTTTATGATAAAATATAAG
127 ATTTTAAATAAG-CTTGTATGAAGAAAAACAATTATTTTATGACAAAACAAAAG
* * * * * ** * * * *
76999 ATCATAGTGATTTTAAATAGATAATTTTTCAAATAGTTAAAAGTATTTGAACTTG-TTCGGTAAA
1 -TTATAATGATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTGAAC-TGAATCGATAAA
* * * * * * ** *
77063 TAGATTT-TTTTTTCTAATTTCTTACTTATTAATTTTTTGAATGTTAATAAATTAGTATTATTTT
64 CAAATTTATTTTTT-AAATCTCCTACTTATTAATATTTCAAATATTAAT-AATTAGTATTATTTT
* * ** * *
77127 A-TTTACAATAAGCATGTACG-AGTTGAAGCAATTATTTTATGACCAAACAAAAG
127 ATTTTA-AATAAGCTTGTATGAAG-AAAAACAATTATTTTATGACAAAACAAAAG
77180 GTCAAAACAA
Statistics
Matches: 570, Mismatches: 129, Indels: 46
0.77 0.17 0.06
Matches are distributed among these distances:
176 3 0.01
177 29 0.05
178 1 0.00
179 29 0.05
180 29 0.05
181 459 0.81
182 20 0.04
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (179 bp):
TTATAATGATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTGAACTGAATCGATAAACA
AATTTATTTTTTAAATCTCCTACTTATTAATATTTCAAATATTAATAATTAGTATTATTTTATTT
TAAATAAGCTTGTATGAAGAAAAACAATTATTTTATGACAAAACAAAAG
Found at i:77032 original size:362 final size:359
Alignment explanation
Indices: 76363--77179 Score: 808
Period size: 362 Copynumber: 2.3 Consensus size: 359
76353 TATTAAATCT
* * * *
76363 CTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTCAAACTAACTTATATGAAT-A
1 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTT-AAA-TAGCTTGTATG-ATGA
* * * *
76427 AAAACATTTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCATATAG
63 AAAACAATTATTTTATGACAAAACAAAA-GTTATAACGATTTGAAATAAATAATTATTCAAATAG
* * * * * * * * *
76492 CCTTAACTATTTGAATTGGTTCGGTAAACAATTTTATTTTTTAAATTTATCAGTTATTAAATTTC
127 CCATAACTATTTGAACTGATTCGATAAACAATTTTATGTTTTAAATCTATAACTTATCAAATTTC
* * * * * * * *
76557 ATAATATTACTAGATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGATAAATAATTATTTT
192 ATAATAGTAATAAAGTAATATTACTTTATTTTCAATAAGCTTGTATGAAGATAAACAATTATTTT
* * *
76622 ATGACAAAACAAAATGTTATAATAATTGGAAATATATAATTGTTCAAATAGTCATAACTATTTGA
257 ATGACAAAACAAAATGTCATAATAATTGGAAATAGATAATTGTTCAAATAGTCAAAACTATTTGA
*
76687 AC-TGAATCGATAAGCAAATTTATTTTTT-AAATCTCCTA
322 ACTTG-ATCGATAAACAAATTT-TTTTTTCAAATCTCCTA
*
76725 CTTATTAATTTTTCAAATATTAATAAGTTAGTATTATTTTATTCTAAATAGGCTTGTATGATGAA
1 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATT-TAAATA-GCTTGTATGATGAA
* * * *
76790 AAACAATTATTTTATGACAAAACAAAAGTTCATAATGATTTGAAATAAATAATTGTTTAAATGGC
64 AAACAATTATTTTATGACAAAACAAAAGTT-ATAACGATTTGAAATAAATAATTATTCAAATAGC
* * * * *
76855 CATAATTATTTGAACTGATTTGATAAACTAA-TTTATGTTTTAAATCTCTAACTTATCAATTTTT
128 CATAACTATTTGAACTGATTCGATAAAC-AATTTTATGTTTTAAATCTATAACTTATCAAATTTC
* * *
76919 ATAATAGTAATAAAGTAATATTACTTTA-TTTCATATAAGCCTT-TATGAA-CTGGAACAATTGT
192 ATAATAGTAATAAAGTAATATTACTTTATTTTCA-ATAAG-CTTGTATGAAGAT-AAACAATTAT
* * * * * ** * * *
76981 TTTATGATAAAATATAA-GATCATAGTGATTTTAAATAGATAATTTTTCAAATAGTTAAAAGTAT
254 TTTATGACAAAACAAAATG-TCATAATAATTGGAAATAGATAATTGTTCAAATAGTCAAAACTAT
* * * * * * *
77045 TTGAACTTGTTCGGTAAATAGATTTTTTTTTCTAATTTCTTA
318 TTGAACTTGATCGATAAACAAATTTTTTTTTCAAATCTCCTA
** * * *
77087 CTTATTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTTACAATAAGCATGTACGAGTTG
1 CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTA-AAT-AGCTTGTATGA--TG
* *
77152 --AAGCAATTATTTTATGACCAAACAAAAG
62 AAAAACAATTATTTTATGACAAAACAAAAG
77180 GTCAAAACAA
Statistics
Matches: 373, Mismatches: 67, Indels: 30
0.79 0.14 0.06
Matches are distributed among these distances:
361 21 0.06
362 341 0.91
363 9 0.02
364 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (359 bp):
CTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTAAATAGCTTGTATGATGAAAA
ACAATTATTTTATGACAAAACAAAAGTTATAACGATTTGAAATAAATAATTATTCAAATAGCCAT
AACTATTTGAACTGATTCGATAAACAATTTTATGTTTTAAATCTATAACTTATCAAATTTCATAA
TAGTAATAAAGTAATATTACTTTATTTTCAATAAGCTTGTATGAAGATAAACAATTATTTTATGA
CAAAACAAAATGTCATAATAATTGGAAATAGATAATTGTTCAAATAGTCAAAACTATTTGAACTT
GATCGATAAACAAATTTTTTTTTCAAATCTCCTA
Found at i:77869 original size:16 final size:16
Alignment explanation
Indices: 77848--77950 Score: 63
Period size: 16 Copynumber: 6.4 Consensus size: 16
77838 TAATTGAATA
77848 AAAATATTTAATATTT
1 AAAATATTTAATATTT
*
77864 AAAATATTAAATATGTT
1 AAAATATTTAATAT-TT
*
77881 ATTAATA--TAATATTT
1 A-AAATATTTAATATTT
* *
77896 AATAATA-TAAATAGTT
1 AA-AATATTTAATATTT
77912 AATAATATATTAA-ATTT
1 AA-AATAT-TTAATATTT
* *
77929 CAATATATTTATTA-TT
1 -AAAATATTTAATATTT
77945 AAAATA
1 AAAATA
77951 ATAATATCCA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
15 12 0.18
16 36 0.53
17 11 0.16
18 9 0.13
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
AAAATATTTAATATTT
Found at i:77894 original size:32 final size:31
Alignment explanation
Indices: 77856--77920 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
77846 TAAAAATATT
*
77856 TAATATTTAA-AATATTAAATATGTTATTAATA
1 TAATATTTAATAATA-TAAATA-GTTAATAATA
77888 TAATATTTAATAATATAAATAGTTAATAATA
1 TAATATTTAATAATATAAATAGTTAATAATA
77919 TA
1 TA
77921 TTAAATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 11 0.35
32 16 0.52
33 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TAATATTTAATAATATAAATAGTTAATAATA
Found at i:78095 original size:13 final size:13
Alignment explanation
Indices: 78065--78140 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
78055 TCTTGTTTAG
*
78065 TATTATAATATAA
1 TATTATAATATTA
* *
78078 AATTATTATATTA
1 TATTATAATATTA
78091 TATTATAATATTA
1 TATTATAATATTA
*
78104 -ATTTTAATGA--A
1 TATTATAAT-ATTA
*
78115 TATTA-GATATTA
1 TATTATAATATTA
*
78127 TTTTATAATATTA
1 TATTATAATATTA
78140 T
1 T
78141 TCTTTCCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
10 1 0.02
11 3 0.06
12 15 0.31
13 29 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTATAATATTA
Found at i:78433 original size:11 final size:11
Alignment explanation
Indices: 78417--78442 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
78407 TAATTAAAAT
78417 ATATTATTATA
1 ATATTATTATA
78428 ATATTATTATA
1 ATATTATTATA
