Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 48 of 147
Found at i:9613494 original size:112 final size:112
Alignment explanation
Indices: 9613336--9613550 Score: 272
Period size: 112 Copynumber: 1.9 Consensus size: 112
9613326 GGAATGAAAC
* ** *
9613336 TTTTTTTTTTTATTTTCCAACTCGAATACTGTGTTTGGAAGCTTTGAAATGCAATAATTACGATT
1 TTTTTTTTTATATTTTCCAACTCGAATACTGCATTTGGAAGCTTTGAAATGCAATAATTACGACT
* *
9613401 ATTTATTACATTTCTTTGAATAAAAATATAGTATTTGATTACTTGTA
66 ATTTACTACATTTCATTGAATAAAAATATAGTATTTGATTACTTGTA
* * *
9613448 TTTTTTTTTATATTTTCTC-AGTCGAATACTGCATTT-GAAGGTTTTGAAATGCAATAATTATGA
1 TTTTTTTTTATATTTTC-CAACTCGAATACTGCATTTGGAA-GCTTTGAAATGCAATAATTACGA
* *** *
9613511 CTGTTTACTGTGTTTCATTGAATAAAAATGTAGTATTTGA
64 CTATTTACTACATTTCATTGAATAAAAATATAGTATTTGA
9613551 CTAGTAATAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 3 0.03
112 83 0.95
113 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (112 bp):
TTTTTTTTTATATTTTCCAACTCGAATACTGCATTTGGAAGCTTTGAAATGCAATAATTACGACT
ATTTACTACATTTCATTGAATAAAAATATAGTATTTGATTACTTGTA
Found at i:9613715 original size:18 final size:18
Alignment explanation
Indices: 9613692--9613734 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9613682 TCATAAATTT
9613692 ACAATTAATACTTCTAAG
1 ACAATTAATACTTCTAAG
* * *
9613710 ACAATTAATGCTTGTATG
1 ACAATTAATACTTCTAAG
9613728 ACAATTA
1 ACAATTA
9613735 TGATTGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (18 bp):
ACAATTAATACTTCTAAG
Found at i:9617577 original size:18 final size:18
Alignment explanation
Indices: 9617546--9617590 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9617536 ATGTAAGTAA
* *
9617546 AATATATTAAATTAATTT
1 AATATATTTAATTAAATT
*
9617564 AATATATTTTATTAAATT
1 AATATATTTAATTAAATT
9617582 -ATATATTTA
1 AATATATTTA
9617591 TATATGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATATTTAATTAAATT
Found at i:9622659 original size:15 final size:15
Alignment explanation
Indices: 9622617--9622669 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9622607 TTATTCATTC
*
9622617 ATTT-AATTTGAATT
1 ATTTAAATTTAAATT
*
9622631 ATTTCAAA-TAAAATT
1 ATTT-AAATTTAAATT
9622646 ATTTAAATTTAAATT
1 ATTTAAATTTAAATT
*
9622661 AATTAAATT
1 ATTTAAATT
9622670 ATATTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 7 0.22
15 23 0.72
16 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTAAATTTAAATT
Found at i:9623425 original size:2 final size:2
Alignment explanation
Indices: 9623418--9623456 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9623408 AGTTATTGAA
9623418 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9623457 AGATCTCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9624241 original size:5 final size:5
Alignment explanation
Indices: 9624224--9624260 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
9624214 GTTTGCTCAC
*
9624224 ATATT ATACT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
9624261 TTTAATTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:9627859 original size:23 final size:22
Alignment explanation
Indices: 9627830--9627905 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
9627820 TATTACTATG
*
9627830 TATTAATATCTTTATTTATTTAT
1 TATTAATAT-TTTATATATTTAT
*
9627853 TATTAATA-TTTATATGTATT-T
1 TATTAATATTTTATATAT-TTAT
* *
9627874 TATTTATATAGTTATATATTTAT
1 TATTAATAT-TTTATATATTTAT
9627897 TATT-ATATT
1 TATTAATATT
9627906 ATAATTTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 15 0.35
22 8 0.19
23 20 0.47
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTAATATTTTATATATTTAT
Found at i:9627907 original size:19 final size:20
Alignment explanation
Indices: 9627841--9627919 Score: 65
Period size: 23 Copynumber: 3.8 Consensus size: 20
9627831 ATTAATATCT
* *
9627841 TTATTTATTTATTATTAATAT
1 TTATATATTTATTATT-ATAG
9627862 TTATATGTATTTTATT-TATATAG
1 TTATA--TA-TTTATTAT-TATAG
9627885 TTATATATTTATTATTATA-
1 TTATATATTTATTATTATAG
9627904 TTATA-ATTTATGTATT
1 TTATATATTTAT-TATT
9627920 TTTTTTCTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 10 0.20
21 7 0.14
23 11 0.22
24 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATATATTTATTATTATAG
Found at i:9628012 original size:3 final size:3
Alignment explanation
Indices: 9627999--9628027 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9627989 TGTTTATCTG
9627999 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9628028 TGTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9629098 original size:58 final size:58
Alignment explanation
Indices: 9629018--9629415 Score: 494
Period size: 58 Copynumber: 6.7 Consensus size: 58
9629008 AATAAAAATC
* *
9629018 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTT
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
*
9629076 AAAATAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT--A
* * ** *
9629136 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTT-TA
* * * *
9629197 AAAAAAATATTTTTGAGAAAAAGTTGGAAGTATCAATTTTCCTTAAAAAATAAA-TTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTA
*
9629255 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT--A
* * * * * *
9629315 AAAAAAAAAGTTTTTGAGGAAATGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTTTC
1 AAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTA
* * *
9629375 AAAAGAATATTTTT-GAGAAAAGTTGAAAGTGTCAATTTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9629416 CTGCACAAAA
Statistics
Matches: 295, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
57 9 0.03
58 121 0.41
59 7 0.02
60 59 0.20
61 81 0.27
62 18 0.06
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTA
Found at i:9629219 original size:179 final size:178
Alignment explanation
Indices: 9629016--9629415 Score: 662
Period size: 179 Copynumber: 2.2 Consensus size: 178
9629006 TAAATAAAAA
* **
9629016 TCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTTAAAA
1 TCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTCCAAAA
*
9629080 TAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAGA
66 -AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAA
*
9629145 -TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTT
130 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
*
9629193 TCAAAAAAAAATATTTTTGAGAAAAAGTTGGAAGTATCAATTTTCCTTAAAAAATAAATTTCCAA
1 TC--AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTCCAA
9629258 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAA
64 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAA
* *
9629323 AGTTTTTGAGGAAATGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTT
129 AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
* *
9629373 TCAAAAGAATATTTTTGAG-AAAAGTTGAAAGTGTCAATTTTCC
1 TCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC
9629416 CTGCACAAAA
Statistics
Matches: 208, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
177 24 0.12
178 16 0.08
179 105 0.50
180 63 0.30
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (178 bp):
TCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTCCAAAA
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAAG
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
Found at i:9629318 original size:119 final size:118
Alignment explanation
Indices: 9629019--9629415 Score: 534
Period size: 119 Copynumber: 3.3 Consensus size: 118
9629009 ATAAAAATCA
* * *
9629019 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT--TAAAATA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* * *
9629082 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAA
66 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC--C
* * ** *
9629137 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTCAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAA
* *
9629202 AATATTTTTGAGAAAAAGTTGGAAGTATCAATTTTCCTTAAAAAATAAA-TTTCC
65 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAGTTTCC
9629256 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* * *
9629321 AAAGTTTTTGAGGAAATGTTGAAAGTATCAATTTTCCTTGAAAATTAAAGTTT-C
66 ATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAGTTTCC
* *
9629375 AAAAGAATATTTTT-GAGAAAAGTTGAAAGTGTCAATTTTCC
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9629416 CTGCACAAAA
Statistics
Matches: 247, Mismatches: 25, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
118 61 0.25
119 121 0.49
120 12 0.05
121 44 0.18
122 9 0.04
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (118 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCC
Found at i:9632621 original size:18 final size:18
Alignment explanation
Indices: 9632598--9632639 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9632588 TCAAATTTCA
9632598 GATGATGAATATTTAGAC
1 GATGATGAATATTTAGAC
9632616 GATGATGAATATTTAGAC
1 GATGATGAATATTTAGAC
*
9632634 AATGAT
1 GATGAT
9632640 AACAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (18 bp):
GATGATGAATATTTAGAC
Found at i:9632907 original size:12 final size:11
Alignment explanation
Indices: 9632889--9632931 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
9632879 AACCATTAAC
9632889 AAAAAAAACAA
1 AAAAAAAACAA
*
9632900 AAACAAAAGCAA
1 AAA-AAAAACAA
9632912 AAAAAAACACAA
1 AAAAAAA-ACAA
9632924 AAAAAAAA
1 AAAAAAAA
9632932 TGAAAATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 8 0.29
12 20 0.71
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:9633192 original size:23 final size:22
Alignment explanation
Indices: 9633164--9633238 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
9633154 ATTACTATGC
*
9633164 ATTAATATCTTTATTTATTTATT
1 ATTAATAT-TTTATATATTTATT
*
9633187 ATTAATA-TTTATATGTATT-TT
1 ATTAATATTTTATATAT-TTATT
* *
9633208 ATTTATATAGTTATATATTTATT
1 ATTAATAT-TTTATATATTTATT
9633231 ATT-ATATT
1 ATTAATATT
9633239 ATAATTTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
21 15 0.36
22 8 0.19
23 19 0.45
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (22 bp):
ATTAATATTTTATATATTTATT
Found at i:9633240 original size:19 final size:20
Alignment explanation
Indices: 9633174--9633252 Score: 65
Period size: 23 Copynumber: 3.8 Consensus size: 20
9633164 ATTAATATCT
* *
9633174 TTATTTATTTATTATTAATAT
1 TTATATATTTATTATT-ATAG
9633195 TTATATGTATTTTATT-TATATAG
1 TTATA--TA-TTTATTAT-TATAG
9633218 TTATATATTTATTATTATA-
1 TTATATATTTATTATTATAG
9633237 TTATA-ATTTATGTATT
1 TTATATATTTAT-TATT
