Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 48 of 214
Found at i:13065355 original size:16 final size:16
Alignment explanation
Indices: 13065334--13065367 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13065324 TACGTAAGTA
13065334 TAATCAATCCTCCGTT
1 TAATCAATCCTCCGTT
*
13065350 TAATCAATCCTCTGTT
1 TAATCAATCCTCCGTT
13065366 TA
1 TA
13065368 TGATATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.41
Consensus pattern (16 bp):
TAATCAATCCTCCGTT
Found at i:13074577 original size:13 final size:13
Alignment explanation
Indices: 13074550--13074600 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
13074540 TATCTAAATC
13074550 TATTTTTTATT-A
1 TATTTTTTATTAA
13074562 TATTTTTTATTAA
1 TATTTTTTATTAA
* **
13074575 TATTTTCTAAAAA
1 TATTTTTTATTAA
13074588 TATTTTTTATTAA
1 TATTTTTTATTAA
13074601 AAATTAATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTTTTTATTAA
Found at i:13079534 original size:21 final size:21
Alignment explanation
Indices: 13079489--13079551 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
13079479 TTTGAACCAT
* *
13079489 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
13079511 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
13079532 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
13079552 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:13085047 original size:15 final size:18
Alignment explanation
Indices: 13085019--13085056 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
13085009 TATTTAAATG
13085019 TTTAAATAATAAA-TATT
1 TTTAAATAATAAATTATT
13085036 TTTAAA-AA-AAATTATT
1 TTTAAATAATAAATTATT
13085052 TTTAA
1 TTTAA
13085057 TTTTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 11 0.55
17 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAATAATAAATTATT
Found at i:13086112 original size:9 final size:9
Alignment explanation
Indices: 13086098--13086155 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
13086088 TTTGGTTAAA
*
13086098 AATTAACCG
1 AATTATCCG
* *
13086107 AATTAACTG
1 AATTATCCG
13086116 AATTATCCG
1 AATTATCCG
13086125 AATTATCCG
1 AATTATCCG
*
13086134 AATTACCCG
1 AATTATCCG
13086143 AATTATCCG
1 AATTATCCG
13086152 AATT
1 AATT
13086156 GAATCACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (9 bp):
AATTATCCG
Found at i:13086136 original size:27 final size:27
Alignment explanation
Indices: 13086098--13086155 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
13086088 TTTGGTTAAA
*
13086098 AATTAACCGAATTAACTGAATTATCCG
1 AATTAACCGAATTAACCGAATTATCCG
* *
13086125 AATTATCCGAATTACCCGAATTATCCG
1 AATTAACCGAATTAACCGAATTATCCG
13086152 AATT
1 AATT
13086156 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTATCCG
Found at i:13086215 original size:25 final size:27
Alignment explanation
Indices: 13086178--13086233 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
13086168 AATTAAATTT
13086178 TTTTTAGACTTTTAG-ACTTTATTTTTA
1 TTTTTAGA-TTTTAGAACTTTATTTTTA
*
13086205 TTTTTAG-TTTTAGAATTTTATTTTTA
1 TTTTTAGATTTTAGAACTTTATTTTTA
13086231 TTT
1 TTT
13086234 ATTAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.22
26 14 0.52
27 7 0.26
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (27 bp):
TTTTTAGATTTTAGAACTTTATTTTTA
Found at i:13088008 original size:31 final size:31
Alignment explanation
Indices: 13087950--13088009 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
13087940 GTTGAGCTTC
* * *
13087950 AATTTTTTAATTATAGTTTTAATTATATTAT
1 AATTTTTTAATTAAAATTGTAATTATATTAT
13087981 AATTTTTT-ATTAAAATTGTAATATATATT
1 AATTTTTTAATTAAAATTGTAAT-TATATT
13088010 TATTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
AATTTTTTAATTAAAATTGTAATTATATTAT
Found at i:13088424 original size:23 final size:23
Alignment explanation
Indices: 13088398--13088446 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
13088388 TGGATTCAAA
*
13088398 TTTAAAAAATTTCCTTAAATTGT
1 TTTAAAAAATTTCCTTAAATTCT
13088421 TTTAAAAAATTTCCTTAAATTCT
1 TTTAAAAAATTTCCTTAAATTCT
13088444 TTT
1 TTT
13088447 TTAGTACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAAAAATTTCCTTAAATTCT
Found at i:13089450 original size:23 final size:23
Alignment explanation
Indices: 13089407--13089455 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
13089397 TAAATTTTTT
* *
13089407 AAAGGTAAAAGAAATATTATTAA
1 AAAGGTAAAAGAAAAAATATTAA
*
13089430 AAAGG-AAAAGAAGAAAATATTGA
1 AAAGGTAAAAGAA-AAAATATTAA
13089453 AAA
1 AAA
13089456 TCAGTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.18
Consensus pattern (23 bp):
AAAGGTAAAAGAAAAAATATTAA
Found at i:13090481 original size:73 final size:72
Alignment explanation
Indices: 13090360--13090516 Score: 219
Period size: 73 Copynumber: 2.2 Consensus size: 72
13090350 AAAATAAGCA
* * *
13090360 TTAGCGGCG-TTTCCATAAAGCGCCACAAAATACCTAAGCCCAACGACGCCGTTTT-TCGAGCTT
1 TTAGCGGCGTTTTCCAGAAAGCGCCACAAAAAACCAAAGCCCAACGACGCCGTTTTCT-GAGCTT
*
13090423 TCGGTGAT
65 TCGGGGAT
*
13090431 TTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCCAGAAAGCGCCAC-AAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTT
13090496 TCGGGGAT
65 TCGGGGAT
* *
13090504 TTAGTGGCCTTTT
1 TTAGCGGCGTTTT
13090517 TTAGTAAACG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
71 9 0.12
72 15 0.20
73 51 0.67
74 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (72 bp):
TTAGCGGCGTTTTCCAGAAAGCGCCACAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGAT
Found at i:13090714 original size:113 final size:114
Alignment explanation
Indices: 13090430--13090983 Score: 613
Period size: 114 Copynumber: 4.9 Consensus size: 114
13090420 CTTTCGGTGA
* *
13090430 TTTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
13090495 TTCGGGGATTTAGTGGCCTTTTTTAGTAAACGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* * * * * *
13090544 TTTAGGGGCATTTTCGGGAAAGCGCCGA-AAAAATACCTAAGCCCAATGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCC-ACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
*
13090608 TTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCAAATGCTC-GGGC
65 TTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* * * *
13090657 TTTAGCAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGATGCCGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
13090722 TTCGGGGATTTAGTGGCGTTTTTACGCAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* * * * * **
13090771 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAACAAAAA-CTAAGCCCAGCTACACTATTTTCTGA-C
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAA-AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* * * *
13090834 AATTCGTGGACTTTAGCGGCG-TTTTAAG-AATGCGCCGCTAATGCTTAGGGC
65 -TTTCGGGGA-TTTAGTGGCGTTTTTAAGTAA-GCGCCGCTAATGCTCAGGGC
* * * * * * * *
13090885 TTTAGCGGCGTTTTTGTTG-AAGCGTCGC-AAAAAACCTAAGCCCAATGGCGTCGTTTTCTAAAC
1 TTTAGCGGCGTTTTTG-AGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
** * * *
13090948 TTTTAGGGCTTTAGCGGCGTTTTTAA-AAAGCGCCGC
65 TTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGC
13090984 AAAACCTTTT
Statistics
Matches: 372, Mismatches: 56, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
112 23 0.06
113 131 0.35
114 202 0.54
115 16 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
Found at i:13090832 original size:227 final size:228
Alignment explanation
Indices: 13090430--13090943 Score: 643
Period size: 227 Copynumber: 2.3 Consensus size: 228
13090420 CTTTCGGTGA
*
13090430 TTTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
* *
13090495 TTCGGGGATTTAGTGGCCTTTTTTAGTAAACGCCGCTAATGCTCAGGGCTTTAGGGGCATTTTCG
66 TTCGGGGATTTAGTGGCCGTTTTTAGCAAACGCCGCTAATGCTCAGGGCTTTAGGGGCATTTTCG
* * * * *
13090560 GGAAAGCGCCGAAAAAATACCTAAGCCCAATGACGCCGTTTTCTGAGC-TTTCGGGGA-TTTAGT
131 AGAAAGCGCCGAAAAAATACCTAAGCCCAATGACACCATTTTCTGA-CAATTCGGGGACTTTAGC
*
13090623 GGCGTTTTTAAGTAA-GCGCCGCAAATGC-TCGGGC
195 GGCG-TTTTAAG-AATGCGCCGCAAATGCTTAGGGC
* * *
13090657 TTTAGCAGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGATGCCGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
13090722 TTCGGGGATTTAGTGG-CGTTTTTACGCAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTT
66 TTCGGGGATTTAGTGGCCGTTTTTA-GCAAACGCCGCTAATGCTCAGGGCTTTAGGGGCATTTTC
* * *
13090786 GAGAAAGCGCCGCAACAAAA-A-CTAAGCCCAGCT-ACACTATTTTCTGACAATTCGTGGACTTT
130 GAGAAAGCGCCG-AA-AAAATACCTAAGCCCA-ATGACACCATTTTCTGACAATTCGGGGACTTT
*
13090848 AGCGGCGTTTTAAGAATGCGCCGCTAATGCTTAGGGC
192 AGCGGCGTTTTAAGAATGCGCCGCAAATGCTTAGGGC
* * * * * * *
13090885 TTTAGCGGCGTTTTTGTTG-AAGCGTCGC-AAAAAACCTAAGCCCAATGGCGTCGTTTTCT
1 TTTAGCGGCGTTTTTG-AGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCT
13090944 AAACTTTTAG
Statistics
Matches: 248, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
226 10 0.04
227 193 0.78
228 40 0.16
229 5 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (228 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCAAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGTGGCCGTTTTTAGCAAACGCCGCTAATGCTCAGGGCTTTAGGGGCATTTTCG
AGAAAGCGCCGAAAAAATACCTAAGCCCAATGACACCATTTTCTGACAATTCGGGGACTTTAGCG
GCGTTTTAAGAATGCGCCGCAAATGCTTAGGGC
Found at i:13092975 original size:21 final size:21
Alignment explanation
Indices: 13092951--13092998 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13092941 CTACAACTTA
13092951 AAGCAGAGGCGGCAACGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* * *
13092972 AAGCAGAGGCTGTAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
13092993 AAGCAG
1 AAGCAG
13092999 TGAGAGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:13093627 original size:41 final size:42
Alignment explanation
Indices: 13093446--13093661 Score: 215
Period size: 42 Copynumber: 5.1 Consensus size: 42
13093436 GTGATGAAAG
* *
13093446 CGCCGCTAAAGAACATGATCTTTAGCGGCG-ATTTTTTGAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTAAA
*
13093487 C-CATCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTTTAAG
1 CGC--CGCTAAAGAACATGATCTTTAGCGGCGTC--TTTTTTTAAA
** * * ****
13093532 CGTTGCTAAAGACCATGTTCTTTAGCGGCGT-TTTACAAAAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTT-TTTTAAA
*
13093574 CGCCGCTAAAGAACATGGTCTTTAGC-GCGTCTTTTTTTAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTAAA
* *
13093615 CGCCGTTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTGTAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTT-T-TAAA
13093659 CGC
1 CGC
13093662 TGCAAAAGTT
Statistics
Matches: 141, Mismatches: 23, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.01
41 35 0.25
42 63 0.45
43 1 0.01
44 32 0.23
45 9 0.06
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTAAA
Found at i:13093647 original size:83 final size:84
Alignment explanation
Indices: 13093446--13093648 Score: 248
Period size: 86 Copynumber: 2.4 Consensus size: 84
13093436 GTGATGAAAG
*** * *
13093446 CGCCGCTAAAGAACATGATCTTTAGCGGCGATTTTTTGAAACCATCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCAAAAAACACCGCTAAAGAACATGATCTTT
*
13093511 AGCGGCGTCTTTTTTTTTAAG
65 AGCGGCGTC-TTTTTTTTAAA
** * * * *
13093532 CGTTGCTAAAGACCATGTTCTTTAGCGGCGTTTTACAAAAAACGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-CAAAAAACACCGCTAAAGAACATGATCTTT
