Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 202 of 211
Found at i:59568517 original size:35 final size:34
Alignment explanation
Indices: 59568413--59568540 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
59568403 TGTTTTCAAA
* * *
59568413 AAAATTTCCTTGTTTTC-AAAAGTCCCGTATTCC
1 AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
59568446 GAAAATTTTCTTGTTTTCAAAAAAAT-TCTGTGTTTC
1 -AAAATTTCCTTGTTTTC-AAAAAATCTC-GTATTTC
* *
59568482 ATAAATTTCCATGTTTTCAAAAAATCTCGTCTTTC
1 A-AAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
59568517 AAAAATTTTCGTGTTTTCAAAAAA
1 -AAAATTTCCTTGTTTTCAAAAAA
59568541 AATTGACCGT
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
34 16 0.21
35 35 0.45
36 27 0.35
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (34 bp):
AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
Found at i:59568569 original size:18 final size:17
Alignment explanation
Indices: 59568342--59568573 Score: 73
Period size: 18 Copynumber: 13.0 Consensus size: 17
59568332 CGGTATTTAA
59568342 AAAAAAT-TCGTGTTTC
1 AAAAAATCTCGTGTTTC
59568358 -AAAAATCTTCGTGTTTTC
1 AAAAAATC-TCGTG-TTTC
* *
59568376 -AAAATTCTAGTGTTTC
1 AAAAAATCTCGTGTTTC
* *
59568392 AAAAATTGTCGTGTTTTC
1 AAAAAATCTCGTG-TTTC
* *
59568410 AAAAAAATTTCCTTGTTTTC
1 -AAAAAATCT-CGTG-TTTC
* * * *
59568430 -AAAAGTCCCGTATTCC
1 AAAAAATCTCGTGTTTC
* * * *
59568446 GAAAATTTTCTTGTTTTC
1 AAAAAATCTCGTG-TTTC
59568464 AAAAAAAT-TCTGTGTTTC
1 -AAAAAATCTC-GTGTTTC
* * *
59568482 -ATAAATTTCCATGTTTTC
1 AAAAAATCT-CGTG-TTTC
*
59568500 AAAAAATCTCGTCTTTC
1 AAAAAATCTCGTGTTTC
* *
59568517 AAAAATTTTCGTGTTTTC
1 AAAAAATCTCGTG-TTTC
59568535 AAAAAAAAT-TGACCGTGTTTC
1 --AAAAAATCT---CGTGTTTC
59568556 AAAAAATCCTCGTGTTTC
1 AAAAAAT-CTCGTGTTTC
59568574 GTATTTTATC
Statistics
Matches: 161, Mismatches: 32, Indels: 44
0.68 0.14 0.19
Matches are distributed among these distances:
15 6 0.04
16 12 0.07
17 45 0.28
18 47 0.29
19 28 0.17
20 14 0.09
21 5 0.03
22 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAAAATCTCGTGTTTC
Found at i:59568604 original size:17 final size:16
Alignment explanation
Indices: 59568582--59568641 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 16
59568572 TCGTATTTTA
59568582 TCAAAAATTTTATGTTT
1 TCAAAAATTTT-TGTTT
59568599 TCAAAAAAAATTTTGTGTTT
1 TC---AAAAATTTT-TGTTT
*
59568619 T-AAAAATTTTCGTGTT
1 TCAAAAATTTTTGT-TT
59568635 TCAAAAA
1 TCAAAAA
59568642 GAAAATTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
15 2 0.06
16 12 0.33
17 7 0.19
20 15 0.42
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (16 bp):
TCAAAAATTTTTGTTT
Found at i:59568609 original size:20 final size:19
Alignment explanation
Indices: 59568584--59568624 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
59568574 GTATTTTATC
59568584 AAAAATTTTATGTTTTCAAA
1 AAAAATTTTATGTTTT-AAA
*
59568604 AAAAATTTTGTGTTTTAAA
1 AAAAATTTTATGTTTTAAA
59568623 AA
1 AA
59568625 TTTTCGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (19 bp):
AAAAATTTTATGTTTTAAA
Found at i:59568652 original size:20 final size:19
Alignment explanation
Indices: 59568597--59568679 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
59568587 AATTTTATGT
* *
59568597 TTTCAAAAAAAATTTTGTG
1 TTTCAAAAAAAAATTCGTG
* **
59568616 TTT--TAAAAATTTTCGTG
1 TTTCAAAAAAAAATTCGTG
59568633 TTTCAAAAAGAAAATTCGTG
1 TTTCAAAAA-AAAATTCGTG
**
59568653 TTTC-CTAAAAAATCTCGTG
1 TTTCAAAAAAAAAT-TCGTG
59568672 TTTCAAAA
1 TTTCAAAA
59568680 TTTTCGTTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
17 14 0.29
18 5 0.10
19 17 0.35
20 13 0.27
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTCAAAAAAAAATTCGTG
Found at i:59568663 original size:56 final size:55
Alignment explanation
Indices: 59568603--59568758 Score: 160
Period size: 57 Copynumber: 2.8 Consensus size: 55
59568593 ATGTTTTCAA
*
59568603 AAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAAA-TTCGTGTTTCCT
1 AAAAAATCTTGTGTTTTAAAAATTTTCGTGTTTCAAAAA-AAAAGTTCGTGTTT-CT
* * * *
59568659 AAAAAATCTCGTG-TTTCAAAATTTTCGTTTTTAAAAAAAAAGAGTTTCGTGTTTCT
1 AAAAAATCTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAAAA-AG-TTCGTGTTTCT
*
59568715 --AAAATGCTTGTATTTTAAAAAATTTT-GTGTTTTCAAAAAAAAAG
1 AAAAAAT-CTTGTGTTTT-AAAAATTTTCGTG-TTTCAAAAAAAAAG
59568759 GAAAAGTTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
54 8 0.10
55 27 0.33
56 20 0.24
57 28 0.34
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.41
Consensus pattern (55 bp):
AAAAAATCTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAAAAAGTTCGTGTTTCT
Found at i:59568671 original size:39 final size:36
Alignment explanation
Indices: 59568597--59568679 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 36
59568587 AATTTTATGT
* * * *
59568597 TTTCAAAAAAAATTTTGTGTTTTAAAAATTTTCGTG
1 TTTCAAAAAAAAATTCGTGTTTTAAAAAATCTCGTG
59568633 TTTCAAAAAGAAAATTCGTGTTTCCTAAAAAATCTCGTG
1 TTTCAAAAA-AAAATTCGTGTTT--TAAAAAATCTCGTG
59568672 TTTCAAAA
1 TTTCAAAA
59568680 TTTTCGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 9 0.22
37 11 0.28
39 20 0.50
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (36 bp):
TTTCAAAAAAAAATTCGTGTTTTAAAAAATCTCGTG
Found at i:59568696 original size:17 final size:18
Alignment explanation
Indices: 59568603--59568696 Score: 65
Period size: 16 Copynumber: 5.3 Consensus size: 18
59568593 ATGTTTTCAA
59568603 AAAAAATTTT-GTGTTTT
1 AAAAAATTTTCGTGTTTT
*
59568620 -AAAAATTTTCGTGTTTCA
1 AAAAAATTTTCGTGTTT-T
**
59568638 AAAAGAAAATTCGTGTTTCCT
1 AAAA-AATTTTCGTGTTT--T
*
59568659 AAAAAA-TCTCGTG-TTT
1 AAAAAATTTTCGTGTTTT
*
59568675 -CAAAATTTTCGT-TTTT
1 AAAAAATTTTCGTGTTTT
59568691 AAAAAA
1 AAAAAA
59568697 AAAGAGTTTC
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
15 4 0.07
16 18 0.30
17 10 0.17
18 2 0.03
19 8 0.13
20 13 0.22
21 5 0.08
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (18 bp):
AAAAAATTTTCGTGTTTT
Found at i:59568696 original size:55 final size:56
Alignment explanation
Indices: 59568603--59568758 Score: 144
Period size: 55 Copynumber: 2.8 Consensus size: 56
59568593 ATGTTTTCAA
* * *
59568603 AAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAA-A-TTCGTGTTTCCT
1 AAAAAATCTCGTGTTTTAAAAATTTTCGTGTTT-AAAAAAAAAGAGTTCGTGTTT-CT
* *
59568659 AAAAAATCTCGTG-TTTCAAAATTTTCGTTTTTAAAAAAAAAGAGTTTCGTGTTTCT
1 AAAAAATCTCGTGTTTTAAAAATTTTCGTGTTTAAAAAAAAAGAG-TTCGTGTTTCT
* *
59568715 --AAAATGCTTGTATTTTAAAAAATTTT-GTGTTTTCAAAAAAAAAG
1 AAAAAAT-CTCGTGTTTT-AAAAATTTTCGTG-TTT-AAAAAAAAAG
59568759 GAAAAGTTGT
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
54 13 0.16
55 22 0.27
56 18 0.22
57 20 0.24
58 10 0.12
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.41
Consensus pattern (56 bp):
AAAAAATCTCGTGTTTTAAAAATTTTCGTGTTTAAAAAAAAAGAGTTCGTGTTTCT
Found at i:59569318 original size:28 final size:27
Alignment explanation
Indices: 59569278--59569330 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
59569268 TTGGAATTTA
*
59569278 AAAATTATTTTTTTTGAATTTTTATTG
1 AAAATTAATTTTTTTGAATTTTTATTG
*
59569305 AAAATATAATTTTTTTTAATTTTTAT
1 AAAAT-TAATTTTTTTGAATTTTTAT
59569331 AATTTTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
AAAATTAATTTTTTTGAATTTTTATTG
Found at i:59575466 original size:37 final size:37
Alignment explanation
Indices: 59575416--59575490 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
59575406 CCAAGTTGAA
59575416 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
1 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
59575453 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
1 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
59575490 T
1 T
59575491 GTTAAGTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (37 bp):
TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
Found at i:59576661 original size:15 final size:17
Alignment explanation
Indices: 59576631--59576662 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59576621 ATGTCGCCTA
59576631 TTTTGTACTATGTTTGT
1 TTTTGTACTATGTTTGT
59576648 TTTTG-ACT-TGTTTGT
1 TTTTGTACTATGTTTGT
59576663 GATCCTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (17 bp):
TTTTGTACTATGTTTGT
Found at i:59581886 original size:183 final size:183
Alignment explanation
Indices: 59581578--59582315 Score: 1280
Period size: 183 Copynumber: 4.0 Consensus size: 183
59581568 CTGTCATACC
*
59581578 CTCAGTTGTAGCTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTTGT
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTTGT
* *
59581643 ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTGTGCGCTCCTTGTCGATGCCGGGGATT
66 ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTATGCGCTCCTTGTCGATGCCGGGGGTT
59581708 GTAGTTGCAGTGGTTCGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
131 GTAGTTGCAGTGGTTCGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
*
59581761 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCTCTTCATCTTGT
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTTGT
* * *
59581826 ATCTTGCTATATCTTGGGAAGTGCTGTTGGTGGTTGGTATGTGCTCCTTGTCGATGCCGGGGGTT
66 ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTATGCGCTCCTTGTCGATGCCGGGGGTT
*
59581891 GTAGTTGCAGTGGTTTGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
131 GTAGTTGCAGTGGTTCGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
*
59581944 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTGGT
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTTGT
*
59582009 ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTGTGCGCTCCTTGTCGATGCCGGGGGTT
66 ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTATGCGCTCCTTGTCGATGCCGGGGGTT
59582074 GTAGTTGCAGTGGTTCGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
131 GTAGTTGCAGTGGTTCGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
*
59582127 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCTCTTCATCTTGT
1 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTTGT
* * *
59582192 ATCTTGCTATATCTTGGGAAGTGCTGTTGGTGGTTGGTATGTGCTCCTTGTCGATGCCGGGGGTT
66 ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTATGCGCTCCTTGTCGATGCCGGGGGTT
* * * * * *
59582257 GTAGTTGCAGTGGTTTGGCCTAGTTCATGGCTT-AAGACCTCTGCCGAATGATC
131 GTAGTTGCAGTGGTTCGACCTAGTTCATGG-TTCAGGACATCTGCCAAATGATA
59582310 CTCAGT
1 CTCAGT
59582316 CTCAGAAGGC
Statistics
Matches: 527, Mismatches: 27, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
183 525 1.00
184 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.35
Consensus pattern (183 bp):
CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCAAACTCAGTCTAGGCCTCTTCATCTTGT
ATCTTGCTATATCTAGGGAAGTACTGTTGGTGGTTGGTATGCGCTCCTTGTCGATGCCGGGGGTT
GTAGTTGCAGTGGTTCGACCTAGTTCATGGTTCAGGACATCTGCCAAATGATA
Found at i:59589299 original size:173 final size:173
Alignment explanation
Indices: 59589010--59589357 Score: 696
