Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 33 of 163
Found at i:8773799 original size:11 final size:11
Alignment explanation
Indices: 8773779--8773861 Score: 69
Period size: 11 Copynumber: 7.5 Consensus size: 11
8773769 TGTTTAGTAT
*
8773779 TTTAATTTTAA
1 TTTAAATTTAA
8773790 TTTAAATTTAAA
1 TTTAAATTT-AA
* *
8773802 TTTAAAGTAAA
1 TTTAAATTTAA
8773813 TTTAAATTTAA
1 TTTAAATTTAA
**
8773824 GATAAATTTAAA
1 TTTAAATTT-AA
*
8773836 TTTAAA-TAAA
1 TTTAAATTTAA
* *
8773846 TTTAAAATCAA
1 TTTAAATTTAA
8773857 TTTAA
1 TTTAA
8773862 CTCCAAATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
10 8 0.14
11 35 0.60
12 15 0.26
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:8773805 original size:6 final size:6
Alignment explanation
Indices: 8773777--8773851 Score: 79
Period size: 6 Copynumber: 13.2 Consensus size: 6
8773767 AATGTTTAGT
* * *
8773777 ATTTTA ATTTTA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
8773824 GA--TAA ATTTAA ATTTAA A--TAA ATTTAA A
1 -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
8773852 ATCAATTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
4 5 0.08
5 7 0.12
6 47 0.78
7 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:8773805 original size:17 final size:17
Alignment explanation
Indices: 8773779--8773851 Score: 96
Period size: 17 Copynumber: 4.4 Consensus size: 17
8773769 TGTTTAGTAT
* *
8773779 TTTAATTTTAATTTAAA
1 TTTAAATTTAATATAAA
8773796 TTTAAATTTAA-AGTAAA
1 TTTAAATTTAATA-TAAA
*
8773813 TTTAAATTTAAGATAAA
1 TTTAAATTTAATATAAA
8773830 TTTAAATTTAA-ATAAA
1 TTTAAATTTAATATAAA
8773846 TTTAAA
1 TTTAAA
8773852 ATCAATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
16 11 0.21
17 40 0.77
18 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAATATAAA
Found at i:8773853 original size:17 final size:16
Alignment explanation
Indices: 8773792--8773851 Score: 102
Period size: 17 Copynumber: 3.6 Consensus size: 16
8773782 AATTTTAATT
8773792 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
8773808 GTAAATTTAAATTTAAGA
1 -TAAATTTAAATTTAA-A
8773826 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
8773842 TAAATTTAAA
1 TAAATTTAAA
8773852 ATCAATTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
16 11 0.26
17 30 0.71
18 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:8773869 original size:27 final size:27
Alignment explanation
Indices: 8773815--8773869 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
8773805 AAAGTAAATT
* **
8773815 TAAATTTAAGATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
* *
8773842 TAAATTTAAAATCAATTTAACTCCAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
8773869 T
1 T
8773870 TAAAACCAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCCAAA
Found at i:8774224 original size:38 final size:38
Alignment explanation
Indices: 8774173--8774885 Score: 298
Period size: 38 Copynumber: 19.4 Consensus size: 38
8774163 CTATCCAACT
*
8774173 TTACTTCAATTTCAAGAGGATGGGAAAAGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* * * **
8774211 TTACTTCAATTTC-AGA-GATAAAGACGTAATATCCAGCT-
1 TTACTTCAATTTCAAGAGGAT-AGGA--AAAGATCTTGCTC
*
8774249 TTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* * * ***
8774287 TTACTTC-A----AAGA--CT-TG---ATATCCAACT-
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
*
8774313 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTGGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* * * **
8774351 TTACTTC-A----AAGA--CT-TG---ATATCCAGCT-
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
8774377 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* *** ***
8774415 TTACTTCAATTTC-AGA-GATAAAGACGTGTTATCCAACTC
1 TTACTTCAATTTCAAGAGGAT-AGGAAAAG--ATCTTGCTC
* *
8774454 -TACTTCAATTTCAAGCGGATAGGAAAAGATCTGGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
** ** * *
8774491 TTACTTCAATTTTC-AGA-GAT--GACGACTTGTTGCCCAAC
1 TTACTTCAA-TTTCAAGAGGATAGGAAAAGATCTTG--C-TC
8774529 TCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
*** * *
8774568 TTACTTCAATTTC-AGA-GATAAGGACTTG-T-TGTCCAAC
1 TTACTTCAATTTCAAGAGGAT-AGGAAAAGATCT-TGC-TC
8774605 TCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* ** * *
8774644 TTACTTCAATTTC-AGA-GATA--AAGACTTGCTGTCCAAC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGAT-CT-TGC-TC
8774681 TCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* *** **
8774720 TTACTTCAATTTC-AGA-GATAAAGACTTGTTATCTCACTC
1 TTACTTCAATTTCAAGAGGAT-AGGAAAAG--ATCTTGCTC
* * *
8774759 -TACTTCAATTTCAAGAGGATAGGAAACGATGTTACTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
* *** ***
8774796 TTACTTCAATTTC-AGA-GATAATGACTTGTTATCCCACTC
1 TTACTTCAATTTCAAGAGGAT-AGGAAAAG--ATCTTGCTC
* *
8774835 -TACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
*
8774872 TTACCTCAATTTCA
1 TTACTTCAATTTCA
8774886 GAGATAATGA
Statistics
Matches: 490, Mismatches: 112, Indels: 146
0.66 0.15 0.20
Matches are distributed among these distances:
26 14 0.03
27 15 0.03
30 2 0.00
31 10 0.02
33 9 0.02
34 6 0.01
35 9 0.02
36 24 0.05
37 86 0.18
38 189 0.39
39 84 0.17
40 28 0.06
41 3 0.01
42 11 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
Found at i:8774275 original size:76 final size:76
Alignment explanation
Indices: 8774148--8775014 Score: 1100
Period size: 76 Copynumber: 11.8 Consensus size: 76
8774138 TGCTCTTTAG
* * *
8774148 AGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATGGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774213 ACTTCAATTTC
66 ACTTCAATTTC
* ** * * *
8774224 AGAGATAAAGACGTAATATCCAGCTTTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774289 A---C---TTC
66 ACTTCAATTTC
* * *
8774294 ------AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTGGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774353 A---C---TTC
66 ACTTCAATTTC
* * *
8774358 ------AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774417 ACTTCAATTTC
66 ACTTCAATTTC
* * *
8774428 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAAAGATCTGGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774493 ACTTCAATTTTC
66 ACTTCAA-TTTC
* * **
8774505 AGAGATGACGACTTGTTGCCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774570 ACTTCAATTTC
66 ACTTCAATTTC
* *
8774581 AGAGATAAGGACTTGTTGTCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774646 ACTTCAATTTC
66 ACTTCAATTTC
* *
8774657 AGAGATAAAGACTTGCTGTCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774722 ACTTCAATTTC
66 ACTTCAATTTC
* * *
8774733 AGAGATAAAGACTTGTTATCTC-ACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTACTCT
1 AGAGATAAAGACTTGTTATC-CAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCT
8774797 TACTTCAATTTC
65 TACTTCAATTTC
* * * *
8774809 AGAGATAATGACTTGTTATCCCACTCTACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
*
8774874 ACCTCAATTTC
66 ACTTCAATTTC
* * * *
8774885 AGAGATAATGACTTGTTATCTAGCTCTACTTCAATTTCAAGAGGAT--G---ACA--TTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
8774943 ACTTCAATTTC
66 ACTTCAATTTC
* * *
8774954 AGAGATAAAGA-TGTGTTATCCAACTTTACTTCAATTTCAAGCGGATAGGAAAAAAT-TTGCT
1 AGAGATAAAGACT-TGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCT
8775015 GTGGTCTGAT
Statistics
Matches: 718, Mismatches: 51, Indels: 45
0.88 0.06 0.06
Matches are distributed among these distances:
64 117 0.16
67 1 0.00
68 1 0.00
69 57 0.08
70 6 0.01
71 2 0.00
73 1 0.00
74 3 0.00
75 6 0.01
76 454 0.63
77 70 0.10
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
ACTTCAATTTC
Found at i:8774333 original size:64 final size:64
Alignment explanation
Indices: 8774230--8774423 Score: 343
Period size: 64 Copynumber: 3.0 Consensus size: 64
8774220 TTTCAGAGAT
* * *
8774230 AAAGACGTAATATCCAGCTTTACTTCAATTTCAAAAGGATAGGAAAAGATCTTGCTCTTACTTC
1 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTC
* *
8774294 AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTGGCTCTTACTTC
1 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTC
8774358 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTC
1 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTC
8774422 AA
1 AA
8774424 TTTCAGAGAT
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 123 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (64 bp):
AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTC
Found at i:8774984 original size:69 final size:69
Alignment explanation
Indices: 8774866--8774999 Score: 198
Period size: 69 Copynumber: 1.9 Consensus size: 69
8774856 GGAAACGATG
* * *
8774866 TTGCTCTTACCTCAATTTCAGAGATAATGACTTGTTATCTAGCTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACCTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
8774931 GACA
66 GACA
* * *
8774935 TTGCTCTTACTTCAATTTCAGAGATAAAGA-TGTGTTATCCAACTTTACTTCAATTTCAAGCGGA
1 TTGCTCTTACCTCAATTTCAGAGATAAAGACT-TGTTATCCAACTCTACTTCAATTTCAAGAGGA
8774999 T
65 T
8775000 AGGAAAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 1 0.02
69 57 0.98
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37
Consensus pattern (69 bp):
TTGCTCTTACCTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
GACA
Found at i:8787377 original size:59 final size:59
Alignment explanation
Indices: 8787123--8787553 Score: 468
Period size: 59 Copynumber: 7.4 Consensus size: 59
8787113 TTTGGACACC
* * * * * * *
8787123 CGGGGGCAAAATGGTAA-TTATGGTGAAGTC-AGGTTAAAAAATAGAATTTTTGAGAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTAGAAAGTT
* * *
8787181 CGAGGGTAAAACGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGTATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
** * * * *
8787239 TAGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGTATTTT-GGAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8787297 TGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGTATTTTAGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
* *
8787356 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
* * *
8787415 CGGAGGTAAAATGGTAATTTTT-G-GAAGTTTCGAGGTTAAAAATGGAATTTTA-AAAGGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTAGAAA-GTT
* * *
8787474 TGGGGGTAAAATGGTAATTTTT-G-GAAGTTTTGGGGTTAAAAATGGAATTTTA-AAAGGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTAGAAA-GTT
* *
8787533 TGGGGGTAAAATGGTGATTTT
1 CGGGGGTAAAATGGTAATTTT
8787554 GGAAGTTTTG
Statistics
Matches: 329, Mismatches: 37, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
57 3 0.01
58 119 0.36
59 203 0.62
60 4 0.01
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
Found at i:8787563 original size:29 final size:28
