Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 267 of 427
Found at i:76798025 original size:5 final size:5
Alignment explanation
Indices: 76798011--76798089 Score: 63
Period size: 5 Copynumber: 14.8 Consensus size: 5
76798001 GCAACCTAAT
*
76798011 TTTTA TTTTTA TTTT- TATTTA TTTTA TTTT- TCTTAA TTTTTA TTTTA
1 TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA T-TTTA -TTTTA TTTTA
*
76798058 TTATTTA TTTTA TTTTA TTATTA CTTTA TTTT
1 -T-TTTA TTTTA TTTTA TT-TTA TTTTA TTTT
76798090 GTTTGGATGT
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
4 2 0.03
5 39 0.64
6 15 0.25
7 5 0.08
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:76798035 original size:21 final size:21
Alignment explanation
Indices: 76798011--76798089 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 21
76798001 GCAACCTAAT
76798011 TTTTATTTTTATTTTTATTTA
1 TTTTATTTTTATTTTTATTTA
* *
76798032 TTTTATTTTTCTTAATT-TTTA
1 TTTTATTTTTATT-TTTATTTA
76798053 TTTTATTATTTA-TTTTATTTTA
1 TTTTATT-TTTATTTTTA-TTTA
*
76798075 TTATTA-CTTTATTTT
1 TT-TTATTTTTATTTT
76798090 GTTTGGATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 2 0.04
21 28 0.60
22 14 0.30
23 3 0.06
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTTTTATTTTTATTTA
Found at i:76798087 original size:16 final size:17
Alignment explanation
Indices: 76798049--76798089 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
76798039 TTTCTTAATT
*
76798049 TTTATTTTATTATTTAT
1 TTTATTTTATTATTTAC
76798066 TTTATTTTATTA-TTAC
1 TTTATTTTATTATTTAC
76798082 TTTATTTT
1 TTTATTTT
76798090 GTTTGGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTATTTAC
Found at i:76798089 original size:33 final size:32
Alignment explanation
Indices: 76798015--76798077 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
76798005 CCTAATTTTT
*
76798015 ATTTTTA-TTTTTATTTATTTTATTTTTCTTA
1 ATTTTTATTTTTTATTTATTTTATTTTTATTA
76798046 ATTTTTATTTTATTATTTATTTTA-TTTTATTA
1 ATTTTTATTTT-TTATTTATTTTATTTTTATTA
76798078 TTACTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 7 0.24
32 10 0.34
33 12 0.41
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (32 bp):
ATTTTTATTTTTTATTTATTTTATTTTTATTA
Found at i:76798533 original size:16 final size:14
Alignment explanation
Indices: 76798506--76798552 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
76798496 TACAATTTTG
76798506 TCTGTTTGATTTCA
1 TCTGTTTGATTTCA
**
76798520 TCTAGTTATGATTTTG
1 TCT-GTT-TGATTTCA
76798536 TCTGTTTGATTTCA
1 TCTGTTTGATTTCA
76798550 TCT
1 TCT
76798553 CCACTGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 12 0.44
15 6 0.22
16 9 0.33
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (14 bp):
TCTGTTTGATTTCA
Found at i:76798547 original size:14 final size:14
Alignment explanation
Indices: 76798500--76798547 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
76798490 GTTAGTTACA
76798500 ATTTTGTCTGTTTG
1 ATTTTGTCTGTTTG
**
76798514 ATTTCATCTAGTTATG
1 ATTTTGTCT-GTT-TG
76798530 ATTTTGTCTGTTTG
1 ATTTTGTCTGTTTG
76798544 ATTT
1 ATTT
76798548 CATCTCCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.46
15 6 0.21
16 9 0.32
ACGTcount: A:0.15, C:0.08, G:0.17, T:0.60
Consensus pattern (14 bp):
ATTTTGTCTGTTTG
Found at i:76799794 original size:10 final size:10
Alignment explanation
Indices: 76799779--76799816 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
76799769 AATTTAGCAT
76799779 TTATCTTTAA
1 TTATCTTTAA
76799789 TTATCTTTAA
1 TTATCTTTAA
* *
76799799 TTATTTTTAT
1 TTATCTTTAA
76799809 TTATCTTT
1 TTATCTTT
76799817 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:76804216 original size:76 final size:77
Alignment explanation
Indices: 76804128--76804279 Score: 243
Period size: 76 Copynumber: 2.0 Consensus size: 77
76804118 AATTGTGGTG
* * *
76804128 CATCAAGTAAATTGCATGAGTAATTACAATAAAAATTAATTAAT-AAATATTTTTTAATTAATAC
1 CATCAAGTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATTAATAC
76804192 AAAAGTATGATT
66 AAAAGTATGATT
* *
76804204 CATCAATTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATTAATGC
1 CATCAAGTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATTAATAC
*
76804269 AAAATTATGAT
66 AAAAGTATGAT
76804280 ACAAAATCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 42 0.61
77 27 0.39
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (77 bp):
CATCAAGTAAATTGCATGAATAATTACAATAAAAATTAATTAATAAAAAATCTTTTAATTAATAC
AAAAGTATGATT
Found at i:76805402 original size:27 final size:27
Alignment explanation
Indices: 76805362--76805413 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
76805352 GAACGATCTC
*
76805362 GGTCTCAATGATAATCCAAATGGTCCT
1 GGTCTCAATAATAATCCAAATGGTCCT
*
76805389 GGTCTCGATAATAATCCAAATGGTC
1 GGTCTCAATAATAATCCAAATGGTC
76805414 AGGATGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (27 bp):
GGTCTCAATAATAATCCAAATGGTCCT
Found at i:76832604 original size:6 final size:6
Alignment explanation
Indices: 76832586--76832642 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
76832576 CTTCAAAAAT
* * *
76832586 AAAT-A AAAGAA AAATAA AAAT-A AAATTA AAA-AA TAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
76832631 TAAT-A AAATAA A
1 AAATAA AAATAA A
76832643 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
5 15 0.37
6 26 0.63
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:76832610 original size:12 final size:11
Alignment explanation
Indices: 76832580--76832646 Score: 63
Period size: 11 Copynumber: 6.3 Consensus size: 11
76832570 ATAAGTCTTC
76832580 AAAAAT-AAAT
1 AAAAATAAAAT
76832590 AAAAGA-AAAAT
1 AAAA-ATAAAAT
76832601 AAAAATAAAATT
1 AAAAATAAAA-T
*
76832613 AAAAA-ATAAT
1 AAAAATAAAAT
76832623 AAAAATAATAAT
1 AAAAATAA-AAT
76832635 -AAAAT-AAAT
1 AAAAATAAAAT
76832644 AAA
1 AAA
76832647 CTCAAAAGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
9 3 0.06
10 14 0.29
11 22 0.46
12 9 0.19
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:76832611 original size:22 final size:21
Alignment explanation
Indices: 76832580--76832646 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
76832570 ATAAGTCTTC
76832580 AAAAAT-AAATAAAAGAAAAAT
1 AAAAATAAAATAAAA-AAAAAT
*
76832601 AAAAATAAAATTAAAAAATAAT
1 AAAAATAAAA-TAAAAAAAAAT
*
76832623 AAAAATAATAAT-AAAATAAAT
1 AAAAATAA-AATAAAAAAAAAT
76832644 AAA
1 AAA
76832647 CTCAAAAGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 16 0.40
22 17 0.43
23 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (21 bp):
AAAAATAAAATAAAAAAAAAT
Found at i:76834344 original size:3 final size:3
Alignment explanation
Indices: 76834331--76834374 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
76834321 AATGAAGGAA
* * * *
76834331 AAT ACT AAT AAT AAT CAT AAT AAT AAT AAA AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
76834375 CATAAATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:76834769 original size:26 final size:27
Alignment explanation
Indices: 76834732--76834784 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
76834722 AGGCCCATGT
*
76834732 TGGCTCGAATATTGCCCGTGTG-TGTG
1 TGGCTCGAATATTGCCAGTGTGCTGTG
*
76834758 TGGCTCGGATATTGCCAGTGTGCTGTG
1 TGGCTCGAATATTGCCAGTGTGCTGTG
76834785 GCTTGAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.11, C:0.19, G:0.36, T:0.34
Consensus pattern (27 bp):
TGGCTCGAATATTGCCAGTGTGCTGTG
Found at i:76849218 original size:14 final size:15
Alignment explanation
Indices: 76849199--76849231 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
76849189 CCAAAAAAAG
76849199 TATACTCAAATAG-A
1 TATACTCAAATAGCA
76849213 TATACTCAAATAGCA
1 TATACTCAAATAGCA
76849228 TATA
1 TATA
76849232 AGTGCCACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (15 bp):
TATACTCAAATAGCA
Found at i:76850494 original size:24 final size:25
Alignment explanation
Indices: 76850467--76850515 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
76850457 ATATTTTTCT
76850467 ACTGATTTTTT-TGTTGAATTTGGA
1 ACTGATTTTTTCTGTTGAATTTGGA
76850491 ACTGATTTTTTCTGTTGAATTTGGA
1 ACTGATTTTTTCTGTTGAATTTGGA
76850516 CTTCTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.53
Consensus pattern (25 bp):
ACTGATTTTTTCTGTTGAATTTGGA
Found at i:76859661 original size:29 final size:29
Alignment explanation
Indices: 76859619--76859678 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
76859609 TCGATAATGT
*
76859619 GGTTTTGGGTTGTTGGCAGCAAATCATAA
1 GGTTTTGGGTTGTTGGCAACAAATCATAA
76859648 GGTTTTGGGTTGTTGGCAACAAATCATAA
1 GGTTTTGGGTTGTTGGCAACAAATCATAA
76859677 GG
1 GG
76859679 AACAGAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.33
Consensus pattern (29 bp):
GGTTTTGGGTTGTTGGCAACAAATCATAA
Found at i:76866598 original size:24 final size:22
Alignment explanation
Indices: 76866538--76866598 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 22
76866528 TTATTTATTC
76866538 AAATTAAATTTTAAAAATAATTA
1 AAATT-AATTTTAAAAATAATTA
* *
76866561 ATATTAATTGTTTAAAAATATTTAA
1 AAATTAA-T-TTTAAAAATAATT-A
76866586 AAATTATATTTTA
1 AAATTA-ATTTTA
76866599 TATATCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 2 0.06
23 5 0.16
24 16 0.52
25 7 0.23
26 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATTAATTTTAAAAATAATTA
Found at i:76866861 original size:2 final size:2
Alignment explanation
Indices: 76866854--76866879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76866844 ATTATCTTTC
76866854 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
76866880 GAATTGACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76869153 original size:8 final size:8
Alignment explanation
Indices: 76869140--76869165 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
76869130 ATATAACTTT
76869140 TAAAATTA
1 TAAAATTA
76869148 TAAAATTA
1 TAAAATTA
76869156 TAAAATTA
1 TAAAATTA
76869164 TA
1 TA
76869166 TTATTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAAATTA
Found at i:76869443 original size:41 final size:41
Alignment explanation
Indices: 76869310--76869671 Score: 521
Period size: 41 Copynumber: 8.9 Consensus size: 41
76869300 TTTTAGAATA
* * *** *
76869310 AAACGCCATTAAAAACTGAGCAATAGCGGC-TTTTTTGTTC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
76869350 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTC-AGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
76869390 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
** * *
76869431 AAACGCCACTAAAAATAGAGCAATAGCGACGTTTTAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
76869472 AAACGCCACTAAAAACCGAGCAATAGCGGCATTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
76869513 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
* * **
76869554 AAAAAGCCAGTAAAAACCGAGCAATAGCGGCGTTTCCTGTCC
1 -AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
76869596 AAACGCCACAAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
*
76869637 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTTC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTC
76869672 TGGTCAAAAC
Statistics