Period size: 173 Copynumber: 2.0 Consensus size: 173
59589000 TGACAATATT
59589010 TTGATAAATAAAGTATCTTTTATTCTTATCATATTTTTATTTTTAATTTCATCTATCTTATTTTC
1 TTGATAAATAAAGTATCTTTTATTCTTATCATATTTTTATTTTTAATTTCATCTATCTTATTTTC
59589075 TTTTTATGAATATTTTATTCAATTTATTCATTCTTTTTCTCCAATCTAGATCCTCACACCAACTC
66 TTTTTATGAATATTTTATTCAATTTATTCATTCTTTTTCTCCAATCTAGATCCTCACACCAACTC
59589140 TGATCATCAACATTAGAAGCGTTCCTTTTTGACCATCTAGGAA
131 TGATCATCAACATTAGAAGCGTTCCTTTTTGACCATCTAGGAA
59589183 TTGATAAATAAAGTATCTTTTATTCTTATCATATTTTTATTTTTAATTTCATCTATCTTATTTTC
1 TTGATAAATAAAGTATCTTTTATTCTTATCATATTTTTATTTTTAATTTCATCTATCTTATTTTC
59589248 TTTTTATGAATATTTTATTCAATTTATTCATTCTTTTTCTCCAATCTAGATCCTCACACCAACTC
66 TTTTTATGAATATTTTATTCAATTTATTCATTCTTTTTCTCCAATCTAGATCCTCACACCAACTC
59589313 TGATCATCAACATTAGAAGCGTTCCTTTTTGACCATCTAGGAA
131 TGATCATCAACATTAGAAGCGTTCCTTTTTGACCATCTAGGAA
59589356 TT
1 TT
59589358 AAAGAGTAAG
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 175 1.00
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (173 bp):
TTGATAAATAAAGTATCTTTTATTCTTATCATATTTTTATTTTTAATTTCATCTATCTTATTTTC
TTTTTATGAATATTTTATTCAATTTATTCATTCTTTTTCTCCAATCTAGATCCTCACACCAACTC
TGATCATCAACATTAGAAGCGTTCCTTTTTGACCATCTAGGAA
Found at i:59590791 original size:74 final size:74
Alignment explanation
Indices: 59590566--59590793 Score: 177
Period size: 74 Copynumber: 3.1 Consensus size: 74
59590556 TTATGTTTGA
59590566 ATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAATGATTAAGAGT
1 ATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAATGATTAAGAGT
59590631 GATAATCCG
66 GATAATCCG
* * **** * * * * *
59590640 ATTTA-TTAAGAT--GGTTTTCCCAAAATAATCATGTATTGCTAA-ATGCTT-TT-AGATGATAA
1 ATTTATTTAAAATCAAG-TAAAACAAAAT--TGA--TATTGCGAATTTCCTTCTTAAAATGAT--
* * **
59590699 TAA-A-TTAT-GTTTG
59 TAAGAGTGATAATCCG
*
59590712 AATTTATTTAAAATCAAGTAAAACAAAATTGACATTGCGAATTTCCTTCTTAAAATGATTAAGAG
1 -ATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAATGATTAAGAG
59590777 TGATAATCCG
65 TGATAATCCG
59590787 ATTTATT
1 ATTTATT
59590794 AAGATGGTTT
Statistics
Matches: 106, Mismatches: 31, Indels: 34
0.62 0.18 0.20
Matches are distributed among these distances:
71 8 0.08
72 16 0.15
73 25 0.24
74 32 0.30
75 16 0.15
76 9 0.08
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (74 bp):
ATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAATGATTAAGAGT
GATAATCCG
Found at i:59590823 original size:147 final size:147
Alignment explanation
Indices: 59590556--59590859 Score: 592
Period size: 147 Copynumber: 2.1 Consensus size: 147
59590546 TTAAAAAACT
*
59590556 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAAT
1 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGACATTGCGAATTTCCTTCTTAAAAT
59590621 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
66 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
59590686 TTTTAGATGATAATAAA
131 TTTTAGATGATAATAAA
59590703 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGACATTGCGAATTTCCTTCTTAAAAT
1 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGACATTGCGAATTTCCTTCTTAAAAT
59590768 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
66 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
59590833 TTTTAGATGATAATAAA
131 TTTTAGATGATAATAAA
59590850 TTAT-TTTGAA
1 TTATGTTTGAA
59590860 ATAATTCTAA
Statistics
Matches: 156, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
146 6 0.04
147 150 0.96
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (147 bp):
TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGACATTGCGAATTTCCTTCTTAAAAT
GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
TTTTAGATGATAATAAA
Found at i:59594840 original size:22 final size:22
Alignment explanation
Indices: 59594812--59594868 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
59594802 CGTCCAAGTT
59594812 TGGTGTCGTGACACCACATGGC
1 TGGTGTCGTGACACCACATGGC
** *
59594834 TGGTGTCGCAACATCACATGGC
1 TGGTGTCGTGACACCACATGGC
* *
59594856 TGGTATCATGACA
1 TGGTGTCGTGACA
59594869 TTGATGGTAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (22 bp):
TGGTGTCGTGACACCACATGGC
Found at i:59597339 original size:22 final size:22
Alignment explanation
Indices: 59597311--59597355 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
59597301 CGTCCAAGTT
*
59597311 TGGTGTCGTGACACCACATGGC
1 TGGTGTCGCGACACCACATGGC
*
59597333 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGCGACACCACATGGC
59597355 T
1 T
59597356 AGTATCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (22 bp):
TGGTGTCGCGACACCACATGGC
Found at i:59597367 original size:22 final size:22
Alignment explanation
Indices: 59597319--59597368 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
59597309 TTTGGTGTCG
* * * *
59597319 TGACACCACATGGCTGGTGTCG
1 TGACATCACATGGCTAGTATCA
*
59597341 CGACATCACATGGCTAGTATCA
1 TGACATCACATGGCTAGTATCA
59597363 TGACAT
1 TGACAT
59597369 TGATGGTAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (22 bp):
TGACATCACATGGCTAGTATCA
Found at i:59599867 original size:22 final size:22
Alignment explanation
Indices: 59599810--59599867 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
59599800 CGTCCAAGTT
*
59599810 TGGTGTCGTGACACCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
59599832 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
59599854 TGGTGTCATGACAT
1 TGGTGTCGTGACAT
59599868 TGATGGTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (22 bp):
TGGTGTCGTGACATCACATGGC
Found at i:59600930 original size:22 final size:22
Alignment explanation
Indices: 59600873--59600930 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
59600863 CGTCCAAGTT
*
59600873 TGGTGTCGTGACAACACATGGC
1 TGGTGTCGTGACATCACATGGC
*
59600895 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
59600917 TGGTGTCATGACAT
1 TGGTGTCGTGACAT
59600931 TGATGATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (22 bp):
TGGTGTCGTGACATCACATGGC
Found at i:59603391 original size:22 final size:22
Alignment explanation
Indices: 59603363--59603412 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
59603353 GTCCTAGTTG
* *
59603363 GGTGTCGCGACATCATATGGCT
1 GGTGTCGCAACATCACATGGCT
*
59603385 GGTGTCGTAACATCACATGGCT
1 GGTGTCGCAACATCACATGGCT
59603407 GGTGTC
1 GGTGTC
59603413 ATCACATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (22 bp):
GGTGTCGCAACATCACATGGCT
Found at i:59603419 original size:22 final size:22
Alignment explanation
Indices: 59603372--59603419 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
59603362 GGGTGTCGCG
* *
59603372 ACATCATATGGCTGGTGTCGTA
1 ACATCACATGGCTGGTGTCATA
*
59603394 ACATCACATGGCTGGTGTCATC
1 ACATCACATGGCTGGTGTCATA
59603416 ACAT
1 ACAT
59603420 TGATGTCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (22 bp):
ACATCACATGGCTGGTGTCATA
Found at i:59609982 original size:22 final size:22
Alignment explanation
Indices: 59609925--59609982 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
59609915 TGTCCAGGTT
* *
59609925 TGGTGTCGTGACACCATATGGC
1 TGGTGTCGTGACATCACATGGC
*
59609947 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
59609969 TGGTGTCATGACAT
1 TGGTGTCGTGACAT
59609983 TGATGGCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (22 bp):
TGGTGTCGTGACATCACATGGC
Found at i:59614154 original size:22 final size:23
Alignment explanation
Indices: 59614128--59614174 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
59614118 TTGTTTCCTT
*
59614128 TTGCTTCTCGATTCTTGTT-CTG
1 TTGCTTCTCAATTCTTGTTGCTG
* *
59614150 TTGCTTGTCAATTTTTGTTGCTG
1 TTGCTTCTCAATTCTTGTTGCTG
59614173 TT
1 TT
59614175 TTTAGAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.06, C:0.17, G:0.19, T:0.57
Consensus pattern (23 bp):
TTGCTTCTCAATTCTTGTTGCTG
Found at i:59617183 original size:26 final size:27
Alignment explanation
Indices: 59617133--59617193 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
59617123 AAAAATAACT
59617133 AAAATATTATAACTTTTTTTTATTTATC
1 AAAATATTATAAC-TTTTTTTATTTATC
59617161 AAAATATTATAA-TTTTTTTATTTATC
1 AAAATATTATAACTTTTTTTATTTATC
59617187 AAAATAT
1 AAAATAT
59617194 ACAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 21 0.64
28 12 0.36
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTATC
Found at i:59617621 original size:19 final size:19
Alignment explanation
Indices: 59617597--59617662 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
59617587 ATTAAAATAG
59617597 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
59617616 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
59617634 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
59617653 TTTAATTTAA
1 TTTAATTTAA
59617663 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:59617928 original size:18 final size:19
Alignment explanation
Indices: 59617889--59617947 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
59617879 ATTTTATATT
59617889 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
59617908 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
59617926 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
59617945 TTA
1 TTA
59617948 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:59618561 original size:27 final size:27
Alignment explanation
Indices: 59618522--59618580 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
59618512 TTTTAGTCCT
59618522 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
*
59618549 TTGGCACCTTTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
59618576 TTGGC
1 TTGGC
59618581 CTGATCAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:59618664 original size:26 final size:27
Alignment explanation
Indices: 59618634--59618697 Score: 103
Period size: 28 Copynumber: 2.4 Consensus size: 27
59618624 TATTTTTGGT
*
59618634 ATATTTTGGTAAAT-AAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
59618660 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAGTTATA
59618688 ATATTTTGGT
1 ATATTTTGGT
59618698 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 14 0.40
28 21 0.60
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:59620855 original size:51 final size:51
Alignment explanation
Indices: 59620740--59620917 Score: 295
Period size: 51 Copynumber: 3.5 Consensus size: 51
59620730 TCGATACACG
* * * * * *
59620740 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCCGGTTCACG
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
59620790 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
59620841 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
59620892 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
59620918 TACGACCTTT
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
50 32 0.26
51 89 0.74
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
Found at i:59620946 original size:101 final size:102
Alignment explanation
Indices: 59620726--59620972 Score: 283
