Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 79 of 214
Found at i:22263203 original size:15 final size:15
Alignment explanation
Indices: 22263168--22263213 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
22263158 GATCTATTTT
22263168 TAATATCCTTTTTAC
1 TAATATCCTTTTTAC
22263183 ---TATCCTTTTTAC
1 TAATATCCTTTTTAC
22263195 TAATATCCTTTTTAC
1 TAATATCCTTTTTAC
22263210 TAAT
1 TAAT
22263214 CCATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.43
15 16 0.57
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATATCCTTTTTAC
Found at i:22263814 original size:14 final size:14
Alignment explanation
Indices: 22263779--22263815 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22263769 AACACAAGTA
*
22263779 ACTATTTCGAATTG
1 ACTATTTTGAATTG
22263793 ACTATTTTGAATTG
1 ACTATTTTGAATTG
22263807 ACTATTTTG
1 ACTATTTTG
22263816 GTGAATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (14 bp):
ACTATTTTGAATTG
Found at i:22264015 original size:42 final size:42
Alignment explanation
Indices: 22263956--22264068 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
22263946 TTTTATTAAG
* * *
22263956 TGAGATTTGATTTGCATGCTATGCATGCCGACTATGATAAAC
1 TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGATAAAC
* * *
22263998 TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGTTGACC
1 TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGATAAAC
*
22264040 TTAGATTTG-GTTCGCATGTTAAGCATGCC
1 TGAGATTTGAGTT-GCATGTTAAGCATGCC
22264069 TACTGAAGAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 3 0.05
42 60 0.95
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGATAAAC
Found at i:22268589 original size:6 final size:6
Alignment explanation
Indices: 22268580--22268619 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
22268570 AGAACAACTA
* *
22268580 AAAAAG AAAAAG AAAAAG AAAAAG AAAATG GAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
22268620 TAAATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:22272970 original size:29 final size:29
Alignment explanation
Indices: 22272936--22273195 Score: 367
Period size: 29 Copynumber: 9.0 Consensus size: 29
22272926 GATAGTTGAA
* *
22272936 ACCATCCCTTTTCATATTCAATGATCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
22272965 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
****
22272994 ACCATCCCTTTTCATATTCGATGGTTAAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
22273023 ACCATCCCTTTTCATATTCGATGGTCTTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * * * *
22273052 GCCATCCCTCTTAATATTCGATGTTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
22273081 ACCATCCCTTTTCATATTCGATGGCCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
**
22273110 ACCATCCCTTTTCATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
22273139 ACCATCCCTTTTCATATTCGATGGTCCTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
22273168 ACCATCTCTTTTCATATTCGATGGTCGT
1 ACCATCCCTTTTCATATTCGATGGTCGT
22273196 TTGTAACGCC
Statistics
Matches: 202, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 202 1.00
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:22278952 original size:16 final size:17
Alignment explanation
Indices: 22278922--22278955 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22278912 ACCATTTTTG
22278922 AGAAAAAAAAGAAAAGA
1 AGAAAAAAAAGAAAAGA
*
22278939 AGAAAAACAA-AAAAGA
1 AGAAAAAAAAGAAAAGA
22278955 A
1 A
22278956 AACAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAGAAAAGA
Found at i:22279346 original size:29 final size:29
Alignment explanation
Indices: 22279259--22279376 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
22279249 GGGTGTTATA
22279259 TCGTCACCATTCCTTTTCATATTCGATGG
1 TCGTCACCATTCCTTTTCATATTCGATGG
* * *
22279288 CCATCACCATCCCTTTTCATATTCGATGG
1 TCGTCACCATTCCTTTTCATATTCGATGG
* *
22279317 TCGTCATCATTCTTTTTCATATTCGATGG
1 TCGTCACCATTCCTTTTCATATTCGATGG
** * * * *
22279346 TCGTTGCCATCCCCTTTCATACTCTATGG
1 TCGTCACCATTCCTTTTCATATTCGATGG
22279375 TC
1 TC
22279377 ATCATTCAAT
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.41
Consensus pattern (29 bp):
TCGTCACCATTCCTTTTCATATTCGATGG
Found at i:22279356 original size:58 final size:58
Alignment explanation
Indices: 22279259--22279381 Score: 156
Period size: 58 Copynumber: 2.1 Consensus size: 58
22279249 GGGTGTTATA
* * *
22279259 TCGTCACCATTCCTTTTCATATTCGATGGCCATCACCATCCCTTTTCATATTCGATGG
1 TCGTCATCATTCCTTTTCATATTCGATGGCCATCACCATCCCCTTTCATACTCGATGG
* * * ** *
22279317 TCGTCATCATTCTTTTTCATATTCGATGGTCGTTGCCATCCCCTTTCATACTCTATGG
1 TCGTCATCATTCCTTTTCATATTCGATGGCCATCACCATCCCCTTTCATACTCGATGG
*
22279375 TCATCAT
1 TCGTCAT
22279382 TCAATGGTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.18, C:0.29, G:0.12, T:0.41
Consensus pattern (58 bp):
TCGTCATCATTCCTTTTCATATTCGATGGCCATCACCATCCCCTTTCATACTCGATGG
Found at i:22279418 original size:29 final size:29
Alignment explanation
Indices: 22279375--22279533 Score: 165
Period size: 29 Copynumber: 5.4 Consensus size: 29
22279365 TACTCTATGG
* **
22279375 TCATCATTCAATGGTCAAAACCATCCCTTT
1 TCAT-ATTCGATGGTCATCACCATCCCTTT
**
22279405 TCATATTCGATGGTTGTCACCATCCCTTT
1 TCATATTCGATGGTCATCACCATCCCTTT
* * *
22279434 TCATATTTGATGGTCGTCACCGTCCCTTT
1 TCATATTCGATGGTCATCACCATCCCTTT
*
22279463 TCATATTCGATGGTCCTCACCATCCCTTT
1 TCATATTCGATGGTCATCACCATCCCTTT
* * * ** *
22279492 TCATATTCAATAGTTAAAATCATCCCTTT
1 TCATATTCGATGGTCATCACCATCCCTTT
*
22279521 TCATATTTGATGG
1 TCATATTCGATGG
22279534 GCGTCAATAC
Statistics
Matches: 108, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 104 0.96
30 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (29 bp):
TCATATTCGATGGTCATCACCATCCCTTT
Found at i:22279476 original size:101 final size:101
Alignment explanation
Indices: 22279293--22279477 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
22279283 GATGGCCATC
* * * **
22279293 ACCATCCCTTTTCATATTCGATGGTCGTCATCATTCTTTTTCATATTCGATGGTCGTTGCCATCC
1 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCC
*
22279358 CCTTTCATACTCTATGGTCATCATTCAATGGTCAAA
66 CCTTTCATACTCGATGGTCATCATTCAATGGTCAAA
* * *
22279394 ACCATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTCATATTTGATGGTCGTCACCGTCC
1 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCC
* *
22279459 CTTTTCATATTCGATGGTC
66 CCTTTCATACTCGATGGTC
22279478 CTCACCATCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (101 bp):
ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCC
CCTTTCATACTCGATGGTCATCATTCAATGGTCAAA
Found at i:22279518 original size:58 final size:58
Alignment explanation
Indices: 22279375--22279533 Score: 201
Period size: 58 Copynumber: 2.7 Consensus size: 58
22279365 TACTCTATGG
**
22279375 TCATCATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTT
1 TCAT-ATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTCCTCACCATCCCTTT
** *** *
22279434 TCATATTTGATGGTCGTCACCGTCCCTTTTCATATTCGATGGTCCTCACCATCCCTTT
1 TCATATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTCCTCACCATCCCTTT
* * * *
22279492 TCATATTCAATAGTTAAAATCATCCCTTTTCATATTTGATGG
1 TCATATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGG
22279534 GCGTCAATAC
Statistics
Matches: 82, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
58 78 0.95
59 4 0.05
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (58 bp):
TCATATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTCCTCACCATCCCTTT
Found at i:22287540 original size:20 final size:20
Alignment explanation
Indices: 22287495--22287562 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
22287485 CACATTAGTG
* *
22287495 CCCCTGTTTGTACTTTGCTA
1 CCCCTGTTTGTACTTCGGTA
**
22287515 GTCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* *
22287535 CCCCTGTTTGCACTTCGGTG
1 CCCCTGTTTGTACTTCGGTA
22287555 CCCCTGTT
1 CCCCTGTT
22287563 CGCACATATG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.07, C:0.31, G:0.21, T:0.41
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:22287567 original size:20 final size:20
Alignment explanation
Indices: 22287517--22287600 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
22287507 CTTTGCTAGT
* *
22287517 CCTGTTTGTACTTCGGTACC
1 CCTGTTTGCACTTCGGTGCC
22287537 CCTGTTTGCACTTCGGTGCC
1 CCTGTTTGCACTTCGGTGCC
* * **
22287557 CCTGTTCGCACATATGTGCC
1 CCTGTTTGCACTTCGGTGCC
* * *
22287577 CCTATTTGCAGTTCAGTGCC
1 CCTGTTTGCACTTCGGTGCC
22287597 CCTG
1 CCTG
22287601 ACTGCACGTA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.11, C:0.33, G:0.21, T:0.35
Consensus pattern (20 bp):
CCTGTTTGCACTTCGGTGCC
Found at i:22287579 original size:40 final size:40
Alignment explanation
Indices: 22287535--22287623 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
22287525 TACTTCGGTA
* * *
22287535 CCCCTGTTTGCACTTCGGTGCCCCTG-TTCGCACATATGTG
1 CCCCTATTTGCACTTCAGTGCCCCTGACT-GCACATATGTG
* *
22287575 CCCCTATTTGCAGTTCAGTGCCCCTGACTGCACGTATGTG
1 CCCCTATTTGCACTTCAGTGCCCCTGACTGCACATATGTG
22287615 CCCCTATTT
1 CCCCTATTT
22287624 TGCATTTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.12, C:0.35, G:0.20, T:0.33
Consensus pattern (40 bp):
CCCCTATTTGCACTTCAGTGCCCCTGACTGCACATATGTG
Found at i:22289934 original size:21 final size:18
Alignment explanation
Indices: 22289882--22289941 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
22289872 TGTTTCCATC
*
22289882 CAAACCTATGTTATTATG
1 CAAACCCATGTTATTATG
22289900 CAAACCCATGTTATTATG
1 CAAACCCATGTTATTATG
* *
22289918 CCAACCCATGATATTATG
1 CAAACCCATGTTATTATG
*
22289936 TAAACC
1 CAAACC
22289942 TATGATTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (18 bp):
CAAACCCATGTTATTATG
Found at i:22290668 original size:19 final size:17
Alignment explanation
Indices: 22290644--22290696 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
22290634 TGGATTATTT
22290644 TTATTTAATATTAATATCA
1 TTATTTAATATTAA-AT-A
*
22290663 TTATTT-TTATTAAATA
1 TTATTTAATATTAAATA
22290679 TTAATATTAATATTAAAT
1 TT-AT-TTAATATTAAAT
22290697 TTAAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 8 0.28
19 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATATTAAATA
Found at i:22290671 original size:25 final size:25
Alignment explanation
Indices: 22290637--22290685 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
22290627 AGGGAGATGG
*
22290637 ATTATTTTTATTTAATATTAATATC
1 ATTATTTTTATTAAATATTAATATC
22290662 ATTATTTTTATTAAATATTAATAT
1 ATTATTTTTATTAAATATTAATAT
22290686 TAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTTTATTAAATATTAATATC
Found at i:22290692 original size:25 final size:25
Alignment explanation
Indices: 22290639--22290692 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
22290629 GGAGATGGAT
* *
22290639 TATTTTTATTTAATATTAATATCAT
1 TATTTTTATTAAATATTAATATCAA
*
22290664 TATTTTTATTAAATATTAATATTAA
1 TATTTTTATTAAATATTAATATCAA
22290689 TATT
1 TATT
22290693 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTTTTATTAAATATTAATATCAA
Found at i:22290725 original size:18 final size:18
Alignment explanation
Indices: 22290681--22290737 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
22290671 ATTAAATATT
**
22290681 AATATTAATATTAAATTTA
1 AATATTAATA-TATTTTTA
22290700 AATTTATTAATATATTTTTA
1 AA--TATTAATATATTTTTA
* *
22290720 AATATTTATGTATTTTTA
1 AATATTAATATATTTTTA
22290738 TATCTTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
20 8 0.25
21 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATATTAATATATTTTTA
Found at i:22295597 original size:20 final size:21
Alignment explanation
Indices: 22295572--22295629 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
22295562 AAGTACACCC
*
22295572 CAAAGGCT-TTTAGAATGCCA
1 CAAAGGCTAATTAGAATGCCA
22295592 CAAAGGCTAGATTAGAATGCCA
1 CAAAGGCTA-ATTAGAATGCCA
* *
22295614 TAAAGGCCAAATTAGA
1 CAAAGG-CTAATTAGA
22295630 TTACGCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
CAAAGGCTAATTAGAATGCCA
Found at i:22295609 original size:22 final size:22
Alignment explanation
Indices: 22295581--22295629 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
22295571 CCAAAGGCTT
* *
22295581 TTAGAATGCCACAAAGGCTAGA
1 TTAGAATGCCACAAAGGCCAAA
*
22295603 TTAGAATGCCATAAAGGCCAAA
1 TTAGAATGCCACAAAGGCCAAA
22295625 TTAGA
1 TTAGA
22295630 TTACGCCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
TTAGAATGCCACAAAGGCCAAA
Found at i:22297654 original size:43 final size:43
Alignment explanation
Indices: 22297606--22297697 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
22297596 GCAATCTTGT
*
22297606 ATCGATGCCAATAGCCTAGCTATGGTCTTACACAAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
**
22297649 ATCGATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
22297692 ATCGAT
1 ATCGAT
22297698 ATTGGAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
Found at i:22299661 original size:32 final size:32
Alignment explanation
Indices: 22299625--22299689 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
22299615 TATAATGCTT
*
22299625 AGTAAGTTCGTAAATCATGAACATAGCTTACC
1 AGTAAGTTCGTAAATAATGAACATAGCTTACC
22299657 AGTAAGTTCGTAAATAATGAACATAGCTTACC