78439 ATAT
1 ATAT
78443 GTATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTATTATA
Found at i:78648 original size:21 final size:22
Alignment explanation
Indices: 78624--78696 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 22
78614 AATTCTGATC
78624 AAATTATATATTTATATATA-T
1 AAATTATATATTTATATATAGT
*
78645 AAATAATATA-TTAT-T-TAGT
1 AAATTATATATTTATATATAGT
* *
78664 TAA-TA-ATATTTAATATATATT
1 AAATTATATATTT-ATATATAGT
*
78685 TAATTATATATT
1 AAATTATATATT
78697 ATTTAACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 6 0.15
20 5 0.12
21 15 0.37
22 2 0.05
23 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
AAATTATATATTTATATATAGT
Found at i:78668 original size:19 final size:19
Alignment explanation
Indices: 78646--78701 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
78636 TATATATATA
78646 AATAATATATTATTTAGTT
1 AATAATATATTATTTAGTT
*
78665 AATAATAT-TTAATATATATTT
1 AATAATATATT-AT-T-TAGTT
*
78686 AATTATATATTATTTA
1 AATAATATATTATTTA
78702 ACTTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
20 2 0.06
21 13 0.42
22 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AATAATATATTATTTAGTT
Found at i:78699 original size:26 final size:26
Alignment explanation
Indices: 78628--78721 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
78618 CTGATCAAAT
**
78628 TATATATTT-A-TATATA-TAAATAA
1 TATATATTTAATTATATATTATTTAA
* *
78651 TATATTATTTAGTTA-ATAATATTTAA
1 TATA-TATTTAATTATATATTATTTAA
78677 TATATATTTAATTATATATTATTTAA
1 TATATATTTAATTATATATTATTTAA
* *
78703 CTTTA-ATTTTATTATATAT
1 -TATATATTTAATTATATAT
78722 ATAATAGTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
23 4 0.07
24 5 0.09
25 12 0.21
26 34 0.59
27 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
TATATATTTAATTATATATTATTTAA
Found at i:78798 original size:12 final size:12
Alignment explanation
Indices: 78781--78811 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
78771 GTTTCTACTA
78781 ATATAATTAATT
1 ATATAATTAATT
*
78793 ATATAAATAATT
1 ATATAATTAATT
78805 ATATAAT
1 ATATAAT
78812 CCAAAAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATAATTAATT
Found at i:79507 original size:17 final size:18
Alignment explanation
Indices: 79458--79508 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
79448 TTTGCAAAAA
79458 TATTTCAAATAATTATGAC
1 TATTTCAAATAATTAT-AC
79477 TATTT-AAATAATTAT-C
1 TATTTCAAATAATTATAC
*
79493 TATTTCAAATCATTAT
1 TATTTCAAATAATTAT
79509 TCTCTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 6 0.20
17 9 0.30
18 10 0.33
19 5 0.17
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTTCAAATAATTATAC
Found at i:79850 original size:45 final size:44
Alignment explanation
Indices: 79800--79886 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
79790 TAATTAAGTA
* * *
79800 ATAATTATTAAATTT-TTTATTATTTTATTATAAATTTAATAATAT
1 ATAATTATTAAATTTATAT-TTATATTATT-TAAATATAATAATAT
*
79845 ATAATTATTATATTTATATTTATATTATTTAAATATAATAAT
1 ATAATTATTAAATTTATATTTATATTATTTAAATATAATAAT
79887 TAACTATCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 12 0.32
45 23 0.62
46 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (44 bp):
ATAATTATTAAATTTATATTTATATTATTTAAATATAATAATAT
Found at i:79957 original size:8 final size:8
Alignment explanation
Indices: 79915--79964 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
79905 ATAATTATAA
79915 TATATATT
1 TATATATT
*
79923 CATA-ATT
1 TATATATT
79930 TA-ATATT
1 TATATATT
*
79937 TACTATTTT
1 TA-TATATT
79946 TATATATT
1 TATATATT
*
79954 TATATAGT
1 TATATATT
79962 TAT
1 TAT
79965 TTAAATTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
6 1 0.03
7 9 0.26
8 18 0.53
9 6 0.18
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (8 bp):
TATATATT
Found at i:79988 original size:19 final size:19
Alignment explanation
Indices: 79955--80011 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
79945 TTATATATTT
*
79955 ATATAGTTATTTAAATTATA
1 ATATA-TTATATAAATTATA
* *
79975 TTATATTATATAAACTATA
1 ATATATTATATAAATTATA
*
79994 ATATATAATATGAAATTA
1 ATATATTATAT-AAATTA
80012 GCTATAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (19 bp):
ATATATTATATAAATTATA
Found at i:80105 original size:29 final size:28
Alignment explanation
Indices: 80052--80106 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
80042 TAATTTAATA
*
80052 ATAATATTAAATAATTAGTTTAATTATG
1 ATAATATTAAATAATTAGTTAAATTATG
*
80080 ATAATATTGATATAATTTA-TTAAATTA
1 ATAATATT-AAATAA-TTAGTTAAATTA
80107 GTTATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 12 0.52
30 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
ATAATATTAAATAATTAGTTAAATTATG
Found at i:81796 original size:15 final size:15
Alignment explanation
Indices: 81776--81804 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
81766 TATTAATATA
81776 TTATTTTTATATTTG
1 TTATTTTTATATTTG
81791 TTATTTTTATATTT
1 TTATTTTTATATTT
81805 AACGATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTATTTTTATATTTG
Found at i:83238 original size:18 final size:18
Alignment explanation
Indices: 83210--83245 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
83200 TATTATACTT
83210 ATTATTTAATATAACTAAA
1 ATTATTTAATATAA-TAAA
83229 ATTA-TTAATATAATAAA
1 ATTATTTAATATAATAAA
83246 TATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTATTTAATATAATAAA
Found at i:83392 original size:15 final size:16
Alignment explanation
Indices: 83348--83396 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
83338 TCAATAAATA
*
83348 ATTAT-ATTAATTATA
1 ATTATAATTAATTATT
*
83363 ATT-TATTTAATTATT
1 ATTATAATTAATTATT
83378 ATTATAATTAA-TATT
1 ATTATAATTAATTATT
83393 ATTA
1 ATTA
83397 ATTATCTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 22 0.76
16 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATAATTAATTATT
Found at i:83792 original size:20 final size:20
Alignment explanation
Indices: 83769--83831 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
83759 TTTATATAAC
83769 TTATTAATAATAAATATTAA