13093597 AGC-GCGTC-TTTTTTTAAA
65 AGCGGCGTCTTTTTTTTAAA
*
13093615 CGCCGTTAAAGAACATGATCTTTAGCGGCGTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
13093649 TTTCTGTAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
83 38 0.38
85 9 0.09
86 52 0.53
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCAAAAAACACCGCTAAAGAACATGATCTTTA
GCGGCGTCTTTTTTTTAAA
Found at i:13097304 original size:16 final size:16
Alignment explanation
Indices: 13097283--13097313 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13097273 CATATTAGAG
13097283 CACATAAATTTGAAAC
1 CACATAAATTTGAAAC
*
13097299 CACATATATTTGAAA
1 CACATAAATTTGAAA
13097314 AAAACTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.29
Consensus pattern (16 bp):
CACATAAATTTGAAAC
Found at i:13097511 original size:19 final size:19
Alignment explanation
Indices: 13097476--13097530 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
13097466 TTATTTAAAA
*
13097476 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
13097494 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
13097513 GA-AAATTATTTTGTAATT
1 TATAAA-TATTTTG-AATT
13097531 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 10 0.31
19 18 0.56
20 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:13097546 original size:9 final size:11
Alignment explanation
Indices: 13097516--13097541 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13097506 GAATTTTGAA
13097516 AATTATTTTGT
1 AATTATTTTGT
13097527 AATTATTTTGT
1 AATTATTTTGT
13097538 AATT
1 AATT
13097542 TTTGTTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
AATTATTTTGT
Found at i:13105333 original size:14 final size:14
Alignment explanation
Indices: 13105311--13105347 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
13105301 ATACTTCATT
13105311 GAAAAAAAAAGAAAAA
1 GAAAAAAAAAG--AAA
13105327 GAAAAAAAAAGAAA
1 GAAAAAAAAAGAAA
13105341 GAAAAAA
1 GAAAAAA
13105348 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
16 11 0.52
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAGAAA
Found at i:13105347 original size:11 final size:11
Alignment explanation
Indices: 13105311--13105349 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
13105301 ATACTTCATT
13105311 GAAAAAA-AAA
1 GAAAAAAGAAA
13105321 G-AAAAAGAAA
1 GAAAAAAGAAA
13105331 -AAAAAAGAAA
1 GAAAAAAGAAA
13105341 GAAAAAAGA
1 GAAAAAAGA
13105350 GAGGCCAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.19
10 13 0.50
11 8 0.31
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:13107137 original size:241 final size:232
Alignment explanation
Indices: 13106804--13107385 Score: 711
Period size: 241 Copynumber: 2.5 Consensus size: 232
13106794 TTATGGCGAG
* * * *
13106804 TCTTATCTTCCTGAAGTTGCAGTGGAGCTGATT-AAGCCACCAGCCTTATCTCCCTGAAGTTTCA
1 TCTTATCTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACCAGCCTTATCTCCCTGAAGTTACA
* * *
13106868 GCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGGTGTTGTAGTGAAACAGGTTAAAACTAA
66 GCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGAAACAGATTAAAACTAA
* *
13106933 AAATTAGTG-CGGATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAACCACTAGCCTTATC
131 AAATTA-TGACGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAACCACCAGCCTTATC
* *
13106997 TCCCTGAAGTTGCAGTAGAGCAGACTGAAGACAACGAA
195 TCCCTGAAGTTGCAGTAGAACAGACTAAAGACAACGAA
**
13107035 TCTTAT-TTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAACTATGACGGCCTTATCTCCC
1 TCTTATCTT-CCTGAAGTTGCAGTGGAACAGATTAAAGCTAC---C----A--GCCTTATCTCCC
* * * *
13107099 TGAAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
56 TGAAGTTACAGCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGAAACAGA
* * * * * * * *
13107164 TTAAAGCTACAAATTATGACTGATCTTATCTTCCTGAAGTTTCTGTGGAGCAGATTGAAGCCACC
121 TTAAAACTAAAAATTATGACGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAACCACC
* * * * *
13107229 AGTCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAGCGGA
186 AGCCTTATCTCCCTGAAGTTGCAGTAGAACAGACTAAAGACAACGAA
** *
13107276 TCTTATCTTCCTGAAGTTGCAGTGGAGGAGATTGAAGCTACCAGCCTTATCTCCCTGAAGTTACA
1 TCTTATCTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACCAGCCTTATCTCCCTGAAGTTACA
* ** *
13107341 GTGGAGTAGACTGAAGACAGTGAATCTTATTTCCCTAGCGTTGCA
66 GCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCA
13107386 ATGTGTTGGA
Statistics
Matches: 297, Mismatches: 41, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
230 2 0.01
231 26 0.09
232 66 0.22
234 1 0.00
235 1 0.00
238 1 0.00
239 1 0.00
240 2 0.01
241 195 0.66
242 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (232 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACCAGCCTTATCTCCCTGAAGTTACA
GCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGAAACAGATTAAAACTAA
AAATTATGACGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTAAAACCACCAGCCTTATCT
CCCTGAAGTTGCAGTAGAACAGACTAAAGACAACGAA
Found at i:13107155 original size:143 final size:143
Alignment explanation
Indices: 13106230--13107124 Score: 1199
Period size: 143 Copynumber: 6.3 Consensus size: 143
13106220 CATTATGATA
* *
13106230 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATCAGCCTTATCTCCCTGAAGTTG
1 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * *
13106295 CAGCGAAGCAGACTGAAGACAGCAAATATTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
66 CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCT
*
13106360 ACAAATTATGACG
131 ACAAATTATGGCG
* *
13106373 GATCTTATCTTCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCCCCCTGAAGTTG
1 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * *
13106438 CAACGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGACATTGCAGTGGAAAAGATTAAAGCT
66 CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCT
13106503 ACAAATTATGGCG
131 ACAAATTATGGCG
* * *
13106516 GATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTTA
1 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * ** * * *
13106581 CAGCGGAGCCGACTGAAGACAGCGAATCTTATCTT-CCTAAAGTTGCAGTAAAAAAAATTAAAGT
66 CAGCGGAGCAGACTGAAGACAGCGAATCTTAT-TTCCCTGACGTTGCAGTGGAACAGATTAAAGC
13106645 TACAAATTATGGCG
130 TACAAATTATGGCG
* * * *
13106659 GGTCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTGTTTCCCTAAAGTTG
1 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * *
13106724 CAGCGGAGCAGACTGAAGATAGCGAATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTAAAGC
66 CAGCGGAGCAGACTGAAGACAGCGAATCTTAT-TTCCCTGACGTTGCAGTGGAACAGATTAAAGC
13106788 TACAAATTATGGC-
130 TACAAATTATGGCG
* *
13106801 GAGTCTTATCTTCCTGAAGTTGCAGTGGAGCTGATT-AAGCCACCAGCCTTATCTCCCTGAAGTT
1 GA-TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * ** * * * *
13106865 TCAGCGGAGTAGACTGAAGACAACGAATCTTATTTCCCTGGTGTTGTAGTGAAACAGGTTAAAAC
65 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGC
*
13106930 TAAAAATTA-GTGCG
130 TACAAATTATG-GCG
* * * *
13106944 GATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAACCACTAGCCTTATCTCCCTGAAGTTG
1 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
** * *
13107009 CAGTAGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT
66 CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCT
* *
13107074 ACAAACTATGACG
131 ACAAATTATGGCG
* * * *
13107087 G-CCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAG
1 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAG
13107125 ACAACGAATC
Statistics
Matches: 659, Mismatches: 86, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
141 3 0.00
142 147 0.22
143 506 0.77
144 3 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (143 bp):
GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
CAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCT
ACAAATTATGGCG
Found at i:13107158 original size:98 final size:99
Alignment explanation
Indices: 13106989--13107267 Score: 409
Period size: 98 Copynumber: 2.8 Consensus size: 99
13106979 AAAACCACTA
* *
13106989 GCCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACAACGAATCTTATTTCCCTGGCGTTG
1 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTG
13107054 CAGTGGAACAGATTAAAGCTACAAACTATGAC-G
66 CAGTGGAACAGATTAAAGCTACAAACTATGACTG
*
13107087 GCCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTG
1 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTG
*
13107152 CAGTGGAACAGATTAAAGCTACAAATTATGACTG
66 CAGTGGAACAGATTAAAGCTACAAACTATGACTG
** * * * * * * **
13107186 ATCTTATCTTCCTGAAGTTTCTGTGGAGCAGATTGAAG-CCACCAGTCTTATTTCCCTGAAGTTG
1 GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTG
*
13107250 CAGTGGAACAGACTAAAG
66 CAGTGGAACAGATTAAAG
13107268 ACAGCGGATC
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
98 131 0.80
99 33 0.20
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (99 bp):
GCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAACGAATCTTATTTCCCTGGCGTTG
CAGTGGAACAGATTAAAGCTACAAACTATGACTG
Found at i:13107336 original size:89 final size:89
Alignment explanation
Indices: 13107185--13107374 Score: 265
Period size: 89 Copynumber: 2.1 Consensus size: 89
13107175 AATTATGACT
* * * * *
13107185 GATCTTATCTTCCTGAAGTTTCTGTGGAGCAGATTGAAGCCACCAGTCTTATTTCCCTGAAGTTG
1 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTA
13107250 CAGTGGAACAGACTAAAGACAGCG
66 CAGTGGAACAGACTAAAGACAGCG
* *
13107274 GATCTTATCTTCCTGAAGTTGCAGTGGAGGAGATTGAAGCTACCAGCCTTATCTCCCTGAAGTTA
1 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTA
** * *
13107339 CAGTGGAGTAGACTGAAGACAGTG
66 CAGTGGAACAGACTAAAGACAGCG
*
13107363 AATCTTAT-TTCC
1 GATCTTATCTTCC
13107375 CTAGCGTTGC
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 4 0.04
89 85 0.96
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (89 bp):
GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTA
CAGTGGAACAGACTAAAGACAGCG
Found at i:13109008 original size:44 final size:44
Alignment explanation
Indices: 13108960--13109078 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 44
13108950 TGGAGTAGAT
*
13108960 TGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCAGAGCAAAC
1 TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGCAGAGCAAAC
* * ** * ** * *
13109004 TGAAGACAGCGAATCTTATCTTCTTGAAGTTGCAGTGGAGCAGAT
1 TGAAGCCA-CCAGCCTTATCTCCTTGAAGTTGCAGCAGAGCAAAC
13109049 TGAAGCCACCAGCCTTATCTCCTTGAAGTT
1 TGAAGCCACCAGCCTTATCTCCTTGAAGTT
13109079 TTAGTGGAGT
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (44 bp):
TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAGCAGAGCAAAC
Found at i:13109085 original size:44 final size:44
Alignment explanation
Indices: 13108941--13109271 Score: 173
Period size: 44 Copynumber: 7.4 Consensus size: 44
13108931 TATCTTCCTA
* * *
13108941 AAGTTGTAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
** * * * * ** *
13108985 AAGTTGCAGCAGAGCAAACTGAAGACAGCGAATCTTATCTTCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTCCTTG
13109030 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
** * ** * * ** *
13109074 AAGTTTTAGTGGAGTAGATCAAAGCTACAAATCTCT-TCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCT-TATCTCCTTG
* * * * * *
13109118 AAATT--ATGTTGGAGCAGATCGAAGCCACAATCCTTATCTCCCTA
1 AAGTTGCA-G-TGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
