Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 38 of 216
Found at i:10810603 original size:24 final size:24
Alignment explanation
Indices: 10810562--10810620 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
10810552 CATCCAATCA
* *
10810562 CTCCACCGCCACCTCATGTACATC
1 CTCCACCACCACCCCATGTACATC
* * *
10810586 CTCCACCACCTCCCCATGTGCGTC
1 CTCCACCACCACCCCATGTACATC
*
10810610 CACCACCACCA
1 CTCCACCACCA
10810621 GCACCACTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.54, G:0.08, T:0.17
Consensus pattern (24 bp):
CTCCACCACCACCCCATGTACATC
Found at i:10831421 original size:23 final size:24
Alignment explanation
Indices: 10831377--10831422 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
10831367 TTACATATAT
10831377 ATATATAAAAAATAATAATAATTAC
1 ATATATAAAAAATAAT-ATAATTAC
* *
10831402 ATATATTAAAATTAAT-TAATT
1 ATATATAAAAAATAATATAATT
10831423 TAGAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
25 14 0.74
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATATAAAAAATAATATAATTAC
Found at i:10831561 original size:17 final size:17
Alignment explanation
Indices: 10831539--10831582 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
10831529 TAGGAAATAA
10831539 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
10831556 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
10831573 -ATATGTATAT
1 AAAATGTATAT
10831583 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:10831608 original size:33 final size:33
Alignment explanation
Indices: 10831511--10831614 Score: 80
Period size: 33 Copynumber: 3.3 Consensus size: 33
10831501 ATAAAAGTAT
* * *
10831511 ATATATGCATATAAAAGTTA-GGAAATA-AAAA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
* *
10831542 ATGTATATGTATAT-AAA---ATGTAAAT-GTAT-
1 A--TATATGTATATAAAAGTTATGCAAATAGAATA
10831571 ATATATGTATATAAAAGTTATGCAAATAGAATA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
*
10831604 ATATATATATA
1 ATATATGTATA
10831615 ATATGTGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
27 11 0.20
28 3 0.05
29 2 0.04
30 6 0.11
31 8 0.14
32 6 0.11
33 20 0.36
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (33 bp):
ATATATGTATATAAAAGTTATGCAAATAGAATA
Found at i:10831609 original size:60 final size:59
Alignment explanation
Indices: 10831502--10831614 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
10831492 AAAAAATATA
* *
10831502 TAAAAGTATATATATGCATATAAAAGTTAGGAAATAAAAAATGTATATGTATATAAAATG
1 TAAAAGTATATATATGCATATAAAAGTTAGCAAATAAAAAA-GTATATATATATAAAATG
* * *
10831562 TAAATGTATATATATGTATATAAAAGTTATGCAAATAGAATAA-TATATATATA
1 TAAAAGTATATATATGCATATAAAAGTTA-GCAAATA-AAAAAGTATATATATA
10831615 ATATGTGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 36 0.78
61 6 0.13
62 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (59 bp):
TAAAAGTATATATATGCATATAAAAGTTAGCAAATAAAAAAGTATATATATATAAAATG
Found at i:10831702 original size:12 final size:12
Alignment explanation
Indices: 10831685--10831718 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10831675 GTATTTATAG
**
10831685 TAATAATAATGA
1 TAATAATAACAA
10831697 TAATAATAACAA
1 TAATAATAACAA
10831709 TAATAATAAC
1 TAATAATAAC
10831719 TTAATAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (12 bp):
TAATAATAACAA
Found at i:10831725 original size:20 final size:20
Alignment explanation
Indices: 10831700--10831759 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
10831690 ATAATGATAA
10831700 TAATAACAATAATAATAACT
1 TAATAACAATAATAATAACT
* *
10831720 TAATAACAAGAA-AATCAAATT
1 TAATAACAATAATAAT--AACT
*
10831741 TAATAAAAATAAATAATAA
1 TAATAACAAT-AATAATAA
10831760 ATAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 13 0.41
22 2 0.06
23 3 0.09
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
TAATAACAATAATAATAACT
Found at i:10832075 original size:24 final size:21
Alignment explanation
Indices: 10832058--10832132 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
10832048 AATCATATCT
10832058 TCTAAGATTGCATAAATCATA
1 TCTAAGATTGCATAAATCATA
*
10832079 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
10832100 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
*
10832119 TCTAAGATTACATA
1 TCTAAGATTGCATA
10832133 TCCTTGAAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
19 18 0.35
21 33 0.65
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:10832358 original size:28 final size:30
Alignment explanation
Indices: 10832318--10832410 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 30
10832308 AAGTATCAAC
10832318 TTAAGAAAAAATGTCAAGTTTAGGTA-CAAA
1 TTAA-AAAAAATGTCAAGTTTAGGTACCAAA
*
10832348 TT-AAAAAAATGTCAAGTTTGGGTACCAAA
1 TTAAAAAAAATGTCAAGTTTAGGTACCAAA
10832377 TTAGAAAAAAAATTGTCAAGTTTAGGTACCAAA
1 TT--AAAAAAAA-TGTCAAGTTTAGGTACCAAA
10832410 T
1 T
10832411 GTTATATTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
28 20 0.36
29 7 0.12
30 2 0.04
32 7 0.12
33 20 0.36
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (30 bp):
TTAAAAAAAATGTCAAGTTTAGGTACCAAA
Found at i:10833366 original size:24 final size:23
Alignment explanation
Indices: 10833339--10833409 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 23
10833329 ACAAAAAAGA
10833339 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCTAAGTCACTTC-TTTCTT
* **
10833363 TTTGTCCAAGTTGCTTC--TCTT
1 TTTGTCTAAGTCACTTCTTTCTT
* * *
10833384 TTTTTCTAACTCACTTCTTTTTT
1 TTTGTCTAAGTCACTTCTTTCTT
10833407 TTT
1 TTT
10833410 TGTGAGTTTC
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
21 16 0.44
23 6 0.17
24 14 0.39
ACGTcount: A:0.11, C:0.21, G:0.08, T:0.59
Consensus pattern (23 bp):
TTTGTCTAAGTCACTTCTTTCTT
Found at i:10841046 original size:29 final size:29
Alignment explanation
Indices: 10841013--10841070 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10841003 GAACCCACAT
10841013 CAAGATTAGGGTTCCAACAGTTGATAAAC
1 CAAGATTAGGGTTCCAACAGTTGATAAAC
10841042 CAAGATTAGGGTTCCAACAGTTGATAAAC
1 CAAGATTAGGGTTCCAACAGTTGATAAAC
10841071 ATAGCAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (29 bp):
CAAGATTAGGGTTCCAACAGTTGATAAAC
Found at i:10841704 original size:46 final size:49
Alignment explanation
Indices: 10841631--10841727 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 49
10841621 TGTGTTATAA
* *
10841631 TTTATAAAGTGTTGAGCTTTTGATCATG-ATA-TGAA-TTAATTTTAAT
1 TTTATAAAGTGTTCAGCTTTTGATCATGAATATTAAACTTAATTTTAAT
10841677 TTTATAAAGTGTTCA-CTTTTGATTCATGAATATTAAACTTAATTTTAAT
1 TTTATAAAGTGTTCAGCTTTTGA-TCATGAATATTAAACTTAATTTTAAT
10841726 TT
1 TT
10841728 GATTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
45 7 0.16
46 19 0.42
47 3 0.07
48 3 0.07
49 13 0.29
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (49 bp):
TTTATAAAGTGTTCAGCTTTTGATCATGAATATTAAACTTAATTTTAAT
Found at i:10843106 original size:16 final size:15
Alignment explanation
Indices: 10843085--10843130 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
10843075 ATTATCTAGT
10843085 TTTTTATTAAATTATA
1 TTTTTATT-AATTATA
10843101 TTTTTATTAATTATA
1 TTTTTATTAATTATA
*
10843116 TTTAATATTAATTAT
1 TTT-TTATTAATTAT
10843131 TTTAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTATTAATTATA
Found at i:10843347 original size:16 final size:17
Alignment explanation
Indices: 10843321--10843352 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10843311 TTATCTAGTT
10843321 TTTTATTAAATTATATA
1 TTTTATTAAATTATATA
10843338 TTTT-TTAAATTATAT
1 TTTTATTAAATTATAT
10843353 TTAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATTAAATTATATA
Found at i:10843353 original size:14 final size:14
Alignment explanation
Indices: 10843334--10843381 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
10843324 TATTAAATTA
10843334 TATATTTTTTAAAT
1 TATATTTTTTAAAT
10843348 TATA---TTTAATAT
1 TATATTTTTTAA-AT
10843360 TA-ATTATTTTAAAT
1 TATATT-TTTTAAAT
10843374 TATATTTT
1 TATATTTT
10843382 ATATTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
11 6 0.21
12 4 0.14
14 10 0.36
15 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATATTTTTTAAAT
Found at i:10843379 original size:12 final size:12
Alignment explanation
Indices: 10843340--10843382 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
10843330 ATTATATATT
10843340 TTTTAAATTATA
1 TTTTAAATTATA
10843352 -TTTAATATTAATTA
1 TTTTAA-ATT-A-TA
10843366 TTTTAAATTATA
1 TTTTAAATTATA
10843378 TTTTA
1 TTTTA
10843383 TATTGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 5 0.19
12 10 0.37
13 2 0.07
14 5 0.19
15 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAATTATA
Found at i:10843583 original size:120 final size:120
Alignment explanation
Indices: 10843264--10843730 Score: 758
Period size: 120 Copynumber: 4.0 Consensus size: 120
10843254 AATAATAAGA
* * **
10843264 ATATTATATAG-ATT-TATAATATGATTTTAGT-AATTCATATAAGAATA-TT-AT-CT-AGTTT
1 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
*
10843322 TTTATTAAATTATATA-TTTT-TTAAATTATATTTAATATTAATTATTTTAAATT
66 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
* * * *
10843375 ATATTTTATATTGTTATATATTATGA-TTTAG-AAATTCATATAATAATATTTAATATTAAGAAT
1 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
10843438 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
66 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
*
10843493 ATATTTTACAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
1 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
10843558 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
66 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
10843613 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
