Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007864.1 Hibiscus syriacus cultivar Beakdansim tig00110236_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1537186
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:467517 original size:20 final size:20
Alignment explanation
Indices: 467492--467540 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
467482 AAAATCGCAA
* *
467492 CGATAGTTAAATCCGCGTTG
1 CGATAGTCAAATCCGCGATG
*
467512 CGATAGTCAAATTCGCGATG
1 CGATAGTCAAATCCGCGATG
*
467532 CGGTAGTCA
1 CGATAGTCA
467541 TTTTCGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (20 bp):
CGATAGTCAAATCCGCGATG
Found at i:469013 original size:39 final size:39
Alignment explanation
Indices: 468963--469049 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
468953 ACAACGAGAG
468963 CCATCACCTATTCCATCACATCATCGAGCCTCTTCTCCA
1 CCATCACCTATTCCATCACATCATCGAGCCTCTTCTCCA
* * *
469002 CCATCACCTATTCCGTCACATCATCGATCCTCTTCTCTA
1 CCATCACCTATTCCATCACATCATCGAGCCTCTTCTCCA
469041 CCATCACCT
1 CCATCACCT
469050 CATGATAGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.22, C:0.44, G:0.05, T:0.30
Consensus pattern (39 bp):
CCATCACCTATTCCATCACATCATCGAGCCTCTTCTCCA
Found at i:469540 original size:20 final size:20
Alignment explanation
Indices: 469515--469583 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
469505 CGAAACTTAA
* *
469515 ATCGCAATGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
469535 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
469555 ATCGTAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
469575 ATCGCAACG
1 ATCGCAACG
469584 GGATAATCGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:469697 original size:33 final size:34
Alignment explanation
Indices: 469655--469720 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
469645 GCAATGCGAA
* * *
469655 TTTAGTTTCGCGTTGCAATTTTCTCGTTGCGATT
1 TTTAGTTTCGCATTGCAATTATCCCGTTGCGATT
*
469689 TTTA-TTTCGCATTGCGATTATCCCGTTGCGAT
1 TTTAGTTTCGCATTGCAATTATCCCGTTGCGAT
469721 AGTCAAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (34 bp):
TTTAGTTTCGCATTGCAATTATCCCGTTGCGATT
Found at i:469737 original size:20 final size:20
Alignment explanation
Indices: 469712--469780 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
469702 GCGATTATCC
*
469712 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-ATTTCCG
469732 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
469752 CATTGCGATAGTCATTTGCG
1 CGTTGCGATAGTCATTTCCG
469772 CGTTGCGAT
1 CGTTGCGAT
469781 TTAAGTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 3 0.07
20 41 0.93
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:470344 original size:42 final size:42
Alignment explanation
Indices: 470285--470377 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
470275 GCCCGACTCA
* * *
470285 CCTATCATCATTCAAGAGGCCTCTCCTATC-GTTCAAAAGGCC
1 CCTATCATCACTCAAGAGGCCCCTCCCA-CAGTTCAAAAGGCC
* * *
470327 CCTATCATCCCTCAAGAGTCCCCTCCCACAGTTCAAGAGGCC
1 CCTATCATCACTCAAGAGGCCCCTCCCACAGTTCAAAAGGCC
*
470369 CCTGTCATC
1 CCTATCATC
470378 GTTGAAAGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.24
Consensus pattern (42 bp):
CCTATCATCACTCAAGAGGCCCCTCCCACAGTTCAAAAGGCC
Found at i:471599 original size:14 final size:14
Alignment explanation
Indices: 471580--471641 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
471570 TTGCTTTTTT
471580 AATTGATTTGTAAA
1 AATTGATTTGTAAA
471594 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
471608 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
471623 TATTGATGTGTAAA
1 AATTGATTTGTAAA
471637 TAATT
1 -AATT
471642 CTTATTTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:471634 original size:29 final size:28
Alignment explanation
Indices: 471582--471636 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
471572 GCTTTTTTAA
*
471582 TTGATTTGTAAAAATTGATTTGTAAAAG
1 TTGATTTGTAAAAATTGATGTGTAAAAG
* *
471610 TTGATTTGTTTAATATTGATGTGTAAA
1 TTGATTTG-TAAAAATTGATGTGTAAA
471637 TAATTCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (28 bp):
TTGATTTGTAAAAATTGATGTGTAAAAG
Found at i:471715 original size:63 final size:65
Alignment explanation
Indices: 471594--471729 Score: 240
Period size: 63 Copynumber: 2.1 Consensus size: 65
471584 GATTTGTAAA
* *
471594 AATTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTGTTT
1 AATTGATTTCTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
471659 AATTGATTTCTAAAAGTTGATTTGTTT-A-ATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
1 AATTGATTTCTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
471722 AATTGATT
1 AATTGATT
471730 GAAATGTAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 42 0.61
64 1 0.01
65 26 0.38
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (65 bp):
AATTGATTTCTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTATTT
Found at i:471840 original size:20 final size:20
Alignment explanation
Indices: 471803--471840 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
471793 AGGTACACTT
*
471803 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
*
471823 TCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
471841 TTCACGTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.29, G:0.16, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:471903 original size:54 final size:54
Alignment explanation
Indices: 471830--472029 Score: 215
Period size: 54 Copynumber: 3.6 Consensus size: 54
471820 AAATCGCAAC
* * * *
471830 GCGAAAGTC-AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCT-CGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTT-TGCGTT
* * *
471883 GCGATAGTCAAATACCCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTTGCGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGAT--T----TTTGCGTT
* * *
471943 GCGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGAGTT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTT
* *
471997 GCGATAATCAAATTCGCGTTGCGATATTCAAAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
472030 GAATGTGTAA
Statistics
Matches: 124, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
53 8 0.06
54 67 0.54
56 1 0.01
58 1 0.01
59 1 0.01
60 46 0.37
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (54 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTT
Found at i:471904 original size:20 final size:20
Alignment explanation
Indices: 471879--472029 Score: 161
Period size: 20 Copynumber: 7.8 Consensus size: 20
471869 GCGATTTTCT
* *
471879 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
471899 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
471919 CGTTGCGATAATCAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
471939 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
471959 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
471979 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
471993 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
472013 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
472030 GAATGTGTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 11 0.10
16 1 0.01
18 1 0.01
20 99 0.88
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:472008 original size:34 final size:38
Alignment explanation
Indices: 471920--472023 Score: 135
Period size: 34 Copynumber: 2.8 Consensus size: 38
471910 TCAAATACCC
* *
471920 GTTGCGATAATCAAATTTGCGTTGCGATAGTCATATTCGC
1 GTTGCGATAATCAAATTCGCGTTGCGATA-T-ATATTCGA
*
471960 GTTGCGATAGTCAAATTCGCGTTGCGAT-T-T-TT-GA
1 GTTGCGATAATCAAATTCGCGTTGCGATATATATTCGA
471994 GTTGCGATAATCAAATTCGCGTTGCGATAT
1 GTTGCGATAATCAAATTCGCGTTGCGATAT
472024 TCAAATGAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
34 28 0.47
35 3 0.05
36 1 0.02
38 1 0.02
40 26 0.44
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (38 bp):
GTTGCGATAATCAAATTCGCGTTGCGATATATATTCGA
Found at i:474277 original size:14 final size:14
Alignment explanation
Indices: 474258--474284 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
474248 TCCCGTGGCA
474258 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
474272 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
474285 TTTCTTATTC
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:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:474519 original size:24 final size:24
Alignment explanation
Indices: 474485--474538 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
474475 CTGAAACATC
474485 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
474509 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
474533 ATCAAA
1 ATCAAA
474539 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:475416 original size:41 final size:41
Alignment explanation
Indices: 475359--475468 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
475349 GAAATTCAGT
* *
475359 GTTGCGACAGTCAGAATCGCGTTGTGATTATGTATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGC
475400 GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGC
**
475441 GTTGCGATAGTCATTATCGCGTTGCGAT
1 GTTGCGATAGTCAGAATCGCGTTGCGAT
475469 AGTCAGAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (41 bp):
GTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGC
Found at i:475420 original size:20 final size:20
Alignment explanation
Indices: 475359--475488 Score: 129
Period size: 20 Copynumber: 6.4 Consensus size: 20
475349 GAAATTCAGT
*
475359 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* **
475379 GTTGTGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
475400 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
475420 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
**
475441 GTTGCGATAGTCATTATCGC
1 GTTGCGATAGTCAGAATCGC
475461 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
475481 ATTGCGAT
1 GTTGCGAT
475489 TTACATATTC
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.04
20 56 0.61
21 28 0.30
22 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:475461 original size:61 final size:62
Alignment explanation
Indices: 475374--475489 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 62
475364 GACAGTCAGA
* *
475374 ATCGCGTTGTGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCATTGCGATTATGTATT
475436 ATCGCGTTGCGA-TA-GTCATTATCGCGTTGCGATAGTCAGAATCGCATTGCGATT
1 ATCGCGTTGCGATTATGT-ATTATCGCGTTGCGATAGTCAGAATCGCATTGCGATT
475490 TACATATTCG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
60 2 0.04
61 38 0.75
62 11 0.22
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (62 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCATTGCGATTATGTATT
Found at i:477464 original size:49 final size:46
Alignment explanation
Indices: 477371--477489 Score: 118
Period size: 46 Copynumber: 2.6 Consensus size: 46
477361 TTCTTACCTT
*
477371 TTATCCCATAAG--CATAAGCTTA-TTTTTACCAAAATACTTACCA
1 TTATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
* ** * *
477414 TTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATACTTGCCA
1 -TT--ATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
**
477463 TTATTCTGTAAGCTCATAAGCTTATTT
1 TTATTCCATAAGCTCATAAGCTTATTT
477490 GTATGGTTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
44 2 0.03
46 31 0.51
48 11 0.18
49 17 0.28
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (46 bp):
TTATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATACTTACCA
Found at i:481516 original size:6 final size:6
Alignment explanation
Indices: 481500--481595 Score: 52
Period size: 6 Copynumber: 15.3 Consensus size: 6
481490 TCTCTCATTT
* * * *
481500 TTTTCTC TTTTTC -TTTTC TTTCTC GTTTTCATT TTTTTC TTCTTC GTTTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC -TTTT--TC TTTTTC TTTTTC TTTTTC
* * * *
481551 ATTTTC TTTTTC TATTTTT TTTTTC TTCTGT- TTTTTC TTCTTC TT
1 TTTTTC TTTTTC T-TTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TT
481596 ATAATATATA
Statistics
Matches: 68, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
5 7 0.10
6 42 0.62
7 14 0.21
8 4 0.06
9 1 0.01
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:481521 original size:17 final size:15
Alignment explanation
Indices: 481497--481595 Score: 74
Period size: 16 Copynumber: 6.1 Consensus size: 15
481487 TCATCTCTCA
481497 TTTTTTTCTCTTTTTC
1 TTTTTTT-TCTTTTTC
*
481513 TTTTCTTTCTCGTTTTC
1 TTTT-TTT-TCTTTTTC
* *
481530 ATTTTTTTCTTCTTC
1 TTTTTTTTCTTTTTC
481545 GTTTTCATTTTCTTTTTC
1 -TTTT--TTTTCTTTTTC
481563 TATTTTTTT-TTTCTTC
1 T-TTTTTTTCTTT-TTC
* *
481579 TGTTTTTTCTTCTTC
1 TTTTTTTTCTTTTTC
481594 TT
1 TT
481596 ATAATATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
15 19 0.28
16 20 0.30
17 15 0.22
18 13 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:481568 original size:34 final size:33
Alignment explanation
Indices: 481498--481584 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 33
481488 CATCTCTCAT
*
481498 TTTTTTCTCTTTTTC-TTTTCTTTCTCGTTTTCA
1 TTTTTT-TCTTCTTCGTTTTCTTTCTCGTTTTCA
*
481531 TTTTTTTCTTCTTCGTTTTCATTT-TCTTTTTCTA
1 TTTTTTTCTTCTTCGTTTTC-TTTCTCGTTTTC-A
*
481565 TTTTTTTTTTCTTCTGTTTT
1 TTTTTTTCTTCTTC-GTTTT
481585 TTCTTCTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.15
33 18 0.38
34 17 0.36
35 5 0.11
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (33 bp):
TTTTTTTCTTCTTCGTTTTCTTTCTCGTTTTCA
Found at i:481570 original size:21 final size:22
Alignment explanation
Indices: 481508--481563 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
481498 TTTTTTCTCT
481508 TTTTCTTTTCTT-TCTCGTTTTCA
1 TTTTC-TTTCTTCT-TCGTTTTCA
481531 TTTT-TTTCTTCTTCGTTTTCA
1 TTTTCTTTCTTCTTCGTTTTCA
481552 TTTTCTTT-TTCT
1 TTTTCTTTCTTCT
481564 ATTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 23 0.74
22 4 0.13
23 4 0.13
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTCTTTCTTCTTCGTTTTCA
Found at i:481584 original size:15 final size:15
Alignment explanation
Indices: 481532--481594 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
481522 TCGTTTTCAT
*
481532 TTTTTTCTTCTTCGTT
1 TTTTTTCTTCTTC-TG
* *
481548 TTCATTTTCTTTTTCTAT
1 TT--TTTTCTTCTTCT-G
*
481566 TTTTTTTTTCTTCTG
1 TTTTTTCTTCTTCTG
481581 TTTTTTCTTCTTCT
1 TTTTTTCTTCTTCT
481595 TATAATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 13 0.33
16 12 0.31
17 1 0.03
18 13 0.33
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTTCTTCTTCTG
Found at i:481592 original size:34 final size:32
Alignment explanation
Indices: 481498--481592 Score: 86
Period size: 34 Copynumber: 2.8 Consensus size: 32
481488 CATCTCTCAT
* * *
481498 TTTTTTCTCTTTTTC-TTTTCTTTCTCGTTTTCA
1 TTTTTT-TCTTCTTCGTTTTATTT-TCTTTTTCA
481531 TTTTTTTCTTCTTCGTTTTCATTTTCTTTTTCTA
1 TTTTTTTCTTCTTCGTTTT-ATTTTCTTTTTC-A
*
481565 TTTTTTTTTTCTTCTGTTTT-TTCTTCTT
1 TTTTTTTCTTCTTC-GTTTTATT-TTCTT
481593 CTTATAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
32 7 0.13
33 19 0.36
34 22 0.42
35 5 0.09
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (32 bp):
TTTTTTTCTTCTTCGTTTTATTTTCTTTTTCA
Found at i:486967 original size:20 final size:17
Alignment explanation
Indices: 486931--486973 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
486921 CATGTTTTGC
*
486931 ATATACATATATATATT
1 ATATAAATATATATATT
486948 ATTATAAATATATACGTATT
1 A-TATAAATATATA--TATT
486968 ATATAA
1 ATATAA
486974 GTGTTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 11 0.50
19 5 0.23
20 5 0.23
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATAAATATATATATT
Found at i:488304 original size:17 final size:18
Alignment explanation
Indices: 488282--488315 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
488272 AGCATATATT
488282 AAAAGAA-AAATAAATTG
1 AAAAGAAGAAATAAATTG
488299 AAAAGAAGAAATAAATT
1 AAAAGAAGAAATAAATT
488316 CAAGATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (18 bp):
AAAAGAAGAAATAAATTG
Found at i:490716 original size:116 final size:118
Alignment explanation
Indices: 490477--490751 Score: 267
Period size: 116 Copynumber: 2.4 Consensus size: 118
490467 CTTATGTGAT
*
490477 GGACGA-CTAAAGGTTGAACAAGTTATTCTCATTAGGAATTTCGTCTCCCTCATCGGATGACTTT
1 GGACGAGCTAAAGGTTGAACAAGTTATTCTCATTAGGAACTTCGTCTCCCTCATCGGATGACTTT
* * * **
490541 ATTCTCATTATGAACTATTCCATCGGAGATGCTGATCCACCTCCTTCTATGGT
66 ATTCTCATTATGAACTATTCCATCGGAAATGCTAATCCACATCCTTCTATGAC
* * * *
490594 GGACGAGCT-AAGTTTGAACAAGTTCTTCTCATT-GGAAACTTCTTCTCTCTCATCGGA-GAAGC
1 GGACGAGCTAAAGGTTGAACAAGTTATTCTCATTAGG-AACTTCGTCTCCCTCATCGGATG-A-C
* * ** * * *
490656 -TT-TTCTCATTATGAACTCTTCCTTTTGAAATGTTAATCCACATCCTTTTTTGAC
63 TTTATTCTCATTATGAACTATTCCATCGGAAATGCTAATCCACATCCTTCTATGAC
* * * * * *
490710 GGACGAG-AAAATGTTAAACAATTTTTTCTCATTATGAACTTC
1 GGACGAGCTAAAGGTTGAACAAGTTATTCTCATTAGGAACTTC
490752 TTTTCCTTTA
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
116 75 0.59
117 50 0.39
118 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (118 bp):
GGACGAGCTAAAGGTTGAACAAGTTATTCTCATTAGGAACTTCGTCTCCCTCATCGGATGACTTT
ATTCTCATTATGAACTATTCCATCGGAAATGCTAATCCACATCCTTCTATGAC
Found at i:492485 original size:17 final size:15
Alignment explanation
Indices: 492441--492523 Score: 62
Period size: 17 Copynumber: 5.2 Consensus size: 15
492431 TCATCTCATG
*
492441 TTTC-TTTCTCTTTC
1 TTTCTTTTCTTTTTC
* *
492455 TCTCTCTCTCTTTTTC
1 TTTCT-TTTCTTTTTC
492471 TTTCCATTTTCTTTTTC
1 TTT-C-TTTTCTTTTTC
492488 TATT-TTCTTCTATTTTC
1 T-TTCTT-TTCT-TTTTC
492505 TTTTCTTTTCTTTTTC
1 -TTTCTTTTCTTTTTC
492521 TTT
1 TTT
492524 TATGAACTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
14 3 0.05
15 5 0.09
16 19 0.35
17 22 0.40
18 6 0.11
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:496210 original size:2 final size:2
Alignment explanation
Indices: 496203--496247 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
496193 CTGTCATTTG
*
496203 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
496245 TA T
1 TA T
496248 TTTGTTATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:497473 original size:6 final size:6
Alignment explanation
Indices: 497459--497498 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
497449 GATGAGGACC
* * *
497459 GAGACA GAGATA GAGATA GAGATC TAGATA GAGATA GAGA
1 GAGATA GAGATA GAGATA GAGATA GAGATA GAGATA GAGA
497499 CTGGGGATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.05, G:0.33, T:0.15
Consensus pattern (6 bp):
GAGATA
Found at i:503274 original size:25 final size:26
Alignment explanation
Indices: 503223--503274 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
503213 ATAACATGAG
*
503223 CATTTTCACTTATCTCATTTCACTATA
1 CATTTTCAC-TATCACATTTCACTATA
503250 CATTTTCA-TATCACATGTTCA-TATA
1 CATTTTCACTATCACAT-TTCACTATA
503275 AGCTCATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (26 bp):
CATTTTCACTATCACATTTCACTATA
Found at i:507238 original size:18 final size:18
Alignment explanation
Indices: 507215--507249 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
507205 ATATAACACA
507215 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
507233 TATGTCCCGAAGGACCA
1 TATGTCCCGAAGGACCA
507250 TGTAGACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:508068 original size:20 final size:20
Alignment explanation
Indices: 508043--508100 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
508033 TTCCTCTTGA
*
508043 AGTGCATTGATACATTCTAC
1 AGTGCATCGATACATTCTAC
*
508063 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
508086 ATGTGCATCGATACA
1 A-GTGCATCGATACA
508101 CCAATCACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:511042 original size:54 final size:54
Alignment explanation
Indices: 510929--511067 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
510919 CCGCCATGGA
* * * *
510929 ATTTAGTTTGCAATGTTTCAAAAAGAAAGAAGATAAACTGACGATCCAAGTAAGC
1 ATTTAGTTTTCAATGTTTC-AAAAGAAAGAAAATAAACCGACGATCCAAGTAACC
* * * * *
510984 ATTTAGTTTTCAATGTTTCAAAAGGAAGAAAATGAGCCGACGGTCCAGGTAACC
1 ATTTAGTTTTCAATGTTTCAAAAGAAAGAAAATAAACCGACGATCCAAGTAACC
511038 ATTTAGTTTTCAATGTTTCAAAAGAAAGAA
1 ATTTAGTTTTCAATGTTTCAAAAGAAAGAA
511068 GACGAGTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
54 56 0.76
55 18 0.24
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (54 bp):
ATTTAGTTTTCAATGTTTCAAAAGAAAGAAAATAAACCGACGATCCAAGTAACC
Found at i:511083 original size:54 final size:53
Alignment explanation
Indices: 510929--511089 Score: 187
Period size: 54 Copynumber: 3.0 Consensus size: 53
510919 CCGCCATGGA
* * * * *
510929 ATTTAGTTTGCAATGTTTCAAAAAGAAAGAAGATAAACTGACGATCCAAGTAAGC