* ** *** * * * *
13109162 AAGTTGCAGTGGAGTAGGATAAAAATATACAAACCTTATCTCCCTA
1 AAGTTGCAGTGGAGCA-GAT-TGAAGCCACCAGCCTTATCTCCTTG
* *** **
13109208 AAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTG
1 AAGTTGCAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCTTG
*
13109253 AAGTTGCAGTGGAGTAGAT
1 AAGTTGCAGTGGAGCAGAT
13109272 CGAATCTACA
Statistics
Matches: 218, Mismatches: 59, Indels: 19
0.74 0.20 0.06
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 111 0.51
45 69 0.32
46 35 0.16
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTG
Found at i:13109158 original size:88 final size:86
Alignment explanation
Indices: 13109037--13109302 Score: 275
Period size: 88 Copynumber: 3.0 Consensus size: 86
13109027 TTGAAGTTGC
* * ** *
13109037 AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTTTAGTGGAGTAGATCAAAGCTAC
1 AGTGGAGCAGATTGAAGCCACAATCCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCAAATCTAC
13109102 AAATCTCTTCTCCCTGAAATT
66 AAATCTCTTCTCCCTGAAATT
* * * *
13109123 ATGTTGGAGCAGATCGAAGCCACAATCCTTATCTCCCTAAAGTTGCAGTGGAGTAGGATAAAAAT
1 A-G-TGGAGCAGATTGAAGCCACAATCCTTATCTCCTTGAAGTTGCAGTGGAGTA-GAT-CAAAT
* *
13109188 ATACAAACCT-TATCTCCCT-AAAGTT
62 CTACAAATCTCT-TCTCCCTGAAA-TT
* *** * *
13109213 GCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCGAATC
1 --AGTGGAGCAGATTGAAGCCA-CAATCCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCAAATC
*
13109278 TACAAGTCTCTTCTCCCTGAAATT
63 TACAAATCTCTTCTCCCTGAAATT
13109302 A
1 A
13109303 CATTGGAGTG
Statistics
Matches: 145, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 44 0.30
89 26 0.18
90 40 0.28
91 31 0.21
92 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (86 bp):
AGTGGAGCAGATTGAAGCCACAATCCTTATCTCCTTGAAGTTGCAGTGGAGTAGATCAAATCTAC
AAATCTCTTCTCCCTGAAATT
Found at i:13109204 original size:46 final size:44
Alignment explanation
Indices: 13109144--13109269 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 44
13109134 GATCGAAGCC
13109144 ACAATCCTTATCTCCCTAAAGTTGCAGTGGAGTAGGATAAAAATAT
1 ACAATCCTTATCTCCCTAAAGTTGCAGTGGAGTAGG-TAAAAAT-T
* * **
13109190 ACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAATT
1 ACAATCCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTAAAAATT
* * *
13109234 ACCAATTCTTATCTCCTTGAAGTTGCAGTGGAGTAG
1 A-CAATCCTTATCTCCCTAAAGTTGCAGTGGAGTAG
13109270 ATCGAATCTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.03
45 34 0.49
46 34 0.49
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
ACAATCCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTAAAAATT
Found at i:13110791 original size:25 final size:26
Alignment explanation
Indices: 13110763--13110824 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
13110753 TTTTATCATC
* *
13110763 ATTTATTTTAAGTTTTTTTA-ATATT
1 ATTTATTTTAAGCTGTTTTACATATT
*
13110788 ATTTGTTTTAAGCTGTTTTACATATT
1 ATTTATTTTAAGCTGTTTTACATATT
13110814 ATTTATTTTAA
1 ATTTATTTTAA
13110825 AAAAAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 17 0.53
26 15 0.47
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (26 bp):
ATTTATTTTAAGCTGTTTTACATATT
Found at i:13110881 original size:17 final size:19
Alignment explanation
Indices: 13110861--13110905 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
13110851 AACTATTATT
*
13110861 TATATATTTCAAA-T-TTA
1 TATATATTTAAAACTGTTA
*
13110878 TATATATTTAAAACTGTTT
1 TATATATTTAAAACTGTTA
13110897 TATATATTT
1 TATATATTT
13110906 TTTAGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 1 0.04
19 11 0.46
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
TATATATTTAAAACTGTTA
Found at i:13110923 original size:25 final size:24
Alignment explanation
Indices: 13110894--13110959 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
13110884 TTTAAAACTG
*
13110894 TTTTATATATTTTTTA-GATTATTTA
1 TTTTAAAT-TTTTTTATG-TTATTTA
13110919 TTTTAAATTTTTTTATTGTTATTTA
1 TTTTAAATTTTTTTA-TGTTATTTA
* *
13110944 TTTTTAGTTTTTTTAT
1 TTTTAAATTTTTTTAT
13110960 ATTTTGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.22
25 27 0.75
26 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (24 bp):
TTTTAAATTTTTTTATGTTATTTA
Found at i:13110969 original size:26 final size:25
Alignment explanation
Indices: 13110912--13110988 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
13110902 ATTTTTTAGA
13110912 TTATTTATTTTAAATTTTTTTATTG
1 TTATTTATTTTAAATTTTTTTATTG
* * *
13110937 TTATTTATTTTTAGTTTTTTTATATT
1 TTATTTATTTTAAATTTTTTTAT-TG
* *
13110963 TTGTTTATTTGAAACTTTTTATTATT
1 TTATTTATTTTAAA-TTTTT-TTATT
13110989 TATTTTGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 21 0.50
26 11 0.26
27 6 0.14
28 4 0.10
ACGTcount: A:0.22, C:0.01, G:0.05, T:0.71
Consensus pattern (25 bp):
TTATTTATTTTAAATTTTTTTATTG
Found at i:13111035 original size:17 final size:17
Alignment explanation
Indices: 13111013--13111046 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13111003 CTTATAAATC
13111013 ATTTACTTTAAAGTATT
1 ATTTACTTTAAAGTATT
*
13111030 ATTTACTTTAAATTATT
1 ATTTACTTTAAAGTATT
13111047 TTATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTACTTTAAAGTATT
Found at i:13116065 original size:22 final size:22
Alignment explanation
Indices: 13116037--13116080 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13116027 TGTCCCATGT
*
13116037 CGTTATCAATTAATTAAAAGGG
1 CGTTATCAATTAATGAAAAGGG
13116059 CGTTATCAATTAATGAAAAGGG
1 CGTTATCAATTAATGAAAAGGG
13116081 GAACAACCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (22 bp):
CGTTATCAATTAATGAAAAGGG
Found at i:13135063 original size:18 final size:20
Alignment explanation
Indices: 13135040--13135078 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13135030 GGCCCATTAC
13135040 AGTAACA-ATAAT-CAGTAT
1 AGTAACAGATAATACAGTAT
*
13135058 AGTAACAGATTATACAGTAT
1 AGTAACAGATAATACAGTAT
13135078 A
1 A
13135079 CAGGTCCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AGTAACAGATAATACAGTAT
Found at i:13151626 original size:63 final size:63
Alignment explanation
Indices: 13151527--13151666 Score: 253
Period size: 63 Copynumber: 2.2 Consensus size: 63
13151517 AGTAAAGATA
* *
13151527 AAAACTCAAGAGAAAACTGCGTTGTAAGATAAAATAAAAAACTTCGGGAAATAGGACTCAGTG
1 AAAACTCAAGAGAAAACTGCATTGTAAGATAAAATAAAAAACTTCGGGAAAAAGGACTCAGTG
*
13151590 AAAACTCAAGAGAAAACTGCATTGTAAGATAAAATAAAAAACTTTGGGAAAAAGGACTCAGTG
1 AAAACTCAAGAGAAAACTGCATTGTAAGATAAAATAAAAAACTTCGGGAAAAAGGACTCAGTG
13151653 AAAACTCAAGAGAA
1 AAAACTCAAGAGAA
13151667 GATGCACAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 74 1.00
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (63 bp):
AAAACTCAAGAGAAAACTGCATTGTAAGATAAAATAAAAAACTTCGGGAAAAAGGACTCAGTG
Found at i:13159210 original size:90 final size:91
Alignment explanation
Indices: 13159057--13159235 Score: 243
Period size: 90 Copynumber: 2.0 Consensus size: 91
13159047 TCAAATCGCG
** * * *** * *
13159057 TGACTCATTTTAAATACGGAAGGACATTTCTATAATTTCCTAATTGAGTTGGTACCTGGTTAACC
1 TGACTCATTTTAAATACAAAACGACATTTCCATAATTTCCTAACCAAATTAGTACCTGGTTAACC
*
13159122 CGTG-ACACCAACTTAGTCAGGGATT
66 CGTGAACACCAACTAAGTCAGGGATT
13159147 TGACTCATTTTAAATACAAAACGACATTTCCATAATTTCCTAACCAAATTAGTACCTGGTTAACC
1 TGACTCATTTTAAATACAAAACGACATTTCCATAATTTCCTAACCAAATTAGTACCTGGTTAACC
*
13159212 TGTGACACACCAACTAAGTCAGGG
66 CGTGA-ACACCAACTAAGTCAGGG
13159236 GTTTTATTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
90 59 0.78
92 17 0.22
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (91 bp):
TGACTCATTTTAAATACAAAACGACATTTCCATAATTTCCTAACCAAATTAGTACCTGGTTAACC
CGTGAACACCAACTAAGTCAGGGATT
Found at i:13159782 original size:670 final size:659
Alignment explanation
Indices: 13158231--13159818 Score: 1770
Period size: 670 Copynumber: 2.4 Consensus size: 659
13158221 ATGCACTATA
* * * * * *
13158231 ATATTAAAAAATATATAAAAATATTAAAATGATGATTTAGTTTAATGGTAAATTTAATATTTTAC
1 ATATTAAAAAATGTATAAAAA-ATCAAAATAATGTTTTAGTTGAATGGTAAATTTAAAATTTTAC
* * * * *
13158296 TAATTCAATTGGCACGTGTTTAAATCTCATCATATACATATTTTTCTTGGTTTTTGTTAAAATAA
65 TAATCCAATT-GCACGAGTTTAAATCTCTTCATATGCATATTTTTCTTGATTTTTGTTAAAATAA
* * * * * *
13158361 AAATACTAAAATACTCTCAAATAATATGACTCACTTTAAATACAGAAGGACATTTCCATAATTCC
129 AAA-ACTAAAATACCCTCAAATGATATGACTCATTTTAAATACGGAAGGACATTTTCATAATTTC
* **
13158426 CTAACCAAGTTGGTA-CTCGGTTAACCCGTGACACCAACTTATTCAAAGATTTGACTCATTTTAA
193 CTAACCAAGTTGGTACCT-GGTTAACCCGTGACACCAACTTAGTCAGGGATTTGACTCATTTTAA
* * * * * * *
13158490 AAATGAAAAGACATTTCTATAATTTTCTAACCCAATTGGTACCCAGTTAAACTGTGGCACCAATT
257 AAATCAAAAGACATTTCCATAATTTCCTAACCAAATTAGTACCCAGTTAAACTGTGACACCAATC
* * ** * *
13158555 TAATCAGAGGTTTTATTAATAGTATAAATATACAACTAATGGGGATAATAATTTATGCATGTTAA
322 TAATCAGAGGTTTTATTAATAATATAAATATACAACTAATAGAAATAATAACTTATGCATATTAA
* *
13158620 AATAAATATGTATAAATATATCAAAATGAAGCTTTAGTTAATTGGTAAATTTAAGATTTTACTAG
387 AATAAATATGTATAAATACATCAAAATGAAGCTTTAGTTAAGTGGTAAATTTAAGATTTTACTAG
* *
13158685 TCCAATTCGCTCGGGTTTAAATACAACCATATGCATATTTTAATATTAAAATGAAGATATTCAAA
452 TCCAATTCGCTCGAGTTTAAATACAACCATATGCATATTTTAATATTAAAATGAAAATATTCAAA
** **
13158750 CATTCACAAATATTATAACTTATTAAAATTACAAAAGGACATTTTTTTAATTTTTTAACTGAGTT
517 CATTCACAAATATTATAACTTATTAAAATTACAAAAGGACATTTTCATAATTTTTTAACCAAGTT
* *
13158815 GGTGATCCAGTTGAAGGTGACATCAAATCAATAAAACACTTAATAAATAGTATAGATATACAACT
582 GGTGAACCAGTTGAAGGTGACATC--A-C-----AACACTTAATAAATAGCATAGATATACAACT
* *
13158880 AGTGGAGATAATAAATTGTGC
639 AGTAGACATAATAAATTGTGC
* * * **
13158901 ATATTAAAAAATGTATTAAAAAATCAAAATAATGTTTTGGCTGAACGGTAAATTTAAGGTTTTAC
1 ATATTAAAAAATGTA-TAAAAAATCAAAATAATGTTTTAGTTGAATGGTAAATTTAAAATTTTAC
* *
13158966 TAATCCAATTGACACAAGTTTAAATCCCTTCATATGCATATTTTTCTT-AGTTTTTGTTAAAATG
65 TAATCCAATTG-CACGAGTTTAAATCTCTTCATATGCATATTTTTCTTGA-TTTTTGTTAAAAT-
* * **
13159030 AAAAGACTAAAATATCCTCAAATCG-CGTGACTCATTTTAAATACGGAAGGACA-TTTCTATAAT
127 AAAAAACTAAAATACCCTCAAAT-GATATGACTCATTTTAAATACGGAAGGACATTTTC-ATAAT
***
13159093 TTCCTAATTGAGTTGGTACCTGGTTAACCCGTGACACCAACTTAGTCAGGGATTTGACTCATTTT
190 TTCCTAACCAAGTTGGTACCTGGTTAACCCGTGACACCAACTTAGTCAGGGATTTGACTCATTTT
* ** *
13159158 AAATA-CAAAACGACATTTCCATAATTTCCTAACCAAATTAGTACCTGGTTAACCTGTGACACAC
255 AAAAATCAAAA-GACATTTCCATAATTTCCTAACCAAATTAGTACCCAGTTAAACTGTG--ACAC
* * * * *
13159222 CAA-CTAAGTCAGGGGTTTTATTAATAATATAGATATCCAGCTAATAGAAATAATAACTTGTGCA
317 CAATCTAA-TCAGAGGTTTTATTAATAATATAAATATACAACTAATAGAAATAATAACTTATGCA
* *
13159286 TATTAAAATAAA-ATTGTATAAATACATCAAAATGAAG-TTTTGATTGAGTGGTAAATTTAAGAT
381 TATTAAAATAAATA-TGTATAAATACATCAAAATGAAGCTTTAG-TTAAGTGGTAAATTTAAGAT
* * * * *
13159349 TTTACTAGTCCAGTT-GACTTGATTTTAAATCCAACCATTTGCATATTTTAATTGGTTTTTATTA
444 TTTACTAGTCCAATTCG-CTCGAGTTTAAATACAACCATATGCATATTTTAA--------TATTA
* ** *** * *
13159413 AAATGAAAATATT-AATATATTCACAAATATTATAACTTATTTTAATTATGGAAGGGCCTTTTCA
500 AAATGAAAATATTCAA-ACATTCACAAATATTATAACTTATTAAAATTACAAAAGGACATTTTCA
* **
13159477 T-ATTTTTTAACCAAGTTGGT-AACACGGTTGGGGGTGACA-C-C-A-ACTTAATAAATAGCATA
564 TAATTTTTTAACCAAGTTGGTGAAC-CAGTTGAAGGTGACATCACAACACTTAATAAATAGCATA
*
13159536 GATATATACAACTGGTAGACATAATAAATTGTGC
628 G--ATATACAACTAGTAGACATAATAAATTGTGC
*
13159570 ATATTAAAAAATGTATAAAAAACATCAAAATAATGCTTTTAGTTGAGTGGTAAA-TTAAAATTTT
1 ATATTAAAAAATGTAT-AAAAA-ATCAAAATAATG-TTTTAGTTGAATGGTAAATTTAAAATTTT
