Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 181 of 190
Found at i:30626186 original size:18 final size:19
Alignment explanation
Indices: 30626160--30626203 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
30626150 AAAATATAAA
* *
30626160 AATAATTATGTAAATT-AT
1 AATATTTATATAAATTAAT
30626178 AATATTTATATAAATTAAT
1 AATATTTATATAAATTAAT
30626197 AAT-TTTA
1 AATATTTA
30626204 AGGGTGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AATATTTATATAAATTAAT
Found at i:30626456 original size:214 final size:216
Alignment explanation
Indices: 30626052--30626456 Score: 595
Period size: 214 Copynumber: 1.9 Consensus size: 216
30626042 TAACATTTGA
* *
30626052 TGATTTGAAATTATTTTATTTAGTTAATAATAATTAATTCTTAGAAATTAAAGATCATTGAGTTT
1 TGATTTGAAATCATTTTATTTAGTTAACAATAATTAATTCTTAGAAATTAAAGATCATTGAGTTT
* * ** *
30626117 GGTATTACTAAAAATCAAATATTATTTTATTTAAAAATATAAAAATAATTATGTAAATTATAATA
66 GATATTACTAAAAATCAAATATTATTTTATGT-AAAATATAAAAATAACCATGCAAATTATAATA
* * * *
30626182 TTTATATAAATTAATAATTTTAAGGGTGTTTAAGGATAATAATTTGTAAAATATTAGTAATTAAA
130 GTTATATAAATTAATAATTTGAAGGGTGTTTAAAGATAATAATTTATAAAATATTAGTAATTAAA
30626247 ATATTATAAAGATAATAATTGG
195 ATATTATAAAGATAATAATTGG
*
30626269 TGATTTGAAATCATTTT-TTTA-TTAACAATCATTAATTCTTAGAAATTAAAGATCATTG-GATT
1 TGATTTGAAATCATTTTATTTAGTTAACAATAATTAATTCTTAGAAATTAAAGATCATTGAG-TT
* * * *
30626331 TGATTTTACTAAAAATCAAATATTATTTTATGT-AAATGTACTAAATAACCATGCATATTATAAT
65 TGATATTACTAAAAATCAAATATTATTTTATGTAAAATATA-AAAATAACCATGCAAATTATAAT
30626395 AGTTATATAAATTAATAATTTGAA-GGTAGTTTAAAGATAATAATTTATAAAATATTAGTAAT
129 AGTTATATAAATTAATAATTTGAAGGGT-GTTTAAAGATAATAATTTATAAAATATTAGTAAT
30626457 ATTTATTTTT
Statistics
Matches: 169, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
213 9 0.05
214 73 0.43
215 67 0.40
216 4 0.02
217 16 0.09
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (216 bp):
TGATTTGAAATCATTTTATTTAGTTAACAATAATTAATTCTTAGAAATTAAAGATCATTGAGTTT
GATATTACTAAAAATCAAATATTATTTTATGTAAAATATAAAAATAACCATGCAAATTATAATAG
TTATATAAATTAATAATTTGAAGGGTGTTTAAAGATAATAATTTATAAAATATTAGTAATTAAAA
TATTATAAAGATAATAATTGG
Found at i:30626705 original size:15 final size:16
Alignment explanation
Indices: 30626685--30626718 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
30626675 TTAGTTTGAA
*
30626685 AATATAAAA-ACTTAC
1 AATATAAAATAATTAC
30626700 AATATAAAATAATTAC
1 AATATAAAATAATTAC
30626716 AAT
1 AAT
30626719 TTTAAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATAAAATAATTAC
Found at i:30658185 original size:14 final size:14
Alignment explanation
Indices: 30658166--30658192 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30658156 AGGGACAAAA
30658166 AAAGGGGTAAGAAC
1 AAAGGGGTAAGAAC
30658180 AAAGGGGTAAGAA
1 AAAGGGGTAAGAA
30658193 TTAAAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.37, T:0.07
Consensus pattern (14 bp):
AAAGGGGTAAGAAC
Found at i:30659734 original size:23 final size:23
Alignment explanation
Indices: 30659707--30659754 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
30659697 TATTACAACC
30659707 ACCAGGATCTTGACTAAAATATA
1 ACCAGGATCTTGACTAAAATATA
30659730 ACCAGGATCTTGACTAAAATATA
1 ACCAGGATCTTGACTAAAATATA
30659753 AC
1 AC
30659755 AATGCTCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (23 bp):
ACCAGGATCTTGACTAAAATATA
Found at i:30663930 original size:18 final size:18
Alignment explanation
Indices: 30663907--30663942 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30663897 AATTTTATTT
30663907 TATAAAAAATTAAAAATA
1 TATAAAAAATTAAAAATA
*
30663925 TATAAAAATTTAAAAATA
1 TATAAAAAATTAAAAATA
30663943 AAATTTGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAAATTAAAAATA
Found at i:30665182 original size:42 final size:44
Alignment explanation
Indices: 30665123--30665211 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
30665113 ATTGAAGGGG
* *
30665123 TTTATTTAAGAT-TTTTTTGTCAAAAAACA-CCTTAAATAATA-T
1 TTTATTTAAGATATTTTTGGACAAAAAA-ATCCTTAAATAATACT
* *
30665165 TTTATTTAAGGTATTTTTGGACAAAAAAATTCTTAAATAATACT
1 TTTATTTAAGATATTTTTGGACAAAAAAATCCTTAAATAATACT
30665209 TTT
1 TTT
30665212 TGATTTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 12 0.30
43 24 0.60
44 4 0.10
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (44 bp):
TTTATTTAAGATATTTTTGGACAAAAAAATCCTTAAATAATACT
Found at i:30665744 original size:18 final size:18
Alignment explanation
Indices: 30665718--30665763 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
30665708 ATTATGAGTA
*
30665718 ATTA-AAATATCTAAAAT
1 ATTATAAATATCAAAAAT
*
30665735 A-TATACAATAACAAAAAT
1 ATTATA-AATATCAAAAAT
30665753 ATTATAAATAT
1 ATTATAAATAT
30665764 AGGGTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 2 0.09
17 2 0.09
18 15 0.65
19 4 0.17
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTATAAATATCAAAAAT
Found at i:30673142 original size:306 final size:306
Alignment explanation
Indices: 30672589--30673200 Score: 1152
Period size: 306 Copynumber: 2.0 Consensus size: 306
30672579 AGAGATTTGT
*
30672589 CAGAAAACTTTGCCACGACACACCCTTTTGCCAGAAAACCAAACATCCAACAAATGTTTGACCAT
1 CAGAAAACTTTGCCACGACACACCCTTTTACCAGAAAACCAAACATCCAACAAATGTTTGACCAT
* *
30672654 TGTAGGAGAAAAAACCCAAGATTATGATTGTACGAAATCAACAAAGCCTGCTAGAATGCTTGGAA
66 TGTAGGAGAAAAAACACAAGATTATGATTGTACGAAATCAACAAAGCCTGCTAGAATGCTTAGAA
* * *
30672719 TGTTGTTCAGGACACAGTGTACAACTCACAAGAAAGACTCTTAGGAATAGAATTGAAACCCACAA
131 TGTTGTTCAGGACACAGTGTACAACTAACAAGAAAGACTCTTAGAAATAGAATAGAAACCCACAA
*
30672784 AACAAAACTCTTCCTTCAACTGTCTCGAAGTATAATATTAACAGTATGGTGATTGGTGAACACGT
196 AACAAAACTCTTCCTTCAACTGTCTCGAAGGATAATATTAACAGTATGGTGATTGGTGAACACGT
30672849 GAAATTATAGTACGGACACTAGATTTTGGTCTACGGTTCGAGAGAA
261 GAAATTATAGTACGGACACTAGATTTTGGTCTACGGTTCGAGAGAA
30672895 CAGAAAACTTTGCCACGACACACCCTTTTACCAGAAAACCAAACATCCAACAAATGTTTGACCAT
1 CAGAAAACTTTGCCACGACACACCCTTTTACCAGAAAACCAAACATCCAACAAATGTTTGACCAT
30672960 TGTAGGAGAAAAAACACAAGATTATGATTGTACGAAATCAACAAAGCCTGCTAGAATGCTTAGAA
66 TGTAGGAGAAAAAACACAAGATTATGATTGTACGAAATCAACAAAGCCTGCTAGAATGCTTAGAA
*
30673025 TGTTGTTCAGGACACAGTGTACAACTAACAAGAAAGACTTTTAGAAATAGAATAGAAACCCACAA
131 TGTTGTTCAGGACACAGTGTACAACTAACAAGAAAGACTCTTAGAAATAGAATAGAAACCCACAA
30673090 AACAAAACTCTTCCTTCAACTGTCTCGAAGGATAATATTAACAGTATGGTGATTGGTGAACACGT
196 AACAAAACTCTTCCTTCAACTGTCTCGAAGGATAATATTAACAGTATGGTGATTGGTGAACACGT
30673155 GAAATTATAGTACGGACACTAGATTTTGGTCTACGGTTCGAGAGAA
261 GAAATTATAGTACGGACACTAGATTTTGGTCTACGGTTCGAGAGAA
30673201 AGGACCCACC
Statistics
Matches: 298, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
306 298 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (306 bp):
CAGAAAACTTTGCCACGACACACCCTTTTACCAGAAAACCAAACATCCAACAAATGTTTGACCAT
TGTAGGAGAAAAAACACAAGATTATGATTGTACGAAATCAACAAAGCCTGCTAGAATGCTTAGAA
TGTTGTTCAGGACACAGTGTACAACTAACAAGAAAGACTCTTAGAAATAGAATAGAAACCCACAA
AACAAAACTCTTCCTTCAACTGTCTCGAAGGATAATATTAACAGTATGGTGATTGGTGAACACGT
GAAATTATAGTACGGACACTAGATTTTGGTCTACGGTTCGAGAGAA
Found at i:30673556 original size:29 final size:29
Alignment explanation
Indices: 30673514--30673572 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
30673504 TTCTCCGGAA
**
30673514 TCTACTCCTTTTAAGCGTTACTTTTTCTG
1 TCTACTCCTTTTAAGCAATACTTTTTCTG
30673543 TCTACTCCTTTTAAGCAATACTTTTTCTG
1 TCTACTCCTTTTAAGCAATACTTTTTCTG
30673572 T
1 T
30673573 GTTTTCTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.24, G:0.08, T:0.51
Consensus pattern (29 bp):
TCTACTCCTTTTAAGCAATACTTTTTCTG
Found at i:30678031 original size:16 final size:16
Alignment explanation
Indices: 30677995--30678025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30677985 ATTAGTATTC
*
30677995 AAATTTAATTTAAATA
1 AAATTTAAATTAAATA
30678011 AAATTTAAATTAAAT
1 AAATTTAAATTAAAT
30678026 TTAATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTAAATTAAATA
Found at i:30679016 original size:12 final size:12
Alignment explanation
Indices: 30678999--30679023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30678989 TATTAGTTTG
30678999 AAATTTTTATTA
1 AAATTTTTATTA
30679011 AAATTTTTATTA
1 AAATTTTTATTA
30679023 A
1 A
30679024 CTCTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATTTTTATTA
Found at i:30679445 original size:22 final size:20
Alignment explanation
Indices: 30679390--30679446 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
30679380 TATAAAAAGA
30679390 TAAAACTTATATAAATTTTTT
1 TAAAA-TTATATAAATTTTTT
30679411 TAGATAATT-TATAAAGTTTTTT
1 TA-A-AATTATATAAA-TTTTTT
30679433 TAAAATTAATATAA
1 TAAAATT-ATATAA
30679447 TAAAAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
22 16 0.52
23 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
TAAAATTATATAAATTTTTT
Found at i:30679580 original size:29 final size:28
Alignment explanation
Indices: 30679531--30679593 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
30679521 AATTATTAAA
**
30679531 AATA-TTATTTATAATTTAAATTTGATT
1 AATATTTATTTATAATAAAAATTTGATT
* *
30679558 GATATTTATTTAATAATAAAAATTTTATT
1 AATATTTATTT-ATAATAAAAATTTGATT
30679587 AATATTT
1 AATATTT
30679594 TTATTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 3 0.10
28 6 0.21
29 20 0.69
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
AATATTTATTTATAATAAAAATTTGATT
Found at i:30679668 original size:21 final size:21
Alignment explanation
Indices: 30679643--30679686 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
30679633 AAATTTGCAT
*
30679643 ATTTTAATTT-ATCAATTT-TA
1 ATTTTTATTTAATC-ATTTCTA
30679663 ATTTTTATTTAATCATTTCTA
1 ATTTTTATTTAATCATTTCTA
30679684 ATT
1 ATT
30679687 AAAAACTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTATTTAATCATTTCTA
Found at i:30681156 original size:12 final size:12
Alignment explanation
Indices: 30681139--30681181 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
30681129 ATATATTATT
30681139 TTTAATTAATTA
1 TTTAATTAATTA
30681151 TTTAATT-ATATA
1 TTTAATTAAT-TA
* *
30681163 TTTAAATATTTA
1 TTTAATTAATTA
30681175 TTTAATT
1 TTTAATT
30681182 TTATATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 23 0.88
13 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATTAATTA
Found at i:30681167 original size:24 final size:24
Alignment explanation
Indices: 30681139--30681188 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30681129 ATATATTATT
*
30681139 TTTAATTAATTATTTAATTATATA
1 TTTAAATAATTATTTAATTATATA
* *
30681163 TTTAAATATTTATTTAATTTTATA