1 ATTTAGTTTTCAATGTTTC-AAAAGAAAGAAGAGAGAC-GACGGTCCAAGTAACC
* * * *
510984 ATTTAGTTTTCAATGTTTCAAAAGGAAGAAAATGAGCCGACGGTCCAGGTAACC
1 ATTTAGTTTTCAATGTTTCAAAAGAAAGAAGA-GAGACGACGGTCCAAGTAACC
* *
511038 ATTTAGTTTTCAATGTTTCAAAAGAAAGAAGACGAGTCGATGGTCCAAGTAA
1 ATTTAGTTTTCAATGTTTCAAAAGAAAGAAGA-GAGACGACGGTCCAAGTAA
511090 GCAGATTAAC
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
54 70 0.78
55 20 0.22
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (53 bp):
ATTTAGTTTTCAATGTTTCAAAAGAAAGAAGAGAGACGACGGTCCAAGTAACC
Found at i:513560 original size:16 final size:16
Alignment explanation
Indices: 513539--513574 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
513529 CGAACTTGGA
513539 TCATCTTAAAAGAGGG
1 TCATCTTAAAAGAGGG
513555 TCATCTTAAAAGAGGG
1 TCATCTTAAAAGAGGG
513571 TCAT
1 TCAT
513575 GCTCATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (16 bp):
TCATCTTAAAAGAGGG
Found at i:515596 original size:21 final size:20
Alignment explanation
Indices: 515569--515628 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
515559 TTTGATAACA
515569 AATTTTCTATTTTTCAATTC
1 AATTTTCTATTTTTCAATTC
* *
515589 AGTCTTTCAATTTTTC-A-T-
1 AAT-TTTCTATTTTTCAATTC
515607 AATTTTCTTATTTTTCAATTC
1 AATTTTC-TATTTTTCAATTC
515628 A
1 A
515629 TACTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
17 4 0.13
18 9 0.29
19 2 0.06
20 4 0.13
21 12 0.39
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTCTATTTTTCAATTC
Found at i:515871 original size:14 final size:16
Alignment explanation
Indices: 515823--515860 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
515813 TTTCTTGATC
515823 ATTTATACTCTCAAAAT
1 ATTT-TACTCTCAAAAT
515840 ATTTTACTCTCAAAAT
1 ATTTTACTCTCAAAAT
515856 ATTTT
1 ATTTT
515861 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTACTCTCAAAAT
Found at i:520301 original size:6 final size:6
Alignment explanation
Indices: 520290--520317 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
520280 TAACATTTTC
520290 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
520318 CAAACTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:525735 original size:23 final size:22
Alignment explanation
Indices: 525705--525786 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
525695 GGATGGCCTT
525705 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
525727 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
525749 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
525772 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
525787 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:525797 original size:44 final size:44
Alignment explanation
Indices: 525709--525805 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
525699 GGCCTTGTGC
* *
525709 ATCGATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGAGTGCATCGATGCACCTTCATAGTGT
*
525753 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGAG-TGCATCGATGCACCT-TCATAGTGT
525797 ATCGATGCA
1 ATCGATGCA
525806 TTAAGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 30 0.64
45 17 0.36
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTGCATCGATGCACCTTCATAGTGT
Found at i:526175 original size:21 final size:22
Alignment explanation
Indices: 526135--526175 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
526125 CTAAAGGTTT
* *
526135 TGTAAAGATATCCACTAATTGG
1 TGTAAAGATATCAACAAATTGG
526157 TGTAAAG-TATCAACAAATT
1 TGTAAAGATATCAACAAATT
526176 CTAGAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (22 bp):
TGTAAAGATATCAACAAATTGG
Found at i:526634 original size:24 final size:24
Alignment explanation
Indices: 526600--526657 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
526590 GGTACCTAAA
526600 GATTCTCTTAACAACTAGTAAATGT
1 GATTC-CTTAACAACTAGTAAATGT
526625 GATTCCTTAACAACTAGTAAATGT
1 GATTCCTTAACAACTAGTAAATGT
526649 GATTCCTTA
1 GATTCCTTA
526658 GGACATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (24 bp):
GATTCCTTAACAACTAGTAAATGT
Found at i:531706 original size:65 final size:64
Alignment explanation
Indices: 531564--531723 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 64
531554 TACACTAAGT
* * * * * *
531564 GTGCATCGATGGATAAAATGCATTCGATTTTTTGAATAAGCCTAAGTGCATCGATGCATGGTGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCATGGAGA
* * *
531628 GTGCATCGATGCATAAAATGCATTCAATGTTTTCATTAAAACCTGAGTGCATCGATGCATGGAGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAT-AAACCTAAGTGCATCGATGCATGGAGA
*
531693 GTGCATC-AGTGCATAAACTGCATTCGATGTT
1 GTGCATCGA-TGCATAAAATGCATTCGATGTT
531724 CAATTTATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 33 0.40
65 50 0.60
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCATGGAGA
Found at i:531762 original size:65 final size:63
Alignment explanation
Indices: 531564--531771 Score: 160
Period size: 65 Copynumber: 3.2 Consensus size: 63
531554 TACACTAAGT
* * *
531564 GTGCATCGATGGATAAAATGCATTCGAT-TTT--TTGAATAAGCCTAAGTGCATCGATGCATGG-
1 GTGCATCG-TGCATAAAATGCATTCAATGTTTCATT-AA-AA-CCTGAGTGCATCGATGCATGGT
531625 TG
62 TG
*
531627 TGTGCATCGATGCATAAAATGCATTCAATGTTTTCATTAAAACCTGAGTGCATCGATGCATGG-A
1 -GTGCATCG-TGCATAAAATGCATTCAATG-TTTCATTAAAACCTGAGTGCATCGATGCATGGTT
531691 G
63 G
* * * ** *
531692 AGTGCATCAGTGCATAAACTGCATTCGATG-TTCAATTTATTCATTG-GTGCATCGATGCATGGT
1 -GTGCATC-GTGCATAAAATGCATTCAATGTTTC-ATTAAAAC-CTGAGTGCATCGATGCATGG-
531755 TTG
61 TTG
531758 GTGCATCGGTGCAT
1 GTGCATC-GTGCAT
531772 CCCTTTGAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
63 3 0.02
64 47 0.39
65 61 0.50
66 7 0.06
67 2 0.02
68 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (63 bp):
GTGCATCGTGCATAAAATGCATTCAATGTTTCATTAAAACCTGAGTGCATCGATGCATGGTTG
Found at i:532058 original size:34 final size:33
Alignment explanation
Indices: 532027--532307 Score: 280
Period size: 34 Copynumber: 8.7 Consensus size: 33
532017 ACACAAAACC
* * *
532027 TTTTAAAAACTATATATTATACATATTCAAAATG
1 TTTTCAAAACTATATA-TATATATTTTCAAAATG
* **
532061 TTTTCAAAAC------TATATATTTTAAAAAAA
1 TTTTCAAAACTATATATATATATTTTCAAAATG
** * *
532088 AATTCCAAACTAT--ATATATATTTTCAAAACG
1 TTTTCAAAACTATATATATATATTTTCAAAATG
532119 TTTT-AAAACTATATATATATATTTTCAAAAATG
1 TTTTCAAAACTATATATATATATTTTC-AAAATG
*
532152 TTTTCAAAACTATATATATATATTTTAAAAAATG
1 TTTTCAAAACTATATATATATATTTT-CAAAATG
*
532186 TTTTCAAAACTATATATTATATATTTTCAAAACG
1 TTTTCAAAACTATATA-TATATATTTTCAAAATG
* * *
532220 TTTT-AAAATTATAT-TATATGTTTTCAAAAATA
1 TTTTCAAAACTATATATATATATTTTC-AAAATG
532252 TTTTCAAAACTATATATATATATTTTCAAAAATG
1 TTTTCAAAACTATATATATATATTTTC-AAAATG
*
532286 TTCTCAAAACTATATA-ATATAT
1 TTTTCAAAACTATATATATATAT
532308 GTTTTATTTT
Statistics
Matches: 207, Mismatches: 27, Indels: 27
0.79 0.10 0.10
Matches are distributed among these distances:
27 19 0.09
30 7 0.03
31 26 0.13
32 20 0.10
33 33 0.16
34 92 0.44
35 10 0.05
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (33 bp):
TTTTCAAAACTATATATATATATTTTCAAAATG
Found at i:532238 original size:66 final size:65
Alignment explanation
Indices: 532094--532307 Score: 272
Period size: 66 Copynumber: 3.2 Consensus size: 65
532084 AAAAAATTCC
* * *
532094 AAACTATA-TATATATTTTCAAAACGTTTT-AAAACTATATATATATATTTTCAAAAATGTTTTC
1 AAACTATATTATATATTTTAAAAATGTTTTCAAAACTATATATATATATTTTC-AAAACGTTTTC
532157 A
65 A
532158 AAACTATATATATATATTTTAAAAAATGTTTTCAAAACTATATATTATATATTTTCAAAACGTTT
1 AAACTATAT-TATATATTTT-AAAAATGTTTTCAAAACTATATA-TATATATTTTCAAAACGTTT
532223 T-A
63 TCA
* * * * *
532225 AAATTATATTATATGTTTTCAAAAATATTTTCAAAACTATATATATATATTTTCAAAAATGTTCT
1 AAACTATATTATATATTTT-AAAAATGTTTTCAAAACTATATATATATATTTTC-AAAACGTTTT
532290 CA
64 CA
*
532292 AAACTATATAATATAT
1 AAACTATATTATATAT
532308 GTTTTATTTT
Statistics
Matches: 131, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
64 8 0.06
65 11 0.08
66 49 0.37
67 32 0.24
68 20 0.15
69 11 0.08
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (65 bp):
AAACTATATTATATATTTTAAAAATGTTTTCAAAACTATATATATATATTTTCAAAACGTTTTCA
Found at i:532260 original size:100 final size:100
Alignment explanation
Indices: 532020--532307 Score: 357
Period size: 100 Copynumber: 3.0 Consensus size: 100
532010 ATTTTCAACA
* * * *
532020 CAAAACCTTTTAAAAACTATATATTATACATATTC-AAAATGTTTTCAAAAC----TATATAT-T
1 CAAAACGTTTT-AAAACTATATA-TATATATTTTCAAAAATATTTTCAAAACTATATATATATAT
* **
532079 TTAAAAAAAAATTC-C-AAAC--TATATATATATTTT
64 TTTAAAAAATGTTCTCAAAACTATATATATATATTTT
*
532112 CAAAACGTTTTAAAACTATATATATATATTTTCAAAAATGTTTTCAAAACTATATATATATATTT
1 CAAAACGTTTTAAAACTATATATATATATTTTCAAAAATATTTTCAAAACTATATATATATATTT
*
532177 TAAAAAATGTTTTCAAAACTATATATTATATATTTT
66 TAAAAAATGTTCTCAAAACTATATA-TATATATTTT
* *
532213 CAAAACGTTTTAAAATTATAT-TATATGTTTTCAAAAATATTTTCAAAACTATATATATATATTT
1 CAAAACGTTTTAAAACTATATATATATATTTTCAAAAATATTTTCAAAACTATATATATATATTT
*
532277 TCAAAAATGTTCTCAAAACTATATA-ATATAT
66 TAAAAAATGTTCTCAAAACTATATATATATAT
532308 GTTTTATTTT
Statistics
Matches: 173, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
90 9 0.05
91 27 0.16
92 10 0.06
95 7 0.04
96 11 0.06
97 1 0.01
98 10 0.06
100 68 0.39
101 30 0.17
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (100 bp):
CAAAACGTTTTAAAACTATATATATATATTTTCAAAAATATTTTCAAAACTATATATATATATTT
TAAAAAATGTTCTCAAAACTATATATATATATTTT
Found at i:535764 original size:35 final size:35
Alignment explanation
Indices: 535709--535785 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
535699 TTTAAACCCT
* * *
535709 AAATTAAAGTATTTTAGAATTTAAGGTTTATAATG
1 AAATTGAATTATTTTAGAATTTAAGGTTTAGAATG
* * *
535744 TAATTGAATTATTTTAGAATTTGAGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTAAGGTTTAGAATG
535779 AAATTGA
1 AAATTGA
535786 GGATTATGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTAAGGTTTAGAATG
Found at i:538735 original size:31 final size:30
Alignment explanation
Indices: 538700--538782 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
538690 AAATGGATTT
* *
538700 AGTTTAGTGACCAAATTATAAGAATTTGTAA
1 AGTTTAGTGACCAAAATATAA-AATTTGAAA
* *
538731 AGTTTGGTGACCAAAATATAAACTTTGAAA
1 AGTTTAGTGACCAAAATATAAAATTTGAAA
*
538761 AGTTTAGGGACCAAAATGATAA
1 AGTTTAGTGACCAAAAT-ATAA
538783 TTTTAAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 22 0.49
31 23 0.51