1 TTATTAATAATAAATATTAA
* * *
83789 TTATTTATTATAAATTTTAA
1 TTATTAATAATAAATATTAA
*
83809 -T-TT-ATCATAAATATTAA
1 TTATTAATAATAAATATTAA
*
83826 TAATTA
1 TTATTA
83832 CTATTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 12 0.35
18 2 0.06
19 3 0.09
20 17 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTAATAATAAATATTAA
Found at i:83813 original size:17 final size:17
Alignment explanation
Indices: 83791--83826 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
83781 AATATTAATT
* *
83791 ATTTATTATAAATTTTA
1 ATTTATCATAAATATTA
83808 ATTTATCATAAATATTA
1 ATTTATCATAAATATTA
83825 AT
1 AT
83827 AATTACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATCATAAATATTA
Found at i:84012 original size:22 final size:23
Alignment explanation
Indices: 83963--84022 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 23
83953 TCCAAAATAA
*
83963 AATAACTATTTTATTATAATATTAT
1 AATAA-TA-TTTATTATAATAGTAT
83988 AAT-ATATTTATTATAAT-GTACT
1 AATAATATTTATTATAATAGTA-T
84010 AATAAATATTTAT
1 AAT-AATATTTAT
84023 ACTTATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 2 0.06
24 9 0.29
25 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATATTTATTATAATAGTAT
Found at i:84577 original size:142 final size:143
Alignment explanation
Indices: 84393--84675 Score: 342
Period size: 142 Copynumber: 2.0 Consensus size: 143
84383 AATAGAACCA
* * *
84393 ATTATTTGATGATAAAATAAAAAGTTATAACGATTCGAAATAGATAATT-TTGAAAATAGTCAAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTGTT-AAAATAGTCAAA
* * *
84457 ACTATTTAAAATGGTT-TGATAACCA-AATTTACTTTTTAAATCTCTTA-TTGATTAATTTTT-A
65 ACTATTTAAAATGGTTCAG-TAAACAGAA-TTACTTTTTAAATCTCTTACTT-ATAAATTTTTAA
84518 AATATTAATAAATTAGT
127 AATATTAATAAATTAGT
* * * * * *
84535 ATTATTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTGTTAAAATAGTCAAAA
* * * * *
84600 TTATTTGAACTGGTTCAGTAAATAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATA
66 CTATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATCTCTTACTTATAAATTTTTAAAATA
84665 TTAATAAATTA
131 TTAATAAATTA
84676 CTTTCATTCT
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
142 96 0.81
143 23 0.19
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (143 bp):
ATTATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTGTTAAAATAGTCAAAA
CTATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATCTCTTACTTATAAATTTTTAAAATA
TTAATAAATTAGT
Found at i:85083 original size:176 final size:177
Alignment explanation
Indices: 84539--86734 Score: 948
Period size: 181 Copynumber: 12.2 Consensus size: 177
84529 ATTAGTATTA
* * * ** * * * * *
84539 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAGTTATAATTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTAT
* * * *
84604 TTGAACTGGTTCAGTAAA-TAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATATTA
66 TTAAACTGGTTCAATAAACT-GATTTATTTTTTAAATCTCTTAC-T-T-AATTCTTAAAATATTA
* * * * * * *
84668 ATAAATTACT-TTCATTCTATTTCGAATTAGCTTGTATGAGCTG-AAATAATTA
127 CTAAATTAGTATT-ATTTTATTTCAAATAAGCTTGTATGA--TGAAAACAATTG
* * * * * * *
84720 TTTTATAATAAAATAAAAGGTTATAACAATTTGAAATA-AATAATTGTTCATATAGACTTAACTG
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAA-AATTATTCAAATAGTCATAACTA
* ** * * * * *
84784 TTTGAAA-GGGTTTGACAAACGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATT
65 TTT-AAACTGGTTCAATAAACTGATTTATTTTTTAAATCTCTTACTTA---ATTCTTAAAATATT
* * *
84848 GCTAAATTATTATTATTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
126 ACT-AA--ATTAGTATTATTTTATTTCAAATAAGCTTGTATGATGA-AAACAATTG
* *
84904 TTTTATGATAGAACAAAAGGTTGTAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTAT
* * *
84969 TTAAACTAGTTCAATAAACTGATTTATTTTTTAAATGTCTTA-TTAGTTCTTAAAATATTACTAA
66 TTAAACTGGTTCAATAAACTGATTTATTTTTTAAATCTCTTACTTAATTCTTAAAATATTACTAA
* *
85033 ATTGGTA-TATTTTATTTCAAATAAGCTTGTATGTTGAAAAACAATTG
131 ATTAGTATTATTTTATTTCAAATAAGCTTGTATGATG-AAAACAATTG
* * * * * * * *
85080 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTATTTAAAT-GGCTATAATTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTC-ATAACTA
* * *** * * *
85144 TTTGAACTGATTGGGTAAACTGATTTATTCTTTTAAAT-TAGTTACTTATTAATTTTTGAAATAT
65 TTTAAACTGGTTCAATAAACTGATTTATT-TTTTAAATCT-CTTAC---TTAATTCTTAAAATAT
* *** * * *
85208 TACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACT-AAAACAATTT
125 TACTAAATTAGTATTATTTTATTTCAAATAAGCTTGTATG-A-TGAAAACAATTG
* * * ** * * * *
85262 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATA-AATAATTGTTCAAATAGCCATAATTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAA-AATTATTCAAATAGTCATAACTA
* * *** * ** *
85326 TTCAAACTTGTTTGGTAAACAT-ATTTATTTTTTTAAATCTCATGATTA-TTAATTTTTTGAATG
65 TTTAAACTGGTTCAATAAAC-TGATTTA-TTTTTTAAATCTC----TTACTTAATTCTTAAAATA
* * * * *
85389 TTAATAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAACTG-AAGCAATTA
124 TTACTAAATTAGTATTATTTTATTTCAAATAAGCTTGTATG-A-TGAAAACAATTG
** * * * ** * * ** * * *
85444 TTACATGACT-AAAGAAAAGGTCAGAATGATTTAAAATTGGCAATTATTCTAATAGTCTTAATTA
1 TTTTATGA-TAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTA
* ** * ** *
85508 TTTAAACTGGTTCGATAAACACATTTATTTTTTGAATCTCTTA-TTAATT-TTGGAATATTATTA
65 TTTAAACTGGTTCAATAAACTGATTTATTTTTTAAATCTCTTACTTAATTCTTAAAATATTACTA
* * * * *
85571 AATTAGTAATATTTT-TATCTAAATAAGCTTGTATGATCAGAAATAATTA
130 AATTAGTATTATTTTATTTC-AAATAAGCTTGTATGATGA-AAACAATTG
* * * * * * * *
85620 TTTTATGAGAAAAC-AAA-GATAAAGACAATTT-AAGATTGATATTTATTCAAATAGCCATAATT
1 TTTTATGATAAAACAAAAGGTTATA-ACAATTTGAA-ATAGAAAATTATTCAAATAGTCATAACT
* ** ** * *
85682 ATTTGAACTAATTTGGA-AAAC-AATTTTAGTTTTTAAAAATCTTGCTTA-TTAATT-TTCAAAA
64 ATTTAAACT-GGTTCAATAAACTGA-TTTA-TTTTT-TAAATC-T-CTTACTTAATTCTT-AAAA
* * * * * * * * *
85743 TATTAATAAAGTAGTTTTATTTCATTTTAGATAAGTTTTTATAAATTG-AAACAATTG
122 TATTACTAAATTAGTATTATTTTATTTCAAATAAGCTTGTAT-GA-TGAAAACAATTG
* * * * * * * *
85800 TTTTATGACAAAACAAAAGGTCATAATGACTTT-AAATAGATAATTGTTTAAATAATCA-AATCT
1 TTTTATGATAAAACAAAAGGTTATAA-CAATTTGAAATAGAAAATTATTCAAATAGTCATAA-CT
* * ** * * * * ** *