1 AGTAAGTTCGTAAATAATGAACATAGCTTACC
22299689 A
1 A
22299690 TTTCAAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (32 bp):
AGTAAGTTCGTAAATAATGAACATAGCTTACC
Found at i:22317086 original size:12 final size:12
Alignment explanation
Indices: 22317069--22317095 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22317059 CACACCCGTG
22317069 TTTTATAATTAA
1 TTTTATAATTAA
22317081 TTTTATAATTAA
1 TTTTATAATTAA
22317093 TTT
1 TTT
22317096 AATTCAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTATAATTAA
Found at i:22324446 original size:29 final size:30
Alignment explanation
Indices: 22324390--22324446 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
22324380 CAACTTTTAT
**
22324390 TTTAGAAAAAAACAAAAATTAGTTGTCGAC
1 TTTAGAAAAAAACAAAAATTAGGAGTCGAC
* *
22324420 TTTA-AAAAAAATAAAAATTGGGAGTCG
1 TTTAGAAAAAAACAAAAATTAGGAGTCG
22324447 CCACCAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (30 bp):
TTTAGAAAAAAACAAAAATTAGGAGTCGAC
Found at i:22325739 original size:3 final size:3
Alignment explanation
Indices: 22325726--22325767 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
22325716 GCGCATGAAT
*
22325726 ATA AAA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT
22325768 GATACAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:22325755 original size:16 final size:16
Alignment explanation
Indices: 22325734--22325766 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22325724 ATATAAAAAT
22325734 AATAATAATAATAATA
1 AATAATAATAATAATA
22325750 AATAATAATAATAATA
1 AATAATAATAATAATA
22325766 A
1 A
22325767 TGATACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:22326268 original size:19 final size:19
Alignment explanation
Indices: 22326244--22326335 Score: 150
Period size: 19 Copynumber: 4.8 Consensus size: 19
22326234 AATCATATCT
22326244 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22326263 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
22326282 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
22326301 TCTAAGA-TGACATATCATA
1 TCTAAGATTG-CATATCATA
22326320 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22326336 CTTGAGAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
18 2 0.03
19 63 0.94
20 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22326297 original size:38 final size:38
Alignment explanation
Indices: 22326221--22326335 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
22326211 AAATTAAATC
*
22326221 TCTAAGATTACAGAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACA-TATCATA---TCTAAGATTGCATATCATA
*
22326263 TCTAAGATTACATATCATATCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
22326301 TCTAAGATGACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
22326336 CTTGAGAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 51 0.74
41 6 0.09
42 12 0.17
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:22326300 original size:24 final size:19
Alignment explanation
Indices: 22326221--22326335 Score: 140
Period size: 19 Copynumber: 5.8 Consensus size: 19
22326211 AAATTAAATC
*
22326221 TCTAAGATTACAGAATCATA
1 TCTAAGATTACA-TATCATA
*
22326241 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
22326263 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
**
22326282 TCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATA
*
22326301 TCTAAGATGACATATCATA
1 TCTAAGATTACATATCATA
*
22326320 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
22326336 CTTGAGAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
22 6 0.07
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:22329244 original size:37 final size:38
Alignment explanation
Indices: 22329203--22329287 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 38
22329193 TAACATAAAG
* * *
22329203 AAATTGAAAAAATA-TTTTTAAACGGTTACGATTTGAC
1 AAATTCAAAAAATAGCTTCTAAACGGTTACGATTTGAC
* **
22329240 AAATTCAGAATGTAGCTTCTAAACGGTTACGATTTGAC
1 AAATTCAAAAAATAGCTTCTAAACGGTTACGATTTGAC
*
22329278 AAAATCAAAA
1 AAATTCAAAA
22329288 TCTAGCTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 10 0.26
38 29 0.74
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (38 bp):
AAATTCAAAAAATAGCTTCTAAACGGTTACGATTTGAC
Found at i:22329263 original size:38 final size:38
Alignment explanation
Indices: 22329221--22329294 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
22329211 AAAATATTTT
* * *
22329221 TAAACGGTTACGATTTGACAAATTCAGAATGTAGCTTC
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
22329259 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCT
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCT
22329295 ATTGAGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (38 bp):
TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
Found at i:22332305 original size:24 final size:23
Alignment explanation
Indices: 22332278--22332355 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
22332268 TAGAACTTAA
22332278 TATAATCAGCACACACATACTTTG
1 TATAAT-AGCACACACATACTTTG
*
22332302 TATAGATAGCTCACACATAGAACTTT-
1 TATA-ATAGCACACACAT---ACTTTG
* * *
22332328 TATAATTAGTACACATATGCTTTG
1 TATAA-TAGCACACACATACTTTG
22332352 TATA
1 TATA
22332356 GACAGTTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 4 0.09
24 18 0.42
25 3 0.07
26 13 0.30
27 5 0.12
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (23 bp):
TATAATAGCACACACATACTTTG
Found at i:22332331 original size:26 final size:26
Alignment explanation
Indices: 22332296--22332376 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 26
22332286 GCACACACAT
22332296 ACTTTGTATAGATAGCTCACACATAGA
1 ACTTTGTATAGATAG-TCACACATAGA
22332323 ACTTT-TATA-ATTAGT-ACACATATG-
1 ACTTTGTATAGA-TAGTCACACATA-GA
* *
22332347 -CTTTGTATAGACAGTTCATACATAGA
1 ACTTTGTATAGATAG-TCACACATAGA
22332373 ACTT
1 ACTT
22332377 ATATAATCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
23 4 0.09
24 13 0.30
25 6 0.14
26 13 0.30
27 8 0.18
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (26 bp):
ACTTTGTATAGATAGTCACACATAGA
Found at i:22332351 original size:50 final size:50
Alignment explanation
Indices: 22332258--22332514 Score: 300
Period size: 50 Copynumber: 5.1 Consensus size: 50
22332248 CTACAATGCT
* * *
22332258 AGTTCGCATATAGAACTTAATATAATCAGCACACACATACTTTGTATAGAT
1 AGTTCACACATAGAACTT-ATATAATCAGCACACACATACTTTGTATAGAC
* * * * * *
22332309 AGCTCACACATAGAACTTTTATAATTAGTACACATATGCTTTGTATAGAC
1 AGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGAC
* * *
22332359 AGTTCATACATAGAACTTATATAATCCA-CACACACATACTTCGTATAAAC
1 AGTTCACACATAGAACTTATATAAT-CAGCACACACATACTTTGTATAGAC
* ** * * *
22332409 AATTTGCACATAGAACTTATATAATAAGCACGCACATGCTTTGTATAGAC
1 AGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGAC
* * *
22332459 AGTTCACACATAGAACTTATATAATTAGCTCACACATACTTTGTATAGAT
1 AGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGAC
22332509 AGTTCA
1 AGTTCA
22332515 TAGACCCTTT
Statistics
Matches: 169, Mismatches: 35, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
49 1 0.01
50 152 0.90
51 16 0.09
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.32
Consensus pattern (50 bp):
AGTTCACACATAGAACTTATATAATCAGCACACACATACTTTGTATAGAC
Found at i:22333113 original size:22 final size:20
Alignment explanation
Indices: 22333088--22333130 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
22333078 AAAATTCTTC
22333088 CACGGTACTTCTAGTTATTCAA
1 CACGGTACTTCTA-TT-TTCAA
* *
22333110 CACGTTCCTTCTATTTTCAA
1 CACGGTACTTCTATTTTCAA
22333130 C
1 C
22333131 CATGACCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (20 bp):
CACGGTACTTCTATTTTCAA
Found at i:22338564 original size:40 final size:40
Alignment explanation
Indices: 22338527--22338742 Score: 190
Period size: 40 Copynumber: 5.6 Consensus size: 40
22338517 GCTACTCGTT
*
22338527 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
22338567 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
22338607 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
22338646 CAAATGCCTT-----C---GCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
22338678 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
22338719 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22338743 ACATCATTCA
Statistics
Matches: 150, Mismatches: 12, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
32 31 0.21
35 1 0.01
37 1 0.01
39 30 0.20
40 73 0.49
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:22338666 original size:32 final size:32
Alignment explanation
Indices: 22338625--22338689 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
22338615 TTCGGGCTTA
22338625 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
1 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
22338657 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
1 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
22338689 G
1 G
22338690 GATCTTAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (32 bp):
GCCCGGAATTAGTATCTCGCACAAATGCCTTC
Found at i:22344875 original size:40 final size:40
Alignment explanation
Indices: 22344838--22345053 Score: 190
Period size: 40 Copynumber: 5.6 Consensus size: 40
22344828 GCTACTCGTT
*
22344838 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
22344878 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
22344918 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
22344957 CAAATGCCTT-----C---GCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
22344989 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
22345030 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
22345054 ACATCATTCA
Statistics
Matches: 150, Mismatches: 12, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
32 31 0.21
35 1 0.01
37 1 0.01
39 30 0.20
40 73 0.49
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:22344977 original size:32 final size:32
Alignment explanation
Indices: 22344936--22345000 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
22344926 TTCGGGCTTA
22344936 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
1 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
22344968 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
1 GCCCGGAATTAGTATCTCGCACAAATGCCTTC
22345000 G
1 G
22345001 GATCTTAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (32 bp):
GCCCGGAATTAGTATCTCGCACAAATGCCTTC
Found at i:22355185 original size:34 final size:34
Alignment explanation
Indices: 22355147--22355214 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
22355137 ACACAGTTAC
22355147 ACAAATGTAAAACTAAAATTGTTTTATAGCCTTT
1 ACAAATGTAAAACTAAAATTGTTTTATAGCCTTT
22355181 ACAAATGTAAAACTAAAATTGTTTTATAGCCTTT
1 ACAAATGTAAAACTAAAATTGTTTTATAGCCTTT
22355215 CACATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (34 bp):
ACAAATGTAAAACTAAAATTGTTTTATAGCCTTT
Found at i:22365569 original size:28 final size:28
Alignment explanation
Indices: 22365456--22365673 Score: 120
Period size: 28 Copynumber: 7.8 Consensus size: 28
22365446 TTTAACTGAG
** **
22365456 ATAGCCACAAAGGCATCCTTTTAATATTT
1 ATAGCCACAAAGGTTTCC-TTTAATAGAT
** * *
22365485 ATAGCCACAAAGGCATCCTTTTAACAGAG
1 ATAGCCACAAAGGTTTCC-TTTAATAGAT
* * * ** *
22365514 ATAACCATAAACGCGTCCTTT--CAGAT
1 ATAGCCACAAAGGTTTCCTTTAATAGAT
*
22365540 ATAGTCACAAAGGTTTCCTTTAATAGAT
1 ATAGCCACAAAGGTTTCCTTTAATAGAT
* * *
22365568 ATAGGCACAAAGGTTTTCTTTAATAGAG
1 ATAGCCACAAAGGTTTCCTTTAATAGAT
* * *
22365596 ATCGCCACAAAGGCTTCCTTT--TAGAG
1 ATAGCCACAAAGGTTTCCTTTAATAGAT
* * * *
22365622 ATAACCACAAAGGCACTTCCTTATAACAGAG
1 ATAGCCACAAAGG--TTTCCTT-TAATAGAT
* *
22365653 ATCGCCACAAAGGCTTCCTTT
1 ATAGCCACAAAGGTTTCCTTT
22365674 CAGAGATAGC
Statistics
Matches: 154, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
26 35 0.23
28 57 0.37
29 47 0.31
31 15 0.10
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (28 bp):
ATAGCCACAAAGGTTTCCTTTAATAGAT
Found at i:22377736 original size:33 final size:34
Alignment explanation
Indices: 22377693--22377902 Score: 138
Period size: 33 Copynumber: 5.8 Consensus size: 34
22377683 ATATAAAGGG
*
22377693 GGTTGATAAGTGCTGATTCC-CCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
* * *
22377726 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--TT-CAT-TG---GT
*
22377768 GGTTGCTAAGTGCTGATTCC-TCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
* * * *
22377801 GGTTTCTAAGTGTTGATTCCACCGTATCACTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCG-AT---T-CAT-TG---GT
* *
22377844 GGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
*
22377877 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCCACCGAT
22377903 AACGGATAAC
Statistics
Matches: 136, Mismatches: 21, Indels: 39
0.69 0.11 0.20
Matches are distributed among these distances:
33 57 0.42
34 9 0.07
35 3 0.02
36 4 0.03
37 5 0.04
38 6 0.04
39 4 0.03
40 3 0.02
41 3 0.02
42 23 0.17
43 19 0.14
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
Found at i:22377877 original size:76 final size:75
Alignment explanation
Indices: 22377691--22377900 Score: 321