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.30
Consensus pattern (30 bp):
AGTTTAGTGACCAAAATATAAAATTTGAAA
Found at i:538792 original size:30 final size:30
Alignment explanation
Indices: 538700--538794 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
538690 AAATGGATTT
* * * **
538700 AGTTTAGTGACCAAATTATAAGAATTTGTAA
1 AGTTTGGTGACCAAAATATAA-ACTTTAAAA
*
538731 AGTTTGGTGACCAAAATATAAACTTTGAAA
1 AGTTTGGTGACCAAAATATAAACTTTAAAA
*
538761 AGTTTAGG-GACCAAAATGAT-AATTTTAAAA
1 AGTTT-GGTGACCAAAAT-ATAAACTTTAAAA
538791 AGTT
1 AGTT
538795 ACAAATTGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 33 0.59
31 23 0.41
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (30 bp):
AGTTTGGTGACCAAAATATAAACTTTAAAA
Found at i:542729 original size:4 final size:4
Alignment explanation
Indices: 542720--543056 Score: 674
Period size: 4 Copynumber: 84.2 Consensus size: 4
542710 TAGGTAATCC
542720 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
542768 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
542816 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
542864 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
542912 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
542960 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
543008 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
543056 T
1 T
543057 CATGGTTCTT
Statistics
Matches: 333, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 333 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:543423 original size:2 final size:2
Alignment explanation
Indices: 543416--543445 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
543406 CACTCTCATG
*
543416 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
543446 CTCTCCTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:547697 original size:20 final size:20
Alignment explanation
Indices: 547661--547699 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
547651 TTATTGGACG
*
547661 TTTTATCAGTTTTGTTATTT
1 TTTTATCAGTTTGGTTATTT
547681 TTTTATC-GATTTGGTTATT
1 TTTTATCAG-TTTGGTTATT
547700 ATTAGGCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.15, C:0.05, G:0.13, T:0.67
Consensus pattern (20 bp):
TTTTATCAGTTTGGTTATTT
Found at i:548420 original size:162 final size:163
Alignment explanation
Indices: 548121--548422 Score: 405
Period size: 162 Copynumber: 1.9 Consensus size: 163
548111 GAAAAGATAT
* * *
548121 GATTTTCATACAATAACAAAATATGTTAAAAAACTAAAAATGTAATGAATATCTATAATAAATAC
1 GATTTTCATACAATAACAAAATAAGATAAAAAACTAAAAATGTAATGAATATCTATAATAAAAAC
* * * * * **
548186 AGTTGTACTCAAGAATGTCATGATTCACTATGAAAGTATGTTATGATCTGGAATGTTAATATTTT
66 AATTGCACTCAAGAATGTCATAATTCACTAAGAAAGTAGGTTATGATCTGGAACATTAATATTTT
548251 CATTAATAAATGAGTTGTGCTAGTGGAGTCTTA
131 CATTAATAAATGAGTTGTGCTAGTGGAGTCTTA
* * *
548284 GATTTTC-TCACAATAACAAAATAAGAT-AAAAATTGAAAATGTTATGAATATCTATAATAAAAA
1 GATTTTCAT-ACAATAACAAAATAAGATAAAAAACTAAAAATGTAATGAATATCTATAATAAAAA
* *
548347 CAATTGCAC-CTAAGAATGTCATAATTCATTAAGAAAGT-GGTTATGTTCTGGAACATTAATAAT
65 CAATTGCACTC-AAGAATGTCATAATTCACTAAGAAAGTAGGTTATGATCTGGAACATTAAT-AT
*
548410 TTTTATTAATAAA
128 TTTCATTAATAAA
548423 ATGGATTACG
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
161 19 0.16
162 78 0.65
163 23 0.19
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (163 bp):
GATTTTCATACAATAACAAAATAAGATAAAAAACTAAAAATGTAATGAATATCTATAATAAAAAC
AATTGCACTCAAGAATGTCATAATTCACTAAGAAAGTAGGTTATGATCTGGAACATTAATATTTT
CATTAATAAATGAGTTGTGCTAGTGGAGTCTTA
Found at i:548601 original size:187 final size:187
Alignment explanation
Indices: 548280--548632 Score: 494
Period size: 187 Copynumber: 1.9 Consensus size: 187
548270 CTAGTGGAGT
* * *
548280 CTTAGATTTTCTCACAATAACAAAATAAGATAAAAATTGAAAATGTTATGAATATCTATAATAAA
1 CTTAGATTTTCTCACAATAACAAAATAAGATAAAAATTAAAAATGTTATAAATATCTATAACAAA
* * * * * *
548345 AACAATTGCACCTAAGAATGTCATAATTCATTAAGAAAGTGGTTATGTTCTGGAACATTAATAAT
66 AACAATTGCACCCAAGAATGTCATAATTCACTAAGAAAGTGGTTACGATATGAAACATTAATAAT
**
548410 TTTTATTAATAAAATGGATTACGTCTAAAATGTTACCAGAGTTTAAGGTGATAAAAC
131 TTTTATTAATAAAATGGATTACACCTAAAATGTTACCAGAGTTTAAGGTGATAAAAC
* * *
548467 CTTAGATTTTCTCACGAA-AACAAAATAAGTTCAAAGTTAAAAATGTTATAAATATCTATAACAA
1 CTTAGATTTTCTCAC-AATAACAAAATAAGATAAAAATTAAAAATGTTATAAATATCTATAACAA
* * * **
548531 ATACAATTGCACCCAAGAATGTCATGATTCACTAAGAAAGTGGGTTGCGATATGAAATGTTAAT-
65 AAACAATTGCACCCAAGAATGTCATAATTCACTAAGAAAGT-GGTTACGATATGAAACATTAATA
*
548595 ATTTTTATTAATAAAATGGATTGCACCTAAAATGTTAC
129 ATTTTTATTAATAAAATGGATTACACCTAAAATGTTAC
548633 AAAAATTTTG
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
187 127 0.88
188 17 0.12
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (187 bp):
CTTAGATTTTCTCACAATAACAAAATAAGATAAAAATTAAAAATGTTATAAATATCTATAACAAA
AACAATTGCACCCAAGAATGTCATAATTCACTAAGAAAGTGGTTACGATATGAAACATTAATAAT
TTTTATTAATAAAATGGATTACACCTAAAATGTTACCAGAGTTTAAGGTGATAAAAC
Found at i:558765 original size:5 final size:5
Alignment explanation
Indices: 558755--558779 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
558745 TTGGGTATTA
558755 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
558780 GGTCATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:559665 original size:29 final size:29
Alignment explanation
Indices: 559632--559711 Score: 160
Period size: 29 Copynumber: 2.8 Consensus size: 29
559622 ATGAATATTT
559632 AATTTTAGGTTTAGTCCTTTTTTAATTAG
1 AATTTTAGGTTTAGTCCTTTTTTAATTAG
559661 AATTTTAGGTTTAGTCCTTTTTTAATTAG
1 AATTTTAGGTTTAGTCCTTTTTTAATTAG
559690 AATTTTAGGTTTAGTCCTTTTT
1 AATTTTAGGTTTAGTCCTTTTT
559712 AAGTAGCTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.56
Consensus pattern (29 bp):
AATTTTAGGTTTAGTCCTTTTTTAATTAG
Found at i:561334 original size:61 final size:61
Alignment explanation
Indices: 561188--561391 Score: 221
Period size: 61 Copynumber: 3.3 Consensus size: 61
561178 TGCACAAAGC
* * * * *
561188 TTACGCTCTAGTGCTAATTCG-ATATTAAACATAAGGTCAGGCCCACAACCTACATTAGGT
1 TTACACTCTAGTGCTAATCCGAATATTAAACATAAGGTCATGCCCACCACCTACACTAGGT
* * * ** *
561248 TTACACTGTAGTGTTGATCTAAATATGAAACATAAGGTCATGCCCACCACCTACACTAGGT
1 TTACACTCTAGTGCTAATCCGAATATTAAACATAAGGTCATGCCCACCACCTACACTAGGT
* ** *
561309 TTACACTCTAGTGCTAATCCGAATATTACACATAAGGTTGTGCTCACCACCTACACCTAGTGTT
1 TTACACTCTAGTGCTAATCCGAATATTAAACATAAGGTCATGCCCACCACCTACA-CTAG-G-T
*
561373 CTTACACACTAGTGCTAAT
1 -TTACACTCTAGTGCTAAT
561392 ATAAACATGC
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
60 14 0.12
61 80 0.68
62 4 0.03
63 1 0.01
64 1 0.01
65 17 0.15
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (61 bp):
TTACACTCTAGTGCTAATCCGAATATTAAACATAAGGTCATGCCCACCACCTACACTAGGT
Found at i:561569 original size:22 final size:22
Alignment explanation
Indices: 561537--561581 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
561527 CTGAAGTAAC
*
561537 ATTCATAATAAACATCATATAT
1 ATTCATAATAAAAATCATATAT
*
561559 ATTCATGATAAAAATCATATAT
1 ATTCATAATAAAAATCATATAT
561581 A
1 A
561582 CAATGATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTCATAATAAAAATCATATAT
Found at i:567069 original size:16 final size:17
Alignment explanation
Indices: 567045--567077 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
567035 AGAAACTAAT
567045 GAATATGGGT-CCAAAA
1 GAATATGGGTACCAAAA
*
567061 GAATTTGGGTACCAAAA
1 GAATATGGGTACCAAAA
567078 ATTAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (17 bp):
GAATATGGGTACCAAAA
Found at i:570292 original size:22 final size:22
Alignment explanation
Indices: 570266--570346 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
570256 ATAGGGCAGA
*
570266 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
*
570288 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
*
570311 GGGAACCGATTCCCCC-T--AG
1 GGGAACCGATACCCCCTTGAAG
*
570330 GGGAATCGATACCCCCT
1 GGGAACCGATACCCCCT
570347 GGGGTTCTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
19 16 0.30
21 1 0.02
22 14 0.26
23 22 0.42
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:570308 original size:23 final size:23
Alignment explanation
Indices: 570266--570327 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
570256 ATAGGGCAGA
* *
570266 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
570288 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
570311 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
570328 AGGGGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:573925 original size:2 final size:2
Alignment explanation
Indices: 573920--573946 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
573910 TATACTTTCG
573920 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
573947 TTTACACATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:575506 original size:15 final size:15
Alignment explanation
Indices: 575486--575515 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
575476 AAGTTGATAC
575486 AAATATCAAAATTTA
1 AAATATCAAAATTTA
*
575501 AAATATCAATATTTA
1 AAATATCAAAATTTA
575516 CACGATGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATCAAAATTTA
Found at i:575575 original size:73 final size:69
Alignment explanation
Indices: 575377--575580 Score: 205
Period size: 70 Copynumber: 2.9 Consensus size: 69
575367 TACTTAATAT
* * *
575377 ATGATGATCGATACTTTTAAATATTGAAAAAGTTGAAGATAAGATATAAAGTTAAAATATTACTT
1 ATGATGATCGATACTTTTAAATATTGAAAAAGTTGATG--AAGATATAAAGTTAAAATATCAATT
*
575442 ATGCAG
64 ATACAG
* * * *
575448 -TAATGATCGATACTTTAAAATATTGAAAAAGTTGAT-ACAAATATCAAAATTTAAAATATCAAT
1 ATGATGATCGATACTTTTAAATATTGAAAAAGTTGATGA-AGATAT--AAAGTTAAAATATCAAT
*
575511 ATTTACACG
63 -TATACA-G
* * *
575520 ATGATGATCAATACTTTTATATATTGAGAAAGTTGATGAAGATGATAATAGTTAAAATATC
1 ATGATGATCGATACTTTTAAATATTGAAAAAGTTGATGAAGAT-ATAA-AGTTAAAATATC
575581 TATACATATA
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
67 1 0.01
68 5 0.05
70 47 0.44
71 4 0.04
72 3 0.03
73 45 0.42
74 3 0.03
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (69 bp):
ATGATGATCGATACTTTTAAATATTGAAAAAGTTGATGAAGATATAAAGTTAAAATATCAATTAT
ACAG
Found at i:575597 original size:73 final size:70
Alignment explanation
Indices: 575373--575598 Score: 196
Period size: 73 Copynumber: 3.2 Consensus size: 70
575363 TCGATACTTA
*