Matches: 287, Mismatches: 32, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
40 64 0.22
41 187 0.65
42 36 0.13
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAAGTCC
Found at i:76869622 original size:124 final size:124
Alignment explanation
Indices: 76869309--76869671 Score: 536
Period size: 124 Copynumber: 3.0 Consensus size: 124
76869299 GTTTTAGAAT
* * * *
76869309 AAAACGCCATTAAAAACTGAGCAATAGCGGC-TTTTTTGTTCAAACGCCACTAAAAACCGAGCAA
1 AAAACGCCACTAAAAACAGAGCAATAGCGGCGTTTTATGTCCAAACGCCACTAAAAACCGAGCAA
* * *
76869373 TAGTGGCGTTTC-AGTCCAAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
66 TAGCGGCGTTTCAAGTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCAAGTCC
* * *
76869431 -AAACGCCACTAAAAATAGAGCAATAGCGACGTTTTAAGTCCAAACGCCACTAAAAACCGAGCAA
1 AAAACGCCACTAAAAACAGAGCAATAGCGGCGTTTTATGTCCAAACGCCACTAAAAACCGAGCAA
*
76869495 TAGCGGCATTTCAAGTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCAAGTCC
66 TAGCGGCGTTTCAAGTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCAAGTCC
* * * ** *
76869554 AAAAAGCCAGTAAAAACCGAGCAATAGCGGCGTTTCCTGTCCAAACGCCACAAAAAACCGAGCAA
1 AAAACGCCACTAAAAACAGAGCAATAGCGGCGTTTTATGTCCAAACGCCACTAAAAACCGAGCAA
76869619 TAGCGGCGTTTCAAGTCCAAACGCCACTAAAAA-TCGAGCAATAGCGGCGTTTC
66 TAGCGGCGTTTCAAGTCCAAACGCCACTAAAAACT-GAGCAATAGCGGCGTTTC
76869672 TGGTCAAAAC
Statistics
Matches: 216, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
121 26 0.12
122 40 0.19
123 45 0.21
124 105 0.49
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (124 bp):
AAAACGCCACTAAAAACAGAGCAATAGCGGCGTTTTATGTCCAAACGCCACTAAAAACCGAGCAA
TAGCGGCGTTTCAAGTCCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCAAGTCC
Found at i:76869845 original size:18 final size:17
Alignment explanation
Indices: 76869813--76869847 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
76869803 ATTTTCTTAT
*
76869813 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
76869830 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
76869848 AACTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:76870622 original size:21 final size:21
Alignment explanation
Indices: 76870570--76870623 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
76870560 TTAAGTTTAT
76870570 GGTTTAAGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
* **
76870591 GGCTTGGGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
76870612 GGTTTAAGGTTT
1 GGTTTAAGGTTT
76870624 AGGGTATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.11, C:0.02, G:0.33, T:0.54
Consensus pattern (21 bp):
GGTTTAAGGTTTGTTATTTTG
Found at i:76871017 original size:21 final size:21
Alignment explanation
Indices: 76870992--76871135 Score: 72
Period size: 20 Copynumber: 6.9 Consensus size: 21
76870982 AATTAATTTT
76870992 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAATA
76871013 ATTTTA-TTAAAAGTTT-ATA
1 ATTTTATTTAAAAGTTTAATA
** *
76871032 AAATTA--TACAAA--TTAATTTT
1 ATTTTATTTA-AAAGTTTAA--TA
76871052 ATTTTATTTAAAA-TATTAATAA
1 ATTTTATTTAAAAGT-TTAAT-A
* **
76871074 ATTAATTTACTTTTAAA-TAAAATA
1 A-T--TTTA-TTTAAAAGTTTAATA
**
76871098 AAATTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAATA
76871119 ATTTTA-TTAAAAGTTTA
1 ATTTTATTTAAAAGTTTA
76871136 TAAAATTATA
Statistics
Matches: 93, Mismatches: 16, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
17 2 0.02
18 3 0.03
19 10 0.11
20 32 0.34
21 22 0.24
22 3 0.03
23 5 0.05
24 2 0.02
25 7 0.08
26 7 0.08
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAATA
Found at i:76871110 original size:106 final size:107
Alignment explanation
Indices: 76870995--76871229 Score: 445
Period size: 106 Copynumber: 2.2 Consensus size: 107
76870985 TAATTTTATT
76870995 TTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATT
1 TTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATT
*
76871060 TAAAATATTAAT-AAATTAATTTACTTTTAAATAAAATAAAA
66 TAAAATATTAATAAAATAAATTTACTTTTAAATAAAATAAAA
76871101 TTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATT
1 TTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATT
76871166 TAAAATATTAATAAAATAAATTTACTTTTAAATAAAATAAAA
66 TAAAATATTAATAAAATAAATTTACTTTTAAATAAAATAAAA
76871208 TTATTTAAAAGTTTAAATAATT
1 TTATTTAAAAGTTT-AATAATT
76871230 ATACAAATTA
Statistics
Matches: 126, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
106 77 0.61
107 42 0.33
108 7 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (107 bp):
TTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATT
TAAAATATTAATAAAATAAATTTACTTTTAAATAAAATAAAA
Found at i:76871142 original size:21 final size:20
Alignment explanation
Indices: 76871095--76871144 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
76871085 TTTAAATAAA
76871095 ATAAAATTATTTAAAAGTTT
1 ATAAAATTATTTAAAAGTTT
* *
76871115 A-ATAATTTTATTAAAAGTTT
1 ATAAAATTAT-TTAAAAGTTT
76871135 ATAAAATTAT
1 ATAAAATTAT
76871145 ACAAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.25
20 12 0.50
21 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATAAAATTATTTAAAAGTTT
Found at i:76871177 original size:60 final size:59
Alignment explanation
Indices: 76870967--76871413 Score: 193
Period size: 60 Copynumber: 7.8 Consensus size: 59
76870957 TCGTCCACAA
76870967 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGT-TTAATAATTTTATTAAAAGT
1 TTATAAAATTATA-AAATTAATTTTATTTTATTTAAAA-TATTAATAATTTTATTAAAAGT
* * * *
76871027 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAATTAATT--TACT
1 TTATAAAATTATA-AAATTAATTTTATTTTATTTAAAATATTAATAATTTTATTAAAAGT
** * * * ** *
76871085 TT-TAAATAAAATAAAATT-ATTTAAAAGTTTA-ATAATTTTATTAA-AAGTTTA-TAAAA--
1 TTATAAA-ATTATAAAATTAATTT--TATTTTATTTAA-AATATTAATAATTTTATTAAAAGT
* ** * *
76871141 TTATACAAATT--------AATTTTATTTTATTTAAAATATTAATAAAATAAATT--TACT
1 TTATA-AAATTATAAAATTAATTTTATTTTATTTAAAATATTAAT-AATTTTATTAAAAGT
** * * ** * ** **
76871192 TT-TAAATAAAATAAAATT-ATTTAAAAGTTTAAATAATTATACAAATTAATTTTATT-TTA-T
1 TTATAAA-ATTATAAAATTAATTT--TATTTTATTTAA-AATATTAA-TAATTTTATTAAAAGT
** *
76871252 TTA-AAAGATTAATAAAATTAA-TTTACTTTTAAAT-AAA-A-TAA-AATTAT-TTAAAAGT
1 TTATAAA-ATT-ATAAAATTAATTTTA-TTTTATTTAAAATATTAATAATTTTATTAAAAGT
*
76871307 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGT-TTAATAATTTTATTAAAAGT
1 TTATAAAATTATA-AAATTAATTTTATTTTATTTAAAA-TATTAATAATTTTATTAAAAGT
*
76871367 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAA
1 TTATAAAATTATA-AAATTAATTTTATTTTATTTAAAATATTAATAA
76871414 AATTAATTTA
Statistics
Matches: 288, Mismatches: 53, Indels: 92
0.67 0.12 0.21
Matches are distributed among these distances:
48 11 0.04
49 6 0.02
50 11 0.04
51 3 0.01
53 2 0.01
54 9 0.03
55 20 0.07
56 18 0.06
57 25 0.09
58 26 0.09
59 16 0.06
60 127 0.44
61 13 0.05
62 1 0.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (59 bp):
TTATAAAATTATAAAATTAATTTTATTTTATTTAAAATATTAATAATTTTATTAAAAGT
Found at i:76871235 original size:87 final size:87
Alignment explanation
Indices: 76871125--76871353 Score: 399
Period size: 87 Copynumber: 2.6 Consensus size: 87
76871115 AATAATTTTA
76871125 TTAAAAGTTTATAA-AATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATAAATTT
1 TTAAAAGTTTA-AATAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATAAATTT
76871189 ACTTTTAAATAAAATAAAATTAT
65 ACTTTTAAATAAAATAAAATTAT
* *
76871212 TTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTA
1 TTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATAAATTTA
76871277 CTTTTAAATAAAATAAAATTAT
66 CTTTTAAATAAAATAAAATTAT
*
76871299 TTAAAAGTTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGT-TTAATAA
1 TTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTAAAA-TATTAATAA
76871354 TTTTATTAAA
Statistics
Matches: 136, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
86 2 0.01
87 134 0.99
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (87 bp):
TTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATAAATTTA
CTTTTAAATAAAATAAAATTAT
Found at i:76871291 original size:26 final size:27
Alignment explanation
Indices: 76871160--76871301 Score: 98
Period size: 26 Copynumber: 5.1 Consensus size: 27
76871150 TTAATTTTAT
* * *
76871160 TTTA-TTTAAAATATTAATAAAATAAA
1 TTTACTTTTAAATAATAATAAAATTAA
76871186 TTTACTTTTAAATAA-AATAAAATT-A
1 TTTACTTTTAAATAATAATAAAATTAA
** *
76871211 TTTAAAAGTTTAAATAATTATACAAATTAA
1 TTT--ACTTTTAAATAATAATA-AAATTAA
*
76871241 TTTTA-TTTTATTTAAAAGATTAATAAAATTAA
1 -TTTACTTTTA---AATA-A-TAATAAAATTAA
76871273 TTTACTTTTAAATAA-AATAAAATT-A
1 TTTACTTTTAAATAATAATAAAATTAA
76871298 TTTA
1 TTTA
76871302 AAAGTTTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 27
0.72 0.08 0.21
Matches are distributed among these distances:
25 9 0.10
26 21 0.23
27 18 0.19
28 8 0.09
29 9 0.10
30 1 0.01
31 10 0.11
32 13 0.14
33 4 0.04
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (27 bp):
TTTACTTTTAAATAATAATAAAATTAA
Found at i:76871318 original size:20 final size:20
Alignment explanation
Indices: 76871293--76871378 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
76871283 AATAAAATAA
76871293 AATTATTTAAAAGTTTATAT
1 AATTATTTAAAAGTTTATAT
** *
76871313 AATTATACAAATTAATTT-TAT
1 AATTATTTAAA--AGTTTATAT
*
76871334 -TTTATTTAAAAGTTTA-AT
1 AATTATTTAAAAGTTTATAT
* *
76871352 AATTTTATTAAAAGTTTATAA
1 AATTAT-TTAAAAGTTTATAT
76871373 AATTAT
1 AATTAT
76871379 ACAAATTAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
18 6 0.12
19 3 0.06
20 27 0.55
21 9 0.18
22 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTATTTAAAAGTTTATAT
Found at i:76871366 original size:147 final size:147
Alignment explanation
Indices: 76871212--76871499 Score: 551
Period size: 147 Copynumber: 2.0 Consensus size: 147
76871202 ATAAAATTAT
76871212 TTAAAAGTTTA-AATAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTT
1 TTAAAAGTTTATAA-AATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTT
*
76871276 ACTTTTAAATAAAATAAAATTATTTAAAAGTTTATATAATTATACAAATTAATTTTATTTTATTT
65 ACTTTTAAATAAAATAAAATTATTTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTT
76871341 AAAAGTTTAATAATTTTA
130 AAAAGTTTAATAATTTTA
76871359 TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTA
1 TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTA
76871424 CTTTTAAATAAAATAAAATTATTTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTA
66 CTTTTAAATAAAATAAAATTATTTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTA
76871489 AAAGTTTAATA
131 AAAGTTTAATA
76871500 CAAATTATTT
Statistics
Matches: 139, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
147 137 0.99
148 2 0.01
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (147 bp):
TTAAAAGTTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTA
CTTTTAAATAAAATAAAATTATTTAAAAGTTTAAATAATTATACAAATTAATTTTATTTTATTTA
AAAGTTTAATAATTTTA
Found at i:76871814 original size:22 final size:22
Alignment explanation
Indices: 76871773--76871814 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
76871763 CCCAATTTGA
* **
76871773 AATCCCCAAATCTATTTCCCAT
1 AATCCCCAAATCGAAATCCCAT
76871795 AATCCCCAAATCGAAATCCC
