Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_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: 1576944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:3781 original size:13 final size:12
Alignment explanation
Indices: 3762--3800 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
3752 AATGACACAT
3762 TTTGCATTTGCA
1 TTTGCATTTGCA
*
3774 TTTGGCATCTGCA
1 TTT-GCATTTGCA
3787 TTTGCATTATGCA
1 TTTGCATT-TGCA
3800 T
1 T
3801 AACATTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (12 bp):
TTTGCATTTGCA
Found at i:3799 original size:7 final size:6
Alignment explanation
Indices: 3762--3800 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
3752 AATGACACAT
*
3762 TTTGCA TTTGCA TTTGGCA TCTGCA TTTGCA TTATGCA T
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TT-TGCA T
3801 AACATTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (6 bp):
TTTGCA
Found at i:5056 original size:13 final size:13
Alignment explanation
Indices: 5013--5061 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
5003 GCAGGGATAA
5013 TAAAGAAAAAAGAG
1 TAAAGAAAAAA-AG
*
5027 CAAA-AAAAAAAG
1 TAAAGAAAAAAAG
* *
5039 GAAAGAAAAAATG
1 TAAAGAAAAAAAG
5052 TAAAGAAAAA
1 TAAAGAAAAA
5062 GGGACGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.17
13 22 0.73
14 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (13 bp):
TAAAGAAAAAAAG
Found at i:5727 original size:32 final size:32
Alignment explanation
Indices: 5691--5775 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
5681 ATAATAAGGC
* *
5691 CAAACCATTAACCAAAAATAACCTAAGACATT
1 CAAACCATTGACCAAAAACAACCTAAGACATT
*
5723 CAAACCATTGACCAAAAACAACCTGAGACATT
1 CAAACCATTGACCAAAAACAACCTAAGACATT
*
5755 CAAACCATTGACCAAACACAA
1 CAAACCATTGACCAAAAACAA
5776 TAACCTGAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.51, C:0.28, G:0.06, T:0.15
Consensus pattern (32 bp):
CAAACCATTGACCAAAAACAACCTAAGACATT
Found at i:6178 original size:32 final size:32
Alignment explanation
Indices: 6137--6350 Score: 347
Period size: 32 Copynumber: 6.6 Consensus size: 32
6127 AAGCAATAGA
*
6137 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
6169 GGGCATCTTTGGAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
*
6201 AGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTG
* * **
6234 GGGCATCTTTGGAGATTCAATATCGAACATTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
*
6266 GGGCATCTTTGGAGATTCAACATTAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTG
6298 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTG
6331 GGGCATCTTTGGAGATTCAA
1 GGGCATCTTTGGAGATTCAA
6351 TATTGAATAT
Statistics
Matches: 167, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
32 109 0.65
33 58 0.35
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATGTTG
Found at i:6250 original size:65 final size:64
Alignment explanation
Indices: 6137--6350 Score: 347
Period size: 65 Copynumber: 3.3 Consensus size: 64
6127 AAGCAATAGA
*
6137 GGGCATCTTTGAAGATTCAACATCAAATGTTGGGGCATCTTTGGAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTGGGGCATCTTTGGAGATTCAACATCAAATGTTG
* * * **
6201 AGGCATCTTTGGAGATTCAACATCAAAATGTTGGGGCATCTTTGGAGATTCAATATCGAACATTG
1 GGGCATCTTTGGAGATTCAACATC-AAATGTTGGGGCATCTTTGGAGATTCAACATCAAATGTTG
*
6266 GGGCATCTTTGGAGATTCAACATTAAATGTTGGGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATGTTGGGGCATCTTTGGAGATTCAACATC-AAATGTTG
6331 GGGCATCTTTGGAGATTCAA
1 GGGCATCTTTGGAGATTCAA
6351 TATTGAATAT
Statistics
Matches: 136, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
64 53 0.39
65 83 0.61
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (64 bp):
GGGCATCTTTGGAGATTCAACATCAAATGTTGGGGCATCTTTGGAGATTCAACATCAAATGTTG
Found at i:6368 original size:97 final size:97
Alignment explanation
Indices: 6137--6361 Score: 378
Period size: 97 Copynumber: 2.3 Consensus size: 97
6127 AAGCAATAGA
* * * *
6137 GGGCATCTTTGAAGATTCAACATCAAATGTTGGGGCATCTTTGGAGATTCAACATCAAATGTTGA
1 GGGCATCTTTGGAGATTCAATATCGAATATTGGGGCATCTTTGGAGATTCAACATCAAATGTTGA
6202 GGCATCTTTGGAGATTCAACATCAAAATGTTG
66 GGCATCTTTGGAGATTCAACATCAAAATGTTG
* * *
6234 GGGCATCTTTGGAGATTCAATATCGAACATTGGGGCATCTTTGGAGATTCAACATTAAATGTTGG
1 GGGCATCTTTGGAGATTCAATATCGAATATTGGGGCATCTTTGGAGATTCAACATCAAATGTTGA
6299 GGCATCTTTGGAGATTCAACATCAAAATGTTG
66 GGCATCTTTGGAGATTCAACATCAAAATGTTG
*
6331 GGGCATCTTTGGAGATTCAATATTGAATATT
1 GGGCATCTTTGGAGATTCAATATCGAATATT
6362 ATGGCATTCA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 119 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (97 bp):
GGGCATCTTTGGAGATTCAATATCGAATATTGGGGCATCTTTGGAGATTCAACATCAAATGTTGA
GGCATCTTTGGAGATTCAACATCAAAATGTTG
Found at i:6511 original size:34 final size:34
Alignment explanation
Indices: 6472--6596 Score: 169
Period size: 34 Copynumber: 3.7 Consensus size: 34
6462 CTTAATTTTT
* *
6472 TTTTGTCTCACTCGAGACAATTTCTCAAAATAAA
1 TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
* *
6506 TTTTGTCTTAGTTGAGACAATTTCTCAAAACAAA
1 TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
* * *
6540 TTTGGTCTCGCTTGAGACCATTTCTCAAAACAAA
1 TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
* *
6574 TTTCGTCTCGCTTGAGACAATTT
1 TTTTGTCTCACTTGAGACAATTT
6597 TTCTCTGCGA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
Found at i:6941 original size:36 final size:36
Alignment explanation
Indices: 6901--7020 Score: 168
Period size: 36 Copynumber: 3.3 Consensus size: 36
6891 CACTCAAGAT
*
6901 AGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC
1 AGTTTCCCTTGAAACAAATTTTGTCTCACTTGAGAC
* * *
6937 AGTTTCTCTCGAAACAAATTTTGTCTCTCTTGAGAC
1 AGTTTCCCTTGAAACAAATTTTGTCTCACTTGAGAC
* *
6973 GGTTTCCCTTTAAACAAATTTTGTCTCACTTGAGAC
1 AGTTTCCCTTGAAACAAATTTTGTCTCACTTGAGAC
* *
7009 AGTCTCGCTTGA
1 AGTTTCCCTTGA
7021 GATAGTTTCG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (36 bp):
AGTTTCCCTTGAAACAAATTTTGTCTCACTTGAGAC
Found at i:7131 original size:43 final size:43
Alignment explanation
Indices: 7070--7248 Score: 277
Period size: 43 Copynumber: 4.2 Consensus size: 43
7060 CCTGATTTTC
* *
7070 AGGGGTTTCTTGAAGAAAAGCTTGAAAAACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
**
7113 AGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
* *
7156 AGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
* **
7199 AGGGGTTTCTTGATGAAAAACTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
7242 AGGGGTT
1 AGGGGTT
7249 CCTTAAAGAC
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.29
Consensus pattern (43 bp):
AGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGT
Found at i:7260 original size:86 final size:86
Alignment explanation
Indices: 7070--7260 Score: 328
Period size: 86 Copynumber: 2.2 Consensus size: 86
7060 CCTGATTTTC
* * *
7070 AGGGGTTTCTTGAAGAAAAGCTTGAAAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGCT
1 AGGGGTTCCTTGAAGACAAGCTTGAAAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAACT
7135 TGAGGGACCATCGTGATATGT
66 TGAGGGACCATCGTGATATGT
* *
7156 AGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAACT
1 AGGGGTTCCTTGAAGACAAGCTTGAAAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAACT
7221 TGAGGGACCATCGTGATATGT
66 TGAGGGACCATCGTGATATGT
*
7242 AGGGGTTCCTTAAAGACAA
1 AGGGGTTCCTTGAAGACAA
7261 ATTTGATGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 98 1.00
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (86 bp):
AGGGGTTCCTTGAAGACAAGCTTGAAAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAACT
TGAGGGACCATCGTGATATGT
Found at i:7476 original size:90 final size:90
Alignment explanation
Indices: 7342--7834 Score: 853
Period size: 90 Copynumber: 5.5 Consensus size: 90
7332 ATTTTCAAGA
* *
7342 GTTTTTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
7407 GATCTAAGAAACTGAGCCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
7432 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
7497 GATCTAAGAAACTAATCCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
*
7522 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
*
7587 GATCTAAGAAACTGAGCCTTCGAGG
66 GATCTAAGAAACTGAGCCTTCGGGG
*
7612 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
7677 GATCTAAGAAACTGAGCCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
*
7702 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCTGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* *
7767 GATTTAAGAAACTAAGCCTTCGGGG
66 GATCTAAGAAACTGAGCCTTCGGGG
* * *
7792 GTTTCTTGATTTTTTAAGTCCTTCAGG-CAACCATAAGACCTTC
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTC
7835 GGGCAAAATG
Statistics
Matches: 387, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
90 371 0.96
91 16 0.04
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (90 bp):
GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATCTAAGAAACTGAGCCTTCGGGG
Found at i:8043 original size:24 final size:23
Alignment explanation
Indices: 8016--8075 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
8006 GATTAAAATA
8016 TATATTATATTTATTATTATATAC
1 TATATTATATTTATTATTAT-TAC
* *
8040 TATAGTATGA-TTATTATTATTAT
1 TATATTAT-ATTTATTATTATTAC
8063 TAATATTAT-TTTA
1 T-ATATTATATTTA
8076 CAATATTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
23 6 0.20
24 23 0.77
25 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (23 bp):
TATATTATATTTATTATTATTAC
Found at i:9653 original size:18 final size:17
Alignment explanation
Indices: 9630--9670 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
9620 ATTTTAGTCC
9630 TATTATTACATGATATAT
1 TATTATTACATGA-ATAT
*
9648 TATTATTATATGAATAT
1 TATTATTACATGAATAT
9665 T-TTATT
1 TATTATT
9671 TTAGTTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 12 0.55
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (17 bp):
TATTATTACATGAATAT
Found at i:10090 original size:24 final size:24
Alignment explanation
Indices: 10063--10124 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
10053 CGTTCGTGAA
*
10063 CGTTCGGTTATGTTCGTTTATATG
1 CGTTCAGTTATGTTCGTTTATATG
* *
10087 CGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGTTATGTTCGTTTATATG
*
10111 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
10125 TAACCTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATATG
Found at i:11667 original size:16 final size:16