Period size: 101 Copynumber: 2.5 Consensus size: 102
59620716 TTAACTATTA
* * * * *
59620726 TCATTCGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACG
1 TCATTCCAGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTACACA
*
59620790 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC
66 TAGTAGCCTGCACATAGTACTACACAC-TGATCGAACC
* * * * * *
59620828 T-A-TCCGGTACGCATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGC
1 TCATTCCAGTACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTATCCGGTACAC
59620891 ATAGTAGCCTGCACATAGTACTACACA-T-A-CG-ACC
65 ATAGTAGCCTGCACATAGTACTACACACTGATCGAACC
* *
59620925 TTTCATTCTAGTACACGTAGTAACCTACACATAGTACTACACACGTGA
1 --TCATTCCAGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
59620973 CTATCACTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
97 2 0.02
98 2 0.02
99 2 0.02
100 4 0.03
101 73 0.60
102 39 0.32
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
TCATTCCAGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTACACA
TAGTAGCCTGCACATAGTACTACACACTGATCGAACC
Found at i:59625096 original size:25 final size:27
Alignment explanation
Indices: 59625039--59625097 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 27
59625029 TATTCAAACC
*
59625039 TTATTTCACTATCTCAATTCCATTAGA
1 TTATTTCACTATCTCAATTCCAATAGA
*
59625066 TT-TTTCAC-ATCTC-ATTCCAATAGT
1 TTATTTCACTATCTCAATTCCAATAGA
59625090 TTATTTCA
1 TTATTTCA
59625098 ATTCATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
25 10 0.34
26 6 0.21
27 2 0.07
ACGTcount: A:0.27, C:0.22, G:0.03, T:0.47
Consensus pattern (27 bp):
TTATTTCACTATCTCAATTCCAATAGA
Found at i:59627559 original size:13 final size:13
Alignment explanation
Indices: 59627541--59627569 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59627531 GTGGTTGGTG
59627541 GTAAGAAATTATA
1 GTAAGAAATTATA
59627554 GTAAGAAATTATA
1 GTAAGAAATTATA
59627567 GTA
1 GTA
59627570 GGCTTAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (13 bp):
GTAAGAAATTATA
Found at i:59633459 original size:67 final size:67
Alignment explanation
Indices: 59633347--59633575 Score: 327
Period size: 67 Copynumber: 3.4 Consensus size: 67
59633337 GAGGTTTAAG
* * * *
59633347 GTGTAAGACCATAGCTTGACTAT-AGCAACCA-ATAGAGTCCGCCAAGACATTAAACATGGGGTT
1 GTGTAAGACCATAGCTCGGCTATGA-CAA-CATGTGGAGTCCGCCAAGACATTAAACATGGGGTT
59633410 ACAT
64 ACAT
* * *
59633414 GTGTAAGACCATAGCTCGGCTATGACAACATGTGGAGTTCGCCAAGATATTAATCATGGGGTTAC
1 GTGTAAGACCATAGCTCGGCTATGACAACATGTGGAGTCCGCCAAGACATTAAACATGGGGTTAC
59633479 AT
66 AT
* *
59633481 GTGTAAGACCATAGCTCGGCTATGGCAACATGTGGAGTCCGCCAGGACATTAAACATGGGGTTAC
1 GTGTAAGACCATAGCTCGGCTATGACAACATGTGGAGTCCGCCAAGACATTAAACATGGGGTTAC
59633546 AT
66 AT
* *
59633548 GGGTAAGACCATAGCTCAGCTATGACAA
1 GTGTAAGACCATAGCTCGGCTATGACAA
59633576 TAGATAAATG
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
66 2 0.01
67 142 0.98
68 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (67 bp):
GTGTAAGACCATAGCTCGGCTATGACAACATGTGGAGTCCGCCAAGACATTAAACATGGGGTTAC
AT
Found at i:59637788 original size:52 final size:51
Alignment explanation
Indices: 59637717--59638023 Score: 382
Period size: 52 Copynumber: 6.1 Consensus size: 51
59637707 ATCAAGTGAT
* *
59637717 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59637769 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
59637815 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59637867 AAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
** * *
59637918 AAAAGTGATAAGTGATAGCTTTGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
59637965 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
59638017 ATAAGTG
1 A-AAGTG
59638024 GCTACACTTA
Statistics
Matches: 222, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
46 86 0.39
51 1 0.00
52 130 0.59
53 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:59637824 original size:98 final size:98
Alignment explanation
Indices: 59637703--59638023 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 98
59637693 TTTGAGTACT
* *
59637703 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59637768 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
59637801 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59637866 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * * * *
59637899 TTTGATCAAGTGATAAGTGAAAAGTGATAAGTGATAGCTTTGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTG---A---CAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
**
59637964 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
59637997 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
59638024 GCTACACTTA
Statistics
Matches: 202, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
92 13 0.06
95 1 0.00
98 145 0.72
101 1 0.00
104 42 0.21
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:59637918 original size:7 final size:7
Alignment explanation
Indices: 59637901--59637934 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
59637891 TACACTTATT
59637901 TGATCAAG
1 TGAT-AAG
59637909 TGATAAG
1 TGATAAG
*
59637916 TGAAAAG
1 TGATAAG
59637923 TGATAAG
1 TGATAAG
59637930 TGATA
1 TGATA
59637935 GCTTTGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:59637923 original size:150 final size:150
Alignment explanation
Indices: 59637717--59638012 Score: 502
Period size: 150 Copynumber: 2.0 Consensus size: 150
59637707 ATCAAGTGAT
* * *
59637717 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
59637782 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
59637847 TCTGATCAAGTGACAAGTGG
131 TCTGATCAAGTGACAAGTGG
* * * *
59637867 AAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGATAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* *
59637932 ATAGCTTTGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
59637997 TCTGATCAAGTGACAA
131 TCTGATCAAGTGACAA
59638013 AGTGATAAGT
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 136 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (150 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGTGACAAGTGG
Found at i:59638013 original size:46 final size:46
Alignment explanation
Indices: 59637909--59638023 Score: 189
Period size: 46 Copynumber: 2.5 Consensus size: 46
59637899 TTTGATCAAG
* *
59637909 TGAT-AAGTGA-AAAGTGATAAGTGATAGCTTTGGCTATACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATC
*
59637953 TGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATC
59637999 TGATCAAGTGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
59638024 GCTACACTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
44 4 0.06
45 5 0.08
46 56 0.86
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATC
Found at i:59638031 original size:37 final size:37
Alignment explanation
Indices: 59637987--59638132 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
59637977 GATAGCTTTA
**
59637987 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59638024 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59638061 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59638098 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59638133 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59640859 original size:3 final size:3
Alignment explanation
Indices: 59640851--59640876 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59640841 GTGGAATGGA
59640851 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
59640877 AAATTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:59642117 original size:42 final size:42
Alignment explanation
Indices: 59642026--59642164 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 42
59642016 CGAAGGCTGC
* * * * *
59642026 ACAGAAG-TACATAAGTGCTAAACAAAAACCCGTAAGGGTTGA
1 ACAGAAGCT-CATAAGAGCTGAACGAAAACCCATAAGGGTTAA
* **
59642068 ACGGAAGCTCATTGGAGCTGAACGAAAACCCATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAA
* * * *
59642110 ACTGAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAA
*
59642152 ACAGAAACTCATA
1 ACAGAAGCTCATA
59642165 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 78 0.99
43 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAA
Found at i:59642328 original size:23 final size:23
Alignment explanation
Indices: 59642298--59642346 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
59642288 AATGGTACTC
59642298 AATCCCGCGTTCCACTTTAACCG
1 AATCCCGCGTTCCACTTTAACCG
59642321 AATCCCGCGTTCCACTTTAACCG
1 AATCCCGCGTTCCACTTTAACCG
59642344 AAT
1 AAT
59642347 ATTCATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.37, G:0.12, T:0.27
Consensus pattern (23 bp):
AATCCCGCGTTCCACTTTAACCG
Found at i:59651238 original size:3 final size:3
Alignment explanation
Indices: 59651226--59651292 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
59651216 TGAAGAAACT
* * * *
59651226 TAA T-A TAA TAA TACA TAA TAA -AT TTA TAA TAC TGA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
59651270 TAA TAA TAA CAA TAA TACA TAA T
1 TAA TAA TAA TAA TAA TA-A TAA T
59651293 GAGCTTAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 3 0.06
3 41 0.82
4 6 0.12
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59651272 original size:18 final size:16
Alignment explanation
Indices: 59651226--59651349 Score: 73
Period size: 15 Copynumber: 7.8 Consensus size: 16
59651216 TGAAGAAACT
59651226 TAAT-ATAATAATACA
1 TAATAATAATAATACA
*
59651241 TAATAAATTTATAATAC-
1 TAAT-AA-TAATAATACA
*
59651258 TGATAATAATAATA-A
1 TAATAATAATAATACA
*
59651273 TAATAACAATAATACA
1 TAATAATAATAATACA
* *
59651289 TAATGAGCTTA-AATAC-
1 TAAT-A-ATAATAATACA
*
59651305 TAATATATAATAATAACT
1 TAATA-ATAATAAT-ACA
*
59651323 TAA-AATAATAGTACA
1 TAATAATAATAATACA
*
59651338 TATTAA-AATAAT
1 TAATAATAATAAT
59651350 GTATACATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
15 35 0.42
16 23 0.28
17 13 0.16
18 12 0.14
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (16 bp):
TAATAATAATAATACA
Found at i:59651309 original size:26 final size:23
Alignment explanation
Indices: 59651222--59651339 Score: 73
Period size: 26 Copynumber: 4.9 Consensus size: 23
59651212 TATATGAAGA
*
59651222 AACTTAATATAATAATACATAAT
1 AACTTAAAATAATAATACATAAT
* *
59651245 AAATTTATAATACTGATAATA-ATAAT
1 -AACTTA-AA-A-TAATAATACATAAT
*
59651271 AA--TAATAACAATAATACATAAT
1 AACTTAA-AATAATAATACATAAT
*
59651293 GAGCTTAAATACTAATATATA-ATAAT
1 -AACTTAAA-A-TAATA-ATACATAAT
*
59651319 AACTTAAAATAATAGTACATA
1 AACTTAAAATAATAATACATA
59651340 TTAAAATAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 25
0.68 0.08 0.23
Matches are distributed among these distances:
21 6 0.08
22 9 0.12
23 12 0.16
24 7 0.10
25 14 0.19
26 15 0.21
27 10 0.14
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (23 bp):
AACTTAAAATAATAATACATAAT
Found at i:59651369 original size:20 final size:19
Alignment explanation
