Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 24 of 199
Found at i:7081095 original size:20 final size:20
Alignment explanation
Indices: 7081072--7081143 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
7081062 TAAATAGTTT
7081072 AAAAATTATATATAAAAGAA
1 AAAAATTATATATAAAAGAA
* *
7081092 AAAAATGT-TACAATAATAGCTAA
1 AAAAAT-TATA-TATAAAAG--AA
* *
7081115 AATAAGTATATATAAAAGAA
1 AAAAATTATATATAAAAGAA
7081135 AAAAATTAT
1 AAAAATTAT
7081144 TTGTTCAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 17 0.44
21 7 0.18
22 7 0.18
23 8 0.21
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAATTATATATAAAAGAA
Found at i:7090538 original size:24 final size:24
Alignment explanation
Indices: 7090489--7090539 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
7090479 ATTTGATATT
**
7090489 TATTAGAATAAGGTGTTTCACTCC
1 TATTAGAATAAGGTGTTTCAAGCC
*
7090513 TATTAGAATATGGT-TTTACAAGCC
1 TATTAGAATAAGGTGTTT-CAAGCC
7090537 TAT
1 TAT
7090540 AAATAGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (24 bp):
TATTAGAATAAGGTGTTTCAAGCC
Found at i:7093720 original size:21 final size:22
Alignment explanation
Indices: 7093694--7093736 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7093684 CCAACAAAGA
*
7093694 AATCAATTTTATG-AATTTTAC
1 AATCAATTGTATGAAATTTTAC
7093715 AATCAATTGTATGCAAATTTTA
1 AATCAATTGTATG-AAATTTTA
7093737 TCGCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
AATCAATTGTATGAAATTTTAC
Found at i:7094435 original size:5 final size:5
Alignment explanation
Indices: 7094422--7094471 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
7094412 AGAAAATACG
* * *
7094422 TTTCC TTTCT TTTCT TTTCT TTTCT TTTCC TTTCC TTTCTT TTTCT TTTC
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC-T TTTCT TTTC
7094472 CATCAACAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTCT
Found at i:7094445 original size:15 final size:15
Alignment explanation
Indices: 7094422--7094472 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
7094412 AGAAAATACG
7094422 TTTCCTTTCTTTTCT
1 TTTCCTTTCTTTTCT
* *
7094437 TTTCTTTTCTTTTCC
1 TTTCCTTTCTTTTCT
7094452 TTTCCTTTCTTTTTCT
1 TTTCCTTTC-TTTTCT
7094468 TTTCC
1 TTTCC
7094473 ATCAACAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCCTTTCTTTTCT
Found at i:7095389 original size:16 final size:15
Alignment explanation
Indices: 7095369--7095410 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
7095359 TCGAATAAAA
*
7095369 TAAATCTTAAATAAT
1 TAAATCCTAAATAAT
*
7095384 TCAAATCCAAAATAAT
1 T-AAATCCTAAATAAT
7095400 TAAATCCTAAA
1 TAAATCCTAAA
7095411 ACTCAACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAATCCTAAATAAT
Found at i:7095733 original size:22 final size:21
Alignment explanation
Indices: 7095683--7095734 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
7095673 TATTATTATT
*
7095683 TTAAATTAATATTTTTTATAA
1 TTAAATTTATATTTTTTATAA
*
7095704 -AAATATTTATATATTTTTATAA
1 TTAA-ATTTATAT-TTTTTATAA
7095726 TTAAATTTA
1 TTAAATTTA
7095735 ACTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 7 0.28
22 14 0.56
23 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAATTTATATTTTTTATAA
Found at i:7102787 original size:15 final size:16
Alignment explanation
Indices: 7102760--7102792 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7102750 TTAAAATATA
7102760 AATTTACTATTTTAAT
1 AATTTACTATTTTAAT
*
7102776 AATTTA-TATTTTTAT
1 AATTTACTATTTTAAT
7102791 AA
1 AA
7102793 CTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTACTATTTTAAT
Found at i:7104979 original size:16 final size:16
Alignment explanation
Indices: 7104958--7104991 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7104948 ATTAGAGTCA
7104958 ATTTTGAGTTCAAGTT
1 ATTTTGAGTTCAAGTT
*
7104974 ATTTTGAGTTTAAGTT
1 ATTTTGAGTTCAAGTT
7104990 AT
1 AT
7104992 ACATGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (16 bp):
ATTTTGAGTTCAAGTT
Found at i:7108184 original size:284 final size:284
Alignment explanation
Indices: 7107853--7108371 Score: 774
Period size: 284 Copynumber: 1.8 Consensus size: 284
7107843 TGTATCAATG
*
7107853 AATTTCAACACAGGGATATAGAGATCAAAACACAAAATCTACCATATTCCAGAAATACAAAAGTC
1 AATTTCAACACAGGGATATAGAGATCAAAACACAAAATCTACCATATTCAAGAAATACAAAAGTC
* * *
7107918 AATGATCCAAACACAACAACAAAACAGCGTCAAGAACTGGGTTTTGGGTGTTGACTACAA-AAAC
66 AATGATCCAAACACAACAACAAAACAGCATCAAGAACTGGGTTTTGGGTGCTGAATACAAGAAA-
* * **
7107982 AAAAAGGATCAAATCAATGAATTTCAACTAAATGAAGAAA-AA-AAATTGAACCCATTTAAGAAA
130 AAAAAGGATCAAATCAATAAATTTCAACTAAAT-AA-AAACAATAAACTGAACCCACCTAAGAAA
* *
7108045 ATGAGGCAATCTAATTGCAAAAGTGAACAAAACTAAGAAACAATCTATGTATTGCAATCCGCACA
193 ATAAGGCAATCTAATTGCAAAAGTGAACAAAACCAAGAAACAATCTATGTATTGCAATCCGCACA