1 AATCCCCAAATCGAAATCCC
76871815 TTTTACTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.24
Consensus pattern (22 bp):
AATCCCCAAATCGAAATCCCAT
Found at i:76872964 original size:2 final size:2
Alignment explanation
Indices: 76872957--76873002 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
76872947 AAATTCAGCT
76872957 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
76872999 TA TA
1 TA TA
76873003 ACTCCATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76873213 original size:9 final size:9
Alignment explanation
Indices: 76873199--76873256 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
76873189 CAAATGAAAA
76873199 TTAATGTTT
1 TTAATGTTT
*
76873208 TTAATG--A
1 TTAATGTTT
*
76873215 TTAATTTTTT
1 TTAA-TGTTT
*
76873225 TTAATG-AT
1 TTAATGTTT
76873233 TTAATGTTT
1 TTAATGTTT
76873242 TTAATGTTT
1 TTAATGTTT
76873251 TTAATG
1 TTAATG
76873257 ATTTAAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
7 4 0.10
8 8 0.21
9 23 0.59
10 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (9 bp):
TTAATGTTT
Found at i:76873227 original size:17 final size:17
Alignment explanation
Indices: 76873199--76873247 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
76873189 CAAATGAAAA
76873199 TTAATGTTTTTAATGA-
1 TTAATGTTTTTAATGAT
*
76873215 TTAATTTTTTTTAATGAT
1 TTAA-TGTTTTTAATGAT
76873233 TTAATGTTTTTAATG
1 TTAATGTTTTTAATG
76873248 TTTTTAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 21 0.72
18 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (17 bp):
TTAATGTTTTTAATGAT
Found at i:76873286 original size:43 final size:42
Alignment explanation
Indices: 76873199--76873287 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 42
76873189 CAAATGAAAA
* ** *
76873199 TTAATGTTTTTAATGATTAATTTTTTTTAATGATTTAATGTTT
1 TTAATGTTTTTAATGATTAACTTAGTTTAAT-ATTTAATATTT
*
76873242 TTAATGTTTTTAATGATTTAAACTTAGTTTAAT-TTTATTATTT
1 TTAATGTTTTTAATGA-TT-AACTTAGTTTAATATTTAATATTT
76873285 TTA
1 TTA
76873288 GTCAAATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 27 0.69
44 2 0.05
45 10 0.26
ACGTcount: A:0.29, C:0.01, G:0.08, T:0.62
Consensus pattern (42 bp):
TTAATGTTTTTAATGATTAACTTAGTTTAATATTTAATATTT
Found at i:76875837 original size:2 final size:2
Alignment explanation
Indices: 76875830--76875856 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
76875820 AGATCAAATT
76875830 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
76875857 GATTCATTCA
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:76876428 original size:71 final size:69
Alignment explanation
Indices: 76876349--76876511 Score: 260
Period size: 71 Copynumber: 2.4 Consensus size: 69
76876339 TAATCACAAA
*
76876349 AAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTT
1 AAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAG-T
76876414 TTCTTT
65 TT-TTT
*
76876420 AAATATTTTGTCTACTCTTATTTTATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTT
1 AAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTT
76876485 TTTT
66 TTTT
76876489 AAATATATTT-T-TA-TTTTATTTTA
1 AAATAT-TTTGTCTACTTTTATTTTA
76876512 ATCACGAAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
67 9 0.10
68 2 0.02
69 10 0.11
70 6 0.07
71 61 0.69
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (69 bp):
AAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTT
TTTT
Found at i:76876865 original size:9 final size:9
Alignment explanation
Indices: 76876849--76876974 Score: 69
Period size: 9 Copynumber: 13.8 Consensus size: 9
76876839 ATATCATATC
76876849 TTACATAAT
1 TTACATAAT
*
76876858 TTACATAAG
1 TTACATAAT
* * * *
76876867 ATAAACAAC
1 TTACATAAT
76876876 TTACATAAT
1 TTACATAAT
* *
76876885 TTGCATAAC
1 TTACATAAT
76876894 TTACATAA-
1 TTACATAAT
76876902 -TACATAAAT
1 TTACAT-AAT
76876911 ATATATCAT-AT
1 -T-TA-CATAAT
*
76876922 CGTACATAAT
1 -TTACATAAT
76876932 TTACATAAT
1 TTACATAAT
*** *
76876941 TCGGATAAC
1 TTACATAAT
76876950 TTACATAAT
1 TTACATAAT
*
76876959 TTACATAAC
1 TTACATAAT
76876968 TTACATA
1 TTACATA
76876975 GTACATAAAT
Statistics
Matches: 86, Mismatches: 24, Indels: 14
0.69 0.19 0.11
Matches are distributed among these distances:
7 5 0.06
8 2 0.02
9 68 0.79
10 4 0.05
11 2 0.02
12 2 0.02
13 3 0.03
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (9 bp):
TTACATAAT
Found at i:76876894 original size:18 final size:18
Alignment explanation
Indices: 76876849--76876974 Score: 85
Period size: 18 Copynumber: 6.9 Consensus size: 18
76876839 ATATCATATC
* *
76876849 TTACATAATTTACATAAG
1 TTACATAACTTACATAAT
* * *
76876867 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
*
76876885 TTGCATAACTTACATAA-
1 TTACATAACTTACATAAT
* *
76876902 -TACATAAATATATATCATAT
1 TTACATAACT-TACAT-A-AT
* *
76876922 CGTACATAATTTACATAAT
1 -TTACATAACTTACATAAT
***
76876941 TCGGATAACTTACATAAT
1 TTACATAACTTACATAAT
76876959 TTACATAACTTACATA
1 TTACATAACTTACATA
76876975 GTACATAAAT
Statistics
Matches: 80, Mismatches: 22, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
16 7 0.09
17 4 0.05
18 53 0.66
19 3 0.04
20 1 0.01
21 4 0.05
22 8 0.10
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:76876951 original size:74 final size:74
Alignment explanation
Indices: 76876829--76876996 Score: 257
Period size: 74 Copynumber: 2.3 Consensus size: 74
76876819 AATCCCATCA
* *
76876829 ACATAAATATATATCATATCTTACATAATTTACATAAGATAAACAACTTACATAATTTGCATAAC
1 ACATAAATATATATCATATCGTACATAATTTACATAAGATAAACAACTTACATAATTTACATAAC
76876894 TTACATAAT
66 TTACATAAT
* ** *
76876903 ACATAAATATATATCATATCGTACATAATTTACATAA-TTCGGATAACTTACATAATTTACATAA
1 ACATAAATATATATCATATCGTACATAATTTACATAAGAT-AAACAACTTACATAATTTACATAA
*
76876967 CTTACATAGT
65 CTTACATAAT
76876977 ACATAAATATATATCATATC
1 ACATAAATATATATCATATC
76876997 ATAACTTACA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
73 1 0.01
74 85 0.99
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.36
Consensus pattern (74 bp):
ACATAAATATATATCATATCGTACATAATTTACATAAGATAAACAACTTACATAATTTACATAAC
TTACATAAT
Found at i:76878585 original size:100 final size:100
Alignment explanation
Indices: 76878412--76878611 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
76878402 CTTTGTACAG
76878412 TACTTGGCCTGTAATGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAATGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76878477 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGT
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGT
* *
76878512 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTTCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAATGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76878577 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGT
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGT
76878612 CCCAGAAATG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (100 bp):
TACTTGGCCTGTAATGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
TCATTTTATCAATGATTATCCCTGGAGAGAAAGGT
Found at i:76878781 original size:329 final size:329
Alignment explanation
Indices: 76878183--76878840 Score: 1298
Period size: 329 Copynumber: 2.0 Consensus size: 329
76878173 CTTTGTACAG
76878183 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76878248 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
76878313 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
131 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
76878378 TTAATCCTTTTAAAATCATGAGTACTTTGTACAGTACTTGGCCTGTAATGCTTGTTCCTTACAAT
196 TTAATCCTTTTAAAATCATGAGTACTTTGTACAGTACTTGGCCTGTAATGCTTGTTCCTTACAAT
76878443 TTGCCTCCATAGATTTGCATGAAGTAATCTTCATTCATTTTATCAATGATTATCCCTGGAGAGAA
261 TTGCCTCCATAGATTTGCATGAAGTAATCTTCATTCATTTTATCAATGATTATCCCTGGAGAGAA
76878508 AGGT
326 AGGT
*
76878512 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTTCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76878577 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
76878642 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
131 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
*
76878707 TTAATCCTTTTAAAATCATGAGTACTTTGTACAGTACTTGGCCTGTAGTGCTTGTTCCTTACAAT
196 TTAATCCTTTTAAAATCATGAGTACTTTGTACAGTACTTGGCCTGTAATGCTTGTTCCTTACAAT
76878772 TTGCCTCCATAGATTTGCATGAAGTAATCTTCATTCATTTTATCAATGATTATCCCTGGAGAGAA
261 TTGCCTCCATAGATTTGCATGAAGTAATCTTCATTCATTTTATCAATGATTATCCCTGGAGAGAA
76878837 AGGT
326 AGGT
76878841 CCCAGAAATG
Statistics
Matches: 327, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
329 327 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (329 bp):
TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
TTAATCCTTTTAAAATCATGAGTACTTTGTACAGTACTTGGCCTGTAATGCTTGTTCCTTACAAT
TTGCCTCCATAGATTTGCATGAAGTAATCTTCATTCATTTTATCAATGATTATCCCTGGAGAGAA
AGGT
Found at i:76878913 original size:229 final size:229
Alignment explanation
Indices: 76878512--76879141 Score: 1251
Period size: 229 Copynumber: 2.8 Consensus size: 229
76878502 AGAGAAAGGT
*
76878512 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTTCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76878577 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
76878642 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
131 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
76878707 TTAATCCTTTTAAAATCATGAGTACTTTGTACAG
196 TTAATCCTTTTAAAATCATGAGTACTTTGTACAG
76878741 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76878806 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
76878871 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
131 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
76878936 TTAATCCTTTTAAAATCATGAGTACTTTGTACAG
196 TTAATCCTTTTAAAATCATGAGTACTTTGTACAG
76878970 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
1 TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
76879035 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
66 TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
76879100 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAG
131 CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAG
76879142 ACATGATGTA
Statistics
Matches: 400, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 400 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (229 bp):
TACTTGGCCTGTAGTGCTTGTTCCTTACAATTTGCCTCCATAGATTTGCATGAAGTAATCTTCAT
TCATTTTATCAATGATTATCCCTGGAGAGAAAGGTCCCAGAAATGATATTGACATCTATTTGTAG
CCACTTATTGAAGAGTTAAAACAGTTATGGTCGGGTGTTGAGGCTTGGGCTAGCAGCTGACGGCT
TTAATCCTTTTAAAATCATGAGTACTTTGTACAG
Found at i:76882223 original size:28 final size:27
Alignment explanation
Indices: 76882191--76882287 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 27
76882181 ATAATAAGCC
76882191 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATA-TCGAACT
*
76882219 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-AT-ATCGAACT
* *
76882247 CGCACACTTAGTGCTATAAT-TTGAACC
1 CGCACACTTAGTGCT-TAATATCGAACT
76882274 CGCACACTTAGTGC
1 CGCACACTTAGTGC