Alignment explanation
Indices: 11642--11706 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
11632 CCAACGTTTA
11642 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
11658 TGTTCATTTATGTCCG
1 TGTTCGTTTATGTTCG
*
11674 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
11690 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
11706 T
1 T
11707 TTATTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:11797 original size:16 final size:16
Alignment explanation
Indices: 11776--11807 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11766 AAAAAAATTT
11776 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
11792 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
11808 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:12879 original size:18 final size:19
Alignment explanation
Indices: 12840--12879 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
12830 GCAGACCAGC
**
12840 TTTTGTCTTAAAAAAATGA
1 TTTTGTCTTAAAAAAAAAA
12859 TTTT-TCTTAAAAAAAAAA
1 TTTTGTCTTAAAAAAAAAA
12877 TTT
1 TTT
12880 AAAGACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTTGTCTTAAAAAAAAAA
Found at i:16505 original size:19 final size:19
Alignment explanation
Indices: 16481--16523 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
16471 GAACGCTGGA
16481 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
16500 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
*
16519 GACCG
1 AACCG
16524 ATCACGACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:16506 original size:9 final size:10
Alignment explanation
Indices: 16482--16523 Score: 61
Period size: 9 Copynumber: 4.4 Consensus size: 10
16472 AACGCTGGAA
16482 ACCGGTTTTG
1 ACCGGTTTTG
*
16492 ACCGG-TTTA
1 ACCGGTTTTG
16501 ACCGGTTTTG
1 ACCGGTTTTG
16511 ACCGG-TTTG
1 ACCGGTTTTG
16520 ACCG
1 ACCG
16524 ATCACGACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.14, C:0.24, G:0.29, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:16540 original size:18 final size:16
Alignment explanation
Indices: 16517--16603 Score: 78
Period size: 18 Copynumber: 5.4 Consensus size: 16
16507 TTTGACCGGT
16517 TTGACCGATCACGACCCG
1 TTGACCGA-C-CGACCCG
16535 TTGA-C--CCGACCCG
1 TTGACCGACCGACCCG
16548 TTGACCCGACCCGACCCG
1 TTGA-CCGA-CCGACCCG
16566 TTGA-C--CCGACCCG
1 TTGACCGACCGACCCG
16579 TTGACCCGACCCGACCCG
1 TTGA-CCGA-CCGACCCG
16597 TTGACCG
1 TTGACCG
16604 TTGACCGGTG
Statistics
Matches: 59, Mismatches: 0, Indels: 21
0.74 0.00 0.26
Matches are distributed among these distances:
13 23 0.39
14 1 0.02
15 2 0.03
16 1 0.02
17 4 0.07
18 28 0.47
ACGTcount: A:0.17, C:0.45, G:0.23, T:0.15
Consensus pattern (16 bp):
TTGACCGACCGACCCG
Found at i:16553 original size:31 final size:31
Alignment explanation
Indices: 16528--16602 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
16518 TGACCGATCA
16528 CGACCCGTTGACCCGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACCCGTTGACCCGACC
16559 CGACCCGTTGACCCGACCCGTTGACCCGACC
1 CGACCCGTTGACCCGACCCGTTGACCCGACC
16590 CGACCCGTTGACC
1 CGACCCGTTGACC
16603 GTTGACCGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.16, C:0.48, G:0.23, T:0.13
Consensus pattern (31 bp):
CGACCCGTTGACCCGACCCGTTGACCCGACC
Found at i:16602 original size:13 final size:13
Alignment explanation
Indices: 16528--16591 Score: 83
Period size: 13 Copynumber: 4.5 Consensus size: 13
16518 TGACCGATCA
16528 CGACCCGTTGACC
1 CGACCCGTTGACC
16541 CGACCCGTTGACCCGACC
1 CGACCCGTT-----GACC
16559 CGACCCGTTGACC
1 CGACCCGTTGACC
16572 CGACCCGTTGACC
1 CGACCCGTTGACC
16585 CGACCCG
1 CGACCCG
16592 ACCCGTTGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
13 33 0.72
18 13 0.28
ACGTcount: A:0.16, C:0.48, G:0.23, T:0.12
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:16671 original size:29 final size:29
Alignment explanation
Indices: 16610--16676 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
16600 ACCGTTGACC
* *** *
16610 GGTGCTATTATGGGAATTAATTCGGTTTT
1 GGTGCTATTATGAGAATTAATTCGAAATG
16639 GGTGCTATTATGAGAATTAATTCGAAATG
1 GGTGCTATTATGAGAATTAATTCGAAATG
16668 GGTGCTATT
1 GGTGCTATT
16677 TTGGTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (29 bp):
GGTGCTATTATGAGAATTAATTCGAAATG
Found at i:23753 original size:19 final size:19
Alignment explanation
Indices: 23729--23784 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
23719 GAACGCTGGA
23729 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
23748 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
23769 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
23785 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:23764 original size:11 final size:11
Alignment explanation
Indices: 23729--23777 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
23719 GAACGCTGGA
23729 AACCGGTTTTG
1 AACCGGTTTTG
23740 -ACCGG-TTT-
1 AACCGGTTTTG
23748 AACCGGTTTTG
1 AACCGGTTTTG
23759 AACCGGTTTTG
1 AACCGGTTTTG
23770 -ACCGGTTT
1 AACCGGTTT
23778 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:23780 original size:9 final size:10
Alignment explanation
Indices: 23730--23784 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
23720 AACGCTGGAA
23730 ACCGGTTTTG
1 ACCGGTTTTG
*
23740 ACCGG-TTTA
1 ACCGGTTTTG
23749 ACCGGTTTTG
1 ACCGGTTTTG
23759 AACCGGTTTTG
1 -ACCGGTTTTG
23770 ACCGG-TTTG
1 ACCGGTTTTG
23779 ACCGGT
1 ACCGGT
23785 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:23830 original size:13 final size:13
Alignment explanation
Indices: 23787--23819 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
23777 TGACCGGTCA
23787 CGACCCGTTGACC
1 CGACCCGTTGACC
23800 CGACCCGTTGACC
1 CGACCCGTTGACC
23813 CGACCCG
1 CGACCCG
23820 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:23899 original size:29 final size:29
Alignment explanation
Indices: 23838--23902 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
23828 ACCGTTGACC
* *** *
23838 GGTGCTATTATGGGAATTAATTCGGTTTT
1 GGTGCTATTATGAGAATTAATTCGAAATG
23867 GGTGCTATTATGAGAATTAATTCGAAATG
1 GGTGCTATTATGAGAATTAATTCGAAATG
23896 GGTGCTA
1 GGTGCTA
23903 GTTTGGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (29 bp):
GGTGCTATTATGAGAATTAATTCGAAATG
Found at i:31909 original size:18 final size:18
Alignment explanation
Indices: 31860--31909 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
31850 TTAAAGAGAT
* *
31860 TAATGATAATAATATTGA
1 TAATGATAATAATGTTAA
*
31878 TAATGATAAGAATGTTAA
1 TAATGATAATAATGTTAA
*
31896 TAATGATGATAATG
1 TAATGATAATAATG
31910 ATGATATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (18 bp):
TAATGATAATAATGTTAA
Found at i:31915 original size:9 final size:9
Alignment explanation
Indices: 31860--31911 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
31850 TTAAAGAGAT
31860 TAATGATAA
1 TAATGATAA
*
31869 TAAT-ATTGA
1 TAATGA-TAA
31878 TAATGATAA
1 TAATGATAA
* *
31887 GAATGTTAA
1 TAATGATAA
*
31896 TAATGATGA
1 TAATGATAA
31905 TAATGAT
1 TAATGAT
31912 GATATATGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (9 bp):
TAATGATAA
Found at i:45279 original size:81 final size:81
Alignment explanation
Indices: 45138--45298 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 81
45128 GTTGTTGGTC
* ** * *
45138 TGGAAAAAGTATTTTTAGATTAGAGGAAGGCTAATGGTCTAGAGGTAATGATGAGGTAGGATTGG
1 TGGAAAAAGTATTTTTAGATTAGAGAAACACTAATGGTCAAGAGGTAATGATGAGATAGGATTGG
45203 -TCGGTTGAGAAGATTA
66 CT-GGTTGAGAAGATTA
* * **
45219 TGGAAAAAGTATTTTTGGATTAGAGAAACATTGTTGGTCAAGAGGTAATGATGCA-ATAGGATTG
1 TGGAAAAAGTATTTTTAGATTAGAGAAACACTAATGGTCAAGAGGTAATGATG-AGATAGGATTG
*
45283 GCTGGTTGGGAAGATT
65 GCTGGTTGAGAAGATT
45299 GTTGGTCTGG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 66 0.97
82 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.32, T:0.30
Consensus pattern (81 bp):
TGGAAAAAGTATTTTTAGATTAGAGAAACACTAATGGTCAAGAGGTAATGATGAGATAGGATTGG
CTGGTTGAGAAGATTA
Found at i:51804 original size:71 final size:71
Alignment explanation
Indices: 51617--51858 Score: 253
Period size: 71 Copynumber: 3.4 Consensus size: 71
51607 TTATACAATA
* *
51617 TATATAGT-TTTTTAAAACATTTTTGAAAACATTTATATATTATATAGTTTTTATAAAACA---T
1 TATATAATATTTTTAAAACATTTTTGAAAAC--TTATATAATATATAG-TTTTA-AAAACATTTT
51678 TTTGAAAATAT
62 TTTGAAAA-AT
*
51689 ATATAATATATAGTTTTTTAAACATTTTTGAAAACTTATATAATATATAGTTTTAAAAACATTTT
1 -TAT-ATA-ATA-TTTTTAAAACATTTTTGAAAACTTATATAATATATAGTTTTAAAAACATTTT
*
51754 TTTGAAAACT
62 TTTGAAAAAT
* *
51764 TATATAATATTTTTAAAATCATTTTTGAAAAC-TATATAATATATAGTTTTGAAAACTTTTTTTT
1 TATATAATATTTTTAAAA-CATTTTTGAAAACTTATATAATATATAGTTTTAAAAACATTTTTTT
*
51828 TAAAAAT
65 GAAAAAT
* * * *
51835 AATAT-ATAGTTTAAAAATATTTTT
1 TATATAATATTTTTAAAACATTTTT
51859 TTTGAAATAT
Statistics
Matches: 148, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
69 6 0.04
70 10 0.07
71 47 0.32
72 16 0.11
73 12 0.08
74 11 0.07
75 16 0.11
76 9 0.06
77 21 0.14
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (71 bp):
TATATAATATTTTTAAAACATTTTTGAAAACTTATATAATATATAGTTTTAAAAACATTTTTTTG
AAAAAT
Found at i:51826 original size:37 final size:36
Alignment explanation
Indices: 51449--51825 Score: 385
Period size: 37 Copynumber: 10.1 Consensus size: 36
51439 TTGCAAATGG
51449 TTTTTGAAATACGTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAA-AC-TATATAATATATAGTTTTTAAAACA
*
51487 -TTTTGAAAATATATATAATATATAGTTTTT-AAACAA
1 TTTTTGAAAA-CTATATAATATATAGTTTTTAAAAC-A
* * *
51523 TTTTAGAAAA-TATATATTATATAGTTTTTAAAGTCA
1 TTTTTGAAAACTATATAATATATAGTTTTTAAA-ACA
* *
51559 -TTTTGAAAACTTATACAATATATAGTTTTTTAAAACC
1 TTTTTGAAAAC-TATATAATATATAG-TTTTTAAAACA
*
51596 TTTTTGAAAACTTATACAATATATATAGTTTTTTAAAACA
1 TTTTTGAAAAC-TATA-TA-ATATATAG-TTTTTAAAACA
*
51636 TTTTTGAAAACATTTATATATTATATAGTTTTTATAAAACA
1 TTTTTGAAAAC---TATATAATATATAG-TTTT-TAAAACA
* *
51677 -TTTTGAAAATATATATAATATATAGTTTTTTAAACA
1 TTTTTGAAAA-CTATATAATATATAGTTTTTAAAACA
*
51713 TTTTTGAAAACTTATATAATATATAGTTTTAAAAACA
1 TTTTTGAAAAC-TATATAATATATAGTTTTTAAAACA
51750 TTTTTTTGAAAACT-TAT-ATA-ATA-TTTTTAAAATCA
1 --TTTTTGAAAACTATATAATATATAGTTTTTAAAA-CA
* *
51785 TTTTTGAAAACTATATAATATATAGTTTTGAAAACT
1 TTTTTGAAAACTATATAATATATAGTTTTTAAAACA
51821 TTTTT
1 TTTTT
51826 TTTAAAAATA
Statistics
Matches: 293, Mismatches: 22, Indels: 50
0.80 0.06 0.14
Matches are distributed among these distances:
33 12 0.04
34 11 0.04
35 38 0.13
36 42 0.14
37 77 0.26
38 37 0.13
39 12 0.04
40 51 0.17
41 8 0.03
42 5 0.02
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (36 bp):
TTTTTGAAAACTATATAATATATAGTTTTTAAAACA
Found at i:51842 original size:34 final size:34
Alignment explanation
Indices: 51728--51861 Score: 110
Period size: 34 Copynumber: 3.9 Consensus size: 34
51718 GAAAACTTAT
* *
51728 ATAATATATAGTTTTAAAAACATTTTTTTGAAAA
1 ATAATATATAGTTTTAAAAACTTTTTTTTAAAAA
* * * * * *
51762 CTTATATAATATTTTTAAAATC-ATTTTTGAAAACTA
1 ATAATAT-ATAGTTTTAAAAACTTTTTTTTAAAA--A
* *
51798 TATAATATATAGTTTTGAAAACTTTTTTTTTAAAA
1 -ATAATATATAGTTTTAAAAACTTTTTTTTAAAAA
*
51833 ATAATATATAG-TTTAAAAATATTTTTTTT
1 ATAATATATAGTTTTAAAAA-CTTTTTTTT
51862 GAAATATATG
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
33 7 0.09
34 32 0.42
35 13 0.17
36 12 0.16
37 13 0.17
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (34 bp):
ATAATATATAGTTTTAAAAACTTTTTTTTAAAAA
Found at i:51882 original size:70 final size:71
Alignment explanation
Indices: 51465--51858 Score: 244
Period size: 71 Copynumber: 5.4 Consensus size: 71
51455 AAATACGTAT
* * * *
51465 ATAATAT-ATAGTTTTTAAAA-CA-TTTTGAAAATATATATAATATATAGTTTT-TAAACA-ATT
1 ATAATATAATAG-TTTAAAAATCATTTTTGAAAA-CTATATAATATATAGTTTTAAAAACATTTT
*
51525 TTAG-AAA
64 TTTGAAAA
* * * *
51532 ATATATATTATATAGTTTTTAAAGTCA-TTTTGAAAACTTATACAATATATAGTTTTTTAAAAC-
1 ATA-ATA-TA-ATAG-TTTAAAAATCATTTTTGAAAAC-TATATAATATATAG-TTTTAAAAACA
*
51595 -CTTTTTGAAAA
60 TTTTTTTGAAAA
* *
51606 CTTATACAATATATATAGTTTTTTAAAA-CATTTTTGAAAACATTTATATATTATATAGTTTTTA
1 ---AT--AATATA-ATAG--TTTAAAAATCATTTTTGAAAAC---TATATAATATATAG-TTTTA
51670 TAAAACA---TTTTGAAAA
54 -AAAACATTTTTTTGAAAA
**
51686 TATATATAATATATAGTTTTTTAAA-CATTTTTGAAAACTTATATAATATATAGTTTTAAAAACA
1 -ATA-AT-ATA-ATAG-TTTAAAAATCATTTTTGAAAAC-TATATAATATATAGTTTTAAAAACA
51750 TTTTTTTGAAAA
60 TTTTTTTGAAAA
* * * * * *
51762 CTTATATAATATTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACTTTTTTT
1 ATAATATAATAGTTTAAAAATCATTTTTGAAAACTATATAATATATAGTTTTAAAAACATTTTTT
*
51827 TTAAAA
66 TGAAAA
51833 ATAATAT-ATAGTTTAAAAAT-ATTTTT
1 ATAATATAATAGTTTAAAAATCATTTTT
51859 TTTGAAATAT
Statistics
Matches: 278, Mismatches: 23, Indels: 50
0.79 0.07 0.14
Matches are distributed among these distances:
67 3 0.01
68 3 0.01
69 7 0.03
70 11 0.04
71 58 0.21
72 40 0.14
73 18 0.06
74 14 0.05
75 15 0.05
76 10 0.04
77 34 0.12
78 32 0.12
79 1 0.00
80 27 0.10
81 5 0.02
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (71 bp):
ATAATATAATAGTTTAAAAATCATTTTTGAAAACTATATAATATATAGTTTTAAAAACATTTTTT
TGAAAA
Found at i:57904 original size:14 final size:15
Alignment explanation
Indices: 57878--57906 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57868 ATACTCGATT
57878 CAAAAGCACCTTCAA
1 CAAAAGCACCTTCAA
57893 CAAAAG-ACCTTCAA
1 CAAAAGCACCTTCAA
57907 GTTCGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.31, G:0.07, T:0.14
Consensus pattern (15 bp):
CAAAAGCACCTTCAA
Found at i:58221 original size:80 final size:81
Alignment explanation
Indices: 57895--58221 Score: 381
Period size: 80 Copynumber: 4.0 Consensus size: 81
57885 ACCTTCAACA
* * * *
57895 AAAGACCTTCAAGTTCGATTACACTAAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGGCAA
1 AAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAA
* *
57960 GAAGGGCTATTTTCCAAC
66 GAAGGGCTAATCTCC--C
* *
57978 AAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGCAGCAAAGCTCAAGGCA
1 -AAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCA
* *
58043 AGAAGGGCT-ACCTGCC
65 AGAAGGGCTAATCTCCC
** * * *
58059 AAAGACCTTCGAGTTTGATTACACTCAGTTCAAAGGCACATCATTTGTAACATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAA
* *
58124 GAAGGG-TTATCTGCC
66 GAAGGGCTAATCTCCC
* * * * * *
58139 AAAGAACTTCGAGTTCAATTCCATTTAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAA
* *
58204 GAAGTG-TAATATCCC
66 GAAGGGCTAATCTCCC
58219 AAA
1 AAA
58222 ATTAGGGCTA
Statistics
Matches: 209, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
79 1 0.00
80 138 0.66
81 1 0.00
83 2 0.01
84 67 0.32
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (81 bp):
AAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAA
GAAGGGCTAATCTCCC
Found at i:60016 original size:31 final size:30
Alignment explanation
Indices: 59975--60044 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
59965 AGAGTCGAGG
* *
59975 GTTACTTATGTCTTTCA-AGACATATGGACA
1 GTTACCTATGTCCTT-AGAGACATATGGACA
*
60005 GTTTACCTATGTCCTTAGGGACATATGGACA
1 G-TTACCTATGTCCTTAGAGACATATGGACA
60036 GTTACCTAT
1 GTTACCTAT
60045 ATTCTTCGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (30 bp):
GTTACCTATGTCCTTAGAGACATATGGACA
Found at i:60043 original size:30 final size:31
Alignment explanation
Indices: 59993--60063 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
59983 TGTCTTTCAA
*
59993 GACATATGGACAGTTTACCTATGTCCTTAGG
1 GACATATGGACAGTTTACCTATATCCTTAGG
* *
60024 GACATATGGACAG-TTACCTATATTCTTCGG
1 GACATATGGACAGTTTACCTATATCCTTAGG
*
60054 AACATATGGA
1 GACATATGGA
60064 TAGTGGTCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 23 0.64
31 13 0.36
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (31 bp):
GACATATGGACAGTTTACCTATATCCTTAGG
Found at i:64388 original size:3 final size:3
Alignment explanation
Indices: 64380--64435 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
64370 CTAGACTATA
* *
64380 TAT TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT TAT TA- TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T
64428 TAT TAT TA
1 TAT TAT TA
64436 CAAATAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.80
4 4 0.09
5 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:72709 original size:51 final size:51
Alignment explanation
Indices: 72623--72833 Score: 275
Period size: 51 Copynumber: 4.1 Consensus size: 51
72613 CAGTATAAAA
*
72623 AAAAGAGTCAGAAGTTATCCATGTGGGTATCTTGAAGGCTCACATCAGCATG
1 AAAAGA-TCAGAAGTAATCCATGTGGGTATCTTGAAGGCTCACATCAGCATG
*
72675 AAAAGAT-AGAAGTAATCCATCTGGGGTATCTTGAAGGCTCACATCAGCAT-
1 AAAAGATCAGAAGTAATCCATGT-GGGTATCTTGAAGGCTCACATCAGCATG
* * * *
72725 AAAAAATACATAAGTTATCCATGTGGGTATCTTAAAGGCTCACATCAGCATG
1 AAAAGAT-CAGAAGTAATCCATGTGGGTATCTTGAAGGCTCACATCAGCATG
* * *
72777 AAAAAGAT-AGAAGTAATCCATGTGAGGCATCTTGAAGGCTCACACCAGCATA
1 -AAAAGATCAGAAGTAATCCATGTG-GGTATCTTGAAGGCTCACATCAGCATG
72829 AAAAG
1 AAAAG
72834 GTTAAGATAT
Statistics
Matches: 139, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
50 19 0.14
51 73 0.53
52 41 0.29
53 6 0.04
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (51 bp):
AAAAGATCAGAAGTAATCCATGTGGGTATCTTGAAGGCTCACATCAGCATG
Found at i:72763 original size:102 final size:103
Alignment explanation
Indices: 72634--72832 Score: 346
Period size: 103 Copynumber: 1.9 Consensus size: 103
72624 AAAGAGTCAG
*
72634 AAGTTATCCATGTGGGTATCTTGAAGGCTCACATCAGCATG-AAAAGATAGAAGTAATCCATCTG
1 AAGTTATCCATGTGGGTATCTTAAAGGCTCACATCAGCATGAAAAAGATAGAAGTAATCCATCTG
* * *
72698 GGGTATCTTGAAGGCTCACATCAGCATAAAAAATACAT
66 AGGCATCTTGAAGGCTCACACCAGCATAAAAAATACAT
*
72736 AAGTTATCCATGTGGGTATCTTAAAGGCTCACATCAGCATGAAAAAGATAGAAGTAATCCATGTG
1 AAGTTATCCATGTGGGTATCTTAAAGGCTCACATCAGCATGAAAAAGATAGAAGTAATCCATCTG
72801 AGGCATCTTGAAGGCTCACACCAGCATAAAAA
66 AGGCATCTTGAAGGCTCACACCAGCATAAAAA
72833 GGTTAAGATA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 40 0.44
103 51 0.56
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (103 bp):
AAGTTATCCATGTGGGTATCTTAAAGGCTCACATCAGCATGAAAAAGATAGAAGTAATCCATCTG
AGGCATCTTGAAGGCTCACACCAGCATAAAAAATACAT
Found at i:74452 original size:20 final size:20
Alignment explanation
Indices: 74427--74470 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
74417 TCAAGAAAAT
* *
74427 TAAATCCTCCGGGTGATTTG
1 TAAATCCTCCGGGTCATCTG
74447 TAAATCCTCCGGGTCATCTG
1 TAAATCCTCCGGGTCATCTG
74467 TAAA
1 TAAA
74471 ATCTCAGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
TAAATCCTCCGGGTCATCTG
Found at i:74545 original size:20 final size:20
Alignment explanation
Indices: 74502--74550 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
74492 TCATGAAAAT
* * *
74502 TAAATCCTCCAGGTGATTTG
1 TAAATCCTCCAGGTCATCTA
*
74522 TAAATCCTCTAGGTCATCTA
1 TAAATCCTCCAGGTCATCTA
*
74542 TAAAACCTC
1 TAAATCCTC
74551 AGGGTAGGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (20 bp):
TAAATCCTCCAGGTCATCTA
Found at i:74546 original size:75 final size:75
Alignment explanation
Indices: 74421--74576 Score: 258
Period size: 75 Copynumber: 2.1 Consensus size: 75
74411 TAATATTCAA
* * * *
74421 GAAAATTAAATCCTCCGGGTGATTTGTAAATCCTCCGGGTCATCTGTAAAATCTCAGGGTAGGAT
1 GAAAATTAAATCCTCCAGGTGATTTGTAAATCCTCCAGGTCATCTATAAAACCTCAGGGTAGGAT
*
74486 GTTTTCTCAT
66 GTTTTCGCAT
*
74496 GAAAATTAAATCCTCCAGGTGATTTGTAAATCCTCTAGGTCATCTATAAAACCTCAGGGTAGGAT
1 GAAAATTAAATCCTCCAGGTGATTTGTAAATCCTCCAGGTCATCTATAAAACCTCAGGGTAGGAT
74561 GTTTTCGCAT
66 GTTTTCGCAT
74571 GAAAAT
1 GAAAAT
74577 GAGAAAGCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
GAAAATTAAATCCTCCAGGTGATTTGTAAATCCTCCAGGTCATCTATAAAACCTCAGGGTAGGAT
GTTTTCGCAT
Found at i:74704 original size:20 final size:20
Alignment explanation
Indices: 74621--74694 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
74611 TCTAGAAAAT
74621 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATTTG
74641 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATTTG
74661 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATTTG
*
74681 TAAATCCTCTGGGT
1 TAAATCCTCCGGGT
74695 CATCTATAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
TAAATCCTCCGGGTAATTTG
Found at i:74715 original size:40 final size:40
Alignment explanation
Indices: 74621--74715 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
74611 TCTAGAAAAT
* *
74621 TAAATCCTCCGGGTAATTTGTAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATTTGTAAATCCTCCGGGTAATCTA
* *
74661 TAAATCCTCCGGGTAATTTGTAAATCCTCTGGGTCATCTA
1 TAAATCCTCCGGGTAATTTGTAAATCCTCCGGGTAATCTA
* *
74701 TAAAACCTCAGGGTA
1 TAAATCCTCCGGGTA
74716 TGATGTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (40 bp):
TAAATCCTCCGGGTAATTTGTAAATCCTCCGGGTAATCTA
Found at i:74809 original size:159 final size:159
Alignment explanation
Indices: 74502--74809 Score: 490