575373 ATAT-ATGATGATCGATACTTTTAAATATTGAAAAAGTTGAAGATAAGATATAAAGTTAAAATA-
1 ATATCATGATGATCGATACTTTTAAATATTGAAAAAGTTGATG--AAGATATAAAGTTAAAATAT
575436 -T-TACT
64 CTATACT
* * * *
575441 -TATGCAGTAATGATCGATACTTTAAAATATTGAAAAAGTTGAT-ACAAATATCAAAATTTAAAA
1 ATAT-CA-TGATGATCGATACTTTTAAATATTGAAAAAGTTGATGA-AGATAT--AAAGTTAAAA
*
575504 TATCAATA-T
61 TATCTATACT
* * * * *
575513 TTACACGATGATGATCAATACTTTTATATATTGAGAAAGTTGATGAAGATGATAATAGTTAAAAT
1 ATA-TC-ATGATGATCGATACTTTTAAATATTGAAAAAGTTGATGAAGAT-ATAA-AGTTAAAAT
575578 ATCTATACAT
62 ATCTATAC-T
575588 ATATCATGATG
1 ATATCATGATG
575599 TTAGAAACTT
Statistics
Matches: 124, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
67 4 0.03
68 5 0.04
69 1 0.01
70 44 0.35
72 3 0.02
73 59 0.48
74 5 0.04
75 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (70 bp):
ATATCATGATGATCGATACTTTTAAATATTGAAAAAGTTGATGAAGATATAAAGTTAAAATATCT
ATACT
Found at i:576647 original size:49 final size:49
Alignment explanation
Indices: 576522--576637 Score: 189
Period size: 49 Copynumber: 2.4 Consensus size: 49
576512 GTTTTGCCTT
*
576522 TATGACATCCATTCATACAAATCATGCATTATTGTAAATTTTATATCTA
1 TATGACATCCATTCATACAAATCATGCATTATTATAAATTTTATATCTA
* *
576571 TATGACATCCATTCATACCAATCATGCATTATTATACATTTTATATCTA
1 TATGACATCCATTCATACAAATCATGCATTATTATAAATTTTATATCTA
576620 TATGACATCC-TGTCATAC
1 TATGACATCCAT-TCATAC
576638 TACTTATGCA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 1 0.02
49 62 0.98
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (49 bp):
TATGACATCCATTCATACAAATCATGCATTATTATAAATTTTATATCTA
Found at i:576961 original size:68 final size:68
Alignment explanation
Indices: 576788--577040 Score: 357
Period size: 68 Copynumber: 3.8 Consensus size: 68
576778 TCTTTAACCG
* * * * * **
576788 TTCATCTAACTAGCCTAATTGACACCTTTCTATC-AATGCACAGTTTGGCCTCAAAGAAACTTAG
1 TTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
576852 CC-
66 CCT
* * * *
576854 TTCATCTAATTGGCATGATTGATACATGTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
576919 CCT
66 CCT
* * * *
576922 TTCATCTAACTGGCATGATTGACACATTTATGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAA
1 TTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
576987 CCT
66 CCT
576990 TTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACAGTTAGGCC
1 TTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACAGTTAGGCC
577041 ATTAATATTG
Statistics
Matches: 165, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
66 26 0.16
67 29 0.18
68 110 0.67
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:577390 original size:58 final size:56
Alignment explanation
Indices: 577258--577442 Score: 266
Period size: 58 Copynumber: 3.2 Consensus size: 56
577248 TATATTTCCC
* * *
577258 ATACGAAAATTCATAC-CTTTAGTATCAATTTCTTAGTTCTGCACACATAGTGCCC-
1 ATACGAAAATTCATACAC-TTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCA
*
577313 ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTTTGCACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAG--TTTTGCACACAAAGTGCCCA
577371 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGCTTTTGACACACAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTTG-CACACAAAGTGCCCA
*
577429 ATACGGAAATTCAT
1 ATACGAAAATTCAT
577443 GTTATTTGGT
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
55 32 0.27
56 1 0.01
57 22 0.19
58 63 0.53
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (56 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCA
Found at i:585244 original size:21 final size:20
Alignment explanation
Indices: 585207--585245 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
585197 ATCTACAAGA
*
585207 ATTTATGGCTTCGACAAAAT
1 ATTTATGGCTTCAACAAAAT
*
585227 ATTTCATGGCTTTAACAAA
1 ATTT-ATGGCTTCAACAAA
585246 GGCCTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
ATTTATGGCTTCAACAAAAT
Found at i:597832 original size:8 final size:9
Alignment explanation
Indices: 597814--597838 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
597804 TTTTATTCAT
597814 AAAAATAAA
1 AAAAATAAA
597823 AAAAATAAA
1 AAAAATAAA
597832 AAAAATA
1 AAAAATA
597839 TAGAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:597851 original size:20 final size:19
Alignment explanation
Indices: 597814--597856 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
597804 TTTTATTCAT
597814 AAAAATAAAAAAAATAAA-
1 AAAAATAAAAAAAATAAAC
*
597832 AAAAATATAGAAAAAGTAAAC
1 AAAAATA-A-AAAAAATAAAC
597853 AAAA
1 AAAA
597857 GAATTTGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 9 0.43
21 4 0.19
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAATAAAAAAAATAAAC
Found at i:599447 original size:21 final size:21
Alignment explanation
Indices: 599399--599466 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
599389 ATTCCAGAGA
* *
599399 TACTTACCAAAGTACA-TCACC
1 TACTTACCAAGGTA-ATTCATC
* *
599420 TATTTACCAAGGTATTTCATC
1 TACTTACCAAGGTAATTCATC
599441 TACTTACCAAGGTAATTCATC
1 TACTTACCAAGGTAATTCATC
599462 TACTT
1 TACTT
599467 CCACTTCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.35
Consensus pattern (21 bp):
TACTTACCAAGGTAATTCATC
Found at i:599786 original size:17 final size:17
Alignment explanation
Indices: 599751--599789 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
599741 TACTTGTGAG
*
599751 AAAAAAAGAGTGACTCA
1 AAAAAAAGAGTGACGCA
599768 AAAAAAAGATGTGA-GCA
1 AAAAAAAGA-GTGACGCA
599785 AAAAA
1 AAAAA
599790 GTATTGAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.64, C:0.08, G:0.18, T:0.10
Consensus pattern (17 bp):
AAAAAAAGAGTGACGCA
Found at i:611055 original size:17 final size:15
Alignment explanation
Indices: 611030--611082 Score: 97
Period size: 15 Copynumber: 3.5 Consensus size: 15
611020 GATAAAATTT
611030 GTTTCGAGAGAAACC
1 GTTTCGAGAGAAACC
*
611045 GTTTCGAGAGAAACT
1 GTTTCGAGAGAAACC
611060 GTTTCGAGAGAAACC
1 GTTTCGAGAGAAACC
611075 GTTTCGAG
1 GTTTCGAG
611083 TGAGATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (15 bp):
GTTTCGAGAGAAACC
Found at i:611243 original size:71 final size:70
Alignment explanation
Indices: 611059--611510 Score: 446
Period size: 71 Copynumber: 6.3 Consensus size: 70
611049 CGAGAGAAAC
** * * * *
611059 TGTTTCGAGAGAAACCGTTTCGAGTGAGATAAAACTTTTCAA-GGAAAATATCTCAAAGGATATG
1 TGTTTCGAGAGAAATTGTCTCGAGTGAGAGAAAA-TTTTCAAGGGAAAATATCTCAAGGGAGATG
*
611123 CAATTT
65 AAATTT
* * * * *
611129 TCTTTCGAGAGAAACTGTCTCAAGTGAGAGAAAAAATTTCAAGGGAAAATATCTCAAGGGAAATG
1 TGTTTCGAGAGAAATTGTCTCGAGTGAGAG-AAAATTTTCAAGGGAAAATATCTCAAGGGAGATG
611194 AAATTT
65 AAATTT
611200 TGTTT-GAGAGAAATTGTCTCGAGTGAGAGAAAATATTTCCAAGGGAAAATATCTCAAGGGAGAT
1 TGTTTCGAGAGAAATTGTCTCGAGTGAGAGAAAAT-TTT-CAAGGGAAAATATCTCAAGGGAGAT
611264 GAAATTTT
64 GAAA-TTT
* *
611272 TGTTTCAAGAGAAAATGTCTCGAGTGAGACAGAAAATTTTCAAGGGAAAATATCTCAAGGGAGAT
1 TGTTTCGAGAGAAATTGTCTCGAGTGAG--AGAAAATTTTCAAGGGAAAATATCTCAAGGGAGAT
611337 GAAATTT
64 GAAATTT
* * * *
611344 TGTTTCAAGAGAAATTG-CATCCAGTGAGATGGAAATTTTCAA-GGAGAAATATCTCAAGTGAGA
1 TGTTTCGAGAGAAATTGTC-TCGAGTGAGA-GAAAATTTTCAAGGGA-AAATATCTCAAGGGAGA
*
611407 TGTAATTT
63 TGAAATTT
* * * * * *** * *
611415 TGTTTC-AGGGAGATTGTCTCAAGTGTGACGAAACTTGTTTTTGAGGAAAGATATCTCGAGTGAG
1 TGTTTCGAGAGAAATTGTCTCGAGTGAGA-GAAAATT-TTCAAG-GGAAA-ATATCTCAAGGGAG
*
611479 ATAAAAATTT
62 AT-GAAATTT
* *
611489 TGTTTCAAGAGAAACTGTCTCG
1 TGTTTCGAGAGAAATTGTCTCG
611511 GGTGTGAAAA
Statistics
Matches: 326, Mismatches: 38, Indels: 31
0.83 0.10 0.08
Matches are distributed among these distances:
69 4 0.01
70 81 0.25
71 105 0.32
72 37 0.11
73 67 0.21
74 14 0.04
75 18 0.06
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (70 bp):
TGTTTCGAGAGAAATTGTCTCGAGTGAGAGAAAATTTTCAAGGGAAAATATCTCAAGGGAGATGA
AATTT
Found at i:611259 original size:15 final size:16
Alignment explanation
Indices: 611228--611260 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
611218 TCGAGTGAGA
*
611228 GAAAATATTTCCAAGG
1 GAAAATATCTCCAAGG
611244 GAAAATATCT-CAAGG
1 GAAAATATCTCCAAGG
611259 GA
1 GA
611261 GATGAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (16 bp):
GAAAATATCTCCAAGG
Found at i:611339 original size:144 final size:140
Alignment explanation
Indices: 611059--611439 Score: 462
Period size: 144 Copynumber: 2.7 Consensus size: 140
611049 CGAGAGAAAC
** * * * * *
611059 TGTTTCGAGAGAAACCGTTTCGAGTGAGATAAAACTTTTCAAGGAAAATATCTCAAAGGATATGC
1 TGTTTCGAGAGAAATTGTCTCGAGTGAGAGAAAA-TTTTCAAGGAAAATATCTCAAGGGAGATGA
* * * *
611124 AATTTTCTTTCGAGAGAAACTGTCTCAAGTGAGAGAAAAAATTTCAAGGGAAAATATCTCAAGGG
65 AATTTTGTTTCAAGAGAAAATGTCTCAAGTGAGACAAAAAATTTCAAGGGAAAATATCTCAAGGG
611189 AAATGAAATTT
130 AAATGAAATTT
611200 TGTTT-GAGAGAAATTGTCTCGAGTGAGAGAAAATATTTCCAAGGGAAAATATCTCAAGGGAGAT
1 TGTTTCGAGAGAAATTGTCTCGAGTGAGAGAAAAT-TTT-CAA-GGAAAATATCTCAAGGGAGAT
* *
611264 GAAATTTTTGTTTCAAGAGAAAATGTCTCGAGTGAGACAGAAAATTTTCAAGGGAAAATATCTCA
63 GAAA-TTTTGTTTCAAGAGAAAATGTCTCAAGTGAGACA-AAAAATTTCAAGGGAAAATATCTCA
*
611329 AGGGAGATGAAATTT
126 AGGGAAATGAAATTT
* * * *
611344 TGTTTCAAGAGAAATTG-CATCCAGTGAGATGGAAATTTTCAAGGAGAAATATCTCAAGTGAGAT
1 TGTTTCGAGAGAAATTGTC-TCGAGTGAGA-GAAAATTTTCAAGGA-AAATATCTCAAGGGAGAT
* * * *
611408 GTAATTTTGTTTC-AGGGAGATTGTCTCAAGTG
63 GAAATTTTGTTTCAAGAGAAAATGTCTCAAGTG
611440 TGACGAAACT
Statistics
Matches: 208, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
139 1 0.00
140 27 0.13
141 8 0.04
142 37 0.18
143 41 0.20
144 67 0.32
145 22 0.11
146 5 0.02
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (140 bp):
TGTTTCGAGAGAAATTGTCTCGAGTGAGAGAAAATTTTCAAGGAAAATATCTCAAGGGAGATGAA
ATTTTGTTTCAAGAGAAAATGTCTCAAGTGAGACAAAAAATTTCAAGGGAAAATATCTCAAGGGA
AATGAAATTT
Found at i:611469 original size:144 final size:145
Alignment explanation
Indices: 611081--611509 Score: 443
Period size: 144 Copynumber: 3.0 Consensus size: 145
611071 AACCGTTTCG
* * * * * *
611081 AGTGAGATAAAACT-TTT-CAA-GGAAAATATCTCAAAGGATATGCAA-TTTTCTTTCGAGAGAA
1 AGTGAGAGAAAA-TATTTCCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAGAGAA
* * * *
611142 ACTGTCTCAAGTGAGAGA-AAAAATTTCAAGGGAAAATATCTCAAGGGAAATGAAATTTTGTTT-
65 AATGTCTCAAGTGAGACAGAAAATTTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTGTTTC
* *
611205 GAGAGAAATTGTCTCG
130 AAGAGAAATTGTCTCC
611221 AGTGAGAGAAAATATTTCCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAGAGAAA
1 AGTGAGAGAAAATATTTCCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAGAGAAA
*
611286 ATGTCTCGAGTGAGACAGAAAATTTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTGTTTCA
66 ATGTCTCAAGTGAGACAGAAAATTTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTGTTTCA
611351 AGAGAAATTG-CATCC
131 AGAGAAATTGTC-TCC
* * * *
611366 AGTGAGATGGAAAT-TTT-CAA-GGAGAAATATCTCAAGTGAGATGTAA-TTTTGTTTC-AGGGA
1 AGTGAGA-GAAAATATTTCCAAGGGA-AAATATCTCAAGGGAGATGAAATTTTTGTTTCAAGAGA
* * * * *** * * *
611426 GATTGTCTCAAGTGTGAC-GAAACTTGTTTTTGAGGAAAGATATCTCGAGTGAGATAAAAATTTT
64 AAATGTCTCAAGTGAGACAGAAAATT-TTCAAG-GGAAA-ATATCTCAAGGGAGAT-GAAATTTT
*
611490 GTTTCAAGAGAAACTGTCTC
125 GTTTCAAGAGAAATTGTCTC
611510 GGGTGTGAAA
Statistics
Matches: 246, Mismatches: 29, Indels: 23
0.83 0.10 0.08
Matches are distributed among these distances:
139 1 0.00
140 14 0.06
141 9 0.04
142 43 0.17
143 46 0.19
144 81 0.33
145 46 0.19
146 6 0.02
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (145 bp):
AGTGAGAGAAAATATTTCCAAGGGAAAATATCTCAAGGGAGATGAAATTTTTGTTTCAAGAGAAA
ATGTCTCAAGTGAGACAGAAAATTTTCAAGGGAAAATATCTCAAGGGAGATGAAATTTTGTTTCA
AGAGAAATTGTCTCC
Found at i:611528 original size:75 final size:74
Alignment explanation
Indices: 611124--611569 Score: 240
Period size: 71 Copynumber: 6.1 Consensus size: 74
611114 AAGGATATGC
* * * *
611124 AATTTTCTTTCGAGAGAAACTGTCTCAAGTGAGAGAAAAAA---TTTC-AAGGGAAAATATCTCA
1 AATTTTGTTTC-AGAGAAACTGTCTCAAGTGTGA-AAAAAATTGTTTCTGAGGAAAAATATCTCA
* * *
611185 AGGGAAAT-GA
64 AGTGAGATAAA
* * * * * * ** *
611195 AATTTTGTTTGAGAGAAATTGTCTCGAGTGAG-AGAAAA-TATTTCCAAGGGAAAATATCTCAAG
1 AATTTTGTTTCAGAGAAACTGTCTCAAGTGTGAAAAAAATTGTTTCTGAGGAAAAATATCTCAAG
* *
611258 GGAGATGAA
66 TGAGATAAA
* * * * * * *
611267 ATTTTTGTTTCAAGAGAAAATGTCTCGAGTGAGACAGAAAA-T-TTTC-AAGGGAAAATATCTCA
1 AATTTTGTTTC-AGAGAAACTGTCTCAAGTGTGA-AAAAAATTGTTTCTGAGGAAAAATATCTCA
* *
611329 AGGGAGAT-GA
64 AGTGAGATAAA
* * * *** * *
611339 AATTTTGTTTCAAGAGAAATTG-CATCCAGTGAGATGGAAA-T-TTTC-AAGGAGAAATATCTCA
1 AATTTTGTTTC-AGAGAAACTGTC-TCAAGTGTGAAAAAAATTGTTTCTGAGGAAAAATATCTCA
**
611400 AGTGAGAT-GT
64 AGTGAGATAAA
* * * ** * * * *
611410 AATTTTGTTTCAGGGAGATTGTCTCAAGTGTGACGAAACTTGTTTTTGAGGAAAGATATCTCGAG
1 AATTTTGTTTCAGAGAAACTGTCTCAAGTGTGAAAAAAATTGTTTCTGAGGAAAAATATCTCAAG
611475 TGAGATAAA
66 TGAGATAAA
** * *
611484 AATTTTGTTTCAAGAGAAACTGTCTCGGGTGTGAAAAAAATTGTTTCTGAGGAAAAACTCTCTCT
1 AATTTTGTTTC-AGAGAAACTGTCTCAAGTGTGAAAAAAATTGTTTCTGAGGAAAAA-TATCTCA
*
611549 AGTCAGATAAA
64 AGTGAGATAAA
*
611560 ACTTTTGTTT
1 AATTTTGTTT
611570 TAATGGAATA
Statistics
Matches: 312, Mismatches: 48, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
68 5 0.02
70 42 0.13
71 77 0.25
72 43 0.14
73 64 0.21
74 15 0.05
75 42 0.13
76 24 0.08
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (74 bp):
AATTTTGTTTCAGAGAAACTGTCTCAAGTGTGAAAAAAATTGTTTCTGAGGAAAAATATCTCAAG
TGAGATAAA
Found at i:612939 original size:23 final size:23
Alignment explanation
Indices: 612913--612961 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
612903 ATAAAGAACC
*
612913 AAAATAAA-CTTAAATATACCATT
1 AAAATAAAGCTTAAACAT-CCATT
*
612936 AAAATAAAGTTTAAACATCCATT
1 AAAATAAAGCTTAAACATCCATT
612959 AAA
1 AAA
612962 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAAGCTTAAACATCCATT
Found at i:616207 original size:20 final size:20
Alignment explanation
Indices: 616184--616228 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
616174 AGAGAAAAGT
* *
616184 AAAAGTTAAAAATGAAATAG
1 AAAAGCTAAAAATGAAAGAG
**
616204 AAAAGCTAAGGATGAAAGAG
1 AAAAGCTAAAAATGAAAGAG
616224 AAAAG
1 AAAAG
616229 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.22, T:0.13
Consensus pattern (20 bp):
AAAAGCTAAAAATGAAAGAG
Found at i:620608 original size:21 final size:21
Alignment explanation
Indices: 620569--620608 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
620559 CGAGCTATGG
*
620569 CTTTGAAGTAAGGTGCCTTGA
1 CTTTGAAGTAAGCTGCCTTGA
620590 CTTTGAAGTAAAGCT-CCTT
1 CTTTGAAGT-AAGCTGCCTT
620609 AATTCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
CTTTGAAGTAAGCTGCCTTGA
Found at i:622353 original size:16 final size:17
Alignment explanation
Indices: 622332--622364 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
622322 GTGGAAAGAA
*
622332 TAGAT-GTTTAGTGTTG
1 TAGATGGTTTAATGTTG
622348 TAGATGGTTTAATGTTG
1 TAGATGGTTTAATGTTG
622365 AGACAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (17 bp):
TAGATGGTTTAATGTTG
Found at i:633502 original size:20 final size:19
Alignment explanation
Indices: 633465--633514 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
633455 CACTAAATCA
*
633465 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAA-TCCATTTTG
633485 TTTTTCAAAATCCAATTTTG
1 TTTTTCAAAATCC-ATTTTG
*
633505 -CTTTCAAAAT
1 TTTTTCAAAAT
633515 AAAATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.52
Consensus pattern (19 bp):
TTTTTCAAAATCCATTTTG
Found at i:639809 original size:5 final size:5
Alignment explanation
Indices: 639778--639832 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
639768 ATTTTGCATG
* *
639778 TTTTA TTTTG TTTTCA TCTTCA TTTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTT-A T-TTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
639826 TTTTA TT
1 TTTTA TT
639833 CTCTCATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
5 35 0.81
6 5 0.12
7 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:639854 original size:38 final size:38
Alignment explanation
Indices: 639778--639852 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
639768 ATTTTGCATG
* * *
639778 TTTTATTTTGTTTTCATCTTCATTTTTATTTTATTTTA
1 TTTTATTTTATTTTCATCTTCATTATCATTTTATTTTA
639816 TTTTATTTTATTTT-ATTCTCTCATTATCATTTTATTT
1 TTTTATTTTATTTTCA-TCT-TCATTATCATTTTATTT
639853 ATATGTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.03
38 16 0.50
39 15 0.47
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (38 bp):
TTTTATTTTATTTTCATCTTCATTATCATTTTATTTTA
Found at i:640945 original size:15 final size:15
Alignment explanation
Indices: 640915--640943 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
640905 TTCTTTCATC
640915 ATTTTTTATTTATTT
1 ATTTTTTATTTATTT
640930 ATTTTTT-TTTATTT
1 ATTTTTTATTTATTT
640944 TACTGACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTTATTTATTT
Found at i:650329 original size:8 final size:7
Alignment explanation
Indices: 650307--650345 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
650297 TAAGTCGAAG
650307 AAAGAAA
1 AAAGAAA
650314 AAAGAAA
1 AAAGAAA
*
650321 AAGGAAA
1 AAAGAAA
650328 AAAGAAAA
1 AAAG-AAA
650336 AAAGAAA
1 AAAGAAA
650343 AAA
1 AAA
650346 CGTTTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:650412 original size:17 final size:15
Alignment explanation
Indices: 650382--650431 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
650372 GCCCTAAATT
650382 GAAAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
650397 GAAAAAAAGAACGAAAA
1 GAAAAAAA-AA-GAAAA
* *
650414 -AAGAAAAAACAAAA
1 GAAAAAAAAAGAAAA
650428 -AAAA
1 GAAAA
650432 TAAGGTGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.23
15 10 0.33
16 8 0.27
17 5 0.17
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAGAAAA
Found at i:651749 original size:110 final size:108
Alignment explanation
Indices: 651541--651807 Score: 348
Period size: 110 Copynumber: 2.5 Consensus size: 108
651531 ACAAAGGGTC
651541 TTCCCAG--CTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
1 TTCCCAGTTCTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
* * *
651604 TTCAACTTCACAATGAAGGGGCGGCTAATTATCAACAAACAACT
66 CTCAACTTCACAACGAAGGGGCGGCTAACTATCAACAAAC-ACT
* * * *
651648 TT-TCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACATCACA
1 TTCCCAG-TTC-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACA
* * * *
651712 AGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGT
64 AGCTCAACTTCACAACGAAGGGGCGGCTAACTATCAACAAACACT
*
651757 TTCCCAGTTC--CAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTCA
1 TTCCCAGTTCTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTCA
651808 GAGCAATACA
Statistics
Matches: 139, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
105 1 0.01
106 39 0.28
107 2 0.01
109 8 0.06
110 89 0.64
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (108 bp):
TTCCCAGTTCTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAG
CTCAACTTCACAACGAAGGGGCGGCTAACTATCAACAAACACT
Found at i:665212 original size:16 final size:18
Alignment explanation
Indices: 665185--665232 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
665175 AAACAAGTTT
*
665185 CAGATTCTAATTCCTT-A
1 CAGATTCCAATTCCTTCA
*
665202 -ATATTCCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
665219 CAGATTCCAATTCC
1 CAGATTCCAATTCC
665233 CTAAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 12 0.46
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:665941 original size:22 final size:22
Alignment explanation
Indices: 665925--665981 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
665915 AACACTGATA
*
665925 CAAAATTGCATTTACACTTAAT
1 CAAAAGTGCATTTACACTTAAT
665947 CAAAAGTGCATTTACACTTAAT
1 CAAAAGTGCATTTACACTTAAT
665969 CAAAAGTGCATTT
1 CAAAAGTGCATTT
665982 GCAGTAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (22 bp):
CAAAAGTGCATTTACACTTAAT
Found at i:666387 original size:18 final size:20
Alignment explanation
Indices: 666344--666387 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
666334 CCCTAATGTA
666344 GAGTATCGATATTCTCCCAAT
1 GAGTATCGATA-TCTCCCAAT
666365 G-GTATCGATA-CTCCC-AT
1 GAGTATCGATATCTCCCAAT
666382 GAGTAT
1 GAGTAT
666388 ATATACCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
20 9 0.41
21 1 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
GAGTATCGATATCTCCCAAT
Found at i:673639 original size:24 final size:24
Alignment explanation
Indices: 673611--673671 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
673601 TGGTAATCAA
* * * *
673611 TTTGTTTATGTTCTTTTATTTATG
1 TTTGTTGACGTTCTTTCATTGATG
*
673635 TTTGTTGACGTTCTTTCGTTGATG
1 TTTGTTGACGTTCTTTCATTGATG
673659 TTTGTTGACGTTC
1 TTTGTTGACGTTC