Indices: 59651322--59651370 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
59651312 TAATAATAAC
59651322 TTAAAATAA--TAGTACATA
1 TTAAAATAATGTA-TACATA
59651340 TTAAAATAATGTATACATA
1 TTAAAATAATGTATACATA
*
59651359 TATATAATAATG
1 T-TAAAATAATG
59651371 AATAAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 7 0.26
20 11 0.41
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (19 bp):
TTAAAATAATGTATACATA
Found at i:59653423 original size:10 final size:10
Alignment explanation
Indices: 59653407--59653440 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59653397 TAAAAAATAC
59653407 ATAAATATTT
1 ATAAATATTT
* *
59653417 TTAAATATAT
1 ATAAATATTT
59653427 ATAAATATTT
1 ATAAATATTT
59653437 ATAA
1 ATAA
59653441 TTAGGATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAATATTT
Found at i:59664949 original size:5 final size:5
Alignment explanation
Indices: 59664939--59664964 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59664929 TTTGATAATG
59664939 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
59664965 TCTTTTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:59667153 original size:41 final size:41
Alignment explanation
Indices: 59667092--59667173 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
59667082 TGTCTAGTTA
*
59667092 TTGGGATGAAAATAGATTTTTAATTAAATAAATTTCATTTG
1 TTGGGATGAAAATAGATTTTTAATTAAATAAATTTAATTTG
* *
59667133 TTGGGATGAACATAGGTTTTTAATTAAATAAATTTAATTTG
1 TTGGGATGAAAATAGATTTTTAATTAAATAAATTTAATTTG
59667174 GACTACCACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (41 bp):
TTGGGATGAAAATAGATTTTTAATTAAATAAATTTAATTTG
Found at i:59669506 original size:21 final size:20
Alignment explanation
Indices: 59669468--59669506 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
59669458 ATTTTTTTCG
*
59669468 AATTTAGTCAAGTGAAATGA
1 AATTTAGTCAAGTCAAATGA
*
59669488 AATTTAAGTCGAGTCAAAT
1 AATTT-AGTCAAGTCAAAT
59669507 CAAGTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (20 bp):
AATTTAGTCAAGTCAAATGA
Found at i:59669782 original size:19 final size:19
Alignment explanation
Indices: 59669755--59669817 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
59669745 TTTAGATTTT
*
59669755 TTTTGAAATTTTTATAAATA
1 TTTT-AAATTTTTAAAAATA
59669775 TTTTAAA-TTTTAAAAATTA
1 TTTTAAATTTTTAAAAA-TA
* *
59669794 ATTTGAATTTTTGAAAAATA
1 TTTTAAATTTTT-AAAAATA
59669814 TTTT
1 TTTT
59669818 TTTTTTTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 8 0.22
19 10 0.28
20 13 0.36
21 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAATTTTTAAAAATA
Found at i:59674875 original size:9 final size:9
Alignment explanation
Indices: 59674855--59674890 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
59674845 TTTTTAAAAA
59674855 TAAAAATGAT
1 TAAAAAT-AT
59674865 TAAAAATAT
1 TAAAAATAT
59674874 TAAAAATAT
1 TAAAAATAT
59674883 ATAAAAAT
1 -TAAAAAT
59674891 TTTAGTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 11 0.44
10 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATAT
Found at i:59685396 original size:13 final size:13
Alignment explanation
Indices: 59685358--59685398 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
59685348 AAATAAATAG
*
59685358 TTAATAAAATTAG
1 TTAATAAAATTAA
*
59685371 TTAATTAAATTAA
1 TTAATAAAATTAA
59685384 TTAATAAAATTAA
1 TTAATAAAATTAA
59685397 TT
1 TT
59685399 GGCCAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
TTAATAAAATTAA
Found at i:59685734 original size:17 final size:17
Alignment explanation
Indices: 59685699--59685745 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
59685689 GTGATGTGTG
*
59685699 ATAAATTTT-CTTTTAA
1 ATAAATTTTATTTTTAA
*
59685715 AT-AATCTTTATTTTTCA
1 ATAAAT-TTTATTTTTAA
59685732 ATAAATTTTATTTT
1 ATAAATTTTATTTT
59685746 AATTTAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 5 0.19
17 15 0.58
18 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAAATTTTATTTTTAA
Found at i:59694132 original size:46 final size:45
Alignment explanation
Indices: 59694065--59694766 Score: 573
Period size: 46 Copynumber: 16.6 Consensus size: 45
59694055 TTTGAGTACT
* *
59694065 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
59694111 TCTGATCAAGTGAAAAAGTGATAA-----A---T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
59694147 TCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGT-GAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
59694193 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
59694229 TCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
59694275 TCTGATCGAGTGAAAAAGTGATAAGT-G-A---TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
59694311 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
59694347 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
59694393 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
59694429 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
59694465 TCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
59694511 TCTGATCAAGAGACTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATC---A-A--G-T---GA-A-AAAGTGATAAGTGGTAGC-TTAGCTACACTTA
59694569 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
59694605 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
59694651 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
59694697 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
59694742 TCTAATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
59694767 ATCATACGTA
Statistics
Matches: 550, Mismatches: 32, Indels: 151
0.75 0.04 0.21
Matches are distributed among these distances:
32 1 0.00
33 2 0.00
34 3 0.01
35 3 0.01
36 191 0.35
37 5 0.01
38 3 0.01
39 1 0.00
40 9 0.02
41 3 0.01
42 11 0.02
43 17 0.03
44 3 0.01
45 25 0.05
46 221 0.40
47 2 0.00
48 2 0.00
49 1 0.00
50 1 0.00
51 1 0.00
52 2 0.00
54 1 0.00
55 1 0.00
56 2 0.00
58 39 0.07
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:59694142 original size:36 final size:36
Alignment explanation
Indices: 59694101--59694491 Score: 379
Period size: 36 Copynumber: 10.0 Consensus size: 36
59694091 GGTAGCTTTA
*
59694101 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAAT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
59694137 GCTACACTTATCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGT-GAAAAAGTGAT-A-----AG---T
59694182 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
59694219 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA------G---T
*
59694264 AGCTACACTTATCTGATCGAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
59694301 GATATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
59694337 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
59694382 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
59694419 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
59694455 GCTACACTTATCTAATCAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
59694491 G
1 G
59694492 GTAGCTTTAG
Statistics
Matches: 301, Mismatches: 22, Indels: 64
0.78 0.06 0.17
Matches are distributed among these distances:
35 1 0.00
36 190 0.63
37 5 0.02
40 5 0.02
42 4 0.01
45 5 0.02
46 90 0.30
47 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:59694202 original size:82 final size:82
Alignment explanation
Indices: 59694065--59694520 Score: 556
Period size: 82 Copynumber: 5.7 Consensus size: 82
59694055 TTTGAGTACT
*
59694065 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
59694130 GATAAATGCTACACTTA
66 GATAAGTGCTACACTTA
*
59694147 TCTGATCAATAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
59694212 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
59694229 TCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTTAGCTACACTTATCTGATCGAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
59694294 GATAAGTGATATACTTA
66 GATAAGTGCTACACTTA
* * * *
59694311 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
59694366 GATAAGTGGTAGCTTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* *
59694393 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
59694448 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
59694465 TCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
59694521 AGACTGATCA
Statistics
Matches: 328, Mismatches: 21, Indels: 50
0.82 0.05 0.13
Matches are distributed among these distances:
72 60 0.18
73 3 0.01
75 2 0.01
76 5 0.02
78 4 0.01
80 1 0.00
81 3 0.01
82 246 0.75
83 1 0.00
84 2 0.01
85 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:59694529 original size:12 final size:12
Alignment explanation
Indices: 59694512--59694536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59694502 CTACACTTAT
59694512 CTGATCAAGAGA
1 CTGATCAAGAGA
59694524 CTGATCAAGAGA
1 CTGATCAAGAGA
59694536 C
1 C
59694537 AAAGTGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CTGATCAAGAGA
Found at i:59694559 original size:58 final size:58
Alignment explanation
Indices: 59694469--59694578 Score: 220
Period size: 58 Copynumber: 1.9 Consensus size: 58
59694459 CACTTATCTA
59694469 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACTG
1 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACTG
59694527 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
1 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
59694579 TGAAAAAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (58 bp):
ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACTG
Found at i:59694596 original size:140 final size:128
Alignment explanation
Indices: 59694137--59694723 Score: 757
Period size: 118 Copynumber: 4.6 Consensus size: 128
59694127 AGTGATAAAT
* *
59694137 GCTACACTTATCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
1 GCTACACTTATCTGATCAAGT-GAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
* * *
59694201 AGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTTA
65 AGTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCCTTA
* *
59694265 GCTACACTTATCTGATCGAGTGAAAAAGTGATAAGT-G-A----TA--T--ACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* *
59694320 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
66 GTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCCTTA
*
59694383 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G-C-TA--T--ACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
59694438 GTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
66 GTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCCTTA
*
59694501 GCTACACTTATCTGATCAAGAGACTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAC
1 GCTACACTTATCTGATC---A-A--G-T---GAG--AAAGTGATAAGTGGTAGCCTTAGCTACAC
* * *
59694566 TTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
54 TTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGT
*
59694631 GTTAGCCTTA
119 GGTAGCCTTA
59694641 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
59694706 GTGACAAAGTGATAAGTG