Period size: 76 Copynumber: 2.8 Consensus size: 75
22377681 GAATATAAAG
* * *
22377691 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCCT
22377756 AAATGTGAAA
66 AAATGTGAAA
* * *
22377766 GGGGTTGCTAAGTGCTGATTCCTCGATTCATTGGTGGTTTCTAAGTGTTGATTCCACCGTATCAC
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC-C
*
22377831 TGAATGTGAAA
65 TAAATGTGAAA
* * *
22377842 GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
22377901 ATAACGGATA
Statistics
Matches: 121, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
75 58 0.48
76 63 0.52
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCCT
AAATGTGAAA
Found at i:22393103 original size:23 final size:23
Alignment explanation
Indices: 22393023--22393123 Score: 96
Period size: 23 Copynumber: 4.4 Consensus size: 23
22393013 TATTTGTGAA
* *
22393023 GCCTTTGTGGCATATTCTGTGAT
1 GCCTTTGTGGCATATTCTATAAT
** * * *
22393046 GTATTTGTGGTATATTTTGTAAT
1 GCCTTTGTGGCATATTCTATAAT
*
22393069 GCCTTTGTGGCGTATTCTATAAT
1 GCCTTTGTGGCATATTCTATAAT
* * *
22393092 GCCTTTGTGGCGTACTCTA-AGT
1 GCCTTTGTGGCATATTCTATAAT
22393114 GCCTTTGTGG
1 GCCTTTGTGG
22393124 TAAGTCATGT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
22 12 0.18
23 53 0.82
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.45
Consensus pattern (23 bp):
GCCTTTGTGGCATATTCTATAAT
Found at i:22394762 original size:5 final size:5
Alignment explanation
Indices: 22394757--22394788 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
22394747 ACAAAATAAC
*
22394757 AAAAC AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
22394789 TATCCCAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:22394762 original size:13 final size:13
Alignment explanation
Indices: 22394744--22394768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22394734 AATTTTGGGG
22394744 AAAACAAAATAAC
1 AAAACAAAATAAC
22394757 AAAACAAAATAA
1 AAAACAAAATAA
22394769 AATAAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAACAAAATAAC
Found at i:22394780 original size:15 final size:15
Alignment explanation
Indices: 22394744--22394788 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
22394734 AATTTTGGGG
*
22394744 AAAACAAAAT--AAC
1 AAAACAAAATAAAAT
22394757 AAAACAAAATAAAAT
1 AAAACAAAATAAAAT
*
22394772 AAAATAAAATAAAAT
1 AAAACAAAATAAAAT
22394787 AA
1 AA
22394789 TATCCCAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 10 0.36
15 18 0.64
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACAAAATAAAAT
Found at i:22400769 original size:79 final size:82
Alignment explanation
Indices: 22400658--22400842 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
22400648 GCTACTCGTT
* * *
22400658 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGAT-TTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
22400721 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
22400738 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
22400801 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
22400818 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22400843 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:22400842 original size:40 final size:40
Alignment explanation
Indices: 22400658--22400842 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
22400648 GCTACTCGTT
* *
22400658 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
22400698 CAATTGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
22400738 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
22400777 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
22400818 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22400843 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:22416145 original size:27 final size:27
Alignment explanation
Indices: 22416128--22416334 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
22416118 ATATTAAGTC
22416128 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
22416155 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
22416183 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
22416210 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
22416238 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
22416265 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
22416293 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
22416320 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
22416335 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:22416212 original size:55 final size:55
Alignment explanation
Indices: 22416128--22416334 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
22416118 ATATTAAGTC
* * * *
22416128 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
22416183 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
22416238 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
22416293 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
22416335 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:22425160 original size:50 final size:49
Alignment explanation
Indices: 22425095--22425331 Score: 241
Period size: 50 Copynumber: 4.8 Consensus size: 49
22425085 ATTATGAGAT
22425095 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AGATAAGAG
* *
22425145 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGGATGATAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-GATAAGAG
* * *
22425195 GTCTCC-CGTAAGACCATGTCTGGGACATGGCGTGGGCACC-GATATGAGAA
1 GTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGATA--AGAG
* * * * * *
22425245 CTCCCATGTAAGACCATATCTGGGATATGGCATT--CA-CAGTACAAGAAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAG-ATAAG--AG
* * *
22425294 ATACCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
22425332 TGTTATTATC
Statistics
Matches: 156, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
47 3 0.02
48 6 0.04
49 35 0.22
50 108 0.69
51 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGATAAGAG
Found at i:22425546 original size:20 final size:20
Alignment explanation
Indices: 22425521--22425560 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22425511 ATGAGTTATT
22425521 CAAGTAAGCA-AGTAAGTAAA
1 CAAGTAAG-AGAGTAAGTAAA
22425541 CAAGTAAGAGAGTAAGTAAA
1 CAAGTAAGAGAGTAAGTAAA
22425561 GAAAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.55, C:0.07, G:0.23, T:0.15
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTAAA
Found at i:22429878 original size:6 final size:6
Alignment explanation
Indices: 22429869--22429897 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22429859 ACTAGAGATA
22429869 GAAATG GAAATG GAAATG GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAAT
22429898 AATTCATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:22435231 original size:125 final size:125
Alignment explanation
Indices: 22435004--22435381 Score: 578
Period size: 125 Copynumber: 3.0 Consensus size: 125
22434994 TTAGGGTTTT
* *
22435004 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
* * * * * * *
22435069 AGAATGCTGTTTGATAAGAATTTGTGAAATCGTGCCCTCGTGGATGCGCTTTTGCTACAG
66 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
*
22435129 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGATTCTAGC
1 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
*
22435194 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCTCTTTTTCTACAG
66 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* * * *
22435254 CAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAATATAAAATCA-CTTCTAG
1 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAT-AGCTTCTAG
* * *
22435318 CAGGATGCTATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACGTACTTTTTCTACAG
65 CAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
22435379 TAG
1 TAG
22435382 CATGTTTGGG
Statistics
Matches: 232, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 231 1.00
126 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
Found at i:22438625 original size:22 final size:22
Alignment explanation
Indices: 22438600--22439400 Score: 624
Period size: 23 Copynumber: 36.2 Consensus size: 22
22438590 TAAAGTCTTA
* *
22438600 AAGTTAATGGTTAAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* * *
22438622 AAGTTAAGTG-TTAAGATTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22438643 AAGTTGAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22438664 AAGTTAAGGGTTTAAGGTTTTTT
1 AAGTTAAGGGTTT-AGGGTTTTT
**
22438687 AA-TTAA-ATTAGTTAGGGTTTTT
1 AAGTTAAGGGT--TTAGGGTTTTT
*
22438709 AAATTTAAGGGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTT
* *
22438732 AA-TTAA--ATTAAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* *
22438751 AAGTTAAGGGGTTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22438773 AAATTTAAGGGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTT
**
22438796 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
22438819 AAGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22438841 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
** *
22438864 AA-TTAAATTAGTTTAAGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
* *
22438887 AAGTTAAGGGATTAGGGGTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* * *
22438909 AATTTTAAAGGTTTGGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
* * *
22438932 AATTTAAAGG-TTAGGGTTTAT
1 AAGTTAAGGGTTTAGGGTTTTT
22438953 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22438975 AATTTTAAGGG-TTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
22438997 AAGTTAAGGGTTTAGGG-TTTT
1 AAGTTAAGGGTTTAGGGTTTTT
** *
22439018 AA-TTAAATTAGTTTAGGGGTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
22439041 AAGTTAAGGGTTTAGGATTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22439063 AA-TTAAATTGGTTTAGGG-TTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
22439085 AAGTTAAGGG-TTAGGGGTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22439106 AAGTTTAATGGTTTAGGG-TTTT
1 AAG-TTAAGGGTTTAGGGTTTTT
* ** * * *
22439128 AAATTAAATTAGTTAAAGG---TC
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
22439149 AAGGTTTAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
**
22439172 ATTTTTAAGGGTTTAGGGTTTTT
1 A-AGTTAAGGGTTTAGGGTTTTT
**
22439195 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
22439218 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22439240 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
** *
22439263 ATTTTAAGGG-TTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
22439284 AAGTTAAGGGTTTAGGGTTTTA
1 AAGTTAAGGGTTTAGGGTTTTT
*
22439306 AATTTCAAGGGTTTAGGGTTTTT
1 AAGTT-AAGGGTTTAGGGTTTTT
**
22439329 AA-TTGAATTTGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
* **
22439352 AAGTTGAA-TGTTTAGATTTTTT
1 AAGTT-AAGGGTTTAGGGTTTTT
*
22439374 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
22439397 AAGT
1 AAGT
22439401 AATAACTCAA
Statistics
Matches: 629, Mismatches: 101, Indels: 98
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.02
20 18 0.03
21 112 0.18
22 210 0.33
23 258 0.41
24 17 0.03
25 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (22 bp):
AAGTTAAGGGTTTAGGGTTTTT
Found at i:22438731 original size:45 final size:44
Alignment explanation
Indices: 22438600--22439400 Score: 661
Period size: 45 Copynumber: 18.1 Consensus size: 44
22438590 TAAAGTCTTA
* * * * * *
22438600 AAGTTAATGGTTAAGGGTTTTTAAGTTAAGTG-TTAAGATTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * *
22438643 AAGTTGAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTT-AGGGTTTTT
**
22438687 AA-TTAA-ATTAGTTAGGGTTTTTAAATTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGT--TTAGGGTTTTT-AATTTAAGGGTTTAGGGTTTTT
* * * * *
22438732 AA-TTAA--ATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * **
22438773 AAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
*
22438819 AAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
** * * * *
22438864 AA-TTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * * * *
22438909 AATTTTAAAGGTTTGGGGTTTTTAATTTAAAGG-TTAGGGTTTAT
1 AA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
22438953 AAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
* ** *
22438997 AAGTTAAGGGTTTAGGG-TTTTAATTAAATTAGTTTAGGGGTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
* * *
22439041 AAGTTAAGGGTTTAGGATTTTTAATTAAATTGGTTTAGGG-TTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
* *
22439085 AAGTTAAGGG-TTAGGGGTTTTAAGTTTAATGGTTTAGGG-TTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
* ** * * *
22439128 AAATTAAATTAGTTAAAGG---TCAAGGTTT-AGGGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTTAA--TTTAAGGGTTTAGGGTTTTT
** * **
22439172 ATTTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTT
1 A-AGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
22439218 AAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
** * * *
22439263 ATTTTAAGGG-TTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * **
22439306 AATTTCAAGGGTTTAGGGTTTTTAATTGAATTTGTTTAGGGTTTTT
1 AAGTT-AAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
* **