76882288 CAATCTCATG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
27 20 0.33
28 36 0.59
29 3 0.05
30 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTTAATATCGAACT
Found at i:76890246 original size:28 final size:29
Alignment explanation
Indices: 76890214--76890312 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
76890204 ATAATAAGCC
*
76890214 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
76890242 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
76890270 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
76890299 CGCACACTTAGTGC
1 CGCACACTTAGTGC
76890313 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:76894074 original size:13 final size:14
Alignment explanation
Indices: 76894058--76894086 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76894048 TTATAAATAT
76894058 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
76894071 TTATAATGGTTTAA
1 TTATAATGGTTTAA
76894085 TT
1 TT
76894087 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:76894524 original size:21 final size:21
Alignment explanation
Indices: 76894492--76894546 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
76894482 ACAACTTAGA
76894492 GCAGAGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
* *
76894513 GCAGCGGTAGCAGCGAGGGAG
1 GCAGAGGCAGCAGCGAGGGAG
76894534 GCAGAGGCAGCAG
1 GCAGAGGCAGCAG
76894547 TGATGGCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.51, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGCGAGGGAG
Found at i:76894819 original size:42 final size:42
Alignment explanation
Indices: 76894773--76894857 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
76894763 AAGTATCATT
76894773 TAGATTTAATGTTTTTGGTTGTATTTTTTATGCTACATTTGC
1 TAGATTTAATGTTTTTGGTTGTATTTTTTATGCTACATTTGC
76894815 TAGATTTAATGTTTTTGGTTGTATTTTTTATGCTACATTTGC
1 TAGATTTAATGTTTTTGGTTGTATTTTTTATGCTACATTTGC
76894857 T
1 T
76894858 GTTTTTGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.19, C:0.07, G:0.16, T:0.58
Consensus pattern (42 bp):
TAGATTTAATGTTTTTGGTTGTATTTTTTATGCTACATTTGC
Found at i:76894886 original size:31 final size:31
Alignment explanation
Indices: 76894844--76894909 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
76894834 TGTATTTTTT
* *
76894844 ATGCTACATTTGCTGTTTTTGGTTAGATTTC
1 ATGCTACATTTGCTATTTTTGGTTAGATTTA
* *
76894875 ATGCTATATTTGCTATTTTTGGTTGGATTTA
1 ATGCTACATTTGCTATTTTTGGTTAGATTTA
76894906 ATGC
1 ATGC
76894910 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.52
Consensus pattern (31 bp):
ATGCTACATTTGCTATTTTTGGTTAGATTTA
Found at i:76896051 original size:13 final size:13
Alignment explanation
Indices: 76896033--76896058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76896023 TTTTTTAATA
76896033 TTATTTAAATTTT
1 TTATTTAAATTTT
76896046 TTATTTAAATTTT
1 TTATTTAAATTTT
76896059 ATAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTAAATTTT
Found at i:76896092 original size:21 final size:21
Alignment explanation
Indices: 76896021--76896094 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
76896011 TGTTAATTTC
*
76896021 ATTTTTTTAATATTATTTA-A
1 ATTTTTTTAATATTTTTTATA
* **
76896041 A-TTTTTTATTTAAATTTTATA
1 ATTTTTTTA-ATATTTTTTATA
**
76896062 ATTTAATTAATATTTTTTATA
1 ATTTTTTTAATATTTTTTATA
76896083 ATTTTTTTAATA
1 ATTTTTTTAATA
76896095 ATAGCCGGTA
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 21 0.52
22 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTTTAATATTTTTTATA
Found at i:76898137 original size:29 final size:29
Alignment explanation
Indices: 76898098--76898168 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
76898088 ATCATCTTGT
* *
76898098 CAAAATAATTTTTTCAGAACACATCA-TGG
1 CAAAATTATTTTTTCAAAACACAT-ATTGG
* * *
76898127 CAAATTTATTTTTTCAAAACCCATATTGT
1 CAAAATTATTTTTTCAAAACACATATTGG
76898156 CAAAATTATTTTT
1 CAAAATTATTTTT
76898169 CCTTGAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (29 bp):
CAAAATTATTTTTTCAAAACACATATTGG
Found at i:76898318 original size:65 final size:65
Alignment explanation
Indices: 76898200--76898470 Score: 375
Period size: 65 Copynumber: 4.2 Consensus size: 65
76898190 TAAAAAAATT
* * * * *
76898200 AAACCTTAAACAATTAAAAACCTAATACCCTAATTTATTTTTTTCTAATCCCTAATCAAACCCAA
1 AAACCCTAAACAATTAAAAAACTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
* *
76898265 AAACCCTAAACAATTAAAAAATTAATACCCTAATTTAAATTTTCCTAAACCCTAATCAAACCCCA
1 AAACCCTAAACAATTAAAAAACTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAA-CCCA
76898330 A
65 A
* * **
76898331 AAA-CCTAAACAATTAAAAACCTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAGCTGAA
1 AAACCCTAAACAATTAAAAAACTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
* * *
76898395 AAACCCTAAACAATT-AAAAACATAATACCCTAATTTAATTTTTCATAAACCCTAATCAAATCTA
1 AAACCCTAAACAATTAAAAAAC-TAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCA
76898459 A
65 A
*
76898460 AAAACCTAAAC
1 AAACCCTAAAC
76898471 CTAGGTCATA
Statistics
Matches: 183, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
64 11 0.06
65 164 0.90
66 8 0.04
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (65 bp):
AAACCCTAAACAATTAAAAAACTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
Found at i:76898348 original size:130 final size:130
Alignment explanation
Indices: 76898200--76898470 Score: 418
Period size: 130 Copynumber: 2.1 Consensus size: 130
76898190 TAAAAAAATT
* * *
76898200 AAACCTTAAACAATTAAAAACCTAATACCCTAATTTATTTTTTTCTAATCCCTAATCAAACCCAA
1 AAACC-TAAACAATTAAAAACCTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAA
* *
76898265 AAACCCTAAACAATTAAAAA-ATTAATACCCTAATTTAAATTTTCCTAAACCCTAATCAAACCCC
65 AAACCCTAAACAATTAAAAACA-TAATACCCTAATTTAAATTTTCATAAACCCTAATCAAACCCA
76898329 AA
129 AA
* **
76898331 AAACCTAAACAATTAAAAACCTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAGCTGAAA
1 AAACCTAAACAATTAAAAACCTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAAA
* * *
76898396 AACCCTAAACAATTAAAAACATAATACCCTAATTTAATTTTTCATAAACCCTAATCAAATCTAAA
66 AACCCTAAACAATTAAAAACATAATACCCTAATTTAAATTTTCATAAACCCTAATCAAACCCAAA
76898461 AAACCTAAAC
1 AAACCTAAAC
76898471 CTAGGTCATA
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
130 122 0.95
131 6 0.05
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (130 bp):
AAACCTAAACAATTAAAAACCTAATACCCTAATTTAATTTTTCCTAAACCCTAATCAAACCCAAA
AACCCTAAACAATTAAAAACATAATACCCTAATTTAAATTTTCATAAACCCTAATCAAACCCAAA
Found at i:76900746 original size:13 final size:14
Alignment explanation
Indices: 76900723--76900752 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
76900713 TAGGGATTTA
76900723 CAATATTACATAAT
1 CAATATTACATAAT
76900737 CAAT-TTACATAAT
1 CAATATTACATAAT
76900750 CAA
1 CAA
76900753 ATACAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
CAATATTACATAAT
Found at i:76903610 original size:18 final size:19
Alignment explanation
Indices: 76903587--76903624 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
76903577 TAAATATATT
*
76903587 ATTCAAGTCAA-TAATTAA
1 ATTCAAGTAAATTAATTAA
*
76903605 ATTCAATTAAATTAATTAA
1 ATTCAAGTAAATTAATTAA
76903624 A
1 A
76903625 AGACTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTCAAGTAAATTAATTAA
Found at i:76907780 original size:22 final size:22
Alignment explanation
Indices: 76907740--76907795 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
76907730 AATAAAATTG
*
76907740 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
76907760 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
76907782 TATTAATAATTTAT
1 AAATAATAAATTAT
76907796 TATATGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:76908977 original size:13 final size:13
Alignment explanation
Indices: 76908959--76908984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76908949 AACCCGTTAT
76908959 AAACTAAATTAAA
1 AAACTAAATTAAA
76908972 AAACTAAATTAAA
1 AAACTAAATTAAA
76908985 TAAAGTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACTAAATTAAA
Found at i:76911323 original size:24 final size:24
Alignment explanation
Indices: 76911296--76911406 Score: 186
Period size: 24 Copynumber: 4.6 Consensus size: 24
76911286 CTTATTATGT
* * *
76911296 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
76911320 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
76911344 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
76911368 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
76911392 TCGCACACATAGTGC
1 TCGCACACATAGTGC
76911407 ATTTGAGATA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:76913721 original size:27 final size:26
Alignment explanation
Indices: 76913638--76913717 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 26
76913628 TTGTCTTTAA
*
76913638 ATTAATTGTTTTAAATCATTTTATAT
1 ATTAATTATTTTAAATCATTTTATAT
* * **
76913664 ATTATTTTATTTTAAAATCGTTTTGCAT
1 ATTA-ATTATTTT-AAATCATTTTATAT
*
76913692 ATTAATTATTTTAAATTATTTTATAT
1 ATTAATTATTTTAAATCATTTTATAT
76913718 TATTGCCATT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 14 0.33
27 13 0.31
28 15 0.36
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTAATTATTTTAAATCATTTTATAT
Found at i:76915973 original size:2 final size:2
Alignment explanation
Indices: 76915953--76915999 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
76915943 TAATTATTAT
*
76915953 TA TA TC TA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76915995 TA TA T
1 TA TA T
76916000 GTTTTGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.02
2 39 0.95
3 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:76921016 original size:46 final size:46
Alignment explanation
Indices: 76920958--76921132 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
76920948 TGTAACCCGC
*
76920958 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCTTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
* * *
76921004 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-CT--TTCGCAT
* *
76921054 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
* *
76921097 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
76921133 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 60 0.56
47 27 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
Found at i:76921077 original size:93 final size:93
Alignment explanation
Indices: 76920965--76921136 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
76920955 CGCCCATAAG
*
76920965 CGAACTCGGACTCAACTCAACAAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76921030 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
76921058 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
76921123 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
76921137 TCAACCATCC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76923477 original size:20 final size:22
Alignment explanation
Indices: 76923437--76923478 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
76923427 TGTTTCGACA
*
76923437 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
76923459 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