66 GTGAAAAAGTGATAAGTG
59694724 GTAGCCTAGC
Statistics
Matches: 419, Mismatches: 14, Indels: 52
0.86 0.03 0.11
Matches are distributed among these distances:
116 1 0.00
118 205 0.49
120 1 0.00
121 1 0.00
122 3 0.01
124 1 0.00
125 1 0.00
126 1 0.00
127 1 0.00
128 91 0.22
129 1 0.00
130 13 0.03
133 3 0.01
134 2 0.00
136 3 0.01
137 1 0.00
138 1 0.00
140 89 0.21
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (128 bp):
GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCCTTA
Found at i:59694605 original size:36 final size:36
Alignment explanation
Indices: 59694559--59694631 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
59694549 GGTAGCTTTA
59694559 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
59694595 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
59694631 G
1 G
59694632 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:59694661 original size:82 final size:82
Alignment explanation
Indices: 59694306--59694766 Score: 436
Period size: 82 Copynumber: 5.4 Consensus size: 82
59694296 TAAGTGATAT
* *
59694306 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
*
59694371 GTGGTAGCTTTAGCTAC
66 GTGGTAGCCTTAGCTAC
*
59694388 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
* *
59694453 GTGCTA-CACTTATCTA-
66 GTGGTAGC-CTTAGCTAC
* *** * * *
59694469 A-TCAAGAGA-CAAAGTG-ATAAGTGGT-AGCTTTAGCTACACTTATCTGATCAAGAGACTGATC
1 ACTTATCTGATC-AAGTGAAAAAGTGATAAG---T-GCTATACTTATCTGATC---A-A--G-T-
*
59694530 AAGAGACAAAGTGATAAGTGGTAGCTTTAGCTAC
53 ----GACAAAGTGATAAGTGGTAGCCTTAGCTAC
59694564 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
*
59694629 GTGTTAGCCTTAGCTAC
66 GTGGTAGCCTTAGCTAC
*
59694646 ACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
1 ACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G-C-TA--T--ACTTATCTGATCAAGTGAC
59694711 AAAGTGATAAGTGGTAGCC-TAGCTAC
56 AAAGTGATAAGTGGTAGCCTTAGCTAC
* * *
59694737 ACTTATCTAATC-AG-GGACAAGTGATAAGTG
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTG
59694767 ATCATACGTA
Statistics
Matches: 313, Mismatches: 32, Indels: 65
0.76 0.08 0.16
Matches are distributed among these distances:
78 2 0.01
79 8 0.03
80 9 0.03
81 3 0.01
82 145 0.46
85 4 0.01
86 4 0.01
87 2 0.01
88 4 0.01
89 11 0.04
90 4 0.01
91 19 0.06
92 37 0.12
94 39 0.12
95 3 0.01
96 9 0.03
97 8 0.03
98 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (82 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAA
GTGGTAGCCTTAGCTAC
Found at i:59695550 original size:12 final size:12
Alignment explanation
Indices: 59695533--59695563 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59695523 GGATTTTATT
*
59695533 TTTTTCTTTTCG
1 TTTTTCTTTTCA
59695545 TTTTTCTTTTCA
1 TTTTTCTTTTCA
59695557 TTTTTCT
1 TTTTTCT
59695564 GTAAAAGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:59698201 original size:23 final size:23
Alignment explanation
Indices: 59698173--59698301 Score: 73
Period size: 23 Copynumber: 5.4 Consensus size: 23
59698163 TGTACAAAAA
*
59698173 TGGACAGCATTTAAGCACCAATT
1 TGGACAGCATTTAAGCACAAATT
* **
59698196 TGGACAGCATTAATATA-CTCAAAAA
1 TGGACAGCATT--TA-AGCACAAATT
* * *
59698221 TAGACAGCAATTAATCATC-AATT
1 TGGACAGCATTTAAGCA-CAAATT
* * **
59698244 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATT--TAAGCACAAATT
* *
59698269 TGGATAGCATTTAAGCACTAATT
1 TGGACAGCATTTAAGCACAAATT
59698292 TGGACAGCAT
1 TGGACAGCAT
59698302 CTTATCATCA
Statistics
Matches: 75, Mismatches: 23, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
22 1 0.01
23 41 0.55
24 2 0.03
25 30 0.40
26 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (23 bp):
TGGACAGCATTTAAGCACAAATT
Found at i:59698208 original size:48 final size:47
Alignment explanation
Indices: 59698149--59698301 Score: 189
Period size: 48 Copynumber: 3.2 Consensus size: 47
59698139 AACAACATTC
*
59698149 GGACAGTATTAATTTGTACAAAAATGGACAGCATTTAAGCACCAATTT
1 GGACAGCATTAATTTGT-CAAAAATGGACAGCATTTAAGCACCAATTT
** * * * *
59698197 GGACAGCATTAATATACTCAAAAATAGACAGCAATTAATCATCAATTT
1 GGACAGCATTAAT-TTGTCAAAAATGGACAGCATTTAAGCACCAATTT
* * *
59698245 GGACAGCATTAATATGCTCAAAAATGGATAGCATTTAAGCACTAATTT
1 GGACAGCATTAATTTG-TCAAAAATGGACAGCATTTAAGCACCAATTT
59698293 GGACAGCAT
1 GGACAGCAT
59698302 CTTATCATCA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 85 0.98
49 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (47 bp):
GGACAGCATTAATTTGTCAAAAATGGACAGCATTTAAGCACCAATTT
Found at i:59698229 original size:25 final size:25
Alignment explanation
Indices: 59698196--59698279 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
59698186 AGCACCAATT
59698196 TGGACAGCATTAATATACTCAAAAA
1 TGGACAGCATTAATATACTCAAAAA
* * **
59698221 TAGACAGCAATTAAT-CA-TC-AATT
1 TGGACAGC-ATTAATATACTCAAAAA
*
59698244 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATTAATATACTCAAAAA
*
59698269 TGGATAGCATT
1 TGGACAGCATT
59698280 TAAGCACTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
22 6 0.13
23 9 0.20
24 4 0.09
25 20 0.44
26 6 0.13
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.27
Consensus pattern (25 bp):
TGGACAGCATTAATATACTCAAAAA
Found at i:59698924 original size:43 final size:42
Alignment explanation
Indices: 59698848--59698962 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
59698838 GTACAATGTC
* * ** *
59698848 ATATCCCAGATATGGTCTTACATGTTATAATATATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGAAATCATATA-CGATGCCA
* *
59698891 CTATCCCAGACAGGGTCTTACACGAAATCATATACGATGCCA
1 ATATCCCAGACATGGTCTTACACGAAATCATATACGATGCCA
* * * *
59698933 ATGTCTCGGACATGTTCTTACACGAAATCA
1 ATATCCCAGACATGGTCTTACACGAAATCA
59698963 CACCTCGGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 32 0.54
43 27 0.46
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
ATATCCCAGACATGGTCTTACACGAAATCATATACGATGCCA
Found at i:59706815 original size:22 final size:23
Alignment explanation
Indices: 59706778--59706820 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
59706768 ACTATTTGGT
*
59706778 AGTTTGACTTTTTTTATATTTAA
1 AGTTTGACCTTTTTTATATTTAA
59706801 AGTTT-ACCTTTTTTATATTT
1 AGTTTGACCTTTTTTATATTT
59706821 GGAATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (23 bp):
AGTTTGACCTTTTTTATATTTAA
Found at i:59706828 original size:22 final size:23
Alignment explanation
Indices: 59706787--59706836 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
59706777 TAGTTTGACT
59706787 TTTTTTATATTTAAAGTTTA-CC
1 TTTTTTATATTTAAAGTTTATCC
*
59706809 TTTTTTATATTTGGAA-TTTATCC
1 TTTTTTATATTT-AAAGTTTATCC
59706832 TTTTT
1 TTTTT
59706837 ATTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTTTATATTTAAAGTTTATCC
Found at i:59714577 original size:4 final size:4
Alignment explanation
Indices: 59714568--59714592 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
59714558 AAAATCTACC
59714568 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
59714593 GATGAGGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:59718307 original size:9 final size:10
Alignment explanation
Indices: 59718280--59718308 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
59718270 AATCATATCA
59718280 TTTAGAAAAT
1 TTTAGAAAAT
59718290 TTTAGAAAAT
1 TTTAGAAAAT
59718300 TTTA-AAAAT
1 TTTAGAAAAT
59718309 AATTTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTTAGAAAAT
Found at i:59729391 original size:106 final size:104
Alignment explanation
Indices: 59729150--59729415 Score: 327
Period size: 106 Copynumber: 2.5 Consensus size: 104
59729140 ATTTCGAGTA
* * * * * ** * * *
59729150 TTGGTCTATCAATGGCCGGCACCAGAATACAAAAAAAG-TAAGAAATTTTTTTTGTGGTGGCCTG
1 TTGGTCTGTCAATGGCCGGCACTAGTATACGAAAAAAGTTAAAAAAAATTTTTGGTGGTGACCTA
* *
59729214 CCAATGGCCGGCACCACCTTTATGAATTTTTTTTTACTT
66 CCAATGGCCGGCAACACCTTTATCAATTTTTTTTTACTT
** * * *
59729253 TTTTTCGTGTCAATGGCAGGCACTAATATACGAAAAAAGTTAAAAAAAAATTTTGGTGGTGACCT
1 TTGGTC-TGTCAATGGCCGGCACTAGTATACGAAAAAAGTTAAAAAAAATTTTTGGTGGTGACCT
*
59729318 ACCAATGGCCGGCAACACCTTTTTCCAATTTTTTTTTTACTT
65 ACCAATGGCCGGCAACACCTTTAT-CAA-TTTTTTTTTACTT
*
59729360 TTGGTCTGTCAATGGCCGGCACTAGTATACGAAAAAAGTTTAAAAAAATTTTTGGT
1 TTGGTCTGTCAATGGCCGGCACTAGTATACGAAAAAAGTTAAAAAAAATTTTTGGT
59729416 AACAACTCCA
Statistics
Matches: 135, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
103 4 0.03
104 26 0.19
105 40 0.30
106 48 0.36
107 17 0.13
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (104 bp):
TTGGTCTGTCAATGGCCGGCACTAGTATACGAAAAAAGTTAAAAAAAATTTTTGGTGGTGACCTA
CCAATGGCCGGCAACACCTTTATCAATTTTTTTTTACTT
Found at i:59729763 original size:29 final size:31
Alignment explanation
Indices: 59729721--59729787 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
59729711 ATCGCGACAA
* * *
59729721 TTTTAATTTTTTCTATTAAT-TTTTTATT-T
1 TTTTAAATTATTCTATAAATATTTTTATTAT
* *
59729750 TTTTAAATTATTCTGTAAATATTTTTTTTAT
1 TTTTAAATTATTCTATAAATATTTTTATTAT
59729781 TTTTAAA
1 TTTTAAA
59729788 GTTTACTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.52
30 7 0.23
31 8 0.26
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (31 bp):
TTTTAAATTATTCTATAAATATTTTTATTAT
Found at i:59731173 original size:103 final size:105
Alignment explanation
Indices: 59730821--59731457 Score: 635
Period size: 106 Copynumber: 6.1 Consensus size: 105
59730811 AAATTTATTG
* * * *
59730821 TAAAGGTGGTGCCAGCCATTGGTAAGCCACCACCAAAAAAATTTTTTTTTATTTTTTTCGTATAC
1 TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC--AAAAATTTTTTTTAACTTTTTTCGTATAC
** * ** **
59730886 TGGTGCCAACCATTGACAGACCAAAAGTAAAAAAAA-TTGGA
64 TGGTGCCTGCCATTGACACAAAAAAAGTAAAAAAAATTTCCA
* * * ** *
59730927 AAAAGGTAGTGCCGGCCATTGGCAGGCCACCACCAAATTTTTTTTTTTACTTTTTTCGTATACTG
1 TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCAAAAATTTTTTTTAACTTTTTTCGTATACTG
* * **
59730992 GTGCC-GACCATTGACA-AATCAAAGGTAAAAAATAATTTGAA
66 GTGCCTG-CCATTGACACAA-AAAAAGTAAAAAA-AATTTCCA
* * *
59731033 AAAAGGTGGTGCC-GACCATTGGCAGGGCACCACCAAAAATTTTTTTAAACTTTTTT-GTATACT
1 TAAAGGTGGTGCCAG-CCATTGGCAGGCCACCACCAAAAATTTTTTTTAACTTTTTTCGTATACT
* *
59731096 GGTGTCTGCCATTGACACAAAAAAAGT-AAAAAAATTCCCA
65 GGTGCCTGCCATTGACACAAAAAAAGTAAAAAAAATTTCCA
**** * *
59731136 TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCAAAAA-AAAATTAAACTTTTTTCGTATACTA
1 TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCAAAAATTTTTTTTAACTTTTTTCGTATACTG
* * * *
59731200 GTGCTTGTCATTGACACGAAAAAAGTAAAAAAAATTCCCA
66 GTGCCTGCCATTGACACAAAAAAAGTAAAAAAAATTTCCA
* * * * * *
59731240 TAAAAGTGGTGCCGGCTATTGGCAGGCCACCACCAAAAAATTTTTTTTAGCTTTTTTTGTATATT
1 TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACC-AAAAATTTTTTTTAACTTTTTTCGTATACT
* * * ** **
59731305 GGTGCCGGCCATTGATAGACCAAAAGTAAAAAAAATTTGGA
65 GGTGCCTGCCATTGACACAAAAAAAGTAAAAAAAATTTCCA
* * *** *
59731346 AAAAGGTGGTGCCAGCCATTGGCAAGCCACCACCAAAAA--AAATTTAACTTTTTTTGTATACTG