9633253 TTTTTCTTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 10 0.20
21 7 0.14
23 11 0.22
24 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATATATTTATTATTATAG
Found at i:9634251 original size:27 final size:27
Alignment explanation
Indices: 9634221--9634277 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
9634211 ATTAGATTTA
9634221 TTTAATATT-TTTTATCTTTATC-TTATT
1 TTTAATATTGTTTTA-CTTT-TCTTTATT
* *
9634248 TTTATTTTTGTTTTACTTTTCTTTATT
1 TTTAATATTGTTTTACTTTTCTTTATT
9634275 TTT
1 TTT
9634278 TTTGTCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 2 0.08
27 19 0.73
28 5 0.19
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTAATATTGTTTTACTTTTCTTTATT
Found at i:9634400 original size:58 final size:57
Alignment explanation
Indices: 9634331--9634787 Score: 576
Period size: 58 Copynumber: 7.8 Consensus size: 57
9634321 TAAATAAAAA
*
9634331 TCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAGAAATTT
1 TCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
*
9634389 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 TCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTT
*
9634449 TC-GAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
** * * ** *
9634506 AAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTAACAATTTTCCTTGGAAATCAAAGTT
1 -TCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTT
* *
9634566 TCAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTGCTTAAAAAATAAA-TT
1 TC-AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTT
* *
9634625 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTT
1 TCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* *
9634683 TCAAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTT
1 TC--AAAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAATTT
* * *
9634745 TCAAAAGAATATTTTTGGGAAAAGTTAAAAGTGTCAATTTTCC
1 TCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
9634788 CTGCACAAAA
Statistics
Matches: 350, Mismatches: 33, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
57 15 0.04
58 113 0.32
59 102 0.29
60 71 0.20
61 41 0.12
62 8 0.02
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (57 bp):
TCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
Found at i:9634616 original size:119 final size:117
Alignment explanation
Indices: 9634333--9634787 Score: 616
Period size: 118 Copynumber: 3.8 Consensus size: 117
9634323 AATAAAAATC
*
9634333 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAGAAATTTTCAAAAAA
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCAAAAAA
9634397 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC-
64 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTTCA
* *
9634451 -GAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAA
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT--CAAAAA
* * * * *
9634514 AAGATTTTTGAGGAAAAGTTGAAAGTAACAATTTTCCTTGGAAATCAAAGTTTCA
63 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTCA
* * *
9634569 AAAAAAATATTTTTGAGGAAAAGTTGGAAGTATCAATTTTGCTTAAAAAATAAATTTCCAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTCAAAAAAA
* *
9634634 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAATTTTCAA
65 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTC-A
* *
9634687 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCAAAAG
1 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAA-TTTCAAAAA
* *
9634752 AATATTTTT-GGGAAAAGTTAAAAGTGTCAATTTTCC
63 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9634788 CTGCACAAAA
Statistics
Matches: 297, Mismatches: 28, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
116 3 0.01
117 60 0.20
118 106 0.36
119 99 0.33
120 29 0.10
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (117 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAAT
ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTTCA
Found at i:9635399 original size:30 final size:30
Alignment explanation
Indices: 9635329--9635437 Score: 123
Period size: 30 Copynumber: 3.6 Consensus size: 30
9635319 ATAATGATTT
*
9635329 AGGTTAA-AGGCTTATTTAGATACAAATTAA
1 AGGTTAAGA-GCTTATTTGGATACAAATTAA
*
9635359 ACGTTTAAGAGCTTATTTGGATACAAATTAA
1 A-GGTTAAGAGCTTATTTGGATACAAATTAA
* *
9635390 AGGTTAAGAGCTTATTTTGATGCAAATTAA
1 AGGTTAAGAGCTTATTTGGATACAAATTAA
**
9635420 AAATTAATG-GCTTATTTG
1 AGGTTAA-GAGCTTATTTG
9635438 AATATAACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
30 40 0.59
31 27 0.40
32 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (30 bp):
AGGTTAAGAGCTTATTTGGATACAAATTAA
Found at i:9637451 original size:17 final size:18
Alignment explanation
Indices: 9637413--9637452 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9637403 AAGAAAACTA
*
9637413 TTAATTATAACATTTTTT
1 TTAATTATAACATTTCTT
9637431 TTAATTATAAC-TTTCTT
1 TTAATTATAACATTTCTT
9637448 TTAAT
1 TTAAT
9637453 AAAATAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAATTATAACATTTCTT
Found at i:9637859 original size:2 final size:2
Alignment explanation
Indices: 9637852--9637876 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9637842 TATCTTGTTT
9637852 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9637877 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9639963 original size:112 final size:111
Alignment explanation
Indices: 9639807--9640019 Score: 268
Period size: 112 Copynumber: 1.9 Consensus size: 111
9639797 GGAATGAAAC
** *
9639807 TTTTTTTTTATTTTCCAACTCGAATACTGTGTTTGGAAGCTTTGAAATGCAATAATTACGATTAT
1 TTTTTTTTTATTTTCCAACTCGAATACTGCATTTGGAAGCTTTGAAATGCAATAATTACGACTAT
* *
9639872 TTATTACATTTCTTTGAATAAAAATATAGTATTTGATTACTTGTAT
66 TTACTACATTTCATTGAATAAAAATATAGTATTTGATTACTTGTAT
* * *
9639918 TTTTTTTTATATTTTCTC-AGTCGAATACTGCATTT-GAAGGTTTTGAAATGCAATAATTATGAC
1 TTTTTTTT-TATTTTC-CAACTCGAATACTGCATTTGGAA-GCTTTGAAATGCAATAATTACGAC
* *** *
9639981 TGTTTACTGTGTTTCATTGAATAAAAATGTAGTATTTGA
63 TATTTACTACATTTCATTGAATAAAAATATAGTATTTGA
9640020 CTAGTAATAA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
111 11 0.13
112 74 0.86
113 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (111 bp):
TTTTTTTTTATTTTCCAACTCGAATACTGCATTTGGAAGCTTTGAAATGCAATAATTACGACTAT
TTACTACATTTCATTGAATAAAAATATAGTATTTGATTACTTGTAT
Found at i:9640184 original size:18 final size:18
Alignment explanation
Indices: 9640161--9640203 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9640151 TCATAAATTT
9640161 ACAATTAATACTTCTAAG
1 ACAATTAATACTTCTAAG
* *
9640179 ACAATTAATGCTTGTAAG
1 ACAATTAATACTTCTAAG
9640197 ACAATTA
1 ACAATTA
9640204 TGATTGTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (18 bp):
ACAATTAATACTTCTAAG
Found at i:9643884 original size:13 final size:13
Alignment explanation
Indices: 9643866--9643896 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9643856 ATTTGTTTAT
9643866 TAAAAGAAAATAA
1 TAAAAGAAAATAA
*
9643879 TAAAAGTAAATAA
1 TAAAAGAAAATAA
9643892 TAAAA
1 TAAAA
9643897 TTAGATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
TAAAAGAAAATAA
Found at i:9644032 original size:18 final size:18
Alignment explanation
Indices: 9644001--9644045 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9643991 ATGTAAGTAA
* *
9644001 AATATATTAAATTAATTT
1 AATATATTTAATTAAATT
*
9644019 AATATATTTTATTAAATT
1 AATATATTTAATTAAATT
9644037 -ATATATTTA
1 AATATATTTA
9644046 TATATGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATATTTAATTAAATT
Found at i:9649630 original size:15 final size:15
Alignment explanation
Indices: 9649610--9649644 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9649600 ATTTAATTTG
*
9649610 AATTATTTCAAATAA
1 AATTATTTAAAATAA
*
9649625 AATTATTTAAAATTA
1 AATTATTTAAAATAA
9649640 AATTA
1 AATTA
9649645 ATTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTATTTAAAATAA
Found at i:9652326 original size:31 final size:31
Alignment explanation
Indices: 9652285--9652343 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9652275 ATGATTTAGA
9652285 TTAAAGGCTTATTTAGATACAAATTAAACGT
1 TTAAAGGCTTATTTAGATACAAATTAAACGT
* *
9652316 TTAAGGGCTTATTTGGATACAAATTAAA
1 TTAAAGGCTTATTTAGATACAAATTAAA
9652344 TGTTAAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (31 bp):
TTAAAGGCTTATTTAGATACAAATTAAACGT
Found at i:9652358 original size:30 final size:31
Alignment explanation
Indices: 9652292--9652373 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 31
9652282 AGATTAAAGG
**
9652292 CTTATTTAGATACAAATTAAACGTTTAAGGG
1 CTTATTTAGATACAAATTAAACGTTTAAGAA
* *
9652323 CTTATTTGGATACAAATTAAATG-TTAAGAA
1 CTTATTTAGATACAAATTAAACGTTTAAGAA
* * *
9652353 TTTATTTTGATGCAAATTAAA
1 CTTATTTAGATACAAATTAAA
9652374 AATTAATGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 23 0.52
31 21 0.48
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.39
Consensus pattern (31 bp):
CTTATTTAGATACAAATTAAACGTTTAAGAA
Found at i:9652388 original size:30 final size:29
Alignment explanation
Indices: 9652288--9652389 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 29
9652278 ATTTAGATTA
**
9652288 AAGGCTTATTTAGATACAAATTAAACGTTT
1 AAGGCTTATTTAGATACAAATTAAA-AATT
* **
9652318 AAGGGCTTATTTGGATACAAATTAAATGTT
1 AA-GGCTTATTTAGATACAAATTAAAAATT
** * *
9652348 AAGAATTTATTTTGATGCAAATTAAAAATT
1 AAG-GCTTATTTAGATACAAATTAAAAATT
9652378 AATGGCTTATTT
1 AA-GGCTTATTT
9652390 GAATATAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.02
30 34 0.59
31 23 0.40
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (29 bp):
AAGGCTTATTTAGATACAAATTAAAAATT
Found at i:9654249 original size:42 final size:42
Alignment explanation
Indices: 9654116--9654497 Score: 446
Period size: 42 Copynumber: 9.1 Consensus size: 42
9654106 TTTTTCCAAA
* * *
9654116 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAATA-AAATT
* * *
9654159 GCTCCTCTAAATAGAGACACCACGAC-TTTGAAAGT-AAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATT
9654199 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATT
*
9654241 GCTCCTCTAAACAGAGGCACCATGA-TTTTGAAAA-AGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATA--AAATT
* *
9654283 GCTCCTTTAAACAGAGGCACCACGACTTTTGGAAAGT-AAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTT-GAAAATAAAATT
* *
9654325 GCTCCTCTAAACAGAGGCACTACGGC-TTTGAAAA-AGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATA--AAATT
* *
9654367 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAGT-AAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATT
*
9654408 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGT-AAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAA-TAAAATT
* *
9654450 GCTCATCTAAACAAAGGCACCACGAC-TTTGAAAA-AGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATA--AAATT
9654492 GCTCCT
1 GCTCCT
9654498 TGACAATCAT
Statistics
Matches: 295, Mismatches: 28, Indels: 33
0.83 0.08 0.09
Matches are distributed among these distances:
40 34 0.12
41 64 0.22
42 155 0.53
43 38 0.13
44 4 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATT
Found at i:9654296 original size:84 final size:84
Alignment explanation
Indices: 9654116--9654497 Score: 526
Period size: 84 Copynumber: 4.6 Consensus size: 84
9654106 TTTTTCCAAA
* * * * *
9654116 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGAGAAACATAAATTGCTCCTCTAAATAGAGACACC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAATA-AAATTGCTCCTCTAAACAGAGGCACC
9654180 ACGACTTTG--AAAGTAAATT
64 ACGACTTTGAAAAAGTAAATT
*
9654199 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATTGCTCCTCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATTGCTCCTCTAAACAGAGGCACCAC
*
9654264 GATTTTGAAAAAGTAAATT
66 GACTTTGAAAAAGTAAATT
* * *
9654283 GCTCCTTTAAACAGAGGCACCACGACTTTTGGAAAGT-AAATTGCTCCTCTAAACAGAGGCACTA
1 GCTCCTCTAAACAGAGGCACCACGACTTTT-GAAAATAAAATTGCTCCTCTAAACAGAGGCACCA
*
9654347 CGGCTTTGAAAAAGTAAATT
65 CGACTTTGAAAAAGTAAATT
* *
9654367 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAGT-AAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATTGCTCCTCTAAACAGAGGCACCAC
*
9654431 GACTTTGGAAAAGTAAATT
66 GACTTTGAAAAAGTAAATT
* *
9654450 GCTCATCTAAACAAAGGCACCACGAC-TTTGAAAA-AGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATA--AAATTGCTCCT
9654498 TGACAATCAT
Statistics
Matches: 270, Mismatches: 22, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
82 38 0.14
83 101 0.37
84 126 0.47
85 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAAGTAAATT
Found at i:9654358 original size:125 final size:124
Alignment explanation
Indices: 9654116--9654497 Score: 549
Period size: 125 Copynumber: 3.0 Consensus size: 124
9654106 TTTTTCCAAA
* * * * * *
9654116 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAATAGAGACACC
1 GCTCCTCTAAACAGAGGCACCATGATTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
9654180 ACGACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATA-AAATT
64 ACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAA-AGAAATT
*
9654241 GCTCCTCTAAACAGAGGCACCATGATTTTGAAAAAGTAAATTGCTCCTTTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCATGATTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
9654306 GACTTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACTACGGCTTTGAAAAAGTAAATT
66 GAC-TTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAG-AAATT
9654367 GCTCCTCTAAACAGAGGCACCATGACTTTTG--AAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCATGA-TTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
* *
9654430 CGACTTTGGAAAAGTAAATTGCTCATCTAAACAAAGGCACCACGACTTTGAAAAAGTAAATT
65 CGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAG-AAATT
9654492 GCTCCT
1 GCTCCT
9654498 TGACAATCAT
Statistics
Matches: 236, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
123 1 0.00
124 38 0.16
125 127 0.54
126 65 0.28
127 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (124 bp):
GCTCCTCTAAACAGAGGCACCATGATTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGAAATT
Found at i:9655756 original size:28 final size:29
Alignment explanation
Indices: 9655725--9655785 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
9655715 TTTGAATCTT
9655725 TTTTTTTTTC-AT-TTTCATTTTTTTT-TCA
1 TTTTTTTTTCTATCTTT--TTTTTTTTCTCA
9655753 -TTTTTTTTCTATCTTTTTTTTTTTCTCA
1 TTTTTTTTTCTATCTTTTTTTTTTTCTCA
9655781 TTTTT
1 TTTTT
9655786 CATCTATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 17 0.59
28 5 0.17
29 7 0.24
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTCTATCTTTTTTTTTTTCTCA
Found at i:9655785 original size:12 final size:11
Alignment explanation
Indices: 9655736--9655773 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 11
9655726 TTTTTTTTCA
9655736 TTTTCATTTTT
1 TTTTCATTTTT
9655747 TTTTCA-TTTT
1 TTTTCATTTTT
9655757 TTTTCTATCTTTT
1 TTTTC-AT-TTTT
9655770 TTTT
1 TTTT
9655774 TTTCTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.38
11 7 0.29
13 8 0.33
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:9661825 original size:59 final size:57
Alignment explanation
Indices: 9661695--9662054 Score: 407
Period size: 59 Copynumber: 6.0 Consensus size: 57
9661685 TCTTGTGTAG
* * *
9661695 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTT-CCTCAAAA-ATTTTTTTT-GAAAATTT-ATTTTTAA
9661756 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCGTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT--TTTTTTTGAAAATTTATTTTTAA
* * *
9661815 GGAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTGAAAATTT--ATTTTTAA
* *
9661874 GGAAAATTGGTACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTACTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-T-TTTTTTGAAAATTTATTTTTAA
* * * *
9661933 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAA---ATTTAT-TTTTAA
* *
9661995 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTTATTTTTA
1 GGAAAATTGATACTTTCAACTTTT-CCTCAAAA-ATTTTTTTT-GAAA-ATTTATTTTTA
9662055 TTTAAAGAAA
Statistics
Matches: 260, Mismatches: 24, Indels: 30
0.83 0.08 0.10
Matches are distributed among these distances:
57 13 0.05
58 16 0.06
59 105 0.40
60 21 0.08
61 53 0.20
62 34 0.13
63 12 0.05
64 6 0.02
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAAATTTATTTTTAA
Found at i:9661905 original size:118 final size:116
Alignment explanation
Indices: 9661695--9662054 Score: 508
Period size: 118 Copynumber: 3.0 Consensus size: 116
9661685 TCTTGTGTAG
9661695 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAA-TTTGATTTTCAAGGAA
9661760 AATTGATACTTTCAACTTTTCCTCAAAAATCGTTTTTTTGAAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATC-TTTTTTTGAAAATTTATTTTTAA
*
9661815 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT-GATTTTCAAGGAAAA
* *
9661880 TTGGTACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTACTTTTAA
65 TTGATACTTTCAACTTTTCCTCAAAAATCT-TTTTTTGAAAATTTATTTTTAA
* *
9661933 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-ATTTTTCTTTTAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTGA-TTTTC----AAGG
* *
9661997 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGGAAATTTTTATTTTTA
61 AAAATTGATACTTTCAACTTTTCCTC-AAAAAT-CTTTTTTT-GAAA-ATTTATTTTTA
9662055 TTTAAAGAAA
Statistics
Matches: 219, Mismatches: 10, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
116 1 0.00
117 9 0.04
118 121 0.55
120 35 0.16
121 39 0.18
122 5 0.02
123 9 0.04
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAA
Found at i:9662090 original size:10 final size:10
Alignment explanation
Indices: 9662075--9662137 Score: 83
Period size: 10 Copynumber: 6.2 Consensus size: 10
9662065 ATAGAATAAT
9662075 AAAAAAAATA
1 AAAAAAAATA
9662085 AAAAAAAAT-
1 AAAAAAAATA
9662094 AAAAAAAATA
1 AAAAAAAATA
* *
9662104 AAGAAAAGTA
1 AAAAAAAATA
9662114 AAACAAAAATA
1 AAA-AAAAATA
9662125 AAAATAAAATA
1 AAAA-AAAATA
9662136 AA
1 AA
9662138 GATAAAAAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.20
10 20 0.43
11 17 0.37
ACGTcount: A:0.84, C:0.02, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:9662091 original size:11 final size:11
Alignment explanation
Indices: 9662069--9662137 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
9662059 AAGAAAATAG
9662069 AATAATAAAAAA
1 AATAA-AAAAAA
9662081 AAT-AAAAAAA
1 AATAAAAAAAA
9662091 AAT--AAAAAA
1 AATAAAAAAAA
*
9662100 AAT-AAAGAAA
1 AATAAAAAAAA
* *
9662110 AGTAAAACAAA
1 AATAAAAAAAA
*
9662121 AATAAAAATAA
1 AATAAAAAAAA
9662132 AATAAA
1 AATAAA
9662138 GATAAAAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
9 9 0.18
10 16 0.33
11 21 0.43
12 3 0.06
ACGTcount: A:0.83, C:0.01, G:0.03, T:0.13
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:9662097 original size:6 final size:6
Alignment explanation
Indices: 9662069--9662145 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
9662059 AAGAAAATAG
* * *
9662069 AATAATA AA-AAA AAT-AA AA-AAA AATAAA AAAAATA AAGAAA AGT-AA
1 AATAA-A AATAAA AATAAA AATAAA AATAAA AATAA-A AATAAA AATAAA
* *
9662115 AACAAA AATAAA AAT-AA AATAAA GATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
9662146 GAATATTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
5 19 0.35
6 29 0.53
7 7 0.13
ACGTcount: A:0.82, C:0.01, G:0.04, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:9662127 original size:17 final size:17
Alignment explanation
Indices: 9662078--9662145 Score: 56
Period size: 17 Copynumber: 4.3 Consensus size: 17
9662068 GAATAATAAA
9662078 AAAAATAAAA-AAAAAT
1 AAAAATAAAACAAAAAT
* *
9662094 --AAA-AAAA-ATAAAG
1 AAAAATAAAACAAAAAT
*
9662107 AAAAGTAAAACAAAAAT
1 AAAAATAAAACAAAAAT
* *
9662124 AAAAATAAAATAAAGAT
1 AAAAATAAAACAAAAAT
9662141 AAAAA
1 AAAAA
9662146 GAATATTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
13 8 0.20
14 3 0.08
15 2 0.05
16 4 0.10
17 23 0.57
ACGTcount: A:0.82, C:0.01, G:0.04, T:0.12
Consensus pattern (17 bp):
AAAAATAAAACAAAAAT
Found at i:9662142 original size:11 final size:9
Alignment explanation
Indices: 9662072--9662150 Score: 79
Period size: 9 Copynumber: 8.4 Consensus size: 9
9662062 AAAATAGAAT
9662072 AATAAAAAA
1 AATAAAAAA
9662081 AATAAAAAAA
1 AAT-AAAAAA
9662091 AATAAAAAA
1 AATAAAAAA
9662100 AATAAAGAAA
1 AATAAA-AAA
* *
9662110 AGTAAAACA
1 AATAAAAAA
*
9662119 AA-AATAAA
1 AATAAAAAA
9662127 AATAAAATAA
1 AATAAAA-AA
*
9662137 AGATAAAAAG
1 A-ATAAAAAA
9662147 AATA
1 AATA
9662151 TTAAATAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
8 6 0.10
9 24 0.41
10 22 0.38
11 6 0.10
ACGTcount: A:0.81, C:0.01, G:0.05, T:0.13
Consensus pattern (9 bp):
AATAAAAAA
Found at i:9662185 original size:12 final size:12
Alignment explanation
Indices: 9662168--9662206 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9662158 AACCTAATCT
9662168 AATAAATAAAAA
1 AATAAATAAAAA
*
9662180 AATAAATAAACA
1 AATAAATAAAAA
*
9662192 AAGAAATGAAAAA
1 AATAAAT-AAAAA
9662205 AA
1 AA
9662207 AATTCAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:9663045 original size:18 final size:17