76923479 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:76924091 original size:14 final size:13
Alignment explanation
Indices: 76924072--76924110 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
76924062 CCAGAAAAGT
76924072 AAATCATTTTCCA
1 AAATCATTTTCCA
76924085 GAAATCATTTTCCA
1 -AAATCATTTTCCA
76924099 AAAGTCATTTTC
1 AAA-TCATTTTC
76924111 AATGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCA
Found at i:76927599 original size:30 final size:30
Alignment explanation
Indices: 76927545--76927602 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
76927535 CACAGCCATG
* **
76927545 TCACACGGGCATGTGGCTTTCCCGTGTGAC
1 TCACACGGGCATGTGGATCACCCGTGTGAC
*
76927575 TCACATGGGCATGTGGATCACCCGTGTG
1 TCACACGGGCATGTGGATCACCCGTGTG
76927603 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.26
Consensus pattern (30 bp):
TCACACGGGCATGTGGATCACCCGTGTGAC
Found at i:76929471 original size:14 final size:14
Alignment explanation
Indices: 76929449--76929484 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
76929439 TAAGTCTTCA
*
76929449 AAAATAAATAAAGAT
1 AAAA-AAATAAAAAT
76929464 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
76929478 AAAAAAA
1 AAAAAAA
76929485 AATAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:76932590 original size:40 final size:40
Alignment explanation
Indices: 76932524--76932690 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
76932514 AAATTGAATG
* * *
76932524 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
76932563 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
76932603 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
76932643 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
76932683 ATATCCGG
1 ATATCCGG
76932691 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:76950830 original size:37 final size:37
Alignment explanation
Indices: 76950782--76950891 Score: 132
Period size: 37 Copynumber: 2.9 Consensus size: 37
76950772 ATATCACGAT
76950782 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAAC
**
76950819 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCAC
1 TTGCAC-AATGCCTTCGGGTCTTAGCCCGGA--TAGAAAC
* *
76950859 TAGCACAATTGCCTTCGGGTCTTAACCCGGATA
1 TTGCACAA-TGCCTTCGGGTCTTAGCCCGGATA
76950892 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
37 30 0.47
38 2 0.03
39 4 0.06
40 28 0.44
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (37 bp):
TTGCACAATGCCTTCGGGTCTTAGCCCGGATAGAAAC
Found at i:76950909 original size:40 final size:37
Alignment explanation
Indices: 76950785--76950932 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 37
76950775 TCACGATTTG
* *
76950785 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAACTTG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACTTC
* * **
76950822 CACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATA---ACTTC
* * *
76950862 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAACTTC
* *
76950899 CAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 CA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
76950933 CATTCAATTT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
37 33 0.37
38 2 0.02
39 1 0.01
40 54 0.60
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (37 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAACTTC
Found at i:76954814 original size:40 final size:40
Alignment explanation
Indices: 76954759--76955000 Score: 231
Period size: 40 Copynumber: 6.0 Consensus size: 40
76954749 TGAATGATAC
* * * *
76954759 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
*
76954799 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* * * *
76954839 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * *
76954879 CCGGACTAAGACCCAAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* * * *
76954919 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* * ** *
76954959 CTGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
76954999 CC
1 CC
76955001 AGTTAAATCC
Statistics
Matches: 163, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
39 7 0.04
40 147 0.90
41 9 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:76955000 original size:80 final size:80
Alignment explanation
Indices: 76954759--76954979 Score: 334
Period size: 80 Copynumber: 2.8 Consensus size: 80
76954749 TGAATGATAC
* * * * * * * *
76954759 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTCG
76954824 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* *
76954839 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGACTAAGACCCAAAGGCATTCG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTCG
76954904 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* *
76954919 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCTGGGTTAAGACCCGAAGGCA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCA
76954980 ATTGTGCTTG
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 127 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGTTATAT
Found at i:76960314 original size:27 final size:26
Alignment explanation
Indices: 76960279--76960390 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
76960269 AGCATGGCTG
* *
76960279 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
76960305 CCAGATACAGATAATAGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* * *
76960333 CCAGAACAAAAATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
76960360 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
76960387 CCAG
1 CCAG
76960391 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.68
28 17 0.24
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:76966693 original size:44 final size:44
Alignment explanation
Indices: 76966645--76967253 Score: 268
Period size: 44 Copynumber: 13.7 Consensus size: 44
76966635 AGCCACCAGC
*
76966645 CTTATCTTCCTGAGGTAGTAAGGGAGCAGACTAATAATTATAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGT
* * *
76966689 CTTATCTTCCTGAGGTAGCAAGGAAACAGACTAA-AGATTGTAGGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATA-ATTATA-GT
* * * ***** *
76966734 CTTATC-TCCTTGAGATAGC-AGTGGAGCAGATCGAAGACGGCGAAT
1 CTTATCTTCC-TGAGGTAGCAAG-GGAGCAGA-CTAATAATTATAGT
** * * * *** * *
76966779 CTTATCTTCCCAAGGTAGTAGGGGAGCAGA-T-TTCAGCCACCAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAT-AATTA-TAGT
* *
76966823 CTTATCTTCCTGAGGCAGCAAGGGAGCAGACTAATGATTATAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGT
* * *
76966867 CTTATCTTCCTGAGGTAGCAATGGAGCAGACTGAA-GATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACT-AATAATTATAG-T
* * * * * * *
76966912 CTTATCTCCCT-AAGTAG-TAGTGGAGCAGATCGAA-GATGGCA-AAT
1 CTTATCTTCCTGAGGTAGCAAG-GGAGCAGA-CTAATAAT--TATAGT
* * * * * * * *
76966956 CTTATCTT-TTCGAGGTAGCAGGGGAGCTGA-T-TTCAGTCACCAGC
1 CTTATCTTCCT-GAGGTAGCAAGGGAGCAGACTAAT-AATTA-TAGT
* *
76967000 CTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGT
* * *
76967044 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAA-GATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACT-AATAATTATAG-T
* * * * * * *
76967089 CTTATCTCCCT-AAGTAG-TAGTGGAGCAGATTGAAGACAATA-AAT
1 CTTATCTTCCTGAGGTAGCAAG-GGAGCAGACT-AATA-ATTATAGT
* * * *** * *
76967133 CTTATCTTCCCGAGGTAGCAGGGGAGCAGA-T-TTCAGCCACCAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAT-AATTA-TAGT
* *
76967177 CTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAATGATTATAGT
1 CTTATCTTCCTGAGGTAGCAAGGG--AGCAGACTAATAATTATAGT
76967223 CTTA-CTTCCTGAGGTAGCAAGGGAGCAGACT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACT
76967254 GAAGATTGTA
Statistics
Matches: 415, Mismatches: 108, Indels: 85
0.68 0.18 0.14
Matches are distributed among these distances:
42 3 0.01
43 14 0.03
44 248 0.60
45 121 0.29
46 25 0.06
47 3 0.01
48 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATAATTATAGT
Found at i:76966716 original size:178 final size:178
Alignment explanation
Indices: 76966372--76967475 Score: 1463
Period size: 178 Copynumber: 6.2 Consensus size: 178
76966362 AGTGAATCCA
* * * * *
76966372 TAGATCTTATCTCCCTGAGATAGCATTGGAGTAGATCGAAGACGGTGAATCTTGTCTCCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* ** * * *
76966437 TAGCAGGGGAGCAAATTTTTGGCCACCAGCCTTAAC-TCTCTGAGGTAGCAAGAGAGCA-AGTTG
66 TAGCAGGGGAGCAGA-TTTCAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAGCAGA-CT-
* * * * * *
76966500 AA-GATTGTAGTGTTATCTTCTTGAGGTAGAAAGGAAACAGACTAAAGATTG
127 AATGATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * *
76966551 TAGGTCTTATCTGCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * *
76966616 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGTAAGGGAGCAGACTAATA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* *
76966681 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTAAAGATTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * *
76966729 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* *
76966794 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGCAGCAAGGGAGCAGACTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
76966859 ATTATAGTCTTATCTTCCTGAGGTAGCAATGG-AGCAGACTGAAGATTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAA-GGAAGCAGACTGAAGATTG
* * * * **
76966907 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTTCGAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * *
76966971 TAGCAGGGGAGCTGATTTCAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
* *
76967036 ATTATAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGATTG
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * ****
76967084 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGCAGATTGAAGACAATAAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
*
76967148 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG--AGCAGACTAA
*
76967213 TGATTATAGTCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTG
129 TGATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * * *
76967262 TAGATCTTATCTCCCTAAG-TAGTAATGGGGCAGATCGAAGACGGCGAATCTTATCTTCCCGGGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
* * * * *
76967326 TAGGAGGGAAGCA-AATCCTAGCCACCAGCCTTATCTTCCTGTGGTAGCAAGGGAGCAGACTAAT
66 TAGCAGGGGAGCAGATTTC-AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAT
* * * *
76967390 GATTGTAGTCTTATCTTTCTGAGTTAGCAAGGAAGCAGACTGAAGATGG
130 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
*
76967439 TAGATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATC
1 TAGATCTTATCTCCCTGAGA-TAGCAGTGGAGCAGATC
76967476 AAAGCCACAA
Statistics
Matches: 837, Mismatches: 77, Indels: 23
0.89 0.08 0.02
Matches are distributed among these distances:
176 24 0.03
177 304 0.36
178 411 0.49
179 98 0.12
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (178 bp):
TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
Found at i:76966785 original size:134 final size:133
Alignment explanation
Indices: 76966645--76966896 Score: 303
Period size: 134 Copynumber: 1.9 Consensus size: 133
76966635 AGCCACCAGC