1 ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
*
10843678 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
66 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
10843731 ATATGATTAA
Statistics
Matches: 329, Mismatches: 16, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
111 9 0.03
112 22 0.07
113 11 0.03
114 2 0.01
115 1 0.00
116 19 0.06
117 4 0.01
118 55 0.17
119 5 0.02
120 201 0.61
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
ATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAAT
TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATT
Found at i:10843960 original size:16 final size:16
Alignment explanation
Indices: 10843939--10843992 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
10843929 ATAATTGACT
10843939 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
10843955 ATTACAGCTCTATTCT
1 ATTACACCTCTATTCC
*
10843971 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
10843987 ATTACA
1 ATTACA
10843993 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10845592 original size:24 final size:24
Alignment explanation
Indices: 10845565--10845616 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10845555 TTAGTAAGTC
*
10845565 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
10845589 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
10845613 AAAT
1 AAAT
10845617 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:10847562 original size:24 final size:24
Alignment explanation
Indices: 10847535--10847586 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10847525 TTAGTAAGTC
*
10847535 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
10847559 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
10847583 AAAT
1 AAAT
10847587 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:10849444 original size:24 final size:24
Alignment explanation
Indices: 10849385--10849444 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
10849375 TTAAGTAGTG
* * *
10849385 ATACATGATAAAATTTAAAATAATA
1 ATACATAAT-AAACTTAAAATAAAA
* *
10849410 ATACGTAATAAACTTATAATAAAA
1 ATACATAATAAACTTAAAATAAAA
*
10849434 ATACATTATAA
1 ATACATAATAA
10849445 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (24 bp):
ATACATAATAAACTTAAAATAAAA
Found at i:10861338 original size:42 final size:41
Alignment explanation
Indices: 10861247--10861531 Score: 286
Period size: 42 Copynumber: 6.8 Consensus size: 41
10861237 AACTAAAAAT
* * ** *** *
10861247 GCCGTTAAAGAACATGATCTTTAGCGGCGCTTAACGAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTCCTTAAGC
* * *
10861289 GCCGCTAAAAAACATGATCTTTAGCGACGTTTTCCCTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-CCTTAAGC
* *
10861331 GCAGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTCCTTAAGC
*
10861373 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTCCTTAAGC
* * * *
10861415 GTCGCTAAATAACATGATCTTTAGCGGCGATTTT-TTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTCCTTAAGC
* *
10861456 GCCTCTAAAGAACATGTTCTTTAGCGGCGTTTT-TTTATGAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCCTTA--AGC
* *
10861498 GCCGCTAAAAAATATGTTCTTTAGCGGCGCTTTT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTT
10861532 TCTTTGACCG
Statistics
Matches: 210, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
40 8 0.04
41 33 0.16
42 161 0.77
43 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (41 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCCTTAAGC
Found at i:10861484 original size:83 final size:82
Alignment explanation
Indices: 10861288--10861535 Score: 304
Period size: 83 Copynumber: 3.0 Consensus size: 82
10861278 TAACGAAAAA
* * * * * *
10861288 CGCCGCTAAAAAACATGATCTTTAGCGACGTTTTCCCTTAAGCGCAGCTAAAGATCATGTTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCCTTAAGCGC-GCTAAAAAACATGTTCTTT
10861353 AGCGGCGTTTTTCCTTAAG
65 AGCGGCGTTTTT-CTTAAG
* * *
10861372 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGCGTCGCTAAATAACATGATCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCCTTAAGCG-CGCTAAAAAACATGTTCTTT
10861437 AGCGGCGATTTTT-TTAAG
65 AGCGGCG-TTTTTCTTAAG
* *
10861455 CGCCTCTAAAGAACATGTTCTTTAGCGGCGTTTTT--TTATGAGCGCCGCTAAAAAATATGTTCT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCCTTA--AGCG-CGCTAAAAAACATGTTCT
10861518 TTAGCGGCGCTTTTTCTT
63 TTAGCGGCG-TTTTTCTT
10861536 TGACCGCCGT
Statistics
Matches: 144, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
81 3 0.02
83 71 0.49
84 64 0.44
85 6 0.04
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (82 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCCTTAAGCGCGCTAAAAAACATGTTCTTTA
GCGGCGTTTTTCTTAAG
Found at i:10861503 original size:125 final size:125
Alignment explanation
Indices: 10861291--10861533 Score: 341
Period size: 125 Copynumber: 1.9 Consensus size: 125
10861281 CGAAAAACGC
*
10861291 CGCTAAAAAACATGATCTTTAGCGACGTTTTCCCTTAAGCGCAGCTAAAGATCATGTTCTTTAGC
1 CGCTAAAAAACATGATCTTTAGCGACGTTTT-CCTTAAGCGCAGCTAAAGAACATGTTCTTTAGC
*
10861356 GGCGTTTTTCCTTAAGCGCCGCT-AAAGATCATGTTCTTTAGCGGCG-TTTTTCCTTAAGCGT
65 GGCGTTTTT-CTTAAGCGCCGCTAAAAAAT-ATGTTCTTTAGCGGCGCTTTTTCCTTAAGCGT
* * * **
10861417 CGCTAAATAACATGATCTTTAGCGGCGATTTT-TTTAAGCGCCTCTAAAGAACATGTTCTTTAGC
1 CGCTAAAAAACATGATCTTTAGCGACG-TTTTCCTTAAGCGCAGCTAAAGAACATGTTCTTTAGC
10861481 GGCGTTTTT-TTATGAGCGCCGCTAAAAAATATGTTCTTTAGCGGCGCTTTTTC
65 GGCGTTTTTCTTA--AGCGCCGCTAAAAAATATGTTCTTTAGCGGCGCTTTTTC
10861534 TTTGACCGCC
Statistics
Matches: 105, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
123 3 0.03
125 62 0.59
126 36 0.34
127 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (125 bp):
CGCTAAAAAACATGATCTTTAGCGACGTTTTCCTTAAGCGCAGCTAAAGAACATGTTCTTTAGCG
GCGTTTTTCTTAAGCGCCGCTAAAAAATATGTTCTTTAGCGGCGCTTTTTCCTTAAGCGT
Found at i:10861949 original size:21 final size:21
Alignment explanation
Indices: 10861923--10861964 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10861913 ATTTCTTTTG
*
10861923 AACCTCTGGTTCTCTCGCTGC
1 AACCTCTGCTTCTCTCGCTGC
*
10861944 AACCTCTGCTTCTTTCGCTGC
1 AACCTCTGCTTCTCTCGCTGC
10861965 CACATTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.38, G:0.17, T:0.36
Consensus pattern (21 bp):
AACCTCTGCTTCTCTCGCTGC
Found at i:10867370 original size:9 final size:9
Alignment explanation
Indices: 10867343--10867563 Score: 225
Period size: 9 Copynumber: 24.8 Consensus size: 9
10867333 ATTTGCACGG
10867343 GTAAG-TAT
1 GTAAGTTAT
* *
10867351 TTAATTTAT
1 GTAAGTTAT
10867360 GTAAGTTAT
1 GTAAGTTAT
10867369 GTAAGTTAT
1 GTAAGTTAT
10867378 GTAA-TTATT
1 GTAAGTTA-T
* *
10867387 TTAATTTAT
1 GTAAGTTAT
10867396 GT-AGTTAT
1 GTAAGTTAT
* *
10867404 GTAAGTCCAC
1 GTAAGT-TAT
* *
10867414 GGAATTTAT
1 GTAAGTTAT
*
10867423 ATAAGTTAT
1 GTAAGTTAT
10867432 GTAAGTTAT
1 GTAAGTTAT
* *
10867441 TTAATTTAT
1 GTAAGTTAT
10867450 GTAAGTTAT
1 GTAAGTTAT
10867459 GTAAGTTAT
1 GTAAGTTAT
* *
10867468 TTAATTTAT
1 GTAAGTTAT
10867477 GT-AGTTAT
1 GTAAGTTAT
10867485 GTAAGTTAT
1 GTAAGTTAT
10867494 GTAAGTTAT
1 GTAAGTTAT
* *
10867503 TTAATTTAT
1 GTAAGTTAT
10867512 GTAAGTTAT
1 GTAAGTTAT
* *
10867521 TTAATTTAT
1 GTAAGTTAT
10867530 GTAAGTTAT
1 GTAAGTTAT
10867539 GTAAGTTAT
1 GTAAGTTAT
* *
10867548 ATAATTTAT
1 GTAAGTTAT
10867557 GTAAGTT
1 GTAAGTT
10867564 TCTATATATG
Statistics
Matches: 170, Mismatches: 37, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
8 20 0.12
9 142 0.84
10 8 0.05
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.50
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:10867395 original size:27 final size:27
Alignment explanation
Indices: 10867343--10867685 Score: 287
Period size: 27 Copynumber: 12.7 Consensus size: 27
10867333 ATTTGCACGG
* * * *
10867343 GTAAG-TATTTAATTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
10867369 GTAAGTTATGTAA-TTATTTTAATTTAT
1 GTAAGTTATGTAAGTTA-TTTAATTTAT
* ***
10867396 GT-AGTTATGTAAGTCCACGGAATTTAT
1 GTAAGTTATGTAAGT-TATTTAATTTAT
*
10867423 ATAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
10867450 GTAAGTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* *
10867477 GT-AGTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* *
10867503 TTAATTTATGTAAGTTATTTAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
*
10867530 GTAAGTTATGTAAGTTATATAATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
* * *
10867557 GTAAGTTTCTATATATGTT-TATATATTGTAT
1 GTAAG--T-TATGTAAGTTATTTA-ATT-TAT
* *
10867588 GTTAGTTAT-TATGTTATTATATAAGTATTAT
1 GTAAGTTATGTAAGTTA-T-T-TAA-T-TTAT
* *
10867619 GTAATTTAT-TATGTTA-TT-A--TAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
10867641 GTAAGTTATGTAAGTTATTT-ATTTAT
1 GTAAGTTATGTAAGTTATTTAATTTAT
*
10867667 GTAAGTTATGCAAGCTTAT
1 GTAAGTTATGTAAG-TTAT
10867686 ATACAAGTTA
Statistics
Matches: 264, Mismatches: 31, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
22 11 0.04
23 6 0.02
24 3 0.01
26 58 0.22
27 122 0.46
28 17 0.06
29 7 0.03
30 12 0.05
31 27 0.10
32 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.51
Consensus pattern (27 bp):
GTAAGTTATGTAAGTTATTTAATTTAT
Found at i:10867628 original size:31 final size:31
Alignment explanation
Indices: 10867593--10867761 Score: 114
Period size: 31 Copynumber: 5.3 Consensus size: 31
10867583 TGTATGTTAG
10867593 TTATTATGTTATTATATAAGTATTATGTAAT
1 TTATTATGTTATTATATAAGTATTATGTAAT
* *
10867624 TTATTATGTTATTATATGTAAGTTATGTAAGTTAT
1 TTATTATGTTATTATA--TAAG-TAT-TATGTAAT
* ** ** *
10867659 TTATTTATGTAAGTTATGCAAGCT-TATATACAAG
1 TTA-TTATGTTA-TTATATAAG-TAT-TATGTAAT
* *
10867693 TTATGTA--TTATAACATAAGTATTATGTAAT
1 TTAT-TATGTTATTATATAAGTATTATGTAAT
*