673672 GTTCGTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (24 bp):
TTTGTTGACGTTCTTTCATTGATG
Found at i:673676 original size:24 final size:24
Alignment explanation
Indices: 673632--673678 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
673622 TCTTTTATTT
*
673632 ATGTTTGTTGACGTTCTTTCGTTG
1 ATGTTTGTTGACGTTCGTTCGTTG
673656 ATGTTTGTTGACGTTCGTTCGTT
1 ATGTTTGTTGACGTTCGTTCGTT
673679 TATGCTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.26, T:0.53
Consensus pattern (24 bp):
ATGTTTGTTGACGTTCGTTCGTTG
Found at i:673791 original size:17 final size:18
Alignment explanation
Indices: 673759--673795 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
673749 ATTTAATCTT
*
673759 AAATCCATTAATATTTTA
1 AAATCCAATAATATTTTA
673777 AAATCCAATAA-ATTTTA
1 AAATCCAATAATATTTTA
673794 AA
1 AA
673796 CACAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATCCAATAATATTTTA
Found at i:677219 original size:55 final size:55
Alignment explanation
Indices: 677129--677238 Score: 166
Period size: 55 Copynumber: 2.0 Consensus size: 55
677119 CTTTTAATTC
* * * * *
677129 TATTATAAAGTTTTATTGCTAAATTATGGGGTGCAAGCAAGACTAAAGTAGACAT
1 TATTATAAAGCTTAATTGCTAAACTATGGGATGCAAGCAAAACTAAAGTAGACAT
*
677184 TATTATAAAGCTTAATTGCTAAACTATGTGATGCAAGCAAAACTAAAGTAGACAT
1 TATTATAAAGCTTAATTGCTAAACTATGGGATGCAAGCAAAACTAAAGTAGACAT
677239 GAATATGTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (55 bp):
TATTATAAAGCTTAATTGCTAAACTATGGGATGCAAGCAAAACTAAAGTAGACAT
Found at i:680802 original size:5 final size:5
Alignment explanation
Indices: 680792--681277 Score: 721
Period size: 5 Copynumber: 97.0 Consensus size: 5
680782 TGAATAAATA
*
680792 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATATAA ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT
680843 ATAAT ATAAT ATAAT ATAAT A-ATAT AATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT -ATAAT ATAAT ATAAT ATAAT ATAAT
680894 ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
680942 ATAAT ATAAT ATAAT AT-AT AT-AT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
680990 ATAAT ATATAT ATATAT AATAAT ATAAT AT-AT AT-AT ATAAT ATAAT
1 ATAAT ATA-AT ATA-AT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
681036 ATAAT AT-A- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
*
681085 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT GTAAT AATAAT ATAATAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT AT-A-AT
681133 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT ATAAT AT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
681181 AATAAT ATAAT ATATAT ATATAT ATAAT AT-AT ATAAT ATAAT AT-AT
1 -ATAAT ATAAT ATA-AT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
681227 AATAAT AT-AT ATATAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 -ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
681278 CGAATCGAAT
Statistics
Matches: 452, Mismatches: 4, Indels: 50
0.89 0.01 0.10
Matches are distributed among these distances:
3 4 0.01
4 37 0.08
5 355 0.79
6 48 0.11
7 8 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:682301 original size:35 final size:35
Alignment explanation
Indices: 682255--682393 Score: 142
Period size: 35 Copynumber: 3.9 Consensus size: 35
682245 CTTAGATCCG
*
682255 TAAGGAATTACCAGCTCGATCG-GTCTGAACCTATA
1 TAAGGAATTACCAGTTCGATCGAG-CTGAACCTATA
* * *
682290 TAAGGAATTACCAATTTG-TCCGAGCTGAACCT-TCCG
1 TAAGGAATTACCAGTTCGAT-CGAGCTGAACCTAT--A
*
682326 TAAGGAATTACCAGTTCGATC-AGTCTTAACCTATA
1 TAAGGAATTACCAGTTCGATCGAG-CTGAACCTATA
* *
682361 TAAGAAATTACCAGTTTGATCGAGCTGAACCTA
1 TAAGGAATTACCAGTTCGATCGAGCTGAACCTA
682394 CAGAGACTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
34 2 0.02
35 54 0.64
36 27 0.32
37 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (35 bp):
TAAGGAATTACCAGTTCGATCGAGCTGAACCTATA
Found at i:682330 original size:71 final size:71
Alignment explanation
Indices: 682251--682392 Score: 223
Period size: 71 Copynumber: 2.0 Consensus size: 71
682241 TCACCTTAGA
* *
682251 TCCGTAAGGAATTACCAGCTCGATCGGTCTGAACCTATATAAGGAATTACCAATTTG-TCCGAGC
1 TCCGTAAGGAATTACCAGCTCGATCAGTCTGAACCTATATAAGAAATTACCAATTTGAT-CGAGC
682315 TGAACCT
65 TGAACCT
* * *
682322 TCCGTAAGGAATTACCAGTTCGATCAGTCTTAACCTATATAAGAAATTACCAGTTTGATCGAGCT
1 TCCGTAAGGAATTACCAGCTCGATCAGTCTGAACCTATATAAGAAATTACCAATTTGATCGAGCT
682387 GAACCT
66 GAACCT
682393 ACAGAGACTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 64 0.98
72 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (71 bp):
TCCGTAAGGAATTACCAGCTCGATCAGTCTGAACCTATATAAGAAATTACCAATTTGATCGAGCT
GAACCT
Found at i:684077 original size:22 final size:22
Alignment explanation
Indices: 684049--684091 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
684039 TACTTTTTTG
*
684049 GGTCAAAGTCAACGGTCAGACT
1 GGTCAAAGTCAACGATCAGACT
684071 GGTCAAAGTCAACGATCAGAC
1 GGTCAAAGTCAACGATCAGAC
684092 CGGTTAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (22 bp):
GGTCAAAGTCAACGATCAGACT
Found at i:688576 original size:16 final size:16
Alignment explanation
Indices: 688555--688604 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
688545 AATTTAGTCC
688555 TTATATTTAAATTTTA
1 TTATATTTAAATTTTA
* *
688571 TTATATTTATATCCTT-
1 TTATATTTAAAT-TTTA
*
688587 GTATATTTAAATTTTA
1 TTATATTTAAATTTTA
688603 TT
1 TT
688605 TAGATCCTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATATTTAAATTTTA
Found at i:688597 original size:32 final size:30
Alignment explanation
Indices: 688556--688634 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 30
688546 ATTTAGTCCT
*
688556 TATATTTAAATTTTATTATATTTATATCCTTG
1 TATATTTAAATTTT-TT-TATTTAGATCCTTG
688588 TATATTTAAA---TTTTATTTAGATCCTTG
1 TATATTTAAATTTTTTTATTTAGATCCTTG
*
688615 TATATTTAAATTTCTTTATT
1 TATATTTAAATTTTTTTATT
688635 ATTTGTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 23 0.55
28 2 0.05
29 1 0.02
30 6 0.14
32 10 0.24
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (30 bp):
TATATTTAAATTTTTTTATTTAGATCCTTG
Found at i:688662 original size:26 final size:26
Alignment explanation
Indices: 688633--688686 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
688623 AATTTCTTTA
* *
688633 TTATTTGTAATTTTTA-TTATTTTATT
1 TTATTT-TAATATTTATTTAATTTATT
*
688659 TTATTTTAGTATTTATTTAATTTATT
1 TTATTTTAATATTTATTTAATTTATT
688685 TT
1 TT
688687 GTAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (26 bp):
TTATTTTAATATTTATTTAATTTATT
Found at i:688671 original size:21 final size:20
Alignment explanation
Indices: 688642--688699 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
688632 ATTATTTGTA
688642 ATTTT-TATTATTTTATTTT
1 ATTTTGTATTATTTTATTTT
*
688661 ATTTTAGTATT-TATTTAATTT
1 ATTTT-GTATTAT-TTTATTTT
688682 ATTTTGTA--ATTTTATTTT
1 ATTTTGTATTATTTTATTTT
688700 TAATTAGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 7 0.21
19 6 0.18
20 4 0.12
21 16 0.48
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
ATTTTGTATTATTTTATTTT
Found at i:692424 original size:15 final size:16
Alignment explanation
Indices: 692406--692443 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
692396 AAGATATAAC
*
692406 AAGAAAAACAT-AAAA
1 AAGAAAAAAATGAAAA
692421 AAGAAAAAAATGAAAA
1 AAGAAAAAAATGAAAA
*
692437 ATGAAAA
1 AAGAAAA
692444 GAAAAGAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.08
Consensus pattern (16 bp):
AAGAAAAAAATGAAAA
Found at i:692428 original size:16 final size:15
Alignment explanation
Indices: 692387--692443 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
692377 ACACAAAGAG
692387 AAAGAAGAAAAGATATAA
1 AAAGAA-AAAA-ATA-AA
* *
692405 CAAGAAAAACATAAA
1 AAAGAAAAAAATAAA
692420 AAAGAAAAAAATGAAA
1 AAAGAAAAAAAT-AAA
*
692436 AATGAAAA
1 AAAGAAAA
692444 GAAAAGAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 12 0.36
16 13 0.39
17 3 0.09
18 5 0.15
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAGAAAAAAATAAA
Found at i:693139 original size:28 final size:28
Alignment explanation
Indices: 693081--693140 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
693071 CACGAAGCCC
* *
693081 ACCTGAAACACATTACCTTCCCAAATTA
1 ACCTGAAACACATTACCTTCACAAATCA
* *
693109 ACCTGAAACACATTACCTTCATAAGTCA
1 ACCTGAAACACATTACCTTCACAAATCA
693137 ACCT
1 ACCT
693141 AAGCCTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.32, G:0.05, T:0.25
Consensus pattern (28 bp):
ACCTGAAACACATTACCTTCACAAATCA
Found at i:694544 original size:41 final size:40
Alignment explanation
Indices: 694432--694560 Score: 125
Period size: 41 Copynumber: 3.1 Consensus size: 40
694422 AAGGGTTTCT
* * *
694432 TGATGAGTAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCG
1 TGATGA-TAAGTCATTCGGGCTATCA-TAAGTCTTTCGAGCA
* * *
694474 TGATGCTTAAATCCTTCGGG-TCATCATAAGTCTTTCGAGCA
1 TGATG-ATAAGTCATTCGGGCT-ATCATAAGTCTTTCGAGCA
* * *
694515 AGATGATAAGTCATTCGGGCTATCTATAAGACTTTCGGGCA
1 TGATGATAAGTCATTCGGGCTATC-ATAAGTCTTTCGAGCA
694556 TGATG
1 TGATG
694561 TTTTCAAATG
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
40 14 0.20
41 36 0.51
42 20 0.29
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
TGATGATAAGTCATTCGGGCTATCATAAGTCTTTCGAGCA
Found at i:694813 original size:41 final size:41
Alignment explanation
Indices: 694706--694818 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
694696 AGGGTTTCTT
* *
694706 GATGAGTAAGTCCTTTGGGCCATC-AGTAAGTCTTTCGAACAT
1 GATGA-TAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAACAA
* * *
694748 GATGCTTACA-TCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
1 GATG-ATA-AGTCCTTCGGGCCATCTATAAGTCTTTCGAACAA
*
694790 GATGATAAGTCCTTCGTGCCATCTATAAG
1 GATGATAAGTCCTTCGGGCCATCTATAAG
694819 ACCTTCAGGC
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
40 1 0.02
41 20 0.34
42 36 0.61
43 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
GATGATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAACAA
Found at i:695090 original size:277 final size:275
Alignment explanation
Indices: 694292--695208 Score: 1292
Period size: 277 Copynumber: 3.3 Consensus size: 275
694282 GTTTCAAACG
* * * * * * * * * *
694292 AATGAATTTTTAGAAACTGAGCCTAATTTTCAAGGGTTTTTTGATAATGATTCTCTAAAGAGTCT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGAT-ATTTTC-AAAGAATTT
*