1 TTTAAATAATTATTTAATTATATA
30681187 TT
1 TT
30681189 AATATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAAATAATTATTTAATTATATA
Found at i:30687429 original size:4 final size:4
Alignment explanation
Indices: 30687420--30687489 Score: 59
Period size: 4 Copynumber: 16.8 Consensus size: 4
30687410 AAAATGAATA
* * * *
30687420 AAAT AAAT AAAT AAAT AAAT AAAAT AAAA AAAC AAAG AATT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
30687469 GAAT ACACAT AAAT AAGT AAA
1 AAAT A-A-AT AAAT AAAT AAA
30687490 AGTACCTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
4 44 0.83
5 6 0.11
6 3 0.06
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:30688322 original size:12 final size:12
Alignment explanation
Indices: 30688305--30688335 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30688295 GATTTTATCC
30688305 TTTTTTTCTCTT
1 TTTTTTTCTCTT
*
30688317 TTTTTTCCTCTT
1 TTTTTTTCTCTT
30688329 TTTTTTT
1 TTTTTTT
30688336 TGAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:30690715 original size:19 final size:19
Alignment explanation
Indices: 30690684--30690724 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30690674 ATTTTTTTGA
30690684 ATTTTTTTAAAATATTATT
1 ATTTTTTTAAAATATTATT
*
30690703 ATTTATTTT-AAATTTTATT
1 ATTT-TTTTAAAATATTATT
30690722 ATT
1 ATT
30690725 AATATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTTAAAATATTATT
Found at i:30702440 original size:32 final size:32
Alignment explanation
Indices: 30702404--30702470 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
30702394 GCCGATGAGG
*
30702404 TGGATAAGGTTTACATGGTTCAAGAGTGTCGA
1 TGGATAAAGTTTACATGGTTCAAGAGTGTCGA
* * *
30702436 TGGATAAAGTTTGCATGGTTCATGAGTGTTGA
1 TGGATAAAGTTTACATGGTTCAAGAGTGTCGA
30702468 TGG
1 TGG
30702471 GGCGGATAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.33, T:0.34
Consensus pattern (32 bp):
TGGATAAAGTTTACATGGTTCAAGAGTGTCGA
Found at i:30704691 original size:21 final size:20
Alignment explanation
Indices: 30704644--30704692 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
30704634 ATTTTAAATT
30704644 TATTTTATATTAAAAATTAAA
1 TATTTTATATTAAAAATT-AA
* *
30704665 AATTTATATTTTAAAAA-TAA
1 TATTT-TATATTAAAAATTAA
30704685 TATTTTAT
1 TATTTTAT
30704693 TAATTTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.12
20 6 0.25
21 5 0.21
22 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTTATATTAAAAATTAA
Found at i:30706412 original size:2 final size:2
Alignment explanation
Indices: 30706405--30706441 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30706395 TGTTATGTTT
30706405 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
30706442 GTACAACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30711134 original size:13 final size:13
Alignment explanation
Indices: 30711116--30711141 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30711106 TTATAAAATT
30711116 TCAAATTTATGAA
1 TCAAATTTATGAA
30711129 TCAAATTTATGAA
1 TCAAATTTATGAA
30711142 AAAAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TCAAATTTATGAA
Found at i:30712874 original size:38 final size:39
Alignment explanation
Indices: 30712823--30712900 Score: 149
Period size: 38 Copynumber: 2.0 Consensus size: 39
30712813 CTCTGAAAGC
30712823 AGCTATTCTACAAGATTCAAGCATT-AAAATTTCCAGTT
1 AGCTATTCTACAAGATTCAAGCATTAAAAATTTCCAGTT
30712861 AGCTATTCTACAAGATTCAAGCATTAAAAATTTCCAGTT
1 AGCTATTCTACAAGATTCAAGCATTAAAAATTTCCAGTT
30712900 A
1 A
30712901 ACTTAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 25 0.64
39 14 0.36
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (39 bp):
AGCTATTCTACAAGATTCAAGCATTAAAAATTTCCAGTT
Found at i:30717815 original size:186 final size:186
Alignment explanation
Indices: 30717501--30718245 Score: 1357
Period size: 186 Copynumber: 4.0 Consensus size: 186
30717491 ATGCATACAA
30717501 ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
1 ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
30717566 GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
66 GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
30717631 ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
131 ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
30717687 ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
1 ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
30717752 GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
66 GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
30717817 ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
131 ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
*
30717873 ATCTGGGTTGTCTCTAATTGCATATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
1 ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
* *
30717938 GCCGTGTATTGCTATAAGTTAGTTTACAGAGACAGCAGTAGTGATAATTAATTCAATGCATCCAA
66 GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
* *
30718003 ACCTTTTTACAGTCATGATGAGGTGGCATTATGTGAGCCGTTAATGAATTGGCATG
131 ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
* *
30718059 ATCTGGGTTGTCTCTAATTGCATATTGGCTAACAGTGAGCATAGACAGATGGCGTTACTGGGTTG
1 ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
* * *
30718124 GCAGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTGGTGATAATTAATTCAATGCATCCAA
66 GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
* * * *
30718189 ACCTTTTTACAGTCATGATGAGGTAGCATGATGTGAACCGTTAATG-ACTGGCATG
131 ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
30718244 AT
1 AT
30718246 ATATCACCGT
Statistics
Matches: 546, Mismatches: 13, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
185 10 0.02
186 536 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (186 bp):
ATCTGGGTTGTCTCTAATTGCACATTGGCTATCAGTGAGCATAGACAGATGGCGTTACTGGGTTG
GCCGTGTATTGCTATAAGTTAGTTTAGAGAGACAGCAGTAGTGATAATTAATTCAACGCATCCAA
ACCTTTTTACAGTCATGATGAGGTGGCATGATGTGAGCCGATAATGAATTGGCATG
Found at i:30718523 original size:21 final size:21
Alignment explanation
Indices: 30718484--30718523 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30718474 TTCAACAAAA
*
30718484 TATAAAAATATTTTAAAATAT
1 TATAAAAATATTATAAAATAT
30718505 TATAAAAA-ATTATATAAAT
1 TATAAAAATATTATA-AAAT
30718524 TTACCATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAAAAATATTATAAAATAT
Found at i:30718793 original size:2 final size:2
Alignment explanation
Indices: 30718780--30718818 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
30718770 CTCAAAGTAC
* *
30718780 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30718819 AGAGAACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:30721823 original size:80 final size:79
Alignment explanation
Indices: 30721686--30721849 Score: 310
Period size: 80 Copynumber: 2.1 Consensus size: 79
30721676 AGTTGCCTTT
*
30721686 GATCCAGATTCTTTTTGCTTCTTTAAATACATAAGGTTATATAAATATTTGCGTGTATGCTTGAA
1 GATCAAGATTCTTTTTGCTTCTTTAAATACATAAGGTTATATAAATATTTGCGTGTATGCTTGAA
30721751 AATAGTATGAATAA
66 AATAGTATGAATAA
30721765 GATCAAGATTCTTTTTTGCTTCTTTAAATACATAAGGTTATATAAATATTTGCGTGTATGCTTGA
1 GATCAAGATTC-TTTTTGCTTCTTTAAATACATAAGGTTATATAAATATTTGCGTGTATGCTTGA
30721830 AAATAGTATGAATAA
65 AAATAGTATGAATAA
30721845 GATCA
1 GATCA
30721850 TTACTAATTA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 10 0.12
80 73 0.88
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (79 bp):
GATCAAGATTCTTTTTGCTTCTTTAAATACATAAGGTTATATAAATATTTGCGTGTATGCTTGAA
AATAGTATGAATAA
Found at i:30735652 original size:33 final size:32
Alignment explanation
Indices: 30735568--30735665 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
30735558 CAAATTATTC
* *
30735568 TAATTTATTT-TAAATAAAATTTTAAATTTAAT
1 TAATTTATTTATTAATAAAA-TTTAAATTTAAA
*
30735600 TCAA-TTA-TTATTACGTAAAATTTAAATTTAAA
1 T-AATTTATTTATTA-ATAAAATTTAAATTTAAA
*
30735632 TAATTTAATTTATTAATAAAA-TTAAATTCAAA
1 TAATTT-ATTTATTAATAAAATTTAAATTTAAA
30735664 TA
1 TA
30735666 TTTTTATATC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
31 4 0.07
32 32 0.58
33 13 0.24
34 6 0.11
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATTTATTTATTAATAAAATTTAAATTTAAA
Found at i:30735751 original size:6 final size:6
Alignment explanation
Indices: 30735740--30735782 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
30735730 TTAATAAAAT
*
30735740 AATTTA AATTTA AATTTA AATTTA AATATA AATAATTA AATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTT
30735783 TTATCAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 28 0.85
8 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:30735923 original size:18 final size:18
Alignment explanation
Indices: 30735900--30735974 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
30735890 AATTTTAATC
*
30735900 AATTTTAAATCTAATTTA
1 AATTTTAAATTTAATTTA
*
30735918 AATTTTAAATTTATAATTA
1 AATTTTAAATTTA-ATTTA
30735937 AA-TTTAAATTTAAATTT-
1 AATTTTAAATTT-AATTTA
* *
30735954 AATATTATA-TTAATTTA
1 AATTTTAAATTTAATTTA
30735971 AATT
1 AATT
30735975 CGATCAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 7 0.15
18 28 0.60
19 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTTTAAATTTAATTTA
Found at i:30735930 original size:6 final size:6
Alignment explanation
Indices: 30735903--30735974 Score: 67
Period size: 6 Copynumber: 11.3 Consensus size: 6
30735893 TTTAATCAAT
*
30735903 TTTAAA TCT-AA TTTAAA TTTTAAA TTTATAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA -TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA
30735951 TTTAATA TTATATTAA TTTAAA TT
1 TTTAA-A TT-TA--AA TTTAAA TT
30735975 CGATCAATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
5 6 0.11
6 31 0.55
7 11 0.20
8 4 0.07
9 3 0.05
10 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:30735948 original size:24 final size:24
Alignment explanation
Indices: 30735912--30735974 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
30735902 TTTTAAATCT
30735912 AATTTAAATTTTAAATTT-ATAATTA
1 AATTTAAA-TTTAAATTTAAT-ATTA
30735937 AATTTAAATTTAAATTTAATATTA
1 AATTTAAATTTAAATTTAATATTA
*
30735961 TA-TT-AATTTAAATT
1 AATTTAAATTTAAATT
30735975 CGATCAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 10 0.28
23 2 0.06
24 14 0.39
25 10 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTTAAATTTAAATTTAATATTA
Found at i:30737530 original size:333 final size:331
Alignment explanation
Indices: 30736869--30737530 Score: 709