10867723 TTATTATGTTATTATAT-A-TAGTTATGTAAA
1 TTATTATGTTATTATATAAGTA-TTATGTAAT
10867753 TTATTATGT
1 TTATTATGT
10867762 AAGTTATGCA
Statistics
Matches: 104, Mismatches: 23, Indels: 23
0.69 0.15 0.15
Matches are distributed among these distances:
29 4 0.04
30 28 0.27
31 29 0.28
32 2 0.02
33 5 0.05
34 12 0.12
35 13 0.12
36 7 0.07
37 4 0.04
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (31 bp):
TTATTATGTTATTATATAAGTATTATGTAAT
Found at i:10867644 original size:22 final size:23
Alignment explanation
Indices: 10867616--10867685 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 23
10867606 ATATAAGTAT
* *
10867616 TATGTAATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAAGTTATTA
10867638 TATGTAAGTTATGTAAGTTATTTA
1 TATGTAAGTTATGTAAGTTA-TTA
*
10867662 TTTATGTAAGTTATGCAAGCTTAT
1 --TATGTAAGTTATGTAAG-TTAT
10867686 ATACAAGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 3 0.08
26 17 0.43
27 3 0.08
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (23 bp):
TATGTAAGTTATGTAAGTTATTA
Found at i:10867652 original size:9 final size:9
Alignment explanation
Indices: 10867638--10867699 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
10867628 TATGTTATTA
10867638 TATGTAAGT
1 TATGTAAGT
10867647 TATGTAAGT
1 TATGTAAGT
* *
10867656 TAT-TTATT
1 TATGTAAGT
10867664 TATGTAAGT
1 TATGTAAGT
*
10867673 TATGCAAGCT
1 TATGTAAG-T
*
10867683 TATATACAAGT
1 TATGT--AAGT
10867694 TATGTA
1 TATGTA
10867700 TTATAACATA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
8 6 0.15
9 23 0.56
10 4 0.10
11 5 0.12
12 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:10867718 original size:99 final size:95
Alignment explanation
Indices: 10867596--10867999 Score: 552
Period size: 99 Copynumber: 4.3 Consensus size: 95
10867586 ATGTTAGTTA
*
10867596 TTATGTTATTAT--ATAAGTATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTTAT
1 TTATG-TATTATACATAAGTATTATGTAATTTATTATGTTA-TATATATAAGTTATGTAAG-TA-
10867659 TTATTTATGTAAGTTATGCAAGCTTATATACAAG
62 TTATTTATGTAAGTTATGCAAGCTTATATACAAG
10867693 TTATGTATTATAACATAAGTATTATGTAATTTATTATGTTAT-TATATATAGTTATGTAA--ATT
1 TTATGTATTAT-ACATAAGTATTATGTAATTTATTATGTTATATATATA-AGTTATGTAAGTATT
10867755 A-TTATGTAAGTTATGCAAGCTTATATACAAG
64 ATTTATGTAAGTTATGCAAGCTTATATACAAG
* *
10867786 TTATGTATTATAACATAAAGTATTATGTAATTTATTATGTTATATATGTAAGTTATGTAAGTTTT
1 TTATGTATTAT-ACAT-AAGTATTATGTAATTTATTATGTTATATATATAAGTTATGTAAG-TAT
10867851 TAATTTATGTAAGTTATGCAAGCTTATATACAAG
63 T-ATTTATGTAAGTTATGCAAGCTTATATACAAG
10867885 TTATGTATTATACATAAAGTATTATGTAATTTATTATGTTATATATATAAG-TA--T--GTA--A
1 TTATGTATTATACAT-AAGTATTATGTAATTTATTATGTTATATATATAAGTTATGTAAGTATTA
*
10867943 TTTATGTAAGTTATGCAAGCTTAT-TATAAG
65 TTTATGTAAGTTATGCAAGCTTATATACAAG
10867973 TTATGTATGTAT--ATAAGTATTATGTAA
1 TTATGTAT-TATACATAAGTATTATGTAA
10868000 GATGCAAGCT
Statistics
Matches: 289, Mismatches: 6, Indels: 35
0.88 0.02 0.11
Matches are distributed among these distances:
86 13 0.04
87 2 0.01
88 13 0.04
89 28 0.10
92 1 0.00
93 47 0.16
94 39 0.13
95 7 0.02
96 6 0.02
97 14 0.05
98 51 0.18
99 68 0.24
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.47
Consensus pattern (95 bp):
TTATGTATTATACATAAGTATTATGTAATTTATTATGTTATATATATAAGTTATGTAAGTATTAT
TTATGTAAGTTATGCAAGCTTATATACAAG
Found at i:10867778 original size:22 final size:22
Alignment explanation
Indices: 10867731--10867772 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10867721 ATTTATTATG
*
10867731 TTATTATATATAGTTATGTAAA
1 TTATTATATATAGTTATGCAAA
*
10867753 TTATTATGTA-AGTTATGCAA
1 TTATTATATATAGTTATGCAA
10867773 GCTTATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (22 bp):
TTATTATATATAGTTATGCAAA
Found at i:10867842 original size:9 final size:9
Alignment explanation
Indices: 10867830--10867891 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
10867820 TTATGTTATA
10867830 TATGTAAGT
1 TATGTAAGT
10867839 TATGTAAGT
1 TATGTAAGT
* *
10867848 T-TTTAATT
1 TATGTAAGT
10867856 TATGTAAGT
1 TATGTAAGT
*
10867865 TATGCAAGCT
1 TATGTAAG-T
*
10867875 TATATACAAGT
1 TATGT--AAGT
10867886 TATGTA
1 TATGTA
10867892 TTATACATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
8 6 0.15
9 23 0.56
10 4 0.10
11 5 0.12
12 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:10867859 original size:192 final size:185
Alignment explanation
Indices: 10867596--10867999 Score: 640
Period size: 192 Copynumber: 2.1 Consensus size: 185
10867586 ATGTTAGTTA
10867596 TTATGTTAT-TATATAAGTATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTTATT
1 TTATG-TATGTATATAAGTATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTTATT
10867660 TATTTATGTAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACAT-AAGTATTATGTAATT
65 TATTTATGTAAGTTATGCAAGCTTATATACAAGTTATGTATTAT-ACATAAAGTATTATGTAATT
10867724 TATTATGTTAT-TATATATAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTATATACAAG
129 TATTATGTTATATATATA-AG-TATGT-AA-T-TTATGTAAGTTATGCAAGCTTAT-TACAAG
10867786 TTATGTAT-TATAACATAAAGTATTATGTAATTTATTATGTTA-TATATGTAAGTTATGTAAGTT
1 TTATGTATGTAT---AT-AAGTATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTT
10867849 -TTTAATTTATGTAAGTTATGCAAGCTTATATACAAGTTATGTATTATACATAAAGTATTATGTA
62 ATTT-ATTTATGTAAGTTATGCAAGCTTATATACAAGTTATGTATTATACATAAAGTATTATGTA
*
10867913 ATTTATTATGTTATATATATAAGTATGTAATTTATGTAAGTTATGCAAGCTTATTATAAG
126 ATTTATTATGTTATATATATAAGTATGTAATTTATGTAAGTTATGCAAGCTTATTACAAG
10867973 TTATGTATGTATATAAGTATTATGTAA
1 TTATGTATGTATATAAGTATTATGTAA
10868000 GATGCAAGCT
Statistics
Matches: 205, Mismatches: 1, Indels: 22
0.90 0.00 0.10
Matches are distributed among these distances:
184 13 0.06
185 2 0.01
187 13 0.06
188 26 0.13
189 7 0.03
190 7 0.03
191 12 0.06
192 94 0.46
193 31 0.15
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.47
Consensus pattern (185 bp):
TTATGTATGTATATAAGTATTATGTAATTTATTATGTTATTATATGTAAGTTATGTAAGTTATTT
ATTTATGTAAGTTATGCAAGCTTATATACAAGTTATGTATTATACATAAAGTATTATGTAATTTA
TTATGTTATATATATAAGTATGTAATTTATGTAAGTTATGCAAGCTTATTACAAG
Found at i:10867950 original size:9 final size:9
Alignment explanation
Indices: 10867932--10868075 Score: 54
Period size: 9 Copynumber: 16.2 Consensus size: 9
10867922 GTTATATATA
10867932 TAAG-TATG
1 TAAGTTATG
*
10867940 TAATTTATG
1 TAAGTTATG
10867949 TAAGTTATG
1 TAAGTTATG
* *
10867958 CAAGCTTATTA
1 TAAG-TTA-TG
10867969 TAAGTTATG
1 TAAGTTATG
* *
10867978 TATG-TATA
1 TAAGTTATG
10867986 TAAGTATTATG
1 TAAG--TTATG
10867997 TAAG--ATG
1 TAAGTTATG
* *
10868004 CAAGCTTAAATA
1 TAAG-TT--ATG
10868016 TAAGTTATG
1 TAAGTTATG
*
10868025 T-A-TTATA
1 TAAGTTATG
*
10868032 TAAGTTTTG
1 TAAGTTATG
*
10868041 TAAGATATG
1 TAAGTTATG
*
10868050 TAAG-TGTG
1 TAAGTTATG
10868058 T-A-TTATG
1 TAAGTTATG
*
10868065 TAACTTATG
1 TAAGTTATG
10868074 TA
1 TA
10868076 GAAAACTTAT
Statistics
Matches: 99, Mismatches: 21, Indels: 31
0.66 0.14 0.21
Matches are distributed among these distances:
7 16 0.16
8 16 0.16
9 43 0.43
10 6 0.06
11 13 0.13
12 5 0.05
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:10867996 original size:15 final size:17
Alignment explanation
Indices: 10867918--10867998 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
10867908 ATGTAATTTA
*
10867918 TTATGTTATATATATAAG
1 TTATG-TATGTATATAAG
* *
10867936 -TATGTAATTTATGTAAG
1 TTATGT-ATGTATATAAG
* *
10867953 TTATGCAAGCTTATTATAAG
1 TTATGTATG--TA-TATAAG
10867973 TTATGTATGTATATAAG
1 TTATGTATGTATATAAG
10867990 -TAT-TATGTA
1 TTATGTATGTA
10867999 AGATGCAAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
15 6 0.12
16 4 0.08
17 20 0.40
18 6 0.12
19 2 0.04
20 12 0.24
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (17 bp):
TTATGTATGTATATAAG
Found at i:10868032 original size:46 final size:45
Alignment explanation
Indices: 10867935--10868046 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 45
10867925 ATATATATAA
* *
10867935 GTATGTAA-TTTATGTAAGTTATGCAAGCTTATTATAAGTTATGTAT
1 GTATATAAGTTTATGTAAG--ATGCAAGCTTAATATAAGTTATGTAT
10867981 GTATATAAGTATTATGTAAGATGCAAGCTTAAATATAAGTTATGTAT
1 GTATATAAGT-TTATGTAAGATGCAAGCTT-AATATAAGTTATGTAT
10868028 -TATATAAGTTT-TGTAAGAT
1 GTATATAAGTTTATGTAAGAT
10868047 ATGTAAGTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
44 8 0.13
45 2 0.03
46 26 0.43
47 16 0.26
48 9 0.15
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.43
Consensus pattern (45 bp):
GTATATAAGTTTATGTAAGATGCAAGCTTAATATAAGTTATGTAT
Found at i:10868178 original size:16 final size:16
Alignment explanation
Indices: 10868146--10868183 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10868136 GAAAACGAAG
* *
10868146 TAAA-TTTAATACTAA
1 TAAATTTTAAGACAAA
10868161 TAAATTTTAAGACAAA
1 TAAATTTTAAGACAAA
10868177 TAAATTT
1 TAAATTT
10868184 AGAAAACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAATTTTAAGACAAA
Found at i:10869228 original size:27 final size:29
Alignment explanation
Indices: 10869174--10869228 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
10869164 TAATTATCAC
*
10869174 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
10869204 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
10869229 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:10869286 original size:15 final size:15
Alignment explanation
Indices: 10869263--10869295 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10869253 TGGTAAAGTA
10869263 ACAGATACAGGAAGC
1 ACAGATACAGGAAGC
*
10869278 ACAGTTACAGGAAGC
1 ACAGATACAGGAAGC
10869293 ACA
1 ACA
10869296 TGAAGCACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.09
Consensus pattern (15 bp):
ACAGATACAGGAAGC
Found at i:10871676 original size:14 final size:15