Alignment explanation
Indices: 9663001--9663047 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
9662991 CTCCAAAATC
9663001 AAATAAAAAAAATAGAT
1 AAATAAAAAAAATAGAT
* * *
9663018 AATTAGAAAATATAGGAT
1 AAATAAAAAAAATA-GAT
9663036 AAATAAAAAAAA
1 AAATAAAAAAAA
9663048 CAATAATATC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (17 bp):
AAATAAAAAAAATAGAT
Found at i:9663812 original size:18 final size:19
Alignment explanation
Indices: 9663789--9663825 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9663779 AAGAAAACTA
9663789 TTAATTATAACATT-TTTT
1 TTAATTATAACATTCTTTT
9663807 TTAATTATAACATTCTTTT
1 TTAATTATAACATTCTTTT
9663826 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATTATAACATTCTTTT
Found at i:9668632 original size:99 final size:99
Alignment explanation
Indices: 9668460--9668638 Score: 236
Period size: 99 Copynumber: 1.8 Consensus size: 99
9668450 AAAGTCTAAG
* * * * *
9668460 AGATTGAATATTTTTTTCTAAATAATGCACTGTCACTTTTAGACTATTATGAATTGAATTTGACT
1 AGATTGAACATTTTTTTCTAAATAATACACTGTCACTTTTAGACTATCATGAATCGAATTTGACC
9668525 AGTAAAATTAAAAATTCAAAAAAAAAAATCCAAC
66 AGTAAAATTAAAAATTCAAAAAAAAAAATCCAAC
* * *
9668559 AGATTGAACATTTTTTT-TAACA-AATATACTTGTCACTTTTATACTATCATTAATCGAATTTGA
1 AGATTGAACATTTTTTTCTAA-ATAATACAC-TGTCACTTTTAGACTATCATGAATCGAATTTGA
* *
9668622 CCATTGAAATTAAAAAT
64 CCAGTAAAATTAAAAAT
9668639 CTAATATTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
98 8 0.12
99 60 0.88
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (99 bp):
AGATTGAACATTTTTTTCTAAATAATACACTGTCACTTTTAGACTATCATGAATCGAATTTGACC
AGTAAAATTAAAAATTCAAAAAAAAAAATCCAAC
Found at i:9669228 original size:59 final size:59
Alignment explanation
Indices: 9669110--9669379 Score: 342
Period size: 59 Copynumber: 4.7 Consensus size: 59
9669100 TTGTGCAGGA
* *
9669110 AAAATTGATACTTTCAACTTTT-CTCCAAAATA--TTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCAAGG
*
9669166 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCAAGG
* * * * * *
9669225 AAAATTGATACTTTTAACTTTTCCTCAAAACT-TTTTTTT-GAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCAAGG
*
9669282 AAAATTGATACTTTCAACTTTTCC-CTAAAAATA-TTTTTTGGAAAGC-TTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGGAAA-CTTTAATTTCAAGG
* *
9669340 AAAACTGATACTTTCAACTTTT-CTCCAAAAAGATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTT
9669380 TGGATTTTAT
Statistics
Matches: 189, Mismatches: 15, Indels: 17
0.86 0.07 0.08
Matches are distributed among these distances:
56 23 0.12
57 57 0.30
58 48 0.25
59 61 0.32
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCAAGG
Found at i:9669349 original size:58 final size:58
Alignment explanation
Indices: 9669110--9669378 Score: 320
Period size: 58 Copynumber: 4.7 Consensus size: 58
9669100 TTGTGCAGGA
*
9669110 AAAATTGATACTTTCAACTTTTCTCC--AAAATA-TTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTTGGAAACTTTAATTTCAAGG
*
9669166 AAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATA-TTTTTTGGAAACTTTAATTTCAAGG
* * * * * * *
9669225 AAAATTGATACTTTTAACTTTT-CCTCAAAACT-TTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTGGAAACTTTAATTTCAAGG
*
9669282 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAAGC-TTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-CTTTAATTTCAAGG
* *
9669340 AAAACTGATACTTTCAACTTTTCTCC-AAAAAGATTTTTT
1 AAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTT
9669379 TTGGATTTTA
Statistics
Matches: 188, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
54 2 0.01
56 22 0.12
57 51 0.27
58 57 0.30
59 56 0.30
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAACTTTAATTTCAAGG
Found at i:9669377 original size:115 final size:116
Alignment explanation
Indices: 9669110--9669378 Score: 359
Period size: 115 Copynumber: 2.3 Consensus size: 116
9669100 TTGTGCAGGA
* * * *
9669110 AAAATTGATACTTTCAACTTTTCTCC-AAAATATTTTTGGAAACTTTAATTTCGAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAATTTAATTTCAAGAAAAATTGA
*
9669174 TACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCGAGG
66 TACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCAAGG
* * * * *
9669225 AAAATTGATACTTTTAACTTTTC-CTCAAAACTTTTTTTTGAAAATTTATTTTTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTGAAAATTTAATTTCAAGAAAAATTG
*
9669289 ATACTTTCAACTTTTCC-CTAAAAATA-TTTTTTGGAAAGC-TTATTTTCAAGG
65 ATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGGAAA-CTTTAATTTCAAGG
* *
9669340 AAAACTGATACTTTCAACTTTTCTCCAAAAAGATTTTTT
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTT
9669379 TTGGATTTTA
Statistics
Matches: 133, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
114 1 0.01
115 77 0.58
116 55 0.41
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAATTTAATTTCAAGAAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAACTTTAATTTCAAGG
Found at i:9669416 original size:5 final size:5
Alignment explanation
Indices: 9669406--9669489 Score: 80
Period size: 5 Copynumber: 15.4 Consensus size: 5
9669396 AAAATAAAGT
*
9669406 AATAA AATAA AATAA AAGTGAA AATAA AATAA AGA-AA AGTAA AATAAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA A-ATAA AATAA AAT-AA
9669454 AATAA GAATAAA AATAA AATAA AGATAAA AATAA AA
1 AATAA -AAT-AA AATAA AATAA A-AT-AA AATAA AA
9669490 GAATATTAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
5 41 0.60
6 18 0.26
7 9 0.13
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:9669429 original size:17 final size:15
Alignment explanation
Indices: 9669406--9669489 Score: 80
Period size: 17 Copynumber: 5.1 Consensus size: 15
9669396 AAAATAAAGT
9669406 AATAAAATAAAATAA
1 AATAAAATAAAATAA
9669421 AAGTGAAAATAAAATAA
1 AA-T-AAAATAAAATAA
*
9669438 AGA-AAAGTAAAATAAA
1 A-ATAAAATAAAAT-AA
9669454 AATAAGAATAAAAATAA
1 AATAA-AAT-AAAATAA
9669471 AATAAAGATAAAAATAA
1 AATAAA-AT-AAAATAA
9669488 AA
1 AA
9669490 GAATATTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
15 12 0.20
16 7 0.12
17 34 0.58
18 6 0.10
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (15 bp):
AATAAAATAAAATAA
Found at i:9669468 original size:38 final size:36
Alignment explanation
Indices: 9669396--9669478 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 36
9669386 TTATTTAAAG
* *
9669396 AAAATAAAG-TAATAAAATAAAATAAAAGTGAAAAT
1 AAAATAAAGAAAATAAAATAAAATAAAAGTAAAAAT
9669431 AAAATAAAGAAAAGTAAAATAAAAATAAGAA-TAAAAAT
1 AAAATAAAGAAAA-TAAAAT-AAAATAA-AAGTAAAAAT
9669469 AAAATAAAGA
1 AAAATAAAGA
9669479 TAAAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
35 9 0.21
36 2 0.05
37 6 0.14
38 23 0.55
39 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (36 bp):
AAAATAAAGAAAATAAAATAAAATAAAAGTAAAAAT
Found at i:9669522 original size:3 final size:3
Alignment explanation
Indices: 9669514--9669548 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
9669504 TCTAATCTAC
9669514 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9669549 ATATATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9670110 original size:12 final size:12
Alignment explanation
Indices: 9670062--9670112 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
9670052 CGAAATCTAG
9670062 AAATTTTC-CAA
1 AAATTTTCACAA
*
9670073 AAATTTTCAGAA
1 AAATTTTCACAA
**
9670085 AAAAATTCACAA
1 AAATTTTCACAA
9670097 AAATTTTC-CAA
1 AAATTTTCACAA
9670108 AAATT
1 AAATT
9670113 CCTACCAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 16 0.48
12 17 0.52
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (12 bp):
AAATTTTCACAA
Found at i:9670501 original size:14 final size:14
Alignment explanation
Indices: 9670484--9670532 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
9670474 AAAATAATAC
9670484 TAGATAAATTACAA
1 TAGATAAATTACAA
9670498 TAGATAAA-T--AA
1 TAGATAAATTACAA
9670509 TA-ATAAATATACAA
1 TAGATAAAT-TACAA
9670523 CTAGATAAAT
1 -TAGATAAAT
9670533 AAAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
10 5 0.17
11 4 0.14
12 1 0.03
13 1 0.03
14 10 0.34
15 2 0.07
16 6 0.21
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
TAGATAAATTACAA
Found at i:9670521 original size:25 final size:25
Alignment explanation
Indices: 9670487--9670543 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
9670477 ATAATACTAG
9670487 ATAAAT-TACAA-TAGATAAATAATA
1 ATAAATATACAACTAGATAAATAA-A
9670511 ATAAATATACAACTAGATAAATAAA
1 ATAAATATACAACTAGATAAATAAA
*
9670536 ATATATAT
1 ATAAATAT
9670544 TAACATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.20
25 13 0.43
26 11 0.37
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (25 bp):
ATAAATATACAACTAGATAAATAAA
Found at i:9671282 original size:14 final size:14
Alignment explanation
Indices: 9671260--9671294 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9671250 CTAACACCAC
9671260 AAAATAACAT-ATA
1 AAAATAACATAATA
9671273 AAATATAACATAATA
1 AAA-ATAACATAATA
9671288 AAAATAA
1 AAAATAA
9671295 ACAATCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 11 0.55
15 6 0.30
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAACATAATA
Found at i:9671432 original size:13 final size:13
Alignment explanation
Indices: 9671414--9671444 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9671404 ATTTGTGTAT
9671414 TAAAAGAAAATAA
1 TAAAAGAAAATAA
*
9671427 TAAAAGTAAATAA
1 TAAAAGAAAATAA
9671440 TAAAA
1 TAAAA
9671445 TTAGATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (13 bp):
TAAAAGAAAATAA
Found at i:9671580 original size:18 final size:18
Alignment explanation
Indices: 9671549--9671593 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9671539 ATGTAAGTAA
* *
9671549 AATATATTAAATTAATTT
1 AATATATTTAATTAAATT
*
9671567 AATATATTTTATTAAATT
1 AATATATTTAATTAAATT
9671585 -ATATATTTA
1 AATATATTTA
9671594 TATATGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATATTTAATTAAATT
Found at i:9675355 original size:5 final size:5
Alignment explanation
Indices: 9675347--9675374 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9675337 TTCTTTTCTC
9675347 TTTAG TTTAG TTTAG TTTAG TTTAG TTT
1 TTTAG TTTAG TTTAG TTTAG TTTAG TTT
9675375 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTAG
Found at i:9675378 original size:1 final size:1
Alignment explanation
Indices: 9675372--9675396 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9675362 TTTAGTTTAG
9675372 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