Alignment explanation
Indices: 8787212--8787561 Score: 214
Period size: 29 Copynumber: 12.0 Consensus size: 28
8787202 TGGTGAAATC
* *
8787212 GGGGTTAAAATGGT-ATTTTAGAAAGTTT
1 GGGGGTAAAATGGTAATTTT-GGAAGTTT
* *
8787240 AGGGGTAAAATGGTAATTTTCGGTGAA-ATT
1 GGGGGTAAAATGGTAATTTT--G-GAAGTTT
*
8787270 GGGGTTAAAAATGGT-ATTTTGGAAGTTT
1 GGGGGT-AAAATGGTAATTTTGGAAGTTT
* *
8787298 GGGGGTAAAATGGTAATTTTTGATGAA-ATC
1 GGGGGTAAAATGGTAA-TTTTG--GAAGTTT
* * *
8787328 GGGGTTAAAAATGGT-ATTTTAGAAAGTTC
1 GGGGGT-AAAATGGTAATTTT-GGAAGTTT
* *
8787357 GGGGGTAAAATGGTAATTTTTGGTGAA-ATC
1 GGGGGTAAAATGGTAA-TTTT-G-GAAGTTT
* * *
8787387 GGGGTTAAAAATAG-AATTTTGGAAAGTTC
1 GGGGGT-AAAATGGTAATTTTGG-AAGTTT
*
8787416 GGAGGTAAAATGGTAATTTTTGGAAGTTT
1 GGGGGTAAAATGGTAA-TTTTGGAAGTTT
* * **
8787445 CGAGGTTAAAAATGG-AATTTTAAAAGGTTT
1 -GGGGGT-AAAATGGTAATTTTGGAA-GTTT
8787475 GGGGGTAAAATGGTAATTTTTGGAAGTTTT
1 GGGGGTAAAATGGTAA-TTTTGGAAG-TTT
* **
8787505 GGGGTTAAAAATGG-AATTTTAAAAGGTTT
1 GGGGGT-AAAATGGTAATTTTGGAA-GTTT
*
8787534 GGGGGTAAAATGGTGATTTTGGAAGTTT
1 GGGGGTAAAATGGTAATTTTGGAAGTTT
8787562 TGAGGACCTA
Statistics
Matches: 252, Mismatches: 41, Indels: 58
0.72 0.12 0.17
Matches are distributed among these distances:
27 12 0.05
28 58 0.23
29 73 0.29
30 66 0.26
31 43 0.17
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (28 bp):
GGGGGTAAAATGGTAATTTTGGAAGTTT
Found at i:8789410 original size:6 final size:6
Alignment explanation
Indices: 8789396--8789484 Score: 98
Period size: 6 Copynumber: 15.2 Consensus size: 6
8789386 AATGTTTAGT
* *
8789396 ATTTTA ATTTAA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA
8789445 ATTTAA ATTTAA GA--TAA ATTTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
8789485 ATCAATTTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
4 5 0.07
5 7 0.10
6 53 0.74
7 1 0.01
8 6 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:8789450 original size:37 final size:37
Alignment explanation
Indices: 8789404--8789477 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
8789394 GTATTTTAAT
8789404 TTAAATTTAAATTTAA-ATTTAAA-GTAAATTTAAATAA
1 TTAAATTTAAATTTAAGA--TAAATGTAAATTTAAATAA
*
8789441 TTAAATTTAAATTTAAGATAAATTTAAATTTAAATAA
1 TTAAATTTAAATTTAAGATAAATGTAAATTTAAATAA
8789478 ATTTAAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 4 0.12
37 29 0.85
38 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (37 bp):
TTAAATTTAAATTTAAGATAAATGTAAATTTAAATAA
Found at i:8789486 original size:11 final size:11
Alignment explanation
Indices: 8789405--8789494 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
8789395 TATTTTAATT
*
8789405 TAAATTTAAATT
1 TAAATTTAAA-A
*
8789417 TAAATTTAAAG
1 TAAATTTAAAA
8789428 TAAATTTAAATAA
1 TAAATTT-AA-AA
*
8789441 TTAAATTTAAAT
1 -TAAATTTAAAA
* ** *
8789453 TTAAGATAAATT
1 TAAATTTAAA-A
8789465 TAAATTT-AAA
1 TAAATTTAAAA
8789475 TAAATTTAAAA
1 TAAATTTAAAA
*
8789486 TCAATTTAA
1 TAAATTTAA
8789495 CTCCAAATTA
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
10 7 0.11
11 27 0.44
12 18 0.29
13 3 0.05
14 7 0.11
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:8789486 original size:17 final size:16
Alignment explanation
Indices: 8789396--8789484 Score: 110
Period size: 17 Copynumber: 5.4 Consensus size: 16
8789386 AATGTTTAGT
*
8789396 ATTTTAATTTAAATTTAA
1 ATTTAAATTTAAA--TAA
8789414 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAA-TAA
*
8789431 ATTTAAA--TAATTAA
1 ATTTAAATTTAAATAA
8789445 ATTTAAATTTAAGATAA
1 ATTTAAATTTAA-ATAA
8789462 ATTTAAATTTAAATAA
1 ATTTAAATTTAAATAA
8789478 ATTTAAA
1 ATTTAAA
8789485 ATCAATTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.39
18 12 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:8789502 original size:27 final size:27
Alignment explanation
Indices: 8789448--8789502 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
8789438 TAATTAAATT
* **
8789448 TAAATTTAAGATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
* *
8789475 TAAATTTAAAATCAATTTAACTCCAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
8789502 T
1 T
8789503 TAAAACCAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCCAAA
Found at i:8792630 original size:21 final size:22
Alignment explanation
Indices: 8792606--8792648 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
8792596 CAAAACAATG
*
8792606 TAGTTTTACCTTTTAA-TTTAA
1 TAGTTTTAACTTTTAACTTTAA
8792627 TAGTTTTAACTTTTAACTTTAA
1 TAGTTTTAACTTTTAACTTTAA
8792649 AAAAGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (22 bp):
TAGTTTTAACTTTTAACTTTAA
Found at i:8799022 original size:29 final size:28
Alignment explanation
Indices: 8798990--8799155 Score: 85
Period size: 29 Copynumber: 5.7 Consensus size: 28
8798980 TGGATACCAA
8798990 GGGGAAAAATGGTAACTTTTGGTAAAATC
1 GGGGAAAAATGGTAA-TTTTGGTAAAATC
*
8799019 GGGGTTAAAAAT-G-AATTTT--TAGAAAGCTT
1 GGGG--AAAAATGGTAATTTTGGTA-AAA--TC
* *
8799048 GGGGTAAAATGGTAATTTTTGGTGAAATC
1 GGGGAAAAATGGTAA-TTTTGGTAAAATC
* * *
8799077 GGAGTCAAAAATGG-AATTTTGG-AAAGTTT
1 GG-G-GAAAAATGGTAATTTTGGTAAA-ATC
*
8799106 GAGGGTAAAATGGTAATTTTGGGTAAAATC
1 G-GGGAAAAATGGTAATTTT-GGTAAAATC
*
8799136 GAGGTCAAAAATGG-AATTTT
1 G-GG-GAAAAATGGTAATTTT
8799156 AGAGAGTTTG
Statistics
Matches: 104, Mismatches: 15, Indels: 35
0.68 0.10 0.23
Matches are distributed among these distances:
26 2 0.02
27 8 0.08
28 14 0.13
29 31 0.30
30 22 0.21
31 26 0.25
32 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (28 bp):
GGGGAAAAATGGTAATTTTGGTAAAATC
Found at i:8799068 original size:58 final size:59
Alignment explanation
Indices: 8798995--8799183 Score: 274
Period size: 59 Copynumber: 3.2 Consensus size: 59
8798985 ACCAAGGGGA
* * *
8798995 AAAATGGTAACTTTTGGTAAAATCGGGGTTAAAAAT-GAATTTTTAGAAAGCTTG-GGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAA-TTTTAGAAAGTTTGAGGGT
* * *
8799053 AAAATGGTAATTTTTGGTGAAATCGGAGTCAAAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
* * *
8799112 AAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAATGGAATTTTAGAGAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
8799171 AAAATGGTAATTT
1 AAAATGGTAATTT
8799184 CCAAAAAAGT
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
58 44 0.38
59 73 0.62
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTTGAGGGT
Found at i:8799260 original size:90 final size:89
Alignment explanation
Indices: 8799178--8799408 Score: 286
Period size: 90 Copynumber: 2.6 Consensus size: 89
8799168 GGTAAAATGG
* * *
8799178 TAATTTCCAAAAAAGTTTAGGCGTCAAAATGTAATTTTGGAAAA-TTTAGGGGTTAAAATGTAAT
1 TAATTT-CAAAAAAGTTTAGG-GTCAAAATATAATTTTGGAAAAGTTTAGGGGCTAAAATATAAT
8799242 TTTGAAAAATTTTAAGGGTCAAAATA
64 TTTGAAAAATTTTAAGGGTCAAAATA
** * * *
8799268 TAATTTGGAAAAAGTTTAGGGGCTAATATATAATTTTGGAAAAGTTTAGAGGCTAAAATATAATT
1 TAATTTCAAAAAAGTTTAGGGTC-AAAATATAATTTTGGAAAAGTTTAGGGGCTAAAATATAATT
* *
8799333 TTGGAAAATTTTAAGGGTCTAAATA
65 TTGAAAAATTTTAAGGGTCAAAATA
* * *
8799358 TAATTTTAGAAAAA-ATTAGGGGTCAAAATATAATTTTAGAAAAGTTTAGGG
1 TAATTTCA-AAAAAGTTTA-GGGTCAAAATATAATTTTGGAAAAGTTTAGGG
8799409 ACCTCTAAGT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
88 2 0.02
89 29 0.24
90 80 0.67
91 9 0.08
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (89 bp):
TAATTTCAAAAAAGTTTAGGGTCAAAATATAATTTTGGAAAAGTTTAGGGGCTAAAATATAATTT
TGAAAAATTTTAAGGGTCAAAATA
Found at i:8799407 original size:30 final size:30
Alignment explanation
Indices: 8799188--8799408 Score: 243
Period size: 30 Copynumber: 7.4 Consensus size: 30
8799178 TAATTTCCAA
* *
8799188 AAAAGTTTAGGCGTCAAAATGTAATTTTGG
1 AAAAGTTTAGGGGTCAAAATATAATTTTGG
* * *
8799218 AAAA-TTTAGGGGTTAAAATGTAATTTTGA
1 AAAAGTTTAGGGGTCAAAATATAATTTTGG
* *
8799247 AAAATTTTAAGGGTCAAAATATAA-TTTGG
1 AAAAGTTTAGGGGTCAAAATATAATTTTGG
*
8799276 AAAAAGTTTAGGGG-CTAATATATAATTTTGG
1 -AAAAGTTTAGGGGTC-AAAATATAATTTTGG
*
8799307 AAAAGTTTAGAGG-CTAAAATATAATTTTGG
1 AAAAGTTTAGGGGTC-AAAATATAATTTTGG
* * * *
8799337 AAAATTTTAAGGGTCTAAATATAATTTTAG
1 AAAAGTTTAGGGGTCAAAATATAATTTTGG
** *
8799367 AAAAAATTAGGGGTCAAAATATAATTTTAG
1 AAAAGTTTAGGGGTCAAAATATAATTTTGG
8799397 AAAAGTTTAGGG
1 AAAAGTTTAGGG
8799409 ACCTCTAAGT
Statistics
Matches: 163, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
29 31 0.19
30 126 0.77
31 6 0.04
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATATAATTTTGG
Found at i:8801142 original size:25 final size:25
Alignment explanation
Indices: 8801100--8801170 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
8801090 GTAGCAGTGG
* * * * *
8801100 TGGTGGCAGAGTAGTTTGGAGTCGG
1 TGGTGGCAGGGCAATTTGGAGCCGA
*
8801125 TGGTGGTAGGGCAATTTGGAGCCGA
1 TGGTGGCAGGGCAATTTGGAGCCGA
*
8801150 TGGTGGCAGGGCAGTTTGGAG
1 TGGTGGCAGGGCAATTTGGAG
8801171 GTGATACTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.10, G:0.48, T:0.25
Consensus pattern (25 bp):
TGGTGGCAGGGCAATTTGGAGCCGA
Found at i:8801352 original size:6 final size:6
Alignment explanation
Indices: 8801341--8801403 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
8801331 TTTGGACATT
* * * *
8801341 AATTTA AATTTA AATTT- TATGTA AATTTA AATTCA AA-ATA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
**
8801386 AATTTA AAAATA AATTTA
1 AATTTA AATTTA AATTTA
8801404 TATCCCATTG
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
5 11 0.26
6 31 0.74
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:8801382 original size:17 final size:17
Alignment explanation
Indices: 8801362--8801403 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
8801352 AAATTTTATG
*
8801362 TAAATTTAAATTCAAAA
1 TAAATTTAAATTAAAAA
*
8801379 TAAATTTAATTTAAAAA
1 TAAATTTAAATTAAAAA
8801396 TAAATTTA
1 TAAATTTA
8801404 TATCCCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTAAAAA
Found at i:8802244 original size:24 final size:24
Alignment explanation
Indices: 8802208--8802253 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8802198 TCTAACAACA
*
8802208 ATTAGTTAACCATTTTTTTATGAT
1 ATTAATTAACCATTTTTTTATGAT
*
8802232 ATTAATTATCCATTTTTTTATG
1 ATTAATTAACCATTTTTTTATG
8802254 CAAATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (24 bp):
ATTAATTAACCATTTTTTTATGAT
Found at i:8803137 original size:40 final size:41
Alignment explanation
Indices: 8802996--8803150 Score: 136
Period size: 41 Copynumber: 3.8 Consensus size: 41
8802986 GCTTGCAAGT
** ** *
8802996 GCCGCTAATGGCC-TGACCTTTAATGGCG-TTTTCGGAAAAGC
1 GCCGCTAAT-GCCTTGACCTTTAGCGGCGCTTTT-AAAAAAAC
* * * * *
8803037 GCCGCTAATGCCCTGACTTTTAGCGGCGCTTGTGAAAAAGC
1 GCCGCTAATGCCTTGACCTTTAGCGGCGCTTTTAAAAAAAC
*
8803078 GCTGCTAATGCCTTGACCTTTAGCGGCGCTTTTAAAAAAAC
1 GCCGCTAATGCCTTGACCTTTAGCGGCGCTTTTAAAAAAAC