Alignment explanation
Indices: 10871645--10871706 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
10871635 ATTAACTATA
10871645 AACCCCTAAACCCAT
1 AACCCCTAAACCCAT
10871660 AACCCCT-AACCTC-T
1 AACCCCTAAACC-CAT
10871674 AA-CCCTAAACCCAT
1 AACCCCTAAACCCAT
* *
10871688 GAACCCTTAACCCCA-
1 -AACCCCTAAACCCAT
10871703 AACC
1 AACC
10871707 TTAAACCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 5 0.12
14 16 0.40
15 10 0.25
16 9 0.22
ACGTcount: A:0.37, C:0.47, G:0.02, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCCAT
Found at i:10871684 original size:28 final size:28
Alignment explanation
Indices: 10871648--10871735 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
10871638 AACTATAAAC
*
10871648 CCCTAAACCCATAACCCCTAACCTCTAA
1 CCCTAAACCCATAACCCATAACCTCTAA
* * *
10871676 CCCTAAACCCATGAACCCTTAACCCCAAA
1 CCCTAAACCCAT-AACCCATAACCTCTAA
* *
10871705 CCTTAAA-CCATAATCCATAAGCCTCTAA
1 CCCTAAACCCATAACCCATAA-CCTCTAA
10871733 CCC
1 CCC
10871736 ATATCCCTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 7 0.14
28 23 0.47
29 19 0.39
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.18
Consensus pattern (28 bp):
CCCTAAACCCATAACCCATAACCTCTAA
Found at i:10871904 original size:20 final size:20
Alignment explanation
Indices: 10871879--10871917 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10871869 TTAACTATAA
10871879 AGCCCTAAACCCCTAACCCC
1 AGCCCTAAACCCCTAACCCC
* *
10871899 AGCCCTTAACCCTTAACCC
1 AGCCCTAAACCCCTAACCC
10871918 TTAACCCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.51, G:0.05, T:0.15
Consensus pattern (20 bp):
AGCCCTAAACCCCTAACCCC
Found at i:10871932 original size:27 final size:27
Alignment explanation
Indices: 10871881--10871934 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10871871 AACTATAAAG
*
10871881 CCCTAAACCCCTAACCCCAGCCCTTAA
1 CCCTAAACCCCTAACCCCAACCCTTAA
* * *
10871908 CCCTTAACCCTTAACCCCAATCCTTAA
1 CCCTAAACCCCTAACCCCAACCCTTAA
10871935 ACCATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.48, G:0.02, T:0.20
Consensus pattern (27 bp):
CCCTAAACCCCTAACCCCAACCCTTAA
Found at i:10871934 original size:13 final size:13
Alignment explanation
Indices: 10871886--10871934 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
10871876 TAAAGCCCTA
*
10871886 AACCCCTAACCCC
1 AACCCTTAACCCC
* *
10871899 AGCCCTTAACCCTT
1 AACCCTTAACCC-C
10871913 AACCCTTAACCCC
1 AACCCTTAACCCC
*
10871926 AATCCTTAA
1 AACCCTTAA
10871935 ACCATATCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.31, C:0.47, G:0.02, T:0.20
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:10872885 original size:114 final size:113
Alignment explanation
Indices: 10872609--10872910 Score: 286
Period size: 114 Copynumber: 2.6 Consensus size: 113
10872599 ATTTTTAGAC
* ** * * * *
10872609 AAGCGCCACTAAAGTCTCTAAAACCTAAATTGGAAATGACATCGTTTTCTTAATAGTTTTGCGAC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TAAAAATGGCAACGTTTTCTTAACAGTTTTGCGGC
* *
10872674 ACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCCAAA
65 GCTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCCAAA
* * * ** *
10872723 AATCGCCACTAACGTCTCGAAAAGGTAAATGAAAAATGGCAACGTTTTCTTAACAGTCTTGCGGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAAT-AAAAATGGCAACGTTTTCTTAACAGTTTTGCGGC
* ** * **
10872788 GCTTATGATAAAGC-CCGCTAATTCTT-GACTA-TAGCGGCGTTTTTCATT
65 GCTTATGATAAAGCGCCACTAAAGCTTCG-CTACTA-CGGCGTTTTCCAAA
* * * *
10872836 AAGCGCCACTAAAGTCCCCAAAACCTAAACTAAAAACGGCAGCGTTTTTCTTAACAATTTTTGCG
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TAAAAATGGCAACG-TTTTCTTAAC-AGTTTTGCG
*
10872901 GCGTTTATGA
63 GCGCTTATGA
10872911 CCAAACGCCG
Statistics
Matches: 151, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
112 3 0.02
113 58 0.38
114 74 0.49
115 16 0.11
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (113 bp):
AAGCGCCACTAAAGTCTCCAAAACCTAAATAAAAATGGCAACGTTTTCTTAACAGTTTTGCGGCG
CTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCCAAA
Found at i:10880862 original size:19 final size:19
Alignment explanation
Indices: 10880840--10880877 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10880830 AAAATCAAAC
10880840 TCAAAAGCAAAAG-AAAAAA
1 TCAAAA-CAAAAGTAAAAAA
*
10880859 TCAAAATAAAAGTAAAAAA
1 TCAAAACAAAAGTAAAAAA
10880878 ATGAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (19 bp):
TCAAAACAAAAGTAAAAAA
Found at i:10880876 original size:25 final size:25
Alignment explanation
Indices: 10880822--10880876 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10880812 AAAAGATGAA
* *
10880822 AAAAAGGAAAAATCAAACTCAAAAG
1 AAAAAGAAAAAATCAAAATCAAAAG
*
10880847 CAAAAGAAAAAATCAAAAT-AAAAG
1 AAAAAGAAAAAATCAAAATCAAAAG
10880871 TAAAAA
1 -AAAAA
10880877 AATGAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (25 bp):
AAAAAGAAAAAATCAAAATCAAAAG
Found at i:10880908 original size:15 final size:15
Alignment explanation
Indices: 10880866--10880910 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
10880856 AAATCAAAAT
*
10880866 AAAAGTAAAAAAATGA
1 AAAAG-AAAAAAAGGA
*
10880882 AAATG-AAAAAAGGA
1 AAAAGAAAAAAAGGA
10880896 AAAAGAAAAAAAGGA
1 AAAAGAAAAAAAGGA
10880911 GAGGCCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAAAGGA
Found at i:10883123 original size:44 final size:44
Alignment explanation
Indices: 10883074--10883193 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
10883064 ATCGCATCAG
10883074 GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
1 GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
* * * * * * *
10883118 GTCTTATCTCCCTGAGGTTACAGCGGAGTAGACTGAGTAAGCAG
1 GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
* * *
10883162 GTGTTATCC-CCTTGAGGTTGCAGTGGGGCAGA
1 GTCTTA-CCTCCCTGAGGTTGCAGTGGAGCAGA
10883194 TCGAAGATGA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 60 0.98
45 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (44 bp):
GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
Found at i:10883269 original size:44 final size:43
Alignment explanation
Indices: 10883220--10883687 Score: 272
Period size: 44 Copynumber: 10.7 Consensus size: 43
10883210 TTATCTCTCC
* * *
10883220 TATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGTAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATT-AAGTAATAGATCT
** * * ** * * * *
10883264 TATCTCTTTGAAGTTGCAGTAGAGTGGA-T-CG-CATCAGGTTT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAGTAAT-AGATCT
* * * * * *
10883305 TATCTCCGTGAGGTTGTAGTGGAGCAGACTGAGTAAGCAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * * * * *
10883349 TATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGAT-TAAG-TAATAGATCT
* *
10883394 TATCTCCTTGAGGTTGCAGTGGAGCAGATTGAAG-ACGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATT-AAGTA--ATAGATCT
* * *
10883438 TATCTCCCTGAAGTTGTAGTGGAGCGGATTAATGTAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAA-GTAATAGATCT
* * * ** * * *
10883482 TATCTCTCTGAAGTTGCAGTAGAGTGGA-T-CG-CATCAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAGTAAT-AGATCT
* * * *
10883523 TATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGAAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAGTAA-TAGATCT
* * * * *
10883567 TATCCCCCTGATGTTGCAGTGGGGCAGATCTAAGATGATAAATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGAT-TAAG-TAATAGATCT
* *
10883612 TATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAG-ACGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATT-AAGTA--ATAGATCT
*
10883656 TATCTCACTGAGGTTGCAGTGGAGCAGATTAA
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTAA
10883688 AGCCAATCCC
Statistics
Matches: 324, Mismatches: 77, Indels: 47
0.72 0.17 0.10
Matches are distributed among these distances:
40 4 0.01
41 55 0.17
42 2 0.01
43 11 0.03
44 172 0.53
45 76 0.23
46 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TATCTCCCTGAGGTTGCAGTGGAGCAGATTAAGTAATAGATCT
Found at i:10883501 original size:218 final size:218
Alignment explanation
Indices: 10882978--10883689 Score: 953
Period size: 218 Copynumber: 3.2 Consensus size: 218
10882968 AACAGATCGG
* * *
10882978 TGAAGCCGATAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTC
1 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTC
* *
10883043 TCTGAAGCTGCAGTAGAGTGGATCGCATCAGGTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACT
66 TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
* * * * * * * * * * ** *
10883108 GAGAAAACAAGTCTTATCTCCCTGAGGTTACAGCGGAGTAGA-CTG-AG-TAAGCAGGTGTTATC
131 GAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATC-GAAGATGA-TAAATCTTATC
* *
10883170 CCCTTGAGGTTGCAGTGGGGCAGAT
194 TCCTTGAGGTTGCAGTGGAGCAGAT
* * *
10883195 CGAAGATGATAAATCTTATCTCTCCTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGTAATAG
1 TGAAGACGAT--A----A----TCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAG
* * * *
10883260 ATCTTATCTCTTTGAAGTTGCAGTAGAGTGGATCGCATCAGGTTTTATCTCCGTGAGGTTGTAGT
56 ATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGT
*
10883325 GGAGCAGACTGAGTAAGCAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAA
121 GGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAA
10883390 ATCTTATCTCCTTGAGGTTGCAGTGGAGCAGAT
186 ATCTTATCTCCTTGAGGTTGCAGTGGAGCAGAT
* *
10883423 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAATGTAATAGATCTTATCTC
1 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTC
10883488 TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
66 TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
* * *
10883553 GAGTAAGAAGGTCTTATCCCCCTGATGTTGCAGTGGGGCAGATCTAAGATGATAAATCTTATCTC