** ** * * *
76966645 CTTATCTTCCTGAGGTAGTAAGGGAGCAGACTAAT-AATTA-TAGTCTTATCTTCCTGAGGTAGC
1 CTTATCTTCCCAAGGTAGTAAGGGAGCAGA-T-ATCAACCACCAGCCTTATCTTCCTGAGGCAGC
* *
76966708 AAGGAAACAGACTAAAGATTGTAGGTCTTATC-TCCTTGAGATAGCAGTGGAGCAGATCGAAGAC
64 AAGGAAACAGACTAAAGATTATA-GTCTTATCTTCC-TGAGATAGCAATGGAGCAGATCGAAGAC
76966772 GGCGAAT
127 GGCGAAT
* * *
76966779 CTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGCAGCAA
1 CTTATCTTCCCAAGGTAGTAAGGGAGCAGATATCAACCACCAGCCTTATCTTCCTGAGGCAGCAA
* * * *
76966844 GGGAGCAGACTAATGATTATAGTCTTATCTTCCTGAGGTAGCAATGGAGCAGA
66 GGAAACAGACTAAAGATTATAGTCTTATCTTCCTGAGATAGCAATGGAGCAGA
76966897 CTGAAGATTG
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
132 1 0.01
133 29 0.29
134 69 0.70
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (133 bp):
CTTATCTTCCCAAGGTAGTAAGGGAGCAGATATCAACCACCAGCCTTATCTTCCTGAGGCAGCAA
GGAAACAGACTAAAGATTATAGTCTTATCTTCCTGAGATAGCAATGGAGCAGATCGAAGACGGCG
AAT
Found at i:76966960 original size:133 final size:132
Alignment explanation
Indices: 76966688--76967494 Score: 321
Period size: 133 Copynumber: 6.1 Consensus size: 132
76966678 ATAATTATAG
* * * * *
76966688 TCTTATCTTCCTGAGGTAGCAAGGAAACAGACTAAAGATTGTAGGTCTTATC-TCCTTGAGATAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATA-GTCTTATCTTCC-TGAGGTAG
* * ** ***
76966752 CAGTGGAGCAGA-TCGAAGA-CGGCGAATCTTATCTTCCC-AAGGTAGTAGGGGAGCAGATTTCA
64 CAATGGAGCAGACT-GAAGATTGTAG-ATCTTATC-TCCCTAA-GTAGTAGGGGAGCAGATCGAA
* *
76966814 GCCACCAG
125 GCCACAAA
* *
76966822 CCTTATCTTCCTGAGGCAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTTCCTGAGGTAGCA
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTTCCTGAGGTAGCA
* ***
76966887 ATGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGC
66 ATGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGGGGAGCAGATCGAAG-CCAC
76966952 AAA
130 AAA
* * * * * * * *
76966955 TCTTATCTT-TTCGAGGTAGCAGGGGAGCTGA-T-TTCAGTCACCAGCCTTATCTTCCTGAGGTA
1 TCTTATCTTCCT-GAGGTAGCAAGGGAGCAGACTAATGA-TTA-TAGTCTTATCTTCCTGAGGTA
* * * * * *
76967017 GCAAGGGAGCAGGCT-AATGATTATAG-TCTTATCTTCCTAAGGTAGCAAGGGAGCAGA-CTGAA
63 GCAATGGAGCAGACTGAA-GATTGTAGATCTTATCTCCCTAA-GTAGTAGGGGAGCAGATC-GAA
**** *
76967079 GATTGTAGA
125 G-CCACAAA
* * * * ** * *
76967088 TCTTATCTCCCT-AAGTAG-TAGTGGAGCAGATTGAA-GACAATAAATCTTATCTTCCCGAGGTA
1 TCTTATCTTCCTGAGGTAGCAAG-GGAGCAGACT-AATGATTAT-AGTCTTATCTTCCTGAGGTA
** * ** ***** * * * * * * *
76967150 GCAGGGGAGCAGATTTCAGCCACCAG-CCTTATCTTCCTGAGGTAGCAAGGGAAAGCAG-GCTAA
63 GCAATGGAGCAGACTGAAGATTGTAGATCTTATCTCCCT-AAGTAG-TAGGG-GAGCAGATCGAA
* *
76967213 TG--ATTATAG
125 -GCCA-CA-AA
* * *
76967222 TCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAA-GATTGTAGATCTTATCTCCCT-AAGTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACT-AATGATTATAG-TCTTATCTTCCTGAGGTAG
* * * ** *** * * * **
76967284 TAATGGGGCAGA-TCGAAGA-CGGCGAATCTTATCTTCCCGGGGTAGGAGGGAAGCAAATCCTAG
64 CAATGGAGCAGACT-GAAGATTGTAG-ATCTTATC-TCCCTAAGTAGTAGGGGAGCAGATCGAAG
* *
76967347 CCACCAG
126 CCACAAA
* * * * *
76967354 CCTTATCTTCCTGTGGTAGCAAGGGAGCAGACTAATGATTGTAGTCTTATCTTTCTGAGTTAGCA
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTTCCTGAGGTAGCA
* * * * *
76967419 A-GGAAGCAGACTGAAGATGGTAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCA
66 ATGG-AGCAGACTGAAGATTGTAGATCTTATCTCCCT-AAGTAGTAGGGGAGCAGATCGAAGCCA
76967483 C-AA
129 CAAA
76967486 TCCTTATCT
1 T-CTTATCT
76967495 CTCTGAAGTT
Statistics
Matches: 502, Mismatches: 128, Indels: 87
0.70 0.18 0.12
Matches are distributed among these distances:
131 3 0.01
132 87 0.17
133 298 0.59
134 102 0.20
135 12 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (132 bp):
TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTTCCTGAGGTAGCA
ATGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGGGGAGCAGATCGAAGCCACA
AA
Found at i:76967042 original size:355 final size:354
Alignment explanation
Indices: 76966372--76967475 Score: 1484
Period size: 355 Copynumber: 3.1 Consensus size: 354
76966362 AGTGAATCCA
* * * *
76966372 TAGATCTTATCTCCCTGAGATAGCATTGGAGTAGATCGAAGACGGTGAATCTTGTCTCCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGG
* ** * * *
76966437 TAGCAGGGGAGCAAATTTTTGGCCACCAGCCTTAAC-TCTCTGAGGTAGCAAGAGAGCA-AGTTG
66 TAGCAGGGGAGCAGA-TTTCAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAGCAGA-CT-
* * * * * *
76966500 AA-GATTGTAGTGTTATCTTCTTGAGGTAG-AAAGGAAACAGACTAAAGATTGTAGGTCTTATCT
127 AATGATTATAGTCTTATCTTCCTGAGGTAGCAAAGG-AGCAGACTGAAGATTGTAGATCTTATCT
* * * * * *
76966563 GCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGGAGC
191 CCCTAAG-TAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGC
* *
76966628 AGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGTAAGGGAGCAGACTAATAATTATAGTCTTA
255 -GATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTA
* *
76966693 TCTTCCTGAGGTAGCAAGGAAACAGACTAAAGATTG
319 TCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * *
76966729 TAGGTCTTATCTCCTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGG
* *
76966794 TAGTAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGCAGCAAGGGAGCAGACTAATG
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
*
76966859 ATTATAGTCTTATCTTCCTGAGGTAGCAATGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTA
131 ATTATAGTCTTATCTTCCTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTA
* * **
76966924 AGTAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTTCGAGGTAGCAGGGGAGCTGATTT
196 AGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGC-GATTT
* *
76966989 CAGTCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGTCTTATCTTCC
260 CAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTTCC
* *
76967054 TAAGGTAGCAAGGGAGCAGACTGAAGATTG
325 TGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * ** *
76967084 TAGATCTTATCTCCCTAAG-TAGTAGTGGAGCAGATTGAAGACAATAAATCTTATCTTCCCGAGG
1 TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGG
*
76967148 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAA
66 TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGG--AGCAGACTAA
*
76967213 TGATTATAGTCTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTATCTCCC
129 TGATTATAGTCTTATCTTCCTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCCC
* * * * * * *
76967277 TAAGTAGTAATGGGGCAGATCGAAGACGGCGAATCTTATCTTCCCGGGGTAGGAGGGAAGCAAAT
194 TAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCGATT
* * *
76967342 CCTAGCCACCAGCCTTATCTTCCTGTGGTAGCAAGGGAGCAGACTAATGATTGTAGTCTTATCTT
259 TC-AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTT
* * *
76967407 TCTGAGTTAGCAAGGAAGCAGACTGAAGATGG
323 CCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
*
76967439 TAGATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATC
1 TAGATCTTATCTCCCTGAGA-TAGCAGTGGAGCAGATC
76967476 AAAGCCACAA
Statistics
Matches: 657, Mismatches: 81, Indels: 19
0.87 0.11 0.03
Matches are distributed among these distances:
354 92 0.14
355 363 0.55
356 125 0.19
357 77 0.12
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (354 bp):
TAGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATG
ATTATAGTCTTATCTTCCTGAGGTAGCAAAGGAGCAGACTGAAGATTGTAGATCTTATCTCCCTA
AGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCGATTTC
AGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAATGATTATAGTCTTATCTTCCT
GAGGTAGCAAGGAAGCAGACTGAAGATTG
Found at i:76967403 original size:44 final size:45
Alignment explanation
Indices: 76967355--76967456 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
76967345 AGCCACCAGC
* * *
76967355 CTTATCTTCCTGTGGTAGCAAGGGAGCAGACT-AATGATTGTAG-T
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAA-GATGGTAGAT
* *
76967399 CTTATCTTTCTGAGTTAGCAAGGAAGCAGACTGAAGATGGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATGGTAGAT
*
76967444 CTTATCTCCCTGA
1 CTTATCTTCCTGA
76967457 AGTTGCAGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 35 0.71
45 14 0.29
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (45 bp):
CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATGGTAGAT
Found at i:76967472 original size:45 final size:44
Alignment explanation
Indices: 76966645--76967473 Score: 123
Period size: 44 Copynumber: 18.7 Consensus size: 44
76966635 AGCCACCAGC
* * * * **
76966645 CTTATCTTCCTGAGGTAGTAAGGGAGCAGACTAATAATTATAGT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACTAATGATGGTAGT
* * * * * *
76966689 CTTATCTTCCTGAGGTAGCAAGGAAACAGACTAAAGATTGTAGGT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACTAATGATGGTA-GT
* * * * * *
76966734 CTTATCTCCTTGAGATAGC-AGTGGAGCAGATCGAA-GACGGCGAAT
1 CTTATCTCCCTGAGTTAGCAAG-GGAGCAGA-CTAATGATGG-TAGT
* * * * * * ***** *
76966779 CTTATCTTCCC-AAGGTAGTAGGGGAGCAGATTTCA-GCCACCAGC
1 CTTATC-TCCCTGAGTTAGCAAGGGAGCAGA-CTAATGATGGTAGT
* ** **
76966823 CTTATCTTCCTGAGGCAGCAAGGGAGCAGACTAATGATTATAGT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACTAATGATGGTAGT
* * * *
76966867 CTTATCTTCCTGAGGTAGCAATGGAGCAGACTGAA-GATTGTAGAT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACT-AATGATGGTAG-T
* * * * *
76966912 CTTATCTCCCTAAG-TAG-TAGTGGAGCAGATCGAA-GATGGCAAAT
1 CTTATCTCCCTGAGTTAGCAAG-GGAGCAGA-CTAATGATGG-TAGT
** * * * * * *** *
76966956 CTTATCT-TTTCGAGGTAGCAGGGGAGCTGA-T-TTCAGTCACCAGC
1 CTTATCTCCCT-GAGTTAGCAAGGGAGCAGACTAATGA-T-GGTAGT
* * * **
76967000 CTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTAATGATTATAGT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACTAATGATGGTAGT
* * * *
76967044 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAA-GATTGTAGAT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACT-AATGATGGTAG-T
* * * *** *
76967089 CTTATCTCCCTAAG-TAG-TAGTGGAGCAGATTGAA-GACAATAAAT
1 CTTATCTCCCTGAGTTAGCAAG-GGAGCAGACT-AATGATGGT-AGT
* * * * ***** *
76967133 CTTATCTTCCC-GAGGTAGCAGGGGAGCAGATTTCA-GCCACCAGC
1 CTTATC-TCCCTGAGTTAGCAAGGGAGCAGA-CTAATGATGGTAGT
* * * **
76967177 CTTATCTTCCTGAGGTAGCAAGGGAAAGCAGGCTAATGATTATAGT
1 CTTATCTCCCTGAGTTAGCAAGGG--AGCAGACTAATGATGGTAGT
* * *
76967223 CTTA-CTTCCTGAGGTAGCAAGGGAGCAGACTGAA-GATTGTAGAT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACT-AATGATGGTAG-T
* * * * * *
76967267 CTTATCTCCCTAAG-TAGTAATGGG-GCAGATCGAA-GACGGCGAAT
1 CTTATCTCCCTGAGTTAGCAA-GGGAGCAGA-CTAATGATGG-TAGT
* * * * ***** *
76967311 CTTATCTTCCC-GGGGTAG-GAGGGAAGCAAATCCT-A-GCCACCAGC
1 CTTATC-TCCCTGAGTTAGCAAGGG-AGCAGA--CTAATGATGGTAGT
* * * *
76967355 CTTATCTTCCTGTGGTAGCAAGGGAGCAGACTAATGATTGTAGT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACTAATGATGGTAGT
** *
76967399 CTTATCTTTCTGAGTTAGCAAGGAAGCAGACTGAA-GATGGTAGAT
1 CTTATCTCCCTGAGTTAGCAAGGGAGCAGACT-AATGATGGTAG-T
76967444 CTTATCTCCCTGAAGTT-GC-AGTGGAGCAGA
1 CTTATCTCCCTG-AGTTAGCAAG-GGAGCAGA
76967474 TCAAAGCCAC
Statistics
Matches: 583, Mismatches: 149, Indels: 105
0.70 0.18 0.13
Matches are distributed among these distances:
42 2 0.00
43 34 0.06
44 326 0.56
45 190 0.33
46 31 0.05
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAGTTAGCAAGGGAGCAGACTAATGATGGTAGT