Period size: 332 Copynumber: 2.0 Consensus size: 331
30736859 TTTTATTAAT
* * * **
30736869 CATCTCAAATATATAATTTATAATTATTTATTTTAAATTATCAAAATATGTTATATTTTATTTTG
1 CATCTCAAATATATAATTTACAATTACTTATATTAAATTATCAAAATATAATATATTTTATTTTG
* * ** * *
30736934 ACTTTAAAGATTTAACAATTTATCTATTTTTAATTTTTTTACAAAAAAAAGTTATAAAAATAAAA
66 AATTTAAAGATTGAACAACCTATCTATTTTAAATTTTTTTACAAAAAAAAGCTATAAAAATAAAA
* *
30736999 ATATATTAGATTTGAATAATAAAAAGTTTAAATTTTTTAAATAAAATTTTAATTTTAAATTTTAT
131 ATATATTAGATCTGAATAATAAAAAGTTTAAATTTTTTAAATAAAATTTTAATTTCAAATTTTAT
* * * * * *
30737064 GGATGAAAAAAAATTAAAAAATTTATATTTTTTATAAGGTTCGATTTAATTCAATTTTGAATTAA
196 GCATGAAAAAAAATTAAAAAA-TTATACTTTTTATAAGGATAGAATCAATTCAATTTTGAATTAA
* * *
30737129 TTAGAATCTAAGATAAATATCAAACACTAAAAAATTTCAAAAAATAATAATAATGTGATCTCAAA
260 TTAAAATCTAAGATAAATATCAAACACTAAAAAATTTCAAAAAAAAAAAATAATGTGATCTCAAA
30737194 TTATAAC
325 TTATAAC
*
30737201 CATCTCTAATATATAATTTACAATTACTTATATTAAATTATC-AAATATAATATATTTTATTTT-
1 CATCTCAAATATATAATTTACAATTACTTATATTAAATTATCAAAATATAATATATTTTATTTTG
* * * *
30737264 AATTT-AAGAGTTGAGCAGCCTATTTGTCTTTAAAATTTTTTTTATCAAAAAAAA-CTATAAAAA
66 AATTTAAAGA-TTGAACAACCTATCTAT-TTT-AAA-TTTTTTTA-CAAAAAAAAGCTATAAAAA
* * * * * * * *
30737327 TGAGAATATATTTGATCT-AATGATAAGAAA-TTTGATTTTTTTAAATAAACTTTTAATTTCAAT
126 TAAAAATATATTAGATCTGAATAATAA-AAAGTTTAAATTTTTTAAATAAAATTTTAATTTCAAA
* * * *
30737390 TTTTGTGCAT-AAAAAAAATTTTAAAAA-TAT-CTTTTT-TAGGGATAGAATCAATTTAATTTTG
190 TTTTATGCATGAAAAAAAA-TTAAAAAATTATACTTTTTATAAGGATAGAATCAATTCAATTTTG
* * * * *
30737451 AATTATTTAAAATTTAA-AGTAAATATTAAACA-TCGAAAAGTTTCAAAAAAAAAAAAAGTGATG
254 AATTAATTAAAATCTAAGA-TAAATATCAAACACT-AAAAAATTTC-AAAAAAAAAAAA-T-A--
30737514 ATGTGATCTCAAATTAT
312 ATGTGATCTCAAATTAT
30737531 TATGTCTACC
Statistics
Matches: 272, Mismatches: 44, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
327 2 0.01
328 53 0.19
329 19 0.07
330 18 0.07
331 31 0.11
332 90 0.33
333 50 0.18
334 9 0.03
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (331 bp):
CATCTCAAATATATAATTTACAATTACTTATATTAAATTATCAAAATATAATATATTTTATTTTG
AATTTAAAGATTGAACAACCTATCTATTTTAAATTTTTTTACAAAAAAAAGCTATAAAAATAAAA
ATATATTAGATCTGAATAATAAAAAGTTTAAATTTTTTAAATAAAATTTTAATTTCAAATTTTAT
GCATGAAAAAAAATTAAAAAATTATACTTTTTATAAGGATAGAATCAATTCAATTTTGAATTAAT
TAAAATCTAAGATAAATATCAAACACTAAAAAATTTCAAAAAAAAAAAATAATGTGATCTCAAAT
TATAAC
Found at i:30738067 original size:16 final size:16
Alignment explanation
Indices: 30738046--30738077 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30738036 TATTTAATAC
*
30738046 ATTATAAATAATATAA
1 ATTATAAACAATATAA
30738062 ATTATAAACAATATAA
1 ATTATAAACAATATAA
30738078 TGATATCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTATAAACAATATAA
Found at i:30740584 original size:2 final size:2
Alignment explanation
Indices: 30740577--30740606 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30740567 CTTAGCAGTT
30740577 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30740607 CACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30748584 original size:16 final size:16
Alignment explanation
Indices: 30748563--30748593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30748553 AATTCTTCCA
30748563 AAAAGAAAAGAAAGGG
1 AAAAGAAAAGAAAGGG
*
30748579 AAAAGAAAAGCAAGG
1 AAAAGAAAAGAAAGG
30748594 ATCATCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAGGG
Found at i:30765102 original size:16 final size:16
Alignment explanation
Indices: 30765081--30765111 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30765071 AATTCTTCCA
30765081 AAAAGAAAAGAAAGGG
1 AAAAGAAAAGAAAGGG
*
30765097 AAAAGAAAAGCAAGG
1 AAAAGAAAAGAAAGG
30765112 ATCATCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAGGG
Found at i:30767975 original size:16 final size:16
Alignment explanation
Indices: 30767954--30767986 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30767944 AATATTGAAG
30767954 AGCGCAGGAGTGAAAC
1 AGCGCAGGAGTGAAAC
30767970 AGCGCAGGAGTGAAAC
1 AGCGCAGGAGTGAAAC
30767986 A
1 A
30767987 ATACTGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.36, T:0.06
Consensus pattern (16 bp):
AGCGCAGGAGTGAAAC
Found at i:30771300 original size:27 final size:28
Alignment explanation
Indices: 30771267--30771338 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
30771257 TAAATAATAA
* *
30771267 TATTAATTTATTAATTAAATTA-AAATT
1 TATTAATTTAATAAATAAATTATAAATT
* *
30771294 TTTTAATATAATAAATAAATTATAAATT
1 TATTAATTTAATAAATAAATTATAAATT
30771322 TATTAA-TTAATATAATA
1 TATTAATTTAATA-AATA
30771339 TTAAAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TATTAATTTAATAAATAAATTATAAATT
Found at i:30771607 original size:13 final size:13
Alignment explanation
Indices: 30771591--30771632 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
30771581 TTTTTTATTA
*
30771591 AAAATATTAAATT
1 AAAATATAAAATT
30771604 AAAAT-TAAAATT
1 AAAATATAAAATT
30771616 AAAA-ATCAAAATT
1 AAAATAT-AAAATT
30771629 AAAA
1 AAAA
30771633 AATTTTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATATAAAATT
Found at i:30771610 original size:6 final size:6
Alignment explanation
Indices: 30771599--30771632 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
30771589 TAAAAATATT
*
30771599 AAATTA AAATTA AAATTAA AAATCA AAATTA AAA
1 AAATTA AAATTA AAATT-A AAATTA AAATTA AAA
30771633 AATTTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:30771633 original size:13 final size:13
Alignment explanation
Indices: 30771599--30771633 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30771589 TAAAAATATT
*
30771599 AAATT-AAAATTA
1 AAATTAAAAATCA
30771611 AAATTAAAAATCA
1 AAATTAAAAATCA
30771624 AAATTAAAAA
1 AAATTAAAAA
30771634 ATTTTGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATTAAAAATCA
Found at i:30771716 original size:13 final size:12
Alignment explanation
Indices: 30771663--30771737 Score: 57
Period size: 12 Copynumber: 6.3 Consensus size: 12
30771653 ACACGTAAAA
30771663 TTTAATAAAA-T
1 TTTAATAAAATT
* *
30771674 TTAAAT-ACATT
1 TTTAATAAAATT
* *
30771685 TTT-ATATATTT
1 TTTAATAAAATT
30771696 TTTAAATAAATATT
1 TTT-AATAAA-ATT
*
30771710 TTTAATAAAAAT
1 TTTAATAAAATT
*
30771722 ATTAATAAAATT
1 TTTAATAAAATT
30771734 TTTA
1 TTTA
30771738 TCGTTAAATA
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
10 4 0.09
11 13 0.28
12 15 0.32
13 10 0.21
14 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTAATAAAATT
Found at i:30771844 original size:12 final size:12
Alignment explanation
Indices: 30771823--30771869 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
30771813 ATTTATTGAT
*
30771823 TTAAATTTTTTA
1 TTAAAATTTTTA
30771835 TTAAAATTTTTA
1 TTAAAATTTTTA
30771847 TTAAATCATTTTTA
1 TTAAA--ATTTTTA
*
30771861 -AAAAATTTT
1 TTAAAATTTT
30771870 ACAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 5 0.16
12 16 0.52
13 3 0.10
14 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:30788746 original size:21 final size:21
Alignment explanation
Indices: 30788704--30788745 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30788694 TCTTTTTATC
*
30788704 AATTCTACTATCATCTGTTTT
1 AATTCTACTATCAGCTGTTTT
*
30788725 AATTCTACTAGTTAGCTGTTT
1 AATTCTACTA-TCAGCTGTTT
30788746 ATGTTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.50
Consensus pattern (21 bp):
AATTCTACTATCAGCTGTTTT
Found at i:30792844 original size:15 final size:15
Alignment explanation
Indices: 30792826--30792896 Score: 65
Period size: 14 Copynumber: 4.7 Consensus size: 15
30792816 GCTTTTAGAA
30792826 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
30792841 TTTTAGATTTT-AGG
1 TTTTGGATTTTAAGG
* * *
30792855 ATTTAGATTTAAAGG
1 TTTTGGATTTTAAGG
*
30792870 -TTTGGATTTTATGGGG
1 TTTTGGATTTTA--AGG
30792886 TTTTGGATTTT
1 TTTTGGATTTT
30792897 TAGGGTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
14 21 0.46
15 13 0.28
16 2 0.04
17 10 0.22
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:30792902 original size:16 final size:17
Alignment explanation
Indices: 30792870--30792905 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
30792860 GATTTAAAGG
*
30792870 TTTGGATTTTATGGGGT
1 TTTGGATTTTATAGGGT
30792887 TTTGGATTTT-TAGGGT
1 TTTGGATTTTATAGGGT
30792903 TTT
1 TTT
30792906 AAATTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.11, C:0.00, G:0.31, T:0.58
Consensus pattern (17 bp):
TTTGGATTTTATAGGGT
Found at i:30793345 original size:3 final size:3
Alignment explanation
Indices: 30793337--30793361 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30793327 AAATTATTCA
30793337 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
30793362 GCATTTTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:30793491 original size:13 final size:14
Alignment explanation
Indices: 30793468--30793508 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
30793458 ATCATGCGTG
30793468 AATAT-AAAAAAAT
1 AATATAAAAAAAAT
*
30793481 ACTA-AAAAAAAAT
1 AATATAAAAAAAAT
*
30793494 AATATATAAAAAAT
1 AATATAAAAAAAAT
30793508 A
1 A
30793509 GAAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AATATAAAAAAAAT
Found at i:30793527 original size:14 final size:14
Alignment explanation
Indices: 30793473--30793529 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
30793463 GCGTGAATAT
* *
30793473 AAAAAAATACTAAA
1 AAAAAAAAATTAAA
30793487 AAAAAATAATATATAAA
1 AAAAAA-AA-AT-TAAA
*
30793504 AAATAGAAAATTAAA
1 AAA-AAAAAATTAAA
30793519 AAAAAAAAATT
1 AAAAAAAAATT
30793530 GTTTTACCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 13 0.37
15 8 0.23
16 3 0.09
17 9 0.26
18 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAAAAAATTAAA
Found at i:30797970 original size:11 final size:11
Alignment explanation
Indices: 30797954--30797979 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30797944 GTGGGATGCT
30797954 GGTGAACCAAG
1 GGTGAACCAAG
30797965 GGTGAACCAAG
1 GGTGAACCAAG
30797976 GGTG
1 GGTG
30797980 CAAATTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.15, G:0.42, T:0.12
Consensus pattern (11 bp):
GGTGAACCAAG
Found at i:30802536 original size:24 final size:25
Alignment explanation
Indices: 30802503--30802553 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
30802493 ATAATAATAT
*
30802503 TTATTATAATTGTGA-TTAAAAAAA
1 TTATTATAATTATGATTTAAAAAAA
*
30802527 TTATTTTAATTATGATTTAAAAAAA
1 TTATTATAATTATGATTTAAAAAAA
30802552 TT
1 TT
30802554 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