9675397 CATTCCTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9675709 original size:24 final size:24
Alignment explanation
Indices: 9675664--9675710 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
9675654 TTTAATTTTT
* * *
9675664 AATTTCATAAGTTGAAAGTATAAA
1 AATTTCAAAAGTTCAAAATATAAA
*
9675688 AATTTCAAAATTTCAAAATATAA
1 AATTTCAAAAGTTCAAAATATAA
9675711 TTTATCAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTCAAAAGTTCAAAATATAAA
Found at i:9676926 original size:58 final size:58
Alignment explanation
Indices: 9676834--9676951 Score: 175
Period size: 58 Copynumber: 2.0 Consensus size: 58
9676824 AAATGTGTAA
* *
9676834 AAAAATAAGAATAATGAATGATCTCACAACAGTTAATTCATATAGTTATCTTTATTTT
1 AAAAATAAGAATAATGAATGATCTCAAAACAGTTAATTCATATAATTATCTTTATTTT
* * *
9676892 AAAAATAAGAATAATGAATGAAT-TCAAAATAGTTAATTCATATAATTTTTTTTATTTT
1 AAAAATAAGAATAATGAATG-ATCTCAAAACAGTTAATTCATATAATTATCTTTATTTT
9676950 AA
1 AA
9676952 GAGATGACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 52 0.96
59 2 0.04
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (58 bp):
AAAAATAAGAATAATGAATGATCTCAAAACAGTTAATTCATATAATTATCTTTATTTT
Found at i:9677604 original size:55 final size:55
Alignment explanation
Indices: 9677517--9677627 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
9677507 ATTCAATATT
*
9677517 TATTAACATATCAAATCAATATCGTCATTAAATGCTACTCCTATCTAGGGACGGA
1 TATTAACATATCAAATCAATATCGTCACTAAATGCTACTCCTATCTAGGGACGGA
* * * * *
9677572 TATTAACATATCATATCAATGTTGTCACTAAATTCTATTCCTATCTAGGGACGGA
1 TATTAACATATCAAATCAATATCGTCACTAAATGCTACTCCTATCTAGGGACGGA
9677627 T
1 T
9677628 TTATGTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (55 bp):
TATTAACATATCAAATCAATATCGTCACTAAATGCTACTCCTATCTAGGGACGGA
Found at i:9678432 original size:21 final size:23
Alignment explanation
Indices: 9678408--9678459 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
9678398 TTAATTATGC
**
9678408 AAATATTATTTCT-AT-TGTAAA
1 AAATATTATTTCTCATATACAAA
9678429 AAATATT-TTTCTCATATACAAA
1 AAATATTATTTCTCATATACAAA
9678451 AAATATTAT
1 AAATATTAT
9678460 ACATGCTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 11 0.42
23 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATATTATTTCTCATATACAAA
Found at i:9679916 original size:14 final size:14
Alignment explanation
Indices: 9679897--9679924 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9679887 ATCATTCATT
9679897 AAGAGATTTGGCCC
1 AAGAGATTTGGCCC
9679911 AAGAGATTTGGCCC
1 AAGAGATTTGGCCC
9679925 CTTGATGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
AAGAGATTTGGCCC
Found at i:9681853 original size:4 final size:4
Alignment explanation
Indices: 9681844--9681870 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9681834 TTCTTCTCTC
9681844 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
9681871 TTTCCATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:9682355 original size:19 final size:17
Alignment explanation
Indices: 9682311--9682356 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
9682301 CAATTATTCA
*
9682311 TTATTTTGTTTTATATT
1 TTATTTTTTTTTATATT
*
9682328 TTATATTTTATTTATTATT
1 TTAT-TTTTTTTTA-TATT
9682347 TTATTTTTTT
1 TTATTTTTTT
9682357 GGTTTTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 12 0.50
19 8 0.33
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
TTATTTTTTTTTATATT
Found at i:9685580 original size:6 final size:6
Alignment explanation
Indices: 9685569--9685602 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
9685559 ATCATTAGAG
9685569 TTTATT TTTATT TCTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT T-TTATT TTTATT TTTATT TTT
9685603 TTTCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:9685586 original size:13 final size:13
Alignment explanation
Indices: 9685570--9685607 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
9685560 TCATTAGAGT
9685570 TTATTTTTATTTC
1 TTATTTTTATTTC
9685583 TTATTTTTATTT-
1 TTATTTTTATTTC
9685595 TTATTTTT-TTTC
1 TTATTTTTATTTC
9685607 T
1 T
9685608 AAAATTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.12
12 9 0.38
13 12 0.50
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (13 bp):
TTATTTTTATTTC
Found at i:9687118 original size:22 final size:23
Alignment explanation
Indices: 9687075--9687124 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
9687065 AAACTCAGAG
* *
9687075 ATAAACAAAAAAGCAAATAAT-A
1 ATAAAAAAAAAACCAAATAATAA
9687097 ATAAAAAAAAAACCCAAA-AATAA
1 ATAAAAAAAAAA-CCAAATAATAA
9687120 ATAAA
1 ATAAA
9687125 GAAGTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (23 bp):
ATAAAAAAAAAACCAAATAATAA
Found at i:9687121 original size:4 final size:4
Alignment explanation
Indices: 9687114--9687159 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
9687104 AAAAACCCAA
* * *
9687114 AAAT AAAT AAAG AAGT AAAT AGAT AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9687160 ATAATGAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9687457 original size:43 final size:43
Alignment explanation
Indices: 9687410--9687589 Score: 254
Period size: 43 Copynumber: 4.2 Consensus size: 43
9687400 CTTTTGGAAC
* * *
9687410 ATAAATAAGGCTCCTCTAATTAGAAGCTCAACAACTTTAGAAA
1 ATAAATAAAGCTCCTCTAATCAGAAGCTCAACAACTTTAAAAA
* * * *
9687453 ATAAATAAAGCTTCTCTAATAAGAGGTTCAACAACTTTAAAAA
1 ATAAATAAAGCTCCTCTAATCAGAAGCTCAACAACTTTAAAAA
* *
9687496 ATAAATAAAGCTCTTCTAATCA-AAGGCTCAATAACTTTAAAAA
1 ATAAATAAAGCTCCTCTAATCAGAA-GCTCAACAACTTTAAAAA
*
9687539 ATAAATAAAGCTCCTCTAATCAGAGGCTCAACAACTTTAAAAA
1 ATAAATAAAGCTCCTCTAATCAGAAGCTCAACAACTTTAAAAA
9687582 ATAAATAA
1 ATAAATAA
9687590 TGTTCTTTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 118 0.98
44 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (43 bp):
ATAAATAAAGCTCCTCTAATCAGAAGCTCAACAACTTTAAAAA
Found at i:9688196 original size:14 final size:14
Alignment explanation
Indices: 9688177--9688250 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
9688167 AACTCAAAGA
9688177 CAAAGATTCTCATT
1 CAAAGATTCTCATT
9688191 CAAAGATTCTCATT
1 CAAAGATTCTCATT
* * *
9688205 AAAAGATTATTATT
1 CAAAGATTCTCATT
* *
9688219 TAAA-ACT-TC-TT
1 CAAAGATTCTCATT
9688230 -AAAGATTCTCATT
1 CAAAGATTCTCATT
9688243 CAAA-ATTC
1 CAAAGATTC
9688251 AAAGATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 3 0.06
11 4 0.08
12 3 0.06
13 8 0.16
14 31 0.63
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (14 bp):
CAAAGATTCTCATT
Found at i:9689311 original size:7 final size:7
Alignment explanation
Indices: 9689301--9689378 Score: 99
Period size: 7 Copynumber: 11.6 Consensus size: 7
9689291 ATTTTGTATT
9689301 TTTTTCA
1 TTTTTCA
9689308 TTTTTCA
1 TTTTTCA
9689315 TTTTTCA
1 TTTTTCA
*
9689322 TTTTTCC
1 TTTTTCA
9689329 TTTTTCA
1 TTTTTCA
*
9689336 TTTCTCA
1 TTTTTCA
9689343 TTTTTCA
1 TTTTTCA
9689350 -TTTT--
1 TTTTTCA
*
9689354 TTCTTCA
1 TTTTTCA
9689361 TTTTTCA
1 TTTTTCA
*
9689368 TTTTTCC
1 TTTTTCA
9689375 TTTT
1 TTTT
9689379 CCCATTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
5 3 0.05
6 4 0.07
7 54 0.89
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:9691724 original size:40 final size:42
Alignment explanation
Indices: 9691674--9691785 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 42
9691664 CTTAGTTACT
*
9691674 TATTATTTATTATTACTATCTATTAATATATATT-TTATTT-TC
1 TATT-TTTATTATTA-TATCTATTAATACATATTATTATTTATC
*
9691716 -ATTTTTATTATT-TATCTGTTGATATACATATTATTATTTATC
1 TATTTTTATTATTATATCTATT-A-ATACATATTATTATTTATC
*
9691758 TATTATTATTATTATTGATCTATTAATA
1 TATTTTTATTATTA-T-ATCTATTAATA
9691786 GTTTTATTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
38 7 0.12
39 1 0.02
40 17 0.29
41 9 0.16
42 2 0.03
43 11 0.19
44 3 0.05
45 2 0.03
46 6 0.10
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (42 bp):
TATTTTTATTATTATATCTATTAATACATATTATTATTTATC
Found at i:9691769 original size:20 final size:20
Alignment explanation
Indices: 9691744--9691805 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
9691734 TTGATATACA
9691744 TATTATTATTTATCTATTAT
1 TATTATTATTTATCTATTAT
* *
9691764 TATTATTATTGATCTATTAA
1 TATTATTATTTATCTATTAT
9691784 TAGTT-TTATTTATCTAATTAT
1 TA-TTATTATTTATCT-ATTAT
9691805 T
1 T
9691806 TTTTTTGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 29 0.81
21 7 0.19
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTATTATTTATCTATTAT
Found at i:9691810 original size:20 final size:19
Alignment explanation
Indices: 9691749--9691823 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
9691739 ATACATATTA
*
9691749 TTATTTATCTATTATTATTA
1 TTATTTATCTATTATT-TTT
* **
9691769 TTATTGATCTATTAATAGTT
1 TTATTTATCTATT-ATTTTT
9691789 TTATTTATCTAATTATTTTT
1 TTATTTATCT-ATTATTTTT
9691809 TT-TGGTTATCTATTA
1 TTAT--TTATCTATTA
9691824 ATATATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 1 0.02
20 32 0.73
21 11 0.25
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATTTATCTATTATTTTT
Found at i:9692344 original size:6 final size:6
Alignment explanation
Indices: 9692330--9692443 Score: 55
Period size: 6 Copynumber: 19.8 Consensus size: 6
9692320 TATTTATTTT
* ** * *
9692330 TTATCA TTATTA TTATTA TTATTA TTATTA -TATTA GAATTGT TTAATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATT-A TTATTA
* * * * *
9692378 TTTTTA TTTTTA TTTATT- TT-TTA TTTTTA TT-TTCA TTTTTA TT-GTA
1 TTATTA TTATTA -TTATTA TTATTA TTATTA TTATT-A TTATTA TTATTA
9692424 TT-TTA TT-TTA TTATT- TTATT
1 TTATTA TTATTA TTATTA TTATT
9692444 TTTTTTAGAT
Statistics
Matches: 88, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
4 2 0.02
5 29 0.33
6 49 0.56
7 8 0.09
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (6 bp):
TTATTA
Found at i:9692356 original size:18 final size:17
Alignment explanation
Indices: 9692323--9692447 Score: 66
Period size: 17 Copynumber: 7.4 Consensus size: 17
9692313 TTTTCGTTAT
*
9692323 TTATTTT-TTATCATTA
1 TTATTTTATTATTATTA
9692339 TTATTATTATTATTATTA
1 TTATT-TTATTATTATTA
* ** *
9692357 TTATATTAGAATTGTTTA
1 TTATTTTATTATT-ATTA
* *
9692375 ATATTTTTATTTTTATTTA
1 TTA-TTTTATTATTA-TTA
*
9692394 TT-TTTTATTTTTATT-
1 TTATTTTATTATTATTA
*
9692409 TTCATTTTTATT-GTATT-
1 TT-A-TTTTATTATTATTA
9692426 TTATTTTATTATT-TTA
1 TTATTTTATTATTATTA
9692442 TT-TTTT
1 TTATTTT
9692448 TTAGATAAGC
Statistics
Matches: 85, Mismatches: 14, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
15 15 0.18
16 11 0.13
17 25 0.29