1 TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCAAAAATTTTTTTTAACTTTTTTCGTATACTG
*
59731409 GTGCCTGCCATTGACACGAAAAAAGTAAAAAAAAATTTCCA
66 GTGCCTGCCATTGACACAAAAAAAGT-AAAAAAAATTTCCA
59731450 TAAAGGTG
1 TAAAGGTG
59731458 ATGCTTGCTA
Statistics
Matches: 441, Mismatches: 77, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
102 12 0.03
103 109 0.25
104 123 0.28
105 39 0.09
106 158 0.36
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (105 bp):
TAAAGGTGGTGCCAGCCATTGGCAGGCCACCACCAAAAATTTTTTTTAACTTTTTTCGTATACTG
GTGCCTGCCATTGACACAAAAAAAGTAAAAAAAATTTCCA
Found at i:59731496 original size:209 final size:207
Alignment explanation
Indices: 59730821--59731457 Score: 705
Period size: 209 Copynumber: 3.0 Consensus size: 207
59730811 AAATTTATTG
* * *
59730821 TAAAGGTGGTGCCAGCCATTGGTAAGCCACCACCAAAAAAATTTTTTTTTA-TTTTTTTCGTATA
1 TAAAGGTGGTGCC-GCTATTGGCAGGCCACCA-C-AAAAAA-TTTTTTTTACTTTTTTT-GTATA
* * *
59730885 CTGGTGCCAACCATTGACAGACCAAAAGTAAAAAAAA-TTGGAAAAAGGTAGTGCCGGCCATTGG
61 CTGGTGCCAGCCATTGACAGACCAAAAGTAAAAAAAATTTGGAAAAAGGTGGTGCCAGCCATTGG
***** *
59730949 CAGGCCACCACCAAATTTTTTTTTTTACTTTTTTCGTATACTGGTGCC-GACCATTGACA--AAT
126 CAGGCCACCACCAAA--AAAAATTTAACTTTTTTCGTATACTGGTGCCTG-CCATTGACACGAA-
* * **
59731011 CAAAGGTAAAAAATAATTTGAA
187 -AAAAGTAAAAAAAAATTTCCA
* * * * *
59731033 AAAAGGTGGTGCCGACCATTGGCAGGGCACCACCAAAAATTTTTTTAAAC-TTTTTTGTATACTG
1 TAAAGGTGGTGCCG-CTATTGGCAGGCCACCACAAAAAATTTTTTT-TACTTTTTTTGTATACTG
* * * ** *** *
59731097 GTGTCTGCCATTGACACAAAAAAAGT-AAAAAAATTCCCATAAAGGTGGTGCCAGCCATTGGCAG
64 GTGCCAGCCATTGACAGACCAAAAGTAAAAAAAATTTGGAAAAAGGTGGTGCCAGCCATTGGCAG
* * * *
59731161 GCCACCACCAAAAAAAAATTAAACTTTTTTCGTATACTAGTGCTTGTCATTGACACGAAAAAAGT
129 GCCACCACC-AAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGT
*
59731226 -AAAAAAAATTCCCA
193 AAAAAAAAATTTCCA
* *
59731240 TAAAAGTGGTGCCGGCTATTGGCAGGCCACCACCAAAAAATTTTTTTTAGCTTTTTTTGTATATT
1 TAAAGGTGGTGCC-GCTATTGGCAGGCCACCA-CAAAAAATTTTTTTTA-CTTTTTTTGTATACT
* *
59731305 GGTGCCGGCCATTGATAGACCAAAAGTAAAAAAAATTTGGAAAAAGGTGGTGCCAGCCATTGGCA
63 GGTGCCAGCCATTGACAGACCAAAAGTAAAAAAAATTTGGAAAAAGGTGGTGCCAGCCATTGGCA
* *
59731370 AGCCACCACCAAAAAAAATTTAACTTTTTTTGTATACTGGTGCCTGCCATTGACACGAAAAAAGT
128 GGCCACCACCAAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGT
59731435 AAAAAAAAATTTCCA
193 AAAAAAAAATTTCCA
59731450 TAAAGGTG
1 TAAAGGTG
59731458 ATGCTTGCTA
Statistics
Matches: 353, Mismatches: 58, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
207 37 0.10
208 57 0.16
209 152 0.43
210 79 0.22
211 2 0.01
212 26 0.07
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (207 bp):
TAAAGGTGGTGCCGCTATTGGCAGGCCACCACAAAAAATTTTTTTTACTTTTTTTGTATACTGGT
GCCAGCCATTGACAGACCAAAAGTAAAAAAAATTTGGAAAAAGGTGGTGCCAGCCATTGGCAGGC
CACCACCAAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCCATTGACACGAAAAAAGTAAA
AAAAAATTTCCA
Found at i:59732862 original size:88 final size:86
Alignment explanation
Indices: 59732691--59732870 Score: 209
Period size: 86 Copynumber: 2.1 Consensus size: 86
59732681 GCCATTGGCC
* *
59732691 TTTTTTGATGCATTTTGGCAATTCAAATACCCAATTGAGTGCAAAAAAAAAAAGGCTTAATTACA
1 TTTTTTGATGCATTTTGACAATTCAAATACCCAATTGAGTACAAAAAAAAAAAGGCTTAATTACA
* *
59732756 TTTTTTGAAAAAGCTTGAGGA
66 TTTTTTAAAAAAACTTGAGGA
* * * * * **
59732777 TTTTTTTATGCATTTTGACAGTTCAAGTACTCAATTGAGTACAAAAAAAGGTAGGGGCTTAATTA
1 TTTTTTGATGCATTTTGACAATTCAAATACCCAATTGAGTACAAAAAAA--AAAAGGCTTAATTA
*
59732842 C-TTTTTTAAAAAAAATTTGAGGA
64 CATTTTTT-AAAAAAACTTGAGGA
*
59732865 CTTTTT
1 TTTTTT
59732871 ACACTCTTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 43 0.55
87 6 0.08
88 29 0.37
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (86 bp):
TTTTTTGATGCATTTTGACAATTCAAATACCCAATTGAGTACAAAAAAAAAAAGGCTTAATTACA
TTTTTTAAAAAAACTTGAGGA
Found at i:59749018 original size:8 final size:8
Alignment explanation
Indices: 59749007--59749033 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
59748997 AAAATTTAGT
59749007 TTAAAATA
1 TTAAAATA
59749015 TTAAAATA
1 TTAAAATA
59749023 TTAAAATA
1 TTAAAATA
59749031 TTA
1 TTA
59749034 TATAAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Found at i:59749898 original size:41 final size:41
Alignment explanation
Indices: 59749853--59749933 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
59749843 TATTTTGATA
* * **
59749853 AATTAAAAGAAATATTGATAAATTCGTATAAATTTTAGTAG
1 AATTAAAAGAAATATCGATAAAGTCACATAAATTTTAGTAG
** *
59749894 AATTATTAGAAATATCGTTAAAGTCACATAAATTTTAGTA
1 AATTAAAAGAAATATCGATAAAGTCACATAAATTTTAGTA
59749934 AATAGTTAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (41 bp):
AATTAAAAGAAATATCGATAAAGTCACATAAATTTTAGTAG
Found at i:59750041 original size:20 final size:20
Alignment explanation
Indices: 59750000--59750081 Score: 67
Period size: 20 Copynumber: 4.1 Consensus size: 20
59749990 GTAGGGTTAG
*
59750000 AAATTTTAGAAATATTGATA
1 AAATTTTAGAAATATTGGTA
*
59750020 AAATTTTAGAAATTTTGGTA
1 AAATTTTAGAAATATTGGTA
* *** *
59750040 AAGTCCCATAAATATTGGT-
1 AAATTTTAGAAATATTGGTA
* *
59750059 AAATCTATAGAAATTTTGGTA
1 AAAT-TTTAGAAATATTGGTA
59750080 AA
1 AA
59750082 TCATCAGATA
Statistics
Matches: 46, Mismatches: 14, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
19 3 0.07
20 41 0.89
21 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (20 bp):
AAATTTTAGAAATATTGGTA
Found at i:59750082 original size:20 final size:20
Alignment explanation
Indices: 59750026--59750160 Score: 71
Period size: 20 Copynumber: 6.8 Consensus size: 20
59750016 GATAAAATTT
59750026 TAGAAATTTTGGTAAAGTCCCA
1 TAGAAATTTTGGTAAA-T-CCA
* *
59750048 T--AAATATTGGTAAATCTA
1 TAGAAATTTTGGTAAATCCA
59750066 TAGAAATTTTGGTAAAT-CA
1 TAGAAATTTTGGTAAATCCA
* * ** * *
59750085 TCAGATATATTAATAAGTCCT
1 T-AGAAATTTTGGTAAATCCA
* *
59750106 TAGAAATATTGGTAAAT-CG
1 TAGAAATTTTGGTAAATCCA
* * *
59750125 TCGAATGTTTTGGTAAATCCT
1 TAGAA-ATTTTGGTAAATCCA
* *
59750146 TTGAAAATTTGGTAA
1 TAGAAATTTTGGTAA
59750161 TTGTTAAGAC
Statistics
Matches: 85, Mismatches: 22, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
18 3 0.04
19 8 0.09
20 66 0.78
21 7 0.08
22 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (20 bp):
TAGAAATTTTGGTAAATCCA
Found at i:59750095 original size:40 final size:39
Alignment explanation
Indices: 59750007--59750123 Score: 103
Period size: 40 Copynumber: 2.9 Consensus size: 39
59749997 TAGAAATTTT
* *
59750007 AGAAATATTGATAAAAT-TTTAGAAATTTTGGTAAAGTCCC
1 AGAAATATTAAT-AAATCCTTAGAAATTTTGGTAAA-TCCC
* ** *
59750047 ATAAATATTGGTAAAT-CTATAGAAATTTTGGTAAATCATC
1 AGAAATATTAATAAATCCT-TAGAAATTTTGGTAAATC-CC
* * *
59750087 AGATATATTAATAAGTCCTTAGAAATATTGGTAAATC
1 AGAAATATTAATAAATCCTTAGAAATTTTGGTAAATC
59750124 GTCGAATGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 7 0.11
40 55 0.86
41 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.36
Consensus pattern (39 bp):
AGAAATATTAATAAATCCTTAGAAATTTTGGTAAATCCC
Found at i:59750146 original size:40 final size:40
Alignment explanation
Indices: 59750025--59750160 Score: 100
Period size: 40 Copynumber: 3.4 Consensus size: 40
59750015 TGATAAAATT
* * * *
59750025 TTAGAAATTTTGGTAAAGTC-CCATAAATATTGGTAAAT-C
1 TTAGAAATATTGGTAAA-TCATCAGATATATTGGTAAATCC
* ** *
59750064 TATAGAAATTTTGGTAAATCATCAGATATATTAATAAGTCC
1 T-TAGAAATATTGGTAAATCATCAGATATATTGGTAAATCC
* * *
59750105 TTAGAAATATTGGTAAATCGTC-GAATGTTTTGGTAAATCC
1 TTAGAAATATTGGTAAATCATCAG-ATATATTGGTAAATCC
*
59750145 TTTGAAA-ATTTGGTAA
1 TTAGAAATA-TTGGTAA
59750161 TTGTTAAGAC
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 5 0.06
40 71 0.91
41 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (40 bp):
TTAGAAATATTGGTAAATCATCAGATATATTGGTAAATCC
Found at i:59750197 original size:187 final size:186
Alignment explanation
Indices: 59749967--59750309 Score: 508
Period size: 187 Copynumber: 1.8 Consensus size: 186
59749957 TTACAAAAGT
* * * * *
59749967 TTTGGTAATTGTTAAGATTTGGTGTAGGGTTAGAAATTTTAGAAATATTGATAAAATTTTAGAAA
1 TTTGGTAATTGTTAAGACTTCGTATAGGGTTAGAAAATTTAGAAATATTGATAAAATATTAGAAA
* * * *
59750032 TTTTGGTAAAGTCCCATAAATATTGGT-AAATCTATAGAAATTTTGGTAAATCATCAGATATATT
66 TTTTGGTAAAGTCCAATAAATATTGATAAAAT-GATAGAAATTTTGGTAAATCATCAGAAATATT
*
59750096 AATAAGTCCTTAGAAATATTGGTAAATCGTCGAATGTTTTGGTAAATCCTTTGAAAA
130 AATAAATCCTTAGAAATATTGGTAAATCGTCGAATGTTTTGGTAAATCCTTTGAAAA
*
59750153 TTTGGTAATTGTTAAGACTTCGTATAGGGTTTAGAAAATTTAGAAATATTGGTAAAATATTAGAA
1 TTTGGTAATTGTTAAGACTTCGTATAGGG-TTAGAAAATTTAGAAATATTGATAAAATATTAGAA
* * *
59750218 ATTTTGGTAAAGTCCAATAAATATTGATAAAATGATAGAAATTTTGGTAAATCCTTAGAAATGTT
65 ATTTTGGTAAAGTCCAATAAATATTGATAAAATGATAGAAATTTTGGTAAATCATCAGAAATATT
* * *
59750283 GATAAATCGTTAGATATATTGGTAAAT
130 AATAAATCCTTAGAAATATTGGTAAAT
59750310 TCTTAGATAT
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
186 26 0.19
187 108 0.78
188 4 0.03
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (186 bp):
TTTGGTAATTGTTAAGACTTCGTATAGGGTTAGAAAATTTAGAAATATTGATAAAATATTAGAAA
TTTTGGTAAAGTCCAATAAATATTGATAAAATGATAGAAATTTTGGTAAATCATCAGAAATATTA
ATAAATCCTTAGAAATATTGGTAAATCGTCGAATGTTTTGGTAAATCCTTTGAAAA
Found at i:59750217 original size:20 final size:21
Alignment explanation
Indices: 59750192--59750316 Score: 84
Period size: 20 Copynumber: 6.2 Consensus size: 21
59750182 TTTAGAAAAT
59750192 TTAGAAATATTGGTAAAAT-A
1 TTAGAAATATTGGTAAAATCA
* *
59750212 TTAGAAATTTTGGTAAAGTCCA
1 TTAGAAATATTGGTAAAAT-CA
* * *
59750234 --ATAAATATTGATAAAATGA
1 TTAGAAATATTGGTAAAATCA
* *
59750253 -TAGAAATTTTGGT-AAATCC
1 TTAGAAATATTGGTAAAATCA
* * *
59750272 TTAGAAATGTTGAT-AAATCG
1 TTAGAAATATTGGTAAAATCA
* *
59750292 TTAGATATATTGGTAAATTC-
1 TTAGAAATATTGGTAAAATCA
59750312 TTAGA
1 TTAGA
59750317 TATTTTGATA
Statistics
Matches: 81, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
19 5 0.06
20 71 0.88
21 4 0.05
22 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (21 bp):
TTAGAAATATTGGTAAAATCA
Found at i:59750285 original size:40 final size:40
Alignment explanation
Indices: 59750192--59750327 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
59750182 TTTAGAAAAT
*
59750192 TTAGAAATATTGGTAAAAT-ATTAGAAATTTTGGTAAAGTCC
1 TTAGAAATATTGATAAAATGA-TAGAAATTTTGGTAAA-TCC
* *
59750233 -AATAAATATTGATAAAATGATAGAAATTTTGGTAAATCC
1 TTAGAAATATTGATAAAATGATAGAAATTTTGGTAAATCC
* * * * *
59750272 TTAGAAATGTTGAT-AAATCGTTAGATATATTGGTAAATTC
1 TTAGAAATATTGATAAAAT-GATAGAAATTTTGGTAAATCC
* *
59750312 TTAGATATTTTGATAA
1 TTAGAAATATTGATAA
59750328 GGCCATTGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
39 7 0.09
40 70 0.89
41 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (40 bp):
TTAGAAATATTGATAAAATGATAGAAATTTTGGTAAATCC
Found at i:59750459 original size:20 final size:20
Alignment explanation
Indices: 59750414--59750501 Score: 65
Period size: 20 Copynumber: 4.4 Consensus size: 20
59750404 AAAATTATAT
* *
59750414 AAATTTTGGTAACTCATTA-
1 AAATTTTGATAAATCATTAG