85863 ATTTTAATTTATTCGATAAGCAGATTTATTTTTTTAAATCTCATGCTTA-TTAATTTTTTGAATG
64 ATTTAAACTGGTTCAATAAACTGATTTA-TTTTTTAAA--TC-T-CTTACTTAATTCTTAAAATA
* * *
85927 TTAATAAATTAGTATTAATTTA-TTCTAAATAAGCTTGTATGAATTG-AAATAATTG
124 TTACTAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATG-A-TGAAAACAATTG
* * * ** * * * * **
85982 TTTTGTAACT-AAACAAAAGGTTAAAATGATCTGAAATAGATAATTATCCTAATAGTTTTAACTA
1 TTTTATGA-TAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTA
* **** ** * **
86046 TTTGAACTGGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATTA
65 TTTAAACTGGTTCAATAAACTGATTTATTTTTTAAATCTCTTAC-T--TAATTCTTAAAATATTA
* * * * **
86111 TTAAATTAGTATTATTTTAATAT-GAATAAGCTTATATGAAAAGAAACAATTG
127 CTAAATTAGTATTATTTT-ATTTCAAATAAGCTTGTATGATGA-AAACAATTG
* * * * * *
86163 TTTTATGACAAAA-TAAAGATCATAACAATTTGATATA-AATAATTGTTCAAATAGTCATAACTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAA-AATTATTCAAATAGTCATAACTA
* * * * * *
86226 TTTGAACTGTTTCAGTAAA-TAAATTTAGTTTTTAAATCTCTTA-TTAATT-TTCAAAATATTAA
65 TTTAAACTGGTTCAATAAACT-GATTTATTTTTTAAATCTCTTACTTAATTCTT-AAAATATTAC
* * * * ** * **
86288 TAGATCAGTATTATTTGA-TTCTGAATAATTTTGCATGAACAGAAACAATTG
128 TAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGATGA-AAACAATTG
* * ** * * * * * *
86339 TTTTATGACAAAA-AAAAGGTCATAACTTTTTTAAATAGATAATTGTTCAAATGGACATGACTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTAT
* ** * * * * * *
86403 TTAGACTTATTCAGTAAA-TAGATTTATTTTTTAAAACTCCTAGCTACTAACTT-TCAAAGTTTT
66 TTAAACTGGTTCAATAAACT-GATTTATTTTTTAAATCTCTTA-CT--TAA-TTCTTAAAATATT
* * * * * ** *
86466 AATCAACTAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAATAATTG
126 ACTAAATTAGTATTATTTTATTTCAAATAAGCTTGTATG-ATGAAAACAATTG
* * * * * * * * * *
86519 TTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAAACAATCATAACGAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTAT
* * * * * ** * * * * * *
86584 TTGAATTAGCTCAGTAAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAA
66 TTAAACTGGTTCAATAAACTGATTTATTTTTTAAATCTCTTAC---TTAATTCTTAAAATATTAC
* **
86649 TAAATTAGTATTATTTTATTTCAAATATGCTTGTATGAACAAAAACAATTG
128 TAAATTAGTATTATTTTATTTCAAATAAGCTTGTATG-ATGAAAACAATTG
* * * * * *
86700 GTTTATGACAAAACGAAGGGTCATAACTATTTGAA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAA
86735 CATGTTTAGA
Statistics
Matches: 1552, Mismatches: 367, Indels: 192
0.74 0.17 0.09
Matches are distributed among these distances:
174 8 0.01
175 54 0.03
176 312 0.20
177 35 0.02
178 5 0.00
179 19 0.01
180 203 0.13
181 408 0.26
182 363 0.23
183 18 0.01
184 120 0.08
185 4 0.00
186 3 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (177 bp):
TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTAT
TTAAACTGGTTCAATAAACTGATTTATTTTTTAAATCTCTTACTTAATTCTTAAAATATTACTAA
ATTAGTATTATTTTATTTCAAATAAGCTTGTATGATGAAAACAATTG
Found at i:85906 original size:538 final size:529
Alignment explanation
Indices: 84800--86434 Score: 1568
Period size: 538 Copynumber: 3.0 Consensus size: 529
84790 AGGGTTTGAC
* * * * * ** *
84800 AAACGGATTTA-TTTTTTAAATCTC-TTAGTTATTCATTTTTAGAATATTGCTAAATTATTATTA
1 AAACAGATTTATTTTTTTAAATCTCATGA-TTATTAATTTTTTGAATGTTAATAAATTAGTATTA
* ** * ** * **
84863 TTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTGTTTTATGA-TAGAACAAAAGGTTG
65 --A-TTTATTCCAAATAAGCTTGTATGAACTGAAACAATTATTACATAACTA-AACAAAAGGTCA
* ** * * * * * * * **
84927 TAACAATTTGAAATAGAAAATTATTCAAATAGTCATAACTATTTAAACTAGTTCAATAAACTGAT
126 AAATGATCTAAAATAGACAATTATTCTAATAGTCTTAACTATTTAAACTGGTTCGATAAACACAT
* * ** * * *
84992 TTATTTTTTAAATGTCTTATTAGTTCTTAAAATATTACTAAATTGGT-ATA-TTTTATTTCAAAT
191 TTATTTTTTAAATCTCTTATTAATT-TTGGAATATTATTAAATTAGTAATATTTTTATAT-AAAT
* *
85055 AAGCTTGTATGTTGAA-AAACAATTGTTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAG
254 AAGCTTGTATGAT-AAGAAACAATTGTTTTATGACAAAA-AAAAGATAA-AACAATTT-AAATAG
* * * * * * * *
85119 ATAGTTATTTAAATGGCTATAATTATTTGAACTGATTGGGTAAACTGATTTATTCTTTTAAATTA
315 ATAATTATTCAAATAGCCATAATTATTTGAACT-ATTTGGTAAAC-AATTTAGT-TTTTAAAAT-
* ** * * *
85184 GTTACTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGA
376 CTT-CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTT-GAT-AATTTTTATGA
* * * *
85249 ACTAAAACAATTTTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAA
438 ACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTTAAATAGATAATTGTTCAAA
* * * *
85314 TAGCCATAATTATTCAAACTTGTTTGGT
502 TAACCATAATTATTCAAACTTATTCGAT
* *
85342 AAACATATTTATTTTTTTAAATCTCATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTAT
1 AAACAGATTTATTTTTTTAAATCTCATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTAA
* * * * *
85407 TTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTATTACATGACTAAAGAAAAGGTCAGAATG
66 TTTATTCCAAATAAGCTTGTATGAACTGAAACAATTATTACATAACTAAACAAAAGGTCAAAATG
* * * *
85472 ATTTAAAATTGGCAATTATTCTAATAGTCTTAATTATTTAAACTGGTTCGATAAACACATTTATT
131 ATCTAAAATAGACAATTATTCTAATAGTCTTAACTATTTAAACTGGTTCGATAAACACATTTATT
* *
85537 TTTTGAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTG
196 TTTTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATATAAATAAGCTTG
* * * * * * *
85602 TATGATCAGAAATAATTATTTTATGAGAAAACAAAGATAAAGACAATTTAAGATTGATATTTATT
261 TATGATAAGAAACAATTGTTTTATGACAAAAAAAAGATAAA-ACAATTTAA-ATAGATAATTATT
*
85667 CAAATAGCCATAATTATTTGAACTAATTTGGAAAACAATTTTAGTTTTTAAAAATCTTGCTTATT
324 CAAATAGCCATAATTATTTGAACT-ATTTGGTAAACAA-TTTAGTTTTT-AAAATCTT-CTTATT
* * *
85732 AATTTTCAAAATATTAATAAAGTAGTTTTATTTCATTTTAGATAAGTTTTTATAAATTGAAACAA
385 AATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTT-GATAA-TTTTTATGAACTGAAACAA
* * *
85797 TTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAGATAATTGTTTAAATAATCA-AAT
448 TTGTTTTATGACAAAACAAAAGGTCATAAT-ATTTTAAATAGATAATTGTTCAAATAACCATAAT
** *
85861 CTATTTTAATTTATTCGAT
512 -TATTCAAACTTATTCGAT
* *
85880 AAGCAGATTTATTTTTTTAAATCTCATGCTTATTAATTTTTTGAATGTTAATAAATTAGTATTAA
1 AAACAGATTTATTTTTTTAAATCTCATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTAA
* * * * *** *