131 GAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTC
* *
10883618 CCTGAGGTTGTAGTGGAGCAGAT
196 CTTGAGGTTGCAGTGGAGCAGAT
* * *
10883641 TGAAGACGATAATCCTATCTCACTGAGGTTGCAGTGGAGCAGATTAAAG
1 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
10883690 CCAATCCCCC
Statistics
Matches: 434, Mismatches: 48, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
217 7 0.02
218 237 0.55
219 1 0.00
222 1 0.00
223 1 0.00
226 1 0.00
227 143 0.33
228 41 0.09
229 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (218 bp):
TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTC
TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
GAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTC
CTTGAGGTTGCAGTGGAGCAGAT
Found at i:10883674 original size:174 final size:174
Alignment explanation
Indices: 10883342--10883675 Score: 403
Period size: 174 Copynumber: 1.9 Consensus size: 174
10883332 ACTGAGTAAG
* * * *
10883342 CAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCTTGAGG
1 CAGGTCTTATCCCCCAGAGGTTGCAGTGGAGCAGATCGAAGAAGATAAATCTTATCCCCCTGAGG
*
10883407 TTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAATG
66 TTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAATG
* *
10883472 TAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
131 TAATAGATCCTATCTCACTGAAGTTGCAGTAGAGTGGATCGCAT
* * **
10883516 CAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-CTG-AGTAAGA-AGGTCTTATCCCCCTGA
1 CAGGTCTTATCCCCCAGAGGTTGCAGTGGAGCAGATC-GAAG-AAGATAAATCTTATCCCCCTGA
* * * * *
10883578 TGTTGCAGTGGGGCAGATCT-AAGATGATAAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATT
64 GGTTGCAGTGGAGCAGAT-TGAAGACGAT-AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATT
*
10883642 GAA-G-ACGATA-ATCCTATCTCACTGAGGTTGCAGT
127 -AATGTA--ATAGATCCTATCTCACTGAAGTTGCAGT
10883676 GGAGCAGATT
Statistics
Matches: 136, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
173 40 0.29
174 91 0.67
175 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (174 bp):
CAGGTCTTATCCCCCAGAGGTTGCAGTGGAGCAGATCGAAGAAGATAAATCTTATCCCCCTGAGG
TTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAATG
TAATAGATCCTATCTCACTGAAGTTGCAGTAGAGTGGATCGCAT
Found at i:10891834 original size:30 final size:30
Alignment explanation
Indices: 10891788--10891876 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
10891778 ATTTCTTATG
*
10891788 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10891819 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
10891848 ----TATTTGATACCCATATCTTTGGCTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10891874 CCA
1 CCA
10891877 TAAATATGGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 22 0.42
26 2 0.04
29 2 0.04
30 19 0.37
31 7 0.13
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10891843 original size:15 final size:15
Alignment explanation
Indices: 10891798--10891844 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10891788 CCAATATCTC
10891798 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10891813 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10891828 GATACCCATATCTTT
1 GATACCCATATCTTT
10891843 GA
1 GA
10891845 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:10892465 original size:35 final size:35
Alignment explanation
Indices: 10892426--10892514 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
10892416 TTCACTTGGC
* * *
10892426 TTTATTAATGGAAAATTTAGATCTTCCTTTTTCGT
1 TTTATTAATGGAAATTTTACATCTTCCATTTTCGT
* * ** *
10892461 TTTATTCATGGAAATTTTACTTCTTTGATTTTGGT
1 TTTATTAATGGAAATTTTACATCTTCCATTTTCGT
10892496 TTTATTAATGGAAATTTTA
1 TTTATTAATGGAAATTTTA
10892515 AGTCTTCAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (35 bp):
TTTATTAATGGAAATTTTACATCTTCCATTTTCGT
Found at i:10896093 original size:18 final size:18
Alignment explanation
Indices: 10896070--10896107 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10896060 ACCCAATCCA
*
10896070 AACCCAAGTATTCAACCC
1 AACCCAAGTATCCAACCC
*
10896088 AACCCAATTATCCAACCC
1 AACCCAAGTATCCAACCC
10896106 AA
1 AA
10896108 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.39, G:0.03, T:0.16
Consensus pattern (18 bp):
AACCCAAGTATCCAACCC
Found at i:10896146 original size:12 final size:12
Alignment explanation
Indices: 10896131--10896185 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
10896121 AAATAATTTA
*
10896131 AAAAATAAAAAT
1 AAAACTAAAAAT
*
10896143 AAAATTCTAAAACT
1 AAAA--CTAAAAAT
*
10896157 AAAACTAAAACT
1 AAAACTAAAAAT
10896169 AAAACTAAAAAAT
1 AAAACT-AAAAAT
10896182 AAAA
1 AAAA
10896186 AACATATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 18 0.49
13 9 0.24
14 10 0.27
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAACTAAAAAT
Found at i:10896186 original size:6 final size:6
Alignment explanation
Indices: 10896149--10896178 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10896139 AAATAAAATT
10896149 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA
10896179 AATAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:10902092 original size:23 final size:23
Alignment explanation
Indices: 10902065--10902112 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
10902055 GTGACATAAC
10902065 GAAGTGAAGAGTATCTTAATACG
1 GAAGTGAAGAGTATCTTAATACG
10902088 GAAGTGAAGAGTATCTTAATACG
1 GAAGTGAAGAGTATCTTAATACG
10902111 GA
1 GA
10902113 CTTCATCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (23 bp):
GAAGTGAAGAGTATCTTAATACG
Found at i:10905099 original size:91 final size:90
Alignment explanation
Indices: 10904998--10905167 Score: 261
Period size: 91 Copynumber: 1.9 Consensus size: 90
10904988 AGTGACACTG
*
10904998 TTTATGTTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAAATTCTTGTTTAG-TCG
1 TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGC-AAAAAATTCTTGTTTAGAT-G
* *
10905062 TCAATTAATGTTGTCTAAGTGACTGTA
64 TCAATAAATGTGGTCTAAGTGACTGTA
* * *
10905089 TTTATATTGTTTTAAGGGCTGCTGTTTGGTGTATTAATGCAGCAGAAAATTGTTGTTTAGATGTC
1 TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAATTCTTGTTTAGATGTC
10905154 AATAAATGTGGTCT
66 AATAAATGTGGTCT
10905168 GAATGATTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
90 30 0.42
91 42 0.58
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (90 bp):
TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAATTCTTGTTTAGATGTC
AATAAATGTGGTCTAAGTGACTGTA
Found at i:10906248 original size:43 final size:43
Alignment explanation
Indices: 10906178--10906334 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
10906168 CGTGTTTTCG
* ** * * *
10906178 TGTAAGACCACATCTGGGATGTTGGCATCGATTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATTGATTTGTGATTACA
* *
10906221 TGTAAGACCATGTCTGGGACATCGGCATTG-TATT-TGATT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATTGAT-TTGTGATTACA
* * * *
10906262 TGTAAGACC-CTGTCTGAGACAGTGGCATTGATATATGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTGATTTGTGATTACA
10906305 TGTAAGACCACGTCTGGGACATTGGCATTG
1 TGTAAGACCACGTCTGGGACATTGGCATTG
10906335 TACGAGTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 27 0.29
42 11 0.12
43 54 0.58
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGATTTGTGATTACA
Found at i:10910876 original size:10 final size:10
Alignment explanation
Indices: 10910861--10911021 Score: 58
Period size: 10 Copynumber: 16.7 Consensus size: 10
10910851 TATGAACTTA
10910861 TAAAAATTAT
1 TAAAAATTAT
10910871 TAAAAAGTTA-
1 TAAAAA-TTAT
10910881 TAAAAATTA-
1 TAAAAATTAT
10910890 TAAAAATCTA-
1 TAAAAAT-TAT
*
10910900 -ATAAATTA-
1 TAAAAATTAT
*
10910908 T-AAAATTAA
1 TAAAAATTAT
10910917 TAAAACA-TAT
1 TAAAA-ATTAT
*
10910927 T-TAAATT-T
1 TAAAAATTAT
*
10910935 TAAAAATGTAC
1 TAAAAAT-TAT
*
10910946 T-AAAATTCAA
1 TAAAAATT-AT
*
10910956 TAAAAATCAT
1 TAAAAATTAT
* *
10910966 GAAAAA-AAT
1 TAAAAATTAT
*
10910975 ATAAAAAGTAT
1 -TAAAAATTAT
* * *
10910986 TCAAAGTGAT
1 TAAAAATTAT
* *
10910996 TTAAACTTA-
1 TAAAAATTAT
10911005 TAAAAATTAT
1 TAAAAATTAT
10911015 TAAAAAT
1 TAAAAAT
10911022 AGATAAAAAC
Statistics
Matches: 114, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
8 11 0.10
9 33 0.29
10 58 0.51
11 12 0.11
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:10910903 original size:11 final size:9
Alignment explanation
Indices: 10910822--10910921 Score: 75
Period size: 9 Copynumber: 11.0 Consensus size: 9
10910812 ATTTTTTAAT
10910822 ATTA-AAAA
1 ATTATAAAA
10910830 ATT-TAAAA
1 ATTATAAAA
*
10910838 A-TATGAAA
1 ATTATAAAA
*
10910846 ATTGATATGAA
1 ATT-ATA-AAA
*
10910857 CTTATAAAA
1 ATTATAAAA
10910866 ATTATTAAAA
1 ATTA-TAAAA
10910876 AGTTATAAAA
1 A-TTATAAAA
10910886 ATTATAAAA
1 ATTATAAAA
*
10910895 ATCTA-ATAA
1 AT-TATAAAA
10910904 ATTAT-AAA
1 ATTATAAAA
10910912 ATTAATAAAA
1 ATT-ATAAAA
10910922 CATATTTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
7 1 0.01
8 20 0.27
9 23 0.32
10 22 0.30
11 7 0.10
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:10910905 original size:18 final size:16
Alignment explanation
Indices: 10910884--10910920 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10910874 AAAGTTATAA
10910884 AAATTATAAAAATCTAAT
1 AAATTAT-AAAAT-TAAT
10910902 AAATTATAAAATTAAT
1 AAATTATAAAATTAAT
10910918 AAA
1 AAA
10910921 ACATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAATTAAT
Found at i:10911463 original size:19 final size:20
Alignment explanation
Indices: 10911408--10911467 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
10911398 CCAGTCCAGT
* *
10911408 TCAATTTTTTATAAGTTTATA
1 TCAATTTTTTATTA-TTTTTA
*
10911429 TCAA-TTTTAATGTATTTTTA