* * * *
8803119 GCCGCTATTG-CTTTACCTTTTGCGGCGTTTTT
1 GCCGCTAATGCCTTGACCTTTAGCGGCGCTTTT
8803151 TATCCAAACG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 22 0.23
41 71 0.74
42 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (41 bp):
GCCGCTAATGCCTTGACCTTTAGCGGCGCTTTTAAAAAAAC
Found at i:8816306 original size:19 final size:19
Alignment explanation
Indices: 8816284--8816328 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8816274 TTATATTAGG
8816284 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
8816303 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
8816322 ATTTAAT
1 ATTTAAT
8816329 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:8818754 original size:21 final size:21
Alignment explanation
Indices: 8818729--8818778 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
8818719 GAATTTTAGC
*
8818729 AGCAATCTATAGATTTCCAAA
1 AGCAAACTATAGATTTCCAAA
* * *
8818750 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTCCAAA
*
8818771 AGAAAACT
1 AGCAAACT
8818779 GAGGCATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (21 bp):
AGCAAACTATAGATTTCCAAA
Found at i:8818779 original size:21 final size:21
Alignment explanation
Indices: 8818740--8818779 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8818730 GCAATCTATA
*
8818740 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
8818761 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
8818780 AGGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:8823673 original size:101 final size:103
Alignment explanation
Indices: 8823560--8823749 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 103
8823550 ATGTGTTAGA
* * * *
8823560 CTGAGTAACCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAATGCATTC-
1 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGCCAAAAGGGCCAATGCATTCT
* *
8823624 TAAA-AAAAGAGAAGAAAAAAATTGAGAGCATGTTGGG
66 TAAAGAAAAAAAAAGAAAAAAATTGAGAGCATGTTGGG
* * *
8823661 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCATTTCGCGCCAAAAGGTCCAATGTATTCT
1 CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGCCAAAAGGGCCAATGCATTCT
*
8823726 TAAAGAAAAAAAAAGGAAAAAATT
66 TAAAGAAAAAAAAAGAAAAAAATT
8823750 CACAAAATAA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 57 0.74
102 4 0.05
103 16 0.21
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (103 bp):
CTGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCGCGCCAAAAGGGCCAATGCATTCT
TAAAGAAAAAAAAAGAAAAAAATTGAGAGCATGTTGGG
Found at i:8824341 original size:19 final size:19
Alignment explanation
Indices: 8824319--8824363 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8824309 TTATATTAGG
8824319 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
8824338 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
8824357 ATTTAAT
1 ATTTAAT
8824364 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:8842484 original size:43 final size:43
Alignment explanation
Indices: 8842391--8842622 Score: 297
Period size: 43 Copynumber: 5.4 Consensus size: 43
8842381 GAAAAACGCT
* * * *
8842391 GCTATAGAACATGGTCTTTAACGGCG-TTTTACCAAAAATGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATGCC
*
8842433 GCTAAAGAACATGGTCATTAGCGGCGCTTTTCCCACAAATGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATGCC
* ** * * *
8842476 GCTAAAGAACATGGTCATTAAG-GATGCTTTTCTCACAAACGTC
1 GCTAAAGAACATGGTC-TTTAGCGGCGCTTTTCCCACAAATGCC
*
8842519 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATGCC
* * * *
8842562 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCACTCAAATGCT
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATGCC
8842605 GCTAAAGAACATGGTCTT
1 GCTAAAGAACATGGTCTT
8842623 CAACAACATT
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 27 0.16
43 134 0.82
44 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAATGCC
Found at i:8842636 original size:129 final size:127
Alignment explanation
Indices: 8842384--8842651 Score: 349
Period size: 129 Copynumber: 2.1 Consensus size: 127
8842374 TTATGAGGAA
* * *
8842384 AAACGCTGCTATAGAACATGGTCTTTAACGGCGTTTTACCAAAAATGCCGCTAAAGAACATGGTC
1 AAACGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTACCAAAAACGCCGCTAAAGAACATGGTC
* ** **
8842449 ATTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGAACATGGTCATTAAGGATGCTTTTCTCAC
66 ATTAGCGGCGCTTTTCACACAAATGCCGCTAAAGAACATGGTCATTAACAACACTTTTCT-AC
* * * * *
8842512 AAACGTCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAACGGCG-TTTTACCAAAAACGCCGCTAAAGAACATGGT
* * * *
8842577 CTTTAGCGGCGCTTTTCACTCAAATGCTGCTAAAGAACATGGTC-TTCAACAACATTTTTCTAC
65 CATTAGCGGCGCTTTTCACACAAATGCCGCTAAAGAACATGGTCATT-AACAACACTTTTCTAC
8842640 AAACGCCGCTAA
1 AAACGCCGCTAA
8842652 TAGTAACAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
128 44 0.37
129 76 0.63
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (127 bp):
AAACGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTACCAAAAACGCCGCTAAAGAACATGGTC
ATTAGCGGCGCTTTTCACACAAATGCCGCTAAAGAACATGGTCATTAACAACACTTTTCTAC
Found at i:8849609 original size:41 final size:41
Alignment explanation
Indices: 8849553--8849685 Score: 144
Period size: 41 Copynumber: 3.3 Consensus size: 41
8849543 AAATGACGTA
* *
8849553 AAAGGT-AGAGCAATAGTGACGCTTATGCGAAAGTGCCGCT
1 AAAGGTCAGAGCAATAGCGACGCTTATGCGAAAGCGCCGCT
* * * * *
8849593 AAAGGTCAGAACAATAGCGGCGCTTATGGGCAAGCGCTGCT
1 AAAGGTCAGAGCAATAGCGACGCTTATGCGAAAGCGCCGCT
* * * * *
8849634 AAAGGTCAGAGCAATAACGGCACTTATGGGCAAGCGCC-CT
1 AAAGGTCAGAGCAATAGCGACGCTTATGCGAAAGCGCCGCT
8849674 AAAGGTCAGAGC
1 AAAGGTCAGAGC
8849686 CATAAGCGCC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 20 0.25
41 61 0.75
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.17
Consensus pattern (41 bp):
AAAGGTCAGAGCAATAGCGACGCTTATGCGAAAGCGCCGCT
Found at i:8849717 original size:24 final size:24
Alignment explanation
Indices: 8849665--8849714 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
8849655 ACTTATGGGC
*
8849665 AAGCGCCCTAAAGGTCAGAGCCAT
1 AAGCGCCCTAAAGGTCAGAGCAAT
8849689 AAGCGCCGCTAAAGGTCAGAGCAAT
1 AAGCGCC-CTAAAGGTCAGAGCAAT
8849714 A
1 A
8849715 GCGGCACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.36, C:0.26, G:0.26, T:0.12
Consensus pattern (24 bp):
AAGCGCCCTAAAGGTCAGAGCAAT
Found at i:8849773 original size:106 final size:107
Alignment explanation
Indices: 8849587--8849792 Score: 297
Period size: 106 Copynumber: 1.9 Consensus size: 107
8849577 ATGCGAAAGT
* * * *
8849587 GCCGCTAAAGGTCAGAACAATAGCGGCGCTTATGGGCAAGCGCTGCTAAAGGTCAGAGCAATAAC
1 GCCGCTAAAGGTCAGAACAATAGCGGCACTTATGGGAAAGCGCCGCTAAAGGTCAAAGCAATAAC
**
8849652 GGCACTTATGGGCAAGCGCC-CTAAAGGTCAGAGCCATAAGC
66 AACACTTATGGGCAAGCGCCGCTAAAGGTCAGAGCCATAAGC
* * *
8849693 GCCGCTAAAGGTCAGAGCAATAGCGGCACTTATGGGAAAGCGCCGCTAAAGGTTAAAGCAATAGC
1 GCCGCTAAAGGTCAGAACAATAGCGGCACTTATGGGAAAGCGCCGCTAAAGGTCAAAGCAATAAC
* * *
8849758 AACGCTTTTGTGCAAGCGCCGCTAAAGGTCAGAGC
66 AACACTTATGGGCAAGCGCCGCTAAAGGTCAGAGC
8849793 AATAGTGGCT
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
106 73 0.84
107 14 0.16
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (107 bp):
GCCGCTAAAGGTCAGAACAATAGCGGCACTTATGGGAAAGCGCCGCTAAAGGTCAAAGCAATAAC
AACACTTATGGGCAAGCGCCGCTAAAGGTCAGAGCCATAAGC
Found at i:8849840 original size:41 final size:41
Alignment explanation
Indices: 8849689--8849854 Score: 206
Period size: 41 Copynumber: 4.0 Consensus size: 41
8849679 TCAGAGCCAT
* * *
8849689 AAGCGCCGCTAAAGGTCAGAGCAATAGCGGCACTTATGGGA
1 AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGTGA
* * * * *
8849730 AAGCGCCGCTAAAGGTTAAAGCAATAGCAACGCTTTTGTGC
1 AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGTGA
* * *
8849771 AAGCGCCGCTAAAGGTCAGAGCAATAGTGGCTCTTATGTGA
1 AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGTGA
* * *
8849812 AAGCGCCGCTAAAGGTCAGAGCATTAGTGACGCTTATTTGA
1 AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGTGA
8849853 AA
1 AA
8849855 AATGACGCTA
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (41 bp):
AAGCGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGTGA
Found at i:8852570 original size:43 final size:43
Alignment explanation
Indices: 8852518--8852848 Score: 299
Period size: 43 Copynumber: 7.7 Consensus size: 43
8852508 AGAAAAATGT
* * **
8852518 CACTAAAGACCATGTTCTATAGCGGTGTTT-TCAGGAAAAGCGC
1 CACTAAAGACCATGTTCTATAGCGGCGTTTGT-GGGTGAAGCGC
* * * **
8852561 CACTAAAGACCATGCTC-ATTAGCGGCATTTGTAGGAAAAGCGC
1 CACTAAAGACCATGTTCTA-TAGCGGCGTTTGTGGGTGAAGCGC
* * * * *
8852604 CGCTAAAAATCATGCT-TATTAGCGGCGTCTGTGGGTGAAGCGC
1 CACTAAAGACCATGTTCTA-TAGCGGCGTTTGTGGGTGAAGCGC
* * * *
8852647 CACTAAGGATCATGTTCTTTAGCGGCGTTTGTGGGTGAAGAGC
1 CACTAAAGACCATGTTCTATAGCGGCGTTTGTGGGTGAAGCGC
* *
8852690 CACTAAAGACCATGTTCTTTAGCCGCGTTTGTGGGTGAAGCGC
1 CACTAAAGACCATGTTCTATAGCGGCGTTTGTGGGTGAAGCGC
* * * * *
8852733 CGCTAAAGATCATGTTCTTTAGCGGCGTTTATGGGTGAAGCGT
1 CACTAAAGACCATGTTCTATAGCGGCGTTTGTGGGTGAAGCGC
* * * * * ** *
8852776 CGCTAAAGACCATGTTCTTTAGCAGCATTTGTGAGAAAAGCAC
1 CACTAAAGACCATGTTCTATAGCGGCGTTTGTGGGTGAAGCGC
* *
8852819 CGCTAAAGACTATGTTCTATAGCGGCGTTT
1 CACTAAAGACCATGTTCTATAGCGGCGTTT
8852849 TTCTTCATAA
Statistics
Matches: 244, Mismatches: 40, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
42 1 0.00
43 241 0.99
44 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CACTAAAGACCATGTTCTATAGCGGCGTTTGTGGGTGAAGCGC
Found at i:8852847 original size:129 final size:129
Alignment explanation
Indices: 8852518--8852848 Score: 364
Period size: 129 Copynumber: 2.6 Consensus size: 129
8852508 AGAAAAATGT
* * * * *
8852518 CACTAAAGACCATGTTCTATAGCGGTGTTT-TCAGGAAAAGCGCCACTAAAGACCATGCTC-ATT
1 CACTAAAGACCATGTTCTTTAGCGGCGTTTGTGA-GAAAAGCACCACTAAAGACCATGTTCTA-T
* *
8852581 AGCGGCATTTGTAGGAAAAGCGCCGCTAAAAATCATGCTTATTAGCGGCGTCTGTGGGTGAAGCG
64 AGCGGCGTTTGTAGGAAAAGCGCCGCTAAAAATCATGCTTATTAGCGGCGTCTATGGGTGAAGCG
8852646 C
129 C
* * * ** *
8852647 CACTAAGGATCATGTTCTTTAGCGGCGTTTGTGGGTGAAG-AGCCACTAAAGACCATGTTCTTTA
1 CACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCA-CCACTAAAGACCATGTTCTATA
* * ** * * *
8852711 GCCGCGTTTGTGGGTGAAGCGCCGCTAAAGATCATG-TTCTTTAGCGGCGTTTATGGGTGAAGCG
65 GCGGCGTTTGTAGGAAAAGCGCCGCTAAAAATCATGCTT-ATTAGCGGCGTCTATGGGTGAAGCG
*
8852775 T
129 C
* * * * *
8852776 CGCTAAAGACCATGTTCTTTAGCAGCATTTGTGAGAAAAGCACCGCTAAAGACTATGTTCTATAG
1 CACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCACTAAAGACCATGTTCTATAG
8852841 CGGCGTTT
66 CGGCGTTT
8852849 TTCTTCATAA
Statistics
Matches: 164, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
128 2 0.01
129 160 0.98