*
59750433 AATATTTTGATAAATCCTTAG
1 AA-ATTTTGATAAATCATTAG
*
59750454 AAATTTT-AGTAAATCGTT-G
1 AAATTTTGA-TAAATCATTAG
* * *
59750473 AATATATTGATAAAACAATAG
1 AA-ATTTTGATAAATCATTAG
59750494 AAATTTTG
1 AAATTTTG
59750502 GTAATTGTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
19 6 0.11
20 42 0.78
21 6 0.11
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (20 bp):
AAATTTTGATAAATCATTAG
Found at i:59750477 original size:40 final size:40
Alignment explanation
Indices: 59750396--59750505 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 40
59750386 AGTTTCTTAA
* ** * *
59750396 ATATTGGTAAAATTATATAAATTTTGGTAACTCATTAAAT
1 ATATTGATAAAACAATAGAAATTTTGGTAAATCATTAAAT
* * ** * * *
59750436 ATTTTGATAAATCCTTAGAAATTTTAGTAAATCGTTGAAT
1 ATATTGATAAAACAATAGAAATTTTGGTAAATCATTAAAT
59750476 ATATTGATAAAACAATAGAAATTTTGGTAA
1 ATATTGATAAAACAATAGAAATTTTGGTAA
59750506 TTGTTAAGAC
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (40 bp):
ATATTGATAAAACAATAGAAATTTTGGTAAATCATTAAAT
Found at i:59750483 original size:158 final size:158
Alignment explanation
Indices: 59750180--59750485 Score: 379
Period size: 158 Copynumber: 1.9 Consensus size: 158
59750170 CTTCGTATAG
* *
59750180 GGTTTAGAAAATTTAGAAATATTGGTAAAATATTAGAAATTTTGGTAAAGTCCAATAAATATTGA
1 GGTTTAGAAAATTTAGAAATATTGGTAAAATATTAAAAATTATGGTAAAGTCCAATAAATATTGA
* * * *
59750245 TAAAATGATAGAAATTTTGGTAAATCCTTAGAAATGTTGATAAATCGTTAGATATATTGGTAAAT
66 TAAAATGATAGAAATTTTGGTAAATCATTAGAAATGTTGATAAATCCTTAGAAATATTAGTAAAT
*
59750310 TCTTAGATATTTTGATAAGGCCATTGAA
131 TCTTAGATATATTGATAAGGCCATTGAA
* * * *
59750338 GGTTTAGAAAATTT-GAAAATATTGGTAAAATCTTAAAAATTATGGTGAAGTTTC-TTAAATATT
1 GGTTTAGAAAATTTAG-AAATATTGGTAAAATATTAAAAATTATGGTAAAG-TCCAATAAATATT
* * * * * *
59750401 GGTAAAATTATATAAATTTTGGTAACTCATTA-AATATTTTGATAAATCCTTAGAAATTTTAGTA
64 GATAAAATGATAGAAATTTTGGTAAATCATTAGAA-ATGTTGATAAATCCTTAGAAATATTAGTA
59750465 AA-TCGTT-GAATATATTGATAA
128 AATTC-TTAG-ATATATTGATAA
59750486 AACAATAGAA
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
157 6 0.05
158 118 0.94
159 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (158 bp):
GGTTTAGAAAATTTAGAAATATTGGTAAAATATTAAAAATTATGGTAAAGTCCAATAAATATTGA
TAAAATGATAGAAATTTTGGTAAATCATTAGAAATGTTGATAAATCCTTAGAAATATTAGTAAAT
TCTTAGATATATTGATAAGGCCATTGAA
Found at i:59750594 original size:20 final size:20
Alignment explanation
Indices: 59750551--59750594 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
59750541 AAGTATTGAT
* * *
59750551 AAAATCTTATAAATTTTGGT
1 AAAATCTTATAAATATCGGC
*
59750571 AAAATCTTGTAAATATCGGC
1 AAAATCTTATAAATATCGGC
59750591 AAAA
1 AAAA
59750595 CCGATATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAATCTTATAAATATCGGC
Found at i:59752272 original size:25 final size:25
Alignment explanation
Indices: 59752244--59752291 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
59752234 GACATTTTCA
*
59752244 TAATTTCCTAATCAAGTTGGTACAT
1 TAATTTCCTAACCAAGTTGGTACAT
*
59752269 TAATTTCCTAACCGAGTTGGTAC
1 TAATTTCCTAACCAAGTTGGTAC
59752292 CCGGTTAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (25 bp):
TAATTTCCTAACCAAGTTGGTACAT
Found at i:59755983 original size:21 final size:20
Alignment explanation
Indices: 59755959--59755998 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59755949 ATATAAAATA
*
59755959 ATAAATATAAATTTTAATTTT
1 ATAAAAATAAA-TTTAATTTT
*
59755980 ATAAAAATTAATTTAATTT
1 ATAAAAATAAATTTAATTT
59755999 AATCTTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAAATAAATTTAATTTT
Found at i:59773109 original size:23 final size:23
Alignment explanation
Indices: 59773083--59773220 Score: 64
Period size: 23 Copynumber: 5.7 Consensus size: 23
59773073 TAGTGTGTGA
59773083 AAATTTAAAATAATATTAATAAT
1 AAATTTAAAATAATATTAATAAT
* * *
59773106 AAATTTAGAGTAAT-TATGATAAT
1 AAATTTAAAATAATAT-TAATAAT
* * *
59773129 AAACTAAAAATAATAATACATGAA-
1 AAATTTAAAATAATATTA-AT-AAT
** * *
59773153 AAACCTAAAATAATACATATATAAAA
1 AAATTTAAAATAATA-TTA-AT-AAT
*
59773179 AAACTTTTAAAATAATAATACAATAAT
1 AAA--TTTAAAATAAT-AT-TAATAAT
*
59773206 AAATTTATAATAATA
1 AAATTTAAAATAATA
59773221 AGTTTAATTA
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
22 1 0.01
23 29 0.34
24 16 0.19
25 19 0.22
26 3 0.03
27 5 0.06
28 11 0.13
29 2 0.02
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (23 bp):
AAATTTAAAATAATATTAATAAT
Found at i:59773156 original size:24 final size:24
Alignment explanation
Indices: 59773129--59773200 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
59773119 TTATGATAAT
*
59773129 AAACTAAAAATAATAATACATGAAA
1 AAACT-AAAATAATAATACATAAAA
* *
59773154 AACCTAAAATAATACATATATAAAA
1 AAACTAAAATAATA-ATACATAAAA
59773179 AAACTTTTAAAATAATAATACA
1 AAAC---TAAAATAATAATACA
59773201 ATAATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.24
25 15 0.39
27 4 0.11
28 10 0.26
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.25
Consensus pattern (24 bp):
AAACTAAAATAATAATACATAAAA
Found at i:59773160 original size:25 final size:26
Alignment explanation
Indices: 59773135--59773200 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
59773125 TAATAAACTA
*
59773135 AAAATAATAATACAT-GAAAAAC-CT
1 AAAATAATAATACATAAAAAAACTCT
* *
59773159 AAAATAATACATATATAAAAAAACTTTT
1 AAAATAATA-ATACATAAAAAAAC-TCT
59773187 AAAATAATAATACA
1 AAAATAATAATACA
59773201 ATAATAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.26
25 5 0.15
26 6 0.18
27 4 0.12
28 10 0.29
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAATAATAATACATAAAAAAACTCT
Found at i:59778073 original size:68 final size:69
Alignment explanation
Indices: 59777942--59778079 Score: 176
Period size: 68 Copynumber: 2.0 Consensus size: 69
59777932 TTCCACCTTT
* *
59777942 TCTTTTAAATGGCATCAAAACATTTCCAAGATACCAATCAAGTCCAAAAAATATCAACCAATAAG
1 TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAAATATCAACCAATAAG
59778007 CCAA
66 CCAA
* * *
59778011 TCTTTCAAATGGCATCAAAAC-TAGT-CAATATACTAGTCAAGTCCAACAGAAA-A-CAACCAAT
1 TCTTTCAAATGGCATCAAAACAT-GTCCAAGATACCAATCAAGTCCAA-A-AAATATCAACCAAT
59778072 AAGCCAA
63 AAGCCAA
59778079 T
1 T
59778080 AGTCTGTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
68 35 0.57
69 23 0.38
70 3 0.05
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.22
Consensus pattern (69 bp):
TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAAATATCAACCAATAAG
CCAA
Found at i:59782392 original size:21 final size:21
Alignment explanation
Indices: 59782356--59782400 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
59782346 TTTAACCCCC
59782356 TAAAATTATAAAAATTCAAATT
1 TAAAATTATAAAAATTC-AATT
59782378 TAAAATTAT-AAAATTCAATT
1 TAAAATTATAAAAATTCAATT
59782398 TAA
1 TAA
59782401 TCCTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTATAAAAATTCAATT
Found at i:59783383 original size:29 final size:30
Alignment explanation
Indices: 59783324--59783381 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
59783314 TCCGAGCCTT
*
59783324 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
59783354 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
59783382 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:59783819 original size:50 final size:50
Alignment explanation
Indices: 59783706--59783947 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
59783696 ATTTGGGTAA
* * *
59783706 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
59783762 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
59783812 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
59783862 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
59783912 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
59783948 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:59783895 original size:100 final size:103
Alignment explanation
Indices: 59783706--59783955 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
59783696 ATTTGGGTAA
59783706 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
59783771 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
59783812 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
59783874 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
59783912 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
59783956 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:59789488 original size:57 final size:55
Alignment explanation
Indices: 59789376--59789489 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 55
59789366 CCTGCAGAGA
** *
59789376 AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTTTCCACCATTTGGTTTATTCTT
1 AGTTGAACACCTTTTAGTTTGCTTATGTA--TTTTTTCCACCATTACGTTCATTCTT
* *
59789433 AGTTGAACTCCTTTTAGTAGTCTGCTTATGTA-TTTTTCCTCCATTACGTTCATTCTT
1 AGTTGAACACCTTTTAGT--T-TGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
59789490 GGTCAAACAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 38 0.78
59 1 0.02
60 10 0.20
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (55 bp):
AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
Found at i:59792382 original size:28 final size:29
Alignment explanation
Indices: 59792351--59792406 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
59792341 TTTAAATAAA
* * *
59792351 AAAATATAT-GACTTAATTTTTAATTTTT
1 AAAATATATGGACTAAAATTTAAATTTTT
59792379 AAAATATATGGACTAAAATTTAAATTTT
1 AAAATATATGGACTAAAATTTAAATTTT
59792407 ATCAAAGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
AAAATATATGGACTAAAATTTAAATTTTT
Found at i:59792407 original size:28 final size:28
Alignment explanation
Indices: 59792351--59792407 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
59792341 TTTAAATAAA
** *
59792351 AAAATATATGACTTAATTTTTAATTTTT
1 AAAATATATGACTTAAAATTTAAATTTT
59792379 AAAATATATGGAC-TAAAATTTAAATTTT
1 AAAATATAT-GACTTAAAATTTAAATTTT
59792407 A
1 A
59792408 TCAAAGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (28 bp):
AAAATATATGACTTAAAATTTAAATTTT
Found at i:59793871 original size:21 final size:22
Alignment explanation
Indices: 59793845--59793899 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
59793835 AATAGCGGTG
*
59793845 GCGGTGAGATTAG-TTACTGTA
1 GCGGTGAGATTAGCATACTGTA
59793866 GCGGTGAGATT-GCATACTGTA
1 GCGGTGAGATTAGCATACTGTA
59793887 GCGGTGAGATTAG
1 GCGGTGAGATTAG
59793900 AAACAATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.36, T:0.29
Consensus pattern (22 bp):
GCGGTGAGATTAGCATACTGTA
Found at i:59794147 original size:33 final size:32
Alignment explanation
Indices: 59794110--59794171 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
59794100 AATGAATTAT
59794110 ATAATTAATTTAAATTATTTATTAGATAAAATG
1 ATAATTAATTTAAATTATTTA-TAGATAAAATG
** * *
59794143 ATAATTGTTTTTAATTTTTTATAGATAAA
1 ATAATTAATTTAAATTATTTATAGATAAA
59794172 TATTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 8 0.32
33 17 0.68
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (32 bp):