Period size: 159 Copynumber: 1.9 Consensus size: 159
74492 TCATGAAAAT
*
74502 TAAATCCTCCAGGTGATTTGTAAATCCTCTAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTC
1 TAAATCCTCCAGGTAATTTGTAAATCCTCTAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTC
** * * *
74567 GCATGAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTGAATGTTCTAGAAAATTAAATCCTCCG
66 GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTGAATGTTCAAGAAAATTAAAACCTCCA
* *
74632 GGTAATTTGTAAATCCTCCGGGTAATTTG
131 GGTAATTTATAAAACCTCCGGGTAATTTG
* * *
74661 TAAATCCTCCGGGTAATTTGTAAATCCTCTGGGTCATCTATAAAACCTCAGGGTATGATGTTTTC
1 TAAATCCTCCAGGTAATTTGTAAATCCTCTAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTC
* *
74726 GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAAACCTCTA
66 GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTGAATGTTCAAGAAAATTAAAACCTCCA
*
74791 GGTGATTTATAAAACCTCC
131 GGTAATTTATAAAACCTCC
74810 AGGTTATCTG
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
159 135 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (159 bp):
TAAATCCTCCAGGTAATTTGTAAATCCTCTAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTC
GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTGAATGTTCAAGAAAATTAAAACCTCCA
GGTAATTTATAAAACCTCCGGGTAATTTG
Found at i:74915 original size:119 final size:119
Alignment explanation
Indices: 74661--74962 Score: 419
Period size: 119 Copynumber: 2.5 Consensus size: 119
74651 GGGTAATTTG
* * * * ** * *
74661 TAAATCCTCCGGGTAATTTGTAAATCCTCTGGGTCATCTATAAAACCTCAGGGTATGATGTTTTC
1 TAAATCCTCCGAGTGATTTATAAAACCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
*
74726 GCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 GCATGAAAATGAGAAAGCGATTACCAAAATTTCTCATTTAATGTTCAAGAAAAT
* * * *
74780 TAAAACCT-CTAGGTGATTTATAAAACCTCCAGGTTATCTGTGAAACCTCAGGGTAGGATGTTTT
1 TAAATCCTCCGA-GTGATTTATAAAACCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
** *
74844 CGCATGAAAATGAGAAAGCGATTTTCAAAATTTCTCATTTAATGTTCTAGAAAAT
65 CGCATGAAAATGAGAAAGCGATTACCAAAATTTCTCATTTAATGTTCAAGAAAAT
*
74899 TAAATCCTCCGAGTGATTTATAAAACCT-CAGGGTCATCTGTAAAACCTCTGGGTAGGATGTTTT
1 TAAATCCTCCGAGTGATTTATAAAACCTCCA-GGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
74963 TACTTTTTCC
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
118 3 0.02
119 154 0.97
120 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (119 bp):
TAAATCCTCCGAGTGATTTATAAAACCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
GCATGAAAATGAGAAAGCGATTACCAAAATTTCTCATTTAATGTTCAAGAAAAT
Found at i:75099 original size:3 final size:3
Alignment explanation
Indices: 75093--75154 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
75083 TGAGACTATA
*
75093 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT AAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
75139 TAT ATATT TAT TAT TA
1 TAT -TA-T TAT TAT TA
75155 CAAATAATAC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 4 0.08
3 44 0.83
4 4 0.08
5 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:75885 original size:17 final size:17
Alignment explanation
Indices: 75863--75900 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
75853 AGAGAAGTGA
75863 GAGATTCTCTCTCTAAG
1 GAGATTCTCTCTCTAAG
75880 GAGATTCTCTCTCTAAG
1 GAGATTCTCTCTCTAAG
75897 GAGA
1 GAGA
75901 GAGAAGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (17 bp):
GAGATTCTCTCTCTAAG
Found at i:77936 original size:31 final size:31
Alignment explanation
Indices: 77901--77972 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 31
77891 CTTTCAAGAT
*
77901 ATATGGATAGTTTACCTATGTCCTTAGGGAC
1 ATATGGATAGTTTACCTATGTCCTTAGGAAC
* * *
77932 ATATGGACAG-TTACCTATGTTCTTCGGAAC
1 ATATGGATAGTTTACCTATGTCCTTAGGAAC
77962 ATATGGATAGT
1 ATATGGATAGT
77973 GGTCATTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 26 0.74
31 9 0.26
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (31 bp):
ATATGGATAGTTTACCTATGTCCTTAGGAAC
Found at i:78155 original size:2 final size:2
Alignment explanation
Indices: 78148--78176 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78138 AATGTATGTA
78148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78177 CGATGTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78932 original size:80 final size:80
Alignment explanation
Indices: 78794--79756 Score: 1298
Period size: 80 Copynumber: 11.9 Consensus size: 80
78784 GGGGGTGTTA
* * *
78794 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTGGATTACACTTAGCTCAAAGACACATCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
*
78859 CAACATAGCTCAAGG
66 CAGCATAGCTCAAGG
*
78874 AAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
*
78939 CAGCATAGCTTAAGG
66 CAGCATAGCTCAAGG
* * * *
78954 CAAGAAGGGCTACCTACCAAAGACCTTCGGGTTCGATTACACTCAGCTCAAAAGCACATCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
* *
79019 CAGTATAACTCAAGG
66 CAGCATAGCTCAAGG
* * * * *
79034 CAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTTGATTTCATTCAGCTCAAAGACACATCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
*
79099 CAACATAGCTCAAGG
66 CAGCATAGCTCAAGG
* * * *
79114 CAAGAAGGACTATCTGCCAAAGACCTTCGAGTTCGTTTACACTCAGCTCAAAGGCTCAGCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
*
79179 TAGCATAGCTCAAGG
66 CAGCATAGCTCAAGG
* * * *
79194 AAATAAGGGCTATCTGCCAGAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
*
79259 CAGCATGGCTCAAGG
66 CAGCATAGCTCAAGG
* * * ** *
79274 CAAGAAGGGTTATATGCCAACAAAAGATCTTCGAAATCGATTACACGCAGCTCAAAGGCACATCA
1 CAAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* *
79339 TTTTCAGCATAACTCAAGG
62 TTTGCAGCATAGCTCAAGG
* * * *
79358 CAATAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTCCATTCAGCTCAAAGGCACATCATTTG
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
79423 CAGCATAGCTCAAGG
66 CAGCATAGCTCAAGG
* * *
79438 CAAGAAAGGCTATATGCCAACAAAAGACCTTCGACTTCGATTACACTCAGCTCAAAGGCACATCA
1 CAAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * *
79503 TTTGGAACATAACTCAAGG
62 TTTGCAGCATAGCTCAAGG
* * * *
79522 CAA-AATGGGTTATATGCCAAAGACCTTCGAGTTCGATTTCATTCAGCTCAAAGGCACATCATTT
1 CAAGAA-GGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
79586 GCAGCATAGCTCAAGG
65 GCAGCATAGCTCAAGG
*
79602 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTA
1 CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
* *
79667 CAACATAACTCAAGG
66 CAGCATAGCTCAAGG
* * * *
79682 CTAGAAGGGTTATCTGTCAACAAAGACCTTCGAATTCGATTACACTCAGCTCAAAGGCATATCAT
1 CAAGAAGGGCTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
79747 TTGCAGCATA
63 TTGCAGCATA
79757 TGGTGGAGTC
Statistics
Matches: 769, Mismatches: 101, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
80 571 0.74
81 7 0.01
83 57 0.07
84 134 0.17
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (80 bp):
CAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
CAGCATAGCTCAAGG
Found at i:80184 original size:38 final size:36
Alignment explanation
Indices: 80149--80562 Score: 433
Period size: 37 Copynumber: 11.5 Consensus size: 36
80139 TTGAAATACG
80149 TATATAATATATAGTTTTTAAAACA-TTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAA-A
* *
80185 TATATAATATATAATTTTTAAAACATTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
* *
80221 TATATAATATATAGTTTTGAAAACATTTTAGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAA-A
* *
80258 TATATATTATATAGTTTTTAAAATCA-TTTTGAAAAGT
1 TATATAATATATAGTTTTTAAAA-CATTTTTGAAAA-A
*
80295 TATACAATATATAGTGTTTTAAAACATTTTTGAAAACA
1 TATATAATATATAGT-TTTTAAAACATTTTTGAAAA-A
*
80333 TTTATATATTATATAGTTTTTAAAAAACA-TTTTGAAAATA
1 --TATATAATATATAGTTTTT--AAAACATTTTTGAAAA-A
* *
80373 TACATAATATATAGTTTTTTAAAACATTTTTGAAAACT
1 TATATAATATATAG-TTTTTAAAACATTTTTGAAAA-A
* * *
80411 TATATAATATATAGTTTTAAAAATATTTTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACA-TTTTTGAAAAA
80448 T-TAT-ATA-ATA--TTTTAAAATCATTTTTGAAAAA
1 TATATAATATATAGTTTTTAAAA-CATTTTTGAAAAA
*
80480 TATATAATATATAGTTTTGAAAAC-TTTTT--AAAA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
* * *
80513 -A-ATAATATATAG-TTTAAAAATATTTTTAAAAAA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
*
80546 TATATATTATATAGTTT
1 TATATAATATATAGTTT
80563 ATATTTTATT
Statistics
Matches: 321, Mismatches: 33, Indels: 48
0.80 0.08 0.12
Matches are distributed among these distances:
30 7 0.02
31 16 0.05
32 19 0.06
33 12 0.04
34 7 0.02
35 21 0.07
36 62 0.19
37 76 0.24
38 63 0.20
39 9 0.03
40 23 0.07
41 6 0.02
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
Found at i:80462 original size:33 final size:32
Alignment explanation
Indices: 80380--80489 Score: 109
Period size: 32 Copynumber: 3.3 Consensus size: 32
80370 ATATACATAA
* *
80380 TATATAGTTTTTTAAAA-CATTTTTGAAAACTT
1 TATATAATATTTTAAAATCATTTTTGAAAAC-T
80412 ATATAATATATAGTTTTAAAAAT-ATTTTTTGAAAACT
1 -TAT-ATA-ATA-TTTT-AAAATCA-TTTTTGAAAACT
*
80449 TATATAATATTTTAAAATCATTTTTGAAAA-A
1 TATATAATATTTTAAAATCATTTTTGAAAACT
80480 TATATAATAT
1 TATATAATAT
80490 ATAGTTTTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
31 10 0.15
32 15 0.22
33 8 0.12
34 6 0.09
35 4 0.06
36 7 0.10
37 6 0.09
38 11 0.16
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (32 bp):
TATATAATATTTTAAAATCATTTTTGAAAACT
Found at i:80462 original size:69 final size:67
Alignment explanation
Indices: 80380--80562 Score: 194
Period size: 69 Copynumber: 2.7 Consensus size: 67
80370 ATATACATAA
* * * *
80380 TATATAGTTTTTTAAAACATTTTTGAAAACTTATATAATATATAGTTTTAAAAATATTTTTTGAA
1 TATATAATATTTTAAAACATTTTTGAAAACATATATAATATATAGTTTTAAAAA-ACTTTTTGAA
80445 AACT
65 AA-T
* *
80449 TATATAATATTTTAAAATCATTTTTGAAAA-ATATATAATATATAGTTTT-GAAAACTTTTTAAA
1 TATATAATATTTTAAAA-CATTTTTGAAAACATATATAATATATAGTTTTAAAAAACTTTTTGAA
*
80512 AAA
65 AAT
* * * *
80515 TA-ATATATAGTTTAAAA-ATATTTTTAAAAAATATATATTATATAGTTT
1 TATATA-ATATTTTAAAACAT-TTTTGAAAACATATATAATATATAGTTT
80563 ATATTTTATT
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
64 2 0.02
65 11 0.11
66 29 0.29
67 10 0.10
68 3 0.03
69 33 0.33
70 12 0.12
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (67 bp):
TATATAATATTTTAAAACATTTTTGAAAACATATATAATATATAGTTTTAAAAAACTTTTTGAAA
AT
Found at i:80567 original size:31 final size:30
Alignment explanation
Indices: 80468--80569 Score: 84