TTATTATAATTATGATTTAAAAAAA
Found at i:30807897 original size:20 final size:19
Alignment explanation
Indices: 30807864--30807901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
30807854 TAAATAATTA
30807864 TTATTATTAAATTTTTTAT
1 TTATTATTAAATTTTTTAT
*
30807883 TTATATATTATATTTTTTA
1 TTAT-TATTAAATTTTTTA
30807902 GATCTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTAAATTTTTTAT
Found at i:30808572 original size:21 final size:21
Alignment explanation
Indices: 30808546--30808595 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30808536 TTCTTGGGAA
*
30808546 ATTTTTTTTTTTATGT-TTGCT
1 ATTTTTTTTATTATGTGTT-CT
30808567 ATTTTTTTTATTATGTGTTCT
1 ATTTTTTTTATTATGTGTTCT
*
30808588 CTTTTTTT
1 ATTTTTTT
30808596 GTTCTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.10, C:0.06, G:0.08, T:0.76
Consensus pattern (21 bp):
ATTTTTTTTATTATGTGTTCT
Found at i:30809924 original size:15 final size:15
Alignment explanation
Indices: 30809904--30809934 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30809894 TTATTCTTTA
30809904 ATATAAAAATAAAAT
1 ATATAAAAATAAAAT
*
30809919 ATATAAATATAAAAT
1 ATATAAAAATAAAAT
30809934 A
1 A
30809935 AAATAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATAAAAATAAAAT
Found at i:30809950 original size:20 final size:20
Alignment explanation
Indices: 30809909--30809950 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
30809899 CTTTAATATA
*
30809909 AAAATAAAATATATAAATAT
1 AAAATAAAATATATAAAAAT
30809929 AAAATAAAATA-ATTAAAAAT
1 AAAATAAAATATA-TAAAAAT
30809949 AA
1 AA
30809951 TTATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAAAATATATAAAAAT
Found at i:30810170 original size:2 final size:2
Alignment explanation
Indices: 30810158--30810208 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
30810148 ATTTCAAAGG
* *
30810158 TA TA CA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30810199 -A TA TA -A TA TA
1 TA TA TA TA TA TA
30810209 ACATAAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:30811051 original size:24 final size:24
Alignment explanation
Indices: 30811024--30811080 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
30811014 AAAATTATTT
* *
30811024 TTTAATTATTTATTTAAATTTAAA
1 TTTAATTATATATATAAATTTAAA
* * *
30811048 TTTATTTATATATATAATTTTATA
1 TTTAATTATATATATAAATTTAAA
30811072 TTTATATTA
1 TTTA-ATTA
30811081 AAAATAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAATTATATATATAAATTTAAA
Found at i:30814965 original size:25 final size:24
Alignment explanation
Indices: 30814920--30814971 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
30814910 AAATAATAAT
* *
30814920 AAAAATTATTGTAATTACAATTAA
1 AAAAATTATTATAACTACAATTAA
* *
30814944 AAAAATTTATTATAACTGCAATTGA
1 AAAAA-TTATTATAACTACAATTAA
30814969 AAA
1 AAA
30814972 TAAAAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (24 bp):
AAAAATTATTATAACTACAATTAA
Found at i:30816763 original size:30 final size:30
Alignment explanation
Indices: 30816723--30816812 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
30816713 AATTTAATAA
*
30816723 AATAAAAATTATATATTATATTTTTATATT
1 AATATAAATTATATATTATATTTTTATATT
* *
30816753 AATATAAATTATAAAATATTATTTTTATA-T
1 AATATAAATTATATATTA-TATTTTTATATT
* * *
30816783 AAAATATAATATAAATATAATA-TTTTATAT
1 AATATA-AAT-TATATATTATATTTTTATAT
30816813 GATATAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
30 28 0.58
31 15 0.31
32 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
AATATAAATTATATATTATATTTTTATATT
Found at i:30816800 original size:18 final size:18
Alignment explanation
Indices: 30816752--30816802 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
30816742 ATTTTTATAT
30816752 TAATATAAATTATAAAATA
1 TAATATAAA-TATAAAATA
* * **
30816771 TTATTTTTATATAAAATA
1 TAATATAAATATAAAATA
30816789 TAATATAAATATAA
1 TAATATAAATATAA
30816803 TATTTTATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATATAAATATAAAATA
Found at i:30816823 original size:31 final size:32
Alignment explanation
Indices: 30816735--30816829 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 32
30816725 TAAAAATTAT
* *
30816735 ATATTATATTTTTATATTAATATAA-ATTATAA
1 ATATAATATTTTTATA-TAATATAATAATATAA
* *
30816767 A-ATATTATTTTTATATAAAAT-ATAATATAA
1 ATATAATATTTTTATATAATATAATAATATAA
*
30816797 ATATAATA-TTTTATATGATATAATAATATAA
1 ATATAATATTTTTATATAATATAATAATATAA
30816828 AT
1 AT
30816830 TATCAAATCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 23 0.43
31 28 0.53
32 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
ATATAATATTTTTATATAATATAATAATATAA
Found at i:30820624 original size:160 final size:160
Alignment explanation
Indices: 30820455--30820775 Score: 642
Period size: 160 Copynumber: 2.0 Consensus size: 160
30820445 GATTCGAATC
30820455 AATGCACAAATATAAAATTTTACTTTTTTTACATATATAAACAGATAATAGATTAGATATCCAAT
1 AATGCACAAATATAAAATTTTACTTTTTTTACATATATAAACAGATAATAGATTAGATATCCAAT
30820520 ATTATCTAATGATGTTATGTTTGATGTATAAAATTATAATATGATAAAATAATATAAGATTATAG
66 ATTATCTAATGATGTTATGTTTGATGTATAAAATTATAATATGATAAAATAATATAAGATTATAG
30820585 ATAAAATTAGATTAAATTATATTATCTTAT
131 ATAAAATTAGATTAAATTATATTATCTTAT
30820615 AATGCACAAATATAAAATTTTACTTTTTTTACATATATAAACAGATAATAGATTAGATATCCAAT
1 AATGCACAAATATAAAATTTTACTTTTTTTACATATATAAACAGATAATAGATTAGATATCCAAT
30820680 ATTATCTAATGATGTTATGTTTGATGTATAAAATTATAATATGATAAAATAATATAAGATTATAG
66 ATTATCTAATGATGTTATGTTTGATGTATAAAATTATAATATGATAAAATAATATAAGATTATAG
30820745 ATAAAATTAGATTAAATTATATTATCTTAT
131 ATAAAATTAGATTAAATTATATTATCTTAT
30820775 A
1 A
30820776 TTATGTTTGG
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 161 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (160 bp):
AATGCACAAATATAAAATTTTACTTTTTTTACATATATAAACAGATAATAGATTAGATATCCAAT
ATTATCTAATGATGTTATGTTTGATGTATAAAATTATAATATGATAAAATAATATAAGATTATAG
ATAAAATTAGATTAAATTATATTATCTTAT
Found at i:30828941 original size:30 final size:32
Alignment explanation
Indices: 30828891--30828967 Score: 104
Period size: 30 Copynumber: 2.5 Consensus size: 32
30828881 TTACATTTTA
** *
30828891 ATCAAATTTATTTTGAAATTAAAAGTACGATG
1 ATCAAATTTGCTTTAAAATTAAAAGTACGATG
*
30828923 AT-AAATTTG-TTTAAAATTAAAAGTATGATG
1 ATCAAATTTGCTTTAAAATTAAAAGTACGATG
30828953 ATCAAATTTGCTTTA
1 ATCAAATTTGCTTTA
30828968 CTTCTGGTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 21 0.52
31 13 0.32
32 6 0.15
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (32 bp):
ATCAAATTTGCTTTAAAATTAAAAGTACGATG
Found at i:30833914 original size:19 final size:20
Alignment explanation
Indices: 30833892--30833929 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30833882 AAAGTATATG
30833892 ATTTTGA-AAAAAATAAATT
1 ATTTTGATAAAAAATAAATT
*
30833911 ATTTTTATAAAAAATAAAT
1 ATTTTGATAAAAAATAAAT
30833930 AATTAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTTGATAAAAAATAAATT
Found at i:30834145 original size:20 final size:21
Alignment explanation
Indices: 30834117--30834155 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30834107 TTTGTTTTTA
*
30834117 TTTTCATTTTTTGTTTTTTGG
1 TTTTCATTTTTAGTTTTTTGG
30834138 TTTT-ATTTTTAGTTTTTT
1 TTTTCATTTTTAGTTTTTT
30834156 TGAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.03, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTTCATTTTTAGTTTTTTGG
Found at i:30834419 original size:18 final size:17
Alignment explanation
Indices: 30834383--30834974 Score: 169
Period size: 17 Copynumber: 34.5 Consensus size: 17
30834373 ATAATACTTT
30834383 TATTATATAAATA--ATA
1 TATTA-ATAAATATTATA
30834399 TATTAATAAATATTGATA
1 TATTAATAAATATT-ATA
30834417 TATTTATTATATAACTATTATTA
1 TA-TTA--ATA-AA-TATTA-TA
*
30834440 TATTAATAAATA-AATGA
1 TATTAATAAATATTAT-A
* * *
30834457 TATT-AT-ATTACTAAAA
1 TATTAATAAATA-TTATA
* *
30834473 TATT-ATTAATATAATA
1 TATTAATAAATATTATA
30834489 TATTAATAAATA--ATA
1 TATTAATAAATATTATA
* *
30834504 TATCAATAGATA-T-TA
1 TATTAATAAATATTATA
*
30834519 T-TTATTAAATATTATTA
1 TATTAATAAATATTA-TA
30834536 TATT--TAAATA-TA-A
1 TATTAATAAATATTATA
**
30834549 -A-TAATATTGTATTA-A
1 TATTAATA-AATATTATA
* *
30834564 TAAATAAGTAATATATTATT
1 T-ATTAA-TAA-ATATTATA
* *
30834584 TACTAATATAATATAATA
1 TATTAATA-AATATTATA
30834602 TATTAAT-AATA-TAT-
1 TATTAATAAATATTATA
* *
30834616 TACTAAATAATATATTATT
1 TA-TTAATAA-ATATTATA
*
30834635 TATTAATATAATAATAT-
1 TATTAATA-AATATTATA
*
30834652 TATTAATAAATAATATTA
1 TATTAATAAATATTA-TA
* *
30834670 TAATATATTAAA-ATAATA
1 T-AT-TAATAAATATTATA
* *
30834688 TGTTAATAACATTATAATA
1 TATTAATAA-A-TATTATA
30834707 TATTAAT-AATATTATAA
1 TATTAATAAATATTAT-A
*
30834724 TATTATTATAATATTATTA
1 TATTAATA-AATATTA-TA
* *
30834743 TATTATTAAATAATATA
1 TATTAATAAATATTATA
* *
30834760 TTATTAATATAATAATATT
1 -TATTAATA-AATATTATA
*
30834779 TATTAATATA-ATT-TA
1 TATTAATAAATATTATA
* *
30834794 -ATCAATAACATTATAATA
1 TATTAATAA-A-TATTATA
*
30834812 CATTAA-AAATA--ATA
1 TATTAATAAATATTATA
30834826 TATTAATAAATATTATTA
1 TATTAATAAATATTA-TA
*
30834844 TATTAAT-ATTATTATA
1 TATTAATAAATATTATA
* * *
30834860 TTATTAATAATAAATAATG
1 -TATTAATAA-ATATTATA
30834879 T-TTAA-AAACT-TTA-A
1 TATTAATAAA-TATTATA
*
30834893 CCATTAATAAATAACATTATA
1 -TATTAATAAAT---ATTATA
* * *
30834914 -ATTCATTAAAAATAATA
1 TATT-AATAAATATTATA
*
30834931 TATCAATAAATATTATTA
1 TATTAATAAATATTA-TA
*
30834949 TATTAAT-ATTATTATA
1 TATTAATAAATATTATA
30834965 TTATTAATAA
1 -TATTAATAA
30834975 TAAATGATGT
Statistics
Matches: 440, Mismatches: 61, Indels: 148
0.68 0.09 0.23
Matches are distributed among these distances:
11 1 0.00
12 1 0.00
13 3 0.01
14 25 0.06
15 48 0.11
16 66 0.15
17 96 0.22
18 92 0.21
19 71 0.16
20 19 0.04
21 4 0.01
22 6 0.01
23 8 0.02
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
TATTAATAAATATTATA
Found at i:30834424 original size:22 final size:22
Alignment explanation
Indices: 30834399--30834500 Score: 61
Period size: 25 Copynumber: 4.5 Consensus size: 22
30834389 ATAAATAATA
30834399 TATTAATAAATATTGATATATT
1 TATTAATAAATATTGATATATT
*
30834421 TATTATATAACTATT-AT-TA--
1 TATTA-ATAAATATTGATATATT
*
30834440 TATTAATAAATAAATGATATTATAT
1 TATTAATAAAT-ATTGATA-TAT-T
* * *
30834465 TACTAA-AATATTATTAATATAATA
1 TATTAATAA-A-TATTGATAT-ATT
30834489 TATTAATAAATA
1 TATTAATAAATA
30834501 ATATATCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 23
0.66 0.09 0.25
Matches are distributed among these distances:
18 5 0.08
19 7 0.12
20 2 0.03