130 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (129 bp):
CACTAAAGACCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCACTAAAGACCATGTTCTATAG
CGGCGTTTGTAGGAAAAGCGCCGCTAAAAATCATGCTTATTAGCGGCGTCTATGGGTGAAGCGC
Found at i:8857561 original size:51 final size:49
Alignment explanation
Indices: 8857467--8857563 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
8857457 AAACGGGATA
** * *
8857467 TAGAGAGTGGAGAAAGATTTAGGGATTAGAAATTTGGAATTTGGGGGTT
1 TAGAGAGACGAGAAAGAATTAGGGATCAGAAATTTGGAATTTGGGGGTT
**
8857516 TAGAGAGACGAGAAAGAATTAGGGATCAGTGAAATTTGGGGTTTGGGG
1 TAGAGAGACGAGAAAGAATTAGGGATCA--GAAATTTGGAATTTGGGG
8857564 ACAGAGGGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 24 0.60
51 16 0.40
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (49 bp):
TAGAGAGACGAGAAAGAATTAGGGATCAGAAATTTGGAATTTGGGGGTT
Found at i:8859836 original size:41 final size:40
Alignment explanation
Indices: 8859791--8859989 Score: 213
Period size: 41 Copynumber: 4.9 Consensus size: 40
8859781 GTTTATGGGA
* *
8859791 AAACGTCGCTATTGCTTAACCTTTAGCGGCGTCTTTCCTAT
1 AAACGCCGCTATTGCTTTACCTTTAGCGGCGT-TTTCCTAT
* *
8859832 AAACGCCGCTAATGCTCTTACCTTTAGCGGC-TTTTTCTCAT
1 AAACGCCGCTATTGCT-TTACCTTTAGCGGCGTTTTCCT-AT
* * * *
8859873 AAACACCACTAATGCTTTGACCTTTAGCGGCGTTTTTCCTAC
1 AAACGCCGCTATTGCTTT-ACCTTTAGCGGCG-TTTTCCTAT
* * *
8859915 AAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTAT-GTAA
1 AAACGCCGCTATTGCTTTACCTTTAGCGGCGTTT-TCCTAT
* *
8859955 AAACGCCGTTATTGCTTTACCTTTTGCGGCGTTTT
1 AAACGCCGCTATTGCTTTACCTTTAGCGGCGTTTT
8859990 TTGTATTGCG
Statistics
Matches: 137, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 45 0.33
41 56 0.41
42 29 0.21
43 6 0.04
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (40 bp):
AAACGCCGCTATTGCTTTACCTTTAGCGGCGTTTTCCTAT
Found at i:8860000 original size:17 final size:17
Alignment explanation
Indices: 8859978--8860010 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8859968 GCTTTACCTT
8859978 TTGCGGCGTTTTTTGTA
1 TTGCGGCGTTTTTTGTA
8859995 TTGCGGCGTTTTTTGT
1 TTGCGGCGTTTTTTGT
8860011 CCAAACGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.12, G:0.30, T:0.55
Consensus pattern (17 bp):
TTGCGGCGTTTTTTGTA
Found at i:8861238 original size:21 final size:19
Alignment explanation
Indices: 8861214--8861252 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
8861204 GGTAAATTAT
*
8861214 ACTAAATAACGAATTAAAAAG
1 ACTAAAAAAC-AA-TAAAAAG
8861235 ACTAAAAAACAATAAAAA
1 ACTAAAAAACAATAAAAA
8861253 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.15
Consensus pattern (19 bp):
ACTAAAAAACAATAAAAAG
Found at i:8864577 original size:16 final size:17
Alignment explanation
Indices: 8864543--8864580 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
8864533 GTCCACCTTG
*
8864543 ACAAGAACTCTCTACGA
1 ACAAGAACTCTCAACGA
8864560 ACAAGAAC-CTCAACGA
1 ACAAGAACTCTCAACGA
8864576 ACAAG
1 ACAAG
8864581 TTCTTCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.47, C:0.29, G:0.13, T:0.11
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:8872534 original size:17 final size:17
Alignment explanation
Indices: 8872512--8872544 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8872502 TTTCTAGTTT
8872512 TATAT-ATACACATATTA
1 TATATAATA-ACATATTA
8872529 TATATAATAACATATT
1 TATATAATAACATATT
8872545 GATGTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATAATAACATATTA
Found at i:8877997 original size:21 final size:21
Alignment explanation
Indices: 8877965--8878033 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
8877955 GATAAAATGA
8877965 TTTTT-CTGTAAAGACCTAAG
1 TTTTTCCTGTAAAGACCTAAG
* *
8877985 TTTTTCCTATAAAG-CCCAA-
1 TTTTTCCTGTAAAGACCTAAG
8878004 TTAATTTCCTGTAAA-ACCTCAAG
1 TT--TTTCCTGTAAAGACCT-AAG
8878027 TTTTTCC
1 TTTTTCC
8878034 CTTTCATTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 9 0.23
21 24 0.62
22 2 0.05
23 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (21 bp):
TTTTTCCTGTAAAGACCTAAG
Found at i:8881812 original size:22 final size:22
Alignment explanation
Indices: 8881785--8881833 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
8881775 AATTTAGTTT
8881785 TTTAATTTTTATAAATTTA-AAA
1 TTTAATTTTT-TAAATTTATAAA
* *
8881807 TTTAATTTTTTTATTTTATAAA
1 TTTAATTTTTTAAATTTATAAA
8881829 TTTAA
1 TTTAA
8881834 AATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAATTTTTTAAATTTATAAA
Found at i:8881825 original size:29 final size:30
Alignment explanation
Indices: 8881775--8881850 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
8881765 ACTAATTTGG
*
8881775 AATTTAGTTTTTTAATTTTTATAAATTTAA
1 AATTTAATTTTTTAATTTTTATAAATTTAA
*
8881805 AATTTAATTTTTTTA-TTTTATAAATTTAA
1 AATTTAATTTTTTAATTTTTATAAATTTAA
* *
8881834 AATTTTATTTTTAAATT
1 AATTTAATTTTTTAATT
8881851 ATATATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
AATTTAATTTTTTAATTTTTATAAATTTAA
Found at i:8881862 original size:29 final size:29
Alignment explanation
Indices: 8881783--8881860 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
8881773 GGAATTTAGT
*
8881783 TTTTTAATTTTTATAAATTTAAAATTTAA
1 TTTTTAAATTTTATAAATTTAAAATTTAA
** *
8881812 TTTTTTTATTTTATAAATTTAAAATTTTA
1 TTTTTAAATTTTATAAATTTAAAATTTAA
*
8881841 TTTTTAAATTATATATAATT
1 TTTTTAAATTTTATA-AATT
8881861 AAGTAATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 37 0.90
30 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTTAAATTTTATAAATTTAAAATTTAA
Found at i:8881907 original size:13 final size:13
Alignment explanation
Indices: 8881891--8881920 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8881881 AATTAACGAT
*
8881891 ATTAATTATTTAA
1 ATTAATTATTAAA
8881904 ATTAATTATTAAA
1 ATTAATTATTAAA
8881917 ATTA
1 ATTA
8881921 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATTATTAAA
Found at i:8882376 original size:18 final size:19
Alignment explanation
Indices: 8882353--8882397 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
8882343 AATAAAGTTT
8882353 TATTTTAATATTT-TTA-TA
1 TATTTTAAT-TTTATTAGTA
8882371 TATTTTAATTTTATTATGTA
1 TATTTTAATTTTATTA-GTA
8882391 TATTTTA
1 TATTTTA
8882398 TTATCTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
20 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTTAATTTTATTAGTA
Found at i:8884190 original size:18 final size:17
Alignment explanation
Indices: 8884156--8884198 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
8884146 TTTTTTAAAA
8884156 TATAAATTTTGAAATTT
1 TATAAATTTTGAAATTT
*
8884173 TATAAATATTTTAAATTT
1 TATAAAT-TTTGAAATTT
*
8884191 TAAAAATT
1 TATAAATT
8884199 ATTGGAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TATAAATTTTGAAATTT
Found at i:8885399 original size:17 final size:17
Alignment explanation
Indices: 8885377--8885412 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
8885367 TCTTAAAGTG
8885377 TACTCATTTTTTCACTA
1 TACTCATTTTTTCACTA
8885394 TACTCATTTTTTCACTA
1 TACTCATTTTTTCACTA
8885411 TA
1 TA
8885413 ATACTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
TACTCATTTTTTCACTA
Found at i:8885781 original size:13 final size:14
Alignment explanation
Indices: 8885725--8885784 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
8885715 GATCAAAGTC
8885725 AATTTTTTAAATATTT
1 AATTTTTT-AAT-TTT
* * *
8885741 AATATTGTACTTTT
1 AATTTTTTAATTTT
*
8885755 ATTTTTTTTAATTTT
1 A-ATTTTTTAATTTT
8885770 AATTTTTT-ATTTT
1 AATTTTTTAATTTT
8885783 AA
1 AA
8885785 ATAAACCTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
13 7 0.20
14 10 0.29
15 12 0.34
16 6 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
AATTTTTTAATTTT
Found at i:8886639 original size:21 final size:21
Alignment explanation
Indices: 8886615--8886664 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8886605 AGGCTCATGG
* *
8886615 TTCAAGATTTAAAGTTTGAGA
1 TTCAAGATTTAAAATTCGAGA
*
8886636 TTCAAAATTTAAAATTCGAGA
1 TTCAAGATTTAAAATTCGAGA
*
8886657 TTTAAGAT
1 TTCAAGAT
8886665 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (21 bp):
TTCAAGATTTAAAATTCGAGA
Found at i:8890489 original size:123 final size:124
Alignment explanation
Indices: 8890308--8890556 Score: 382
Period size: 123 Copynumber: 2.0 Consensus size: 124
8890298 ATTTTTGGGT
*
8890308 GCCATTGCATGGCCGACACCCCTTATTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCC
1 GCCATTGCATGGCCGACACCCCCTATTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCC
** *
8890373 AT-ACAATGGCCGACACCCTTTTTTTTTCTCG-A-GAAAAAATTTCAAA-TTTTTTGGTGTTG
66 ATCA-AATGGCCGACACCC---CATTTTCTCGAATAAAAAAATTTCAAATTTTTTTGGTGTTG
8890432 GCCATTGCATGGCCGACACCCCCT-TTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCC
1 GCCATTGCATGGCCGACACCCCCTATTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCC
*
8890496 ATCAAATGGCCGACACCCCATTTTCTCGAATAAAAAAATTTCAAATTTTTTTTGTGTTG
66 ATCAAATGGCCGACACCCCATTTTCTCGAATAAAAAAATTTCAAATTTTTTTGGTGTTG
8890555 GC
1 GC
8890557 TATCAAATGG
Statistics
Matches: 116, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
120 8 0.07
121 1 0.01
122 13 0.11
123 70 0.60
124 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (124 bp):
GCCATTGCATGGCCGACACCCCCTATTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCC
ATCAAATGGCCGACACCCCATTTTCTCGAATAAAAAAATTTCAAATTTTTTTGGTGTTG
Found at i:8890505 original size:61 final size:61
Alignment explanation
Indices: 8890316--8890570 Score: 354
Period size: 62 Copynumber: 4.1 Consensus size: 61
8890306 GTGCCATTGC
8890316 ATGGCCGACACCCCTTATTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCAT-ACA
1 ATGGCCGACACCCCTT-TTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCA-A
* ***
8890378 ATGGCCGACACCCTTTTTTTTTCTCGAG-AAAAAATTTCAAA-TTTTTTGGTGTTGGCCATTGC
1 ATGGCCGACACCC---CTTTTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAA
*
8890440 ATGGCCGACACCCCCTTTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAA
1 ATGGCCGACACCCCTTTTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAA
* * * *
8890501 ATGGCCGACACCCCATTTTCTCGAATAAAAAAATTTCAAATTTTTTTTGTGTTGGCTATCAA
1 ATGGCCGACACCCCTTTTTCTCG-AGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAA
8890563 ATGGCCGA
1 ATGGCCGA
8890571 TACCAACTTC
Statistics
Matches: 174, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
59 10 0.06
60 13 0.07
61 40 0.23
62 87 0.50
63 13 0.07
64 9 0.05
65 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (61 bp):
ATGGCCGACACCCCTTTTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATCAA
Found at i:8891364 original size:2 final size:2
Alignment explanation
Indices: 8891357--8891413 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
8891347 AGATACATAC