* * *
13159634 ATTTATCCAATTAGCACGAGTTTAAATCTCTTTATATGCATATTTTTCTTGATTTTTGTTAAAAT
63 ACTAATCCAATT-GCACGAGTTTAAATCTCTTCATATGCATATTTTTCTTGATTTTTGTTAAAAT
* *
13159699 AAAAAACCTAAAATGCCCTCAAATGATATGACTCATTTTAAATATGGAAGGACATTTTCATAATT
127 AAAAAA-CTAAAATACCCTCAAATGATATGACTCATTTTAAATACGGAAGGACATTTTCATAATT
* ** * * * *
13159764 TCCTAACCAAGATGGTACCAAAGTTAGCCCGTAACACCAACTCAGTTAGGGATTT
191 TCCTAACCAAGTTGGTACC-TGGTTAACCCGTGACACCAACTTAGTCAGGGATTT
13159819 TATTAATAAT
Statistics
Matches: 770, Mismatches: 113, Indels: 69
0.81 0.12 0.07
Matches are distributed among these distances:
667 17 0.02
668 2 0.00
669 62 0.08
670 382 0.50
671 70 0.09
672 146 0.19
674 1 0.00
678 3 0.00
679 31 0.04
680 56 0.07
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (659 bp):
ATATTAAAAAATGTATAAAAAATCAAAATAATGTTTTAGTTGAATGGTAAATTTAAAATTTTACT
AATCCAATTGCACGAGTTTAAATCTCTTCATATGCATATTTTTCTTGATTTTTGTTAAAATAAAA
AACTAAAATACCCTCAAATGATATGACTCATTTTAAATACGGAAGGACATTTTCATAATTTCCTA
ACCAAGTTGGTACCTGGTTAACCCGTGACACCAACTTAGTCAGGGATTTGACTCATTTTAAAAAT
CAAAAGACATTTCCATAATTTCCTAACCAAATTAGTACCCAGTTAAACTGTGACACCAATCTAAT
CAGAGGTTTTATTAATAATATAAATATACAACTAATAGAAATAATAACTTATGCATATTAAAATA
AATATGTATAAATACATCAAAATGAAGCTTTAGTTAAGTGGTAAATTTAAGATTTTACTAGTCCA
ATTCGCTCGAGTTTAAATACAACCATATGCATATTTTAATATTAAAATGAAAATATTCAAACATT
CACAAATATTATAACTTATTAAAATTACAAAAGGACATTTTCATAATTTTTTAACCAAGTTGGTG
AACCAGTTGAAGGTGACATCACAACACTTAATAAATAGCATAGATATACAACTAGTAGACATAAT
AAATTGTGC
Found at i:13164565 original size:16 final size:17
Alignment explanation
Indices: 13164528--13164565 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13164518 TGGACTTTAA
*
13164528 ATTTTTTTTGTTTTGTT
1 ATTTTTTTGGTTTTGTT
*
13164545 TTTTTTTTGGTTTT-TT
1 ATTTTTTTGGTTTTGTT
13164561 ATTTT
1 ATTTT
13164566 ACTAATGGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (17 bp):
ATTTTTTTGGTTTTGTT
Found at i:13164565 original size:17 final size:17
Alignment explanation
Indices: 13164528--13164565 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
13164518 TGGACTTTAA
13164528 ATTTTTTTTGTTTTGTT
1 ATTTTTTTTGTTTTGTT
13164545 -TTTTTTTTGGTTTT-TT
1 ATTTTTTTT-GTTTTGTT
13164561 ATTTT
1 ATTTT
13164566 ACTAATGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84
Consensus pattern (17 bp):
ATTTTTTTTGTTTTGTT
Found at i:13166387 original size:15 final size:15
Alignment explanation
Indices: 13166369--13166398 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13166359 TTTACTATTA
*
13166369 TGTCTTTTATGTTTT
1 TGTCTTTCATGTTTT
13166384 TGTCTTTCATGTTTT
1 TGTCTTTCATGTTTT
13166399 GCATGCACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.10, G:0.13, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATGTTTT
Found at i:13168421 original size:12 final size:12
Alignment explanation
Indices: 13168380--13168423 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
13168370 ATAACAAAGT
13168380 CCAAATACCAAGC
1 CCAAATA-CAAGC
*
13168393 CCAAACTTACAAAC
1 CCAAA--TACAAGC
13168407 CCAAATACAAGC
1 CCAAATACAAGC
13168419 CCAAA
1 CCAAA
13168424 AAATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.41
13 5 0.19
14 9 0.33
15 2 0.07
ACGTcount: A:0.50, C:0.36, G:0.05, T:0.09
Consensus pattern (12 bp):
CCAAATACAAGC
Found at i:13168527 original size:4 final size:4
Alignment explanation
Indices: 13168518--13168607 Score: 60
Period size: 4 Copynumber: 22.8 Consensus size: 4
13168508 TTTTCACTTG
* ** * * *
13168518 TTTA TTTA TTGA -TTA TTCC TTTTA TTTTA TTCA TTCA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA TTTA
* * *
13168567 CTTA TTTA TATA -TTA TTTA TTCA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
13168608 TAATCCTTCT
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
3 7 0.11
4 52 0.79
5 7 0.11
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:13168586 original size:27 final size:26
Alignment explanation
Indices: 13168543--13168606 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 26
13168533 TTCCTTTTAT
13168543 TTTATTCATTCATTTATTCATTTACTTA
1 TTTATT-ATT-ATTTATTCATTTACTTA
*
13168571 TTTATATATTATTTATTCATTTATTTA
1 TTTAT-TATTATTTATTCATTTACTTA
13168598 TTTATTATT
1 TTTATTATT
13168607 TTAATCCTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.12
27 21 0.62
28 8 0.24
29 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTATTATTATTTATTCATTTACTTA
Found at i:13168655 original size:30 final size:29
Alignment explanation
Indices: 13168590--13168661 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
13168580 TATTTATTCA
*
13168590 TTTATTTATTTATTATTTTAATCCTTCTT
1 TTTATTTATTTATTATTTTAATCCTTCTG
* *
13168619 TGTTATTTATTTATT-TTTTGATACTTTCATG
1 T-TTATTTATTTATTATTTTAAT-CCTTC-TG
13168650 TTTATTT-TTTAT
1 TTTATTTATTTAT
13168662 GCATATTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 12 0.32
30 23 0.62
31 2 0.05
ACGTcount: A:0.19, C:0.07, G:0.04, T:0.69
Consensus pattern (29 bp):
TTTATTTATTTATTATTTTAATCCTTCTG
Found at i:13181125 original size:26 final size:26
Alignment explanation
Indices: 13181096--13181150 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
13181086 TTTGCGTAAT
13181096 CCAACTCAAACACAAGTGGATTAACA
1 CCAACTCAAACACAAGTGGATTAACA
* *
13181122 CCAACTTAAACACAAGTGGGTTAACA
1 CCAACTCAAACACAAGTGGATTAACA
13181148 CCA
1 CCA
13181151 TAAATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (26 bp):
CCAACTCAAACACAAGTGGATTAACA
Found at i:13201964 original size:41 final size:39
Alignment explanation
Indices: 13201893--13202068 Score: 149
Period size: 41 Copynumber: 4.3 Consensus size: 39
13201883 CTCAATGTTT
* * *
13201893 CGCACACTAAATGCCATCGCATAGCCGAAGCTATTATAATCC
1 CGCACACTAAGTGCCAT-ACATAGCCGAAGCTATT-CAAT-C
* * *
13201935 CGCACACTAAGTGCCCTACATAGCTGAAGCTATCTCAGTC
1 CGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCAATC
* *
13201975 TCGCACACTAATTGCCATATATAGCCGAAGCTATTCCCAAT-
1 -CGCACACTAAGTGCCATACATAGCCGAAGCTATT--CAATC
* * *
13202016 CACACACTAAGTGCCGTAAATAGCCGAAGCTATCTCGAAT-
1 CGCACACTAAGTGCCATACATAGCCGAAGCTAT-TC-AATC
*
13202056 TGCACACTAAGTG
1 CGCACACTAAGTG
13202069 TTAAACATAG
Statistics
Matches: 111, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 45 0.41
41 46 0.41
42 19 0.17
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.23
Consensus pattern (39 bp):
CGCACACTAAGTGCCATACATAGCCGAAGCTATTCAATC
Found at i:13202039 original size:81 final size:82
Alignment explanation
Indices: 13201892--13202051 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 82
13201882 ACTCAATGTT
* * * *
13201892 TCGCACACTAAATGCCATCGCATAGCCGAAGCTATTATAATCCCGCACACTAAGTGCCCTACATA
1 TCGCACACTAAATGCCATCACATAGCCGAAGCTATTACAAT-CCACACACTAAGTGCCCTAAATA
*
13201957 GCTGAAGCTATCTCAGTC
65 GCCGAAGCTATCTCAGTC
* * * *
13201975 TCGCACACTAATTGCCAT-ATATAGCCGAAGCTATTCCCAAT-CACACACTAAGTGCCGTAAATA
1 TCGCACACTAAATGCCATCACATAGCCGAAGCTATT-ACAATCCACACACTAAGTGCCCTAAATA
13202038 GCCGAAGCTATCTC
65 GCCGAAGCTATCTC
13202052 GAATTGCACA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 32 0.48
82 15 0.22
83 20 0.30
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (82 bp):
TCGCACACTAAATGCCATCACATAGCCGAAGCTATTACAATCCACACACTAAGTGCCCTAAATAG
CCGAAGCTATCTCAGTC
Found at i:13202062 original size:40 final size:39
Alignment explanation
Indices: 13201936--13202068 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 39
13201926 TTATAATCCC
* * * *
13201936 GCACACTAAGTGCCCTACATAGCTGAAGCTATCTCAGTCT
1 GCACACTAAGTGCCATAAATAGCCGAAGCTATCTCAAT-T
* * * *
13201976 CGCACACTAATTGCCATATATAGCCGAAGCTATTCCCAATC
1 -GCACACTAAGTGCCATAAATAGCCGAAGCTA-TCTCAATT
* *
13202017 ACACACTAAGTGCCGTAAATAGCCGAAGCTATCTCGAATT
1 GCACACTAAGTGCCATAAATAGCCGAAGCTATCTC-AATT
13202057 GCACACTAAGTG
1 GCACACTAAGTG
13202069 TTAAACATAG
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.04
40 41 0.54
41 27 0.36
42 5 0.07
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (39 bp):
GCACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATT
Found at i:13208792 original size:14 final size:14
Alignment explanation
Indices: 13208760--13208789 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13208750 ATTTCAGTAG
13208760 GTTAATTTAAGTTA
1 GTTAATTTAAGTTA
13208774 GTTAATTTAA-TTA
1 GTTAATTTAAGTTA
13208787 GTT
1 GTT
13208790 TAAATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
GTTAATTTAAGTTA
Found at i:13215071 original size:50 final size:50
Alignment explanation
Indices: 13215012--13215254 Score: 269
Period size: 50 Copynumber: 4.9 Consensus size: 50
13215002 CATTTGGGTA
*
13215012 AAGAGGTCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
*
13215062 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* ** * * * * *
13215112 GAGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* ** * *
13215162 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCATTAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGA-GAT
* * *
13215213 AACA--TCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
13215255 ATTATTATCA
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 33 0.20
50 126 0.76
51 3 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
Found at i:13224366 original size:30 final size:30
Alignment explanation
Indices: 13224332--13224391 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
13224322 ACTTATTTTA
*
13224332 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
*
13224362 TTGTTAAATTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
13224392 ATGCTTGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGGCAT
Found at i:13232183 original size:36 final size:34
Alignment explanation
Indices: 13232110--13232189 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
13232100 TGGTAGGTGC
* *
13232110 ATATATAATATTAATATGTGTTCATGGTTTTGTT
1 ATATATAATATAAATATGGGTTCATGGTTTTGTT
13232144 ATATATAATATAAATATGGGTGT-ATGGTTTTGTT
1 ATATATAATATAAATATGGGT-TCATGGTTTTGTT
13232178 ATATATAATATA
1 ATATATAATATA
13232190 TATGCGTGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 42 0.98
35 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (34 bp):
ATATATAATATAAATATGGGTTCATGGTTTTGTT
Found at i:13232212 original size:31 final size:31
Alignment explanation
Indices: 13232135--13232224 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 31
13232125 ATGTGTTCAT
*
13232135 GGTTTTGTTATATATAATATAAATATGGGTGTA
1 GGTTTTGTTATATATAATAT--ATATGCGTGTA
13232168 TGGTTTTGTTATATATAATATATATGCGTG-A
1 -GGTTTTGTTATATATAATATATATGCGTGTA
*
13232199 -GTTTCGTGTTATATGTAATATATATG
1 GGTTT--TGTTATATATAATATATATG
13232225 TATATGTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
29 4 0.08
31 20 0.38
32 8 0.15
34 20 0.38
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (31 bp):
GGTTTTGTTATATATAATATATATGCGTGTA
Found at i:13234479 original size:7 final size:7
Alignment explanation
Indices: 13234467--13234491 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13234457 ATTATTAGTA
13234467 AATTTAT
1 AATTTAT
13234474 AATTTAT
1 AATTTAT
13234481 AATTTAT
1 AATTTAT
13234488 AATT
1 AATT
13234492 ATTATATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTAT
Found at i:13239796 original size:21 final size:21
Alignment explanation