22439352 AAGTTGAA-TGTTTAGATTTTTTAATTTTAAGGGTTTAGGGTTTTT
1 AAGTT-AAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
22439397 AAGT
1 AAGT
22439401 AATAACTCAA
Statistics
Matches: 621, Mismatches: 100, Indels: 72
0.78 0.13 0.09
Matches are distributed among these distances:
41 19 0.03
42 35 0.06
43 113 0.18
44 133 0.21
45 230 0.37
46 89 0.14
47 2 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (44 bp):
AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
Found at i:22439185 original size:331 final size:331
Alignment explanation
Indices: 22438603--22439330 Score: 1013
Period size: 331 Copynumber: 2.2 Consensus size: 331
22438593 AGTCTTAAAG
* * * * * *
22438603 TTAATGGTTAAGGGTTTTTAAGTTAAGTG-TTAAGATTTTTAA-GTTGAGGGTTAGGGTTTTTAA
1 TTAAAGGTT-AGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTAGGGTTTTTAA
* * * *
22438666 GTTAAGGGTTTAAGGTTTTTTAATTAAATTAGTTAGGGTTTTTAAATTTAAGGGTTTAGGGTTTT
65 GTTAAGGGTTTAAGGTGTTTTAATTAAATTAGTTAGGGGTTTTAAAGTTAAGGGTTTAGGATTTT
* *
22438731 TAATTAAATTAAGGGTTTTTAAGTTAAGGGGTTAAGGTTTTTAAATTTAAGGGTTTAGGGTTTTT
130 TAATTAAATTAAGGGTTTTTAAGTTAAGGGGTTAAGGGTTTTAAATTTAAGGGTTTAGGGTTTTA
* * *
22438796 AATTAAATTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGGGTT
195 AATTAAATTAGTTAAAGG--TTCAAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGGGTT
*
22438861 TTTAATTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTTAATTTTAAAGGTTTGGG
258 TTTAATTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTTAATTTTAAAGGTTTAGG
22438926 GTTTTTAAT
323 GTTTTTAAT
*
22438935 TTAAAGGTTAGGGTTTATAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTAGGGTTTTTAAG
1 TTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTAGGGTTTTTAAG
22439000 TTAAGGGTTT-AGG-GTTTTAATTAAATTAGTTTAGGGGTTTT-AAGTTAAGGGTTTAGGATTTT
66 TTAAGGGTTTAAGGTGTTTTAATTAAATTAG-TTAGGGGTTTTAAAGTTAAGGGTTTAGGATTTT
* * * *
22439062 TAATTAAATTGGTTTAGGG-TTTTAAGTTAA-GGGTTAGGGGTTTTAAGTTTAATGGTTTAGGGT
130 TAATTAAA----TTAAGGGTTTTTAAGTTAAGGGGTTAAGGGTTTTAAATTTAAGGGTTTAGGGT
* * *
22439125 TTTAAATTAAATTAGTTAAAGG-TCAAGGTTTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGG
191 TTTAAATTAAATTAGTTAAAGGTTCAA-GTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGG
* * * *
22439189 GTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTT
255 GTTTTTAATTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTTAATTTTAAAGGTTT
*
22439254 AGGGTTTTTATT
320 AGGGTTTTTAAT
* * * *
22439266 TTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAATTTCAAGGGTTTAGGGTTTTTAA
1 TTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGG-TTAGGGTTTTTAA
22439331 TTGAATTTGT
Statistics
Matches: 353, Mismatches: 34, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
330 3 0.01
331 210 0.59
332 45 0.13
333 78 0.22
334 11 0.03
335 6 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (331 bp):
TTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTAGGGTTTTTAAG
TTAAGGGTTTAAGGTGTTTTAATTAAATTAGTTAGGGGTTTTAAAGTTAAGGGTTTAGGATTTTT
AATTAAATTAAGGGTTTTTAAGTTAAGGGGTTAAGGGTTTTAAATTTAAGGGTTTAGGGTTTTAA
ATTAAATTAGTTAAAGGTTCAAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTT
AATTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTTAATTTTAAAGGTTTAGGGTT
TTTAAT
Found at i:22439611 original size:21 final size:21
Alignment explanation
Indices: 22439565--22439612 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
22439555 TTTGTCCAGT
*
22439565 TTCCGGCGGCGGTTGTGGTGC
1 TTCCGGCGGCGGTTCTGGTGC
* *
22439586 CTCCGGCGG-GGATTCTGGTTC
1 TTCCGGCGGCGG-TTCTGGTGC
22439607 TTCCGG
1 TTCCGG
22439613 TACGACATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.02, C:0.27, G:0.42, T:0.29
Consensus pattern (21 bp):
TTCCGGCGGCGGTTCTGGTGC
Found at i:22439900 original size:18 final size:18
Alignment explanation
Indices: 22439873--22439907 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22439863 AGAAAAGTAA
* *
22439873 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
22439891 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
22439908 AATGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:22440565 original size:7 final size:7
Alignment explanation
Indices: 22440555--22440587 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
22440545 TTATATACAT
22440555 AATACTA
1 AATACTA
22440562 AATACTA
1 AATACTA
22440569 AATACTA
1 AATACTA
22440576 AATACTA
1 AATACTA
22440583 AATAC
1 AATAC
22440588 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:22440794 original size:20 final size:20
Alignment explanation
Indices: 22440757--22440794 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22440747 TTTATTTTTA
*
22440757 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
22440777 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
22440795 TACCTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:22441712 original size:21 final size:21
Alignment explanation
Indices: 22441686--22441725 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22441676 ATTTTTACAG
22441686 TTTAAAAAATTTAAAAAAAAA
1 TTTAAAAAATTTAAAAAAAAA
**
22441707 TTTAAACTATTTAAAAAAA
1 TTTAAAAAATTTAAAAAAA
22441726 GGGAGTTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTAAAAAATTTAAAAAAAAA
Found at i:22441794 original size:11 final size:11
Alignment explanation
Indices: 22441780--22441834 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
22441770 TTAAATATAG
22441780 ATTTGAGAGAA
1 ATTTGAGAGAA
*
22441791 ATTTG-GAAGGA
1 ATTTGAG-AGAA
22441802 ATTTGAGAGGAA
1 ATTTGAGA-GAA
22441814 A-TTGAGATGAA
1 ATTTGAGA-GAA
22441825 ATTTGAGAGA
1 ATTTGAGAGA
22441835 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:22441827 original size:23 final size:23
Alignment explanation
Indices: 22441780--22441833 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
22441770 TTAAATATAG
*
22441780 ATTTGAGA-GAAATTTGGAAGGA
1 ATTTGAGAGGAAATTTGGAAGAA
*
22441802 ATTTGAGAGGAAA-TTGAGATGAA
1 ATTTGAGAGGAAATTTG-GAAGAA
22441825 ATTTGAGAG
1 ATTTGAGAG
22441834 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (23 bp):
ATTTGAGAGGAAATTTGGAAGAA
Found at i:22446313 original size:87 final size:86
Alignment explanation
Indices: 22446159--22446531 Score: 428
Period size: 87 Copynumber: 4.3 Consensus size: 86
22446149 TCATCAACCA
* *
22446159 ATGAAGAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGA-AA
* *
22446224 GGGATAGTTTCGGCTATCGATT
65 GGGATAGTTTCGACCATCGATT
* * * *
22446246 ATGAGAAGGGATAGCTTCGACTATCGATTATGAGAAGGGATAGCTTTGGCTATCGATTATGATAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGA-AA
* * * *
22446311 GGGATAGCTTCGGCTATTGATT
65 GGGATAGTTTCGACCATCGATT
* * *
22446333 ATGAGAAGGGATAGCTTC-AGCTATCGAATATGAAAAGGGATAGCTTCGGTTATCAATTATGGAA
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTAT-GAA
* ** * *
22446397 AGGGATGGTGACGACCATCAACT
64 AGGGATAGTTTCGACCATCGATT
* * *
22446420 ATGAAAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAA
1 ATGAAAAGGGATAGCT-TCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATG-AA
* *
22446484 AGGGATGGTTTCGACCATCGAAT
64 AGGGATAGTTTCGACCATCGATT
*
22446507 ATGAAAAGGGAT-GATTACGACTATC
1 ATGAAAAGGGATAGCTT-CGACTATC
22446532 ATTTAGCACA
Statistics
Matches: 244, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.02
87 237 0.97
88 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (86 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAG
GGATAGTTTCGACCATCGATT
Found at i:22446519 original size:29 final size:29
Alignment explanation
Indices: 22446159--22446518 Score: 377
Period size: 29 Copynumber: 12.4 Consensus size: 29
22446149 TCATCAACCA
*
22446159 ATGAAGAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
22446188 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
22446217 ATGAGAAGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
22446246 ATGAGAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
22446275 ATGAGAAGGGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
22446304 ATGATAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
22446333 ATGAGAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
22446362 ATGAAAAGGGATAGCTTCGGTTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
* * * * *
22446391 ATGGAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * *
22446420 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
*
22446449 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
22446478 ATGAAAAGGGATGGTTTCGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
22446507 ATGAAAAGGGAT
1 ATGAAAAGGGAT
22446519 GATTACGACT
Statistics
Matches: 291, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
28 4 0.01
29 283 0.97
30 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:22458322 original size:50 final size:50
Alignment explanation
Indices: 22458215--22458446 Score: 216
Period size: 50 Copynumber: 4.5 Consensus size: 50
22458205 AGCCACAACT
* * * *
22458215 ATGTCCCAGACATAGTCTTACATGGGATGTT-TCTTATA-CTACCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGGTGCCAATGCC
* * * *
22458264 ATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
** ** * * *
22458314 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
** *
22458364 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-GGTGCCAATGCC
*
22458420 ATGTCCCAAACATGGTCTTACATGGGA
1 ATGTCCCAGACATGGTCTTACATGGGA
22458447 TCTCTTTACC
Statistics
Matches: 149, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 3 0.02
49 29 0.19
50 80 0.54
53 1 0.01
56 36 0.24
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
Found at i:22460730 original size:15 final size:16
Alignment explanation
Indices: 22460706--22460741 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
22460696 ATTTGTTCCG
22460706 TTTCAAAATTT-ACTT
1 TTTCAAAATTTCACTT
*
22460721 TTTCATAATTTCACTT
1 TTTCAAAATTTCACTT
22460737 TTTCA
1 TTTCA
22460742 CTTTCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTCAAAATTTCACTT
Found at i:22461037 original size:51 final size:49
Alignment explanation
Indices: 22460961--22461096 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 49
22460951 CTGGTTCACA
*
22460961 TAGTAGCCTGCACATTGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-T-TCCGATACACG
* * * *
22461012 TAGTAGCTTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATTCCGATACACG
* *
22461062 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
22461097 AACTTTGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.03
50 38 0.51
51 31 0.41
52 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCATTCCGATACACG
Found at i:22464275 original size:49 final size:50
Alignment explanation
Indices: 22464220--22464315 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
22464210 TTATTTTCTT
* * *
22464220 GATGCCATAGTCCAACTATGGTCTTACACGTAATCAC-ATATCACATACC
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAAATCACATACC
*
22464269 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAAATCACAT
1 GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAAATCACAT
22464316 TTTCACATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 34 0.81
50 8 0.19
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (50 bp):
GATGCCATAGCCCAACTATGGTCTTACACGGAATCACAAAATCACATACC
Found at i:22476879 original size:38 final size:39
Alignment explanation
Indices: 22476570--22477167 Score: 825
Period size: 39 Copynumber: 15.6 Consensus size: 39
22476560 CAAGCTCAAT
* * * *
22476570 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAA-CCGGATATATCAATTCGCACAAA
* *
22476610 TGCCTTCGGGTCTTAGCCGGATTTATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
* * * *
22476649 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTA-ACCGGATATATCAATTCGCACAAA
*
22476689 TGCCTTC-GGT-TTATCCGG--ATATC-ATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
*
22476723 TGCCTTCGGGTCTTATCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
*
22476762 TGCCTTCGGGTCTTATCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
*
22476801 TGCCTTCGGGTCTTAGCCGGATATATCAATTCGCAC-AA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
* * * *
22476839 TGCCTTCAGGT-TTATCCCGATGTATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
22476877 TG-CTTC-GGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAA-CCGGATATATCAATTCGCACAAA
*
22476915 TGCCTTCGGGTCTTACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
*
22476954 TG-CTTCGAGTCTTAACCGGATATATCAATTCAG-ACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTC-GCACAAA
*
22476992 TGCCTTCGGGTCTTAGCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
22477031 TG-CTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
22477069 TGCCTTCGGGTCTTAACCCGG--ATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAA-CCGGATATATCAATTCGCACAAA
22477107 TGCCTTC-GGTCTTAACC-GATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
*
22477144 TG-CTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTA-ACCGGATAT
22477168 CATTCAAATG
Statistics
Matches: 507, Mismatches: 30, Indels: 43
0.87 0.05 0.07