8891357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8891399 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
8891414 GAACCGTCAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8894589 original size:45 final size:45
Alignment explanation
Indices: 8894540--8894678 Score: 109
Period size: 45 Copynumber: 3.2 Consensus size: 45
8894530 ATTATATTAC
8894540 AATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATT
1 AATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATT
* ** * * *
8894585 AA-TTTTA-C-----ATCT-TT-AAATAAAAAT-TATTATTATATTAT
1 AATTTTTATCATATAATGTGTTGATTTGACAATACATTATT-TA-T-T
*
8894623 AATTTTTATCATATAATGTGGTGATTTGACAATACATTATTTATT
1 AATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATT
8894668 AATTTTATATC
1 AATTTT-TATC
8894679 TTTAAATAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 27
0.63 0.12 0.25
Matches are distributed among these distances:
35 6 0.09
36 8 0.12
37 3 0.04
38 6 0.09
39 5 0.07
40 1 0.01
43 1 0.01
44 5 0.07
45 12 0.18
46 6 0.09
47 8 0.12
48 6 0.09
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (45 bp):
AATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATT
Found at i:8894631 original size:83 final size:83
Alignment explanation
Indices: 8894444--8894719 Score: 419
Period size: 83 Copynumber: 3.3 Consensus size: 83
8894434 AAAAAGATAG
* * * * * *
8894444 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTT-
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTAT-TAATTTTA
* *
8894508 CATATTTAAAGTACAAATTA
65 CATCTTTAAA-TAAAAATTA
8894528 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAC
8894593 ATCTTTAAATAAAAATTA
66 ATCTTTAAATAAAAATTA
* * *
8894611 TTATTATATTATAATTTTTATCATATAATGTGGTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAC
*
8894676 ATCTTTAAATAAAAATTT
66 ATCTTTAAATAAAAATTA
8894694 TTATTATATTACAATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
8894720 TTTAAATTTA
Statistics
Matches: 178, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
83 118 0.66
84 60 0.34
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (83 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAC
ATCTTTAAATAAAAATTA
Found at i:8894925 original size:20 final size:20
Alignment explanation
Indices: 8894897--8894955 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
8894887 CGTTGACCGC
*
8894897 CGTTAACCGACTTTATCCGT
1 CGTTGACCGACTTTATCCGT
*
8894917 CGTTGACCGACTTTGTCCGT
1 CGTTGACCGACTTTATCCGT
* *
8894937 CATTGATCGACTTTCATCC
1 CGTTGACCGACTTT-ATCC
8894956 ATCATATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (20 bp):
CGTTGACCGACTTTATCCGT
Found at i:8897197 original size:30 final size:30
Alignment explanation
Indices: 8897146--8897211 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
8897136 TCCCTTTACT
* *
8897146 TTTTAAATTTAATTTATAATTTCGTT-TTTA
1 TTTTAAATTTAATTTAGAATTTC-TTGTATA
*
8897176 TTTTAAATTTAATTTCGAATTTCTTGTATA
1 TTTTAAATTTAATTTAGAATTTCTTGTATA
8897206 TTTTAA
1 TTTTAA
8897212 TTTTTCTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (30 bp):
TTTTAAATTTAATTTAGAATTTCTTGTATA
Found at i:8897227 original size:30 final size:30
Alignment explanation
Indices: 8897146--8897243 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
8897136 TCCCTTTACT
* ** * * *
8897146 TTTTAAATTTAATTTATAATTTCGTTTTTA
1 TTTTAATTTTAATTTCGAATTTCATGTATA
* *
8897176 TTTTAAATTTAATTTCGAATTTCTTGTATA
1 TTTTAATTTTAATTTCGAATTTCATGTATA
** *
8897206 TTTTAATTTTTCTTTCTAATTTCATGTATA
1 TTTTAATTTTAATTTCGAATTTCATGTATA
*
8897236 TTCTAATT
1 TTTTAATT
8897244 ATTATTTTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (30 bp):
TTTTAATTTTAATTTCGAATTTCATGTATA
Found at i:8898216 original size:47 final size:46
Alignment explanation
Indices: 8898130--8898222 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 46
8898120 AATTTTGAAA
8898130 TTTTTTTCTCGAGAAAAAGGAGTGTCGACCATTGCATGGCCAACAC
1 TTTTTTTCTCGAGAAAAAGGAGTGTCGACCATTGCATGGCCAACAC
*
8898176 TTTTTTTCTCGAGAAATAGAGG-GTGTCGGCCA-TGCAATGGCCAACAC
1 TTTTTTTCTCGAGAAA-A-AGGAGTGTCGACCATTGC-ATGGCCAACAC
8898223 CCAAAAATGC
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
46 19 0.44
47 21 0.49
48 3 0.07
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (46 bp):
TTTTTTTCTCGAGAAAAAGGAGTGTCGACCATTGCATGGCCAACAC
Found at i:8906800 original size:20 final size:20
Alignment explanation
Indices: 8906775--8906838 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
8906765 CTTGAACCTT
8906775 AACTTCAAACTCGAACCCTA
1 AACTTCAAACTCGAACCCTA
* * * *
8906795 AACTTCGAATCCCAAACTCT-
1 AACTTC-AAACTCGAACCCTA
8906815 AAC-TCAAGA-TCGAACCCTA
1 AACTTCAA-ACTCGAACCCTA
8906834 AACTT
1 AACTT
8906839 AGTTCAAAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
18 8 0.25
19 5 0.16
20 10 0.31
21 9 0.28
ACGTcount: A:0.39, C:0.33, G:0.06, T:0.22
Consensus pattern (20 bp):
AACTTCAAACTCGAACCCTA
Found at i:8909786 original size:28 final size:28
Alignment explanation
Indices: 8909753--8909808 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
8909743 AAAAGTGGTT
* *
8909753 AATTAAGGTTTAA-AGACTAAATTGTAAA
1 AATTAAGGTTCAATA-ACTAAATTATAAA
*
8909781 AATTAATGTTCAATAACTAAATTATAAA
1 AATTAAGGTTCAATAACTAAATTATAAA
8909809 CGTCCAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (28 bp):
AATTAAGGTTCAATAACTAAATTATAAA
Found at i:8912423 original size:24 final size:24
Alignment explanation
Indices: 8912391--8912442 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
8912381 GGTATGATTG
8912391 GTAAATGTGAAAATGCTAGGGAAT
1 GTAAATGTGAAAATGCTAGGGAAT
8912415 GTAAATGTGAAAATGCTAGGGAAT
1 GTAAATGTGAAAATGCTAGGGAAT
8912439 GTAA
1 GTAA
8912443 TTAATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (24 bp):
GTAAATGTGAAAATGCTAGGGAAT
Found at i:8918282 original size:25 final size:25
Alignment explanation
Indices: 8918186--8918341 Score: 145
Period size: 25 Copynumber: 6.2 Consensus size: 25
8918176 GCTTTCCACA
* *
8918186 GTAATACGCCACAAAGGCTTTTAAG
1 GTAATTCGCCACAAAGGCTTTTTAG
** *
8918211 GT-ATCTCATCACAAAGGCTTTTCAG
1 GTAAT-TCGCCACAAAGGCTTTTTAG
* *
8918236 GTAACTCACCACAAAGGCTTTTTAG
1 GTAATTCGCCACAAAGGCTTTTTAG
**
8918261 GTAATTCGCCACAAAGAATTTTTAG
1 GTAATTCGCCACAAAGGCTTTTTAG
* * * *
8918286 GTAATTCGTCGCAAAGGCCTTGTAG
1 GTAATTCGCCACAAAGGCTTTTTAG
* *
8918311 GTAATTTGCCACAAAGG-TTTTTCAA
1 GTAATTCGCCACAAAGGCTTTTT-AG
8918336 GTAATT
1 GTAATT
8918342 TGTGTTTACT
Statistics
Matches: 105, Mismatches: 23, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
24 5 0.05
25 99 0.94
26 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (25 bp):
GTAATTCGCCACAAAGGCTTTTTAG
Found at i:8918313 original size:75 final size:75
Alignment explanation
Indices: 8918185--8918341 Score: 167
Period size: 75 Copynumber: 2.1 Consensus size: 75
8918175 GGCTTTCCAC
* ** *
8918185 AGTAATACGCCACAAAGGCTTTTAAGGTATCTCATCACAAAGGCTTTTCAGGTAACTCACCACAA
1 AGTAATTCGCCACAAAGAATTTTAAGGTATCTCATCACAAAGGCTTGTCAGGTAACTCACCACAA
8918250 AGGCTTTTT-A
66 AGG-TTTTTCA
* * * * * **
8918260 GGTAATTCGCCACAAAGAATTTTTAGGTAAT-TCGTCGCAAAGGCCTTGT-AGGTAATTTGCCAC
1 AGTAATTCGCCACAAAGAATTTTAAGGT-ATCTCATCACAAAGG-CTTGTCAGGTAACTCACCAC
8918323 AAAGGTTTTTCA
64 AAAGGTTTTTCA
8918335 AGTAATT
1 AGTAATT
8918342 TGTGTTTACT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
74 5 0.07
75 56 0.84
76 6 0.09
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (75 bp):
AGTAATTCGCCACAAAGAATTTTAAGGTATCTCATCACAAAGGCTTGTCAGGTAACTCACCACAA
AGGTTTTTCA
Found at i:8922048 original size:37 final size:37
Alignment explanation
Indices: 8921997--8922199 Score: 228
Period size: 37 Copynumber: 5.4 Consensus size: 37
8921987 GTTCTTGGAT
* * * *
8921997 CACCGGCACAAAGCTTGCTAGACACATAG-CTCGAATA
1 CACCGGCACGAAGCCTGCTAGACACACAGCCT-GAAAA
* * *
8922034 CACCGGCACGAAGCTTGCTAGGCACACAGCCTGAATA
1 CACCGGCACGAAGCCTGCTAGACACACAGCCTGAAAA
* * *
8922071 CACCGACACGAAGCCTGCTAGGCACACAGCTTGAAAA
1 CACCGGCACGAAGCCTGCTAGACACACAGCCTGAAAA
*
8922108 CACCGGGACACGAAGCCTGCTAGACACACAACCTGAAAA
1 CACC-GG-CACGAAGCCTGCTAGACACACAGCCTGAAAA
* * * *
8922147 CACCGGCACGAAGCCTACTAGGCACAAAGCCTGAAAG
1 CACCGGCACGAAGCCTGCTAGACACACAGCCTGAAAA
*
8922184 CACCGGCATGAAGCCT
1 CACCGGCACGAAGCCT
8922200 AAATTTGTAG
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 109 0.75
38 5 0.03
39 32 0.22
ACGTcount: A:0.34, C:0.33, G:0.22, T:0.11
Consensus pattern (37 bp):
CACCGGCACGAAGCCTGCTAGACACACAGCCTGAAAA
Found at i:8922129 original size:76 final size:75
Alignment explanation
Indices: 8921997--8922199 Score: 239
Period size: 76 Copynumber: 2.7 Consensus size: 75
8921987 GTTCTTGGAT
* * * * * * * *
8921997 CACCGGCACAAAGCTTGCTAGACACATAGCTCGAATACACC-GGCACGAAGCTTGCTAGGCACAC
1 CACCGGCACGAAGCCTGCTAGGCACAAAGCTTGAAAACACCGGGCACGAAGCCTGCTAGACACAC
* *
8922061 AGCCTGAATA
66 AACCTGAAAA
* *
8922071 CACCGACACGAAGCCTGCTAGGCACACAGCTTGAAAACACCGGGACACGAAGCCTGCTAGACACA
1 CACCGGCACGAAGCCTGCTAGGCACAAAGCTTGAAAACACCGGG-CACGAAGCCTGCTAGACACA
8922136 CAACCTGAAAA
65 CAACCTGAAAA
* * * *
8922147 CACCGGCACGAAGCCTACTAGGCACAAAGCCTGAAAGCACC-GGCATGAAGCCT
1 CACCGGCACGAAGCCTGCTAGGCACAAAGCTTGAAAACACCGGGCACGAAGCCT
8922200 AAATTTGTAG
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 43 0.39
75 4 0.04
76 63 0.57
ACGTcount: A:0.34, C:0.33, G:0.22, T:0.11
Consensus pattern (75 bp):
CACCGGCACGAAGCCTGCTAGGCACAAAGCTTGAAAACACCGGGCACGAAGCCTGCTAGACACAC
AACCTGAAAA
Found at i:8933955 original size:12 final size:12
Alignment explanation
Indices: 8933938--8933962 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8933928 CAAGGAAGGA
8933938 AAAGAATATAAT
1 AAAGAATATAAT
8933950 AAAGAATATAAT
1 AAAGAATATAAT
8933962 A
1 A
8933963 TATGGATTTA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAGAATATAAT
Found at i:8941400 original size:52 final size:53
Alignment explanation
Indices: 8941320--8941447 Score: 179
Period size: 52 Copynumber: 2.5 Consensus size: 53
8941310 GTAAATGTAA
* *
8941320 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT-
1 AAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCATTTACGGATTATG
* * *
8941372 AAGGTCCAATGACTATGTGTCATTGTGAGTATCTGAATCATTTTCGGATTATG
1 AAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCATTTACGGATTATG
* *
8941425 TA-GTCCGATGACAATGTGTCATT
1 AAGGTCCGATGACTATGTGTCATT
8941448 ATTAGAATTG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 66 0.99
53 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (53 bp):
AAGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCATTTACGGATTATG
Found at i:8945864 original size:17 final size:17
Alignment explanation