Indices: 13239770--13239832 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
13239760 TTGGTATTTG
13239770 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
13239791 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
13239812 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
13239833 ATAGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:13250282 original size:14 final size:14
Alignment explanation
Indices: 13250265--13250291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13250255 ACAAATTTGG
13250265 CTATACTAAAATGC
1 CTATACTAAAATGC
13250279 CTATACTAAAATG
1 CTATACTAAAATG
13250292 AGTGTGCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (14 bp):
CTATACTAAAATGC
Found at i:13263791 original size:36 final size:36
Alignment explanation
Indices: 13263744--13263816 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
13263734 CACTTTTCCA
13263744 GTAGTCATCTCTGCAGAGTTAACATTTAATCAAGAG
1 GTAGTCATCTCTGCAGAGTTAACATTTAATCAAGAG
13263780 GTAGTCATCTCTGCAGAGTTAACATTTAATCAAGAG
1 GTAGTCATCTCTGCAGAGTTAACATTTAATCAAGAG
13263816 G
1 G
13263817 CTAAATTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (36 bp):
GTAGTCATCTCTGCAGAGTTAACATTTAATCAAGAG
Found at i:13274616 original size:13 final size:13
Alignment explanation
Indices: 13274598--13274622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13274588 ATTTTTTAGG
13274598 TCATTTTCATTTT
1 TCATTTTCATTTT
13274611 TCATTTTCATTT
1 TCATTTTCATTT
13274623 AGGAGAAAAC
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:13274674 original size:6 final size:6
Alignment explanation
Indices: 13274663--13274692 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13274653 TCCATTTCTC
13274663 CATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT
13274693 GGAGAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:13277197 original size:25 final size:25
Alignment explanation
Indices: 13277163--13277220 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
13277153 GCATCTTAAG
*
13277163 CACTCACTAAGCTTGTTTAAGCTCA
1 CACTCTCTAAGCTTGTTTAAGCTCA
13277188 CACTCTCTAAGCTTGTTTAAGCTCA
1 CACTCTCTAAGCTTGTTTAAGCTCA
13277213 CACTCTCT
1 CACTCTCT
13277221 TATGTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (25 bp):
CACTCTCTAAGCTTGTTTAAGCTCA
Found at i:13283819 original size:30 final size:30
Alignment explanation
Indices: 13283780--13283836 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13283770 TTTTATAAAT
13283780 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
13283810 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
13283837 AACAATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:13284162 original size:21 final size:21
Alignment explanation
Indices: 13284138--13284188 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
13284128 ATATCCTTAA
*
13284138 TAATATAGAAATAAAACAAAT-
1 TAATATAG-AATAAAAAAAATC
13284159 TAATCATAGAATAAAAAAAATC
1 TAAT-ATAGAATAAAAAAAATC
13284181 TCAATATA
1 T-AATATA
13284189 AAACATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 15 0.58
22 8 0.31
23 3 0.12
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (21 bp):
TAATATAGAATAAAAAAAATC
Found at i:13310581 original size:15 final size:15
Alignment explanation
Indices: 13310561--13310590 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13310551 CACCCTAATC
13310561 ACAGATACAGAAATA
1 ACAGATACAGAAATA
*
13310576 ACAGATACAGTAATA
1 ACAGATACAGAAATA
13310591 TTATGCGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (15 bp):
ACAGATACAGAAATA
Found at i:13313462 original size:26 final size:27
Alignment explanation
Indices: 13313433--13313493 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
13313423 AATTTTCTTG
13313433 AAATTTTATCGAG-GATAAAATCGTCA
1 AAATTTTATCGAGTGATAAAATCGTCA
*
13313459 AAATTTTATCGAGTGGTAAAATCGTCA
1 AAATTTTATCGAGTGATAAAATCGTCA
13313486 AAATTTTA
1 AAATTTTA
13313494 CTAGAGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (27 bp):
AAATTTTATCGAGTGATAAAATCGTCA
Found at i:13314982 original size:11 final size:12
Alignment explanation
Indices: 13314957--13314982 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13314947 TGTAATGGAC
13314957 TTTTTAAGGATT
1 TTTTTAAGGATT
13314969 TTTTTAAGGATT
1 TTTTTAAGGATT
13314981 TT
1 TT
13314983 ATATCTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTTTTAAGGATT
Found at i:13316233 original size:26 final size:26
Alignment explanation
Indices: 13316184--13316233 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
13316174 AATTATCATT
* *
13316184 TTAAACCCTAAATATTAAATTAAACC
1 TTAAACCCCAAATACTAAATTAAACC
13316210 TTAAACCCCAAAT-CTAAATCTAAA
1 TTAAACCCCAAATACTAAAT-TAAA
13316234 TCAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (26 bp):
TTAAACCCCAAATACTAAATTAAACC
Found at i:13326837 original size:24 final size:25
Alignment explanation
Indices: 13326810--13326857 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
13326800 AGAGGAAAGT
13326810 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
13326834 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
13326858 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:13328953 original size:19 final size:20
Alignment explanation
Indices: 13328911--13328953 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
13328901 GGGTATTTCA
13328911 AAAACTATGAGGGAATACCC
1 AAAACTATGAGGGAATACCC
* *
13328931 AAAATTATGATGGAATA-CC
1 AAAACTATGAGGGAATACCC
13328950 AAAA
1 AAAA
13328954 GTCACGAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (20 bp):
AAAACTATGAGGGAATACCC
Found at i:13329030 original size:20 final size:20
Alignment explanation
Indices: 13328986--13329030 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13328976 AAGAAGTACT
* * *
13328986 AAAAATTATAAGGGAATATA
1 AAAAATTACAACGGAATAAA
13329006 AAAAATTACAACGGAATAAA
1 AAAAATTACAACGGAATAAA
13329026 AAAAA
1 AAAAA
13329031 ACTTTTTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAAATTACAACGGAATAAA
Found at i:13329097 original size:20 final size:20
Alignment explanation
Indices: 13329054--13329098 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
13329044 AAAATGTAAT
* *
13329054 ATTTTTTATTTCAAAAATTT
1 ATTTTTTATGTCAAAAATTA
13329074 ATTTTTTATGTCAAAAGA-TA
1 ATTTTTTATGTCAAAA-ATTA
13329094 ATTTT
1 ATTTT
13329099 AGAAACATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (20 bp):
ATTTTTTATGTCAAAAATTA
Found at i:13334871 original size:50 final size:51
Alignment explanation
Indices: 13334810--13334942 Score: 189
Period size: 50 Copynumber: 2.6 Consensus size: 51
13334800 TATCATTCGA
* * *
13334810 TACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAA--CTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGACCAAAGCCTTCT-GG
* *
13334860 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACATGACCAAAGCCTTCTGG
*
13334911 TACACATAGTAGCCTGCACATAGTACTACACA
1 TACACGTAGTAGCCTGCACATAGTACTACACA
13334943 TGTGACTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 38 0.51
51 32 0.43
52 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACATGACCAAAGCCTTCTGG
Found at i:13334933 original size:51 final size:49
Alignment explanation
Indices: 13334810--13334996 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 49
13334800 TATCATTCGA
* * * * *
13334810 TACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAACTTTTCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTCT-GG
* *
13334860 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCCTTCTGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAA--CTTCTGG
* * * *
13334911 TACACATAGTAGCCTGCACATAGTACTACACATGTGACTATTATCTATC-GA
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AACT-TCTGG
* *
13334962 TACACATAGTAGCTTGCACTTAGTACTA-ACACGTG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTG
13334997 TTTATAGGCA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
50 44 0.37
51 67 0.57
52 6 0.05
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTCTGG
Found at i:13339500 original size:24 final size:24
Alignment explanation
Indices: 13339468--13339533 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
13339458 TATTTCAGCT
*
13339468 GTTAGGTTGTTAACAATAACAACA
1 GTTAAGTTGTTAACAATAACAACA
13339492 GTTAAGTTGTTAACAATAACAACA
1 GTTAAGTTGTTAACAATAACAACA
13339516 GTTAAGTTGTTAACAATA
1 GTTAAGTTGTTAACAATA
13339534 GTAGTTATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (24 bp):
GTTAAGTTGTTAACAATAACAACA
Found at i:13340503 original size:40 final size:40
Alignment explanation
Indices: 13340459--13340541 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
13340449 GTAACGTGAC
13340459 GTTTATCAACCCTTTCCTATGCCTTATATATGTTTATTTA
1 GTTTATCAACCCTTTCCTATGCCTTATATATGTTTATTTA
13340499 GTTTATCAACCCTTTCCTATGCCTTATATATGTTTATTTA
1 GTTTATCAACCCTTTCCTATGCCTTATATATGTTTATTTA
13340539 GTT
1 GTT
13340542 AAATTGTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (40 bp):
GTTTATCAACCCTTTCCTATGCCTTATATATGTTTATTTA
Found at i:13351308 original size:7 final size:7
Alignment explanation
Indices: 13351296--13351444 Score: 72
Period size: 7 Copynumber: 20.9 Consensus size: 7
13351286 ACTAATTAAT
13351296 CTAAACC
1 CTAAACC
13351303 CTAAACCC
1 CTAAA-CC
*
13351311 CTAACCC
1 CTAAACC
*
13351318 CTAACCC
1 CTAAACC
13351325 CTAAACC
1 CTAAACC
*
13351332 TTAAACC
1 CTAAACC
*
13351339 C-CAACC
1 CTAAACC
13351345 CTTAAACC
1 C-TAAACC
*
13351353 AT-AACC
1 CTAAACC
13351359 CATAAACC
1 C-TAAACC
*
13351367 CATAATCC
1 C-TAAACC
*
13351375 ATAAACC
1 CTAAACC
*
13351382 TTAAA--
1 CTAAACC
*
13351387 ATAGTAACTC
1 CTA--AAC-C
*
13351397 CTAAACT
1 CTAAACC
*
13351404 TTAAACC
1 CTAAACC
13351411 CTAAACC
1 CTAAACC
* *
13351418 ATATACC
1 CTAAACC
*
13351425 CTAAATC
1 CTAAACC
*
13351432 ATAAACC
1 CTAAACC
13351439 CTAAAC
1 CTAAAC
13351445 TATAATGATA
Statistics
Matches: 106, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.02
6 9 0.08
7 69 0.65
8 24 0.23
10 2 0.02
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:13351324 original size:21 final size:21
Alignment explanation
Indices: 13351299--13351352 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
13351289 AATTAATCTA
13351299 AACCCTAAACCCCT-AACCCC
1 AACCCTAAACCCCTAAACCCC
*
13351319 TAACCCCTAAA-CCTTAAACCCC
1 -AA-CCCTAAACCCCTAAACCCC
13351341 AACCCTTAAACC
1 AACCC-TAAACC
13351353 ATAACCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 3 0.11
21 11 0.39
22 14 0.50
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCTAAACCCCTAAACCCC
Found at i:13351386 original size:22 final size:22
Alignment explanation
Indices: 13351341--13351386 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13351331 CTTAAACCCC
* *
13351341 AACCCTTAAACCATAACCCATA
1 AACCCATAAACCATAAACCATA
* *
13351363 AACCCATAATCCATAAACCTTA
1 AACCCATAAACCATAAACCATA
13351385 AA
1 AA
13351387 ATAGTAACTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (22 bp):
AACCCATAAACCATAAACCATA
Found at i:13351613 original size:14 final size:14
Alignment explanation
Indices: 13351596--13351635 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
13351586 ATAAATCATA
13351596 AACCCTAAACCCCT
1 AACCCTAAACCCCT
* *
13351610 AACCCTTAACCTCT
1 AACCCTAAACCCCT
13351624 AACCCTTAAACC
1 AACCC-TAAACC