85945 TTTATTCTAAATAAGCTTGTATGAATTGAAATAATTGTTTTGTAACTAAACAAAAGGTTAAAATG
66 TTTATTCCAAATAAGCTTGTATGAACTGAAACAATTATTACATAACTAAACAAAAGGTCAAAATG
* * * * * * **
86010 ATCTGAAATAGATAATTATCCTAATAGTTTTAACTATTTGAACTGGTTTGGCAAACACATTTATT
131 ATCTAAAATAGACAATTATTCTAATAGTCTTAACTATTTAAACTGGTTCGATAAACACATTTATT
* * *
86075 TTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTTAATATGAATAA
196 TTTTAAATCTCTTA--T--TAA-TTTTGGAATATTATTAAATTAGTAATATTTTTATATAAATAA
* * * * * *
86140 GCTTATATGAAAAGAAACAATTGTTTTATGACAAAATAAAGATCATAACAATTTGATATAAATAA
256 GCTTGTATGATAAGAAACAATTGTTTTATGACAAAAAAAAGAT-AAAACAATTT-AAATAGATAA
* * * * * *
86205 TTGTTCAAATAGTCATAACTATTTGAACTGTTTCAGTAAATAAATTTAGTTTTT-AAATC-TCTT
319 TTATTCAAATAGCCATAATTATTTGAACTATTT-GGTAAA-CAATTTAGTTTTTAAAATCTTCTT
* * * * *
86268 ATTAATTTTCAAAATATTAATAGA-TCAGTATTATTTGATTCTGAATAATTTTGCATGAACAGAA
382 ATTAATTTTCAAAATATTAATAAAGT-AGTATTATTTCATTTTG-ATAATTTT-TATGAACTGAA
* *
86332 ACAATTGTTTTATGACAAAA-AAAAGGTCATAACTTTTTTAAATAGATAATTGTTCAAATGGA-C
444 ACAATTGTTTTATGACAAAACAAAAGGTCATAA-TATTTTAAATAGATAATTGTTCAAAT-AACC
* * * *
86395 ATGACTATTTAGACTTATTC-AGT
507 ATAATTATTCAAACTTATTCGA-T
*
86418 AAATAGATTTATTTTTT
1 AAACAGATTTATTTTTT
86435 AAAACTCCTA
Statistics
Matches: 906, Mismatches: 158, Indels: 62
0.80 0.14 0.06
Matches are distributed among these distances:
537 7 0.01
538 381 0.42
539 155 0.17
540 159 0.18
541 14 0.02
542 15 0.02
543 168 0.19
544 7 0.01
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (529 bp):
AAACAGATTTATTTTTTTAAATCTCATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTAA
TTTATTCCAAATAAGCTTGTATGAACTGAAACAATTATTACATAACTAAACAAAAGGTCAAAATG
ATCTAAAATAGACAATTATTCTAATAGTCTTAACTATTTAAACTGGTTCGATAAACACATTTATT
TTTTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATATAAATAAGCTTG
TATGATAAGAAACAATTGTTTTATGACAAAAAAAAGATAAAACAATTTAAATAGATAATTATTCA
AATAGCCATAATTATTTGAACTATTTGGTAAACAATTTAGTTTTTAAAATCTTCTTATTAATTTT
CAAAATATTAATAAAGTAGTATTATTTCATTTTGATAATTTTTATGAACTGAAACAATTGTTTTA
TGACAAAACAAAAGGTCATAATATTTTAAATAGATAATTGTTCAAATAACCATAATTATTCAAAC
TTATTCGAT
Found at i:86840 original size:145 final size:146
Alignment explanation
Indices: 86599--86879 Score: 408
Period size: 145 Copynumber: 1.9 Consensus size: 146
86589 TTAGCTCAGT
*
86599 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
1 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTAATATT
* *
86664 TTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACGAAGGGTCATAACT-
66 TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACGAAGGGTCATAA-TA
86728 ATTTGAACATGTTTAGA
130 ATTTGAACATGTTTAGA
* *
86745 AAACATATTTATTTTTTAAA-TTTTTACTTATTAATTTTTGAAATATTAATAAATTTA-TAATAT
1 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTAATAT
* * * * **
86808 TTTA-TTCAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAACGAATTGTCATAAT
65 TTTATTTCA-AATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACGAAGGGTCATAAT
86872 AATTTGAA
129 AATTTGAA
86880 ATAGATAATA
Statistics
Matches: 121, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
144 5 0.04
145 95 0.79
146 21 0.17
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.43
Consensus pattern (146 bp):
AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTAATATT
TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACGAAGGGTCATAATAA
TTTGAACATGTTTAGA
Found at i:87062 original size:137 final size:138
Alignment explanation
Indices: 86918--87175 Score: 364
Period size: 138 Copynumber: 1.9 Consensus size: 138
86908 ATTTAAATTT
* *
86918 GTTTGGTAAACA-AATTTTTTTTTAAATCTCCAACTTATTAATTTTTAG-AATATTAATT-GATT
1 GTTTGGTAAACACAATTTTTTTTTAAATCTCCAACTTACTAATTTTT-GTAATATT-ATTAAATT
* * *
86980 AGTATTATTTT-ATTTCGAATAAACTTTTATGAATAGAAAC-ATATGTTTTATGACAAAACCTAA
64 AGTATTATTTTAATAT-GAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAACCTAA
87043 CTATTTGAACTG
127 CTATTTGAACTG
* **
87055 GTTTGGTAAACACACTTTTTTTTTAAATCTCTTACTTACTAATTTTTGTAATATTATTAAATTAG
1 GTTTGGTAAACACAATTTTTTTTTAAATCTCCAACTTACTAATTTTTGTAATATTATTAAATTAG
*
87120 TATTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
66 TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
87176 TAAAAAATCA
Statistics
Matches: 107, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
137 16 0.15
138 86 0.80
139 5 0.05
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.45
Consensus pattern (138 bp):
GTTTGGTAAACACAATTTTTTTTTAAATCTCCAACTTACTAATTTTTGTAATATTATTAAATTAG
TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAACCTAACTAT
TTGAACTG
Found at i:87165 original size:318 final size:319
Alignment explanation
Indices: 86473--87253 Score: 807
Period size: 318 Copynumber: 2.4 Consensus size: 319
86463 TTTAATCAAC
* *
86473 TAGTATTATTTTATTCCA-AATAAACTTGTATGAACAA-AAATAATTGTTTTAGGACAAAACAAA
1 TAGTATTATTTTATT--AGAATAAGCTTGTATGAA-AAGAAACAATTGTTTTAGGACAAAACAAA
* * * * * *
86536 AGATCATAACT-ATTTGAAATAAAAAATTGTTCAAACA-ATCATAACGATTTGAATTAGCTCAGT
63 AG-TCATAA-TAATTTGAAATAGATAATAGTTCAAATAGA-CATAACTATTTAAATTAGCTCAGT
* ***
86599 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
125 AAACAAATTTATTTTTAAAATCTCCAACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
**
86664 TTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACGAAGGGTCATAACTA
190 TTATTTCAAATAAACTTGTATGAACAAAAACAATTGGTTTATGACAAAAC-----G-CATAACTA
* * *
86729 TTTGAACATGTTTAGAAAACATATTTATTTTTTAAATTTTTACTTATTAATTTTTGAAATATTAA
249 TTTGAACATGTTTAGAAAACACATTTATTTTTTAAATTCTTACTTACTAATTTTTGAAATATTAA
86794 TAAATT
314 TAAATT
* * * **
86800 TA-TAATATTTTATTCAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAACGAATT
1 TAGTATTATTTTATT-AGAATAAGCTTGTATGAAAAGAAACAATTGTTTTAGGACAAAAC-AAAA
* * * * **
86864 GTCATAATAATTTGAAATAGATAATAGTTCAAATGGACATGACTATTTAAATTTGTTTGGTAAAC
64 GTCATAATAATTTGAAATAGATAATAGTTCAAATAGACATAACTATTTAAATTAGCTCAGTAAAC
* **
86929 AAATTT-TTTTTTAAATCTCCAACTTATTAATTTTT-AGAATATTAATTGATTAGTATTATTTTA
129 AAATTTATTTTTAAAATCTCCAACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTA
* * * * *
86992 TTTCGAATAAACTTTTATGAATAGAAAC-ATATGTTTTATGACAAAAC-C-TAACTATTTGAAC-
193 TTTCAAATAAACTTGTATGAACAAAAACAAT-TGGTTTATGACAAAACGCATAACTATTTGAACA
* * * *
87053 TGGTTTGGTAAACACACTTT-TTTTTTAAATCTCTTACTTACTAATTTTTGTAATATTATTAAA-
257 T-GTTTAGAAAACACA-TTTATTTTTTAAAT-TCTTACTTACTAATTTTTGAAATATTAATAAAT
87116 T
319 T
* * *
87117 TAGTATTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAATAAAAA
1 TAGTATTATTTTATTA-GAATAAGCTTGTATGAAAAGAAACAATTGTTTTAGGACAAAA-CAAAA
* * * * * ** *
87182 ATCATAACAATTTGATATAGATAATTA-TTCAAATAGTCATAACTATTTAAACTATTTCAATAAA
64 GTCATAATAATTTGAAATAGATAA-TAGTTCAAATAGACATAACTATTTAAATTAGCTCAGTAAA
87246 CAAATTTA
128 CAAATTTA
87254 GTCTTTATTA
Statistics
Matches: 379, Mismatches: 60, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
316 1 0.00
317 38 0.10
318 139 0.37
319 2 0.01
324 3 0.01
325 89 0.23
326 101 0.27
327 6 0.02
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (319 bp):
TAGTATTATTTTATTAGAATAAGCTTGTATGAAAAGAAACAATTGTTTTAGGACAAAACAAAAGT
CATAATAATTTGAAATAGATAATAGTTCAAATAGACATAACTATTTAAATTAGCTCAGTAAACAA
ATTTATTTTTAAAATCTCCAACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
CAAATAAACTTGTATGAACAAAAACAATTGGTTTATGACAAAACGCATAACTATTTGAACATGTT
TAGAAAACACATTTATTTTTTAAATTCTTACTTACTAATTTTTGAAATATTAATAAATT
Found at i:87633 original size:181 final size:181
Alignment explanation
Indices: 87320--87726 Score: 485
Period size: 181 Copynumber: 2.2 Consensus size: 181
87310 TTACATTAAC
* *
87320 AGAAACAATTGTTTTATGACAAAATAAAAAAGGTCATAACAATTTAAAATAAAGAATTGTTCAAA
1 AGAAACAATTGTTTTATGAC-AAA-ACAAAAGGTCATAACTATTTAAAATAAAGAATTGTTCAAA
** * *** * * *
87385 TGGACATGACTATTTAAACTTGTTCGACGAACATATTTATTTTTTAAATCTCCTACCTACTAATT
64 TCAACATGACGATTTAAACTAACTCGACAAACAGATTTATTTTTAAAATCTCCTACCTACTAATT
* ** *
87450 TTTAGAGTATTAATCAATTAGTATTATTTTATTCCAAATAAACTTGTATGAAT
129 TTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGTATGAAT
* * * *
87503 AGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAA-C
1 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTAAAATAAAGAATTGTTCAAATC
* * ** *
87567 AATCATGACGATTTAAACTAACTCGATAAACAGATTTATTTTTAAAATTTTTTA-CTCATTAATT
66 AA-CATGACGATTTAAACTAACTCGACAAACAGATTTATTTTTAAAATCTCCTACCT-ACTAATT
* * * * *
87631 TTTGGAATATTAAGAAATTAGAATTATTTTATTTCGAATACATTTGTATGAAT
129 TTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGTATGAAT
* *
87684 AGAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTATTT
1 AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTT
87727 TAACGTGTTC
Statistics
Matches: 189, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
180 3 0.02
181 164 0.87
182 3 0.02
183 19 0.10
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (181 bp):
AGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTAAAATAAAGAATTGTTCAAATC
AACATGACGATTTAAACTAACTCGACAAACAGATTTATTTTTAAAATCTCCTACCTACTAATTTT
TAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGTATGAAT
Found at i:88030 original size:22 final size:21
Alignment explanation
Indices: 87999--88039 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
87989 GATTTTAATT
87999 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
88020 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
88040 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:88157 original size:6 final size:6
Alignment explanation
Indices: 88146--88180 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
88136 AAACATTTAT
*
88146 TAATTA TAATTA TAATTA TAATTA AATATTA TAAT
1 TAATTA TAATTA TAATTA TAATTA TA-ATTA TAAT
88181 ATTATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:88195 original size:15 final size:14
Alignment explanation
Indices: 88177--88244 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 14
88167 TTAAATATTA
88177 TAATATTATATTAAT
1 TAATATT-TATTAAT
88192 TAATATTTTATT-AT
1 TAATA-TTTATTAAT
*
88206 TAAAATATTTAAATAAT
1 T--AATATTT-ATTAAT
*
88223 TAATATTTATTTGAT
1 TAATATTTA-TTAAT
88238 TAATATT
1 TAATATT
88245 GTTTAGTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.09
15 29 0.66
16 8 0.18
17 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (14 bp):
TAATATTTATTAAT
Found at i:88943 original size:22 final size:20
Alignment explanation
Indices: 88918--88969 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
88908 TAGTAAAAAT
*
88918 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
88940 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
88962 TATTTTAT
1 TATTTTAT
88970 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:89115 original size:13 final size:13
Alignment explanation
Indices: 89097--89138 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
89087 TTGATTGTAT
*
89097 TTATTAATTATAC
1 TTATTAATTATAA
89110 TTATTAATTATAA
1 TTATTAATTATAA
89123 TTA-TAATTATTAA
1 TTATTAATTA-TAA
89136 TTA
1 TTA
89139 AAAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:89123 original size:19 final size:19
Alignment explanation
Indices: 89101--89183 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
89091 TTGTATTTAT
*
89101 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
89120 TAATTATAATTATTAATTA
1 TAATTATAATTATTAATTA
** *
89139 -AAAAATTATTAGTTAA-TA
1 TAATTATAATTA-TTAATTA
*
89157 TTAATTA-AATTA-TAATCA
1 -TAATTATAATTATTAATTA
89175 -AATTATAAT
1 TAATTATAAT
89184 ACAAGTTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.10
17 6 0.12
18 11 0.22
19 26 0.51
20 3 0.06
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:90553 original size:14 final size:15
Alignment explanation
Indices: 90515--90570 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
90505 GACTAGAATA
*
90515 ATATAA-TATATTATG
1 ATATAATTA-ATTATT
90530 ATAATAATTAATTATT
1 AT-ATAATTAATTATT
90546 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
90559 TTATAATTAATT
1 ATATAATTAATT
90571 TATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 3 0.09
16 11 0.31
17 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:90562 original size:18 final size:19