Indices: 8945842--8945880 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8945832 AGGTGGAGAA
* *
8945842 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
8945859 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
8945876 CTTGT
1 CTTGT
8945881 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:8947056 original size:21 final size:21
Alignment explanation
Indices: 8947032--8947082 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
8947022 ATGATTTGTT
8947032 TCGGTAGAAGCT-TCACT-GGTA
1 TCGGTAGAA-CTGTCA-TAGGTA
8947053 TCGGTAGAACTGTCATAGGTA
1 TCGGTAGAACTGTCATAGGTA
8947074 TCGGTAGAA
1 TCGGTAGAA
8947083 TTCTGCACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (21 bp):
TCGGTAGAACTGTCATAGGTA
Found at i:8947687 original size:20 final size:19
Alignment explanation
Indices: 8947664--8947712 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
8947654 TTTTTTATGT
8947664 ATTTTTTTAGAAT-TTTTGAA
1 ATTTTTTTAGAATATTTT--A
8947684 ATTTTTTATA-AATATTTTA
1 ATTTTTT-TAGAATATTTTA
8947703 ATTTTTTTAG
1 ATTTTTTTAG
8947713 CTTTTGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.08
19 8 0.31
20 10 0.38
21 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTTTTTTAGAATATTTTA
Found at i:8947700 original size:33 final size:33
Alignment explanation
Indices: 8947623--8947701 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
8947613 AAAATTATTA
* * *
8947623 TTTTGAATTTTTTTTTTGAAATTTTTAAACTTT
1 TTTTAAATATTTTTTTAGAAATTTTTAAACTTT
**
8947656 TTTTATGTATTTTTTTAG-AATTTTTGAAA-TTT
1 TTTTAAATATTTTTTTAGAAATTTTT-AAACTTT
8947688 TTTATAAATATTTT
1 TTT-TAAATATTTT
8947702 AATTTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 13 0.35
33 24 0.65
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (33 bp):
TTTTAAATATTTTTTTAGAAATTTTTAAACTTT
Found at i:8950389 original size:43 final size:43
Alignment explanation
Indices: 8950328--8950414 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
8950318 ATGTACTCTA
8950328 AAAGGGAAAGTCTAGTAAGAAAGTTCCTATTTTCGCTTTGTAG
1 AAAGGGAAAGTCTAGTAAGAAAGTTCCTATTTTCGCTTTGTAG
8950371 AAAGGGAAAGTCTAGTAAGAAAGTTCCTATTTTCGCTTTGTAG
1 AAAGGGAAAGTCTAGTAAGAAAGTTCCTATTTTCGCTTTGTAG
8950414 A
1 A
8950415 CTAGACTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.32
Consensus pattern (43 bp):
AAAGGGAAAGTCTAGTAAGAAAGTTCCTATTTTCGCTTTGTAG
Found at i:8952237 original size:13 final size:13
Alignment explanation
Indices: 8952219--8952245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8952209 GAGTAAAACG
8952219 AAAAATGTATAGA
1 AAAAATGTATAGA
8952232 AAAAATGTATAGA
1 AAAAATGTATAGA
8952245 A
1 A
8952246 TGAACTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (13 bp):
AAAAATGTATAGA
Found at i:8959234 original size:21 final size:20
Alignment explanation
Indices: 8959198--8959283 Score: 102
Period size: 21 Copynumber: 4.2 Consensus size: 20
8959188 ATTATATTGT
8959198 TGTTTTGGTG-TTTTTTTAC
1 TGTTTTGGTGTTTTTTTTAC
*
8959217 TGTTTTGGTTGTTTTTTTTAT
1 TGTTTTGG-TGTTTTTTTTAC
* *
8959238 TGTTTTGATCTTATTTTTTAC
1 TGTTTTGGTGTT-TTTTTTAC
* *
8959259 TGCTTTGGTGTTTTTTTCAC
1 TGTTTTGGTGTTTTTTTTAC
8959279 TGTTT
1 TGTTT
8959284 CGATTGCTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.15
20 16 0.29
21 31 0.56
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (20 bp):
TGTTTTGGTGTTTTTTTTAC
Found at i:8959296 original size:42 final size:42
Alignment explanation
Indices: 8959209--8959287 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
8959199 GTTTTGGTGT
* * * *
8959209 TTTTTTACTGTTTTGGTTGTTTTTTTTATTGTTTTGATCTTA
1 TTTTTTACTGCTTTGGTTGTTTTTTTCACTGTTTCGATCTTA
8959251 TTTTTTACTGCTTTGG-TGTTTTTTTCACTGTTTCGAT
1 TTTTTTACTGCTTTGGTTGTTTTTTTCACTGTTTCGAT
8959288 TGCTATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 18 0.55
42 15 0.45
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (42 bp):
TTTTTTACTGCTTTGGTTGTTTTTTTCACTGTTTCGATCTTA
Found at i:8959366 original size:24 final size:23
Alignment explanation
Indices: 8959293--8959366 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
8959283 TCGATTGCTA
* * *
8959293 TTTTGATGTTGTTTTAGTGTTGT
1 TTTTGTTGTTTTTTTATTGTTGT
* * * *
8959316 TTTTGTAGTTATTTTTGTTGCTAT
1 TTTTGTTGTT-TTTTTATTGTTGT
8959340 TTTTGTTGTTTTTGTTATTGTTGT
1 TTTTGTTGTTTTT-TTATTGTTGT
8959364 TTT
1 TTT
8959367 GCTATTTTTT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.08, C:0.01, G:0.20, T:0.70
Consensus pattern (23 bp):
TTTTGTTGTTTTTTTATTGTTGT
Found at i:8959367 original size:47 final size:48
Alignment explanation
Indices: 8959287--8959408 Score: 117
Period size: 47 Copynumber: 2.5 Consensus size: 48
8959277 ACTGTTTCGA
* * *
8959287 TTGCTA-TTTTGATGTTGTT-TTAGTGTTGTTTTTG-TAGTTATTTTTG
1 TTGCTATTTTTGTTGTTTTTGTTATTGTTGTTTTTGCTA-TTATTTTTG
*
8959333 TTGCTATTTTTGTTGTTTTTGTTATTGTTG-TTTTGCTATTTTTTTTG
1 TTGCTATTTTTGTTGTTTTTGTTATTGTTGTTTTTGCTATTATTTTTG
* * *
8959380 CTGCTGCTTTGGTTGTTATTTTTGTTATT
1 TTGCT-ATTT--TTGTTGTTTTTGTTATT
8959409 TGGATGTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 6 0.10
47 28 0.44
48 13 0.21
50 16 0.25
ACGTcount: A:0.08, C:0.05, G:0.20, T:0.67
Consensus pattern (48 bp):
TTGCTATTTTTGTTGTTTTTGTTATTGTTGTTTTTGCTATTATTTTTG
Found at i:8959376 original size:33 final size:33
Alignment explanation
Indices: 8959310--8959375 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
8959300 GTTGTTTTAG
*
8959310 TGTTGTTTTTGTAGTTATTTTTGTTGCTATTTT
1 TGTTGTTTTTGTAGTTATTGTTGTTGCTATTTT
*
8959343 TGTTGTTTTTGTTA-TTGTTGTT-TTGCTATTTT
1 TGTTGTTTTTG-TAGTTATTGTTGTTGCTATTTT
8959375 T
1 T
8959376 TTTGCTGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 11 0.37
33 17 0.57
34 2 0.07
ACGTcount: A:0.08, C:0.03, G:0.18, T:0.71
Consensus pattern (33 bp):
TGTTGTTTTTGTAGTTATTGTTGTTGCTATTTT
Found at i:8967586 original size:12 final size:12
Alignment explanation
Indices: 8967544--8967587 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
8967534 ATCCCATTCC
*
8967544 ATTTTTCTTATT
1 ATTTTTATTATT
8967556 ATTTTTATTTATT
1 ATTTTTA-TTATT
*
8967569 A-ATTTATTATT
1 ATTTTTATTATT
8967580 ATTTTTAT
1 ATTTTTAT
8967588 AAATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.22
12 15 0.56
13 6 0.22
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:8967660 original size:67 final size:68
Alignment explanation
Indices: 8967554--8967741 Score: 199
Period size: 71 Copynumber: 2.8 Consensus size: 68
8967544 ATTTTTCTTA
* *
8967554 TTATTTT-TATTTATTAATTTATTATTATTTTTATAAATATAAATAAAT-A-TAAAATAATATTA
1 TTATTTTATATTTATTTATTTATTATTATTTGTATAAATATAAATAAATAAGTAAAATAATATTA
8967616 ATT
66 ATT
* *
8967619 TTATTTTACTATTTCTTTATTTATTATT-TGTTGTATGAATATAAATAAATAAATGTAAAATAAT
1 TTATTTTA-TATTTATTTATTTATTATTAT-TTGTATAAATATAAATAAAT-AA-GTAAAATAAT
8967683 ATTAATT
62 ATTAATT
* ***
8967690 TTGTTTTATTATTTATTTA-TTATT-TTATGAATATAAATAAATAAATAAATAA
1 TTATTTTA-TATTTATTTATTTATTATTATTTGTATAAAT--ATAAATAAATAA
8967742 CAAACCAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
65 7 0.07
66 1 0.01
67 35 0.34
69 9 0.09
70 8 0.08
71 42 0.41
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (68 bp):
TTATTTTATATTTATTTATTTATTATTATTTGTATAAATATAAATAAATAAGTAAAATAATATTA
ATT
Found at i:8971876 original size:11 final size:12
Alignment explanation
Indices: 8971855--8971884 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
8971845 GAAACCTAAG
8971855 GAAAAAGAAAAA
1 GAAAAAGAAAAA
8971867 GAAAAA-AAAAA
1 GAAAAAGAAAAA
8971878 GAAAAAG
1 GAAAAAG
8971885 TCAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:8971896 original size:6 final size:6
Alignment explanation
Indices: 8971855--8971884 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8971845 GAAACCTAAG
8971855 GAAAAA GAAAAA GAAAAA -AAAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
8971885 TCAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:8972770 original size:9 final size:8
Alignment explanation
Indices: 8972755--8972827 Score: 60
Period size: 9 Copynumber: 8.6 Consensus size: 8
8972745 AAGAAATTAA
8972755 AAAAAAAG
1 AAAAAAAG
*
8972763 ACAAAAAATT
1 A-AAAAAA-G
8972773 AAAAAAAG
1 AAAAAAAG
8972781 -AAAAAAG
1 AAAAAAAG
8972788 AAAAAAAAG
1 -AAAAAAAG
8972797 AAAAAGAA-
1 AAAAA-AAG
8972805 AAGGAAAAAG
1 AA--AAAAAG
*
8972815 AAGAAAAG
1 AAAAAAAG
8972823 AAAAA
1 AAAAA
8972828 GAAAAAGGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
7 7 0.13
8 17 0.32
9 23 0.43
10 6 0.11
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8972784 original size:6 final size:6
Alignment explanation
Indices: 8972775--8972834 Score: 70
Period size: 6 Copynumber: 10.0 Consensus size: 6
8972765 AAAAAATTAA
* *
8972775 AAAAAG AAAAA- AGAAA- AAAAAG AAAAAG AAAAGG AAAAAG AAGAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -A-AAAAG
8972823 AAAAAG AAAAAG
1 AAAAAG AAAAAG
8972835 GGAAGGTCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 8 0.17
6 32 0.68
7 2 0.04
8 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:8972784 original size:16 final size:16
Alignment explanation
Indices: 8972754--8972827 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 16
8972744 GAAGAAATTA
8972754 AAAAAAAAGACAAAAA-
1 AAAAAAAAGA-AAAAAG
8972770 ATTAAAAAAAGAAAAAAG
1 A--AAAAAAAGAAAAAAG
8972788 AAAAAAAAG-AAAAAG
1 AAAAAAAAGAAAAAAG
8972803 AAAAGGAAAAAGAAGAAAAG
1 -AAA--AAAAAGAA-AAAAG
8972823 AAAAA
1 AAAAA
8972828 GAAAAAGGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.12
16 12 0.24
17 7 0.14
18 16 0.32
19 4 0.08
20 5 0.10
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:8972797 original size:34 final size:34
Alignment explanation
Indices: 8972754--8972827 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 34
8972744 GAAGAAATTA
8972754 AAAAAAAAGACAAAA-AATTAA-AAAAAGAA-AAAAG
1 AAAAAAAAGA-AAAAGAA--AAGAAAAAGAAGAAAAG
8972788 AAAAAAAAGAAAAAGAAAAGGAAAAAGAAGAAAAG
1 AAAAAAAAGAAAAAGAAAA-GAAAAAGAAGAAAAG
8972823 AAAAA
1 AAAAA
8972828 GAAAAAGGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
32 2 0.06
33 4 0.11
34 20 0.56
35 10 0.28
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (34 bp):
AAAAAAAAGAAAAAGAAAAGAAAAAGAAGAAAAG
Found at i:8972833 original size:21 final size:20
Alignment explanation
Indices: 8972776--8972833 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
8972766 AAAAATTAAA
8972776 AAAAGAAAAAAGAAAAAAAAG
1 AAAAG-AAAAAGAAAAAAAAG
* *
8972797 AAAAAGAAAAGGAAAAAGAAG
1 -AAAAGAAAAAGAAAAAAAAG
8972818 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
8972834 GGGAAGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 15 0.45
21 13 0.39
22 5 0.15
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAGAAAAAAAAG
Found at i:8972833 original size:27 final size:28
Alignment explanation
Indices: 8972775--8972835 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
8972765 AAAAAATTAA
*
8972775 AAAAAGAAAAAAGAAAAAAAAGAAAAAG
1 AAAAAGGAAAAAGAAAAAAAAGAAAAAG
*
8972803 -AAAAGGAAAAAG-AAGAAAAGAAAAAG
1 AAAAAGGAAAAAGAAAAAAAAGAAAAAG
8972829 AAAAAGG
1 AAAAAGG
8972836 GAAGGTCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (28 bp):
AAAAAGGAAAAAGAAAAAAAAGAAAAAG
Found at i:8973915 original size:50 final size:50
Alignment explanation
Indices: 8973755--8973918 Score: 197
Period size: 50 Copynumber: 3.3 Consensus size: 50
8973745 TTTTTACCCT
* *
8973755 TAAAGTTGTGGAGGTGCAGATTGAAACTGCAATGGCAAATCTCATACACC
1 TAAAGTTGTAGAGGTGCAGAATGAAACTGCAATGGCAAATCTCATACACC
* *
8973805 TAAAGTTGT-GAAGGTGCA-AATTGAAACCGCGATGGCAAATCTCATACACC
1 TAAAGTTGTAG-AGGTGCAGAA-TGAAACTGCAATGGCAAATCTCATACACC
** * * * * *
8973855 TAAAACTGTAGAGGGGCAGAATGAAGCTGTAATGGCAAATCTCATTCACT
1 TAAAGTTGTAGAGGTGCAGAATGAAACTGCAATGGCAAATCTCATACACC
8973905 TAAAGTTGTAGAGG
1 TAAAGTTGTAGAGG
8973919 AGAAGATTGA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 91 0.95
51 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (50 bp):
TAAAGTTGTAGAGGTGCAGAATGAAACTGCAATGGCAAATCTCATACACC
Found at i:8974127 original size:43 final size:42
Alignment explanation
Indices: 8974067--8974217 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 42
8974057 AAACACTGCA
8974067 AAAGAACATGGTCTTTAGCGGCGCTTTACCTACAAACGCCACT
1 AAAGAACATGGTCTTTAGCGGCGC-TTACCTACAAACGCCACT
* * * ** *
8974110 AAAGACCATGTTTTTTAGCGGCGCTTAGATACAAACGCCTCT
1 AAAGAACATGGTCTTTAGCGGCGCTTACCTACAAACGCCACT
* * *
8974152 AAAGAACATGGTCTTTAACGGCGCTTACTCTAAAAACGCCGCT
1 AAAGAACATGGTCTTTAGCGGCGCTTAC-CTACAAACGCCACT
* * *
8974195 ATA-AATAGTGTTCTTTAGCGGCG
1 AAAGAACA-TGGTCTTTAGCGGCG
8974218 TTTTTTCCAC
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 41 0.47
43 47 0.53
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAGAACATGGTCTTTAGCGGCGCTTACCTACAAACGCCACT
Found at i:8974156 original size:42 final size:42
Alignment explanation
Indices: 8974067--8974179 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
8974057 AAACACTGCA
*
8974067 AAAGAACATGGTCTTTAGCGGCGCTTTACCTACAAACGCCACT
1 AAAGAACATGGTCTTTAGCGGCGC-TTACATACAAACGCCACT
* * * * *
8974110 AAAGACCATGTTTTTTAGCGGCGCTTAGATACAAACGCCTCT
1 AAAGAACATGGTCTTTAGCGGCGCTTACATACAAACGCCACT
*
8974152 AAAGAACATGGTCTTTAACGGCGCTTAC
1 AAAGAACATGGTCTTTAGCGGCGCTTAC
8974180 TCTAAAAACG
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 38 0.64
43 21 0.36
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
AAAGAACATGGTCTTTAGCGGCGCTTACATACAAACGCCACT
Found at i:8980344 original size:22 final size:20
Alignment explanation
Indices: 8980286--8980349 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 20
8980276 GGTTGTTTTT
8980286 AATAATTAAATATTTAATTA
1 AATAATTAAATATTTAATTA
*
8980306 AATAAGTAAATA--TAATTA
1 AATAATTAAATATTTAATTA
8980324 AATAATTAAATATTTTGAATTA
1 AATAATTAAATA-TTT-AATTA
8980346 AATA
1 AATA
8980350 TTTGGGTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 17 0.45
20 11 0.29
21 1 0.03
22 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AATAATTAAATATTTAATTA
Found at i:8980383 original size:4 final size:4
Alignment explanation
Indices: 8980369--8980398 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
8980359 TTTTTAATAT
*
8980369 TTAA ATAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
8980399 GGGTTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:8980402 original size:46 final size:48
Alignment explanation
Indices: 8980318--8981025 Score: 183
Period size: 52 Copynumber: 14.2 Consensus size: 48
8980308 TAAGTAAATA
* * *
8980318 TAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAA-
1 TAATTAAATAATTAAATATATTGAATTAAATAATTGGGTTG-ATTTAAC
* * *
8980366 TATTTAAATAATTAATTA-ATT-AATTAATTAATTGGGTTGATTTAAC
1 TAATTAAATAATTAAATATATTGAATTAAATAATTGGGTTGATTTAAC
* * ** * *** * * *
8980412 TAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAA
1 TAATTAAATAATTAA--ATAT--ATTGAATTAAATAATT--GGGTTGATTTAAC
* * *
8980466 TAATTAAATATAATTAAATATCTTGAATTAAATATTTGGGTTGTTTTTAA-
1 TAATT-AA-ATAATTAAATATATTGAATTAAATAATTGGGTTG-ATTTAAC
* * * *
8980516 T-ATT-TAT-A-TAATTA-ATT-AATTAATTAATTGGGTTGGTTTAAC
1 TAATTAAATAATTAAATATATTGAATTAAATAATTGGGTTGATTTAAC
* * ** * *** * * *
8980558 TAATTAAATAATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAA
1 TAATTAAATAATTAA--ATAT--ATTGAATTAAATAATT--GGGTTGATTTAAC
* * *
8980612 TAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAA-
1 TAATT-AA-ATAATTAAATATATTGAATTAAATAATTGGGTTG-ATTTAAC
* *
8980662 TATTTATATAAATAATTAATTA-ATT-AATTAATTAATTGGGTTGATTTAAC
1 TA---AT-TAAATAATTAAATATATTGAATTAAATAATTGGGTTGATTTAAC
* ** * *** * * *
8980712 TAATTAAATAATTAAGTATTTAGGTTGTTTTTAATAATTAAATATTTAATTAAA
1 TAATTAAATAATTAA--ATATA--TTGAATTAAATAATT--GGGTTGATTTAAC
* * * *
8980766 TAATTAAATATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAA-
1 TAATT-AA-ATAATTAAATATATTGAATTAAATAATTGGGTTG-ATTTAAC
* * * * * *
8980816 TATTTAAATAAATAATTA-ATT-AATTAATTAATTGAGTTGATTTAAA
1 TAATTAAATAATTAAATATATTGAATTAAATAATTGGGTTGATTTAAC
* * * ** * *** * * *
8980862 TAATTAAATAATTCAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAA
1 TAATTAAATAATT-A-AATAT--ATTGAATTAAATAATT--GGGTTGATTTAAC
* * *
8980916 TAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAA-
1 TAATTAAATAATTAAATATATTGAATTAAATAATTGGGTTG-ATTTAAC
* * * * * *
8980964 TAAATAAATAAATAAATAAATAATT-AATTAATTAATAGAGTTGATTTAAG
1 TAATTAAATAATTAAAT--AT-ATTGAATTAAATAATTGGGTTGATTTAAC
8981014 TAATTAAATAAT
1 TAATTAAATAAT
8981026 GAAGTATTTG
Statistics
Matches: 463, Mismatches: 139, Indels: 114
0.65 0.19 0.16
Matches are distributed among these distances:
41 5 0.01
42 17 0.04
43 5 0.01
44 7 0.02
45 12 0.03
46 73 0.16
47 7 0.02
48 46 0.10
49 20 0.04
50 68 0.15
51 24 0.05
52 78 0.17
53 5 0.01
54 66 0.14
55 6 0.01
56 24 0.05
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.48
Consensus pattern (48 bp):
TAATTAAATAATTAAATATATTGAATTAAATAATTGGGTTGATTTAAC
Found at i:8980424 original size:34 final size:34
Alignment explanation
Indices: 8980378--8980610 Score: 130
Period size: 34 Copynumber: 6.6 Consensus size: 34
8980368 TTTAAATAAT
*
8980378 TAATTAATTAATTAATTAATTGGGTTG-ATTTAA
1 TAATTAAATAATTAATTAATTGGGTTGTATTTAA
* * *
8980411 CTAATTAAATAATTAAGTATTTGGGTTGTTTTTAA
1 -TAATTAAATAATTAATTAATTGGGTTGTATTTAA
* * ** ** *
8980446 TAATTAAATATTTAATTAAAT-AATTAAATATAA
1 TAATTAAATAATTAATTAATTGGGTTGTATTTAA
* ** * *
8980479 TTAAATATCTTGAATTAAATATTTGGGTTGTTTTTAATATTTATA
1 -TAATTA-AAT-AATTAATTAATTGGGTTG-------TATTTA-A
* *
8980524 TAATTAATTAATTAATTAATTGGGTTG-GTTTAA
1 TAATTAAATAATTAATTAATTGGGTTGTATTTAA
* * *
8980557 CTAATTAAATAATTAAGTATTTGGGTTGTTTTTAA
1 -TAATTAAATAATTAATTAATTGGGTTGTATTTAA
*
8980592 TAATTAAATATTTAATTAA
1 TAATTAAATAATTAATTAA
8980611 ATAATTAAAT
Statistics
Matches: 146, Mismatches: 38, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
33 7 0.05
34 90 0.62
35 11 0.08
36 8 0.05
37 2 0.01
42 16 0.11
43 2 0.01
44 9 0.06
45 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.48
Consensus pattern (34 bp):
TAATTAAATAATTAATTAATTGGGTTGTATTTAA
Found at i:8980463 original size:12 final size:12
Alignment explanation
Indices: 8980446--8980502 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 12
8980436 TTGTTTTTAA
8980446 TAATTAAATATT
1 TAATTAAATATT
8980458 TAATT-AA-A--
1 TAATTAAATATT
8980466 TAATTAAATA--
1 TAATTAAATATT
8980476 TAATTAAATATCT
1 TAATTAAATAT-T
8980489 TGAATTAAATATT
1 T-AATTAAATATT
8980502 T
1 T
8980503 GGGTTGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
8 5 0.13
9 2 0.05
10 12 0.31
11 2 0.05
12 5 0.13
13 3 0.08
14 10 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:8980469 original size:20 final size:18
Alignment explanation
Indices: 8980444--8980485 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
8980434 GGTTGTTTTT
8980444 AATAATTAAATATTTAATTA
1 AATAATTAAATA--TAATTA
8980464 AATAATTAAATATAATTA
1 AATAATTAAATATAATTA
8980482 AATA
1 AATA
8980486 TCTTGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAAATATAATTA
Found at i:8980514 original size:70 final size:69
Alignment explanation
Indices: 8980421--8980696 Score: 297
Period size: 70 Copynumber: 3.9 Consensus size: 69
8980411 CTAATTAAAT
* *
8980421 AATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAAATATAATTAAATA
1 AATTAAATATTTGGGTTGTTTTTAATAATTAAATAATTAATTAAATAATTAAATATAATTAAATA
8980486 TCTTG
66 T-TTG
* * * * * **
8980491 AATTAAATATTTGGGTTGTTTTTAATATTTATATAATTAATTAATTAATTAATTGGGTTGGTTTA
1 AATTAAATATTTGGGTTGTTTTTAATAATTAAATAATTAATTAAATAATTAAAT---AT-AATTA
*
8980556 ACTAATTAAAT-
62 AAT-ATT---TG
* *
8980567 AATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATTAAATAATTAAATATAATTAAATA
1 AATTAAATATTTGGGTTGTTTTTAATAATTAAATAATTAATTAAATAATTAAATATAATTAAATA
8980632 TTTTG
66 -TTTG
* * * *
8980637 AATTAAATATTTGGGTTGTTTTTAATATTTATATAAATAATTAATTAATT-AAT-TAATTAA
1 AATTAAATATTTGGGTTGTTTTTAATAATTAAATAATTAATTAAATAATTAAATATAATTAA
8980697 TTGGGTTGAT
Statistics
Matches: 170, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
68 7 0.04
69 4 0.02
70 92 0.54
71 1 0.01
72 7 0.04
73 2 0.01
74 6 0.04
75 2 0.01
76 48 0.28
77 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (69 bp):
AATTAAATATTTGGGTTGTTTTTAATAATTAAATAATTAATTAAATAATTAAATATAATTAAATA
TTTG
Found at i:8980538 original size:42 final size:41
Alignment explanation
Indices: 8980491--8980610 Score: 103
Period size: 42 Copynumber: 3.0 Consensus size: 41
8980481 AAATATCTTG
8980491 AATTAAATATTTGGGTTGTTTTTAATATTTATATAATTAATT
1 AATTAAATATTTGGGTTGTTTTTAATA-TTATATAATTAATT
* * *
8980533 AATTAATTAATTGGGTTG-GTTTAACTA--AT-T-A--AA-T
1 AATTAAATATTTGGGTTGTTTTTAA-TATTATATAATTAATT
* * *
8980567 AATTAAGTATTTGGGTTGTTTTTAATAATTAAATATTTAATT
1 AATTAAATATTTGGGTTGTTTTTAAT-ATTATATAATTAATT
8980609 AA
1 AA
8980611 ATAATTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
34 18 0.30
35 8 0.13
37 2 0.03
38 2 0.03
39 2 0.03
41 7 0.12
42 21 0.35
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.50
Consensus pattern (41 bp):
AATTAAATATTTGGGTTGTTTTTAATATTATATAATTAATT
Found at i:8980615 original size:20 final size:18
Alignment explanation
Indices: 8980590--8980631 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
8980580 GGTTGTTTTT
8980590 AATAATTAAATATTTAATTA
1 AATAATTAAATA--TAATTA
8980610 AATAATTAAATATAATTA
1 AATAATTAAATATAATTA
8980628 AATA
1 AATA