13351636 TTAAACCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCTAAACCCCT
Found at i:13351620 original size:21 final size:21
Alignment explanation
Indices: 13351603--13351656 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
13351593 ATAAACCCTA
*
13351603 AACCCCTAACCCTTAACCTCT
1 AACCCCTAAACCTTAACCTCT
* *
13351624 AACCCTTAAACCTTAAACC-CC
1 AACCCCTAAACCTT-AACCTCT
*
13351645 AACCCTTAAACC
1 AACCCCTAAACC
13351657 ATAAACCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCCTAAACCTTAACCTCT
Found at i:13351661 original size:21 final size:21
Alignment explanation
Indices: 13351624--13351682 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
13351614 CTTAACCTCT
* *
13351624 AACCCTTAAACCTTAAACCCC
1 AACCCTTAAACCATAAACCAC
*
13351645 AACCCTTAAACCATAAACCAT
1 AACCCTTAAACCATAAACCAC
* *
13351666 AATCGTTAAACCATAAA
1 AACCCTTAAACCATAAA
13351683 GCTCGATCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCCTTAAACCATAAACCAC
Found at i:13351760 original size:39 final size:39
Alignment explanation
Indices: 13351684--13352003 Score: 154
Period size: 40 Copynumber: 8.2 Consensus size: 39
13351674 AACCATAAAG
* * ** *
13351684 CTCGATCTATAGTGGCGTTTTTCAAAACGCGTTGCTAATG
1 CTCGATCTATAGCGGCG-TTTTCAAAAAGCGCCGCTAATA
* * *
13351724 GTCGACCTATAGCGGCGTTTTCAAAAAGCGTCGCTAATA
1 CTCGATCTATAGCGGCGTTTTCAAAAAGCGCCGCTAATA
* * * *
13351763 CTCGATCTATAACGGCATTTTTTAAAAAGCACCGCTAATA
1 CTCGATCTATAGCGGC-GTTTTCAAAAAGCGCCGCTAATA
* * * *
13351803 CTCAATCTATAGCAGCGTTTCTCAAAAAGCGCCACTAATG
1 CTCGATCTATAGCGGCGTTT-TCAAAAAGCGCCGCTAATA
* *** * * * *
13351843 C-C-A-CTA-A--AGC-TCAACATAAATGATG-CG-TTATG
1 CTCGATCTATAGCGGCGTTTTCA-AAAAG-CGCCGCTAATA
** * * * * * *
13351875 CTTAAATTTTTTGCGGCGTTTTCCAAAAAGCGTCACTAATG
1 C-TCGATCTATAGCGGCGTTTT-CAAAAAGCGCCGCTAATA
* *
13351916 CTCGATCTATAGCGGCGTTTTTAAAAAAGCGCCGCTAATG
1 CTCGATCTATAGCGGCG-TTTTCAAAAAGCGCCGCTAATA
* * *
13351956 CCCGATCTATAGCGGCGTTTTTCAAAAAGCGCCACTAATG
1 CTCGATCTATAGCGGCG-TTTTCAAAAAGCGCCGCTAATA
*
13351996 CTCAATCT
1 CTCGATCT
13352004 GTAGAGGCAT
Statistics
Matches: 211, Mismatches: 53, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
32 7 0.03
33 6 0.03
34 4 0.02
35 1 0.00
36 2 0.01
37 3 0.01
38 1 0.00
39 39 0.18
40 137 0.65
41 11 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (39 bp):
CTCGATCTATAGCGGCGTTTTCAAAAAGCGCCGCTAATA
Found at i:13352017 original size:40 final size:40
Alignment explanation
Indices: 13351887--13352017 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 40
13351877 TAAATTTTTT
* *
13351887 GCGGCGTTTTCCAAAAAGCGTCACTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* * *
13351927 GCGGCGTTTTTAAAAAAGCGCCGCTAATGCCCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* *
13351967 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCAATCTGTA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* *
13352007 GAGGCATTTTT
1 GCGGCGTTTTT
13352018 TATCCAAACG
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
Found at i:13353071 original size:29 final size:29
Alignment explanation
Indices: 13353012--13353073 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
13353002 TGTACATTGG
**
13353012 GTTAATATATTAACTTGCTTCCTATGTAT
1 GTTAATATATTAACTTGCTTCCTATACAT
* *
13353041 GTTAATATATTTACTTTCTTCCTATACAT
1 GTTAATATATTAACTTGCTTCCTATACAT
13353070 GTTA
1 GTTA
13353074 TTAAATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (29 bp):
GTTAATATATTAACTTGCTTCCTATACAT
Found at i:13353343 original size:36 final size:35
Alignment explanation
Indices: 13353292--13353496 Score: 230
Period size: 35 Copynumber: 5.7 Consensus size: 35
13353282 AAAAAATTAC
* *
13353292 CTTAGACGTGTCTATCCCAACCTTTTTAAAGATGT
1 CTTAGACGAGTCTATCCCAACCTTTTTAAAGTTGT
* * * *
13353327 CTTAGACAAGGTCTATCCCAACTTTTTTAAGGTTGC
1 CTTAGACGA-GTCTATCCCAACCTTTTTAAAGTTGT
* * *
13353363 CTTAAACGAGTCTATACCAACCTTTTTTAAAGGTTGC
1 CTTAGACGAGTCTATCCCAACC-TTTTTAAA-GTTGT
* * * *
13353400 CTTAGACAAGGTTTATCCTAACCTTTTTAAGGTTGT
1 CTTAGACGA-GTCTATCCCAACCTTTTTAAAGTTGT
*
13353436 CTTAGACGAGTTTATCCCAACCTTTTTAAAGTTGT
1 CTTAGACGAGTCTATCCCAACCTTTTTAAAGTTGT
* *
13353471 CTTAGATGAGTCTATCCTAACCTTTT
1 CTTAGACGAGTCTATCCCAACCTTTT
13353497 GTAAGTGTCG
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
35 65 0.46
36 48 0.34
37 19 0.13
38 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (35 bp):
CTTAGACGAGTCTATCCCAACCTTTTTAAAGTTGT
Found at i:13353427 original size:73 final size:71
Alignment explanation
Indices: 13353291--13353501 Score: 280
Period size: 73 Copynumber: 2.9 Consensus size: 71
13353281 AAAAAAATTA
* * * *
13353291 CCTTAGACGTGTCTATCCCAACCTTTTTAAAGATGTCTTAGACAAGGTCTATCCCAACTTTTTTA
1 CCTTAGACGAGTCTATCCCAACCTTTTTAAAGTTGTCTTAGACAAGGTCTATCCTAACCTTTTTA
13353356 AGGTTG
66 AGGTTG
* * * *
13353362 CCTTAAACGAGTCTATACCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCCTAACCTTTT
1 CCTTAGACGAGTCTATCCCAACC-TTTTTAAA-GTTGTCTTAGACAAGGTCTATCCTAACCTTTT
13353427 TAAGGTTG
64 TAAGGTTG
* * **
13353435 TCTTAGACGAGTTTATCCCAACCTTTTTAAAGTTGTCTTAGATGA-GTCTATCCTAACCTTTTGT
1 CCTTAGACGAGTCTATCCCAACCTTTTTAAAGTTGTCTTAGACAAGGTCTATCCTAACCTTTT-T
13353499 AAG
65 AAG
13353502 TGTCGGCATT
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
70 16 0.13
71 35 0.29
72 16 0.13
73 54 0.45
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (71 bp):
CCTTAGACGAGTCTATCCCAACCTTTTTAAAGTTGTCTTAGACAAGGTCTATCCTAACCTTTTTA
AGGTTG
Found at i:13353520 original size:108 final size:109
Alignment explanation
Indices: 13353304--13353530 Score: 255
Period size: 108 Copynumber: 2.1 Consensus size: 109
13353294 TAGACGTGTC
* *
13353304 TATCCCAACCTTTTTAAAGATGTCTTAGACAAGGTCTATCCCAACTTTTTTAAGGTTGCCTTAAA
1 TATCCCAACCTTTTTAAAGATGTCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTTAAA
* * *
13353369 CGAGTCTATACCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTT
66 CGAGTCTATACCAACCTTTTGTAAAGGTGGCATTAGACAAGGTT
* * * * * * *
13353413 TATCCTAACCTTTTTAAGGTTGTCTTAGACGA-GTTTATCCCAACCTTTTTAAAGTTGTCTTAGA
1 TATCCCAACCTTTTTAAAGATGTCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTTAAA
* *
13353477 TGAGTCTAT-CCTAACCTTTTGT-AAGTGTCGGCATT-GACTAGGTT
66 CGAGTCTATACC-AACCTTTTGTAAAG-GT-GGCATTAGACAAGGTT
* *
13353521 TTTGCCAACC
1 TATCCCAACC
13353531 CTTCAATAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
107 5 0.05
108 61 0.62
109 32 0.33
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (109 bp):
TATCCCAACCTTTTTAAAGATGTCTTAGACAAGGTCTATCCCAACCTTTTTAAAGTTGCCTTAAA
CGAGTCTATACCAACCTTTTGTAAAGGTGGCATTAGACAAGGTT
Found at i:13357460 original size:208 final size:206
Alignment explanation
Indices: 13357102--13357760 Score: 969
Period size: 208 Copynumber: 3.2 Consensus size: 206
13357092 CAAACGATGT
* *
13357102 CGTTTTCTTGTTGACTTTTAGACACAATAGTGGCGATACAAAGAAATCGCCGCTGAAGTCAATCA
1 CGTTTTCTTGTTGAGTTTTAGACACAATAGTGGCGATTCAAAGAAATCGCCGCTGAAGTCAATCA
* * *
13357167 TTAGCGGCGCTTTAGATGAAGCGCCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTGTTGTGC
66 TTAGCGGCGCTTTAGAGGAAGTGTCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTGTTGTGC
*
13357232 TTAGGGACATTAGTGGCGCTTCGTGAAAAACGCTGCAAAAGTTAAGCATTATCAGTAATAGTTTT
131 TTAGGGACATTAGTGGCGCTTCGCGAAAAACGC-GCAAAAGTTAAGCATTATC-GTAATAGTTTT
* **
13357297 AGGAAAACAACAA
194 AGGCAAATGACAA
* *
13357310 CGTTTTCTTGTTGAGTTTTAGACTCAATAGTGGCGTTTCAAAGAAATCGCCGCTGAAGTCAATCA
1 CGTTTTCTTGTTGAGTTTTAGACACAATAGTGGCGATTCAAAGAAATCGCCGCTGAAGTCAATCA
* * * *
13357375 TTAGCGGCGCTTTAGAGGAAGTGTCGCAAAAAGTTTTAAGCATACACCATTGTTTTCTGTTGTGT
66 TTAGCGGCGCTTTAGAGGAAGTGTCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTGTTGTGC
* *
13357440 TTAGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTGTCGGTAATAGTTTT
131 TTAGGGACATTAGTGGCGCTTCGCGAAAAACG-CGCAAAAGTTAAGCATTATC-GTAATAGTTTT
13357505 AGGCAAATGACAA
194 AGGCAAATGACAA
** * *
13357518 CGTTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCCTCGAAGAAATAGCCGCTGAAGTCAATCA
1 CGTTTTCTTGTTGAGTTTTAGACACAATAGTGGCGATTCAAAGAAATCGCCGCTGAAGTCAATCA
*
13357583 TTAGCGGCGCTTTAGAGGAAGTGTTGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTGTTGTGC
66 TTAGCGGCGCTTTAGAGGAAGTGTCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTGTTGTGC
* * *
13357648 TTGGGGACATTAGTGGCGCTTCGCGAAAAATGC-CATAAAATTCAAGCATTATCGATAATAGTTT
131 TTAGGGACATTAGTGGCGCTTCGCGAAAAACGCGCA-AAAGTT-AAGCATTATCG-TAATAGTTT
*
13357712 TAGGCAAATGACAT
193 TAGGCAAATGACAA
* * * * *
13357726 CGTTTTCTTTTTCAGATTTAGAGACATTAGTGGCG
1 CGTTTTCTTGTTGAGTTTTAGACACAATAGTGGCG
13357761 CATTGCCAAA
Statistics
Matches: 408, Mismatches: 39, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
206 2 0.00
207 6 0.01
208 399 0.98
209 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (206 bp):
CGTTTTCTTGTTGAGTTTTAGACACAATAGTGGCGATTCAAAGAAATCGCCGCTGAAGTCAATCA
TTAGCGGCGCTTTAGAGGAAGTGTCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTGTTGTGC
TTAGGGACATTAGTGGCGCTTCGCGAAAAACGCGCAAAAGTTAAGCATTATCGTAATAGTTTTAG
GCAAATGACAA
Found at i:13358200 original size:14 final size:14
Alignment explanation
Indices: 13358178--13358209 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13358168 TTATATATGT
*
13358178 TTTATGATTTAGGG
1 TTTAGGATTTAGGG
13358192 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
13358206 TTTA
1 TTTA
13358210 TATATATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:13361299 original size:18 final size:17
Alignment explanation
Indices: 13361271--13361326 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
13361261 TTAAAGTTCA
*
13361271 AATTTCATAACTTACGT
1 AATTTCATAACTTACAT
13361288 AATTTACATAACTTACAT
1 AATTT-CATAACTTACAT
*
13361306 AA-TTCACAACTTACAT
1 AATTTCATAACTTACAT
13361322 AATTT
1 AATTT
13361327 AAATTTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 13 0.37
17 9 0.26
18 13 0.37
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (17 bp):
AATTTCATAACTTACAT
Found at i:13361303 original size:9 final size:9
Alignment explanation
Indices: 13361276--13361323 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
13361266 GTTCAAATTT
13361276 CATAACTTA
1 CATAACTTA
* *
13361285 CGTAATTTA
1 CATAACTTA
13361294 CATAACTTA
1 CATAACTTA
13361303 CATAA-TT-
1 CATAACTTA
*
13361310 CACAACTTA
1 CATAACTTA
13361319 CATAA
1 CATAA
13361324 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
7 4 0.13
8 4 0.13
9 23 0.74
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:13361387 original size:17 final size:16
Alignment explanation
Indices: 13361365--13361410 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
13361355 TATTAAGATT
13361365 TATATATAGTTTTAATA
1 TATATATA-TTTTAATA
* *
13361382 TATATATATTTAAAATT
1 TATATATATTT-TAATA
13361399 TATATATATTTT
1 TATATATATTTT
13361411 TAAAAATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATATATATTTTAATA
Found at i:13361439 original size:9 final size:9
Alignment explanation
Indices: 13361425--13361963 Score: 276
Period size: 9 Copynumber: 62.9 Consensus size: 9
13361415 AATTGATACA
13361425 TTACATAAC
1 TTACATAAC
13361434 TTACATAAC
1 TTACATAAC
* *
13361443 CTACATACAT
1 TTACATA-AC
13361453 TTACACATAA-
1 TT--ACATAAC
13361463 -TACATAAC
1 TTACATAAC
*
13361471 TTATATAAC
1 TTACATAAC
*