ATAATTAATTTAAATTATTTATAGATAAAATG
Found at i:59812239 original size:18 final size:18
Alignment explanation
Indices: 59812218--59812255 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59812208 TAATATTTTA
*
59812218 AAATAATTAGAATTATTC
1 AAATAAATAGAATTATTC
*
59812236 AAATAAATATAATTATTC
1 AAATAAATAGAATTATTC
59812254 AA
1 AA
59812256 CCGATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATAAATAGAATTATTC
Found at i:59815024 original size:18 final size:20
Alignment explanation
Indices: 59815001--59815041 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59814991 TATATATACA
59815001 TTTTTAAC-TT-GAATTTAT
1 TTTTTAACTTTCGAATTTAT
*
59815019 TTTTTATCTTTCGAATTTAT
1 TTTTTAACTTTCGAATTTAT
59815039 TTT
1 TTT
59815042 ATTTCATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
20 11 0.55
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTAACTTTCGAATTTAT
Found at i:59815492 original size:29 final size:33
Alignment explanation
Indices: 59815459--59815539 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 33
59815449 ATAATTTGAT
59815459 ATATG-AATTTTAATT-TGATGT-AAT-TATAC
1 ATATGAAATTTTAATTATGATGTAAATATATAC
*
59815488 ATATGAAATTTTAATTATGATTTAAATATATAC
1 ATATGAAATTTTAATTATGATGTAAATATATAC
* *
59815521 --ATGAAACTTTAATTTTGAT
1 ATATGAAATTTTAATTATGAT
59815540 TCAATCAAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.11
30 10 0.22
31 22 0.49
32 3 0.07
33 5 0.11
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.47
Consensus pattern (33 bp):
ATATGAAATTTTAATTATGATGTAAATATATAC
Found at i:59818096 original size:14 final size:15
Alignment explanation
Indices: 59818064--59818096 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
59818054 TTTTTTTAAG
*
59818064 AAAATATATAAAATT
1 AAAATATATAAAATA
59818079 AAAAT-TATAAAATA
1 AAAATATATAAAATA
59818093 AAAA
1 AAAA
59818097 ATTAGCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATATAAAATA
Found at i:59820097 original size:17 final size:17
Alignment explanation
Indices: 59820077--59820110 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59820067 GGGAGTTTTC
59820077 GGTAAAAACATACCACA
1 GGTAAAAACATACCACA
59820094 GGTAAAAACATACCACA
1 GGTAAAAACATACCACA
59820111 TTGTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.12
Consensus pattern (17 bp):
GGTAAAAACATACCACA
Found at i:59822176 original size:18 final size:20
Alignment explanation
Indices: 59822142--59822179 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
59822132 CCGGCCCGAT
59822142 TTTTAATAAACATAAAAATA
1 TTTTAATAAACATAAAAATA
59822162 TTTTAA-AAA-ATAAAAATA
1 TTTTAATAAACATAAAAATA
59822180 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAATAAACATAAAAATA
Found at i:59822198 original size:11 final size:11
Alignment explanation
Indices: 59822184--59822210 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59822174 AAAATAAAAA
59822184 TAAAAGTATTT
1 TAAAAGTATTT
59822195 TAAAAGTATTT
1 TAAAAGTATTT
59822206 TAAAA
1 TAAAA
59822211 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:59822241 original size:12 final size:12
Alignment explanation
Indices: 59822206--59822244 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
59822196 AAAAGTATTT
*
59822206 TAAAATTAAAAT
1 TAAAATTAAAAA
59822218 TAAAATTAAAAAA
1 TAAAATT-AAAAA
*
59822231 TAAAAATAAAAA
1 TAAAATTAAAAA
59822243 TA
1 TA
59822245 TATATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:59822843 original size:17 final size:17
Alignment explanation
Indices: 59822823--59823063 Score: 101
Period size: 17 Copynumber: 13.5 Consensus size: 17
59822813 ATTTTTTTTA
*
59822823 AAACATGAAAATTTGTG
1 AAACACGAAAATTTGTG
*
59822840 AAACACGAAAATCGTTG-A
1 AAACACGAAAAT--TTGTG
* *
59822858 AAACACGCAAATTTTTG
1 AAACACGAAAATTTGTG
*
59822875 AAAACACGAAAATTTTTG
1 -AAACACGAAAATTTGTG
***
59822893 AAACACGAAAATTTAAA
1 AAACACGAAAATTTGTG
* * *
59822910 AAACATGAAAATTTTTAA
1 AAACACGAAAATTTGT-G
* *
59822928 AAACACGACAATTTTTG
1 AAACACGAAAATTTGTG
* * *
59822945 AAACACGAGAACTTTTTTTTT
1 AAACACGA-AA---ATTTGTG
* * *
59822966 AAA-ACATACAAATTTTTA
1 AAACAC-GA-AAATTTGTG
59822984 AAACACGAAAATTTGTG
1 AAACACGAAAATTTGTG
*
59823001 AAACACGAGAA-TTGTTG
1 AAACACGAAAATTTG-TG
* * * *
59823018 AAAACATGAAATTTTTTA
1 -AAACACGAAAATTTGTG
* *
59823036 AAACACGGAAATTTTTAG
1 AAACACGAAAATTTGT-G
59823054 AAAACACGAA
1 -AAACACGAA
59823064 TTTTTTTTAA
Statistics
Matches: 172, Mismatches: 36, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
16 5 0.03
17 78 0.45
18 61 0.35
19 15 0.09
20 2 0.01
21 11 0.06
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
AAACACGAAAATTTGTG
Found at i:59822863 original size:18 final size:18
Alignment explanation
Indices: 59822816--59823129 Score: 232
Period size: 18 Copynumber: 17.5 Consensus size: 18
59822806 AAAAATAATT
* *
59822816 TTTTTTAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
59822834 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
** *
59822851 TCGTTGAAAACACGCAAA
1 TTTTTGAAAACACGAAAA
59822869 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
59822887 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
** *
59822904 -TTTAAAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
59822921 TTTTTAAAAACACGACAA
1 TTTTTGAAAACACGAAAA
*
59822939 TTTTTG-AAACACGAGAACTTT
1 TTTTTGAAAACACGA-AA---A
* *
59822960 TTTTTTAAAACA-TACAAA
1 TTTTTGAAAACACGA-AAA
59822978 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
59822995 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
59823012 TTGTTGAAAACATG-AAA
1 TTTTTGAAAACACGAAAA
* *
59823029 TTTTTTAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
**
59823047 TTTTTAGAAAACACGAATT
1 TTTTT-GAAAACACGAAAA
* *
59823066 TTTTTTAAAATCACCG-GAA
1 TTTTTGAAAA-CA-CGAAAA
** *
59823085 TTTTTGGGAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
59823103 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
59823121 TTTTTGAAA
1 TTTTTGAAA
59823130 CGCAAGAATT
Statistics
Matches: 231, Mismatches: 49, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
16 3 0.01
17 84 0.36
18 106 0.46
19 23 0.10
20 2 0.01
21 8 0.03
22 5 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:59822870 original size:35 final size:35
Alignment explanation
Indices: 59822816--59823149 Score: 221
Period size: 35 Copynumber: 9.3 Consensus size: 35
59822806 AAAAATAATT
* * *
59822816 TTTTTTAAAACATGAAAATTTGTGAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
** *
59822851 TCGTTGAAAACACGCAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
*** *
59822887 TTTTTG-AAACACGAAAATTTAAAAAACATGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* * *
59822921 TTTTTAAAAACACGACAATTTTTGAAACACGAGAACTTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AA---A
* * *
59822960 TTTTTTAAAACA-TACAAATTTTTAAAACACGAAAA
1 TTTTTGAAAACACGA-AAATTTTTGAAACACGAAAA
* * * *
59822995 TTTGTG-AAACACGAGAATTGTTGAAAACATG-AAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
* * **
59823029 TTTTTTAAAACACGGAAATTTTTAGAAAACACGAATT
1 TTTTTGAAAACACGAAAATTTTT-G-AAACACGAAAA
* * * *
59823066 TTTTTTAAAATCACCG-GAATTTTTGGGAACACGAAGA
1 TTTTTGAAAA-CA-CGAAAATTTTT-GAAACACGAAAA
* * *
59823103 TTTTTGAAAACATGAAGATTTTTGAAACGC-AAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAA-AA
59823138 TTTTTTGAAAAC
1 -TTTTTGAAAAC
59823150 GCAAAAAAAA
Statistics
Matches: 230, Mismatches: 52, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
34 35 0.15
35 82 0.36
36 44 0.19
37 28 0.12
38 13 0.06
39 28 0.12
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:59823005 original size:91 final size:90
Alignment explanation
Indices: 59822884--59823051 Score: 212
Period size: 91 Copynumber: 1.9 Consensus size: 90
59822874 GAAAACACGA
* * * *
59822884 AAATTTTTGAAACACGAAAATTTAAAAAACATGAAAATTTTTAAAAACACGACAA-TTTTTGAAA
1 AAATTTTTAAAACACGAAAATTTAAAAAACACGAAAATTGTTAAAAACACGA-AATTTTTTAAAA
*
59822948 CACGAGAACTTTTTTTTTAAAACATAC
65 CACG-GAAATTTTTTTTTAAAACATAC
*** * * *
59822975 AAATTTTTAAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAACATGAAATTTTTTAAAAC
1 AAATTTTTAAAACACGAAAATTTAAAAAACACGAAAATTGTTAAAAACACGAAATTTTTTAAAAC
59823040 ACGGAAATTTTT
66 ACGGAAATTTTT
59823052 AGAAAACACG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 10 0.15
91 55 0.85
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (90 bp):
AAATTTTTAAAACACGAAAATTTAAAAAACACGAAAATTGTTAAAAACACGAAATTTTTTAAAAC
ACGGAAATTTTTTTTTAAAACATAC
Found at i:59823088 original size:19 final size:17
Alignment explanation
Indices: 59822857--59823089 Score: 74
Period size: 17 Copynumber: 12.9 Consensus size: 17
59822847 AAAATCGTTG
* *
59822857 AAAACACGCAAATTTTTG
1 AAAACACG-GAATTTTTT
* *
59822875 AAAACACGAAAATTTTT
1 AAAACACGGAATTTTTT
* * * **
59822892 GAAACACGAAAATTTAA
1 AAAACACGGAATTTTTT
* * *
59822909 AAAACATGAAAATTTTTA
1 AAAACACG-GAATTTTTT
*
59822927 AAAACAC-GACAATTTTT
1 AAAACACGGA-ATTTTTT
*
59822944 GAAACACGAGAACTTTTTTTTT
1 AAAACACG-GAA----TTTTTT
*** *
59822966 AAAACATACAAATTTTT
1 AAAACACGGAATTTTTT
* * *
59822983 AAAACACGAAAATTTGT
1 AAAACACGGAATTTTTT
* * *
59823000 GAAACACGAGAATTGTTG
1 AAAACACG-GAATTTTTT
* *
59823018 AAAACATGAAATTTTTT
1 AAAACACGGAATTTTTT
*
59823035 AAAACACGGAAATTTTTAG
1 AAAACACGG-AATTTTT-T
59823054 AAAACAC-GAATTTTTTTT
1 AAAACACGGAA--TTTTTT
59823072 AAAATCACCGGAATTTTT
1 AAAA-CA-CGGAATTTTT
59823090 GGGAACACGA
Statistics
Matches: 160, Mismatches: 39, Indels: 31
0.70 0.17 0.13
Matches are distributed among these distances:
16 1 0.01
17 78 0.49
18 44 0.28
19 21 0.13
20 1 0.01
21 5 0.03
22 10 0.06
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (17 bp):
AAAACACGGAATTTTTT
Found at i:59823097 original size:108 final size:107
Alignment explanation
Indices: 59822865--59823111 Score: 290
Period size: 108 Copynumber: 2.3 Consensus size: 107
59822855 TGAAAACACG
59822865 CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTAAAAAACATGAAAATTTTTAAAA
1 CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTAAAAAACATGAAAATTTTTAAAA
59822930 ACACGACAATTTTTGAAACACGAGAACTTTTTTTTTAAAACATA
66 ACACGACAATTTTTGAAACAC-AGAAC-TTTTTTTTAAAACATA
* * ** *
59822974 CAAATTTTT-AAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAACATG-AAATTTTTTAA
1 CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATT-TAAAAAACATGAAAATTTTTAAA
*
59823037 AACACGGA-AATTTTTAGAAA-ACACGAA-TTTTTTTTAAAATCA-C
65 AACAC-GACAATTTTT-GAAACACA-GAACTTTTTTTTAAAA-CATA
* ** *
59823080 CGGAATTTTTGGGAACACGAAGATTTTTGAAA
1 C-AAATTTTTGAAAACACGAAAATTTTTGAAA
59823112 ACATGAAGAT
Statistics
Matches: 120, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
106 13 0.11
107 10 0.08
108 73 0.61
109 24 0.20
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (107 bp):
CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTAAAAAACATGAAAATTTTTAAAA
ACACGACAATTTTTGAAACACAGAACTTTTTTTTAAAACATA
Done.