21 2 0.03
22 9 0.15
23 10 0.17
24 9 0.15
25 15 0.25
26 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TATTAATAAATATTGATATATT
Found at i:30834442 original size:41 final size:38
Alignment explanation
Indices: 30834355--30834451 Score: 119
Period size: 38 Copynumber: 2.5 Consensus size: 38
30834345 GTAACGTTAC
30834355 AATTATTATATTAATAAA-ATAATACTTTTATTATATA
1 AATTATTATATTAATAAATATAATACTTTTATTATATA
* *
30834392 AA-TAATATATTAATAAATATTGATA-TATTTATTATATA
1 AATTATTATATTAATAAATA-TAATACT-TTTATTATATA
30834430 ACTATTATTATATTAATAAATA
1 A--ATTATTATATTAATAAATA
30834452 AATGATATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 14 0.27
37 4 0.08
38 16 0.31
40 1 0.02
41 16 0.31
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (38 bp):
AATTATTATATTAATAAATATAATACTTTTATTATATA
Found at i:30834466 original size:41 final size:39
Alignment explanation
Indices: 30834356--30834786 Score: 124
Period size: 36 Copynumber: 11.4 Consensus size: 39
30834346 TAACGTTACA
30834356 ATTATTATATTAATAAA-ATAAT-ACT-TTTATTATATAA-
1 ATTATTATATTAATAAATA-AATGA-TATTTATTATATAAT
* *
30834393 A-TAATATATTAATAAAT-ATTGATATATTTATTATATAACT
1 ATTATTATATTAATAAATAAATG--ATATTTATTATATAA-T
*
30834433 ATTATTATATTAATAAATAAATGATATTATATTACTAAAAT
1 ATTATTATATTAATAAATAAATGATATT-TATTA-TATAAT
* * *
30834474 ATTATTAATATAATATATTAATAAAT-A-ATATATCA-ATAGAT
1 ATTATT-ATAT--TA-ATAAATAAATGATATTTATTATATA-AT
* * * *
30834515 ATTATT-TATTAA-ATAT-TATTATATTTA-AATATAAAT
1 ATTATTATATTAATAAATAAATGATATTTATTATAT-AAT
* * * *
30834551 AATATTGTATTAATAAATAAGTAATATATTATT-TACTAAT
1 ATTATTATATTAATAAATAAATGATAT-TTATTATA-TAAT
* * * * *
30834591 A-TA--ATA-TAATATATTAATAATATATTACTAAATAAT
1 ATTATTATATTAATAAATAAATGATAT-TTATTATATAAT
* *
30834627 A-TATTAT-TT-ATTAATATAATAATA-TTATTA-ATAAAT
1 ATTATTATATTAATAAATA-AATGATATTTATTATAT-AAT
* * * * * *
30834663 AATATTATAAT-AT-ATTAAA--ATAATATGTTA-ATAAC
1 ATTATTATATTAATAAATAAATGAT-ATTTATTATATAAT
* *
30834698 ATTATAATATATTAAT-AAT--ATTATA-ATATTATTATAAT
1 ATTAT--TATATTAATAAATAAATGATATTTATTA-TATAAT
*
30834736 ATTATTATATTATTAAAT-AAT-ATA-TTATTAATATAAT
1 ATTATTATATTAATAAATAAATGATATTTATT-ATATAAT
*
30834773 AATATT-TATTAATA
1 ATTATTATATTAATA
30834787 TAATTTAATC
Statistics
Matches: 304, Mismatches: 44, Indels: 93
0.69 0.10 0.21
Matches are distributed among these distances:
34 4 0.01
35 15 0.05
36 92 0.30
37 54 0.18
38 47 0.15
39 10 0.03
40 17 0.06
41 36 0.12
42 15 0.05
43 2 0.01
44 3 0.01
45 9 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (39 bp):
ATTATTATATTAATAAATAAATGATATTTATTATATAAT
Found at i:30834496 original size:118 final size:111
Alignment explanation
Indices: 30834383--30834632 Score: 263
Period size: 118 Copynumber: 2.2 Consensus size: 111
30834373 ATAATACTTT
* * *
30834383 TATTATATAAATAATATATTAATAAATATTGA-TATATTTATTATATAACTATTATTATATTAAT
1 TATTATATAAATAATATATTAATAAATATT-ATTATATTTA-AATATAAATAATATTATATTAAT
* *
30834447 AAATAAATGATATTATATTACTAAAATATTATTAATATAATATATTAATAAA
64 AAAT-AA-G-TAATATATTA-TAAAATATTATTAATATAATATATTAATATA
* * * *
30834499 TAATATATCAATAGATATTATTTATTAAATATTATTATATTTAAATATAAATAATATTGTATTAA
1 TATTATATAAATA-ATA-TA-TTAATAAATATTATTATATTTAAATATAAATAATATTATATTAA
** * *
30834564 TAAATAAGTAATATATTATTTACTAATA-TAATATAATATATTAATAATA
63 TAAATAAGTAATATATTATAAAATATTATTAATATAATATATTAAT-ATA
*
30834613 TATTA-CTAAATAATATATTA
1 TATTATATAAATAATATATTA
30834633 TTTATTAATA
Statistics
Matches: 113, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
110 3 0.03
111 2 0.02
112 3 0.03
113 22 0.19
114 12 0.11
115 9 0.08
116 12 0.11
117 5 0.04
118 26 0.23
119 19 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (111 bp):
TATTATATAAATAATATATTAATAAATATTATTATATTTAAATATAAATAATATTATATTAATAA
ATAAGTAATATATTATAAAATATTATTAATATAATATATTAATATA
Found at i:30834511 original size:8 final size:7
Alignment explanation
Indices: 30834481--30834777 Score: 51
Period size: 8 Copynumber: 42.3 Consensus size: 7
30834471 AATATTATTA
30834481 ATATAAT
1 ATATAAT
30834488 ATATTAAT
1 ATA-TAAT
*
30834496 AAATAAT
1 ATATAAT
30834503 ATATCAAT
1 ATAT-AAT
* *
30834511 AGATATT
1 ATATAAT
*
30834518 AT-TTAT
1 ATATAAT
30834524 -TA-AAT
1 ATATAAT
*
30834529 ATTATTAT
1 A-TATAAT
*
30834537 ATTTAA-
1 ATATAAT
30834543 ATATAA-
1 ATATAAT
*
30834549 ATAATATT
1 AT-ATAAT
*
30834557 GTATTAAT
1 ATA-TAAT
*
30834565 AAATAAGT
1 ATATAA-T
*
30834573 AATATATT
1 -ATATAAT
* *
30834581 ATTTACT
1 ATATAAT
30834588 AATATAAT
1 -ATATAAT
30834596 ATA-ATAT
1 ATATA-AT
30834603 ATTAATAAT
1 A-T-ATAAT
*
30834612 ATATTACT
1 ATA-TAAT
*
30834620 AAATAAT
1 ATATAAT
*
30834627 ATATTAT
1 ATATAAT
*
30834634 TTATTAAT
1 ATA-TAAT
30834642 ATAATAAT
1 AT-ATAAT
30834650 ATTATTAAT
1 A-TA-TAAT
*
30834659 AAATAAT
1 ATATAAT
30834666 ATTATAAT
1 A-TATAAT
30834674 ATATTAA-
1 ATA-TAAT
30834681 A-ATAAT
1 ATATAAT
*
30834687 ATGT--T
1 ATATAAT
*
30834692 A-ATAAC
1 ATATAAT
30834698 ATTATAAT
1 A-TATAAT
30834706 ATAT--T
1 ATATAAT
30834711 A-ATAAT
1 ATATAAT
30834717 ATTATAAT
1 A-TATAAT
30834725 AT-T-AT
1 ATATAAT
30834730 -TATAAT
1 ATATAAT
*
30834736 AT-TATT
1 ATATAAT
*
30834742 ATATTAT
1 ATATAAT
30834749 -TA-AAT
1 ATATAAT
*
30834754 AATATATT
1 -ATATAAT
30834762 AT-TAAT
1 ATATAAT
30834768 ATAATAAT
1 AT-ATAAT
30834776 AT
1 AT
30834778 TTATTAATAT
Statistics
Matches: 205, Mismatches: 43, Indels: 83
0.62 0.13 0.25
Matches are distributed among these distances:
4 4 0.02
5 15 0.07
6 30 0.15
7 67 0.33
8 73 0.36
9 15 0.07
10 1 0.00
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (7 bp):
ATATAAT
Found at i:30834807 original size:105 final size:100
Alignment explanation
Indices: 30834421--30834973 Score: 351
Period size: 105 Copynumber: 5.4 Consensus size: 100
30834411 TTGATATATT
* *
30834421 TATTATATAACTATTATTATATTAATAAATAAATGATATTA-TATTACTAA-AATA-TTATTAAT
1 TATTA-ATAAATATTATTATATTAAT-AAT-AAT-ATATTATTAATA-TAATAATATTTATTAAT
* * * * *
30834483 ATAATAT-ATTAAT-A-A--ATAATATATCAATAGATATTA
61 ATAATTTAATAAATAACATTATAATATATTAA-AAATAATA
* * * * *
30834519 T-TTATTAAATATTATTATATTTAA-ATATAA-ATAATATT-GTATTAATAA-A-TAAGTAATAT
1 TATTAATAAATATTATTATA-TTAATA-ATAATATATTATTAATA-TAATAATATTTATTAATAT
* *
30834578 ATTATTTACT-AATATA-A-TATAATATATTAATAAT-ATA
63 A--ATTTAATAAATA-ACATTATAATATATTAAAAATAATA
* *
30834615 TTACTAAATAATATATTATT-TATTAAT-ATAATAATATTATTAATA-AATAATA-TTATAATAT
1 -TA-TTAATAA-ATATTATTATATTAATAATAAT-ATATTATTAATATAATAATATTTATTA-AT
** *
30834676 ATTAAAATAATATGTTAATAACATTATAATATATTAATAATATTATAA
61 A-TAATTTAATA----AATAACATTATAATATATTAA-AA-ATAAT-A
* *
30834724 TATTATTATAATATTATTATATTATTAAATAATATATTATTAATATAATAATATTTATTAATATA
1 TATTAATA-AATATTATTATATTAAT-AATAATATATTATTAATATAATAATATTTATTAATATA
* *
30834789 ATTTAATCAATAACATTATAATACATTAAAAATAATA
64 ATTTAATAAATAACATTATAATATATTAAAAATAATA
* * * ** *
30834826 TATTAATAAATATTATTATATTAATATTATTATATTATTAATAATAAATAATGTTTAAAAACTTT
1 TATTAATAAATATTATTATATTAATAATAATATATTATTAAT-AT-AATAATATTTATTAA-TAT
*
30834891 AACCATTAATAAATAACATTATAAT-TCATTAAAAATAATA
63 AA--TTTAATAAATAACATTATAATAT-ATTAAAAATAATA
* * *
30834931 TATCAATAAATATTATTATATTAATATTATTATATTATTAATA
1 TATTAATAAATATTATTATATTAATAATAATATATTATTAATA
30834974 ATAAATGATG
Statistics
Matches: 366, Mismatches: 45, Indels: 82
0.74 0.09 0.17
Matches are distributed among these distances:
93 20 0.05
94 3 0.01
95 9 0.02
96 18 0.05
97 16 0.04
98 21 0.06
99 22 0.06
100 28 0.08
101 20 0.05
102 20 0.05
103 9 0.02
104 8 0.02
105 106 0.29
106 1 0.00
107 14 0.04
108 11 0.03
109 20 0.05
110 15 0.04
111 5 0.01
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (100 bp):
TATTAATAAATATTATTATATTAATAATAATATATTATTAATATAATAATATTTATTAATATAAT
TTAATAAATAACATTATAATATATTAAAAATAATA
Found at i:30834840 original size:10 final size:11
Alignment explanation
Indices: 30834386--30834871 Score: 144
Period size: 11 Copynumber: 46.2 Consensus size: 11
30834376 ATACTTTTAT
*
30834386 TATATAAATAA
1 TATATTAATAA
30834397 TATATTAATAA
1 TATATTAATAA
*
30834408 -ATATTGATATA
1 TATATTAATA-A
*
30834419 TTTATTATATAA
1 TATATTA-ATAA
*
30834431 -CTATT-AT--
1 TATATTAATAA
30834438 TATATTAATAA
1 TATATTAATAA
* * *
30834449 -ATAAATGATAT
1 TAT-ATTAATAA
*
30834460 TATATTACTAA
1 TATATTAATAA
* *
30834471 AATATTATTAA
1 TATATTAATAA
* *
30834482 TATAAT-ATAT
1 TATATTAATAA
*
30834492 TA-ATAAATAA
1 TATATTAATAA
*
30834502 TATATCAATAGA
1 TATATTAATA-A
*
30834514 TATTATTTATTAA
1 TA-TA-TTAATAA
30834527 -ATATT-AT--
1 TATATTAATAA
*
30834534 TATATTTA-AA
1 TATATTAATAA
* *
30834544 TATAAATAATAT
1 TAT-ATTAATAA
*
30834556 TGTATTAATAA
1 TATATTAATAA
*
30834567 -ATAAGTAAT-A
1 TAT-ATTAATAA
*
30834577 TATTATTTACTAA
1 TA-TA-TTAATAA
*
30834590 TATAAT-ATAA
1 TATATTAATAA
30834600 TATATTAATAA
1 TATATTAATAA
*
30834611 TATATTACTAA
1 TATATTAATAA
* *
30834622 -ATAAT-ATAT
1 TATATTAATAA
*
30834631 TAT-TTATTAA
1 TATATTAATAA
*
30834641 TATAATAAT-A
1 TATATTAATAA
30834651 T-TATTAATAAA
1 TATATTAAT-AA
30834662 TAATATT-ATAA
1 T-ATATTAATAA
30834673 TATATTAAAATAA
1 TATATT--AATAA
*
30834686 TATGTTAAT-A
1 TATATTAATAA
*
30834696 -ACATT-ATAA
1 TATATTAATAA
30834705 TATATTAAT-A
1 TATATTAATAA
30834715 -ATATT-ATAA
1 TATATTAATAA
30834724 TATTATT-ATAA
1 TA-TATTAATAA
30834735 TATTATT-AT-A
1 TA-TATTAATAA
30834745 T-TATTAAATAA
1 TATATT-AATAA
*
30834756 TATATTATTAA
1 TATATTAATAA
*
30834767 TATAATAAT-A
1 TATATTAATAA
*
30834777 TTTATTAAT-A
1 TATATTAATAA
30834787 TA-ATTTAATCAA
1 TATA-TTAAT-AA
*
30834799 TAACATT-ATAA
1 T-ATATTAATAA
*
30834810 TACATTAAAAATAA
1 TATATT---AATAA
30834824 TATATTAATAA
1 TATATTAATAA
30834835 -ATATT-AT--
1 TATATTAATAA
30834842 TATATTAAT-A
1 TATATTAATAA
30834852 T-TATT-AT-A
1 TATATTAATAA
30834860 T-TATTAATAA
1 TATATTAATAA
30834870 TA
1 TA
30834872 AATAATGTTT
Statistics
Matches: 354, Mismatches: 60, Indels: 122
0.66 0.11 0.23
Matches are distributed among these distances:
8 30 0.08
9 37 0.10
10 91 0.26
11 127 0.36
12 30 0.08
13 25 0.07
14 14 0.04
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (11 bp):
TATATTAATAA
Found at i:30834858 original size:14 final size:14
Alignment explanation
Indices: 30834705--30834862 Score: 71
Period size: 14 Copynumber: 11.5 Consensus size: 14
30834695 AACATTATAA
*
30834705 TATATTAATAATAT
1 TATATTAATATTAT
* *
30834719 TATAATATTATTAT
1 TATATTAATATTAT
*
30834733 AATATTATTATATTAT
1 TATATTA--ATATTAT
* *
30834749 TAAATAATATATTAT
1 TATATTA-ATATTAT
*
30834764 TA-ATATAATAATAT