1 TCAATTTTTTAT-TATTTTTA
10911449 T-AATTTTTTATTATTTTTA
1 TCAATTTTTTATTATTTTTA
10911468 AGAATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 10 0.30
20 18 0.55
21 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TCAATTTTTTATTATTTTTA
Found at i:10911467 original size:30 final size:29
Alignment explanation
Indices: 10911413--10911534 Score: 76
Period size: 30 Copynumber: 4.3 Consensus size: 29
10911403 CCAGTTCAAT
* * * *
10911413 TTTTTATAAGTTTATATCAATTTTAATGTA
1 TTTTTATAATTTTTTATTAATTTTAA-GAA
*
10911443 TTTTTATAATTTTTTATTATTTTTAAGAA
1 TTTTTATAATTTTTTATTAATTTTAAGAA
* * * * *
10911472 TTATAATACATTTTTTA-T--TTTAAATAT
1 TTTTTATA-ATTTTTTATTAATTTTAAGAA
10911499 TTTTTATTAA--TTTTA-TAATTTATAAGAA
1 TTTTTA-TAATTTTTTATTAATTT-TAAGAA
10911527 TTTTTATA
1 TTTTTATA
10911535 TTATTACAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
25 6 0.08
27 16 0.22
28 11 0.15
29 9 0.12
30 30 0.42
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTTTATAATTTTTTATTAATTTTAAGAA
Found at i:10911501 original size:46 final size:44
Alignment explanation
Indices: 10911451--10911607 Score: 129
Period size: 46 Copynumber: 3.4 Consensus size: 44
10911441 TATTTTTATA
10911451 ATTTTTTATTATTTTTAAGAATTATAATACATTTTTTATTTTAAAT
1 ATTTTTTATTATTTTTAA-AATTATAATA-ATTTTTTATTTTAAAT
* * *
10911497 ATTTTTTATTAATTTTATAATTTATAAGAATTTTTATATTATTACAAT
1 ATTTTTTATTATTTTTA-AAATTATAATAATTTTT-TATT-TTA-AAT
* * * * * *
10911545 A-TTTATATT-TTTTTATAATTTTAATAAGTTTATATCATTTTTATT
1 ATTTTTTATTATTTTTAAAATTATAATAA-TTT-T-TTATTTTAAAT
*
10911590 ATTTTTTATGATTTTTAA
1 ATTTTTTATTATTTTTAA
10911608 TCATGTTTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
45 17 0.20
46 44 0.51
47 21 0.24
48 5 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (44 bp):
ATTTTTTATTATTTTTAAAATTATAATAATTTTTTATTTTAAAT
Found at i:10911603 original size:19 final size:19
Alignment explanation
Indices: 10911443--10911606 Score: 79
Period size: 19 Copynumber: 8.8 Consensus size: 19
10911433 TTTTAATGTA
*
10911443 TTTTTATAATTTTTTATTAT
1 TTTTTATAA-TTTTTATAAT
* * * *
10911463 TTTTAAGAATTATAATACAT
1 TTTTTATAATTTTTATA-AT
**
10911483 TTTTTAT--TTTAAAT-AT
1 TTTTTATAATTTTTATAAT
10911499 TTTTTATTAA-TTTTATAAT
1 TTTTTA-TAATTTTTATAAT
* * *
10911518 TTATAAGAATTTTTAT-A-
1 TTTTTATAATTTTTATAAT
* * * *
10911535 TTATTACAATATTTATATT
1 TTTTTATAATTTTTATAAT
* *
10911554 TTTTTATAATTTTAATAAG
1 TTTTTATAATTTTTATAAT
* * *
10911573 TTTATATCATTTTTATTAT
1 TTTTTATAATTTTTATAAT
*
10911592 TTTTTATGATTTTTA
1 TTTTTATAATTTTTA
10911607 ATCATGTTTA
Statistics
Matches: 105, Mismatches: 31, Indels: 17
0.69 0.20 0.11
Matches are distributed among these distances:
16 8 0.08
17 14 0.13
18 12 0.11
19 57 0.54
20 14 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:10915321 original size:36 final size:36
Alignment explanation
Indices: 10915274--10915346 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
10915264 CTAACTACAC
10915274 TAACTGCATATGATAAATCTGGACATGAACAAACCA
1 TAACTGCATATGATAAATCTGGACATGAACAAACCA
*
10915310 TAACTGCATATGATAAATCTGGACGTGAACAAACCA
1 TAACTGCATATGATAAATCTGGACATGAACAAACCA
10915346 T
1 T
10915347 GGCTTACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (36 bp):
TAACTGCATATGATAAATCTGGACATGAACAAACCA
Found at i:10918006 original size:193 final size:193
Alignment explanation
Indices: 10917677--10918063 Score: 711
Period size: 193 Copynumber: 2.0 Consensus size: 193
10917667 ACCTGCAATT
* * *
10917677 CTACGTGAAGCATTATTTTCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAATCA
1 CTACGTGAAACATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAAACA
* *
10917742 ATCCCGATTGGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCTTCGCTCGCTTTAG
66 ATCCCGATTAGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
* *
10917807 AATTATTGACAGAAGCGACTAGAAGTTTACTATCGCTGTAATATTCTACAACATCAGCTTTAC
131 AATTATTGACAGAAGCGACTAGAAGTTCACTATCGCTGTAATATTCTACAACATCAACTTTAC
10917870 CTACGTGAAACATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAAACA
1 CTACGTGAAACATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAAACA
10917935 ATCCCGATTAGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
66 ATCCCGATTAGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
10918000 AATTATTGACAGAAGCGACTAGAAGTTCACTATCGCTGTAATATTCTACAACATCAACTTTAC
131 AATTATTGACAGAAGCGACTAGAAGTTCACTATCGCTGTAATATTCTACAACATCAACTTTAC
10918063 C
1 C
10918064 AGAATTTTCT
Statistics
Matches: 187, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
193 187 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (193 bp):
CTACGTGAAACATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAAACA
ATCCCGATTAGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
AATTATTGACAGAAGCGACTAGAAGTTCACTATCGCTGTAATATTCTACAACATCAACTTTAC
Found at i:10922437 original size:16 final size:17
Alignment explanation
Indices: 10922406--10922438 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10922396 AAATTGTAAC
10922406 AATAAAACGTAAAATAG
1 AATAAAACGTAAAATAG
*
10922423 AATAAAATG-AAAATAG
1 AATAAAACGTAAAATAG
10922439 GGACCGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (17 bp):
AATAAAACGTAAAATAG
Found at i:10922824 original size:25 final size:26
Alignment explanation
Indices: 10922787--10922853 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 26
10922777 ATATAATAGT
**
10922787 TTAAAATGGATAATATAT-GAACAAC
1 TTAAAATAAATAATATATAGAACAAC
*
10922812 TTAAAATAAATAATA-ATAGAACAAT
1 TTAAAATAAATAATATATAGAACAAC
10922837 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
10922854 AAGTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATAATATATAGAACAAC
Found at i:10922843 original size:21 final size:20
Alignment explanation
Indices: 10922819--10922866 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
10922809 AACTTAAAAT
10922819 AAATAATAATAGAACAATTTA
1 AAATAATAATAGAA-AATTTA
* *
10922840 AAATAAATAATATAAAGTTTA
1 AAAT-AATAATAGAAAATTTA
10922861 AAATAA
1 AAATAA
10922867 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 9 0.38
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATAATAATAGAAAATTTA
Found at i:10922867 original size:21 final size:24
Alignment explanation
Indices: 10922786--10922870 Score: 86
Period size: 25 Copynumber: 3.6 Consensus size: 24
10922776 CATATAATAG
** *
10922786 TTTAAAATGGATAATATATGAACAA
1 TTTAAAATAAATAATA-ATAAACAA
*
10922811 CTTAAAATAAATAATAATAGAACAA
1 TTTAAAATAAATAATAATA-AACAA
*
10922836 TTTAAAATAAATAAT-AT-AA-AG
1 TTTAAAATAAATAATAATAAACAA
10922857 TTTAAAATAAATAA
1 TTTAAAATAAATAA
10922871 GTAAATAGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.28
22 2 0.04
24 4 0.08
25 32 0.60
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
TTTAAAATAAATAATAATAAACAA
Found at i:10923612 original size:6 final size:6
Alignment explanation
Indices: 10923581--10923645 Score: 62
Period size: 6 Copynumber: 10.7 Consensus size: 6
10923571 TTCTGCTTTA
* * *
10923581 AAAAAT AAAAGT AAAAGT -AAAA- AAAAAT AAAAACGAA AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAA--AT AAAAAT AAAAAT
10923630 AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA
10923646 CAACTACCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
5 7 0.14
6 34 0.68
7 4 0.08
8 4 0.08
9 1 0.02
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:10924429 original size:22 final size:21
Alignment explanation
Indices: 10924378--10924431 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
10924368 TTTAATTAAA
* *
10924378 ATTAAAATTAAAAATTTTTTT
1 ATTAAAATTAAAAATATTGTT
* *
10924399 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAAAT-ATTGTT
10924421 ATTAAAATTAA
1 ATTAAAATTAA
10924432 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAAATTAAAAATATTGTT
Found at i:10924444 original size:16 final size:16
Alignment explanation
Indices: 10924407--10924446 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10924397 TTAATAAAAT
* *
10924407 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
10924423 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
10924439 TAAAATTA
1 TAAAATTA
10924447 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:10924476 original size:59 final size:63
Alignment explanation
Indices: 10924413--10924626 Score: 213
Period size: 59 Copynumber: 3.5 Consensus size: 63
10924403 AAATTAAAAC
* *
10924413 TAATTGTTATTAAAAT-T-A-A-TTGTTAGTAAAATTATCAAATTATTAATTGTTAATTGTAT
1 TAATTGTTAATAAAATCTAACATTTGTTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
* *
10924472 TAATTGTTGTAATAAAATCTAACATTTAATTAGTAAATTTATCAAATTATTAATTG-T-ATT-AA
1 TAATTG-T-TAATAAAATCTAACATTT-GTTAGTAAATTTATCAAATTATTAATTGTTAATTGTA
10924534 T
63 T
* *
10924535 T-GTTG-TAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG-T-ATT-AAT
1 TAATTGTTAATAAAATCTAACATTTG-TTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
* *
10924594 T-GTTG-TAACAAAATCTAACATTTGATTAGTAAA
1 TAATTGTTAATAAAATCTAACATTTG-TTAGTAAA
10924627 ACAAACTTGA
Statistics
Matches: 140, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
59 90 0.64
60 1 0.01
61 8 0.06
62 4 0.03
63 4 0.03
64 4 0.03
65 3 0.02
66 26 0.19
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (63 bp):
TAATTGTTAATAAAATCTAACATTTGTTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
Found at i:10924733 original size:22 final size:23
Alignment explanation
Indices: 10924693--10924740 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
10924683 AAATAAACTT
10924693 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATA-TTTA
10924717 AAAATAAAAAA-TA-TATATTTA
1 AAAATAAAAAACTATTATATTTA