Period size: 31 Copynumber: 3.2 Consensus size: 30
80458 TTTTAAAATC
*
80468 ATTTTTGAAAAATATATAATATATAGTTTTGAAA
1 ATTTTT-AAAAATATAT-ATATATAG-TTT-AAT
80502 ACTTTTTAAAAA-ATA-ATATATAGTTTAAAAAT
1 A-TTTTTAAAAATATATATATATAGTTT---AAT
80534 ATTTTTAAAAAATATATATTATATAGTTT-AT
1 ATTTTT-AAAAATATATA-TATATAGTTTAAT
80565 ATTTT
1 ATTTT
80570 ATTTTTTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
30 3 0.05
31 20 0.34
32 8 0.14
33 6 0.10
34 7 0.12
35 15 0.25
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (30 bp):
ATTTTTAAAAATATATATATATAGTTTAAT
Found at i:80627 original size:36 final size:36
Alignment explanation
Indices: 80543--80615 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
80533 TATTTTTAAA
* ** *
80543 AAATATATATTATATAGTTTATATTTTATTTTTTTT
1 AAATATATATTATATAGTTTATATTATATGATTATT
80579 AAATATATATTATATAGTTTATATTATATGATTATT
1 AAATATATATTATATAGTTTATATTATATGATTATT
80615 A
1 A
80616 GTATATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (36 bp):
AAATATATATTATATAGTTTATATTATATGATTATT
Found at i:81837 original size:6 final size:5
Alignment explanation
Indices: 81813--81903 Score: 52
Period size: 5 Copynumber: 18.8 Consensus size: 5
81803 TTATTCCCTT
*
81813 TTTTA TTTTA TTTTA TTTTA TTTT- TATTTA -TTTA -CTTA -TTTA TTTGT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTT-TA
* * * *
81860 TTGT- TTTTC TTCTTA TCTTA TCTTA TTTTCA TTTT- TTTTA TTTT
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTT
81904 TGTCCCTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
4 19 0.27
5 43 0.61
6 9 0.13
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:82076 original size:25 final size:22
Alignment explanation
Indices: 82017--82114 Score: 76
Period size: 24 Copynumber: 4.1 Consensus size: 22
82007 TTTCCTTCAT
82017 TTTAT-TTA-TTTATTTATTTTC
1 TTTATCTTATTTTATTT-TTTTC
82038 TTTTATCTTCATTTCTATTTTTGTTC
1 -TTTATCTT-ATTT-TATTTTT-TTC
82064 TTTATCTCTATTTTACTTTATTTT-
1 TTTATCT-TATTTTA-TTT-TTTTC
*
82088 TTTATCTTTACTTTATTTTTTTTC
1 TTTATC-TTATTTTA-TTTTTTTC
82112 TTT
1 TTT
82115 CATTATATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
22 5 0.08
23 6 0.09
24 21 0.33
25 21 0.33
26 11 0.17
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.73
Consensus pattern (22 bp):
TTTATCTTATTTTATTTTTTTC
Found at i:82123 original size:19 final size:19
Alignment explanation
Indices: 82075--82114 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
82065 TTATCTCTAT
82075 TTTACTTTATTTTTTTATC
1 TTTACTTTATTTTTTTATC
82094 TTTACTTTATTTTTTT-TC
1 TTTACTTTATTTTTTTATC
82112 TTT
1 TTT
82115 CATTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTACTTTATTTTTTTATC
Found at i:82158 original size:18 final size:19
Alignment explanation
Indices: 82129--82164 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
82119 ATATTAGCTT
82129 CTTTATTTTATTTTCATTA
1 CTTTATTTTATTTTCATTA
82148 CTTTA-TTTATTTTCATT
1 CTTTATTTTATTTTCATT
82165 GCCCTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (19 bp):
CTTTATTTTATTTTCATTA
Found at i:82263 original size:12 final size:13
Alignment explanation
Indices: 82241--82269 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
82231 GAATAGAATG
82241 TTTTAAATTTTAA
1 TTTTAAATTTTAA
82254 TTTT-AATTTTAA
1 TTTTAAATTTTAA
82266 TTTT
1 TTTT
82270 CGCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:84343 original size:31 final size:31
Alignment explanation
Indices: 84308--84386 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
84298 CTAAATGTCA
*
84308 GGGGACTGTATTGCAAACAAACTAAATATTG
1 GGGGACTATATTGCAAACAAACTAAATATTG
*
84339 GGGGACAATATTGCAAACAAACTAAATATTG
1 GGGGACTATATTGCAAACAAACTAAATATTG
* * *
84370 GGAGACTTTATTACAAA
1 GGGGACTATATTGCAAA
84387 TTTTAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (31 bp):
GGGGACTATATTGCAAACAAACTAAATATTG
Found at i:98952 original size:24 final size:24
Alignment explanation
Indices: 98920--98968 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
98910 CCATAAACCT
98920 TAAATTATTAATT-ATTAATTATGA
1 TAAATTATTAATTCA-TAATTATGA
98944 TAAATTATTAATTCATAATTATGA
1 TAAATTATTAATTCATAATTATGA
98968 T
1 T
98969 GAACCCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
TAAATTATTAATTCATAATTATGA
Found at i:100644 original size:36 final size:37
Alignment explanation
Indices: 100561--100652 Score: 141
Period size: 38 Copynumber: 2.5 Consensus size: 37
100551 TATGAATTAG
*
100561 AAACTCGACCCGACCCGACCCGAATATCACACTTAAAA
1 AAAC-CGACCCGACTCGACCCGAATATCACACTTAAAA
*
100599 AAACCCGACCCGACTCTACCCGAATATCACACTT-AAA
1 AAA-CCGACCCGACTCGACCCGAATATCACACTTAAAA
100636 AAACCGACCCGACTCGA
1 AAACCGACCCGACTCGA
100653 AAAAAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 13 0.26
37 6 0.12
38 30 0.60
39 1 0.02
ACGTcount: A:0.38, C:0.38, G:0.11, T:0.13
Consensus pattern (37 bp):
AAACCGACCCGACTCGACCCGAATATCACACTTAAAA
Found at i:101035 original size:217 final size:219
Alignment explanation
Indices: 100616--101229 Score: 812
Period size: 217 Copynumber: 2.8 Consensus size: 219
100606 ACCCGACTCT
*
100616 ACCCGAATATCACACTTAAAAAACCGACCCGACTCGAAAAAAATAAAGTTTCATCCGACCCGACC
1 ACCCGAATATCACACTTAAAAAACCGACCCGACTCGAACAAAATAAAGTTTCATCCGACCCGACC
100681 CGAATATATGAATTAGAAATCCGACCCGAA-CCGACCCGAAATAATAAAAAATTATTTTTATTTA
66 CGAATATATGAATTAGAAATCCGACCCGAACCCGACCCGAAATAATAAAAAATTATTTTTATTTA
* * *
100745 ATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCAGTCCGGTTTTT
131 ATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCAGTCCAGTATTT
100810 TTCACCCT-A-AACCCGA-ATCCG
196 TTCACCCTAACAACCCGACATCCG
100831 ACCCGAATATCACACTTAAAAAACCCGACCCGAC-CGGAACAAAATAAAGTTTCATCCGACCCGA
1 ACCCGAATATCACACTTAAAAAA-CCGACCCGACTC-GAACAAAATAAAGTTTCATCCGACCCGA
*
100895 CCTGAATATATGAATTAGAAATCCGACCC-AACCCGACCCGAAATAATAAAAAAATTATTTTTAT
64 CCCGAATATATGAATTAGAAATCCGACCCGAACCCGACCCGAAATAAT-AAAAAATTATTTTTAT
*
100959 TTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCAGTA
128 TTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCAGTCCAGTA
101024 TTTTTCACCCTAAACCCGAACCCGACCCGATCCG
193 TTTTTCACCCT-AA--C-AACCCGA--C-ATCCG
* * * * ** *
101058 ACCCGAATATCACACTTAAAAAAACCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
1 ACCCGAATATCACACTT-AAAAAACCGACCCGACTCGA-AC-AAAAT-AAAGTT---TCATCCGA
* * * * ** *
101123 CACGACCCGAACAAAATAAAGTT--TCATCCGACCCGACCCCGACCCGAAATAATAAAAAATTAT
59 CCCGACCCGAA-TATATGAA-TTAGAAATCCGACCCGAACCCGACCCGAAATAATAAAAAATTAT
*
101186 TTTTATTTAATAAAAACAGTGACTTAATCCGACACGACCCGAAT
122 TTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAAT
101230 ATCACACTTA
Statistics
Matches: 352, Mismatches: 22, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
215 26 0.07
216 80 0.23
217 88 0.25
219 1 0.00
223 7 0.02
227 34 0.10
228 8 0.02
229 4 0.01
230 4 0.01
233 76 0.22
234 22 0.06
235 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.22
Consensus pattern (219 bp):
ACCCGAATATCACACTTAAAAAACCGACCCGACTCGAACAAAATAAAGTTTCATCCGACCCGACC
CGAATATATGAATTAGAAATCCGACCCGAACCCGACCCGAAATAATAAAAAATTATTTTTATTTA
ATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCAGTCCAGTATTT
TTCACCCTAACAACCCGACATCCG
Found at i:101097 original size:37 final size:38
Alignment explanation
Indices: 101045--101132 Score: 137
Period size: 37 Copynumber: 2.4 Consensus size: 38
101035 AAACCCGAAC
101045 CCGACCCGA-TCCGACCCGAATATCACACTTAAAAAAA
1 CCGACCCGACTCCGACCCGAATATCACACTTAAAAAAA
*
101082 CCGACCCGACT-CGACCCGAATATCACACTTAAAAAAC
1 CCGACCCGACTCCGACCCGAATATCACACTTAAAAAAA
*
101119 CCGACACGAC-CCGA
1 CCGACCCGACTCCGA
101133 ACAAAATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
37 46 0.98
38 1 0.02
ACGTcount: A:0.38, C:0.39, G:0.12, T:0.11
Consensus pattern (38 bp):
CCGACCCGACTCCGACCCGAATATCACACTTAAAAAAA
Found at i:102481 original size:18 final size:18
Alignment explanation
Indices: 102458--102495 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
102448 CGAAATTTGG
102458 AGCGATTGTGTTAACCTC
1 AGCGATTGTGTTAACCTC
102476 AGCGATTGTGTTAACCTC
1 AGCGATTGTGTTAACCTC
102494 AG
1 AG
102496 GGGACGGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (18 bp):
AGCGATTGTGTTAACCTC
Found at i:110614 original size:21 final size:21
Alignment explanation
Indices: 110564--110604 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
110554 TTTATCCAAT
*
110564 AAACTTGACATCCATAACAAA
1 AAACTTGAAATCCATAACAAA
110585 AAACTTGAAATCCATAACAA
1 AAACTTGAAATCCATAACAA
110605 CCAATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAA
Found at i:111193 original size:29 final size:28
Alignment explanation
Indices: 111159--111236 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 28
111149 TGGTTAGTGA
111159 CAAAATGTAGATTTTAAAAGTTTAGGGAC-
1 CAAAATGTA-ATTTTAAAA-TTTAGGGACT
* *
111188 CAAAATATAAACTTTGCAAAATTTAGGGACT
1 CAAAATGT-AA-TTT-TAAAATTTAGGGACT
111219 C-AAATGGTAATTTTAAAA
1 CAAAAT-GTAATTTTAAAA
111237 AGTTATGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
28 4 0.10
29 11 0.28
30 19 0.47
31 6 0.15
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (28 bp):
CAAAATGTAATTTTAAAATTTAGGGACT
Found at i:113258 original size:30 final size:30
Alignment explanation
Indices: 113222--113279 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
113212 TTATATTAGT
*
113222 ACTATAGTGTGTAAAGACACTTAGTGCAGC
1 ACTATAGTGTGTAAAGACACTAAGTGCAGC
*
113252 ACTATAGTGTGTAATGACACTAAGTGCA
1 ACTATAGTGTGTAAAGACACTAAGTGCA
113280 TATGGTGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (30 bp):
ACTATAGTGTGTAAAGACACTAAGTGCAGC
Found at i:113316 original size:26 final size:26
Alignment explanation
Indices: 113280--113359 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
113270 ACTAAGTGCA
113280 TATGGTGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
* *
113306 TATGGTGGGCACAATCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
* * *
113332 GATGGTGGGAATGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
113358 TA
1 TA
113360 GCACTTCGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:116901 original size:16 final size:16
Alignment explanation
Indices: 116880--116913 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
116870 GGTTATAGCT
116880 TATGCTTCCCGACCAC
1 TATGCTTCCCGACCAC
116896 TATGCTTCCCGACCAC
1 TATGCTTCCCGACCAC
116912 TA
1 TA