Found at i:76967827 original size:13 final size:13
Alignment explanation
Indices: 76967809--76967834 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76967799 GGCCCATTAT
76967809 AAACCAAATTAAA
1 AAACCAAATTAAA
76967822 AAACCAAATTAAA
1 AAACCAAATTAAA
76967835 TAAAGTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
AAACCAAATTAAA
Found at i:76969552 original size:27 final size:26
Alignment explanation
Indices: 76969453--76969548 Score: 79
Period size: 26 Copynumber: 3.7 Consensus size: 26
76969443 TATATGTTAG
* *
76969453 TTTAAATTGTCTTTA-A-ATTAATTGT
1 TTTAAATTAT-TTTATATATTAATTAT
* * *
76969478 TTTAAATCATTTTATATATTACTTTTT
1 TTTAAATTATTTTATATATTA-ATTAT
* **
76969505 TTTAAAATTGTTTTGCATATTAATTAT
1 TTT-AAATTATTTTATATATTAATTAT
76969532 TTTAAATTATTTTATAT
1 TTTAAATTATTTTATAT
76969549 TATTTCCATT
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
24 4 0.07
25 9 0.17
26 15 0.28
27 12 0.22
28 14 0.26
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTAAATTATTTTATATATTAATTAT
Found at i:76975652 original size:79 final size:81
Alignment explanation
Indices: 76975551--76975735 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
76975541 ACGACTCGCT
** * *
76975551 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
76975614 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
76975631 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
76975695 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
76975711 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
76975736 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:76975735 original size:40 final size:39
Alignment explanation
Indices: 76975544--76975735 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
76975534 GGATATAACG
* ** * *
76975544 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
76975584 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
76975624 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
76975663 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
76975703 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
76975736 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:76982185 original size:44 final size:43
Alignment explanation
Indices: 76982122--76982205 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 43
76982112 ACATGTATCG
76982122 CATCCATAATGAACTCGGACCAAATCAACGAGCTCAAATGCTCA
1 CATCCATAATGAACTCGGACC-AATCAACGAGCTCAAATGCTCA
* *
76982166 CATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
1 CATCCATAATGAACTCGGACCAATCAACGAGCTCAAATGC
76982206 CATATATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 17 0.45
44 21 0.55
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCAATCAACGAGCTCAAATGCTCA
Found at i:76982467 original size:14 final size:16
Alignment explanation
Indices: 76982435--76982471 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
76982425 ATTTACATAA
*
76982435 CATATATCACCTATTT
1 CATATATCACCTATGT
76982451 CATATATCA-CT-TGT
1 CATATATCACCTATGT
76982465 CATATAT
1 CATATAT
76982472 TATCATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:76982954 original size:20 final size:18
Alignment explanation
Indices: 76982917--76982967 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
76982907 CTATAACAAC
76982917 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
76982934 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
76982954 TTACAACTTTACAA
1 TCACAA-TTTACAA
76982968 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:76989639 original size:26 final size:26
Alignment explanation
Indices: 76989609--76989660 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
76989599 CACTAAAGAT
*
76989609 TCACTCAAATCCCTCAAAGTGTTTAA
1 TCACTCAAATCACTCAAAGTGTTTAA
76989635 TCACTCAAATCACTCAAAGTGTTTAA
1 TCACTCAAATCACTCAAAGTGTTTAA
76989661 GGTTCACGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (26 bp):
TCACTCAAATCACTCAAAGTGTTTAA
Found at i:76990991 original size:12 final size:12
Alignment explanation
Indices: 76990951--76991008 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
76990941 TAAGATTAAG
76990951 AAAATAACAATA
1 AAAATAACAATA
*
76990963 AAAAGAAC--TA
1 AAAATAACAATA
76990973 AAAATAACAATA
1 AAAATAACAATA
*
76990985 AACATAA-ACATA
1 AAAATAACA-ATA
*
76990997 AACATAA-AATA
1 AAAATAACAATA
76991008 A
1 A
76991009 GAAGAAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.22
11 5 0.12
12 26 0.65
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAATAACAATA
Found at i:76991019 original size:6 final size:6
Alignment explanation
Indices: 76991010--76991056 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
76991000 ATAAAATAAG
76991010 AAGAAA AAGAAA AAG--A AA-AAA AAGAAA AAGAAA AA-AAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
76991054 AAG
1 AAG
76991057 GAACAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.08
5 8 0.22
6 26 0.70
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:76991031 original size:15 final size:15
Alignment explanation
Indices: 76991007--76991047 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
76990997 AACATAAAAT
*
76991007 AAGAAGAAAAAGAAA
1 AAGAAAAAAAAGAAA
76991022 AAGAAAAAAAAGAAA
1 AAGAAAAAAAAGAAA
76991037 AAGAAAAAAAA
1 AAGAAAAAAAA
76991048 AAGAAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAGAAA
Found at i:76991034 original size:21 final size:20
Alignment explanation
Indices: 76991010--76991049 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
76991000 ATAAAATAAG
76991010 AAGAAAAAGAAAAAGAAAAAA
1 AAGAAAAAGAAAAA-AAAAAA
76991031 AAGAAAAAGAAAAAAAAAA
1 AAGAAAAAGAAAAAAAAAA
76991050 GAAAAAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAAAAAA
Found at i:76995512 original size:15 final size:16
Alignment explanation
Indices: 76995482--76995515 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
76995472 TCAATCATGC
*
76995482 AAAAATAATAATGAAG
1 AAAAATAATAAGGAAG
76995498 AAAAATAA-AAGGAAG
1 AAAAATAATAAGGAAG
76995513 AAA
1 AAA
76995516 GAAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (16 bp):
AAAAATAATAAGGAAG
Found at i:76995985 original size:4 final size:4
Alignment explanation
Indices: 76995942--76995993 Score: 52
Period size: 4 Copynumber: 12.0 Consensus size: 4
76995932 ATAACGTAAT
76995942 TAAA TAAA TGAAA TAATCA TAAA TAGAA T-AA TAGAA TAAA TAAA TAAA
1 TAAA TAAA T-AAA TAA--A TAAA TA-AA TAAA TA-AA TAAA TAAA TAAA
76995990 TAAA
1 TAAA
76995994 AATAAAATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
3 3 0.07
4 24 0.57
5 11 0.26
6 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:77001367 original size:6 final size:5
Alignment explanation
Indices: 77001343--77001430 Score: 79
Period size: 5 Copynumber: 16.2 Consensus size: 5
77001333 TGAATCCTCC
77001343 TATTT TATTT TA-TT TATTCT TATTCT TATTT TATTT TATTTT TATTTT
1 TATTT TATTT TATTT TATT-T TATT-T TATTT TATTT TA-TTT TA-TTT
* *
77001391 TCTTT TGACTTT TATTT TCATTT CAATTT TATTT TATTT T
1 TATTT T-A-TTT TATTT T-ATTT -TATTT TATTT TATTT T
77001431 GAAAGACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.06
5 34 0.47
6 30 0.42
7 4 0.06
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:77001387 original size:22 final size:21
Alignment explanation
Indices: 77001343--77001430 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 21
77001333 TGAATCCTCC
*
77001343 TATTTTATTTTA-TTTATTCT
1 TATTTTATTTTATTTTATTTT
77001363 TATTCTTATTTTATTTTATTTT
1 TATT-TTATTTTATTTTATTTT
*
77001385 TATTTTTCTTTTGACTTTTATTTT
1 TA-TTTTATTTT-A-TTTTATTTT
* *
77001409 CATTTCAATTTTATTTTATTTT
1 TATTT-TATTTTATTTTATTTT
77001431 GAAAGACATA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.07
21 8 0.14
22 24 0.42
23 7 0.12
24 14 0.25
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.74
Consensus pattern (21 bp):
TATTTTATTTTATTTTATTTT
Found at i:77004348 original size:13 final size:13
Alignment explanation
Indices: 77004330--77004354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77004320 TTAAATTAGT
77004330 TAATTAGTTTAAA
1 TAATTAGTTTAAA
77004343 TAATTAGTTTAA
1 TAATTAGTTTAA
77004355 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:77004869 original size:13 final size:13
Alignment explanation
Indices: 77004851--77004878 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77004841 AGTGATTGTG
77004851 TTTGAATCTAAAA
1 TTTGAATCTAAAA
77004864 TTTGAATCTAAAA
1 TTTGAATCTAAAA
77004877 TT
1 TT
77004879 ACTAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTTGAATCTAAAA
Found at i:77013862 original size:93 final size:93
Alignment explanation
Indices: 77013747--77013917 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
77013737 GCCCCTAAGT
* *
77013747 GAACTCGGACTCAAGTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
77013811 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
77013840 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77013905 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77013918 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77013912 original size:46 final size:45
Alignment explanation
Indices: 77013744--77013914 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 45
77013734 CCCGCCCCTA
* * *
77013744 AGTGAACTCGGACTCAAGTCAACGAGCTCAGG-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
*
77013789 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
77013837 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
77013882 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
77013915 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 56 0.53
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:77014370 original size:30 final size:30
Alignment explanation
Indices: 77014336--77014396 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
77014326 CATTTAATAC
77014336 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
77014366 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
77014396 A
1 A
77014397 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:77016462 original size:92 final size:92
Alignment explanation
Indices: 77016340--77016514 Score: 223
Period size: 92 Copynumber: 1.9 Consensus size: 92
77016330 AGCATATATG
* * *
77016340 TGCCGATGCCATGTCCTAGACATGGTCTTACACT-GACAAATCTCAT-A-GTC-GATGCATGTCC
1 TGCCGATGCCATGTCCCAAACATGGCCTTACACTAG-C---TCTCATAATGTCTGATGCATGTCC
*
77016401 CAGACATGTCTTACACTAGCAGTTGCCTCAA
62 CAGACATATCTTACACTAGCAGTTGCCTCAA
*
77016432 TGCCGATGCCATGTCCCAAATATGGCCTTACACTAGCTCTCATAATGTGTCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAAACATGGCCTTACACTAGCTCTCATAA--TGTCTGATGCATGTCCCA
77016497 GACATATCTTACACTAGC
64 GACATATCTTACACTAGC
77016515 TCACACAAGT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
89 6 0.08
90 1 0.01
92 31 0.43
93 4 0.06
94 30 0.42
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAAACATGGCCTTACACTAGCTCTCATAATGTCTGATGCATGTCCCAGA
CATATCTTACACTAGCAGTTGCCTCAA
Found at i:77021845 original size:19 final size:17
Alignment explanation