10924738 AAA
1 AAA
10924741 TTTTTCGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 2 0.08
24 11 0.46
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAAAAAACTATTATATTTA
Found at i:10927782 original size:2 final size:2
Alignment explanation
Indices: 10927775--10927814 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10927765 AGTTGAAGTA
10927775 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10927815 GTGTAAAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10931072 original size:39 final size:40
Alignment explanation
Indices: 10931005--10931081 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 40
10930995 CAGACATGTC
*
10931005 AATATTTAATTATTTTTTTAAAATTTAATAATATTTAAAA
1 AATATTTAATTATATTTTTAAAATTTAATAATATTTAAAA
* *
10931045 AATATTT-TTTATATTTTTAATAA-TTAATAATTTTTAA
1 AATATTTAATTATATTTTTAA-AATTTAATAATATTTAA
10931082 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
AATATTTAATTATATTTTTAAAATTTAATAATATTTAAAA
Found at i:10932270 original size:55 final size:56
Alignment explanation
Indices: 10932211--10932316 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
10932201 CTTTTACTTT
10932211 CCCCAAAA-AAAATTTACTTCTCCTCAAA-CCCCCAAAACTTTTTTCCTTTTATCCC
1 CCCCAAAATAAAATTTACTTC-CCTCAAACCCCCCAAAACTTTTTTCCTTTTATCCC
** * *
10932266 CCCCAAAATAACTTTTACTTCCCTCAAACCCCCCCAAATTTTTTTCCTTTT
1 CCCCAAAATAAAATTTACTTCCCTCAAACCCCCCAAAACTTTTTTCCTTTT
10932317 GCTTTCCCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
55 15 0.33
56 30 0.67
ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35
Consensus pattern (56 bp):
CCCCAAAATAAAATTTACTTCCCTCAAACCCCCCAAAACTTTTTTCCTTTTATCCC
Found at i:10933750 original size:2 final size:2
Alignment explanation
Indices: 10933743--10933815 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
10933733 TAATACCCTT
10933743 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10933785 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10933816 TTCGGCTACC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10938209 original size:23 final size:24
Alignment explanation
Indices: 10938178--10938222 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10938168 ACCATGTTTA
*
10938178 ATGTTATTATGAGTT-CCTATTTG
1 ATGTGATTATGAGTTCCCTATTTG
*
10938201 ATGTGATTATGATTTCCCTATT
1 ATGTGATTATGAGTTCCCTATT
10938223 ATCCCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (24 bp):
ATGTGATTATGAGTTCCCTATTTG
Found at i:10942233 original size:22 final size:20
Alignment explanation
Indices: 10942194--10942233 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
10942184 ATTATTGATA
*
10942194 AATTGATGAATTATGCTTGG
1 AATTGATGAATTAAGCTTGG
10942214 AATTGATAGATATTAAGCTT
1 AATTGAT-GA-ATTAAGCTT
10942234 AGATCACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (20 bp):
AATTGATGAATTAAGCTTGG
Found at i:10943425 original size:45 final size:45
Alignment explanation
Indices: 10943359--10943487 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
10943349 ATACGCTAAG
*
10943359 ATGAGTAAGACCATAACTGAAAGATGCTATAACATCATGATA-AA
1 ATGAGTAAGACCATAGCTGAAAGATGCTATAACATCATGATAGAA
* * * *
10943403 TATGAGTAAGACCTTAGTTGAAAGATTCTATGACATCATGATAGAA
1 -ATGAGTAAGACCATAGCTGAAAGATGCTATAACATCATGATAGAA
* *
10943449 ATGAGTAAGACCATGGCTGAAAAATGCTATGAA-ATCATG
1 ATGAGTAAGACCATAGCTGAAAGATGCTAT-AACATCATG
10943488 TGAAAGTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
45 68 0.96
46 3 0.04
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGATGCTATAACATCATGATAGAA
Found at i:10949094 original size:62 final size:61
Alignment explanation
Indices: 10949006--10949121 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 61
10948996 ATTAATATAA
* * *
10949006 TATATATCAAGATAAATATTAGATTAAATTTAATATTAAATTTTATTAAAATAATAGAATGTT
1 TATATATCAAGATAAACATTAAATTAAATTTAATATTAAA--CTATTAAAATAATAGAATGTT
10949069 TATATA-CAAGATAAACATTAAATTAAATTTAATATTAAACTATTAAAATAATA
1 TATATATCAAGATAAACATTAAATTAAATTTAATATTAAACTATTAAAATAATA
10949122 TTATTTTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
60 13 0.26
62 31 0.62
63 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (61 bp):
TATATATCAAGATAAACATTAAATTAAATTTAATATTAAACTATTAAAATAATAGAATGTT
Found at i:10950612 original size:30 final size:30
Alignment explanation
Indices: 10950566--10950636 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
10950556 GAATAAAATG
*
10950566 CTCACTTT-ACTCTTTTACAAGATTATAGA
1 CTCACTTTGATTCTTTTACAAGATTATAGA
* *
10950595 CTCACTTTGATTCTTTTACAGGATTATAGG
1 CTCACTTTGATTCTTTTACAAGATTATAGA
10950625 CTCA-TTTAGATT
1 CTCACTTT-GATT
10950637 ATCTATTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (30 bp):
CTCACTTTGATTCTTTTACAAGATTATAGA
Found at i:10950784 original size:15 final size:15
Alignment explanation
Indices: 10950761--10950792 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10950751 TATGCATGAA
10950761 AAATATAAAAGACAT
1 AAATATAAAAGACAT
*
10950776 AAATTTAAAAGACAT
1 AAATATAAAAGACAT
10950791 AA
1 AA
10950793 TAGTGCAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:10954088 original size:36 final size:36
Alignment explanation
Indices: 10954048--10954119 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
10954038 GATCTTTGCA
*
10954048 CCGTTTCTTATGAACATGCCTATGCATATAGAATTT
1 CCGTTTCTTATAAACATGCCTATGCATATAGAATTT
10954084 CCGTTTCTTATAAACATGCCTATGCATATAGAATTT
1 CCGTTTCTTATAAACATGCCTATGCATATAGAATTT
10954120 GTTTTACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.39
Consensus pattern (36 bp):
CCGTTTCTTATAAACATGCCTATGCATATAGAATTT
Found at i:10955372 original size:3 final size:3
Alignment explanation
Indices: 10955353--10955391 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
10955343 TCATTAAGTT
* *
10955353 TTA TCA TTA TCA TTA TTA TTA TTA TTA TTAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
10955392 CAACAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10957969 original size:25 final size:25
Alignment explanation
Indices: 10957936--10957988 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
10957926 TTAGGACGTT
10957936 TTTAGCCGCTATAACTAGCTTATTG
1 TTTAGCCGCTATAACTAGCTTATTG
10957961 TTTAGCCGCTATAACTAGCTTATTG
1 TTTAGCCGCTATAACTAGCTTATTG
10957986 TTT
1 TTT
10957989 GGAGGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (25 bp):
TTTAGCCGCTATAACTAGCTTATTG
Found at i:10960520 original size:22 final size:23
Alignment explanation
Indices: 10960458--10960520 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
10960448 ACAAAGAACA
**
10960458 CAAAGTACT-AAGTAGAGAGTAT
1 CAAAGTACTGAACAAGAGAGTAT
*
10960480 CGAAGTACTGAACAA-AGAGTAT
1 CAAAGTACTGAACAAGAGAGTAT
*
10960502 CAAAGTATTGAA-AAGAGAG
1 CAAAGTACTGAACAAGAGAG
10960521 CACAAAAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.19
Consensus pattern (23 bp):
CAAAGTACTGAACAAGAGAGTAT
Found at i:10960659 original size:17 final size:18
Alignment explanation
Indices: 10960639--10960673 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10960629 TATACATTAT
10960639 CATAACATCT-CCATGAA
1 CATAACATCTACCATGAA
*
10960656 CATATCATCTACCATGAA
1 CATAACATCTACCATGAA
10960674 ACGTTTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.29, G:0.06, T:0.26
Consensus pattern (18 bp):
CATAACATCTACCATGAA
Found at i:10964046 original size:33 final size:32
Alignment explanation
Indices: 10963995--10964077 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 32
10963985 ACACATGCTC
*
10963995 GTGTGGTCCACACAGCCCAAAATGCCCTA-AGCT
1 GTGT-GTCCACACGGCCCAAAATGCCCTAGA-CT
*
10964028 GTGTAGTCCACACGGCCCAAAATGGCCTAGACT
1 GTGT-GTCCACACGGCCCAAAATGCCCTAGACT
*
10964061 GTGTGTCATACACGGCC
1 GTGTGTC-CACACGGCC
10964078 GTGTGTCACA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 3 0.07
33 40 0.91
34 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.19
Consensus pattern (32 bp):
GTGTGTCCACACGGCCCAAAATGCCCTAGACT
Found at i:10964761 original size:14 final size:14
Alignment explanation
Indices: 10964742--10964768 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10964732 TAAATAAACT
10964742 AAAATAATAATAAC
1 AAAATAATAATAAC
10964756 AAAATAATAATAA
1 AAAATAATAATAA
10964769 TAATAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATAATAAC
Found at i:10967277 original size:19 final size:18
Alignment explanation
Indices: 10967230--10967277 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
10967220 ATTTTTATTT
10967230 ATTTTTGTTTTTGTTTCTA
1 ATTTTT-TTTTTGTTTCTA
* *
10967249 GTTTAATTTTTTGTTTTCTA
1 ATTT-TTTTTTTG-TTTCTA
10967269 ATTTTTTTT
1 ATTTTTTTT
10967278 AATTTGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.75
Consensus pattern (18 bp):
ATTTTTTTTTTGTTTCTA
Found at i:10970965 original size:14 final size:15
Alignment explanation
Indices: 10970946--10970978 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10970936 TCTTTCTTTC
10970946 TTTATTATTATTA-T
1 TTTATTATTATTAGT
*
10970960 TTTATTTTTATTAGT
1 TTTATTATTATTAGT
10970975 TTTA
1 TTTA
10970979 CTAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTATTATTATTAGT
Found at i:10972620 original size:6 final size:6
Alignment explanation
Indices: 10972609--10972647 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
10972599 AGTCCATTTG
* *
10972609 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
10972648 CTTAGACTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:10979550 original size:13 final size:14
Alignment explanation
Indices: 10979532--10979562 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
10979522 GTGTCATGCC
10979532 AAAAATCCAAAA-T
1 AAAAATCCAAAACT
10979545 AAAAATCCAAAACT