694357 TTAAAAGAAAGCTAAGCCTAATTTTTAGAGGTTCCTTT-ACAACTAAGAAACTAAGCTTGATTTT
64 TTAAAAGAAAGCTAAGCCTAATTTTTAGGGGTTCCTTTGACAACTAAGAAACTAAGCTTGATTTT
* * *
694421 CAAGGGTTTCTTGATGAGTAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCGTGATGCTTAAAT
129 CAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAT
* * *
694486 CCTTCGGGTCATC-ATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCTATAAGACTTT
194 CCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCTATAAGACATT
694550 CGGGCATGATGTTTTCA
259 CGGGCATGATGTTTTCA
* * * * *
694567 AATGTGTTTTTTGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATATCTCCAAAGAGTTTTT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATATTTTCAAAGAATTTTT
* *
694632 AAAAGAAAGCTAAGCCTAATTTTTAGGGGTTTC-TTGACAACTAAGAAACTAAGCTTGATTTTAA
66 AAAAGAAAGCTAAGCCTAATTTTTAGGGGTTCCTTTGACAACTAAGAAACTAAGCTTGATTTTCA
* * *
694696 AGGGTTTCTTGATGAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAACATGATGCTTACATCC
131 AGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
* * * *
694761 TTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGTGCCATCTATAAGACCTTCA
196 TTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCTATAAGACATTCG
*
694826 GGCAGGATGTTTTCA
261 GGCATGATGTTTTCA
*
694841 AATGAGTTTTTAGAAACAAAGCCTGATTTTTAGGGGTTTCTTGATGATATTTTCAAAGAATTTTT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATATTTTCAAAGAATTTTT
* * *
694906 -AAAGGAAGTTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTAAGAAACTGAGCTTGATTTT
66 AAAAGAAAGCTAAGCCTAATTTTTAGGGGTTCCTT--TGACAACTAAGAAACTAAGCTTGATTTT
* * *
694970 CTAGGGTTTTTTTGATGAGTAAGTCCTTCGGTCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
129 CAAGGG-TTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
* *
695035 TCCTTCGGGTAATCTATAAGTCTTTCGAGCAAGATGATCAGTCATTCGAGCCATCTATAAGACAT
193 TCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCTATAAGACAT
695100 TCGGGCATGATGTTTTCA
258 TCGGGCATGATGTTTTCA
* * * *
695118 AATGAGTTTTTAGAAACTAATCTTGATTTTTAGGGATTTATTGATG-T-TTTT-AAATGAATTTT
1 AATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATATTTTCAAA-GAA-TTT
* *
695180 TTGAAAG-AAGCTAAGCCTAATTTTAAGGG
64 TTAAAAGAAAGCTAAGCCTAATTTTTAGGG
695209 TTTCTTAATA
Statistics
Matches: 574, Mismatches: 59, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
272 2 0.00
273 167 0.29
274 128 0.22
275 46 0.08
276 57 0.10
277 174 0.30
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (275 bp):
AATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATATTTTCAAAGAATTTTT
AAAAGAAAGCTAAGCCTAATTTTTAGGGGTTCCTTTGACAACTAAGAAACTAAGCTTGATTTTCA
AGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
TTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCTATAAGACATTCG
GGCATGATGTTTTCA
Found at i:696228 original size:136 final size:128
Alignment explanation
Indices: 695980--696306 Score: 327
Period size: 136 Copynumber: 2.5 Consensus size: 128
695970 GAAGAGTTTG
* ** *
695980 TAATGAGAAGAACT-AGTCTAACGAGGGAGAAGAAGTTCATAATGAGAAGAGATTGTTCGAA-CT
1 TAATGAGAAGAACTCA-TCCAATAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTC-AACCT
** ** *
696043 ATCGCTCGATTCACGACATTTCGGCTCAGTGACGCATCGCTTGATGGATTAACACTTCAAATGGA
64 ATCGCTCGATTCACGACAGGTCGAATCAGTGACGCATCGCTTGAGGGATT---A--TC--ATGGA
696108 GAGTTCA
122 GAGTTCA
* * * *
696115 TAATGAGAAGAACTCATTCGACA-AAGGTAGAAGAATTTCATAATGAGAATAGCTTGTTCAACCT
1 TAATGAGAAGAACTCA-TCCA-ATAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
** * * * **
696179 ATTTCTCGATTCATGACAGGTCGAATCAGTGATGCCTCTTTTGAGGGATTATCATGGAGAGTTCA
64 ATCGCTCGATTCACGACAGGTCGAATCAGTGACGCATCGCTTGAGGGATTATCATGGAGAGTTCA
* * *
696244 TAATGATAAGACCTCATCCAATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCT
1 TAATGAGAAGAACTCATCCAATAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
696307 TGCATCAACA
Statistics
Matches: 162, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
127 1 0.01
128 40 0.25
129 26 0.16
131 2 0.01
133 1 0.01
135 16 0.10
136 75 0.46
137 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (128 bp):
TAATGAGAAGAACTCATCCAATAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTAT
CGCTCGATTCACGACAGGTCGAATCAGTGACGCATCGCTTGAGGGATTATCATGGAGAGTTCA
Found at i:696481 original size:91 final size:90
Alignment explanation
Indices: 696234--696846 Score: 857
Period size: 91 Copynumber: 6.7 Consensus size: 90
696224 GGATTATCAT
* * * *
696234 GGAGAGTTCATAATGATAAGACCTCATCCAATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCGAA-GAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* * *
696299 TTCAACCTTGCATCAACATTTTCTAGT
65 TTCAACCTTGCATCAA-AATTTCCAGC
* * * * *
696326 GGAGAGTTCATAATGAAAATATCTCATCAGACTGAGGGAGAAGAAGTTCATAATGAGAATAACTT
1 GGAGAGTTCATAATGAGAAGAACTCATC-GA-AGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
* *
696391 GTTAAACCTTGGATCAAAATTTCCAGC
64 GTTCAACCTTGCATCAAAATTTCCAGC
* *
696418 GGAGAGTTCATAATGAGAAGAACTCATACGAAAAGGGAGAAGAAGTTCATAATGATAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCAT-CGAAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* *
696483 TTCAACCTTGCATCAACATTTCCAAC
65 TTCAACCTTGCATCAAAATTTCCAGC
*
696509 GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCATCGAA-GAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* * *
696574 TGCAACCCTGCATCAAAATTTCCAGG
65 TTCAACCTTGCATCAAAATTTCCAGC
*
696600 GGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
1 GGAGAGTTCATAATGAGAAGAACTCAT-CGAAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
* *
696665 TTCAACCTTGCATCAACATTTCTAGC
65 TTCAACCTTGCATCAAAATTTCCAGC
* *
696691 GGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTAAATAATGAGAAGAACTT
1 GGAGAGTTCATAATGAGAAGAACTCAT-CGAAGAGGGAGAAGAAGTT-CATAATGAGAAGAACTT
* *
696756 GTTTAACCTTGCATCAACATTTCCAGC
64 GTTCAACCTTGCATCAAAATTTCCAGC
* *
696783 AGAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 GGAGAGTTCATAATGAGAAGAACTCAT-CGAAGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
696847 ACTCAAATTT
Statistics
Matches: 472, Mismatches: 43, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
90 3 0.01
91 275 0.58
92 147 0.31
93 47 0.10
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (90 bp):
GGAGAGTTCATAATGAGAAGAACTCATCGAAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTGCATCAAAATTTCCAGC
Found at i:696819 original size:274 final size:275
Alignment explanation
Indices: 696235--696846 Score: 958
Period size: 274 Copynumber: 2.2 Consensus size: 275
696225 GATTATCATG
* * **
696235 GAGAGTTCATAATGATAAGACCTCATCCAATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
1 GAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * * *
696300 TCAACCTTGCATCAACATTTTCTAGTGGAGAGTTCATAATGAAAATATCTCATCAGACTGAGGGA
66 GCAACCCTGCATCAACAATTTCCAGGGGAGAGTTCATAATGAAAAGAACTCATCAGACTGAGGGA
* *
696365 GAAGAAGTTCATAATGAGAATAACTTGTTAAACCTTGGATCAAAATTTCCAGCGGAGAGTTCATA
131 GAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTGCATCAAAATTTCCAGCGGAGAGTTCATA
* *
696430 ATGAGAAGAACTCATACGAAAAGGGAGAAGAAGTTCATAATGATAAGAACTTGTTCAACCTTGCA
196 ATGAGAAGAACTCATACGAAAAGGGAGAAGAAGTTAATAATGAGAAGAACTTGTTCAACCTTGCA
*
696495 TCAACATTTCCAACG
261 TCAACATTTCCAACA
696510 GAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
1 GAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* *
696575 GCAACCCTGCATCAA-AATTTCCAGGGGAGAGTTCATAATGAGAAGAACTCATCCGAC-GAGGGA
66 GCAACCCTGCATCAACAATTTCCAGGGGAGAGTTCATAATGAAAAGAACTCATCAGACTGAGGGA
* * *
696638 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATCAACATTTCTAGCGGAGAGTTCATA
131 GAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTGCATCAAAATTTCCAGCGGAGAGTTCATA
* ** *
696703 ATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTAAATAATGAGAAGAACTTGTTTAACCTTGC
196 ATGAGAAGAACTCATACGAAAAGGGAGAAGAAGTT-AATAATGAGAAGAACTTGTTCAACCTTGC
*
696768 ATCAACATTTCCAGCA
260 ATCAACATTTCCAACA
*
696784 GAGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 GAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTT
696847 ACTCAAATTT
Statistics
Matches: 309, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
273 98 0.32
274 137 0.44
275 74 0.24
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (275 bp):
GAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
GCAACCCTGCATCAACAATTTCCAGGGGAGAGTTCATAATGAAAAGAACTCATCAGACTGAGGGA
GAAGAAGTTCATAATGAGAAGAACTTGTTAAACCTTGCATCAAAATTTCCAGCGGAGAGTTCATA
ATGAGAAGAACTCATACGAAAAGGGAGAAGAAGTTAATAATGAGAAGAACTTGTTCAACCTTGCA
TCAACATTTCCAACA
Found at i:697102 original size:44 final size:41
Alignment explanation
Indices: 697005--697113 Score: 121
Period size: 44 Copynumber: 2.6 Consensus size: 41
696995 CTCGTTCGAT
* *
697005 TCCATCACAGAAGGAGGTGGATCGACATTTGTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACATTTGTTCACTCAAA
*
697046 TCCATCACAGAAGGAGTTGGATCAACATCAACTT-TTCACTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACAT----TTGTTCACTCAAA
* * *
697090 TCTATCACAGAAGGATGTAGATCA
1 TCCATCACAGAAGGAGGTGGATCA
697114 GCACTGGCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 26 0.46
44 29 0.51
45 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (41 bp):
TCCATCACAGAAGGAGGTGGATCAACATTTGTTCACTCAAA
Found at i:698684 original size:30 final size:32
Alignment explanation
Indices: 698650--698718 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
698640 ACTTTCTTTT
698650 ATTTTCTCACAATTTAG-TCC-T-TATATTTAA
1 ATTTTCTCA-AATTTAGATCCTTATATATTTAA
* * *
698680 ATTTTATTATATTTAGATCCTTATATATTTAA
1 ATTTTCTCAAATTTAGATCCTTATATATTTAA
698712 ATTTTCT
1 ATTTTCT
698719 TTATTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 6 0.19
30 10 0.31
31 1 0.03
32 15 0.47
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (32 bp):
ATTTTCTCAAATTTAGATCCTTATATATTTAA
Found at i:698691 original size:16 final size:16
Alignment explanation
Indices: 698670--698716 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
698660 AATTTAGTCC
698670 TTATATTTAAATTTTA
1 TTATATTTAAATTTTA
* *
698686 TTATATTTAGATCCTTA
1 TTATATTTAAAT-TTTA
698703 -TATATTTAAATTTT
1 TTATATTTAAATTTT
698717 CTTTATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 2 0.08
16 21 0.81
17 3 0.12
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATATTTAAATTTTA
Done.