Indices: 77021800--77021836 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
77021790 AATTTGTTAT
*
77021800 TACGGAAATATATTCGA
1 TACGAAAATATATTCGA
*
77021817 TACGAAAATATATTTGA
1 TACGAAAATATATTCGA
77021834 TAC
1 TAC
77021837 TTGAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TACGAAAATATATTCGA
Found at i:77023856 original size:39 final size:40
Alignment explanation
Indices: 77023813--77023948 Score: 127
Period size: 39 Copynumber: 3.5 Consensus size: 40
77023803 GCTCGAAGCT
* * * *
77023813 TGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 TGCGGGACCTTAAGCCCGGACATAATTCCAACACATAGCC
* *
77023852 TGC-GGACCTTAAGTCCGGATATAATTCCAACACATAGCC
1 TGCGGGACCTTAAGCCCGGACATAATTCCAACACATAGCC
* ** * *
77023891 TGC-GGACCCTAAGTTCGGATATAATTCCAGCACATAGCC
1 TGCGGGACCTTAAGCCCGGACATAATTCCAACACATAGCC
* *
77023930 TGC-GGACCCTAAGTCCGGA
1 TGCGGGACCTTAAGCCCGGA
77023949 TATACATCAC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 3 0.03
39 83 0.97
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
TGCGGGACCTTAAGCCCGGACATAATTCCAACACATAGCC
Found at i:77023949 original size:39 final size:39
Alignment explanation
Indices: 77023827--77023952 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
77023817 GGACTTTAGC
* * * *
77023827 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
77023866 CCGGATATAATTCCAACACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
77023905 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
77023944 CCGGATATA
1 CCGGATATA
77023953 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:77031063 original size:46 final size:46
Alignment explanation
Indices: 77030992--77031263 Score: 253
Period size: 46 Copynumber: 5.7 Consensus size: 46
77030982 TGATATGTGT
* *
77030992 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCCACAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAAA
* * *** **
77031038 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTTGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CACAG-TATGAAA
* * *
77031086 GCCAGTGTAAGACATGTCTTGGACATGCATCAGCCACAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAAA
* * *
77031132 GCTAGTGTAAGACATATCTGGGACATGCATCGGCCTCACGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-G-TATGA-AA
* **
77031180 GCTAGTGTAAGACCTGTCTGGGACATGGCATGGGCCTCACTA-TATGAAA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAG-C-CAC-AGTATGAAA
77031229 TG-TAGTGTAAGATCATGTCTGGGACATGGCATCAG
1 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG
77031264 TATCTTAACC
Statistics
Matches: 184, Mismatches: 30, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
46 68 0.37
47 6 0.03
48 64 0.35
49 21 0.11
50 22 0.12
51 2 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAAA
Found at i:77031144 original size:94 final size:94
Alignment explanation
Indices: 77030995--77031261 Score: 317
Period size: 94 Copynumber: 2.8 Consensus size: 94
77030985 TATGTGTGCT
*
77030995 AGTGTAAGACATGTC-TGAGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTTG-GACATGCATCAGCCACAGTATGAGAGCTAGTGTAAGACATGTCTGG
* * **
77031059 GACATGCATCGGCTTTGA-GATATTTAAGCC
65 GACATGCATCGGC-CTCACGATATACAAGCC
*
77031089 AGTGTAAGACATGTCTTGGACATGCATCAGCCACAGTATGAGAGCTAGTGTAAGACATATCTGGG
1 AGTGTAAGACATGTCTTGGACATGCATCAGCCACAGTATGAGAGCTAGTGTAAGACATGTCTGGG
*
77031154 ACATGCATCGGCCTCACGATATACAAGCT
66 ACATGCATCGGCCTCACGATATACAAGCC
* * ** *
77031183 AGTGTAAGACCTGTCTGGGACATGGCATGGGCCTCACTA-TATGAAATG-TAGTGTAAGATCATG
1 AGTGTAAGACATGTCTTGGACAT-GCATCAG-C-CAC-AGTATGAGA-GCTAGTGTAAGA-CATG
77031246 TCTGGGACATGGCATC
60 TCTGGGACAT-GCATC
77031262 AGTATCTTAA
Statistics
Matches: 151, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
93 2 0.01
94 102 0.68
95 7 0.05
96 1 0.01
97 19 0.13
98 15 0.10
99 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTTGGACATGCATCAGCCACAGTATGAGAGCTAGTGTAAGACATGTCTGGG
ACATGCATCGGCCTCACGATATACAAGCC
Found at i:77034040 original size:40 final size:39
Alignment explanation
Indices: 77033849--77034040 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 39
77033839 AGATATAACG
* ** * *
77033849 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * * *
77033889 ACTCGCACGAATGCCTTCGGGAGTTAACTCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
77033929 ACTTGCACAAATGCATTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
77033968 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
77034008 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
77034041 CATCATTCGA
Statistics
Matches: 115, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
38 2 0.02
39 27 0.23
40 76 0.66
41 10 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:77036645 original size:27 final size:27
Alignment explanation
Indices: 77036613--77036675 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
77036603 AAAGAATAAT
*
77036613 AAAACATCTCAGAAGAATAATGAATAC
1 AAAACATCTCAAAAGAATAATGAATAC
*
77036640 AAAACATTTCAAAAGAATAATGAATAC
1 AAAACATCTCAAAAGAATAATGAATAC
77036667 AAAACATCT
1 AAAACATCT
77036676 TAGATTTGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.21
Consensus pattern (27 bp):
AAAACATCTCAAAAGAATAATGAATAC
Found at i:77039382 original size:93 final size:93
Alignment explanation
Indices: 77039223--77039423 Score: 258
Period size: 93 Copynumber: 2.2 Consensus size: 93
77039213 CGGCCATGTT
* * *
77039223 GCACGGCCGTGTCAATCTTCGCTCGCCTCTCCAACACCCATGTATGGAGGCACACGCCCGTGTTA
1 GCACGGTCGTGTCAATCTTCGCTAGCCTCTCCAACACCCATGTATGCAGGCACACGCCCGTGTTA
* *
77039288 TTTTGATAGGCTCGACCACGATCGGTGG
66 TTTTGACAGGCTCGACCACGATAGGTGG
* * * * * * ** *
77039316 GCACGGTCTTGTCAATCTTCGTTATCCTCTCCCACGCCCGTGTATGCAGGTGCATGCCCGTGTTA
1 GCACGGTCGTGTCAATCTTCGCTAGCCTCTCCAACACCCATGTATGCAGGCACACGCCCGTGTTA
*
77039381 TTTTGACAGGCTCGACCACGGTAGGTGG
66 TTTTGACAGGCTCGACCACGATAGGTGG
*
77039409 GCATGGTCGTGTCAA
1 GCACGGTCGTGTCAA
77039424 ACGCCCGTGT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.26
Consensus pattern (93 bp):
GCACGGTCGTGTCAATCTTCGCTAGCCTCTCCAACACCCATGTATGCAGGCACACGCCCGTGTTA
TTTTGACAGGCTCGACCACGATAGGTGG
Found at i:77050904 original size:19 final size:19
Alignment explanation
Indices: 77050880--77050921 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
77050870 CATTGAATGT
*
77050880 TGGCCTATAATGGTTATGA
1 TGGCCTATAATGATTATGA
* *
77050899 TGGCCTATGATGATTATGT
1 TGGCCTATAATGATTATGA
77050918 TGGC
1 TGGC
77050922 TATTGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (19 bp):
TGGCCTATAATGATTATGA
Found at i:77058313 original size:19 final size:19
Alignment explanation
Indices: 77058261--77058306 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
77058251 TGGCCATTGA
*
77058261 ATGTTGGCCTATAATGGTT
1 ATGTTGGCCTATGATGGTT
*
77058280 ATGATGGCCTATGATGGTT
1 ATGTTGGCCTATGATGGTT
77058299 ATGTTGGC
1 ATGTTGGC
77058307 TATTGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (19 bp):
ATGTTGGCCTATGATGGTT
Found at i:77059461 original size:28 final size:28
Alignment explanation
Indices: 77059411--77059478 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
77059401 GTCGTTCGTG
* *
77059411 CCACGAAGGCATTCCTTTTCAGAGATAA
1 CCACAAAGGCATTCCTTTCCAGAGATAA
**
77059439 CCACAAAGGC-TTCCTTATCCAGAGATTG
1 CCACAAAGGCATTCCTT-TCCAGAGATAA
77059467 CCACAAAGGCAT
1 CCACAAAGGCAT
77059479 CATTTTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.18
28 27 0.79
29 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (28 bp):
CCACAAAGGCATTCCTTTCCAGAGATAA
Found at i:77059558 original size:29 final size:29
Alignment explanation
Indices: 77059526--77059620 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
77059516 TAGAGTCTCA
*
77059526 CCACGAAGGCTTTCCCTTCCAGAGGTTTG
1 CCACGAAGGCTTTCCTTTCCAGAGGTTTG
* *
77059555 CCAC-AATGGTTTTCCTTTAACA-A-GTTTG
1 CCACGAA-GGCTTTCCTTT-CCAGAGGTTTG
* * * *
77059583 CCAAGAAGGCTTGCCTTTCTAGAGTTTTG
1 CCACGAAGGCTTTCCTTTCCAGAGGTTTG
*
77059612 CCACAAAGG
1 CCACGAAGG
77059621 ATGTCTTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
27 1 0.02
28 20 0.40
29 27 0.54
30 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (29 bp):
CCACGAAGGCTTTCCTTTCCAGAGGTTTG
Found at i:77059668 original size:29 final size:28
Alignment explanation
Indices: 77059576--77059687 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 28
77059566 TTCCTTTAAC
*
77059576 AAGTTT-GCCA-AGAAGGCTTGCCTTTCTA
1 AAGTTTCGCCATA-AAGG-TTGCCTTTTTA
* * * * *
77059604 GAGTTTTGCCACAAAGGATGTCTTTTTA
1 AAGTTTCGCCATAAAGGTTGCCTTTTTA
* *
77059632 TAGGTTCGCCATAAAGGCTTGCCTTTTTA
1 AAGTTTCGCCATAAAGG-TTGCCTTTTTA
77059661 AAGTTTCGCCATAAAGGTTGTCCTTTT
1 AAGTTTCGCCATAAAGGTTG-CCTTTT
77059688 ACTGGTGTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
28 29 0.43
29 38 0.56
30 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (28 bp):
AAGTTTCGCCATAAAGGTTGCCTTTTTA
Found at i:77062621 original size:27 final size:27
Alignment explanation
Indices: 77062555--77062625 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
77062545 TTTCATAAGG
* * *
77062555 GCATATCAGTCATTTTACCATGTATGA
1 GCATTTCAATCATTTTACCATGTAGGA
* * *
77062582 GCATTTTAGTCATTTTACCATGTAGGG
1 GCATTTCAATCATTTTACCATGTAGGA
*
77062609 GCGTTTCAATCATTTTA
1 GCATTTCAATCATTTTA
77062626 TCAATTAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (27 bp):
GCATTTCAATCATTTTACCATGTAGGA
Found at i:77076158 original size:47 final size:45
Alignment explanation
Indices: 77076088--77076251 Score: 161
Period size: 47 Copynumber: 3.5 Consensus size: 45
77076078 TATGTATGCT
* *
77076088 AGTGTAAGACATGTCTAGAACATGCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATAAGAGCC
* * * *
77076134 AGTGTAAGACCATGTCTGGGACATGGCGTCGG--TATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT-ATA--AGAGCC
* * *
77076182 AGTGTATGACATGTCTGGGACATGCATCGGCTACATTATGAGAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACATTATAAGAGCC
77076228 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
77076252 TATTATCGGC
Statistics
Matches: 95, Mismatches: 14, Indels: 17
0.75 0.11 0.13
Matches are distributed among these distances:
45 3 0.03
46 29 0.31
47 40 0.42
48 20 0.21
49 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATTATAAGAGCC
Found at i:77076246 original size:94 final size:95
Alignment explanation
Indices: 77076085--77076302 Score: 321
Period size: 94 Copynumber: 2.3 Consensus size: 95
77076075 TTATATGTAT
* *
77076085 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
* * *
77076150 TGGGACA-TGGCGTCGGTATTGAGACGAGA
66 TGGGACATTAGCATCGGCATTGAGACGAGA
* * * *
77076179 GCTAGTGTATGACATGTCTGGGACATGCATCGGCTACATTATGAGAGGCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
**
77076244 TGGGACATTATTATCGGCATTGAGACGAGA
66 TGGGACATTAGCATCGGCATTGAGACGAGA
*
77076274 GATAGTGTAAGACATGTCTGGGACATGCA
1 GCTAGTGTAAGACATGTCTGGGACATGCA
77076303 CCAACCTTAA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 66 0.60
95 44 0.40
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTC
TGGGACATTAGCATCGGCATTGAGACGAGA
Done.