116914 AAGATGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.21, C:0.41, G:0.12, T:0.26
Consensus pattern (16 bp):
TATGCTTCCCGACCAC
Found at i:120876 original size:26 final size:26
Alignment explanation
Indices: 120818--120894 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
120808 CTAACTGCAT
* * *
120818 ATGGTGGGCACGACATTATGTGCATT
1 ATGGTGGGCACGACCTTATGTGTATG
**
120844 ACAGTGGGCACGACCTTATGTGTATG
1 ATGGTGGGCACGACCTTATGTGTATG
*
120870 ATGGTGGGCATGACCTTATGTGTAT
1 ATGGTGGGCACGACCTTATGTGTAT
120895 TAGCACTTCG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (26 bp):
ATGGTGGGCACGACCTTATGTGTATG
Found at i:129559 original size:41 final size:40
Alignment explanation
Indices: 129492--129861 Score: 336
Period size: 41 Copynumber: 9.0 Consensus size: 40
129482 TGACAATTGA
129492 GGCGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTTTAGC
1 GGCGTTT-GTA-TAAAACGCCACTAAAGTACGAGTCTTTAGC
* *
129534 GGCGTTTGTATAAAACTACCACTAAAGTACGAGT-TTATAAC
1 GGCGTTTGTATAAAAC-GCCACTAAAGTACGAGTCTT-TAGC
* * * *
129575 GGCGTTTGTATAAATATGCCACTAAAGTATGAGTCTATAAC
1 GGCGTTTGTATAAA-ACGCCACTAAAGTACGAGTCTTTAGC
* * * * *
129616 GGCATTTGTGTAAAAACGTCACTAAAGTACGAGTCTATAGT
1 GGCGTTTGTAT-AAAACGCCACTAAAGTACGAGTCTTTAGC
* ** *
129657 GGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTACAGT
1 GGCGTTTGTAT-AAAACGCCACTAAAGTACGAGTCTTTAGC
* * *
129698 GGCGTTTGTATAAAATGTCACGAAAGTACGAGTCTTTAGC
1 GGCGTTTGTATAAAACGCCACTAAAGTACGAGTCTTTAGC
* *
129738 GGCATTTGTATAAAA-GCAACACTAAAGTACTAGT-TTATAGC
1 GGCGTTTGTATAAAACGC--CACTAAAGTACGAGTCTT-TAGC
* * * *
129779 GGCGTTTGTATAAAAACGCCATTACAA-TATGATTCTTTAGT
1 GGCGTTTGTAT-AAAACGCCACTA-AAGTACGAGTCTTTAGC
* * *
129820 GGCGTTTTTATACAAAAGCCACGAAAGT-CTGAGTCTTTAGC
1 GGCGTTTGTATA-AAACGCCACTAAAGTAC-GAGTCTTTAGC
129861 G
1 G
129862 ACATTTGTTC
Statistics
Matches: 273, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.00
40 50 0.18
41 200 0.73
42 20 0.07
43 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (40 bp):
GGCGTTTGTATAAAACGCCACTAAAGTACGAGTCTTTAGC
Found at i:129969 original size:27 final size:23
Alignment explanation
Indices: 129926--130008 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 23
129916 ATTTGAATAA
**
129926 AAATGAACAC-TAAATGAACGTT
1 AAATGAACACATTCATGAACGTT
*
129948 AAATGAACATGCATGTTCATGAACGCT
1 AAATGAACA--CA--TTCATGAACGTT
*
129975 AAATGAACACATTCATGAACGTAA
1 AAATGAACACATTCATGAACGT-T
129999 AAATGAACAC
1 AAATGAACAC
130009 GTTTGCGATC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
22 9 0.18
23 10 0.20
24 11 0.22
25 2 0.04
27 18 0.36
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (23 bp):
AAATGAACACATTCATGAACGTT
Found at i:130047 original size:23 final size:23
Alignment explanation
Indices: 130003--130047 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
129993 ACGTAAAAAT
* *
130003 GAACACGTTTGCGATCATTAAAC
1 GAACACGTTTGCGAACAATAAAC
*
130026 GAACATGTTTGCGAACAATAAA
1 GAACACGTTTGCGAACAATAAA
130048 TAAACGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (23 bp):
GAACACGTTTGCGAACAATAAAC
Found at i:132484 original size:17 final size:17
Alignment explanation
Indices: 132453--132485 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
132443 TAATATTATT
132453 TTATTATTTATTTTAAA
1 TTATTATTTATTTTAAA
132470 TTATT-TTTATATTTAA
1 TTATTATTTAT-TTTAA
132486 TATATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTTTAAA
Found at i:135869 original size:3 final size:3
Alignment explanation
Indices: 135818--135890 Score: 53
Period size: 3 Copynumber: 24.0 Consensus size: 3
135808 CGGGACTTTT
* * *
135818 TTA TT- TTA TTTA TT- TTA TATA TTT TTA TTT TTA CTT- TTA TTA GTA
1 TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA
*
135863 TTA TTA TTA TTA TTA GTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA
135891 CACCATTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
2 6 0.11
3 39 0.71
4 10 0.18
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:137314 original size:61 final size:60
Alignment explanation
Indices: 137195--137426 Score: 210
Period size: 62 Copynumber: 3.9 Consensus size: 60
137185 ATTATTTTTA
* * * ** * *
137195 TTTT-CCA-TTTAGTCCCTTAAGTTTTGATTTTGT--TATTTTAATCCTTTAAATGTCTAT
1 TTTTGCCATTTTAGTCCTTTAAG-TTTCATTTTTTACTATTTTAGCCCTTTAAGTTTCTAT
* *
137252 TTTTGCCATGTTAGTCCTTTAAGTTTCTATTTTTTACTATTTTGGCCCTTTAAGTTTCTA-
1 TTTTGCCATTTTAGTCCTTTAAGTTTC-ATTTTTTACTATTTTAGCCCTTTAAGTTTCTAT
* * *
137312 TTTTGCCATTTTTAATCCTTTAAATTTCAGTTTTTTTATTATTTTAGCCCTTTAAGTTT-T-T
1 TTTTGCCA-TTTTAGTCCTTTAAGTTTCA--TTTTTTACTATTTTAGCCCTTTAAGTTTCTAT
* *
137373 TCTTGTGCCATTTTAGTCTTTTAAGTTTCCA-TTTTTGCTATTTTAGCCCTTTAA
1 T-TT-TGCCATTTTAGTCCTTTAAGTTT-CATTTTTTACTATTTTAGCCCTTTAA
137427 ATTTTTGTAT
Statistics
Matches: 144, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
57 4 0.03
58 6 0.04
59 18 0.12
60 30 0.21
61 36 0.25
62 43 0.30
63 7 0.05
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (60 bp):
TTTTGCCATTTTAGTCCTTTAAGTTTCATTTTTTACTATTTTAGCCCTTTAAGTTTCTAT
Found at i:137334 original size:30 final size:30
Alignment explanation
Indices: 137230--137339 Score: 89
Period size: 30 Copynumber: 3.6 Consensus size: 30
137220 GATTTTGTTA
*
137230 TTTTAATCCTTTAAATGTCTATTTTTGCCA-
1 TTTTAATCCTTTAAATTTCTA-TTTTGCCAT
* * * **
137260 TGTTAGTCCTTTAAGTTTCTATTTT-TTACT
1 TTTTAATCCTTTAAATTTCTATTTTGCCA-T
*** *
137290 ATTTTGGCCCTTTAAGTTTCTATTTTGCCAT
1 -TTTTAATCCTTTAAATTTCTATTTTGCCAT
137321 TTTTAATCCTTTAAATTTC
1 TTTTAATCCTTTAAATTTC
137340 AGTTTTTTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
28 1 0.02
29 4 0.07
30 32 0.52
31 23 0.38
32 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (30 bp):
TTTTAATCCTTTAAATTTCTATTTTGCCAT
Found at i:137388 original size:30 final size:28
Alignment explanation
Indices: 137352--137432 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 28
137342 TTTTTTTATT
137352 ATTTTAGCCCTTTAAGTTTTTTCTTGTGCC
1 ATTTTAGCCCTTTAAGTTTTTT-TT-TGCC
* * * *
137382 ATTTTAGTCTTTTAAGTTTCCATTTTTGCT
1 ATTTTAGCCCTTTAAGTTT--TTTTTTGCC
*
137412 ATTTTAGCCCTTTAAATTTTT
1 ATTTTAGCCCTTTAAGTTTTT
137433 GTATATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
28 1 0.02
30 36 0.88
31 2 0.05
32 2 0.05
ACGTcount: A:0.17, C:0.16, G:0.10, T:0.57
Consensus pattern (28 bp):
ATTTTAGCCCTTTAAGTTTTTTTTTGCC
Found at i:143673 original size:128 final size:124
Alignment explanation
Indices: 143410--143769 Score: 387
Period size: 128 Copynumber: 2.8 Consensus size: 124
143400 CCTTTGAATT
* * * *
143410 GTTTCTCTTGAAACAAA-TTTTATC-TCTCGAGACAGTTTCTT-TTGAAAAAAATCTTTGGGTCT
1 GTTTCCCTTGAAACAAAGTTTTGTCTTCTTGAGACAGTTT-TTCTTG-AAAAAATCTTTGAGTCT
** * * * * *
143472 GTTAAGCTTGAAA-TAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAAATTTTGATTCA
64 GTT-TCCTTGAAACAAAGTTTTGTCTCTCTTGAGACATTTTCTCTTAAAAAATTTTGATCCA
*
143533 GTTTCCCTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTTTCTTG-AGAAATCTTTGAGTCTG
1 GTTTCCCTTGAAACAAAGTTTTGTCT-TCTTGAGACAGTTTTTCTTGAAAAAATCTTTGAGTCTG
143597 TTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATCTTTGAGTCCA
65 TTTCC-TTGAAACAAAGTTTTGTCTCTCTTGAGACATTTTCTCTT-AAA-AAAT-TTTGA-TCCA
* *
143662 -TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAACATCTTTGAAA
1 GTTTCCCTTGAAACAAAGTTTTGTCT-TCTTGAGACAGTTTTTCTTG-AA-AAA-ATCTTTG-AG
143726 T-TGTTTCCCTTGAAACGAAA--TTTGTCTCTCTTGAGACATTTTCT
61 TCTGTTT-CCTTGAAAC-AAAGTTTTGTCTCTCTTGAGACATTTTCT
143770 TTGGAAAAAT
Statistics
Matches: 204, Mismatches: 16, Indels: 26
0.83 0.07 0.11
Matches are distributed among these distances:
123 17 0.08
124 29 0.14
125 31 0.15
126 18 0.09
127 4 0.02
128 49 0.24
129 3 0.01
130 1 0.00
131 26 0.13
132 19 0.09
133 7 0.03
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (124 bp):
GTTTCCCTTGAAACAAAGTTTTGTCTTCTTGAGACAGTTTTTCTTGAAAAAATCTTTGAGTCTGT
TTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACATTTTCTCTTAAAAAATTTTGATCCA
Found at i:143678 original size:65 final size:63
Alignment explanation
Indices: 143401--143806 Score: 391
Period size: 65 Copynumber: 6.4 Consensus size: 63
143391 TATCAATATC
* * * *
143401 CTTTGAAT-TGTTTCTCTTGAAACAAA-TTTTATCTCTC--GAGACAGTTTCTTTTGAAAAAAAT
1 CTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT--AAAAAAT
* *** * * *
143462 CTTTGGGTCTGTTAAGCTTGAAA-TAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAAAT
1 CTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAAAAT
* * * * * *
143524 -TTTGATTCAGTTTCCCTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTTTCTTGAGAAAT
1 CTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAAAAT
* *
143586 CTTTGAGTCTGTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAAT
1 CTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT-AAA-AAAT
**
143651 CTTTGAGTCCATTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAC
1 CTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT--AA-AAA-
143716 AT
62 AT
* *
143718 CTTTGAAAT-TGTTTCCCTTGAAACGAAA--TTTGTCTCTCTTGAGACATTTTCT-TTGGAAAAA
1 CTTTG-AGTCTGTTTCCCTTGAAAC-AAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT--AAAAA
143779 TCAT
62 --AT
* *
143783 CTTTGAGTCGGTTTCTCTTGAAAC
1 CTTTGAGTCTGTTTCCCTTGAAAC
143807 CAAAATCCCT
Statistics
Matches: 289, Mismatches: 41, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
61 24 0.08
62 61 0.21
63 49 0.17
64 19 0.07
65 82 0.28
66 28 0.10
67 21 0.07
68 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (63 bp):
CTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAAAAT
Found at i:144374 original size:3 final size:3
Alignment explanation
Indices: 144351--144401 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
144341 TGGGTCTTTT
* * *
144351 TTA TT- TTA TATA TTT TTA TTA TTA TTA GTA TTA TTA GTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
144396 TTA TTA
1 TTA TTA
144402 GTAGTAGTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:145955 original size:61 final size:60
Alignment explanation
Indices: 145816--145979 Score: 151
Period size: 61 Copynumber: 2.7 Consensus size: 60
145806 ATTTAGACCC
* * *
145816 TTAAGTTTCTACTTTTTTTTACTATTTTGGCCCTTTAAGTATATGTTTTGCCATTTTAATCCTT
1 TTAAGTTTCTAC-TTTTTTTA-T-TTTTAGCCCTTTAAGT-TTTTTTTTGCCATTTTAATCCTT
* * *
145880 TGAA-TTT-TAGTTTTTTTATTGTTTTAGCCCTTTAAGTTTTTTCTTTGCCATTTTAGT-CTT