Alignment explanation
Indices: 90531--90591 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
90521 TATATTATGA
90531 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
*
90552 TAAT-ATTTTATAATTAAT
1 TAATAATTTTATTATTAAT
* *
90570 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
90590 TA
1 TA
90592 TTAAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 12 0.36
21 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:90647 original size:25 final size:25
Alignment explanation
Indices: 90598--90652 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
90588 ATTATTAAAT
*
90598 ATAATATAATAATTATGATTTATTA
1 ATAATATAATAATAATGATTTATTA
90623 ATAATATAATTAA-AAT-ATTTAATTA
1 ATAATATAA-TAATAATGATTT-ATTA
90648 ATAAT
1 ATAAT
90653 TAGTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 20 0.74
26 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
ATAATATAATAATAATGATTTATTA
Found at i:90669 original size:16 final size:17
Alignment explanation
Indices: 90627--90673 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
90617 TTATTAATAA
90627 TATAATTAA-AA-TA-T
1 TATAATTAATAATTAGT
90641 T-TAATTAATAATTAGT
1 TATAATTAATAATTAGT
90657 TATAATT-ATAATTAGT
1 TATAATTAATAATTAGT
90673 T
1 T
90674 TGATGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 2 0.07
16 12 0.41
17 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAATTAATAATTAGT
Found at i:90801 original size:20 final size:20
Alignment explanation
Indices: 90772--90846 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
90762 TTTAATAACA
*
90772 TATTAATATAAATAAATTAT
1 TATTATTATAAATAAATTAT
** *
90792 TATTATTATATTTAACTTAT
1 TATTATTATAAATAAATTAT
* *
90812 TATTATAATAAGATTAATTAT
1 TATTATTATAA-ATAAATTAT
90833 TA-TATTATACAATA
1 TATTATTATA-AATA
90847 TTGTATTTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 33 0.79
21 9 0.21
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (20 bp):
TATTATTATAAATAAATTAT
Found at i:90882 original size:16 final size:18
Alignment explanation
Indices: 90861--90898 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
90851 ATTTTAAATG
90861 ATTATTTAAT-TTA-TAT
1 ATTATTTAATGTTATTAT
90877 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
90895 ATTA
1 ATTA
90899 ACTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:90998 original size:19 final size:21
Alignment explanation
Indices: 90957--91000 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
90947 TTAATTATTG
90957 TTATTAATTAATATTAGTTAAT
1 TTATTAATTAATATTA-TTAAT
90979 TTATTAATTAATA-T-TTAAT
1 TTATTAATTAATATTATTAAT
90998 TTA
1 TTA
91001 ATATAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATTAATTAATATTATTAAT
Found at i:91376 original size:27 final size:27
Alignment explanation
Indices: 91315--91377 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
91305 ATTGTATATT
* *
91315 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATTACAATCAAATTAG
91342 TTAATAATTTTA-TAGCAATCAAA-TAG
1 TTAATAATTTTATTA-CAATCAAATTAG
91368 TATAATAATT
1 T-TAATAATT
91378 AAATGTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (27 bp):
TTAATAATTTTATTACAATCAAATTAG
Found at i:91536 original size:28 final size:28
Alignment explanation
Indices: 91492--91548 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
91482 TATTTATTAA
91492 TAAATATCTATAATTAAATAATAAAAAT
1 TAAATATCTATAATTAAATAATAAAAAT
* * *
91520 TAAATAT-TTTAATTTAAATATTTAAAAT
1 TAAATATCTATAA-TTAAATAATAAAAAT
91548 T
1 T
91549 TTTAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAATATCTATAATTAAATAATAAAAAT
Found at i:92024 original size:24 final size:23
Alignment explanation
Indices: 91979--92024 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
91969 TTATTAATTT
* *
91979 AAATAATAATTATTTATTATTAC
1 AAATAATAAATATTTATAATTAC
*
92002 AAATAATCAAATATTTGTAATTA
1 AAATAAT-AAATATTTATAATTA
92025 AATATTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAATAAATATTTATAATTAC
Found at i:92699 original size:16 final size:15
Alignment explanation
Indices: 92653--92699 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
92643 TGTATATTAA
*
92653 TATATAAATTATTAAT
1 TATATAAATTA-CAAT
92669 TATAT-AATT-CAAT
1 TATATAAATTACAAT
92682 TATATAAATTAACAAT
1 TATATAAATT-ACAAT
92698 TA
1 TA
92700 GAATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 4 0.15
16 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATTACAAT
Found at i:92968 original size:23 final size:24
Alignment explanation
Indices: 92942--93001 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
92932 AATTTTATGT
92942 TATAATTTATATATTA-T-TAATAA
1 TATAATTTAT-TATTAGTATAATAA
92965 TATACATTTATTATTAGTATAATAA
1 TATA-ATTTATTATTAGTATAATAA
*
92990 T-TAATTCATTAT
1 TATAATTTATTAT
93002 AAATTATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 17 0.52
24 9 0.27
25 7 0.21
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (24 bp):
TATAATTTATTATTAGTATAATAA
Found at i:93107 original size:26 final size:25
Alignment explanation
Indices: 93052--93107 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
93042 CAAATAAATA
* *
93052 TTATTTTATTAACAATAATTATAGC
1 TTATATTATTAACAATAATTATAAC
* * *
93077 ATATATTATTACCAATGAATTATAAT
1 TTATATTATTAACAAT-AATTATAAC
93103 TTATA
1 TTATA
93108 AATTTATGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (25 bp):
TTATATTATTAACAATAATTATAAC
Found at i:93309 original size:22 final size:24
Alignment explanation
Indices: 93268--93311 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
93258 TATATTCAAA
93268 ATTATATAATTAATAGTAAACAGT
1 ATTATATAATTAATAGTAAACAGT
93292 ATTATATAA-TAATA-TAAACA
1 ATTATATAATTAATAGTAAACA
93312 TCACTACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (24 bp):
ATTATATAATTAATAGTAAACAGT
Found at i:93486 original size:18 final size:20
Alignment explanation
Indices: 93449--93486 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
93439 TTTATGAGTA
93449 TCTTTTGTAATAATATTTAT
1 TCTTTTGTAATAATATTTAT
*
93469 TCTTTT-TATTAA-ATTTAT