1 TATAT-TAATATTAT
*
30834778 T-TATTAATATAAT
1 TATATTAATATTAT
* **
30834791 T-TAATCAATAACAT
1 TAT-ATTAATATTAT
* *
30834805 TATAAT-ACATTA-
1 TATATTAATATTAT
* *
30834817 -AAAATAATA-TAT
1 TATATTAATATTAT
*
30834829 TA-ATAAATATTAT
1 TATATTAATATTAT
30834842 TATATTAATATTAT
1 TATATTAATATTAT
30834856 TATATTA
1 TATATTA
30834863 TTAATAATAA
Statistics
Matches: 107, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
11 6 0.06
12 7 0.07
13 18 0.17
14 54 0.50
15 12 0.11
16 10 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TATATTAATATTAT
Found at i:30834958 original size:14 final size:14
Alignment explanation
Indices: 30834939--30834967 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30834929 TATATCAATA
30834939 AATATTATTATATT
1 AATATTATTATATT
30834953 AATATTATTATATT
1 AATATTATTATATT
30834967 A
1 A
30834968 TTAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATATTATTATATT
Found at i:30834974 original size:105 final size:105
Alignment explanation
Indices: 30834692--30835002 Score: 398
Period size: 105 Copynumber: 3.0 Consensus size: 105
30834682 ATAATATGTT
* * * * * * *
30834692 AATAACATTATAATATATTAATAATATTATAATATTATTATAATATTATTATATTATTAAATAAT
1 AATAACATTATAATACATTAA-AA-ATAAT-ATATCAATA-AATATTATTATATTAAT-ATTATT
* ** * * *
30834757 ATATTATTAAT-AT-AATAATATTTATTAA-TATAA--TTTAATC
61 ATATTATTAATAATAAATAATGTTTAAAAACTTTAACCATTAATA
*
30834797 AATAACATTATAATACATTAAAAATAATATATTAATAAATATTATTATATTAATATTATTATATT
1 AATAACATTATAATACATTAAAAATAATATATCAATAAATATTATTATATTAATATTATTATATT
30834862 ATTAATAATAAATAATGTTTAAAAACTTTAACCATTAATA
66 ATTAATAATAAATAATGTTTAAAAACTTTAACCATTAATA
*
30834902 AATAACATTATAATTCATTAAAAATAATATATCAATAAATATTATTATATTAATATTATTATATT
1 AATAACATTATAATACATTAAAAATAATATATCAATAAATATTATTATATTAATATTATTATATT
*
30834967 ATTAATAATAAATGATGTTTAAAAACTTTAACCATT
66 ATTAATAATAAATAATGTTTAAAAACTTTAACCATT
30835003 TTTTCTTACA
Statistics
Matches: 186, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
100 15 0.08
101 18 0.10
102 20 0.11
103 8 0.04
104 2 0.01
105 123 0.66
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (105 bp):
AATAACATTATAATACATTAAAAATAATATATCAATAAATATTATTATATTAATATTATTATATT
ATTAATAATAAATAATGTTTAAAAACTTTAACCATTAATA
Found at i:30839470 original size:17 final size:17
Alignment explanation
Indices: 30839450--30839482 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30839440 GATACATCAA
30839450 ATAAATT-ATAAATAAAT
1 ATAAATTCA-AAATAAAT
30839467 ATAAATTCAAAATAAA
1 ATAAATTCAAAATAAA
30839483 ATTATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATTCAAAATAAAT
Found at i:30840516 original size:25 final size:26
Alignment explanation
Indices: 30840481--30840531 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
30840471 TTTATTAAAT
30840481 TTTTTTATTTAATTACAGATATAATA
1 TTTTTTATTTAATTACAGATATAATA
* * *
30840507 TTTTTT-TTTAGTTGCAGTTATAATA
1 TTTTTTATTTAATTACAGATATAATA
30840532 ATAATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (26 bp):
TTTTTTATTTAATTACAGATATAATA
Found at i:30841270 original size:29 final size:31
Alignment explanation
Indices: 30841203--30841270 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
30841193 TTAAAATTAA
*
30841203 TAAATTATTATTTTAAATATAAAATAT-TAT
1 TAAATTATTATTTTAAATATAAAATATAAAT
*
30841233 TTAA-TATTATTTTTAAATAT-AAATATAAAAT
1 TAAATTATTA-TTTTAAATATAAAATAT-AAAT
30841264 TAAATTA
1 TAAATTA
30841271 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
29 11 0.35
30 13 0.42
31 5 0.16
32 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TAAATTATTATTTTAAATATAAAATATAAAT
Found at i:30850285 original size:19 final size:19
Alignment explanation
Indices: 30850261--30850299 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
30850251 GATATTTTGC
*
30850261 AAATTGGATGTACTATTAT
1 AAATTGGATGCACTATTAT
30850280 AAATTGGATGCACTATTAT
1 AAATTGGATGCACTATTAT
30850299 A
1 A
30850300 TAATAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (19 bp):
AAATTGGATGCACTATTAT
Found at i:30850688 original size:35 final size:36
Alignment explanation
Indices: 30850649--30850717 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
30850639 TAGCCAAACT
*
30850649 GAATAGAACAGAATAGAACA-AAAAAAGACCAAAAG
1 GAATAGAACAAAATAGAACAGAAAAAAGACCAAAAG
* *
30850684 GAATAGAACAAAATAGAATAGAAAAGAGACCAAA
1 GAATAGAACAAAATAGAACAGAAAAAAGACCAAA
30850718 CAAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.65, C:0.10, G:0.17, T:0.07
Consensus pattern (36 bp):
GAATAGAACAAAATAGAACAGAAAAAAGACCAAAAG
Found at i:30850966 original size:26 final size:26
Alignment explanation
Indices: 30850914--30850969 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
30850904 AACAGAATAG
*
30850914 AGAACAGAAAAGAAACCAAATGAAAT
1 AGAACAGAAAAGAAACCAAATCAAAT
*
30850940 AGAACAGAAAAGAGACCAAA-CATAAT
1 AGAACAGAAAAGAAACCAAATCA-AAT
30850966 AGAA
1 AGAA
30850970 TAAAATAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.64, C:0.12, G:0.16, T:0.07
Consensus pattern (26 bp):
AGAACAGAAAAGAAACCAAATCAAAT
Found at i:30852391 original size:59 final size:58
Alignment explanation
Indices: 30852313--30852601 Score: 316
Period size: 59 Copynumber: 4.9 Consensus size: 58
30852303 TTATATAAGA
*
30852313 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTTCAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT-TTCAAATTTTATTTTCAAGG
* * * * ** *
30852372 AAAATTGGTACTTCCAACTTTTTCTCAAAAA-ATGCTTTTTTTTATTTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATAT--TTTTTTCAAATTTTATTTTCAAGG
* ** *
30852431 AAAATTGATACTTTTC-ACTTTTCCTTAAAGATATTTTTTGAAAATTTTTATTGTCAAGG
1 AAAATTGATAC-TTTCAACTTTTCCTTAAAAATATTTTTTTCAAA-TTTTATTTTCAAGG
* * * *
30852490 GAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTT-AATTTTTATGTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATAT-TTTTTTCAAATTTTATTTTCAAGG
* *
30852548 AAAATTGCTACATTCAACTTTT-CTTCAAAAATATTTTTTTCAAATTTTCATTTT
1 AAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTCAAATTTT-ATTTT
30852602 AAAGATATCA
Statistics
Matches: 190, Mismatches: 30, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
57 9 0.05
58 56 0.29
59 111 0.58
60 14 0.07
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAATTTTATTTTCAAGG
Found at i:30852451 original size:118 final size:116
Alignment explanation
Indices: 30852313--30852601 Score: 350
Period size: 118 Copynumber: 2.5 Consensus size: 116
30852303 TTATATAAGA
*
30852313 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTCTTCAAATTTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT-TTCAAATTTTATTTTCAAGGAAAATT
* * * * * *
30852378 GGTACTTCCAACTTTTTCTCAAAAA-ATGCTTTTTTTTATTTTTATTTTCAAGG
65 GATACTTCCAACTTTTCCTCAAAAATAT--ATTTTTTAATTTTTATGTTCAAAG
* ** * *
30852431 AAAATTGATACTTTTC-ACTTTTCCTTAAAGATATTTTTTGAAAATTTTTATTGTCAAGGGAAAT
1 AAAATTGATAC-TTTCAACTTTTCCTTAAAAATATTTTTTTCAAA-TTTTATTTTCAAGGAAAAT
* *
30852495 TGATACTTTCAACTTTTCCTTAAAAATATATTTTTTAATTTTTATGTTCAAAG
64 TGATACTTCCAACTTTTCCTCAAAAATATATTTTTTAATTTTTATGTTCAAAG
* *
30852548 AAAATTGCTACATTCAACTTTT-CTTCAAAAATATTTTTTTCAAATTTTCATTTT
1 AAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTCAAATTTT-ATTTT
30852602 AAAGATATCA
Statistics
Matches: 145, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
116 10 0.07
117 59 0.41
118 70 0.48
119 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAATTTTATTTTCAAGGAAAATTG
ATACTTCCAACTTTTCCTCAAAAATATATTTTTTAATTTTTATGTTCAAAG
Found at i:30853678 original size:5 final size:5
Alignment explanation
Indices: 30853668--30853739 Score: 69
Period size: 5 Copynumber: 13.8 Consensus size: 5
30853658 CTATTATCTA
30853668 AAAAT AAAAT -AAAT AATAAT CAAAA- AATAA- AAAAT AAAAT CAAAAT
1 AAAAT AAAAT AAAAT AA-AAT -AAAAT AA-AAT AAAAT AAAAT -AAAAT
30853714 AAAAT AAAAT AAAAAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAA
30853740 AACAAACAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
4 8 0.13
5 29 0.48
6 21 0.35
7 2 0.03
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:30853706 original size:6 final size:6
Alignment explanation
Indices: 30853666--30853740 Score: 70
Period size: 6 Copynumber: 13.0 Consensus size: 6
30853656 TCCTATTATC
** *
30853666 TAAAAA T-AAAA TAAATAA TAATCA -AAAAA TAAAAA -ATAAAA TCAAAA
1 TAAAAA TAAAAA TAAA-AA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA
30853713 T-AAAA T-AAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
30853741 ACAAACAGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
5 19 0.33
6 34 0.59
7 5 0.09
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:30854028 original size:44 final size:44
Alignment explanation
Indices: 30853965--30854181 Score: 256
Period size: 44 Copynumber: 4.8 Consensus size: 44
30853955 TATTTTTATT
* * *
30853965 TTTGAACAAGTAAACAAAGCTCCTCTAAACAGAGGCTCAACGAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGAC
*
30854009 TTTGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGAC
* * * * *
30854053 TTTTG-AAAAATAAATAAGGCTCCTCTAATTAAAGGCTCAATGAC
1 -TTTGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGAC
** *
30854097 TTTGCTAAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACGAC
1 TTTGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGAC
* *
30854141 TTTAAAAAGAAAAATAAACAAGGCTCCTCTAATCAGAGGCT
1 TTT---GA-AAAAATAAACAAAGCTCCTCTAATCAGAGGCT
30854182 TACAATTTTT
Statistics
Matches: 145, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
43 4 0.03
44 108 0.74
45 4 0.03
48 29 0.20
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (44 bp):
TTTGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGAC
Found at i:30854513 original size:20 final size:20
Alignment explanation
Indices: 30854476--30854514 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30854466 TACATCCAAA
* *
30854476 AGTTCAAAGCTTCTTATTCG
1 AGTTCAAAACTTCATATTCG
*
30854496 AGTTCAAAATTTCATATTC
1 AGTTCAAAACTTCATATTC
30854515 AAGAAACCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
AGTTCAAAACTTCATATTCG
Found at i:30854819 original size:20 final size:20
Alignment explanation
Indices: 30854773--30855069 Score: 105
Period size: 20 Copynumber: 14.8 Consensus size: 20
30854763 GTTTCACACA
* *
30854773 TCAAAGATTCTCATTTGACAC
1 TCAAATATTCTCATTTGA-AT
*
30854794 TCAAATATTCTTATTTGAAT
1 TCAAATATTCTCATTTGAAT
30854814 TCAAATATTCTCATTTGAAT
1 TCAAATATTCTCATTTGAAT
** * * *
30854834 TTGAAGATTCACA-TTCAA-