1 TTAAGTTTCTACTTTTTTTA-T-TTTTAGCCCTTTAAGTTTTTT-TTTGCCATTTTAATCCTT
*
145940 TTAAGTTTCTA-TTTTTGCTA-TTTTAGCCCTTTAA-TTTTTT
1 TTAAGTTTCTACTTTTT-TTATTTTTAGCCCTTTAAGTTTTTT
145980 GTATATTTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
58 6 0.07
59 14 0.16
60 9 0.10
61 45 0.52
62 6 0.07
63 3 0.03
64 3 0.03
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (60 bp):
TTAAGTTTCTACTTTTTTTATTTTTAGCCCTTTAAGTTTTTTTTTGCCATTTTAATCCTT
Found at i:145963 original size:30 final size:30
Alignment explanation
Indices: 145718--145973 Score: 143
Period size: 29 Copynumber: 8.5 Consensus size: 30
145708 TTTATTTTCC
*
145718 ATTTT-GTCCATTAAGTTTCTA-TTTTGCT
1 ATTTTAGTCCTTTAAGTTTCTATTTTTGCT
* * * *
145746 ATTTTAATCCTTTAAATGTCTGTTTTTGCCAT
1 ATTTTAGTCCTTTAAGTTTCTATTTTTG-C-T
*
145778 ATTTT--TCCTTTAAGTTTCTGTTTTTGCT
1 ATTTTAGTCCTTTAAGTTTCTATTTTTGCT
* * *
145806 A-TTTAGACCCTTAAGTTTCTACTTTTTTTTACT
1 ATTTTAGTCCTTTAAGTTTCTA----TTTTTGCT
* * * *
145839 ATTTTGGCCCTTTAAG--TATATGTTTTGCC
1 ATTTTAGTCCTTTAAGTTTCTAT-TTTTGCT
* * * * **
145868 ATTTTAATCCTTTGAATTTTAGTTTTTTTATT
1 ATTTTAGTCCTTT-AAGTTT-CTATTTTTGCT
* * *
145900 GTTTTAGCCCTTTAAGTTT-T-TTCTTTGCC
1 ATTTTAGTCCTTTAAGTTTCTATT-TTTGCT
*
145929 ATTTTAGTCTTTTAAGTTTCTATTTTTGCT
1 ATTTTAGTCCTTTAAGTTTCTATTTTTGCT
*
145959 ATTTTAGCCCTTTAA
1 ATTTTAGTCCTTTAA
145974 TTTTTTGTAT
Statistics
Matches: 170, Mismatches: 39, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
27 3 0.02
28 10 0.06
29 59 0.35
30 45 0.26
31 8 0.05
32 24 0.14
33 10 0.06
34 11 0.06
ACGTcount: A:0.18, C:0.15, G:0.10, T:0.57
Consensus pattern (30 bp):
ATTTTAGTCCTTTAAGTTTCTATTTTTGCT
Found at i:153329 original size:198 final size:200
Alignment explanation
Indices: 152989--153387 Score: 784
Period size: 198 Copynumber: 2.0 Consensus size: 200
152979 TAAGTGTCGC
152989 ACAAATCGACTAGCAGAAGTCTAGCACCCGTGATATATGGCTCTAAAAAAGTGATTTCACTTGAT
1 ACAAATCGACTAGCAGAAGTCTAGCACCCGTGATATATGGCTCTAAAAAAGTGATTTCACTTGAT
153054 GTAGGAAATGGGGTGTAAATGAACAAAGCATTCGGTGAACTATTCATGAATCGTTCGTATAACTT
66 GTAGGAAATGGGGTGTAAATGAACAAAGCATTCGGTGAACTATTCATGAATCGTTCGTATAACTT
153119 TTGTTTGTGTTCGTTCGTTAAGCTAAATAAATGAATATGAATAAATTTTTTTATCTTCATTTAAT
131 TTGTTTGTGTTCGTTCGTTAAGCTAAATAAATGAATATGAATAAATTTTTTTATCTTCATTTAAT
153184 AAACG
196 AAACG
153189 ACAAATCGACTAGCAGAAGTCTAGCACCCGTGATATATGGCTCTAAAAAAGTGA-TTCACTTGAT
1 ACAAATCGACTAGCAGAAGTCTAGCACCCGTGATATATGGCTCTAAAAAAGTGATTTCACTTGAT
153253 GTAGGAAAT-GGGTGTAAATGAACAAAGCATTCGGTGAACTATTCATGAATCGTTCGTATAACTT
66 GTAGGAAATGGGGTGTAAATGAACAAAGCATTCGGTGAACTATTCATGAATCGTTCGTATAACTT
153317 TTGTTTGTGTTCGTTCGTTAAGCTAAATAAATGAATATGAATAAATTTTTTTATCTTCATTTAAT
131 TTGTTTGTGTTCGTTCGTTAAGCTAAATAAATGAATATGAATAAATTTTTTTATCTTCATTTAAT
153382 AAACG
196 AAACG
153387 A
1 A
153388 ACGAACACGA
Statistics
Matches: 199, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
198 126 0.63
199 19 0.10
200 54 0.27
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (200 bp):
ACAAATCGACTAGCAGAAGTCTAGCACCCGTGATATATGGCTCTAAAAAAGTGATTTCACTTGAT
GTAGGAAATGGGGTGTAAATGAACAAAGCATTCGGTGAACTATTCATGAATCGTTCGTATAACTT
TTGTTTGTGTTCGTTCGTTAAGCTAAATAAATGAATATGAATAAATTTTTTTATCTTCATTTAAT
AAACG
Found at i:154600 original size:19 final size:21
Alignment explanation
Indices: 154566--154607 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
154556 GGATATGTGA
154566 TTTAGGGTTTGTGGTATAATT
1 TTTAGGGTTTGTGGTATAATT
*
154587 TTTA-GGTTTG-GGTATGATT
1 TTTAGGGTTTGTGGTATAATT
154606 TT
1 TT
154608 AAATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 6 0.30
21 4 0.20
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.55
Consensus pattern (21 bp):
TTTAGGGTTTGTGGTATAATT
Found at i:155192 original size:33 final size:33
Alignment explanation
Indices: 155150--155215 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
155140 TATTGTTTAT
155150 TAATATTATCATGTTTTAGTCTTCCTAGAGCTA
1 TAATATTATCATGTTTTAGTCTTCCTAGAGCTA
155183 TAATATTATCATGTTTTAGTCTTCCTAGAGCTA
1 TAATATTATCATGTTTTAGTCTTCCTAGAGCTA
155216 GATCGAGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (33 bp):
TAATATTATCATGTTTTAGTCTTCCTAGAGCTA
Found at i:155667 original size:2 final size:2
Alignment explanation
Indices: 155660--155733 Score: 132
Period size: 2 Copynumber: 37.5 Consensus size: 2
155650 TCGCGGATCG
155660 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
155702 TA TA TA TA TA TA TA TA TA TA T- TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
155734 TAGTGGATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:155983 original size:3 final size:3
Alignment explanation
Indices: 155975--156005 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
155965 GTTCGGGTTC
155975 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
156006 ACAACTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:157510 original size:18 final size:17
Alignment explanation
Indices: 157487--157520 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
157477 TGTATGCATT
157487 TTGGTCACTAACTTTGAC
1 TTGGTC-CTAACTTTGAC
*
157505 TTGGTCTTAACTTTGA
1 TTGGTCCTAACTTTGA
157521 TTTTATTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (17 bp):
TTGGTCCTAACTTTGAC
Found at i:159788 original size:11 final size:11
Alignment explanation
Indices: 159728--159790 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
159718 AAAATTACAT
*
159728 TATTAAAAAAA
1 TATTAAAAATA
159739 TATTAAAAATA
1 TATTAAAAATA
* ***
159750 CATTATTGATA
1 TATTAAAAATA
159761 -ATTATAAAAT-
1 TATTA-AAAATA
159771 T-TTAAAAATA
1 TATTAAAAATA
159781 TATTAAAAAT
1 TATTAAAAAT
159791 TCTATAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 27 0.68
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:160036 original size:7 final size:7
Alignment explanation
Indices: 160020--160105 Score: 54
Period size: 7 Copynumber: 12.3 Consensus size: 7
160010 AATGAATCCT
160020 AAACCTTA
1 AAACC-TA
160028 AAACCT-
1 AAACCTA
160034 AAACCATA
1 AAACC-TA
*
160042 AATCCT-
1 AAACCTA
160048 AAACCTA
1 AAACCTA
*
160055 AACCCTA
1 AAACCTA
*
160062 AACCCTA
1 AAACCTA
*
160069 AACCCTA
1 AAACCTA
*
160076 AAACAT-
1 AAACCTA
160082 AAA-CTA
1 AAACCTA
160088 TAAACCATA
1 -AAACC-TA
*
160097 AACCCTA
1 AAACCTA
160104 AA
1 AA
160106 TCTATAATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
5 1 0.02
6 13 0.20
7 34 0.53
8 14 0.22
9 2 0.03
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCTA
Found at i:160036 original size:14 final size:13
Alignment explanation
Indices: 160017--160105 Score: 88
Period size: 14 Copynumber: 6.5 Consensus size: 13
160007 TGTAATGAAT
*
160017 CCTAAACCTTAAAA
1 CCTAAACC-TAAAC
*
160031 CCTAAACCATAAAT
1 CCTAAACC-TAAAC
160045 CCTAAACCTAAAC
1 CCTAAACCTAAAC
160058 CCTAAACCCTAAAC
1 CCTAAA-CCTAAAC
*
160072 CCTAAAACATAAAC
1 CCT-AAACCTAAAC
**
160086 TATAAACCATAAAC
1 CCTAAACC-TAAAC
160100 CCTAAA
1 CCTAAA
160106 TCTATAATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
13 14 0.22
14 46 0.73
15 3 0.05
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (13 bp):
CCTAAACCTAAAC
Found at i:160046 original size:28 final size:27
Alignment explanation
Indices: 160017--160105 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
160007 TGTAATGAAT
*
160017 CCTAAACCTTAAAACCTAAACCATAAAT
1 CCTAAACC-TAAAACCTAAACCATAAAC
* *
160045 CCTAAACCTAAACCCTAAACCCTAAAC
1 CCTAAACCTAAAACCTAAACCATAAAC
* *
160072 CCTAAAAC-ATAAACTATAAACCATAAAC
1 CCTAAACCTA-AAAC-CTAAACCATAAAC
160100 CCTAAA
1 CCTAAA
160106 TCTATAATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 26 0.50
28 25 0.48
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (27 bp):
CCTAAACCTAAAACCTAAACCATAAAC
Found at i:160053 original size:20 final size:20
Alignment explanation
Indices: 160028--160107 Score: 81
Period size: 20 Copynumber: 3.9 Consensus size: 20
160018 CTAAACCTTA
160028 AAACCTAAACCATAAATCCT
1 AAACCTAAACCATAAATCCT
* *
160048 AAACCTAAACCCTAAACCCT
1 AAACCTAAACCATAAATCCT
* *
160068 AAACCCTAAAACATAAA-CTAT
1 AAA-CCTAAACCATAAATC-CT
*
160089 AAACCATAAACCCTAAATC
1 AAACC-TAAACCATAAATC
160108 TATAATGTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 24 0.49
21 24 0.49
22 1 0.02
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (20 bp):
AAACCTAAACCATAAATCCT
Found at i:162454 original size:22 final size:22
Alignment explanation
Indices: 162419--162481 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
162409 AGGTGCATGT
* *
162419 ATGGGACAACAATAATGGTGCTA
1 ATGGG-CACCAATAATGGTGCCA
162442 ATGGGCACCAATAATGGTGCCA
1 ATGGGCACCAATAATGGTGCCA
* *
162464 TTGTGCACCAATAATGGT
1 ATGGGCACCAATAATGGT
162482 CGTGAATTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 31 0.86
23 5 0.14
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (22 bp):
ATGGGCACCAATAATGGTGCCA
Found at i:165353 original size:8 final size:8
Alignment explanation
Indices: 165340--165405 Score: 51
Period size: 8 Copynumber: 9.4 Consensus size: 8
165330 AAAGAAATTT
165340 ATATTAAA
1 ATATTAAA
165348 ATATT--A
1 ATATTAAA
165354 A-A-TAAA
1 ATATTAAA
165360 A-ATT-AA
1 ATATTAAA
*
165366 ATATT-TA
1 ATATTAAA
165373 AT-TT-AA
1 ATATTAAA
*
165379 AGATTAAA
1 ATATTAAA
165387 ATATTAAA
1 ATATTAAA
165395 ATATTAAA
1 ATATTAAA
165403 ATA
1 ATA
165406 AAAAATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 1 0.02
5 1 0.02
6 12 0.25
7 9 0.19
8 25 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
ATATTAAA
Found at i:165433 original size:11 final size:11
Alignment explanation
Indices: 165414--165454 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
165404 TAAAAAATAA
*
165414 TATTTAATTTT
1 TATTAAATTTT
165425 TATTAAATTTT
1 TATTAAATTTT
*
165436 TATTAAATTAT
1 TATTAAATTTT
165447 TATTAAAT
1 TATTAAAT
165455 CATTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTAAATTTT
Found at i:165460 original size:22 final size:22
Alignment explanation
Indices: 165414--165579 Score: 72
Period size: 22 Copynumber: 7.1 Consensus size: 22
165404 TAAAAAATAA
* * **
165414 TATTTAATTTTTATTAAATTTT
1 TATTAAATTATTATTAAATCAT
165436 TATTAAATTATTATTAAATCAT
1 TATTAAATTATTATTAAATCAT
* *
165458 TATTAGTAATTATTA-TAATTTTAT
1 TATTA--AATTATTATTAA-ATCAT
* * *
165482 TATTAGTAATCATCATTAAATTATTAT
1 TATTA--AATTATTATT-AA--ATCAT
*
165509 TATTAAATCATTAGTATTAAATCAT
1 TATT-AA--ATTATTATTAAATCAT