1 TCTTTTGTAATAATATTTAT
93487 ATTATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
TCTTTTGTAATAATATTTAT
Found at i:93574 original size:21 final size:21
Alignment explanation
Indices: 93550--93603 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
93540 GAGATAATAC
93550 TTATTTATTAAATTATAACAT
1 TTATTTATTAAATTATAACAT
* *
93571 TTATTAATTAATATTATAATAT
1 TTATTTATTAA-ATTATAACAT
*
93593 TT-TATATTAAA
1 TTATTTATTAAA
93604 AAAATAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 11 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTTATTAAATTATAACAT
Found at i:93589 original size:22 final size:21
Alignment explanation
Indices: 93550--93594 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
93540 GAGATAATAC
*
93550 TTATTTATTAAATTATAACAT
1 TTATTAATTAAATTATAACAT
*
93571 TTATTAATTAATATTATAATAT
1 TTATTAATTAA-ATTATAACAT
93593 TT
1 TT
93595 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTAATTAAATTATAACAT
Found at i:93724 original size:21 final size:21
Alignment explanation
Indices: 93694--93755 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 21
93684 TTAAATAAGC
*
93694 TAATATTTTATATATTAAAAT
1 TAATAATTTATATATTAAAAT
*
93715 TAATAATTTATATAATTTATAAT
1 TAATAATTTATAT-A-TTAAAAT
93738 TATATAAATTTATTATAT
1 TA-AT-AATTTA-TATAT
93756 CTATATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 12 0.35
22 1 0.03
23 8 0.24
24 3 0.09
25 7 0.21
26 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAATTTATATATTAAAAT
Found at i:93762 original size:19 final size:16
Alignment explanation
Indices: 93711--93750 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
93701 TTATATATTA
*
93711 AAATTAATAATT-TAT
1 AAATTTATAATTATAT
93726 ATAATTTATAATTATAT
1 A-AATTTATAATTATAT
93743 AAATTTAT
1 AAATTTAT
93751 TATATCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.77
17 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTATAATTATAT
Found at i:93958 original size:36 final size:36
Alignment explanation
Indices: 93918--93987 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
93908 AATAAAATTA
*
93918 TAATACTATAATTA-TATTATAAGTAAACTTATATAT
1 TAATACTATAATTATTATAATAA-TAAACTTATATAT
* * *
93954 TAATATTATTATTATTATAATAATAAATTTATAT
1 TAATACTATAATTATTATAATAATAAACTTATAT
93988 TTATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 22 0.76
37 7 0.24
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (36 bp):
TAATACTATAATTATTATAATAATAAACTTATATAT
Found at i:94093 original size:27 final size:29
Alignment explanation
Indices: 94063--94123 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
94053 ATTTATTAAC
*
94063 ATTATATTTTATAA-AAAATTATTT-ATA
1 ATTATATATTATAATAAAATTATTTAATA
*
94090 ATTA-ATATTATAATATAATTATTTAATA
1 ATTATATATTATAATAAAATTATTTAATA
*
94118 AATATA
1 ATTATA
94124 ATAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 8 0.29
27 13 0.46
28 6 0.21
29 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTATATATTATAATAAAATTATTTAATA
Found at i:95064 original size:17 final size:17
Alignment explanation
Indices: 95023--95079 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
95013 AGTTATAATG
95023 TTATAA-TTTAATTTAT
1 TTATAATTTTAATTTAT
* *
95039 AATAAAATTTTAATTTAT
1 -TTATAATTTTAATTTAT
* **
95057 TTATAATTATAATAAAT
1 TTATAATTTTAATTTAT
95074 TTATAA
1 TTATAA
95080 GATTTAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAATTTTAATTTAT
Found at i:95105 original size:9 final size:9
Alignment explanation
Indices: 95047--95108 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
95037 ATAATAAAAT
*
95047 TTTAATTTA
1 TTTAATTAA
95056 TTT-A-TAA
1 TTTAATTAA
*
95063 TTATAATAAA
1 TT-TAATTAA
*
95073 TTT-ATAAGA
1 TTTAATTA-A
95082 TTTAA-TAA
1 TTTAATTAA
95090 TTTAATTAA
1 TTTAATTAA
95099 TTTAATTAA
1 TTTAATTAA
95108 T
1 T
95109 ATATTTAGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.09
8 12 0.27
9 23 0.52
10 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TTTAATTAA
Found at i:95220 original size:22 final size:21
Alignment explanation
Indices: 95201--95261 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 21
95191 TGTAATTAAT
95201 ATTATATAATATAATTATTATTAG
1 ATTATAT-ATA-AATTATTA-TAG
95225 ATTATATATAAATTA-T-T-G
1 ATTATATATAAATTATTATAG
*
95243 TTTAT-TATAAATTATTATA
1 ATTATATATAAATTATTATA
95262 ATAATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
17 9 0.27
18 6 0.18
19 2 0.06
21 1 0.03
22 5 0.15
23 3 0.09
24 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
ATTATATATAAATTATTATAG
Found at i:95231 original size:19 final size:19
Alignment explanation
Indices: 95193--95232 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95183 AAACAAAATG
*
95193 TAATTAATATTATATAATA
1 TAATTAATATTAGATAATA
* *
95212 TAATTATTATTAGATTATA
1 TAATTAATATTAGATAATA
95231 TA
1 TA
95233 TAAATTATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TAATTAATATTAGATAATA
Found at i:95272 original size:26 final size:26
Alignment explanation
Indices: 95195--95272 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 26
95185 ACAAAATGTA
95195 ATTAATATTA-TATAATATAA-TTATT
1 ATTAA-ATTATTATAATATAATTTATT
* **
95220 ATTAGATTATATATAAATTATTGTTTATT
1 ATTAAATTAT-TAT-AA-TATAATTTATT
95249 A-TAAATTATTATAATAATAATTTA
1 ATTAAATTATTATAAT-ATAATTTA
95273 AGATTTATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.10
25 5 0.12
26 11 0.27
27 5 0.12
28 10 0.24
29 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTAAATTATTATAATATAATTTATT
Found at i:95721 original size:27 final size:28
Alignment explanation
Indices: 95675--95742 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
95665 AATATAATAT
*
95675 AATT-TTATT-AATTATATTA-TACTTA
1 AATTATTATTAAATAATATTATTACTTA
*
95700 AATTATTATTAAATAATATTATTATTTA
1 AATTATTATTAAATAATATTATTACTTA
*
95728 AATTAAT-TTAAATAA
1 AATTATTATTAAATAA
95743 AGATTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 17 0.46
28 11 0.30
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
AATTATTATTAAATAATATTATTACTTA
Done.