18 24 0.28
19 10 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTTTATTATTATTA
Found at i:9692403 original size:23 final size:23
Alignment explanation
Indices: 9692376--9692450 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
9692366 AATTGTTTAA
9692376 TATTTTTATTTTTATTTATTTTT
1 TATTTTTATTTTTATTTATTTTT
* *
9692399 TATTTTTATTTTCATTT-TTATTG
1 TATTTTTATTTTTATTTATT-TTT
9692422 TA-TTTTA-TTTTA-TTATTTTAT
1 TATTTTTATTTTTATTTATTTT-T
*
9692443 TTTTTTTA
1 TATTTTTA
9692451 GATAAGCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 4 0.09
21 7 0.16
22 12 0.28
23 20 0.47
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.79
Consensus pattern (23 bp):
TATTTTTATTTTTATTTATTTTT
Found at i:9692404 original size:5 final size:5
Alignment explanation
Indices: 9692379--9692450 Score: 60
Period size: 5 Copynumber: 14.0 Consensus size: 5
9692369 TGTTTAATAT
* *
9692379 TTTTA TTTTTA TTTATT TTTTA TTTTTA TTTTCA TTTTTA TTGTA TTTTA
1 TTTTA -TTTTA TTT-TA TTTTA -TTTTA TTTT-A -TTTTA TTTTA TTTTA
9692429 TTTTA --TTA TTTTA TTTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
9692451 GATAAGCTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 28 0.51
6 16 0.29
7 4 0.07
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:9692429 original size:35 final size:35
Alignment explanation
Indices: 9692377--9692445 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
9692367 ATTGTTTAAT
*
9692377 ATTTTTATTTTTATTTATTTT-TTATTTTTATTTTC
1 ATTTTTATTTATATTTATTTTATTA-TTTTATTTTC
9692412 ATTTTTATTGTAT-TTTATTTTATTATTTTATTTT
1 ATTTTTATT-TATATTTATTTTATTATTTTATTTT
9692446 TTTTAGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 26 0.84
36 5 0.16
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (35 bp):
ATTTTTATTTATATTTATTTTATTATTTTATTTTC
Found at i:9692595 original size:119 final size:117
Alignment explanation
Indices: 9692458--9692732 Score: 319
Period size: 119 Copynumber: 2.3 Consensus size: 117
9692448 TTAGATAAGC
* * *
9692458 TTTCTAAAAAAGAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
1 TTTCCAAAAAA-AAATATTTTTG-GGAAAAGTT-AAAGTATCAATTTTCCTCAAAAATAAA-TTT
*
9692523 CCAAAAAA-TATTTTTG-GGAAAAAATTGAAAGTATCAATTTTCCTTGAAATTAAAG
62 CCAAAAAAGTATTTTTGAGG-AAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAG
* *
9692578 TTTCCAAAAAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 TTTCCAAAAAAAAATATTTTTGGG-AAAAGTT-AAAGTATCAATTTTCCTCAAAAATAAATTTCC
* * *
9692643 AAAAAAGGTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG
64 AAAAAA-G--TATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAG
*
9692700 TTTTC---AAAAAATATTTTTGGGGAAAA-TTAAAGT
1 TTTCCAAAAAAAAATATTTTT-GGGAAAAGTTAAAGT
9692733 TTCCAAAACA
Statistics
Matches: 137, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
117 5 0.04
118 14 0.10
119 59 0.43
120 13 0.09
122 44 0.32
123 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (117 bp):
TTTCCAAAAAAAAATATTTTTGGGAAAAGTTAAAGTATCAATTTTCCTCAAAAATAAATTTCCAA
AAAAGTATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAG
Found at i:9692620 original size:61 final size:60
Alignment explanation
Indices: 9692458--9692732 Score: 298
Period size: 61 Copynumber: 4.6 Consensus size: 60
9692448 TTAGATAAGC
*
9692458 TTTCTAAAAAAGAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG
1 TTTCCAAAAAA-AAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG
* *
9692520 TTTCC---AAAAAATATTTTTGGGAAAAAATTGAAAGTATCAATTTTCCTTGAAATTAAAG
1 TTTCCAAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG
* ** *
9692578 TTTCCAAAAAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAA-
1 TTTCCAAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG
* *** * *
9692638 TTTTCAAAAAAGGTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG
1 TTTCCAAAAAA-AAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG
*
9692700 TTTTC---AAAAAATATTTTTGGGGAAAA-TT-AAAGT
1 TTTCCAAAAAAAAATATTTTT-GGGAAAAGTTGAAAGT
9692733 TTCCAAAACA
Statistics
Matches: 184, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
56 5 0.03
57 4 0.02
58 62 0.34
59 7 0.04
60 10 0.05
61 85 0.46
62 11 0.06
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (60 bp):
TTTCCAAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG
Found at i:9692716 original size:31 final size:32
Alignment explanation
Indices: 9692681--9692749 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
9692671 GAAAGTATCA
* *
9692681 ATTTTTCTCG-AAATTAAAGTTTTCAAAAAAT
1 ATTTTTCGCGAAAATTAAAGTTTCCAAAAAAT
* * *
9692712 ATTTTTGGGGAAAATTAAAGTTTCCAAAACAT
1 ATTTTTCGCGAAAATTAAAGTTTCCAAAAAAT
9692744 ATTTTT
1 ATTTTT
9692750 AGGGAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 7 0.22
32 25 0.78
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (32 bp):
ATTTTTCGCGAAAATTAAAGTTTCCAAAAAAT
Found at i:9692732 original size:32 final size:33
Alignment explanation
Indices: 9692691--9692766 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 33
9692681 ATTTTTCTCG
* *
9692691 AAATTAAAGTTTTCAAAAAATATTTTT-GGGGA
1 AAATTAAAGTTTCCAAAAAATATTTTTAGGGAA
*
9692723 AAATTAAAGTTTCCAAAACATATTTTTAGGGAA
1 AAATTAAAGTTTCCAAAAAATATTTTTAGGGAA
9692756 AAATTGAAAGT
1 AAATT-AAAGT
9692767 AGCAATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
32 25 0.64
33 9 0.23
34 5 0.13
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.34
Consensus pattern (33 bp):
AAATTAAAGTTTCCAAAAAATATTTTTAGGGAA
Found at i:9692857 original size:148 final size:149
Alignment explanation
Indices: 9692569--9692881 Score: 445
Period size: 148 Copynumber: 2.1 Consensus size: 149
9692559 ATTTTCCTTG
*
9692569 AAATTAAAGTTTCCAAAAAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAA
1 AAATTAAAGTTTCC--AAAAAAATATTTTTGGGAAAAAGTTAAAAGTAGCAATTTTCCTTAAAAA
* *
9692634 TAAATTTTCAAAAAAGGTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAA
64 TAAATTTTCAAAAAAGG--TGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAA
*
9692699 GTTTTCAAAAAATATTTTTGGGGA
127 GTTTTCAAAAAATA-TTTTGGGAA
* *
9692723 AAATTAAAGTTTCC-AAAACATATTTTTAGGGAAAAA-TTGAAAGTAGCAATTTTCCTTAAAAAT
1 AAATTAAAGTTTCCAAAAAAATATTTTT-GGGAAAAAGTTAAAAGTAGCAATTTTCCTTAAAAAT
* *
9692786 AAATTTTCAAAAATGG-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAG-T
65 AAATTTTCAAAAAAGGTGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTT
9692849 TTCTAAAAAATATTTTGGGAA
130 TTC-AAAAAATATTTTGGGAA
9692870 AAAGTTGAAAGT
1 AAA-TT-AAAGT
9692882 ATCAATTTTT
Statistics
Matches: 147, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
147 15 0.10
148 53 0.36
149 5 0.03
151 52 0.35
152 8 0.05
154 14 0.10
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (149 bp):
AAATTAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTAAAAGTAGCAATTTTCCTTAAAAATA
AATTTTCAAAAAAGGTGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
TCAAAAAATATTTTGGGAA
Found at i:9692894 original size:58 final size:57
Alignment explanation
Indices: 9692722--9692890 Score: 193
Period size: 58 Copynumber: 2.9 Consensus size: 57
9692712 ATTTTTGGGG
* * *
9692722 AAAATTAAAGTTTCCAAAACATATTTTTAGGGAAAAA-TTGAAAGTAGCAATTTTCCTT
1 AAAATTAAAGTTTCTAAAAAATA-TTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTT
* * *
9692780 AAAAATAAA-TTT-TCAAAAATGGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT
1 AAAATTAAAGTTTCTAAAAAAT---ATTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTT
*
9692838 GAAATTAAAGTTTCTAAAAAATATTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAATTAAAGTTTCTAAAAAATATTTTGGGAAAAAGTTGAAAGTATCAATTTT
9692891 TCCTGTACAA
Statistics
Matches: 93, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
56 7 0.08
57 35 0.38
58 41 0.44
59 3 0.03
60 7 0.08
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAATTAAAGTTTCTAAAAAATATTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:9696866 original size:17 final size:17
Alignment explanation
Indices: 9696813--9696868 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
9696803 ACAATGGATG
*
9696813 AAAAAT-GAGAAAAAAG
1 AAAAATAGAGAAAAAAA
* *
9696829 AAAAA-AGATGATGAAAGA
1 AAAAATAGA-GA-AAAAAA
9696847 AAAAATAGAGAAAAAAA
1 AAAAATAGAGAAAAAAA
9696864 AAAAA
1 AAAAA
9696869 AGAAGAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
16 7 0.23
17 11 0.35
18 10 0.32
19 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (17 bp):
AAAAATAGAGAAAAAAA
Found at i:9696874 original size:28 final size:28
Alignment explanation
Indices: 9696843--9696899 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
9696833 AAGATGATGA
9696843 AAGAAAAAATAGAGAAAA-AAAAAAAAAG
1 AAGAAAAAAT-GAGAAAATAAAAAAAAAG
*
9696871 AAGAAAGAATGAGAAAATAAAAAAAAAG
1 AAGAAAAAATGAGAAAATAAAAAAAAAG
9696899 A
1 A
9696900 TTCAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (28 bp):
AAGAAAAAATGAGAAAATAAAAAAAAAG
Found at i:9696875 original size:17 final size:17
Alignment explanation
Indices: 9696820--9696876 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
9696810 ATGAAAAATG
*
9696820 AGAAAAAAGAAAAAAGA
1 AGAAAAAAAAAAAAAGA
* * *
9696837 TGATGAAAGAAAAAATAG-
1 AGA--AAAAAAAAAAAAGA
9696855 AGAAAAAAAAAAAAAGA
1 AGAAAAAAAAAAAAAGA
9696872 AGAAA
1 AGAAA
9696877 GAATGAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 11 0.37
17 7 0.23
18 2 0.07
19 10 0.33
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAGA
Found at i:9698780 original size:41 final size:40
Alignment explanation
Indices: 9698723--9698947 Score: 253
Period size: 41 Copynumber: 5.5 Consensus size: 40
9698713 GATTGTCAAT
*
9698723 GAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAG-TTCGTTGCCTCTGTTTAGAG
9698764 GAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAG
*
9698805 GAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAA
1 GAGCAATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAG
* *
9698846 GAGCAATTTA-TTTTCCAAAGTCGTGGTTGCCTCTATTTAGAG
1 GAGCAATTTACTTTT-CAAAGT--TCGTTGCCTCTGTTTAGAG
* * *
9698888 GAGCAATTTACTTTTCAAAGTTATGGTACCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAG
* *
9698929 AAGC-ATTTA-TTTTTAAAGT
1 GAGCAATTTACTTTTCAAAGT
9698948 CATGGTGTTT
Statistics
Matches: 165, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
39 13 0.08
40 10 0.06
41 106 0.64
42 29 0.18
43 4 0.02
44 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (40 bp):
GAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAG
Found at i:9698920 original size:83 final size:80
Alignment explanation
Indices: 9698723--9698954 Score: 315
Period size: 82 Copynumber: 2.8 Consensus size: 80
9698713 GATTGTCAAT
* * *
9698723 GAGCAATTTATTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTTT-GGTGCCTCTGTTTAGAAGAGCAATTTA-TTTTCAAAGTCGT
*
9698788 GGTGCCTCTGTTTAGAG
64 GGTGCCTCTATTTAGAG
*
9698805 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCCAAAGTCGT
1 GAGCAATTTACTTTTCAAAGT-TTGGTGCCTCTGTTTAGAAGAGCAATTTATTTT-CAAAGTCGT
9698870 GGTTGCCTCTATTTAGAG
64 GG-TGCCTCTATTTAGAG
* * *
9698888 GAGCAATTTACTTTTCAAAGTTATGGTACCTCTGTTTAG-AGAAGC-ATTTATTTTTAAAGTCAT
1 GAGCAATTTACTTTTCAAAGTT-TGGTGCCTCTGTTTAGAAG-AGCAATTTATTTTCAAAGTCGT
9698951 GGTG
64 GGTG
9698955 TTTCTGCTTA
Statistics
Matches: 136, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
80 2 0.01
81 13 0.10
82 67 0.49
83 54 0.40
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (80 bp):
GAGCAATTTACTTTTCAAAGTTTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTCAAAGTCGTGG
TGCCTCTATTTAGAG
Found at i:9699047 original size:12 final size:12
Alignment explanation
Indices: 9699027--9699092 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 12
9699017 ATCAAATTAA
*
9699027 AAAAAAAAAAAC
1 AAAAAACAAAAC
*
9699039 AAAACA-AAAAC
1 AAAAAACAAAAC
9699050 -AAAAACAAAAAC
1 AAAAAAC-AAAAC
9699062 AAAAAAC-AAAC
1 AAAAAACAAAAC
*
9699073 CAAAAACAAACAAC
1 AAAAAAC-AA-AAC
9699087 AAAAAA
1 AAAAAA
9699093 TTAAAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 4 0.09
11 15 0.34
12 10 0.23
13 7 0.16
14 8 0.18
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAC
Found at i:9699053 original size:18 final size:18
Alignment explanation
Indices: 9699027--9699090 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
9699017 ATCAAATTAA
*
9699027 AAAAAAAAAAAC-AAAAC
1 AAAAAACAAAACAAAAAC
9699044 -AAAAACAAAAACAAAAAC
1 AAAAAAC-AAAACAAAAAC
*
9699062 AAAAAACAAACCAAAAAC
1 AAAAAACAAAACAAAAAC
*
9699080 AAACAACAAAA
1 AAAAAACAAAA
9699091 AATTAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 24 0.60
19 6 0.15
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAACAAAAAC
Found at i:9699066 original size:30 final size:31
Alignment explanation
Indices: 9699026--9699092 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
9699016 GATCAAATTA
9699026 AAAAAAAAAAAACAAAACAAAAACAAA-AAC
1 AAAAAAAAAAAACAAAACAAAAACAAACAAC
* *
9699056 AAAAACAAAAAACAAACCAAAAACAAACAAC
1 AAAAAAAAAAAACAAAACAAAAACAAACAAC
9699087 AAAAAA
1 AAAAAA
9699093 TTAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAAACAAAACAAAAACAAACAAC
Found at i:9699168 original size:42 final size:42
Alignment explanation
Indices: 9699109--9699248 Score: 228
Period size: 41 Copynumber: 3.3 Consensus size: 42
9699099 AAAAAAATTT
* *
9699109 GCCTCTAATTAGAGGAGCCTTTTATTTTCCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTCCAAAAGTCGTTGA
*
9699151 GCCTCTGATTAGAGGAGCCATTTATTTT-CAAAAGTCGTAGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTCCAAAAGTCGTTGA
*
9699192 GCCTCTGATTAGAGGAGCCATTTATTTTTCAAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTA-TTTTCCAAAAGTCGTTGA
9699235 GCCTCTGATTAGAG
1 GCCTCTGATTAGAG
9699249 AAGTTTTGTT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
41 36 0.40
42 30 0.33
43 25 0.27
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (42 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTCCAAAAGTCGTTGA
Found at i:9699590 original size:40 final size:44
Alignment explanation
Indices: 9699521--9699621 Score: 120
Period size: 40 Copynumber: 2.3 Consensus size: 44
9699511 CTTAGTTACT
*
9699521 TATTATTTATTATTACTATCTATTAATATATATATT-TTATTT-TC
1 TATT-TTTATTATTA-TATCTATTAATATACATATTATTATTTATC
* *
9699565 -ATTTTTATTATT-TATCTGTTGATATACATATTATTATTTATC
1 TATTTTTATTATTATATCTATTAATATACATATTATTATTTATC
*
9699607 TATTATTATTATTAT
1 TATTTTTATTATTAT
9699622 TTATCTAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
40 17 0.35
41 6 0.12
42 11 0.22
43 14 0.29
44 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (44 bp):
TATTTTTATTATTATATCTATTAATATACATATTATTATTTATC
Found at i:9699618 original size:20 final size:21
Alignment explanation
Indices: 9699593--9699634 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
9699583 TTGATATACA
9699593 TATTATTATTTATCT-ATTAT
1 TATTATTATTTATCTAATTAT
9699613 TATTATTATTTATCTAATTAT
1 TATTATTATTTATCTAATTAT
9699634 T
1 T
9699635 TTTTTTGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTATTATTTATCTAATTAT
Found at i:9700191 original size:6 final size:6
Alignment explanation
Indices: 9700180--9700224 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
9700170 AATTGTTTAA
* *
9700180 TATTTT TATTTT TATTTT TATTTA T-TTTT TATTTT CATTTT TATT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATT
9700225 GTATTGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:9700197 original size:5 final size:5
Alignment explanation
Indices: 9700183--9700254 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
9700173 TGTTTAATAT
* * *
9700183 TTTTA TTTTTA TTTTTA TTTATT TTTTA TTTTCA TTTTTA TTGTA TTGTA
1 TTTTA -TTTTA -TTTTA TTT-TA TTTTA TTTT-A -TTTTA TTTTA TTTTA
9700233 TTTTA --TTA TTTTA TTTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
9700255 GATAAGCTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 28 0.50
6 17 0.30
7 4 0.07
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:9700212 original size:23 final size:23
Alignment explanation
Indices: 9700182--9700253 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
9700172 TTGTTTAATA
9700182 TTTTTATTTTTATTTTTATTTAT
1 TTTTTATTTTTATTTTTATTTAT
*
9700205 TTTTTATTTTCATTTTTATTGTAT
1 TTTTTATTTTTATTTTTATT-TAT
* *
9700229 TGTATT-TTATTA-TTTTATTT-T
1 T-TTTTATTTTTATTTTTATTTAT
9700250 TTTT
1 TTTT
9700254 AGATAAGCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 1 0.02
23 26 0.62
24 8 0.19
25 3 0.07
ACGTcount: A:0.17, C:0.01, G:0.03, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTATTTAT
Found at i:9700213 original size:29 final size:30
Alignment explanation
Indices: 9700175--9700250 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
9700165 ATTAGAATTG
* *
9700175 TTTAATATTTTTATTTTTATTTTTATT-TAT
1 TTTATTATTTTTATTTTTA-TTGTATTGTAT
*
9700205 TTT-TTATTTTCATTTTTATTGTATTGTAT
1 TTTATTATTTTTATTTTTATTGTATTGTAT
9700234 TTTATTA-TTTTATTTTT
1 TTTATTATTTTTATTTTT
9700251 TTTAGATAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.15
29 28 0.70
30 6 0.15
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (30 bp):
TTTATTATTTTTATTTTTATTGTATTGTAT
Found at i:9700331 original size:60 final size:59
Alignment explanation
Indices: 9700262--9700961 Score: 729
Period size: 60 Copynumber: 11.8 Consensus size: 59
9700252 TTAGATAAGC
* *
9700262 TTTCTAAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTC-AAAAAAGATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * *
9700322 TTTCAAAAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAAGATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * ** * ** *
9700382 TTTCAAAAAAATGTTTTTTTTTTAGTAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGT
1 TTTC-AAAAAA-GATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-T
* **
9700445 TTTTAAAAAA-ATATTTTTGG-GGGAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAAGATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * * *
9700502 TTTCCAAAAAGGTTTTTTTGGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT
1 TTTCAAAAAAGATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * * * * ** *
9700562 TTTCAAAAAAGGTTTTTTTTGAAGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGT
1 TTTCAAAAAA-GATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-T
9700623 TTTC-AAAAA-ATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAAGATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * * * ** * *
9700680 TTTCAAAAAAGGTCTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAG
1 TTTCAAAAAAGATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* *
9700740 TTTCCAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAAGATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* ** * * * *
9700798 TTTCAAAAAAGGGT-TTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAG
1 TTTCAAAAAA-GATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* * *
9700858 GTTCCAAAAA-ATATTTTTGG-GAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTTCAAAAAAGATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* **
9700916 TTTCAAAAATG-GGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTCAAAAAAGATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCC
9700962 ATATACAAAA
Statistics
Matches: 531, Mismatches: 86, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
57 18 0.03
58 186 0.35
59 39 0.07
60 214 0.40
61 23 0.04
62 47 0.09
63 4 0.01
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (59 bp):
TTTCAAAAAAGATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:9700393 original size:118 final size:119
Alignment explanation
Indices: 9700268--9700961 Score: 897
Period size: 118 Copynumber: 5.9 Consensus size: 119
9700258 AAGCTTTCTA
9700268 AAAAAAATATTTTTGGA-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* *
9700332 GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
66 GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTC
* ** * * ** * *
9700386 AAAAAAATGTTTTTTTTTTAGTAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTTAA
1 AAAAAAA---TATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAA
* * ** * *
9700451 AAAA--ATATTTTTG-GGGGAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCC
62 AAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTT-C
** * * *
9700507 AAAAAGGTTTTTTTGGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * * *
9700572 GGTTTTTTTTGAAGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGTTTTC
66 GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAA-TTTTC
9700627 -AAAAAATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * * *
9700690 GGTCTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
66 GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTC
* *
9700744 CAAAAAATATTTTTGG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* **
9700808 GGGTTTTTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGGTTC
66 -GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTC
* * *
9700862 CAAAAAATATTTTTGG-GAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAT
1 AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
*
9700926 GG--GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
66 GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
9700962 ATATACAAAA
Statistics
Matches: 512, Mismatches: 50, Indels: 30
0.86 0.08 0.05
Matches are distributed among these distances:
115 5 0.01
116 26 0.05
117 16 0.03
118 304 0.59
119 27 0.05
120 69 0.13
121 24 0.05
122 31 0.06
123 10 0.02
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (119 bp):
AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
GGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTTC
Found at i:9703778 original size:182 final size:182
Alignment explanation
Indices: 9703471--9703806 Score: 436
Period size: 182 Copynumber: 1.8 Consensus size: 182
9703461 CAATTACTTT
* * * *
9703471 TATTGAAATTCTATCTAAATTATTTCACCATTTGGGATAAATTTAGAGAAATTTCTCACCTAGAG
1 TATTGAAATTCTATCTAAATTATTCCACCATTTGAGACAAATTTAGAGAAATTTCTCACCTAGAA
* *
9703536 ATTTCTTAGAGAATTTATCATTTGAAATTTCTAAGAATCTCATCCTTGGATTATTAATATTTAAT
66 ATTTCTTAGAGAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGGATTATTAATATTT-AT
* * *
9703601 TC-CAAAATTTTTATTTTTTATTTTTGAATTGAAAATAAATATTAATTATTGA
130 TCTAAAAAATTTTATTTTATATTTTTGAATTGAAAATAAATATTAATTATTGA
*
9703653 TATTGAAACTT-TATCTAAATTATTCCACCATTT-AGAGCAAATTTAGA-AATTTTTTCTCACCT
1 TATTGAAA-TTCTATCTAAATTATTCCACCATTTGAGA-CAAATTTAGAGAA--ATTTCTCACCT
* *
9703715 AGAAATTT-TATAGA-AATTTACCATTTGAAATTTTTGAA-AATTTCATCATTGGA-TAGTTAAT
62 AGAAATTTCT-TAGAGAATTTACCATTTGAAATTTCT-AAGAATCTCATCATTGGATTA-TTAAT
9703776 ATTTATTCTAAAAAATTTTATTTTATATTTT
124 ATTTATTCTAAAAAATTTTATTTTATATTTT
9703807 ATATATATAT
Statistics
Matches: 134, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
181 10 0.07
182 99 0.74
183 25 0.19
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (182 bp):
TATTGAAATTCTATCTAAATTATTCCACCATTTGAGACAAATTTAGAGAAATTTCTCACCTAGAA
ATTTCTTAGAGAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGGATTATTAATATTTATT
CTAAAAAATTTTATTTTATATTTTTGAATTGAAAATAAATATTAATTATTGA
Found at i:9704769 original size:16 final size:16
Alignment explanation
Indices: 9704750--9704841 Score: 62
Period size: 16 Copynumber: 5.6 Consensus size: 16
9704740 AAAATTAGAG
*
9704750 ATAAATAAAAAAACAA
1 ATAAATAAAAAAATAA
9704766 ATAATAATCAACAAAAA-AA
1 AT-A-AAT-AA-AAAAATAA
***
9704785 ATAAACCCAAAAATAA
1 ATAAATAAAAAAATAA
** *
9704801 ATAAATAAGTAAATAG
1 ATAAATAAAAAAATAA
*
9704817 ATAAAT-AACAAATAA
1 ATAAATAAAAAAATAA
9704832 ATAAATAAAA
1 ATAAATAAAA
9704842 TATAAAATAA
Statistics
Matches: 57, Mismatches: 13, Indels: 12
0.70 0.16 0.15
Matches are distributed among these distances:
15 17 0.30
16 22 0.39
17 3 0.05
18 4 0.07
19 6 0.11
20 5 0.09
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.17
Consensus pattern (16 bp):
ATAAATAAAAAAATAA
Found at i:9704802 original size:4 final size:4
Alignment explanation
Indices: 9704795--9704840 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
9704785 ATAAACCCAA
* * *
9704795 AAAT AAAT AAAT AAGT AAAT AGAT AAAT -AAC AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9704841 ATATAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 2 0.06
4 33 0.94
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9706111 original size:48 final size:48
Alignment explanation
Indices: 9706058--9706215 Score: 187
Period size: 48 Copynumber: 3.3 Consensus size: 48
9706048 AAAAAAAGGG
*
9706058 TTTCTAAATTGGCCCAAATAGTGAAAAATTTAGAAATCAAAAAGAAAA
1 TTTCTAAATAGGCCCAAATAGTGAAAAATTTAGAAATCAAAAAGAAAA
* * * * *
9706106 TTTCTAAATAAGCCCAAATTGTGGAAAATTTAGAAAT-TAAAAG-ATA
1 TTTCTAAATAGGCCCAAATAGTGAAAAATTTAGAAATCAAAAAGAAAA
* * * *
9706152 TTTCTAAATTGTCCCAAATTA-TGAAAAATTTAGAAATCAAACAGAAAT
1 TTTCTAAATAGGCCCAAA-TAGTGAAAAATTTAGAAATCAAAAAGAAAA
*
9706200 TTTCTAAGTAGGCCCA
1 TTTCTAAATAGGCCCA
9706216 CAATTTAGAT
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 32 0.36
47 10 0.11
48 47 0.53
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (48 bp):
TTTCTAAATAGGCCCAAATAGTGAAAAATTTAGAAATCAAAAAGAAAA
Found at i:9711620 original size:16 final size:15
Alignment explanation
Indices: 9711599--9711710 Score: 55
Period size: 15 Copynumber: 7.9 Consensus size: 15
9711589 GTCATGAATT
9711599 ATATTAATTTCATAAA
1 ATATTAATTT-ATAAA
9711615 ATATT-A--TATAAA
1 ATATTAATTTATAAA
9711627 ATATTATATTTATAAA
1 ATATTA-ATTTATAAA
* ** * *
9711643 A-ATAAATGAATTAT
1 ATATTAATTTATAAA
*
9711657 ATA-AAATTTAATAAA
1 ATATTAATTT-ATAAA
9711672 ATATT-A--TATAAA
1 ATATTAATTTATAAA
9711684 AT-TTATATTTATAAA
1 ATATTA-ATTTATAAA
*
9711699 A-ATAAATTTATA
1 ATATTAATTTATA
9711711 TATAATTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 26
0.66 0.10 0.24
Matches are distributed among these distances:
11 2 0.03
12 17 0.23
13 3 0.04
14 18 0.25
15 21 0.29
16 12 0.16
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (15 bp):
ATATTAATTTATAAA
Found at i:9711627 original size:12 final size:12
Alignment explanation
Indices: 9711610--9711691 Score: 68
Period size: 12 Copynumber: 7.2 Consensus size: 12
9711600 TATTAATTTC
9711610 ATAAAATATTAT
1 ATAAAATATTAT
9711622 ATAAAATATTAT
1 ATAAAATATTAT
** * *
9711634 AT-TTATA-AAA
1 ATAAAATATTAT
9711644 AT-AAATGAATTAT
1 ATAAAAT--ATTAT
9711657 ATAAAAT-TTA-
1 ATAAAATATTAT
9711667 ATAAAATATTAT
1 ATAAAATATTAT
9711679 ATAAAAT-TTAT
1 ATAAAATATTAT
9711690 AT
1 AT
9711692 TTATAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
10 12 0.21
11 15 0.27
12 22 0.39
13 3 0.05
14 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (12 bp):
ATAAAATATTAT
Found at i:9711632 original size:28 final size:28
Alignment explanation
Indices: 9711599--9711699 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 28
9711589 GTCATGAATT
9711599 ATATTA-ATTTCATAAAATATTATATAAA
1 ATATTATATTT-ATAAAATATTATATAAA
* *
9711627 ATATTATATTTATAAAA-A-TAAATGAATT
1 ATATTATATTTATAAAATATTATAT-AA-A
* *
9711655 ATATAAAATTTAATAAAATATTATATAAA
1 ATATTATATTT-ATAAAATATTATATAAA
9711684 AT-TTATATTTATAAAA
1 ATATTATATTTATAAAA
9711700 ATAAATTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
26 4 0.07
27 9 0.15
28 27 0.46
29 12 0.20
30 3 0.05
31 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATTATATTTATAAAATATTATATAAA
Found at i:9711655 original size:56 final size:56
Alignment explanation
Indices: 9711592--9711705 Score: 194
Period size: 56 Copynumber: 2.0 Consensus size: 56
9711582 AATCAAAGTC
* *
9711592 ATGAATTATAT-TAATTTCATAAAATATTATATAAAATATTATATTTATAAAAATAA
1 ATGAATTATATAAAATTTAATAAAATATTATATAAAAT-TTATATTTATAAAAATAA
9711648 ATGAATTATATAAAATTTAATAAAATATTATATAAAATTTATATTTATAAAAATAA
1 ATGAATTATATAAAATTTAATAAAATATTATATAAAATTTATATTTATAAAAATAA
9711704 AT
1 AT
9711706 TTATATATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 31 0.56
57 24 0.44
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (56 bp):
ATGAATTATATAAAATTTAATAAAATATTATATAAAATTTATATTTATAAAAATAA
Found at i:9711691 original size:11 final size:11
Alignment explanation
Indices: 9711653--9711691 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
9711643 AATAAATGAA
9711653 TTATATAAAAT
1 TTATATAAAAT
9711664 TTA-ATAAAAT
1 TTATATAAAAT
9711674 ATTATATAAAAT
1 -TTATATAAAAT
9711686 TTATAT
1 TTATAT
9711692 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.27
11 12 0.46
12 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTATATAAAAT
Found at i:9712417 original size:20 final size:21
Alignment explanation
Indices: 9712379--9712417 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9712369 CTGTAGACAC
9712379 TCAATTGGGTCCAGGCCCAGA
1 TCAATTGGGTCCAGGCCCAGA
*
9712400 TCAATTGGG-CCTGGCCCA
1 TCAATTGGGTCCAGGCCCA
9712418 AATGGGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (21 bp):
TCAATTGGGTCCAGGCCCAGA
Found at i:9712489 original size:9 final size:9
Alignment explanation
Indices: 9712475--9712514 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
9712465 CTCTTTCTTT
9712475 TGTATTTTA
1 TGTATTTTA
9712484 TGTATTTTA
1 TGTATTTTA
9712493 T-TA-TTTA
1 TGTATTTTA
9712500 T-TATTATTA
1 TGTATT-TTA
9712509 TGTATT
1 TGTATT
9712515 AATATATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.25
8 3 0.11
9 14 0.50
10 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (9 bp):
TGTATTTTA
Found at i:9712572 original size:37 final size:40
Alignment explanation
Indices: 9712478--9712574 Score: 109
Period size: 37 Copynumber: 2.5 Consensus size: 40
9712468 TTTCTTTTGT
9712478 ATTT-TATGTATTTTA-TTATTTATTATTATTATGTATTA
1 ATTTATATGTATTTTATTTATTTATTATTATTATGTATTA
*
9712516 A--TATATGTA-TATATTTATTTATTTATTTATTA-G-ATTA
1 ATTTATATGTATTTTATTTATTTA-TTA-TTATTATGTATTA
9712553 GATTTATATGTATTTTATTTAT
1 -ATTTATATGTATTTTATTTAT
9712575 ATAGTTATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
36 4 0.08
37 17 0.35
38 6 0.12
39 6 0.12
40 8 0.16
41 8 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (40 bp):
ATTTATATGTATTTTATTTATTTATTATTATTATGTATTA
Found at i:9712584 original size:8 final size:7
Alignment explanation
Indices: 9712491--9712608 Score: 52
Period size: 8 Copynumber: 16.6 Consensus size: 7
9712481 TTATGTATTT
*
9712491 TATTATT
1 TATTATA
9712498 TATTAT-
1 TATTATA
*
9712504 TATTATG
1 TATTATA
9712511 TATTAATA
1 TATT-ATA
9712519 TATGTATA
1 TAT-TATA
9712527 TATT-TA
1 TATTATA
*
9712533 T-TTATT
1 TATTATA
9712539 TATTTATTA
1 TA-TTA-TA
* *
9712548 GATTAGA
1 TATTATA
9712555 T-TTATA
1 TATTATA
*
9712561 TGTATTTTA
1 --TATTATA
9712570 T-TTATA
1 TATTATA
9712576 TAGTTATA
1 TA-TTATA
9712584 TATT-TA
1 TATTATA
9712590 TTATTATA
1 -TATTATA
9712598 TTATTAT-
1 -TATTATA
9712605 TATT
1 TATT
9712609 TTTTTTTGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 29
0.70 0.07 0.23
Matches are distributed among these distances:
5 2 0.02
6 26 0.30
7 19 0.22
8 34 0.39
9 7 0.08
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (7 bp):
TATTATA
Found at i:9713108 original size:19 final size:19
Alignment explanation
Indices: 9713084--9713120 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9713074 CAGTTTTCGG
*
9713084 TTGAATTTTTCTACGAAAC
1 TTGAATTTTTCGACGAAAC
9713103 TTGAATTTTTCGACGAAA
1 TTGAATTTTTCGACGAAA
9713121 ATTTCGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
TTGAATTTTTCGACGAAAC
Done.