165534 TA--AATATTTATTATTAAATCAT
1 TATTAA-A-TTATTATTAAATCAT
165556 TA--AATATTTATTATTAAATCAT
1 TATTAA-A-TTATTATTAAATCAT
165578 TA
1 TA
165580 GTATTAAATC
Statistics
Matches: 119, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.01
22 63 0.53
23 3 0.03
24 24 0.20
25 7 0.06
26 3 0.03
27 11 0.09
28 7 0.06
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTAAATTATTATTAAATCAT
Found at i:165461 original size:14 final size:14
Alignment explanation
Indices: 165442--165645 Score: 110
Period size: 14 Copynumber: 15.2 Consensus size: 14
165432 TTTTTATTAA
165442 ATTATTATTAAATC
1 ATTATTATTAAATC
* *
165456 ATTATTAGT-AATT
1 ATTATTATTAAATC
* *
165469 ATTATAATT---TT
1 ATTATTATTAAATC
*
165480 ATTATTAGT-AATC
1 ATTATTATTAAATC
* *
165493 ATCA-T--TAAATT
1 ATTATTATTAAATC
165504 ATTATTATTAAATC
1 ATTATTATTAAATC
*
165518 ATTAGTATTAAATC
1 ATTATTATTAAATC
* * *
165532 ATTAAATATT-TATT
1 ATT-ATTATTAAATC
*
165546 ATTAAATCATTAAAT-
1 ATT--ATTATTAAATC
165561 ATTTATTATTAAATC
1 A-TTATTATTAAATC
*
165576 ATTAGTATTAAATC
1 ATTATTATTAAATC
* *
165590 ATTATTAGT-AATT
1 ATTATTATTAAATC
*
165603 ATTA-T-TTAAGTC
1 ATTATTATTAAATC
* **
165615 AATAACATTAAATC
1 ATTATTATTAAATC
165629 ATTATTATTAAATC
1 ATTATTATTAAATC
165643 ATT
1 ATT
165646 TAAAAACGTT
Statistics
Matches: 144, Mismatches: 32, Indels: 28
0.71 0.16 0.14
Matches are distributed among these distances:
10 1 0.01
11 16 0.11
12 8 0.06
13 21 0.15
14 82 0.57
15 12 0.08
16 4 0.03
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (14 bp):
ATTATTATTAAATC
Found at i:165471 original size:21 final size:21
Alignment explanation
Indices: 165424--165510 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 21
165414 TATTTAATTT
* * *
165424 TTATTAAATTTTTATTAAATTA
1 TTATTAAATTATTATT-AGTAA
*
165446 TTATTAAATCATTATTAGTAA
1 TTATTAAATTATTATTAGTAA
165467 TTATTATAATTTTATTATTAGTAA
1 TTATTA-AA--TTATTATTAGTAA
165491 TCATCATTAAATTATTATTA
1 T--T-ATTAAATTATTATTA
165511 TTAAATCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
21 9 0.17
22 16 0.30
24 22 0.41
26 3 0.06
27 4 0.07
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATTAAATTATTATTAGTAA
Found at i:165545 original size:36 final size:35
Alignment explanation
Indices: 165493--165593 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 35
165483 ATTAGTAATC
*
165493 ATCATTAAAT-TATTATTATTAAATCATTAGTATTAA
1 ATCATTAAATAT-TTATTATTAAATCATTAATATT-A
*
165529 ATCATTAAATATTTATTATTAAATCATTAAATATTT
1 ATCATTAAATATTTATTATTAAATCATT-AATATTA
* *
165565 ATTATTAAATCA-TTAGTATTAAATCATTA
1 ATCATTAAAT-ATTTATTATTAAATCATTA
165594 TTAGTAATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
35 1 0.02
36 50 0.86
37 7 0.12
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.48
Consensus pattern (35 bp):
ATCATTAAATATTTATTATTAAATCATTAATATTA
Found at i:165593 original size:22 final size:22
Alignment explanation
Indices: 165510--165579 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
165500 AATTATTATT
*
165510 ATTAAATCA-TTAGTATTAAATC
1 ATTAAAT-ATTTATTATTAAATC
165532 ATTAAATATTTATTATTAAATC
1 ATTAAATATTTATTATTAAATC
165554 ATTAAATATTTATTATTAAATC
1 ATTAAATATTTATTATTAAATC
165576 ATTA
1 ATTA
165580 GTATTAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 45 0.98
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (22 bp):
ATTAAATATTTATTATTAAATC
Found at i:166712 original size:26 final size:24
Alignment explanation
Indices: 166659--166706 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
166649 ACCCTAAAAA
166659 AATATTTATCTAATAACAATATTT
1 AATATTTATCTAATAACAATATTT
*
166683 AATATATT-TCTAATAATAATATTT
1 AATAT-TTATCTAATAACAATATTT
166707 TTAATAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATTTATCTAATAACAATATTT
Found at i:166875 original size:7 final size:7
Alignment explanation
Indices: 166863--167011 Score: 83
Period size: 7 Copynumber: 21.7 Consensus size: 7
166853 GTAATGAACT
166863 CTAAACC
1 CTAAACC
166870 CTAAACC
1 CTAAACC
*
166877 AT-AA-C
1 CTAAACC
166882 CTAAACC
1 CTAAACC
166889 CTAAA-C
1 CTAAACC
*
166895 ATAAACC
1 CTAAACC
166902 CTAAACC
1 CTAAACC
166909 CTAAACC
1 CTAAACC
* *
166916 TTAAA-T
1 CTAAACC
* *
166922 ATGATACC
1 CT-AAACC
166930 CTAAACC
1 CTAAACC
* *
166937 TTAAAAC
1 CTAAACC
*
166944 ATAAACC
1 CTAAACC
* *
166951 TTAAACA
1 CTAAACC
* *
166958 ATAAACA
1 CTAAACC
*
166965 ATAAA-C
1 CTAAACC
166971 CTAAAACC
1 CT-AAACC
166979 CTAAACC
1 CTAAACC
* *
166986 ATAAATC
1 CTAAACC
*
166993 CTAAACT
1 CTAAACC
*
167000 CTAAATC
1 CTAAACC
167007 CTAAA
1 CTAAA
167012 TCCGATTATA
Statistics
Matches: 108, Mismatches: 27, Indels: 14
0.72 0.18 0.09
Matches are distributed among these distances:
5 2 0.02
6 11 0.10
7 91 0.84
8 4 0.04
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:166955 original size:21 final size:20
Alignment explanation
Indices: 166864--166998 Score: 96
Period size: 21 Copynumber: 6.6 Consensus size: 20
166854 TAATGAACTC
* *
166864 TAAACCCTAAACCAT-AACC
1 TAAACCCTAAACCTTAAACA
* *
166883 TAAACCCTAAA-CATAAACCC
1 TAAACCCTAAACCTTAAA-CA
*
166903 TAAACCCTAAACCTTAAATA
1 TAAACCCTAAACCTTAAACA
*
166923 TGATACCCTAAACCTTAAAACA
1 T-AAACCCTAAACCTT-AAACA
* **
166945 TAAACCTTAAACAATAAACAA
1 TAAACCCTAAACCTTAAAC-A
*
166966 TAAA-CCTAAAACCCTAAACCA
1 TAAACCCT-AAACCTTAAA-CA
*
166987 TAAATCCTAAAC
1 TAAACCCTAAAC
166999 TCTAAATCCT
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.03
19 13 0.14
20 20 0.21
21 50 0.53
22 9 0.09
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (20 bp):
TAAACCCTAAACCTTAAACA
Found at i:172568 original size:2 final size:2
Alignment explanation
Indices: 172561--172592 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
172551 GTCACTTTAA
172561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
172593 GTGTTAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172875 original size:22 final size:23
Alignment explanation
Indices: 172849--172891 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
172839 CTTTCTCACA
* *
172849 TTATGTATA-TATTTTCTATAAC
1 TTATGCATACTATTTTATATAAC
172871 TTATGCATACTATTTTATATA
1 TTATGCATACTATTTTATATA
172892 GAAAATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (23 bp):
TTATGCATACTATTTTATATAAC
Found at i:174145 original size:20 final size:21
Alignment explanation
Indices: 174117--174167 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
174107 TCGATGCTTT
*
174117 TCAATAGTTTCAAAACTT-CC
1 TCAAAAGTTTCAAAACTTACC
174137 TCAAAAGTTTCAAAACTTACC
1 TCAAAAGTTTCAAAACTTACC
*
174158 T-TAAAGTTTC
1 TCAAAAGTTTC
174168 GGAACTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (21 bp):
TCAAAAGTTTCAAAACTTACC
Found at i:177641 original size:26 final size:26
Alignment explanation
Indices: 177608--177670 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
177598 ATGGATCTAT
177608 GAAATGACCAAAATACCCCTAGTATG
1 GAAATGACCAAAATACCCCTAGTATG
*
177634 GAAATGACCAAAATACCTCTAGTATG
1 GAAATGACCAAAATACCCCTAGTATG
*
177660 CAAATGACCAA
1 GAAATGACCAA
177671 GAATTTCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.19
Consensus pattern (26 bp):
GAAATGACCAAAATACCCCTAGTATG
Found at i:182901 original size:26 final size:26
Alignment explanation
Indices: 182872--182934 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
182862 ATGGATCTGT
182872 GAAATGACCAAAATACCCCTAGTATG
1 GAAATGACCAAAATACCCCTAGTATG
*
182898 GAAATGACCAAAATACCTCTAGTATG
1 GAAATGACCAAAATACCCCTAGTATG
*
182924 CAAATGACCAA
1 GAAATGACCAA
182935 GAATTTCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.19
Consensus pattern (26 bp):
GAAATGACCAAAATACCCCTAGTATG
Found at i:187164 original size:172 final size:173
Alignment explanation
Indices: 186874--187382 Score: 500
Period size: 172 Copynumber: 3.0 Consensus size: 173
186864 ATTCAAATGT
* * * * * * * *
186874 AAAAATAAAAGAA-GATATTAAGTGACCTTAGTAATTAAAGAGTTGTTATT-TT-TTA-AAGTTC
1 AAAAAAAAAAGAACGA-ACTAAGCGACCTTAATAATTAAAGAATTATTGTTATTCATAGAAGTTC
* * * * * *
186935 GGAGTT-TAAACATCACGTATGTAGGAGTGTACGAGCGTTCAATGTTAAATGATTGAGAATCTTT
65 CGAGTTCT-AACACCACATATGCAGGAGTGTACGAGCGTTCAATGTCAAATAATTGAGAATCTTT
186999 GAACATATATTACCA-TATATTCACCCCAAACTAATAAAATAAT-A
129 GAACATATATTA-CATTATATTCACCCCAAACTAATAAAATAATAA
* * * * * *
187043 TAAAATAAAATAACGAACTAAGCGACCTTAATGATTAAATAATTATTGTTATTCATTGAAGTTCC
1 AAAAAAAAAAGAACGAACTAAGCGACCTTAATAATTAAAGAATTATTGTTATTCATAGAAGTTCC
* * * *
187108 GAGTTCTAACACCACATATGCAGGAGTTTATGAGCGTTCAGTGTCATATAATTGAGAATCTTTGA
66 GAGTTCTAACACCACATATGCAGGAGTGTACGAGCGTTCAATGTCAAATAATTGAGAATCTTTGA
* * *
187173 ACATATATTACATTATATTCACTCCAAACTATTTAAATAATAA
131 ACATATATTACATTATATTCACCCCAAACTAATAAAATAATAA
* * * * *
187216 AAAAAAAAAAGAACGAACTAAGCGACCTTAGTAATTAAAGAATTGTTGTTATTCCTAGAATTTTC
1 AAAAAAAAAAGAACGAACTAAGCGACCTTAATAATTAAAGAATTATTGTTATTCATAGAAGTTCC
* * * * * * * * *
187281 GAGTTCGAACACCACATATGTA-G-GTGTAGGAACGTTCAATATTAAATGATTAAAAATCTTTGA
66 GAGTTCTAACACCACATATGCAGGAGTGTACGAGCGTTCAATGTCAAATAATTGAGAATCTTTGA
** * * *
187344 ACATATATT-TTTTATATTCA-TCTAGACTAATAAAATAAT
131 ACATATATTACATTATATTCACCCCAAACTAATAAAATAAT
187383 GTAAAATAAA
Statistics
Matches: 279, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
169 52 0.19
170 13 0.05
171 42 0.15
172 96 0.34
173 76 0.27
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (173 bp):
AAAAAAAAAAGAACGAACTAAGCGACCTTAATAATTAAAGAATTATTGTTATTCATAGAAGTTCC
GAGTTCTAACACCACATATGCAGGAGTGTACGAGCGTTCAATGTCAAATAATTGAGAATCTTTGA
ACATATATTACATTATATTCACCCCAAACTAATAAAATAATAA
Found at i:187392 original size:15 final size:15
Alignment explanation
Indices: 187372--187405 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
187362 CATCTAGACT
187372 AATAAA-ATAATGTAA
1 AATAAACATAAT-TAA
187387 AATAAACATAATTAA
1 AATAAACATAATTAA
187402 AATA
1 AATA
187406 CGGGTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (15 bp):
AATAAACATAATTAA
Found at i:193733 original size:3 final size:3
Alignment explanation
Indices: 193722--193780 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
193712 TTTTTTTCCG
** *
193722 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
193769 TTA TTT TTA TTA
1 TTA TTA TTA TTA
193781 CAATTTTTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 3 0.07
3 39 0.87
4 3 0.07
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Done.