8980632 TTTTGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAAATATAATTA
Found at i:8980681 original size:4 final size:4
Alignment explanation
Indices: 8980674--8980698 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8980664 TTTATATAAA
8980674 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
8980699 GGGTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:8980718 original size:34 final size:34
Alignment explanation
Indices: 8980678--8980764 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
8980668 TATAAATAAT
* *
8980678 TAATTAATTAATTAATTAATTGGGTTG-ATTTAA
1 TAATTAAATAATTAATTAATTAGGTTGTATTTAA
* * *
8980711 CTAATTAAATAATTAAGTATTTAGGTTGTTTTTAA
1 -TAATTAAATAATTAATTAATTAGGTTGTATTTAA
*
8980746 TAATTAAATATTTAATTAA
1 TAATTAAATAATTAATTAA
8980765 ATAATTAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 39 0.89
35 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.48
Consensus pattern (34 bp):
TAATTAAATAATTAATTAATTAGGTTGTATTTAA
Found at i:8980738 original size:154 final size:150
Alignment explanation
Indices: 8980317--8981045 Score: 1195
Period size: 150 Copynumber: 4.9 Consensus size: 150
8980307 ATAAGTAAAT
*
8980317 ATAATT-AA-ATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAATTA
1 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATA
8980380 ATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTA
66 ATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTA
8980445 ATAATTAAATATTTAATTAA
131 ATAATTAAATATTTAATTAA
*
8980465 ATAATTAAATATAATTAAATATCTTGAATTAAATATTTGGGTTGTTTTTAATATTT--AT--ATA
1 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATA
*
8980526 ATTAATTAATTAATTAATTGGGTTGGTTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTA
66 ATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTA
8980591 ATAATTAAATATTTAATTAA
131 ATAATTAAATATTTAATTAA
8980611 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTATATAAATA
1 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATA--T-T-TAAATA
* *
8980676 ATTAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTAGGTTGTT
62 AATAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTT
8980741 TTTAATAATTAAATATTTAATTAA
127 TTTAATAATTAAATATTTAATTAA
*
8980765 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGAGTTGTTTTTAATATTTAAATAAATA
1 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATA
* * *
8980830 ATTAATTAATTAATTAATTGAGTTGATTTAAATAATTAAATAATTCAGTATTTGGGTTGTTTTTA
66 ATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTA
8980895 ATAATTAAATATTTAATTAA
131 ATAATTAAATATTTAATTAA
*
8980915 ATAATT-AA-ATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATAAATAAATAAATA
1 ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAAT--AT--TTAAATA
* * * * *
8980978 AATAAATAATTAATTAATTAATAGAGTTGATTTAAGTAATTAAATAATGAAGTATTTGGGTTGTT
62 AATAATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTT
8981043 TTT
127 TTT
8981046 TCTAATTTAA
Statistics
Matches: 547, Mismatches: 20, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
146 138 0.25
148 50 0.09
149 5 0.01
150 144 0.26
151 1 0.00
152 72 0.13
154 137 0.25
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (150 bp):
ATAATTAAATATAATTAAATATTTTGAATTAAATATTTGGGTTGTTTTTAATATTTAAATAAATA
ATTAATTAATTAATTAATTGGGTTGATTTAACTAATTAAATAATTAAGTATTTGGGTTGTTTTTA
ATAATTAAATATTTAATTAA
Found at i:8980769 original size:20 final size:18
Alignment explanation
Indices: 8980744--8980785 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
8980734 GGTTGTTTTT
8980744 AATAATTAAATATTTAATTA
1 AATAATTAAATA--TAATTA
8980764 AATAATTAAATATAATTA
1 AATAATTAAATATAATTA
8980782 AATA
1 AATA
8980786 TTTTGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTAAATATAATTA
Found at i:8980862 original size:34 final size:34
Alignment explanation
Indices: 8980824--8980914 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 34
8980814 AATATTTAAA
*
8980824 TAAATAATTAATTAATTAATTAATTGAGTTGATT
1 TAAATAATTAAATAATTAATTAATTGAGTTGATT
* * * * *
8980858 TAAATAATTAAATAATTCAGTATTTGGGTTGTTT
1 TAAATAATTAAATAATTAATTAATTGAGTTGATT
* *
8980892 TTAATAATTAAATATTTAATTAA
1 TAAATAATTAAATAATTAATTAA
8980915 ATAATTAAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (34 bp):
TAAATAATTAAATAATTAATTAATTGAGTTGATT
Found at i:8980910 original size:8 final size:8
Alignment explanation
Indices: 8980908--8980933 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8980898 ATTAAATATT
8980908 TAATTAAA
1 TAATTAAA
8980916 TAATTAAA
1 TAATTAAA
8980924 TAATTAAA
1 TAATTAAA
8980932 TA
1 TA
8980934 TTTTGAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:8980913 original size:12 final size:12
Alignment explanation
Indices: 8980896--8980950 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 12
8980886 TTGTTTTTAA
8980896 TAATTAAATATT
1 TAATTAAATATT
8980908 TAATTAAATAATT
1 TAATTAAAT-ATT
8980921 AAATAATTAAATATTT
1 ---TAATTAAATA-TT
8980937 TGAATTAAATATT
1 T-AATTAAATATT
8980950 T
1 T
8980951 GGGTTGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.24
13 7 0.19
14 9 0.24
15 1 0.03
16 11 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:8980971 original size:4 final size:4
Alignment explanation
Indices: 8980962--8980986 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8980952 GGTTGTTTTT
8980962 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
8980987 TTAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:8983443 original size:41 final size:41
Alignment explanation
Indices: 8983337--8983445 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
8983327 AATGTAAAAA
* *
8983337 TTTTAGCGGCACTTTTCCATAAGCGTCGCTATTGCTTAGAC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
* ** * *
8983378 TTTTAGCGGCGCTTATGGAAAAGCGCCGCTATTGCTTAGGC
1 TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
*
8983419 TTTTCGCGGCGCTTTTCCATAAGCGCC
1 TTTTAGCGGCGCTTTTCCATAAGCGCC
8983446 ATTATTTCTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTTAGAC
Found at i:8983632 original size:41 final size:41
Alignment explanation
Indices: 8983524--8983739 Score: 214
Period size: 41 Copynumber: 5.4 Consensus size: 41
8983514 TCCTGTAGTG
* *
8983524 ATCCGATCTTTTACCCCGATCATAGGGC-AGATTGAAGA-A
1 ATCCAATCTTTTACCCCGATCATGGGGCAAGATTGAAGACA
* * ** *
8983563 ATCTAATCTTTTATCCTAATCA-GAGGGCAAGATTGAAGACC
1 ATCCAATCTTTTACCCCGATCATG-GGGCAAGATTGAAGACA
*
8983604 ATCCGATCTTTTACCCCGATCATGGGGCAA-ATTGAAGA-A
1 ATCCAATCTTTTACCCCGATCATGGGGCAAGATTGAAGACA
* ** * *
8983643 ATCCAATCTTTTATCCTAATTA-GAGGGCAAGATTGAAGACC
1 ATCCAATCTTTTACCCCGATCATG-GGGCAAGATTGAAGACA
* *
8983684 ATCCGATCTTTTACCCCGATCTATGGGG-TAGATTGAA-ACA
1 ATCCAATCTTTTACCCCGATC-ATGGGGCAAGATTGAAGACA
8983724 ATCCAATCTTTTACCC
1 ATCCAATCTTTTACCC
8983740 TGACTAGAGC
Statistics
Matches: 141, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 44 0.31
40 43 0.30
41 47 0.33
42 5 0.04
43 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (41 bp):
ATCCAATCTTTTACCCCGATCATGGGGCAAGATTGAAGACA
Found at i:8983638 original size:40 final size:40
Alignment explanation
Indices: 8983524--8983739 Score: 199
Period size: 39 Copynumber: 5.4 Consensus size: 40
8983514 TCCTGTAGTG
* * *
8983524 ATCCGATCTTTTACCCCGATCATAGGGCAGATTGAAGA-A
1 ATCCAATCTTTTACCCCGATCATGGGGCAAATTGAAGACA
* * ** *
8983563 ATCTAATCTTTTATCCTAATCA-GAGGGCAAGATTGAAGACC
1 ATCCAATCTTTTACCCCGATCATG-GGGCAA-ATTGAAGACA
*
8983604 ATCCGATCTTTTACCCCGATCATGGGGCAAATTGAAGA-A
1 ATCCAATCTTTTACCCCGATCATGGGGCAAATTGAAGACA
* ** * *
8983643 ATCCAATCTTTTATCCTAATTA-GAGGGCAAGATTGAAGACC
1 ATCCAATCTTTTACCCCGATCATG-GGGCAA-ATTGAAGACA
* * *
8983684 ATCCGATCTTTTACCCCGATCTATGGGGTAGATTGAA-ACA
1 ATCCAATCTTTTACCCCGATC-ATGGGGCAAATTGAAGACA
8983724 ATCCAATCTTTTACCC
1 ATCCAATCTTTTACCC
8983740 TGACTAGAGC
Statistics
Matches: 139, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
39 45 0.32
40 41 0.29
41 45 0.32
42 6 0.04
43 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (40 bp):
ATCCAATCTTTTACCCCGATCATGGGGCAAATTGAAGACA
Found at i:8983657 original size:80 final size:80
Alignment explanation
Indices: 8983524--8983765 Score: 364
Period size: 80 Copynumber: 3.0 Consensus size: 80
8983514 TCCTGTAGTG
* *
8983524 ATCCGATCTTTTACCCCGATCATAGGGCAGATTGAAGAAATCTAATCTTTTATCCTAATCAGAGG
1 ATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTATCCTAATCAGAGG
8983589 GCAAGATTGAAGACC
66 GCAAGATTGAAGACC
* *
8983604 ATCCGATCTTTTACCCCGATCATGGGGCAAATTGAAGAAATCCAATCTTTTATCCTAATTAGAGG
1 ATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTATCCTAATCAGAGG
8983669 GCAAGATTGAAGACC
66 GCAAGATTGAAGACC
* * *
8983684 ATCCGATCTTTTACCCCGATCTATGGGGTAGATTGAA-ACAATCCAATCTTTTACCCTGA-CTAG
1 ATCCGATCTTTTACCCCGATC-ATGGGGCAGATTGAAGA-AATCCAATCTTTTATCCTAATC-AG
*
8983747 AGCGC-AGATTGAAGACC
63 AGGGCAAGATTGAAGACC
8983764 AT
1 AT
8983766 TTGGCAGATT
Statistics
Matches: 149, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
80 112 0.75
81 37 0.25
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (80 bp):
ATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTATCCTAATCAGAGG
GCAAGATTGAAGACC
Found at i:8984354 original size:12 final size:12
Alignment explanation
Indices: 8984312--8984355 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
8984302 ATCCCATTCC
*
8984312 ATTTTTCTTATT
1 ATTTTTATTATT
8984324 ATTTTTATTTATT
1 ATTTTTA-TTATT
*
8984337 A-ATTTATTATT
1 ATTTTTATTATT
8984348 ATTTTTAT
1 ATTTTTAT
8984356 AAATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.22
12 15 0.56
13 6 0.22
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:8984431 original size:67 final size:66
Alignment explanation
Indices: 8984326--8984506 Score: 200
Period size: 67 Copynumber: 2.8 Consensus size: 66
8984316 TTCTTATTAT
8984326 TTTTATTTATTAATTTA-TTATTATTTTTATAAATATAAATAAAT-A-TAAAATAATATTAATTT
1 TTTTA-TTATTAATTTATTTATTATTTTTATAAATATAAATAAATAAGTAAAATAATATTAATTT
8984388 TA
65 TA
*
8984390 TTTTATTATTCATTTATTTATTATTTGTTGTATGAAA-ATAAATAAATAAATGTAAAATAATATT
1 TTTTATTATTAATTTATTTATTA-TT-TT-TAT-AAATATAAATAAAT-AA-GTAAAATAATATT
8984454 AA-TTT-
60 AATTTTA
* * *
8984459 TGTT-TTATT-ATTTATTTATTA-TTTTATGAATATAAATAAATAAATAAA
1 TTTTATTATTAATTTATTTATTATTTTTATAAATATAAATAAATAAGTAAA
8984507 TAAATAACAA
Statistics
Matches: 103, Mismatches: 4, Indels: 23
0.79 0.03 0.18
Matches are distributed among these distances:
61 4 0.04
62 4 0.04
63 23 0.22
64 13 0.13
65 3 0.03
66 2 0.02
67 25 0.24
68 8 0.08
69 4 0.04
70 3 0.03
71 14 0.14
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (66 bp):
TTTTATTATTAATTTATTTATTATTTTTATAAATATAAATAAATAAGTAAAATAATATTAATTTT
A
Done.