Matches are distributed among these distances:
34 17 0.03
35 9 0.02
36 17 0.03
37 66 0.13
38 145 0.29
39 201 0.40
40 52 0.10
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAA
Found at i:22476959 original size:77 final size:78
Alignment explanation
Indices: 22476570--22477167 Score: 845
Period size: 77 Copynumber: 7.8 Consensus size: 78
22476560 CAAGCTCAAT
* * * * * *
22476570 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCGGATTTA
1 TGCCTTCGGGTCTTAA-CCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATA
22476635 TCAATTCGCACAAA
65 TCAATTCGCACAAA
* * * * *
22476649 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAATGCCTTC-GGT-TTATCCGG--ATA
1 TGCCTTCGGGTCTTA-ACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATA
22476710 TC-ATTCGCACAAA
65 TCAATTCGCACAAA
* *
22476723 TGCCTTCGGGTCTTATCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCGGATATAT
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATAT
22476788 CAATTCGCACAAA
66 CAATTCGCACAAA
* * *
22476801 TGCCTTCGGGTCTTAGCCGGATATATCAATTCGCAC-AATGCCTTCAGGT-TTATCCC-GATGTA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA-CCCGGATATA
22476863 TCAATTCGCACAAA
65 TCAATTCGCACAAA
22476877 TG-CTTC-GGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATA
1 TGCCTTCGGGTCTTAA-CCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATA
22476940 TCAATTCGCACAAA
65 TCAATTCGCACAAA
* *
22476954 TG-CTTCGAGTCTTAACCGGATATATCAATTCAG-ACAAATGCCTTCGGGTCTTAGCCGGATATA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTC-GCACAAATGCCTTCGGGTCTTACCCGGATATA
22477017 TCAATTCGCACAAA
65 TCAATTCGCACAAA
22477031 TG-CTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGG--ATA
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTT-ACCCGGATATA
22477093 TCAATTCGCACAAA
65 TCAATTCGCACAAA
22477107 TGCCTTC-GGTCTTAACC-GATATATCAATTCGCACAAATG-CTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA-CCCGGATAT
22477168 CATTCAAATG
Statistics
Matches: 475, Mismatches: 25, Indels: 41
0.88 0.05 0.08
Matches are distributed among these distances:
73 30 0.06
74 50 0.11
75 58 0.12
76 71 0.15
77 166 0.35
78 62 0.13
79 38 0.08
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (78 bp):
TGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATAT
CAATTCGCACAAA
Found at i:22476981 original size:191 final size:192
Alignment explanation
Indices: 22476573--22477167 Score: 877
Period size: 191 Copynumber: 3.1 Consensus size: 192
22476563 GCTCAATTGC
* * * * *
22476573 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCGGATTTATCA
1 CTTCGGGTCTTAA-CCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCGGATATATCA
* * * *
22476638 ATTCGCACAAACGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAATGCCTTCGGT-TT-
65 ATTCGCACAAATGCCTTCGGGTCTTAACCC-GATATATCAATTCGCACAAATGCCTTCGGTCTTA
* *
22476701 ATCCGGATATC-ATTCGCACAAATGCCTTCGGGTCTTATCCGGATATATCAATTCGCACAAATG
129 ACCCGGATATCAATTCGCACAAATGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATG
*
22476764 CCTTCGGGTCTTATCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCGGATATATCA
1 -CTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCGGATATATCA
* * *
22476829 ATTCGCAC-AATGCCTTCAGGT-TTATCCCGATGTATCAATTCGCACAAATG-CTTCGGTCTTAA
65 ATTCGCACAAATGCCTTCGGGTCTTAACCCGATATATCAATTCGCACAAATGCCTTCGGTCTTAA
*
22476891 CCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTACCCGGATATATCAATTCGCACAAATG
130 CCCGG--ATATCAATTCGCACAAATGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATG
*
22476956 CTTCGAGTCTTAACCGGATATATCAATTCAG-ACAAATGCCTTCGGGTCTTAGCCGGATATATCA
1 CTTCGGGTCTTAACCGGATATATCAATTC-GCACAAATGCCTTCGGGTCTTAGCCGGATATATCA
*
22477020 ATTCGCACAAATG-CTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
65 ATTCGCACAAATGCCTTCGGGTCTTAACCCGATATATCAATTCGCACAAATGCCTTC-GGTCTTA
22477084 ACCCGGATATCAATTCGCACAAATGCCTTC-GGTCTTAACC-GATATATCAATTCGCACAAATG
129 ACCCGGATATCAATTCGCACAAATGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATG
*
22477146 CTTCGGGTCTTAGCCCGGATAT
1 CTTCGGGTCTTA-ACCGGATAT
22477168 CATTCAAATG
Statistics
Matches: 369, Mismatches: 23, Indels: 23
0.89 0.06 0.06
Matches are distributed among these distances:
187 7 0.02
188 22 0.06
189 11 0.03
190 43 0.12
191 151 0.41
192 118 0.32
193 4 0.01
194 13 0.04
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (192 bp):
CTTCGGGTCTTAACCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCGGATATATCAA
TTCGCACAAATGCCTTCGGGTCTTAACCCGATATATCAATTCGCACAAATGCCTTCGGTCTTAAC
CCGGATATCAATTCGCACAAATGCCTTCGGGTCTTAACCGGATATATCAATTCGCACAAATG
Found at i:22484466 original size:40 final size:40
Alignment explanation
Indices: 22484421--22485085 Score: 1114
Period size: 40 Copynumber: 16.6 Consensus size: 40
22484411 CAAGCTCAAT
* * * *
22484421 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* * * *
22484461 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484501 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* * * *
22484541 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484581 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484621 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484661 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484701 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* * *
22484741 TGCCTTCAGGTCTTATCCCGGATGTATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
22484781 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484821 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484861 TGCCTTCGAGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22484901 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
22484941 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
22484981 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
22485021 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
22485061 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATAT
22485086 CATTCAAATG
Statistics
Matches: 599, Mismatches: 26, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 599 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
Found at i:22490373 original size:26 final size:26
Alignment explanation
Indices: 22490335--22490385 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
22490325 TTATCTAACT
*
22490335 CAAGGCTCTTCGTGCACACCAATGGA
1 CAAGGCTCATCGTGCACACCAATGGA
* *
22490361 CAAGGCTCATCGTGCATATCAATGG
1 CAAGGCTCATCGTGCACACCAATGG
22490386 TCACAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (26 bp):
CAAGGCTCATCGTGCACACCAATGGA
Found at i:22493274 original size:26 final size:26
Alignment explanation
Indices: 22493219--22493275 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
22493209 ATGAAAATGA
**
22493219 AAAAAAAAGAAAAGAAAAGAGCTTAG
1 AAAAAAAAGAAAAGAAAAGAGCAGAG
*
22493245 AAAAAAAAGAAAGGAAAA-AG-AGAG
1 AAAAAAAAGAAAAGAAAAGAGCAGAG
*
22493269 ATAAAAA
1 AAAAAAA
22493276 TGAGTGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.30
25 2 0.07
26 17 0.63
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (26 bp):
AAAAAAAAGAAAAGAAAAGAGCAGAG
Found at i:22496353 original size:16 final size:15
Alignment explanation
Indices: 22496319--22496356 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
22496309 TTCTTAGACA
*
22496319 TTTTAA-TTACTTAG
1 TTTTAATTTAATTAG
22496333 TTTTAATTTAATTATG
1 TTTTAATTTAATTA-G
22496349 TTTTAATT
1 TTTTAATT
22496357 CCTACGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (15 bp):
TTTTAATTTAATTAG
Found at i:22506628 original size:14 final size:14
Alignment explanation
Indices: 22506609--22506648 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
22506599 TCGATTGCGA
22506609 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
22506623 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
22506637 GTAAAATGTTTT
1 GTAAAATGTTTT
22506649 ACTTTTCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:22506657 original size:20 final size:20
Alignment explanation
Indices: 22506632--22506671 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22506622 TGTAAAATGA
*
22506632 TTTCTGTAAAATGTTTTACT
1 TTTCTGTAAAATGATTTACT
22506652 TTTCTGTAAAATGATTTACT
1 TTTCTGTAAAATGATTTACT
22506672 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTCTGTAAAATGATTTACT
Found at i:22506660 original size:34 final size:35
Alignment explanation
Indices: 22506617--22506683 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22506607 GAGTAAAATG
* *
22506617 TTTTCTGTAAAATGATTT-CTGTAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
22506651 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
22506684 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.49
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:22506687 original size:14 final size:15
Alignment explanation
Indices: 22506611--22506687 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
22506601 GATTGCGAGT
*
22506611 AAAATG-TTTTCTGT
1 AAAATGATTTTCTGG
*
22506625 AAAATGA-TTTCTGT
1 AAAATGATTTTCTGG
*
22506639 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
22506659 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
22506674 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
22506688 TGTTTGATTG
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
14 27 0.51
15 11 0.21
16 1 0.02
18 1 0.02
20 13 0.25
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.45
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:22517328 original size:38 final size:38
Alignment explanation
Indices: 22517271--22517347 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
22517261 CATCATACAA
22517271 CGCTGGAATATTGTCGGGGCATTACATAACCCAAATGG
1 CGCTGGAATATTGTCGGGGCATTACATAACCCAAATGG
* *
22517309 CGCTGGAATGTTG-CTGGGGCATTACATAACCCGAATGG
1 CGCTGGAATATTGTC-GGGGCATTACATAACCCAAATGG
22517347 C
1 C
22517348 ATTCTTCTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (38 bp):
CGCTGGAATATTGTCGGGGCATTACATAACCCAAATGG
Found at i:22527502 original size:48 final size:48
Alignment explanation
Indices: 22527430--22527524 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
22527420 CCTACACCTG
*
22527430 TATTCACACAAAACCACACCTTTCCTCCTAAAGTGATAAAAGTAACAT
1 TATTCACACAAAACCACACCTTTCCTCCCAAAGTGATAAAAGTAACAT
* *
22527478 TATTCACACAAAACCACACGTTTCCTCCCCAAGTGATAAAAGTAACA
1 TATTCACACAAAACCACACCTTTCCTCCCAAAGTGATAAAAGTAACA
22527525 AGTAACGACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.23
Consensus pattern (48 bp):
TATTCACACAAAACCACACCTTTCCTCCCAAAGTGATAAAAGTAACAT
Found at i:22531710 original size:19 final size:19
Alignment explanation
Indices: 22531686--22531747 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
22531676 ATATATGTAT
22531686 ATAAAAGTTAGGAAGTAAA
1 ATAAAAGTTAGGAAGTAAA
* ** * *
22531705 ATAAAA-ATAAAAACCT-AT
1 ATAAAAGTTAGGAA-GTAAA
22531723 ATAAAAGTTAGGAAGTAAA
1 ATAAAAGTTAGGAAGTAAA
22531742 ATAAAA
1 ATAAAA
22531748 ATAAAAACCT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.21
Consensus pattern (19 bp):
ATAAAAGTTAGGAAGTAAA
Found at i:22531725 original size:37 final size:37
Alignment explanation
Indices: 22531683--22531759 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
22531673 TATATATATG
22531683 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
1 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
22531720 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
1 TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
22531757 TAT
1 TAT
22531760 GTACAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.23
Consensus pattern (37 bp):
TATATAAAAGTTAGGAAGTAAAATAAAAATAAAAACC
Found at i:22531861 original size:10 final size:10
Alignment explanation
Indices: 22531835--22531867 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
22531825 CATGCGCATG
22531835 AATAAA-AAT
1 AATAAATAAT
22531844 AA-AAATAAT
1 AATAAATAAT
22531853 AATAAATAAT
1 AATAAATAAT
22531863 AATAA
1 AATAA
22531868 TGATACAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 7 0.32
10 12 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAATAAT
Found at i:22532373 original size:19 final size:19
Alignment explanation
Indices: 22532349--22532421 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
22532339 AATCATATCT
22532349 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22532368 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
22532387 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22532406 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22532422 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22532398 original size:38 final size:39
Alignment explanation
Indices: 22532326--22532421 Score: 140
Period size: 38 Copynumber: 2.4 Consensus size: 39
22532316 AAATTAAATC
*
22532326 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA--TTCTAAGATTGCATATCATA
22532368 TCTAAGATTACATATCATA-TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
*
22532406 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
22532422 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
38 34 0.65
41 7 0.13