13361480 TTAAATTTATA-
1 TTACA--TA-AC
*
13361491 ATACATAA-
1 TTACATAAC
13361499 TAATACATAAC
1 T--TACATAAC
* *
13361510 CTACATAAA
1 TTACATAAC
* *
13361519 TTAAATAAG
1 TTACATAAC
13361528 TTACATAA-
1 TTACATAAC
* *
13361536 -TACACAAA
1 TTACATAAC
** *
13361544 AAACAAAAAC
1 TTAC-ATAAC
13361554 TTACATAAC
1 TTACATAAC
13361563 TTACATAA-
1 TTACATAAC
*
13361571 -TATCCT-AC
1 TTA-CATAAC
*
13361579 ATA-ATAAC
1 TTACATAAC
*
13361587 TTAGATAA-
1 TTACATAAC
13361595 TAATACATAAC
1 T--TACATAAC
* *
13361606 CTACATAAA
1 TTACATAAC
* *
13361615 TTAAATAAG
1 TTACATAAC
13361624 TTACATAA-
1 TTACATAAC
* *
13361632 -TACACAAAA
1 TTACA-TAAC
* *
13361641 ATA-AAAAC
1 TTACATAAC
13361649 TTACATAAC
1 TTACATAAC
13361658 TTACATAAC
1 TTACATAAC
* *
13361667 CTACTTAA-
1 TTACATAAC
13361675 -TACATAAC
1 TTACATAAC
13361683 TTACATAA-
1 TTACATAAC
*
13361691 -TACACAAC
1 TTACATAAC
13361699 TTACATAAC
1 TTACATAAC
13361708 TTACATAAC
1 TTACATAAC
*
13361717 TTATATAA-
1 TTACATAAC
*
13361725 -GAC--AAC
1 TTACATAAC
*
13361731 TTACATAAT
1 TTACATAAC
*
13361740 TTACTTAA-
1 TTACATAAC
13361748 -TACATAAC
1 TTACATAAC
13361756 TTACATAA-
1 TTACATAAC
13361764 -TACATAAC
1 TTACATAAC
13361772 TTACATAAC
1 TTACATAAC
*
13361781 CTACATAA-
1 TTACATAAC
*
13361789 -GACATAAC
1 TTACATAAC
*
13361797 TTACATAAG
1 TTACATAAC
*
13361806 TTTCATAA-
1 TTACATAAC
*
13361814 -TACACAAC
1 TTACATAAC
13361822 TTACATAAC
1 TTACATAAC
13361831 TTACATAA-
1 TTACATAAC
13361839 -TACATAAC
1 TTACATAAC
*
13361847 TTACATAAT
1 TTACATAAC
*
13361856 TTACTTAA-
1 TTACATAAC
13361864 -TACATAAC
1 TTACATAAC
13361872 TTACATAAC
1 TTACATAAC
13361881 TTACATAA-
1 TTACATAAC
13361889 -TACATAAC
1 TTACATAAC
* *
13361897 TGACATAAT
1 TTACATAAC
*
13361906 TTACTTAA-
1 TTACATAAC
13361914 -TACATAAC
1 TTACATAAC
*
13361922 TTACATAAT
1 TTACATAAC
*
13361931 TTACTTAA-
1 TTACATAAC
13361939 -TACATAAC
1 TTACATAAC
13361947 TTACATAAC
1 TTACATAAC
*
13361956 TTATATAA
1 TTACATAA
13361964 ATATATGATG
Statistics
Matches: 411, Mismatches: 67, Indels: 104
0.71 0.12 0.18
Matches are distributed among these distances:
5 2 0.00
7 91 0.22
8 15 0.04
9 269 0.65
10 22 0.05
11 6 0.01
12 6 0.01
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:13361594 original size:12 final size:12
Alignment explanation
Indices: 13361558--13361954 Score: 96
Period size: 12 Copynumber: 32.1 Consensus size: 12
13361548 AAAAACTTAC
13361558 ATAACTTACATA
1 ATAACTTACATA
* *
13361570 ATATCCTACATA
1 ATAACTTACATA
*
13361582 ATAACTTAGATA
1 ATAACTTACATA
13361594 ATAA--TACATA
1 ATAACTTACATA
* *
13361604 ACCT-ACATAAATTAA
1 A--TAACTTACA-T-A
*
13361619 ATAAGTTACATA
1 ATAACTTACATA
** *
13361631 ATACACAAAAATA
1 ATA-ACTTACATA
*
13361644 AAAACTTAC---
1 ATAACTTACATA
13361653 ATAACTTACATA
1 ATAACTTACATA
13361665 ACCT-ACTTA-ATA
1 A--TAACTTACATA
13361677 CATAACTTACATA
1 -ATAACTTACATA
* *
13361690 ATACAC-AACTTA
1 ATA-ACTTACATA
13361702 CATAACTTAC---
1 -ATAACTTACATA
*
13361712 ATAACTTATATAA
1 ATAACTTACAT-A
*
13361725 GACAACTTACATA
1 -ATAACTTACATA
*
13361738 ATTTACTTA-ATA
1 A-TAACTTACATA
13361750 CATAACTTACATA
1 -ATAACTTACATA
* *
13361763 AT-ACATAACTTA
1 ATAAC-TTACATA
*
13361775 CATAACCTACATAAGA
1 -ATAACTTACAT---A
13361791 CATAACTTACATA
1 -ATAACTTACATA
** *
13361804 AGTTTCATA-ATA
1 A-TAACTTACATA
*
13361816 CACAACTTACATA
1 -ATAACTTACATA
* *
13361829 ACTTACATA-ATA
1 A-TAACTTACATA
13361841 CATAACTTACATA
1 -ATAACTTACATA
*
13361854 ATTTACTTA-ATA
1 A-TAACTTACATA
13361866 CATAACTTACATA
1 -ATAACTTACATA
* *
13361879 ACTTACATA-ATA
1 A-TAACTTACATA
*
13361891 CATAACTGACATA
1 -ATAACTTACATA
*
13361904 ATTTACTTA-ATA
1 A-TAACTTACATA
13361916 CATAACTTACATA
1 -ATAACTTACATA
*
13361929 ATTTACTTA-ATA
1 A-TAACTTACATA
13361941 CATAACTTACATA
1 -ATAACTTACATA
13361954 A
1 A
13361955 CTTATATAAA
Statistics
Matches: 276, Mismatches: 58, Indels: 102
0.63 0.13 0.23
Matches are distributed among these distances:
9 16 0.06
10 6 0.02
11 4 0.01
12 121 0.44
13 98 0.36
14 17 0.06
15 2 0.01
16 12 0.04
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:13361662 original size:27 final size:26
Alignment explanation
Indices: 13361598--13361658 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
13361588 TAGATAATAA
* * *
13361598 TACATAACCTACATAAATTAAATAAGT
1 TACATAA-CTACAAAAAATAAATAACT
13361625 TACATAA-TACACAAAAATAAA-AACT
1 TACATAACTACA-AAAAATAAATAACT
13361650 TACATAACT
1 TACATAACT
13361659 TACATAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 14 0.48
26 8 0.28
27 7 0.24
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.26
Consensus pattern (26 bp):
TACATAACTACAAAAAATAAATAACT
Found at i:13361676 original size:43 final size:43
Alignment explanation
Indices: 13361425--13361678 Score: 133
Period size: 43 Copynumber: 5.7 Consensus size: 43
13361415 AATTGATACA
* *
13361425 TTACATAACTTACATAACCTACATACATTTACAC-ATAATACATAAC
1 TTACATAACTTACATAACCTACATA-A--TACACAAAAATA-AAAAC
* ** * * *
13361471 TTATATAACTT--A-AA--TTTATAATACATAATAATACATAAC
1 TTACATAACTTACATAACCTACATAATACACAAAAATA-AAAAC
* * * ** *
13361510 CTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAAC
1 TTACATAACTTACATAACCTACATAATACAC-AAAAATAAAAAC
* *
13361554 TTACATAACTTACATAATATCCTACATAATAACTTAGATAATAATACATAAC
1 TTACATAACTTACAT-A-A-CCTACATAAT-AC--ACA-AA-AATA-AAAAC
* * * **
13361606 CTACATAAATTAAATAAGTTACATAATACACAAAAATAAAAAC
1 TTACATAACTTACATAACCTACATAATACACAAAAATAAAAAC
*
13361649 TTACATAACTTACATAACCTACTTAATACA
1 TTACATAACTTACATAACCTACATAATACA
13361679 TAACTTACAT
Statistics
Matches: 158, Mismatches: 34, Indels: 35
0.70 0.15 0.15
Matches are distributed among these distances:
38 4 0.03
39 20 0.13
40 1 0.01
41 5 0.03
42 2 0.01
43 30 0.19
44 30 0.19
45 8 0.05
46 13 0.08
47 8 0.05
48 4 0.03
49 9 0.06
50 4 0.03
51 4 0.03
52 16 0.10
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (43 bp):
TTACATAACTTACATAACCTACATAATACACAAAAATAAAAAC
Found at i:13361680 original size:16 final size:16
Alignment explanation
Indices: 13361659--13361954 Score: 114
Period size: 16 Copynumber: 18.0 Consensus size: 16
13361649 TTACATAACT
*
13361659 TACATAACCTACTTAA
1 TACATAACCTACATAA
*
13361675 TACATAACTTACATAA
1 TACATAACCTACATAA
* *
13361691 TACACAACTTACATAA
1 TACATAACCTACATAA
* *
13361707 CTTACATAACTTATATAA
1 --TACATAACCTACATAA
* *
13361725 GAC--AACTTACATAA
1 TACATAACCTACATAA
*
13361739 TTTACTTAA--TACATAA
1 --TACATAACCTACATAA
13361755 CTTACATAA--TACATAA
1 --TACATAACCTACATAA
13361771 CTTACATAACCTACATAA
1 --TACATAACCTACATAA
* *
13361789 GACATAACTTACATAA
1 TACATAACCTACATAA
* *
13361805 GTTTCATAA--TACACAA
1 --TACATAACCTACATAA
*
13361821 CTTACATAACTTACATAA
1 --TACATAACCTACATAA
*
13361839 TACATAACTTACATAA
1 TACATAACCTACATAA
*
13361855 TTTACTTAA--TACATAA
1 --TACATAACCTACATAA
*
13361871 CTTACATAACTTACATAA
1 --TACATAACCTACATAA
13361889 TACATAA-CTGACATAA
1 TACATAACCT-ACATAA
*
13361905 TTTACTTAA--TACATAA
1 --TACATAACCTACATAA
** *
13361921 CTTACATAATTTACTTAA
1 --TACATAACCTACATAA
*
13361939 TACATAACTTACATAA
1 TACATAACCTACATAA
13361955 CTTATATAAA
Statistics
Matches: 231, Mismatches: 28, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
14 10 0.04
15 1 0.00
16 160 0.69
17 1 0.00
18 59 0.26
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (16 bp):
TACATAACCTACATAA
Found at i:13361682 original size:96 final size:96
Alignment explanation
Indices: 13361492--13361692 Score: 327
Period size: 96 Copynumber: 2.1 Consensus size: 96
13361482 AAATTTATAA
13361492 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAACTTA
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAACTTA
13361557 CATAACTTACATAATATCCTACATAATAACT
66 CATAACTTACATAATATCCTACATAATAACT
* *
13361588 TAGATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACAC-AAAAATAAAAACTTA
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAACTTA
*
13361652 CATAACTTACATAACCTA-CTTA-ATACATAACT
66 CATAACTTACATAA--TATCCTACATA-ATAACT
13361684 TACATAATA
1 TACATAATA
13361693 CACAACTTAC
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
95 31 0.32
96 65 0.66
97 2 0.02
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (96 bp):
TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAACTTA
CATAACTTACATAATATCCTACATAATAACT
Found at i:13361703 original size:50 final size:49
Alignment explanation
Indices: 13361646--13361963 Score: 342
Period size: 50 Copynumber: 6.4 Consensus size: 49
13361636 CAAAAATAAA
* *
13361646 AACTTACATAACTTACATAACCTACTTAA-TACATAACTTACATAATACAC
1 AACTTACATAACTTACATAA--TACATAACTACATAACTTACATAATACAT
* * *
13361696 AACTTACATAACTTACATAACTTATATAA-GAC--AACTTACATAATTTACTT
1 AACTTACATAACTTACATAA--TACATAACTACATAACTTACATAA--TACAT
* *
13361746 AA--TACATAACTTACATAATACATAACTTACATAACCTACATAAGACAT
1 AACTTACATAACTTACATAATACATAAC-TACATAACTTACATAATACAT
* * *
13361794 AACTTACATAAGTTTCATAATACACAACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACATAAC-TACATAACTTACATAATACAT
* *
13361844 AACTTACATAATTTACTTAATACATAACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACATAAC-TACATAACTTACATAATACAT
* * * * *
13361894 AACTGACATAATTTACTTAATACATAACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACATAAC-TACATAACTTACATAATACAT
*
13361944 AACTTACATAACTTATATAA
1 AACTTACATAACTTACATAA
13361964 ATATATGATG
Statistics
Matches: 233, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
46 6 0.03
48 34 0.15
50 193 0.83
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (49 bp):
AACTTACATAACTTACATAATACATAACTACATAACTTACATAATACAT
Found at i:13361793 original size:25 final size:25
Alignment explanation
Indices: 13361650--13361963 Score: 155
Period size: 25 Copynumber: 12.6 Consensus size: 25
13361640 AATAAAAACT
* *
13361650 TACATAACTTACATAACCTACTTAA
1 TACATAACTTACATAACTTACATAA
*
13361675 TACATAACTTACATAA--TACACAA
1 TACATAACTTACATAACTTACATAA
*
13361698 CTTACATAACTTACATAACTTATATAA
1 --TACATAACTTACATAACTTACATAA
* * *
13361725 GAC--AACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
13361748 TACATAACTTACATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
* *
13361771 CTTACATAACCTACATAA--GACATAA
1 --TACATAACTTACATAACTTACATAA
* * *
13361796 CTTACATAAGTTTCATAA--TACACAA
1 --TACATAACTTACATAACTTACATAA
13361821 CTTACATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
13361846 CTTACATAATTTACTTAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
13361871 CTTACATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
13361896 CTGACATAATTTACTTAA--TACATAA
1 -T-ACATAACTTACATAACTTACATAA
* *
13361921 CTTACATAATTTACTTAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
13361946 CTTACATAACTTATATAA
1 --TACATAACTTACATAA
13361964 ATATATGATG
Statistics
Matches: 248, Mismatches: 31, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
23 30 0.12
24 1 0.00
25 211 0.85
26 1 0.00
27 5 0.02
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:13361840 original size:75 final size:75
Alignment explanation
Indices: 13361748--13361963 Score: 333
Period size: 75 Copynumber: 2.9 Consensus size: 75
13361738 ATTTACTTAA
** * * * *
13361748 TACATAACTTACATAATACATAACTTACATAACCTACATAAGACATAACTTACATAAGTTTCATA
1 TACATAACTTACATAATACATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATA
13361813 ATACACAACT