1 TCAAATATTCTCATTTGAAT
* * *
30854852 T-AAAT-TT-TGAGTTTCACACC
1 TCAAATATTCTCA-TTTGA-A-T
*
30854872 TCAAAGATTCTCATTTGAAAT
1 TCAAATATTCTCATTTG-AAT
*
30854893 TCAAAGATTCTCATTTGAAT
1 TCAAATATTCTCATTTGAAT
* * *
30854913 TCAAAGATTCACATTCG-A-
1 TCAAATATTCTCATTTGAAT
** * *
30854931 T-AAAT-TT-TGGGTTTCACACC
1 TCAAATATTCT-CATTTGA-A-T
*
30854951 TCACAGT-TTCTCATTTGAAAT
1 TCA-AATATTCTCATTTG-AAT
* * *
30854972 TTAAAGATTCTTATTTGAAT
1 TCAAATATTCTCATTTGAAT
* * *
30854992 TCAAAGATCCTAATTTGAAT
1 TCAAATATTCTCATTTGAAT
*
30855012 TCAAATATTCTCATTTGATAC
1 TCAAATATTCTCATTTGA-AT
* * *
30855033 TCAAAGATACTTATTTGACAAT
1 TCAAATATTCTCATTTG--AAT
*
30855055 T-AAAGATTCTCATTT
1 TCAAATATTCTCATTT
30855070 AAGGATTTTT
Statistics
Matches: 207, Mismatches: 47, Indels: 44
0.69 0.16 0.15
Matches are distributed among these distances:
15 1 0.00
16 6 0.03
17 9 0.04
18 4 0.02
19 5 0.02
20 85 0.41
21 75 0.36
22 16 0.08
23 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (20 bp):
TCAAATATTCTCATTTGAAT
Found at i:30854824 original size:99 final size:99
Alignment explanation
Indices: 30854696--30854927 Score: 374
Period size: 99 Copynumber: 2.3 Consensus size: 99
30854686 TTCACATCTT
* *
30854696 AAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAATTTGAAGATTTACATTCGATAAATTTT
1 AAAGATTCTCATTTG-AATTCAAAGATTCTCATTTGAATTTGAAGATTCACATTCAATAAATTTT
*
30854761 GAGTTTCACACATCAAAGATTCTCATTTGACACTC
65 GAGTTTCACACATCAAAGATTCTCATTTGAAACTC
* * *
30854796 AAATATTCTTATTTGAATTCAAATATTCTCATTTGAATTTGAAGATTCACATTCAATAAATTTTG
1 AAAGATTCTCATTTGAATTCAAAGATTCTCATTTGAATTTGAAGATTCACATTCAATAAATTTTG
* *
30854861 AGTTTCACACCTCAAAGATTCTCATTTGAAATTC
66 AGTTTCACACATCAAAGATTCTCATTTGAAACTC
*
30854895 AAAGATTCTCATTTGAATTCAAAGATTCACATT
1 AAAGATTCTCATTTGAATTCAAAGATTCTCATT
30854928 CGATAAATTT
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 107 0.89
100 13 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (99 bp):
AAAGATTCTCATTTGAATTCAAAGATTCTCATTTGAATTTGAAGATTCACATTCAATAAATTTTG
AGTTTCACACATCAAAGATTCTCATTTGAAACTC
Found at i:30854884 original size:178 final size:180
Alignment explanation
Indices: 30854657--30855012 Score: 518
Period size: 178 Copynumber: 2.0 Consensus size: 180
30854647 TTCTAGTTCA
* * *
30854657 AAGATTCACATCCTAACAAACTTTAGGGTTTCACATCTTAAAGATTCTCATTTGAAATTCAAAGA
1 AAGATTCACATCCTAACAAACTTTAGAGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGA
** *
30854722 TTCTCATTTGAATTTGAAGATTTACATTCGATAAATTTTGAGTTTCACACATCAAAGATTCTCAT
66 TTCTCATTTGAATTCAAAGATTCACATTCGATAAATTTTGAGTTTCACACATCAAAGATTCTCAT
* * * * *
30854787 TTGACACTCAAATATTCTTATTTGAATTCAAATATTCTCATTTGAATTTG
131 TTGAAACTCAAAGATTCTTATTTGAATTCAAAGATCCTAATTTGAATTTG
* * *
30854837 AAGATTCACATTC-AATAAA-TTTTGAGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGA
1 AAGATTCACATCCTAACAAACTTTAGAGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGA
* * * *
30854900 TTCTCATTTGAATTCAAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCACAGTTTCTCAT
66 TTCTCATTTGAATTCAAAGATTCACATTCGATAAATTTTGAGTTTCACACATCAAAGATTCTCAT
* *
30854965 TTGAAATTTAAAGATTCTTATTTGAATTCAAAGATCCTAATTTGAATT
131 TTGAAACTCAAAGATTCTTATTTGAATTCAAAGATCCTAATTTGAATT
30855013 CAAATATTCT
Statistics
Matches: 156, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
178 139 0.89
179 5 0.03
180 12 0.08
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (180 bp):
AAGATTCACATCCTAACAAACTTTAGAGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAGA
TTCTCATTTGAATTCAAAGATTCACATTCGATAAATTTTGAGTTTCACACATCAAAGATTCTCAT
TTGAAACTCAAAGATTCTTATTTGAATTCAAAGATCCTAATTTGAATTTG
Found at i:30854908 original size:79 final size:79
Alignment explanation
Indices: 30854793--30854999 Score: 308
Period size: 79 Copynumber: 2.6 Consensus size: 79
30854783 TCATTTGACA
* * * **
30854793 CTCAAATATTCTTATTTG-AATTCAAATATTCTCATTTGAATTTGAAGATTCACATTCAATAAAT
1 CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAATTCAAAGATTCACATTCAATAAAT
30854857 TTTGAGTTTCACAC
66 TTTGAGTTTCACAC
*
30854871 CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAATTCAAAGATTCACATTCGATAAAT
1 CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAATTCAAAGATTCACATTCAATAAAT
*
30854936 TTTGGGTTTCACAC
66 TTTGAGTTTCACAC
* * * *
30854950 CTCACAGTTTCTCATTTGAAATTTAAAGATTCTTATTTGAATTCAAAGAT
1 CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAATTCAAAGAT
30855000 CCTAATTTGA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
78 16 0.14
79 101 0.86
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (79 bp):
CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTGAATTCAAAGATTCACATTCAATAAAT
TTTGAGTTTCACAC
Found at i:30855076 original size:14 final size:14
Alignment explanation
Indices: 30855054--30855096 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
30855044 TATTTGACAA
30855054 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
*
30855068 TTAAGGATT-T--T
1 TTAAAGATTCTCAT
30855079 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
30855093 TTAA
1 TTAA
30855097 GAAATCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.38
12 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (14 bp):
TTAAAGATTCTCAT
Found at i:30856049 original size:20 final size:20
Alignment explanation
Indices: 30856024--30856069 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
30856014 TCTATTAACT
*
30856024 ATCAAAATCATTTTGAGCTC
1 ATCAAAATCATTTTGAGCTA
*
30856044 ATCAAAATTATTTTGAGCTA
1 ATCAAAATCATTTTGAGCTA
30856064 ATCAAA
1 ATCAAA
30856070 CTTTGCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (20 bp):
ATCAAAATCATTTTGAGCTA
Found at i:30856219 original size:24 final size:23
Alignment explanation
Indices: 30856192--30856253 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
30856182 TCAATTTGAG
30856192 TCTTTCTTTTTATATTTTTTTTTC
1 TCTTT-TTTTTATATTTTTTTTTC
* *
30856216 TCTTTTTTTTTTCTTTTTTTTT-
1 TCTTTTTTTTATATTTTTTTTTC
*
30856238 TC-ATTTTTTAT-TTTTT
1 TCTTTTTTTTATATTTTT
30856254 CATTTTGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 2 0.06
23 15 0.44
24 5 0.15
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (23 bp):
TCTTTTTTTTATATTTTTTTTTC
Found at i:30856221 original size:12 final size:11
Alignment explanation
Indices: 30856192--30856251 Score: 66
Period size: 12 Copynumber: 5.1 Consensus size: 11
30856182 TCAATTTGAG
*
30856192 TCTTTCTTTTTA
1 TCTTT-TTTTTT
*
30856204 TATTTTTTTTT
1 TCTTTTTTTTT
30856215 CTCTTTTTTTTT
1 -TCTTTTTTTTT
30856227 TCTTTTTTTTT
1 TCTTTTTTTTT
30856238 TCATTTTTTATTT
1 TC-TTTTTT-TTT
30856251 T
1 T
30856252 TTCATTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
11 18 0.43
12 20 0.48
13 4 0.10
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:30856222 original size:13 final size:12
Alignment explanation
Indices: 30856206--30856266 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 12
30856196 TCTTTTTATA
30856206 TTTTTTTTTCTCT
1 TTTTTTTTTCT-T
30856219 TTTTTTTTTC-T
1 TTTTTTTTTCTT
30856230 TTTTTTTTTCATTT
1 TTTTTTTTTC--TT
*
30856244 TTTATTTTTTCAT
1 TTT-TTTTTTCTT
*
30856257 TTTGTTTTTC
1 TTTTTTTTTC
30856267 CATCCATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 11 0.26
12 6 0.14
13 14 0.33
14 4 0.10
15 7 0.17
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:30856251 original size:15 final size:14
Alignment explanation
Indices: 30856206--30856265 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 14
30856196 TCTTTTTATA
*
30856206 TTTTTTTTTC-TCT
1 TTTTTTTTTCATTT
30856219 TTTTTTTTTC---T
1 TTTTTTTTTCATTT
30856230 TTTTTTTTTCATTT
1 TTTTTTTTTCATTT
30856244 TTTATTTTTTCATTT
1 TTT-TTTTTTCATTT
30856259 TGTTTTT
1 T-TTTTT
30856266 CCATCCATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.26
13 10 0.24
14 4 0.10
15 15 0.36
16 2 0.05
ACGTcount: A:0.05, C:0.08, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTCATTT
Found at i:30856264 original size:12 final size:12
Alignment explanation
Indices: 30856205--30856266 Score: 65
Period size: 12 Copynumber: 5.0 Consensus size: 12
30856195 TTCTTTTTAT
30856205 ATTTTTTTTTCTC
1 ATTTTTTTTT-TC
30856218 -TTTTTTTTTTC
1 ATTTTTTTTTTC
30856229 -TTTTTTTTTTC
1 ATTTTTTTTTTC
30856240 ATTTTTTATTTTTTC
1 A--TTTT-TTTTTTC
*
30856255 ATTTTGTTTTTC
1 ATTTTTTTTTTC
30856267 CATCCATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
11 13 0.30
12 15 0.34
13 4 0.09
14 4 0.09
15 8 0.18
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (12 bp):
ATTTTTTTTTTC
Found at i:30859901 original size:25 final size:25
Alignment explanation
Indices: 30859873--30859932 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
30859863 TCCAATAGCC
30859873 TTAAAAATTACTAAGTAATTAATTA
1 TTAAAAATTACTAAGTAATTAATTA
30859898 TTAAAAATTACTAAGTAATTAATTA
1 TTAAAAATTACTAAGTAATTAATTA
30859923 TTAAAAATTA
1 TTAAAAATTA
30859933 TCCTTAATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (25 bp):
TTAAAAATTACTAAGTAATTAATTA
Found at i:30860396 original size:58 final size:58
Alignment explanation
Indices: 30860159--30860518 Score: 330
Period size: 59 Copynumber: 6.0 Consensus size: 58
30860149 TACTTTTATA
* *
30860159 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAACATTTTTCTTCAAA-TTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTT-TT-AAATTTTTATTTT
* * * * * * *
30860218 TAAGAAAAATTGGTACTTCCAACTTTTTCTCAAGAAATTTTTTTTTTTAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAA-AAA-TATTTTTTTAAATTTTTATTTT
* * ** * *
30860278 CAAGAAAAATTAATACTTTCAACTTTTTCTTAAAAATCCCTTCTTGAAATCTTTTTTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-ATTTTTTTAAA------TTTTTATTTT
**
30860343 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTGAAAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTAAATTTTTATTTT
* * * * * * *
30860401 TAAAAAAAATTAATACTTTCAACTTTCCCTCAAAAATATTTTTTTTTAATTTTTATGTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTTTTTAAATTTTTATTTT
* *
30860460 CAA-AGAAAATTGATACATTCAAC-TTTCCTTTAAAAATATATTTTTTAAATTTTCATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCC-TTAAAAATAT-TTTTTTAAATTTTTATTTT
30860519 AAATAGATCA
Statistics
Matches: 246, Mismatches: 41, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
58 50 0.20
59 98 0.40
60 42 0.17
61 5 0.02
64 6 0.02
65 45 0.18
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTAAATTTTTATTTT
Found at i:30860436 original size:123 final size:125