42 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (39 bp):
TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
Found at i:22533019 original size:44 final size:44
Alignment explanation
Indices: 22532933--22534136 Score: 502
Period size: 44 Copynumber: 27.6 Consensus size: 44
22532923 TTCTAATCCA
* * ** * *
22532933 CTCCACTACAACTTTAGGGAGATGGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTT-CTTAGTCTG
* *
22532977 CCCCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
** * * * *
22533021 CTCCACTATAACTTCAGAGAGATAAGAC-TCACTTTCTTGGGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGA-TTTCTT-AGTCTG
* * * **
22533066 CTCCACTGTAACTTCAGAGAGATAAGATCTATGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * *
22533110 CTCCACTGCAACCTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* ***
22533154 CTCCACTGCAACTTCAGGGAGATAATA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTT-AGTCTG
* * * * *
22533199 C-CTCACTACAACTACA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * * *
22533243 CTCCACTGCAACTTTAGAGAGATAAGATCTGTGA-TT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * *
22533287 CTCCACTGCGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* *
22533331 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
* ** * *
22533376 CTCCACTACAACTTCAGGGAGATAAGACCCGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * * **
22533417 CT-CTCTGTAACTTCAGAGAGATAAGATCTATGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * * *
22533460 CTCCACTGCAACTTTAGAGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
** * * *
22533504 CTCCACTAAAACTTCAGGGAGATAATA-TTCGCCATCT-TTAGTCAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTTCTTAGTCTG
* * * * *
22533549 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTGGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * * *
22533593 CTCCACTACAACTTTAGGGAGATAAGACTAGA--TGTTA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* ** * *
22533634 CT-CTCTGCAACTTCAAAGAGATAAGATCTGTGA-TT-TTACTCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
** * * *
22533677 CTCCACTGGGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* * * * *
22533721 CTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTTAGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTA-GTCTG
* *
22533766 CTCCACTGCAACTTCAGGGAGATAAGACTTGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * **
22533807 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * * *
22533850 CTCTACTGCAACTTTAGGG-GATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* * * ***
22533893 CTCTACTACAACTTCAGAGAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTT-AGTCTG
* * * *
22533938 C-CTCAGTACAACTTCA-GGAGGATAA-AGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-CTTGATTTCTTAGTCTG
* * * *
22533982 CTCCACTGCAACTTCAAGGAGATAAGACTAGA--TGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
** * * *
22534023 CT-CTGTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* ** * * *
22534066 CACCACTGGGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
*
22534110 CTCCACTGCAACTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
22534137 TTCACCATTT
Statistics
Matches: 867, Mismatches: 205, Indels: 176
0.69 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 88 0.10
41 42 0.05
42 27 0.03
43 59 0.07
44 420 0.48
45 211 0.24
46 15 0.02
48 4 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
Found at i:22533247 original size:177 final size:177
Alignment explanation
Indices: 22532921--22533792 Score: 791
Period size: 177 Copynumber: 5.0 Consensus size: 177
22532911 ATTTCAGAGA
* * * * *** * *
22532921 GATTCTAATCCACTCCACTACAACTTTAGGGAGATGGGATT-TGTTTATTTAGTCTGCCCCACTG
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTG
* * *** * *
22532985 CAATTTCAGGG-GATAAGACTT-GATTTCTTGAGTCTG-CTCCACTATAACTTCA-GAGAGATAA
65 CAACTTCAGGGAGATAATA-TTCGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAA
* ** * * * *
22533046 GACTCACTTTCTTGGGTTTGCTCCACTGTAACTTCAGAGAGATAAGATCTAT
127 GGCTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
*
22533098 GATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
*
22533163 AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTACAGGAGGATAAGGCT
66 AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCT
* *
22533228 TGCTTACTTAGTCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGT
131 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
* *
22533275 GATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
* ** **
22533340 AACTTCAGGGAGATAAGACTT-GCTTTCTTGGGTCTG-CTCCACTACAACTTCAGG-GAGATAAG
66 AACTTCAGGGAGATAATA-TTCGCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAG
* ** * * * * *
22533402 ACCCG-ATGC-GA-TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTAT
128 GCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
* * **
22533448 GATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAA
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
* *
22533513 AACTTCAGGGAGATAATATTCGCCATCTTTAGTCAGCCTCACTACAACTTCAGGAGGATAAGGCT
66 AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCT
* * * *
22533578 TGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGA-CTA-
131 TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
* ** * ** * * ** * *
22533623 GATGTT-ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCT-GTGATTTTACTCCGCTCCACTG
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTG
** * * *
22533685 GGACTTCAGGGAGATAGGATTATT-GGC-T-TT-AATCTG-CTCTACTACAACTTTAGG-GAGAT
65 CAACTTCAGGGAGATA--A-TATTCGCCATCTTCAGTCTGCCTC-ACTACAACTTCAGGAG-GAT
* * * *
22533744 AAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
125 AAGGCTTGCTTACTTA-GTCTGCTCCACTGCAACTTCAGAGAGATAAGA
22533793 CTTGATGCGA
Statistics
Matches: 578, Mismatches: 95, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
171 4 0.01
172 34 0.06
173 217 0.38
174 18 0.03
175 9 0.02
176 18 0.03
177 228 0.39
178 45 0.08
179 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (177 bp):
GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
AACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCT
TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAT
Found at i:22533249 original size:133 final size:132
Alignment explanation
Indices: 22533110--22534136 Score: 410
Period size: 133 Copynumber: 7.9 Consensus size: 132
22533100 TTTTAATCCA
* * * * *
22533110 CTCCACTGCAACCTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGACTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
22533174 GATA-A-TATTCGCCATCTTCAGTCTGC-CTCACTACAACTACA-GGAGGATAAGGCTTGCTTAC
65 GATAGATTATT-GCC-T-TT-AATCTGCTC-CACTACAACTACAGGGA-GATAAGACTTGCTTAC
22533235 TT-AGTCTG
124 TTGAGTCTG
* * * *
22533243 CTCCACTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * * *
22533308 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGT
66 ATA-GATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACTTGAGT
22533373 CTG
130 CTG
* * * * * * * *
22533376 CTCCACTACAACTTCAGGGAGATAAGACCCGATG-C---GATCTGCT-CTCTGTAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTG-TGACTTTAATCCGCTCCACTGCAACTTCAGGGA
** ** * ** * * * * *
22533436 GATAAGATCTA-TGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGA-TT-ATTGGCTTT
65 GAT-AGAT-TATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTT-ACTTG
*
22533498 AATCTG
127 AGTCTG
** * ** * * *
22533504 CTCCACTAAAACTTCAGGGAGATAATAT-TCGCCATCTTTAGTCAGC-CTCACTACAACTTCA-G
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGA-CTTTAATCCGCTC-CACTGCAACTTCAGG
*** * ** ** * * *
22533566 GAGGATA-AGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAG-AT-GT
63 GA-GATAGATTATTGCCT--TTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACT
22533628 T-A-TCTG
125 TGAGTCTG
* ** * * **
22533634 CT-CTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTCCACTGGGACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * ** * *
22533698 ATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTT-AGG
66 ATA-GATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACTTGA-G
22533762 TCTG
129 TCTG
*** * * *
22533766 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGA-TGCGATCTGCT-CTCTGCAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* ** ** * * ** * * * *
22533827 ATAAGATCT-GTGATTTTAATCCACTCTACTGCAACTTTAGGG-GATAGGA-TT-ATTGGCTTTA
66 AT-AGAT-TATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTT-ACTTGA
*
22533888 ATCTG
128 GTCTG
* * * ** * * * * *
22533893 CTCTACTACAACTTCAGAGAGATAAGAT-TCGCCATCTTCAGTCTGC-CTCAGTACAACTTCA-G
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGA-CTTTAATCCGCTC-CACTGCAACTTCAGG
*** * * * * * *
22533955 GAGGATA-AAGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAG---A-T
63 GA-GATAGATTATTGCCT--TTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACT
22534015 GTGA-TCTG
125 -TGAGTCTG
** * * * **
22534023 CT-CTGTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCACCACTGGGACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* * * *
22534087 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 ATA-GATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGA
22534137 TTCACCATTT
Statistics
Matches: 674, Mismatches: 161, Indels: 123
0.70 0.17 0.13
Matches are distributed among these distances:
126 2 0.00
127 35 0.05
128 153 0.23
129 153 0.23
130 50 0.07
131 21 0.03
132 84 0.12
133 162 0.24
134 7 0.01
135 3 0.00
136 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGACTTTAATCCGCTCCACTGCAACTTCAGGGAG
ATAGATTATTGCCTTTAATCTGCTCCACTACAACTACAGGGAGATAAGACTTGCTTACTTGAGTC
TG
Found at i:22533520 original size:217 final size:215
Alignment explanation
Indices: 22533243--22533796 Score: 654
Period size: 217 Copynumber: 2.5 Consensus size: 215
22533233 ACTTAGTCTG
* * ** * * *
22533243 CTCCACTGCAACTTTAGAGAGATAAGATCT-GTGATTTTAATCCGCTCCACTGCGACTTCAGGGA
1 CTCCACTGCAACTTTAGAGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTACAACTTCAGGGA
* * *
22533307 GATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGG
65 GATA-GATTATTGTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTT-GG
* * *
22533372 TCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGTAACTTCAGAGAG
128 TCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAG
22533437 ATAAGATCTATGATTTTAATCCA
193 ATAAGATCTATGATTTTAATCCA
*
22533460 CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGAG
1 CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
* * *
22533525 ATA-A-TATTCGCCATCTTTAGTCAGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACT
66 ATAGATTATT-G---TCTTTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACT
* * **
22533586 TGGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGTTATCTGCTCTCTGCAACTTCAAA
125 TGGTCTGCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAA
* * *
22533651 GAGATAAGATCTGTGATTTTACTCCG
190 GAGATAAGATCTATGATTTTAATCCA
** * * * *
22533677 CTCCACTGGGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAG
1 CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
**
22533742 ATAAGACTCGCTT-TC-TTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
66 AT-AGA-T-TATTGTCTTTA-GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
22533797 ATGCGATCTG
Statistics
Matches: 286, Mismatches: 36, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
214 4 0.01
215 2 0.01
216 4 0.01
217 231 0.81
218 42 0.15
219 1 0.00
222 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (215 bp):
CTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
ATAGATTATTGTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTGGTCT
GCTCCACTACAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAAAGAGATA
AGATCTATGATTTTAATCCA
Found at i:22533644 original size:173 final size:174
Alignment explanation
Indices: 22532968--22533924 Score: 788
Period size: 173 Copynumber: 5.5 Consensus size: 174
22532958 GATTTGTTTA
* * * * *** * *
22532968 TTTAGTCTGCCCCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTGCTCCACTATAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATA-TTGCCATCTTTAGTCTGCT-CACTACAA
* * * * *
22533032 CTTCAGAGAGATAAGACTCACTTTCTTGGGTTTGCTCCACTGTAACTTCAGAGAGATAAGATCTA
64 CTTCAGGGAGATAAGACTCGCTTACTT-GGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA
* * * *
22533097 TGATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGATTATTGGC
128 -GATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
*
22533145 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATTCGCCATCTTCAGTCTGCCTCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATT-GCCATCTTTAGTCTG-CTCACTACAA
* * * * *
22533210 CTACA-GGAGGATAAGGCTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGAGAGATAAGATCTG
64 CTTCAGGGA-GATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-
* * * *
22533274 TGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGC
127 AGATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
* ** **