1 AAAAATCCAAAACT
10979559 AAAA
1 AAAA
10979563 TGATCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATCCAAAACT
Found at i:10984366 original size:13 final size:13
Alignment explanation
Indices: 10984350--10984374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10984340 TTCACCTCAT
10984350 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
10984363 TTTTCAAAAGCA
1 TTTTCAAAAGCA
10984375 TTGCCAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:10985526 original size:11 final size:10
Alignment explanation
Indices: 10985486--10985533 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
10985476 AAATCTGTTG
10985486 AAAA-TAATT
1 AAAATTAATT
* *
10985495 GAAATTAATC
1 AAAATTAATT
*
10985505 AAAATTTATT
1 AAAATTAATT
10985515 ATAAATTAATT
1 A-AAATTAATT
10985526 AAAATTAA
1 AAAATTAA
10985534 AAATGTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 3 0.10
10 19 0.61
11 9 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:10986239 original size:5 final size:5
Alignment explanation
Indices: 10986225--10986278 Score: 69
Period size: 5 Copynumber: 11.4 Consensus size: 5
10986215 ATGTATGCTC
* *
10986225 TTCTC TTCTT TTCTT TTTTT TTCTT TTCTT TTC-T TT-TT TTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
10986273 TT-TT TT
1 TTCTT TT
10986279 ATGAGCATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
4 10 0.23
5 34 0.77
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:10986261 original size:18 final size:18
Alignment explanation
Indices: 10986225--10986278 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
10986215 ATGTATGCTC
*
10986225 TTCTCTTCTTTTCTTTTTTT
1 TTCTTTTCTTTTC--TTTTT
10986245 TTCTTTTCTTTTCTTTTT
1 TTCTTTTCTTTTCTTTTT
10986263 TTCTTTTCTTTT-TTTT
1 TTCTTTTCTTTTCTTTT
10986279 ATGAGCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 4 0.12
18 17 0.52
20 12 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTCTTTTCTTTTT
Found at i:10995023 original size:14 final size:14
Alignment explanation
Indices: 10995004--10995030 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10994994 TAAGTTTGAA
10995004 AGTGCTCTAGTAGT
1 AGTGCTCTAGTAGT
10995018 AGTGCTCTAGTAG
1 AGTGCTCTAGTAG
10995031 CACCTCCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (14 bp):
AGTGCTCTAGTAGT
Found at i:11000093 original size:50 final size:50
Alignment explanation
Indices: 10999969--11000217 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
10999959 GATAATAACA
* * ** * *
10999969 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11000020 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11000070 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11000120 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11000175 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11000218 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11000147 original size:100 final size:104
Alignment explanation
Indices: 10999968--11000217 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
10999958 TGATAATAAC
**
10999968 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11000033 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11000070 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11000133 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11000175 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11000218 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11000333 original size:13 final size:13
Alignment explanation
Indices: 11000312--11000343 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11000302 GCTTGGATCA
*
11000312 TCATCAAATAAAT
1 TCATAAAATAAAT
11000325 TCATAAAATAAAT
1 TCATAAAATAAAT
11000338 TCATAA
1 TCATAA
11000344 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11000590 original size:30 final size:30
Alignment explanation
Indices: 11000555--11000612 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11000545 CCTCGACTCT
*
11000555 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11000585 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11000613 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11007067 original size:50 final size:50
Alignment explanation
Indices: 11006943--11007191 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11006933 GATAATAACA
* * ** * *
11006943 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11006994 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11007044 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11007094 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11007149 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11007192 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11007121 original size:100 final size:104
Alignment explanation
Indices: 11006942--11007191 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11006932 TGATAATAAC
**
11006942 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11007007 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11007044 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11007107 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11007149 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11007192 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11007307 original size:13 final size:13
Alignment explanation
Indices: 11007286--11007317 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11007276 GCTTGGATCA
*
11007286 TCATCAAATAAAT
1 TCATAAAATAAAT
11007299 TCATAAAATAAAT
1 TCATAAAATAAAT
11007312 TCATAA
1 TCATAA
11007318 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11007564 original size:30 final size:30
Alignment explanation
Indices: 11007529--11007586 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11007519 CCTCGACTCT
*
11007529 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11007559 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11007587 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11009220 original size:24 final size:23
Alignment explanation
Indices: 11009154--11009225 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
11009144 ATATATGTTT
*
11009154 TCAAATGCAATTCAAATACAGAT
1 TCAAATGCAATTCAAATACAGAA
** * *
11009177 TCAAATATAACATCAGATACAGAA
1 TCAAATGCAA-TTCAAATACAGAA
*
11009201 TCATATGCAATGTCAAATACAGAA
1 TCAAATGCAAT-TCAAATACAGAA
11009225 T
1 T
11009226 TAGTTCCTAC
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
23 8 0.22
24 29 0.78
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.25
Consensus pattern (23 bp):
TCAAATGCAATTCAAATACAGAA
Found at i:11013351 original size:73 final size:73
Alignment explanation
Indices: 11013232--11013378 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
11013222 AATATGTTAG
11013232 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
1 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
11013297 GTAAAAAA
66 GTAAAAAA
* *
11013305 TAATGGCATGTACATAAAGGCTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTATTAA
1 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
11013370 GTAAAAAA
66 GTAAAAAA
11013378 T
1 T
11013379 GAATTTAAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (73 bp):
TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
GTAAAAAA
Found at i:11014375 original size:93 final size:93
Alignment explanation
Indices: 11014210--11014482 Score: 467
Period size: 93 Copynumber: 2.9 Consensus size: 93
11014200 GGACTTATCC
* * *
11014210 TGTTTACAAGGAATACAAGTACAGCAAATTTGCTC-TACTAATTTATACATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
11014274 TGCTCATGTAAGATGTCATAAGCCTTAG
66 TGCTCATGTAAGATGTCATAAGCCTTAG
*
11014302 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTGTGCATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
*
11014367 TGCTCATGTAAGATGTCATAAGTCTTAG
66 TGCTCATGTAAGATGTCATAAGCCTTAG
* *
11014395 TGTTTACAAGGAATGCAAGTAGAGCAAATTTTCTTGTACTAATTTATGCATGTTAGGTAAAAAAA
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGT-AAAAAA
11014460 TTGCTCATGTAAGATGTCATAAG
65 TTGCTCATGTAAGATGTCATAAG
11014483 TTTTAGTGAT
Statistics
Matches: 171, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
92 33 0.19
93 109 0.64
94 29 0.17
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (93 bp):
TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
TGCTCATGTAAGATGTCATAAGCCTTAG
Found at i:11014824 original size:27 final size:27
Alignment explanation
Indices: 11014773--11014824 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11014763 AAGCACACAG
*
11014773 AACAAACACAAACTTGAAAATGAAACA
1 AACAAACACAAACTTGAAAAAGAAACA
*
11014800 AACAAACTCAAACTT-AACAAAGAAA
1 AACAAACACAAACTTGAA-AAAGAAA
11014825 AAAATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.63, C:0.19, G:0.06, T:0.12
Consensus pattern (27 bp):
AACAAACACAAACTTGAAAAAGAAACA
Found at i:11020984 original size:19 final size:19
Alignment explanation
Indices: 11020960--11020996 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11020950 AATAAAATTC
*
11020960 GATTTTATTTTTATATATT
1 GATTTTAGTTTTATATATT
*
11020979 GATTTTGGTTTTATATAT
1 GATTTTAGTTTTATATAT
11020997 ATATTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
GATTTTAGTTTTATATATT
Found at i:11027242 original size:6 final size:6
Alignment explanation
Indices: 11027231--11027262 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
11027221 CGTGCCTACC
11027231 CCTGCA CCTGCA CCTGCA CCTGCA CCTGCA CC
1 CCTGCA CCTGCA CCTGCA CCTGCA CCTGCA CC
11027263 GATTCCACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.53, G:0.16, T:0.16
Consensus pattern (6 bp):
CCTGCA
Done.