Alignment explanation
Indices: 30860209--30860437 Score: 318
Period size: 123 Copynumber: 1.8 Consensus size: 125
30860199 TTTCTTCAAA
* * * * ***
30860209 TTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTTCTCAAGAAATTTTTTTTTTTAATTTTTA
1 TTTTATTTTCAAGAAAAATTGATACTTCCAACTTTTCCTCAAGAAATTATTTTTGAAAATTTTTA
* ** *
30860274 TTTTCAAGAAAAATTAATACTTTCAACTTTTTCTTAAAAATCCCTTCTTGAAATCTTTTT
66 TTTTCAAAAAAAATTAATACTTTCAACTTTCCCTCAAAAATCCCTTCTTGAAATCTTTTT
* *
30860334 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAA-AAA-TATTTTTGAAAATTTTTA
1 TTTTATTTTCAAGAAAAATTGATACTTCCAACTTTTCCTCAAGAAATTATTTTTGAAAATTTTTA
*
30860397 TTTTTAAAAAAAATTAATACTTTCAACTTTCCCTCAAAAAT
66 TTTTCAAAAAAAATTAATACTTTCAACTTTCCCTCAAAAAT
30860438 ATTTTTTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 50 0.56
124 3 0.03
125 37 0.41
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (125 bp):
TTTTATTTTCAAGAAAAATTGATACTTCCAACTTTTCCTCAAGAAATTATTTTTGAAAATTTTTA
TTTTCAAAAAAAATTAATACTTTCAACTTTCCCTCAAAAATCCCTTCTTGAAATCTTTTT
Found at i:30861196 original size:22 final size:23
Alignment explanation
Indices: 30861140--30861198 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
30861130 AAATTTCGTC
*
30861140 AAAAT-CTAAAAATTTTCAAAAA
1 AAAATCCTAAAAATTCTCAAAAA
* * *
30861162 AAAAACACCAAAAATTCT-AGAAA
1 AAAATC-CTAAAAATTCTCAAAAA
30861185 AAAATCCTAAAAAT
1 AAAATCCTAAAAAT
30861199 CTTAAAATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 11 0.38
23 9 0.31
24 9 0.31
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAATCCTAAAAATTCTCAAAAA
Found at i:30861598 original size:29 final size:29
Alignment explanation
Indices: 30861581--30861639 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
30861571 TAAAATAAAT
*
30861581 AATAATAATAAAATAAAAAATAAAA-ACCAG
1 AATAA-AATAAAATAAAAAATAAAATA-AAG
30861611 AATAAAATAAAATAAAAAATAAAAATAAA
1 AATAAAATAAAATAAAAAAT-AAAATAAA
30861640 AAACAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 15 0.58
30 10 0.38
31 1 0.04
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (29 bp):
AATAAAATAAAATAAAAAATAAAATAAAG
Found at i:30861599 original size:6 final size:6
Alignment explanation
Indices: 30861565--30861641 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 6
30861555 TCCTATTATC
* ** *
30861565 TAAAAA T-AAAA TAAATAA TAATAA T-AAAA TAAAAAA TAAAAA CCAGAA
1 TAAAAA TAAAAA TAAA-AA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA
30861613 T-AAAA T-AAAA TAAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA
30861642 ACAAACAGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 18 0.31
6 25 0.43
7 15 0.26
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:30862506 original size:236 final size:235
Alignment explanation
Indices: 30861866--30862544 Score: 769
Period size: 237 Copynumber: 2.9 Consensus size: 235
30861856 ACAAAAAATT
* * * * * * * *
30861866 TAAATTGACGTGACGAAATTGTAATGTCATTAATAATTAACTAAAGTATTCAATCTGTGACAAAA
1 TAAATTGACATAACGAAATTGTAATATCATTAATAGTTAACTAAAGTGTTCAATTTATGATAAAA
* * *
30861931 ATTAATAACGTTACCTAAAATTTATCAAAAAACATTGTCACAGATAAAATTTTAAATTAGTGATA
66 ATTAATAACGTCACCTAAAATTTATCAAAAAA-ATTGTCACAGATAAAATTTTTAATTAGTGACA
* * * * * *** *
30861996 CATTTATAAAGCCACTTAAAATTAAAAAAATGTCACAAAAAATTTTTTTGCCAAATAAAATTGAC
130 AAATTATAAAGTCACCTAAAA-TAAAAAAATGTCACAAAAAAATTTTCCACCAAATAAATTTGAC
* * * *
30862061 AGTAAAAGTTTGTAACATTTATGTTATCATCATATAATACCA
194 GGTAAAAATTTGTAACATTTATATTATCATCATATAACACCA
* * * *
30862103 TAAAAT-AAAGGTGAA-AAAATTGTAATATCATTAATAGTTAACTAAAATGTT-ACATTTATGAT
1 TAAATTGACA--T-AACGAAATTGTAATATCATTAATAGTTAACTAAAGTGTTCA-ATTTATGAT
* * * * * **
30862165 AAAAATTGATAACATCACCTAAAATCTATTAGAAAAAATCGTCATGGAT-AAATTTTTAAATTAG
62 AAAAATTAATAACGTCACCTAAAATTTATCA-AAAAAATTGTCACAGATAAAATTTTT-AATTAG
* * * *
30862229 TGACAGAATT-TAAACATCACCTAAAATAAAAAAACGTCACAAAAAAATTTTCCACCAATTAAAT
125 TGACAAAATTATAAA-GTCACCTAAAATAAAAAAATGTCACAAAAAAATTTTCCACCAAATAAAT
* * *
30862293 TTGGCGGTAAAAATTTGTAACATTTATATTATCGTCATATACCACCA
189 TTGACGGTAAAAATTTGTAACATTTATATTATCATCATATAACACCA
* *
30862340 TACATTGACATAACGAAATTGTAATATCGTTAATAGTTAACTAAAGTGTTCAATTTATGATAAAA
1 TAAATTGACATAACGAAATTGTAATATCATTAATAGTTAACTAAAGTGTTCAATTTATGATAAAA
* *
30862405 ATTAATAACGTCACTTAAAATTTATCAAAAAAATTTTGTCACAGATAAAATTTTTAATTGGTGAC
66 ATTAATAACGTCACCTAAAATTTATCAAAAAAA--TTGTCACAGATAAAATTTTTAATTAGTGAC
* * *
30862470 AAAATTATAATGTCACCTAAAAT-AAAAAATGTCACAAAAATATTTCCCACCAAATAAATTTGAC
129 AAAATTATAAAGTCACCTAAAATAAAAAAATGTCACAAAAAAATTTTCCACCAAATAAATTTGAC
30862534 GGT-AAAATTTG
194 GGTAAAAATTTG
30862545 GCAGCGAAAT
Statistics
Matches: 364, Mismatches: 64, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
235 16 0.04
236 109 0.30
237 126 0.35
238 107 0.29
239 6 0.02
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (235 bp):
TAAATTGACATAACGAAATTGTAATATCATTAATAGTTAACTAAAGTGTTCAATTTATGATAAAA
ATTAATAACGTCACCTAAAATTTATCAAAAAAATTGTCACAGATAAAATTTTTAATTAGTGACAA
AATTATAAAGTCACCTAAAATAAAAAAATGTCACAAAAAAATTTTCCACCAAATAAATTTGACGG
TAAAAATTTGTAACATTTATATTATCATCATATAACACCA
Found at i:30865091 original size:22 final size:22
Alignment explanation
Indices: 30865066--30865107 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30865056 TTATCTATCC
* *
30865066 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
30865088 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
30865108 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:30869429 original size:52 final size:52
Alignment explanation
Indices: 30869358--30869514 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
30869348 TATAACCATA
* * *
30869358 CAAACTTACCCATTAAGAATCTCTCTCCTCTTAGAATTCTTTTCCTATAAGT
1 CAAACTTACCTATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTACAAGT
* * * * * *
30869410 TAAACTTACCTATTAAGAATCTCTTTCTTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTACAAGT
* * **
30869462 CAAACTTAACTATTAAGAATC-CTCTTTCTCTTAGAATTCTTCTTTTACAAGT
1 CAAACTTACCTATTAAGAATCTCTC-TCCTCTTAGAATTCTTCTCCTACAAGT
30869514 C
1 C
30869515 TTCTTGTCCA
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:30869554 original size:11 final size:11
Alignment explanation
Indices: 30869538--30869602 Score: 87
Period size: 11 Copynumber: 5.9 Consensus size: 11
30869528 AGCAATATCT
30869538 AACAAATCTCA
1 AACAAATCTCA
**
30869549 AACAAATCTTT
1 AACAAATCTCA
30869560 AACAAATC-CTA
1 AACAAATCTC-A
*
30869571 AACAAATCTCT
1 AACAAATCTCA
30869582 AACAAATCTCA
1 AACAAATCTCA
30869593 AACAAATCTC
1 AACAAATCTC
30869603 TTATGGGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
11 45 0.98
12 1 0.02
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:30869562 original size:22 final size:22
Alignment explanation
Indices: 30869535--30869603 Score: 113
Period size: 22 Copynumber: 3.1 Consensus size: 22
30869525 TCTAGCAATA
30869535 TCTAACAAATCTCAAACAAATC
1 TCTAACAAATCTCAAACAAATC
*
30869557 TTTAACAAATC-CTAAACAAATC
1 TCTAACAAATCTC-AAACAAATC
30869579 TCTAACAAATCTCAAACAAATC
1 TCTAACAAATCTCAAACAAATC
30869601 TCT
1 TCT
30869604 TATGGGATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.02
22 41 0.95
23 1 0.02
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
TCTAACAAATCTCAAACAAATC
Found at i:30869580 original size:33 final size:33
Alignment explanation
Indices: 30869538--30869600 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
30869528 AGCAATATCT
**
30869538 AACAAATCTCAAACAAATCTTTAACAAATCCTA
1 AACAAATCTCAAACAAATCTCAAACAAATCCTA
*
30869571 AACAAATCTCTAACAAATCTCAAACAAATC
1 AACAAATCTCAAACAAATCTCAAACAAATC
30869601 TCTTATGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.22
Consensus pattern (33 bp):
AACAAATCTCAAACAAATCTCAAACAAATCCTA
Found at i:30870517 original size:52 final size:52
Alignment explanation
Indices: 30870433--30870574 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
30870423 CCATAGAAAG
* * *
30870433 TTACCCATTAAGAATCCCTCTCCTTTTAGAATTCTTCTCCTGTAAGTCAAAC
1 TTACCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGTCAAAC
* * * * *
30870485 TTGCCTATTAAAAATCCCTTTCCTTTTAGAATTTTTTTCTTGCAAGTCAAAC
1 TTACCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGTCAAAC
*
30870537 TTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCT
1 TTACCTATTAAGAATCC-CTTTCCTTTTAGAATTCTTCT
30870575 TTTGCAAATC
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 72 0.95
53 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (52 bp):
TTACCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGTCAAAC
Found at i:30880640 original size:19 final size:19
Alignment explanation
Indices: 30880618--30880654 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30880608 TTTTGTCAAA
*
30880618 TTTTTT-AATTTAAATATT
1 TTTTTTAAATGTAAATATT
30880636 TTTTTTAAATGTAAATATT
1 TTTTTTAAATGTAAATATT
30880655 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTAAATGTAAATATT
Found at i:30899258 original size:23 final size:21
Alignment explanation
Indices: 30899215--30899259 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
30899205 TATATCAAAT
* *
30899215 AAAAATAAATTGTATTTTTAA
1 AAAAATAAATTATATTATTAA
30899236 AAAAATAAAATATATATTATTAA
1 AAAAAT-AAAT-TATATTATTAA
30899259 A
1 A
30899260 TGATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAAATAAATTATATTATTAA
Found at i:30901219 original size:15 final size:16
Alignment explanation
Indices: 30901199--30901228 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30901189 TTTCTTGTAA
30901199 AATTTTAT-TTAATTT
1 AATTTTATATTAATTT
30901214 AATTTTATATTAATT
1 AATTTTATATTAATT
30901229 AAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTTATATTAATTT
Found at i:30901236 original size:16 final size:17
Alignment explanation
Indices: 30901196--30901236 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
30901186 TACTTTCTTG
30901196 TAAAATTT-TATTTAAT
1 TAAAATTTATATTTAAT
* *
30901212 TTAATTTTATA-TTAAT
1 TAAAATTTATATTTAAT
30901228 TAAAATTTA
1 TAAAATTTA
30901237 AAATAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAAATTTATATTTAAT
Found at i:30901772 original size:12 final size:12
Alignment explanation
Indices: 30901755--30901779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30901745 ATAATATGTA
30901755 AAAAAATTATTT
1 AAAAAATTATTT
30901767 AAAAAATTATTT
1 AAAAAATTATTT
30901779 A
1 A
30901780 TAATTCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAAATTATTT
Done.