22533322 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTGCTCCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATA-TTGCCATCTTTAGTCTGCT-CACTACAA
* * * * * *
22533387 CTTCAGGGAGATAAGACCCG-ATGC--GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTAT
64 CTTCAGGGAGATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA-
* * *
22533448 GATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGC
128 GATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
** *
22533495 TTTAATCTGCTCCACTAAAACTTCAGGGAGATAATATTCGCCATCTTTAGTCAGCCTCACTACAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATT-GCCATCTTTAGTCTG-CTCACTACAA
* * * * *
22533560 CTTCA-GGAGGATAAGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGA-CTA
64 CTTCAGGGA-GATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA
* * * * * **
22533623 GATGTT-ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCT-GTGAT
128 GATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATTGGC
* * ** * *
22533668 TTTACTCCGCTCCACTGGGACTTCAGGGAGATAGGATTATTG---GCTTTAATCTGCTCTACTAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA--A-TATTGCCATCTTTAGTCTGCTC-ACTAC
* * *
22533730 AACTTTAGGGAGATAAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C
62 AACTTCAGGGAGATAAGACTCGCTTACTT-GGTCTGCTCCACTGCAACTTCAGAGAGATAAGATC
* ** * * * * **
22533794 TTGATG-CGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-GTGAT
126 TAGATGTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGAT-TATTGGC
** * * * *
22533841 TTTAATCCACTCTACTGCAACTTTAGGG-GATAGGATTATTG---GCTTTAATCTGCTCTACTAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA--A-TATTGCCATCTTTAGTCTGCTC-ACTAC
* *
22533902 AACTTCAGAGAGATAAGATTCGC
62 AACTTCAGGGAGATAAGACTCGC
22533925 CATCTTCAGT
Statistics
Matches: 657, Mismatches: 99, Indels: 53
0.81 0.12 0.07
Matches are distributed among these distances:
171 3 0.00
172 92 0.14
173 282 0.43
174 16 0.02
175 7 0.01
176 18 0.03
177 190 0.29
178 47 0.07
179 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAATATTGCCATCTTTAGTCTGCTCACTACAACT
TCAGGGAGATAAGACTCGCTTACTTGGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAGAT
GTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGC
Found at i:22533781 original size:350 final size:354
Alignment explanation
Indices: 22532979--22533792 Score: 1076
Period size: 350 Copynumber: 2.3 Consensus size: 354
22532969 TTAGTCTGCC
* * * * *
22532979 CCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTGCTCCACTATAACTTCAGAGAGA
1 CCACTGCAACTTCAGGGAGATAAGACTTGATTGCTTGAATCTGCTCCACTACAACTTCAGGGAGA
* *
22533043 TAAGACTCACTTTCTTGGGTTTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATC
66 TAAGACTCGCTTTCTT-GGTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATC
* **
22533108 CACTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGG
130 CACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGG
*
22533173 AGATAATATTCGCCATCTTCAGTCTGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTA
195 AGATAATATTCGCCATCTTCAGTCAGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTA
* * * *
22533238 GTCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCA
260 GTCTGCTCCACTACAACTTTAGAGAGATAAGATCTGAGATGTTAATCCGCTCCACTGCAACTTCA
** * * * *
22533303 GGGAGATAGGATTATTGGCTTTAATCTGCT
325 AAGAGATAAGATTAGTGACTTTAATCCGCT
* * **
22533333 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTTGGGTCTGCTCCACTACAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGAGATAAGACTTGATTGCTTGAATCTGCTCCACTACAACTTCAGGGAGA
* * * * *
22533398 TAAGACCCG-ATGC--GATCTGCT-CTCTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCC
66 TAAGACTCGCTTTCTTGGTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCC
* *
22533459 ACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGA
131 ACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGA
* * *
22533524 GATAATATTCGCCATCTTTAGTCAGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTGG
196 GATAATATTCGCCATCTTCAGTCAGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTAG
* * *
22533589 TCTGCTCCACTACAACTTTAGGGAGATAAGA-CT-AGATGTT-ATCTGCT-CTCTGCAACTTCAA
261 TCTGCTCCACTACAACTTTAGAGAGATAAGATCTGAGATGTTAATCCGCTCCACTGCAACTTCAA
* *
22533650 AGAGATAAGATCT-GTGATTTTACTCCGCT
326 AGAGATAAGAT-TAGTGACTTTAATCCGCT
** * * * *
22533679 CCACTGGGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAG
1 CCACTGCAACTTCAGGGAGATAAGACTTGATT-GCTTGAATCTGCTCCACTACAACTTCAGGGAG
* *
22533742 ATAAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
65 ATAAGACTCGCTTTCTT-GGTCTGCTCCACTGTAACTTCAGAGAGATAAGA
22533793 CTTGATGCGA
Statistics
Matches: 399, Mismatches: 53, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
344 2 0.01
345 37 0.09
346 55 0.14
347 7 0.02
348 5 0.01
349 9 0.02
350 210 0.53
351 6 0.02
354 18 0.05
355 50 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (354 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGATTGCTTGAATCTGCTCCACTACAACTTCAGGGAGA
TAAGACTCGCTTTCTTGGTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCC
ACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGA
GATAATATTCGCCATCTTCAGTCAGCCTCACTACAACTACAGGAGGATAAGGCTTGCTTACTTAG
TCTGCTCCACTACAACTTTAGAGAGATAAGATCTGAGATGTTAATCCGCTCCACTGCAACTTCAA
AGAGATAAGATTAGTGACTTTAATCCGCT
Found at i:22533861 original size:217 final size:213
Alignment explanation
Indices: 22533417--22534138 Score: 615
Period size: 217 Copynumber: 3.3 Consensus size: 213
22533407 ATGCGATCTG
* * * *
22533417 CTCTCTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGA
1 CTCTCTGCAACTTCAAAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
* * * **
22533482 TAGGATTATTGGCTTTAATCTGCTCCACTAAAACTTCAGGGAGATAATATTCGCCATCTTTAGTC
66 TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAA-ACTCGCTTTC-TTAGTC
* * * * * * * * * *
22533547 AGC-CTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGG
129 TGCTC-CACTGCAACTTCAGGA-GATAAGACTTG-ATGC--GATCTGCT-CTCTGCAACTTCAGA
* * **
22533611 GAGATAAGA-CT-AGATGTT-ATCTG
188 GAGATAAGATCTGTGATTTTAATCCA
* * ** *
22533634 CTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTCCACTGGGACTTCAGGGAGA
1 CTCTCTGCAACTTCAAAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
*
22533699 TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTTAGGTC
66 TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAA-ACTCGCTTTCTTA-GTC
22533764 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
129 TGCTCCACTGCAACTTCA-GGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
22533829 AAGATCTGTGATTTTAATCCA
193 AAGATCTGTGATTTTAATCCA
* * * * ** * * *
22533850 CTCTACTGCAACTT-TAGGGGATAGGAT-TATTGGCTTTAATCTGCTCTACTACAACTTCAGAGA
1 CTCT-CTGCAACTTCAAAGAGATAAGATCTA-TGATTTTAATCCGCTCCACTGCAACTTCAGAGA
* * * * * * *
22533913 GATAAGA-T-TCGCCATCTTCAGTCTGC-CTCAGTACAACTTCA-GGAGGATAAAGCTTGCTTAC
64 GATAGGATTATTGGC-T-TT-AATCTGCTCT-ACTACAACTTCAGGGA-GATAAA-CTCGCTTTC
* * *
22533974 TTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTGTGCAACTTCAG
123 TTAGTCTGCTCCACTGCAACTTC-AGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAG
22534039 AGAGATAAGATCTGTGATTTTAATCCGCA
187 AGAGATAAGATCTGTGATTTTAAT-C-CA
* ** ** * ** *
22534068 C-CACTGGGACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCA-AGGA
1 CTCTCTGCAACTTCAAAGAGATAAGATCTA-TGATTTTAATCCGCTCCACTGCAACTTCAGA-GA
*
22534130 GATAAGATT
64 GATAGGATT
22534139 CACCATTTTC
Statistics
Matches: 422, Mismatches: 63, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
213 20 0.05
214 12 0.03
215 8 0.02
216 148 0.35
217 226 0.54
218 8 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (213 bp):
CTCTCTGCAACTTCAAAGAGATAAGATCTATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGA
TAGGATTATTGGCTTTAATCTGCTCTACTACAACTTCAGGGAGATAAACTCGCTTTCTTAGTCTG
CTCCACTGCAACTTCAGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAG
ATCTGTGATTTTAATCCA
Found at i:22533996 original size:216 final size:218
Alignment explanation
Indices: 22533751--22534153 Score: 641
Period size: 216 Copynumber: 1.9 Consensus size: 218
22533741 GATAAGACTC
* * *
22533751 GCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCA
1 GCTTACTTAGGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
* * *
22533816 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGCAACTTTAGGG-GATAGGATTAT
66 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACACCACTGCAACTTCAGGGAGATAGGATTAT
* *
22533880 TGGCTTTAATCTGCTCTACTACAACTTC-AGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCAG
131 TGGCTTTAATCTGCTCCACTACAACTTCAAG-GAGATAAGATTCACCATCTTCAGTCTGCCTCAG
22533944 TACAACTTCAGGAGGATAAAGCTT
195 TACAACTTCAGGAGGATAAAGCTT
* *
22533968 GCTTACTTA-GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGATCTGCTCTGTGCA
1 GCTTACTTAGGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
* **
22534032 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCACCACTGGGACTTCAGGGAGATAGGATTAT
66 ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACACCACTGCAACTTCAGGGAGATAGGATTAT
* *
22534097 TGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCACCATTTTCAGTCT
131 TGGCTTTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATCTTCAGTCT
22534154 TTTAAATTAC
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
216 98 0.58
217 69 0.41
218 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (218 bp):
GCTTACTTAGGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
ACTTCAGAGAGATAAGATCTGTGATTTTAATCCACACCACTGCAACTTCAGGGAGATAGGATTAT
TGGCTTTAATCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATCTTCAGTCTGCCTCAGT
ACAACTTCAGGAGGATAAAGCTT
Found at i:22534034 original size:172 final size:173
Alignment explanation
Indices: 22533553--22534045 Score: 472
Period size: 172 Copynumber: 2.9 Consensus size: 173
22533543 AGTCAGCCTC
* * * *
22533553 ACTACAACTTCAG-GAGGATAAGGCTTG-CTTACTT-GGTCTGCTCCACTACAACTTTAGGGAGA
1 ACTACAACTTCAGAGA-GATAAGACTCGCCAT-CTTAGGTCTGCTCCACTACAACTTCAGGGAGA
* *** * * * * * *
22533615 TAAGACTAGATGTTATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTC
64 TAAGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATCTGAGATTGTAATCCACTC
* **
22533680 CACTGGGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
129 TACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
* * ** *
22533725 ACTACAACTTTAGGGAGATAAGACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTACAACTTCAGAGAGATAAGACTCGCCATCTTAGGTCTGCTCCACTACAACTTCAGGGAGATA
* * * *
22533790 AGACTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTA
66 AGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATCTGAGATTGTAATCCACTCTA
*
22533855 CTGCAACTTTAGGG-GATAGGATTATTGGCTTTAATCTGCTCT
131 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
* *
22533897 ACTACAACTTCAGAGAGATAAGATTCGCCATCTTCA-GTCTGC-CTCAGTACAACTTCA-GGAGG
1 ACTACAACTTCAGAGAGATAAGACTCGCCATCTT-AGGTCTGCTC-CACTACAACTTCAGGGA-G
* * *
22533959 ATAA-AGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCA-AGGAGATAAGA-CT-AGA-TGTGA
63 ATAAGA-CTTG-ATAC-GA-TCTGCT-CACTGCAACTTCAGA-GAGATAAGATCTGAGATTGTAA
** * *
22534019 TCTGCTCT-GTGCAACTTCAGAGAGATA
122 TCCACTCTACTGCAACTTCAGGGAGATA
22534046 AGATCTGTGA
Statistics
Matches: 273, Mismatches: 35, Indels: 25
0.82 0.11 0.08
Matches are distributed among these distances:
171 5 0.02
172 118 0.43
173 117 0.43
174 3 0.01
175 9 0.03
176 21 0.08
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (173 bp):
ACTACAACTTCAGAGAGATAAGACTCGCCATCTTAGGTCTGCTCCACTACAACTTCAGGGAGATA
AGACTTGATACGATCTGCTCACTGCAACTTCAGAGAGATAAGATCTGAGATTGTAATCCACTCTA
CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCT
Found at i:22534074 original size:389 final size:390
Alignment explanation
Indices: 22533239--22534136 Score: 1483
Period size: 389 Copynumber: 2.3 Consensus size: 390
22533229 GCTTACTTAG
* * *
22533239 TCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTCAG
1 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAG
*
22533304 GGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTCTT
65 GGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTT
* *
22533369 GGGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGTAACTTCAGA
130 AGGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGA
22533434 GAGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTA
195 GAGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTA
* * *
22533499 ATCTGCTCCACTAAAACTTCAGGGAGATAATATTCGCCATCTTTAGTCAGCCTCACTACAACTTC
260 ATCTGCTCCACTAAAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCAGCCTCACTACAACTTC
* * * * *
22533564 AGGAGGATAAGGCTTGCTTACTTGGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGTT
325 AGGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGTG
22533629 A
390 A
* *
22533630 TCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTGATTTTACTCCGCTCCACTGGGACTTCAGG
1 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAGG
* * *
22533695 GAGATAGGATTATTGGCTTTAATCTGCTCTACTACAACTTTAGGGAGATAAGACTCGCTTTCTTA
66 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTA
* **
22533760 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTGCTCTCTGCAACTTCAGAG
131 GGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAG
* * *
22533825 AGATAAGATCTGTGATTTTAATCCACTCTACTGCAACTTTAG-GGGATAGGATTATTGGCTTTAA
196 AGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAA
* * * *
22533889 TCTGCTCTACTACAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCAGTACAACTTCA
261 TCTGCTCCACTAAAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCAGCCTCACTACAACTTCA
*
22533954 GGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGTGA
326 GGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGTGA
* *
22534019 TCTGCTCTGTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCACCACTGGGACTTCAGG
1 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAGG
*
22534084 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
22534137 TTCACCATTT
Statistics
Matches: 469, Mismatches: 38, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
389 248 0.53
390 215 0.46
391 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (390 bp):
TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGGGACTTCAGG
GAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTA
GGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCTATGATTTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGCTTTAA
TCTGCTCCACTAAAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCAGCCTCACTACAACTTCA
GGAGGATAAAGCTTGCTTACTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTAGATGTGA
Found at i:22534576 original size:44 final size:44
Alignment explanation
Indices: 22534526--22534624 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
22534516 ATTGTTGCTT
* *
22534526 AGGGAGATAGGA-TTCATAATCTTCAACCTATTCCACTGCTGACC
1 AGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTGACC
* * * *
22534570 ATGGAGATAGAACTTACAATCTTCAACCTATTCCACTATTGTCC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACC
22534614 AGGGAGATAGG
1 AGGGAGATAGG
22534625 GCTGGGGTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGACC
Found at i:22534887 original size:88 final size:88
Alignment explanation
Indices: 22534624--22535196 Score: 677
Period size: 88 Copynumber: 6.5 Consensus size: 88
22534614 AGGGAGATAG
* * *
22534624 GGCTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACATGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
22534689 TTCACTGCAACCTAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * *
22534712 GGTTAGTGTCTTCGATTTGCTTCCCTGTCGGTGCAGGAAGGCAA-AACTTGCT-TTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC-TGCTATTTTTAACCTG
** **
22534775 CTCTGCTATAACCCAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* * * * **
22534799 GGCTGGTGTCTTCGATTTGCTTCACTGCCGGTGCACGAAAACAAGATCTG-TAATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
*
22534863 CTCCACTGCAACCTAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* *
22534887 GGCTGGTGTCTTCGATCTGCTTCGCTGCCGGTGGAGGAAGGCAAGATCTG-TAATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
**
22534951 CTCCGTTGCAACCCAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* * * * *
22534975 GGCTGGTGTCTTCGTTTTGCTTCGCTGTTGGTGCAAGAAGGCAAGATCTGATATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
** *
22535040 TCTGCTGCAACCCTGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * ** * *
22535063 GGCTAGTGTCTTCGATCTGCTTCACAGTTAGTGCAGGAAGGCAAGATCTGCTATTTTGAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
22535128 TCAACTACAACCCAGGGAGGGAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
22535151 AGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
22535197 CCTGTTATCT
Statistics
Matches: 412, Mismatches: 68, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
86 1 0.00
87 69 0.17
88 341 0.83
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:22537912 original size:40 final size:40
Alignment explanation
Indices: 22537864--22538091 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
22537854 GCAAACACAT
* * *
22537864 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22537904 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22537944 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22537984 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22538024 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22538064 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
22538092 TCCAATGCTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:22546436 original size:40 final size:40
Alignment explanation
Indices: 22546388--22546575 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
22546378 GCAAACACAT
* * *
22546388 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22546428 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
22546468 TTGCCTTCGGGTCATAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22546508 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22546548 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
22546576 TCCAATGCTC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:22549626 original size:26 final size:26
Alignment explanation
Indices: 22549572--22549632 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
22549562 AAGAAACTCC
**
22549572 AAAAGAATGAAAAAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
22549598 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
22549623 AAAATGAATG
1 AAAA-GAATG
22549633 CAAAGATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:22556260 original size:46 final size:43
Alignment explanation
Indices: 22556187--22556285 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
22556177 AATAATAACA
*
22556187 GATACACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
22556233 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAGCAACCACCTTATAATCAAT
22556277 GATACCGGT
1 GATACCGGT
22556286 TCACATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 13 0.27
45 2 0.04
46 24 0.50
47 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:22562556 original size:21 final size:21
Alignment explanation
Indices: 22562530--22562569 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22562520 TAAGAAAGAA
22562530 AGAATAAAGGCTCAAATTGGT
1 AGAATAAAGGCTCAAATTGGT
22562551 AGAATAAAGGCTCAAATTG
1 AGAATAAAGGCTCAAATTG
22562570 ATTCAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (21 bp):
AGAATAAAGGCTCAAATTGGT
Found at i:22565716 original size:41 final size:41
Alignment explanation
Indices: 22565671--22565753 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
22565661 TTATTCTCAA
22565671 TCTCATTTTCAATTTTCTTTTCTATCTCACACTCATCTTCT
1 TCTCATTTTCAATTTTCTTTTCTATCTCACACTCATCTTCT
22565712 TCTCATTTTCAATTTTCTTTTCTATCTCACACTCATCTTCT
1 TCTCATTTTCAATTTTCTTTTCTATCTCACACTCATCTTCT
22565753 T
1 T
22565754 TTTCTTTCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (41 bp):
TCTCATTTTCAATTTTCTTTTCTATCTCACACTCATCTTCT
Found at i:22565752 original size:23 final size:23
Alignment explanation
Indices: 22565685--22565755 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
22565675 ATTTTCAATT
22565685 TTCTTTTCTATCTCACACTCATC
1 TTCTTTTCTATCTCACACTCATC
* *
22565708 TTCTTCTC-ATTTTCA-A-T--T-
1 TTCTTTTCTA-TCTCACACTCATC
22565726 TTCTTTTCTATCTCACACTCATC
1 TTCTTTTCTATCTCACACTCATC
22565749 TTCTTTT
1 TTCTTTT
22565756 TCTTTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
18 11 0.30
19 3 0.08
20 1 0.03
21 1 0.03
22 3 0.08
23 18 0.49
ACGTcount: A:0.15, C:0.30, G:0.00, T:0.55
Consensus pattern (23 bp):
TTCTTTTCTATCTCACACTCATC
Found at i:22565769 original size:15 final size:16
Alignment explanation
Indices: 22565744--22565775 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
22565734 TATCTCACAC
22565744 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
22565760 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
22565775 T
1 T
22565776 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:22566667 original size:29 final size:30
Alignment explanation
Indices: 22566627--22566697 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
22566617 TTTCAATCAC
* * *
22566627 TCTTTTTTTTTTTCAATTTCG-ATTTTTTT
1 TCTTCTTTTTTTTCAATTCCGAATTTTTTG
*
22566656 TCTTCTTTTTTTTTAATTCCGAATTTTTTG
1 TCTTCTTTTTTTTCAATTCCGAATTTTTTG
*
22566686 CCTTCTTTTTTT
1 TCTTCTTTTTTT
22566698 CTTCAATACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.10, C:0.14, G:0.04, T:0.72
Consensus pattern (30 bp):
TCTTCTTTTTTTTCAATTCCGAATTTTTTG
Found at i:22566667 original size:30 final size:31
Alignment explanation
Indices: 22566627--22566704 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
22566617 TTTCAATCAC
* *
22566627 TCTT-TTTTTTTTTCAATTTCG-ATTTTTTT
1 TCTTCTTTTTTTTTCAATTCCGAATTTTTTG
22566656 TCTTCTTTTTTTTT-AATTCCGAATTTTTTG
1 TCTTCTTTTTTTTTCAATTCCGAATTTTTTG
*
22566686 CCTTCTTTTTTTCTTCAAT
1 TCTTCTTTTTTT-TTCAAT
22566705 ACTAAATACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.24
30 27 0.64
31 2 0.05
32 3 0.07
ACGTcount: A:0.12, C:0.15, G:0.04, T:0.69
Consensus pattern (31 bp):
TCTTCTTTTTTTTTCAATTCCGAATTTTTTG
Found at i:22566759 original size:12 final size:12
Alignment explanation
Indices: 22566742--22566773 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
22566732 GAATACAAAC
22566742 TTTTTTTTTGAA
1 TTTTTTTTTGAA
22566754 TTTTTTTTTGAA
1 TTTTTTTTTGAA
22566766 TTTTTTTT
1 TTTTTTTT
22566774 CAAGTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:22566769 original size:23 final size:22
Alignment explanation
Indices: 22566743--22566795 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
22566733 AATACAAACT
* *
22566743 TTTTTTTTGAA-TTTTTTTTTGAA
1 TTTTTTTTCAAGTTCTTTTTT--A
22566766 TTTTTTTTCAAGTTCTTTTTTA
1 TTTTTTTTCAAGTTCTTTTTTA
22566788 TTTTTTTT
1 TTTTTTTT
22566796 ACAATACCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 9 0.33
23 10 0.37
24 8 0.30
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (22 bp):
TTTTTTTTCAAGTTCTTTTTTA
Found at i:22568818 original size:50 final size:53
Alignment explanation
Indices: 22568743--22568871 Score: 156
Period size: 56 Copynumber: 2.4 Consensus size: 53
22568733 GGTCGTATCA
* **
22568743 TCCCAGACATGGTCTTACGGGGGACCTCTCAT-CTCGGT-A-CCAATGCCATG
1 TCCCAGACATGGTCTTACGTGGGACCTCTCATACTCAATAAGCCAATGCCATG
* * *
22568793 TCCCAGACATGGTCTTACATGGGACCTCTGATAACCTCAATAATGCCAATGTCATG
1 TCCCAGACATGGTCTTACGTGGGACCTCTCAT-A-CTCAATAA-GCCAATGCCATG
22568849 TCCCAGACATGGTCTTACGTGGG
1 TCCCAGACATGGTCTTACGTGGG
22568872 GTCTCTTCCC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
50 29 0.44
53 4 0.06
54 1 0.02
56 32 0.48
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (53 bp):
TCCCAGACATGGTCTTACGTGGGACCTCTCATACTCAATAAGCCAATGCCATG
Found at i:22571204 original size:72 final size:72
Alignment explanation
Indices: 22571071--22571204 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 72
22571061 CAAACTATAT
* * * * **
22571071 ATGATGCCATAATGTCTTCTAGCTATGGTCTTACAGAATATAACCCCGTGTTTACTGTCCCGGTA
1 ATGATGCCATAATGTCTTCCAGCTATGGTATTACACAATATAACCCCGAGTTTACCATCCCGGTA
22571136 GACTATC
66 GACTATC
* * *
22571143 ATGATGCCATAGTGTCTTCCAGTTATGGTATTACTCAATATAACCCCGAGTTTACCATCCCG
1 ATGATGCCATAATGTCTTCCAGCTATGGTATTACACAATATAACCCCGAGTTTACCATCCCG
22571205 ACGGACTACC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (72 bp):
ATGATGCCATAATGTCTTCCAGCTATGGTATTACACAATATAACCCCGAGTTTACCATCCCGGTA
GACTATC
Found at i:22581851 original size:15 final size:15
Alignment explanation
Indices: 22581826--22581864 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
22581816 TGGCTAGACC
*
22581826 ACCATCACCACCTTG
1 ACCAGCACCACCTTG
* *
22581841 AGCAGCACCACGTTG
1 ACCAGCACCACCTTG
22581856 ACCAGCACC
1 ACCAGCACC
22581865 TCTACCACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.44, G:0.15, T:0.13
Consensus pattern (15 bp):
ACCAGCACCACCTTG
Found at i:22584238 original size:15 final size:15
Alignment explanation
Indices: 22584218--22584246 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22584208 TTCACACACC
22584218 GTGTTATCAATCAAT
1 GTGTTATCAATCAAT
22584233 GTGTTATCAATCAA
1 GTGTTATCAATCAA
22584247 CAAAACACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
GTGTTATCAATCAAT
Found at i:22588834 original size:43 final size:43
Alignment explanation
Indices: 22588773--22588860 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
22588763 AAAACAACAC
22588773 CCAATTGAGAGTTTCAGCAACCTGACGAATACGCGCCATAAAA
1 CCAATTGAGAGTTTCAGCAACCTGACGAATACGCGCCATAAAA
* *
22588816 CCAATTGAGAGTTTCAGCAACCTGACGAATACGTGCCATGAAA
1 CCAATTGAGAGTTTCAGCAACCTGACGAATACGCGCCATAAAA
22588859 CC
1 CC
22588861 TTTCTCTGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (43 bp):
CCAATTGAGAGTTTCAGCAACCTGACGAATACGCGCCATAAAA
Found at i:22589811 original size:30 final size:30
Alignment explanation
Indices: 22589750--22589808 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22589740 GCTTTTTGAA
* *
22589750 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
22589780 AATATTTACAAAAAGAG-CAACCAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
22589809 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Done.