66 ATACACAACT
13361823 TACATAACTTACATAATACATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATA
1 TACATAACTTACATAATACATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATA
*
13361888 ATACATAACT
66 ATACACAACT
* * * *
13361898 GACATAATTTACTTAATACATAACTTACATAATTTACTTAATACATAACTTACATAACTTATATA
1 TACATAACTTACATAATACATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATA
13361963 A
66 A
13361964 ATATATGATG
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 130 1.00
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (75 bp):
TACATAACTTACATAATACATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATA
ATACACAACT
Found at i:13364352 original size:87 final size:87
Alignment explanation
Indices: 13364192--13364368 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 87
13364182 GACCACAGTT
* * * *
13364192 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAACGAGGGAAGT
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGAAGAGGCGGCAACGAGAGAAGC
* **
13364257 AGAGGCTGCAGTGAGAGAAGCA
66 AGACGCTGCAGCAAGAGAAGCA
* *
13364279 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGAAGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGAAGAGGCGGCAACGAGAGAAGC
*
13364344 AGACGCTGCAGCAAGGGAAGCA
66 AGACGCTGCAGCAAGAGAAGCA
13364366 GAG
1 GAG
13364369 TAGAGCGGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.40, C:0.17, G:0.31, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGAAGAGGCGGCAACGAGAGAAGC
AGACGCTGCAGCAAGAGAAGCA
Found at i:13364793 original size:43 final size:43
Alignment explanation
Indices: 13364723--13365027 Score: 328
Period size: 43 Copynumber: 7.1 Consensus size: 43
13364713 CAAATAGCAA
* * *
13364723 CGTTTGTGTAA-AAACGCCGCTACAAGAACATGACCTTTAGTGG
1 CGTTTGTGGAAGAAGCGCCGCTA-AAGAACATGACCTTTAGCGG
* * *
13364766 CGTTTGCGGAAGAATCGCCGCTAAAGAACATGATCTTTAGCGG
1 CGTTTGTGGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
* *
13364809 CGTTTGTGGAAGATGCGCCGCTAAAGAACATGATCTTTAGCGG
1 CGTTTGTGGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
* * *
13364852 CGTTTGTGGAACAAGCGCCGCTAAAGAACATGATCTTCAGCGG
1 CGTTTGTGGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
* * * * *
13364895 CGTTTGTTGAAAAAGTGCCTCCAAAGAACATGACCTTTAGCGG
1 CGTTTGTGGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
* * * *
13364938 TGTTTGTAGGAA-AAGCGCCGCTAAAGACCCTGACCTTTAGTGG
1 CGTTTGT-GGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
* **** * *
13364981 CATTT-TTTTTGTAGCGCCGCTAAAGAACATGACCTTTAGAGG
1 CGTTTGTGGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
13365023 CGTTT
1 CGTTT
13365028 ATAAAAATAA
Statistics
Matches: 222, Mismatches: 37, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
42 32 0.14
43 177 0.80
44 13 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (43 bp):
CGTTTGTGGAAGAAGCGCCGCTAAAGAACATGACCTTTAGCGG
Found at i:13365164 original size:22 final size:22
Alignment explanation
Indices: 13365121--13365164 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13365111 TAGTGGCACT
* **
13365121 AAAAAGCGCCGCTAAATGCCTG
1 AAAAAACGCCGCTAAAAACCTG
13365143 AAAAAACGCCGCTAAAAACCTG
1 AAAAAACGCCGCTAAAAACCTG
13365165 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.18, T:0.11
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTG
Found at i:13366660 original size:21 final size:21
Alignment explanation
Indices: 13366636--13366695 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
13366626 TCTTACATCA
13366636 TGTTGTGGATAAACCACTCAT
1 TGTTGTGGATAAACCACTCAT
*
13366657 TGTTGTGGATGAACCACTC--
1 TGTTGTGGATAAACCACTCAT
* *
13366676 -GTTGTAGATAAACTACTCAT
1 TGTTGTGGATAAACCACTCAT
13366696 CGGTGTCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 15 0.45
21 18 0.55
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTTGTGGATAAACCACTCAT
Found at i:13366694 original size:39 final size:39
Alignment explanation
Indices: 13366637--13366716 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
13366627 CTTACATCAT
* * * *
13366637 GTTGTGGATAAACCACTCATTGTTGTGGATGAACCACTC
1 GTTGTAGATAAACCACTCATCGGTGTCGATGAACCACTC
* *
13366676 GTTGTAGATAAACTACTCATCGGTGTCGATGAACTACTC
1 GTTGTAGATAAACCACTCATCGGTGTCGATGAACCACTC
13366715 GT
1 GT
13366717 AGTAAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (39 bp):
GTTGTAGATAAACCACTCATCGGTGTCGATGAACCACTC
Found at i:13367254 original size:19 final size:20
Alignment explanation
Indices: 13367219--13367257 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13367209 TGTGTAATAA
13367219 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
13367239 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
13367258 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:13367401 original size:52 final size:53
Alignment explanation
Indices: 13367324--13367439 Score: 191
Period size: 52 Copynumber: 2.2 Consensus size: 53
13367314 TAAAAGAAAA
*
13367324 GAAAAGAAA-AAGGAATTGAAAAAGAAACAAAGAATAGAACGAAGC-AGGGGG
1 GAAAAGAAAGAAGGAATTGAAAAAGAAACAAAGAATAGAACGAAACAAGGGGG
*
13367375 GAAAAGAAAGAATGAATTGAAAAAGAAACAAAGAATAGAACGAAACAAGGGGG
1 GAAAAGAAAGAAGGAATTGAAAAAGAAACAAAGAATAGAACGAAACAAGGGGG
*
13367428 AAAAAGAAAGAA
1 GAAAAGAAAGAA
13367440 AGAAAAAGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 9 0.15
52 34 0.57
53 17 0.28
ACGTcount: A:0.62, C:0.05, G:0.27, T:0.06
Consensus pattern (53 bp):
GAAAAGAAAGAAGGAATTGAAAAAGAAACAAAGAATAGAACGAAACAAGGGGG
Found at i:13368445 original size:40 final size:40
Alignment explanation
Indices: 13368321--13368460 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
13368311 GACTTTGAGT
* * *
13368321 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATC
** * * * * * *
13368362 TAATAAGGCACTAGGTG-CCAA-T-TTACTTCGATTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
*
13368399 CTATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
* *
13368439 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
13368461 CTGGTGTGTT
Statistics
Matches: 74, Mismatches: 22, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
37 13 0.18
38 13 0.18
39 2 0.03
40 34 0.46
41 12 0.16
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:13371708 original size:27 final size:25
Alignment explanation
Indices: 13371632--13371708 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 25
13371622 ATAAAAAATA
*
13371632 TAAATTTTTATAAATATATAAAAGCT
1 TAAATTTATATAAATATA-AAAAGCT
*
13371658 TATAATATATATAAATATAAAAAAGCAT
1 TA-AATTTATATAAATAT-AAAAAGC-T
*
13371686 GTAAATTTATAAAAATATAAAAA
1 -TAAATTTATATAAATATAAAAA
13371709 TTTATAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
26 2 0.05
27 24 0.56
28 15 0.35
29 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAATTTATATAAATATAAAAAGCT
Found at i:13371709 original size:18 final size:18
Alignment explanation
Indices: 13371625--13371718 Score: 66
Period size: 18 Copynumber: 5.3 Consensus size: 18
13371615 ATATATGATA
**
13371625 AAAAATATAAATTTTTAT
1 AAAAATATAAAAATTTAT
* **
13371643 AAATATATAAAAGCTTAT
1 AAAAATATAAAAATTTAT
* * *
13371661 -AATATATATAAATATA-
1 AAAAATATAAAAATTTAT
* **
13371677 AAAAAGCATGTAAATTTAT
1 AAAAA-TATAAAAATTTAT
13371696 AAAAATATAAAAATTTAT
1 AAAAATATAAAAATTTAT
13371714 AAAAA
1 AAAAA
13371719 AAACATAGAT
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
17 15 0.26
18 38 0.66
19 5 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAATATAAAAATTTAT
Found at i:13372323 original size:25 final size:25
Alignment explanation
Indices: 13372273--13372323 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
13372263 TGTCATGCTT
* *
13372273 AAGCTTGAGCTCAACTCCAAATTCA
1 AAGCTTGAACTCAACTCCAAACTCA
*
13372298 AAGCTTGATACTCAAC-CCAAGCTCA
1 AAGCTTGA-ACTCAACTCCAAACTCA
13372323 A
1 A
13372324 TTGAACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (25 bp):
AAGCTTGAACTCAACTCCAAACTCA
Found at i:13377528 original size:24 final size:24
Alignment explanation
Indices: 13377500--13377551 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13377490 TTAGTAAGTC
* *
13377500 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
13377524 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
13377548 AAAT
1 AAAT
13377552 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:13377850 original size:18 final size:19
Alignment explanation
Indices: 13377827--13377864 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13377817 TGATATTAAA
13377827 ATAAA-TATAT-TATTATTT
1 ATAAATTATATAT-TTATTT
13377845 ATAAATTATATATTTATTT
1 ATAAATTATATATTTATTT
13377864 A
1 A
13377865 GAATCATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 12 0.67
20 1 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATAAATTATATATTTATTT
Found at i:13377861 original size:19 final size:18
Alignment explanation
Indices: 13377827--13377864 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13377817 TGATATTAAA
13377827 ATAAATATATTATTATTT
1 ATAAATATATTATTATTT
13377845 ATAAAT-TATATATTTATTT
1 ATAAATATAT-TA-TTATTT
13377864 A
1 A
13377865 GAATCATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATAAATATATTATTATTT
Found at i:13381324 original size:14 final size:14
Alignment explanation
Indices: 13381305--13381332 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13381295 TTTTTCAACT
13381305 GATACTATTCTAAC
1 GATACTATTCTAAC
13381319 GATACTATTCTAAC
1 GATACTATTCTAAC
13381333 ATGTAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:13382608 original size:62 final size:62
Alignment explanation
Indices: 13382527--13382756 Score: 406
Period size: 62 Copynumber: 3.7 Consensus size: 62
13382517 CAACATTACA
* *
13382527 ACATTACAACATTAAAACTTGGAACAAACTTTGTAAAATAAATTTTGTAATATAAATTAAAT
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAAAATAAATTTTGTTATATAAATTAAAT
13382589 ACATTACAATATTAAAACTTGGAACAAACTTTGTAAAATAAATTTTGTTATATAAATTAAAT
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAAAATAAATTTTGTTATATAAATTAAAT
* * *
13382651 ACATTACAATATTAAAACTTGGAAGAAAATTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAAAATAAATTTTGTTATATAAATTAAAT
*
13382713 ACATTACAATATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAATATTAAAACTTGGAACAAACTTTGTAAAATAAATT
13382757 AGGTACATTT
Statistics
Matches: 161, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 161 1.00
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (62 bp):
ACATTACAATATTAAAACTTGGAACAAACTTTGTAAAATAAATTTTGTTATATAAATTAAAT
Found at i:13400791 original size:16 final size:16
Alignment explanation
Indices: 13400770--13400800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13400760 TTTTTTATTT
*
13400770 TTTTAATATTAAATAA
1 TTTTAAAATTAAATAA
13400786 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
13400801 TCATTAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAATTAAATAA
Found at i:13402470 original size:24 final size:23
Alignment explanation
Indices: 13402442--13402486 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
13402432 AAAATTTAAA
13402442 TTAGGGTATTAGGTTTTTAATTCT
1 TTAGGGTATTAGG-TTTTAATTCT
*
13402466 TTAGGGTTTTAGGTTTTAATT
1 TTAGGGTATTAGGTTTTAATT
13402487 TTTTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (23 bp):
TTAGGGTATTAGGTTTTAATTCT
Done.