7108110 ATGGAAATGTAAATGTTTAGATTGTGA
258 ATGGAAATGTAAATGTTTAGATTGTGA
* *
7108137 AATTTCAACACAGGGATATAGTGATCAAAACACAAAATCTACCATATTCAAGAAATACACAAGTC
1 AATTTCAACACAGGGATATAGAGATCAAAACACAAAATCTACCATATTCAAGAAATACAAAAGTC
* * *
7108202 AATGATCCAAATACAACAACAAAACAGCATCAAGAATTGGGTTTTTGGTGCTGAATACAAGAAAA
66 AATGATCCAAACACAACAACAAAACAGCATCAAGAACTGGGTTTTGGGTGCTGAATACAAGAAAA
* * *** * *
7108267 ATATGGATTTTATCAATAAATTTCAGCTAAATAAAAACAATAACCTGAACCCACCTAAGAAAATA
131 AAAAGGATCAAATCAATAAATTTCAACTAAATAAAAACAATAAACTGAACCCACCTAAGAAAATA
* *
7108332 AGGCAATCTAATTGCAAAAGTGAGCAAAGCCAAGAAACAA
196 AGGCAATCTAATTGCAAAAGTGAACAAAACCAAGAAACAA
7108372 AAGAAAAAGG
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
282 3 0.01
283 4 0.02
284 198 0.95
285 3 0.01
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.22
Consensus pattern (284 bp):
AATTTCAACACAGGGATATAGAGATCAAAACACAAAATCTACCATATTCAAGAAATACAAAAGTC
AATGATCCAAACACAACAACAAAACAGCATCAAGAACTGGGTTTTGGGTGCTGAATACAAGAAAA
AAAAGGATCAAATCAATAAATTTCAACTAAATAAAAACAATAAACTGAACCCACCTAAGAAAATA
AGGCAATCTAATTGCAAAAGTGAACAAAACCAAGAAACAATCTATGTATTGCAATCCGCACAATG
GAAATGTAAATGTTTAGATTGTGA
Found at i:7112278 original size:2 final size:2
Alignment explanation
Indices: 7112271--7112297 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7112261 AATAATCAGA
7112271 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7112298 AATAGAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7113776 original size:3 final size:3
Alignment explanation
Indices: 7113768--7113819 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
7113758 TAGTTTACCC
7113768 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7113816 TTA T
1 TTA T
7113820 GGGTTTTGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7118668 original size:20 final size:20
Alignment explanation
Indices: 7118643--7118682 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7118633 CGTAAAATGA
*
7118643 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
7118663 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7118683 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7118672 original size:34 final size:35
Alignment explanation
Indices: 7118628--7118694 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7118618 CAGTAAAATA
*
7118628 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
7118662 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
7118695 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:7118698 original size:14 final size:15
Alignment explanation
Indices: 7118622--7118698 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7118612 GATTGCCAGT
* *
7118622 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
7118636 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
7118650 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
7118670 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
7118685 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
7118699 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:7124531 original size:18 final size:18
Alignment explanation
Indices: 7124508--7124542 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7124498 AATTATGTAT
7124508 TTATTCTGAGTATGATCC
1 TTATTCTGAGTATGATCC
7124526 TTATTCTGAGTATGATC
1 TTATTCTGAGTATGATC
7124543 TTGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (18 bp):
TTATTCTGAGTATGATCC
Found at i:7127738 original size:4 final size:4
Alignment explanation
Indices: 7127729--7127761 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7127719 TAATGGACAC
7127729 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
7127762 ATCAAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:7128031 original size:3 final size:3
Alignment explanation
Indices: 7128023--7128086 Score: 91
Period size: 3 Copynumber: 22.3 Consensus size: 3
7128013 AAATAGAAAT
7128023 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7128068 ATA AT- ATA ATA ATGA ATA A
1 ATA ATA ATA ATA AT-A ATA A
7128087 ATAAATATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
2 8 0.14
3 45 0.80
4 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7128035 original size:21 final size:21
Alignment explanation
Indices: 7128011--7128090 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
7128001 ATAAGTAAAT
7128011 ATAAATAGA-AATATAATAATA
1 ATAAATA-ATAATATAATAATA
7128032 AT-AATAATAATAATAATAAT-
1 ATAAATAATAAT-ATAATAATA
7128052 ATAATATAATAATATAATAAT-
1 ATAA-ATAATAATATAATAATA
7128073 AT-AATAATGAATA-AATAA
1 ATAAATAAT-AATATAATAA
7128091 ATATAAAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
19 11 0.20
20 14 0.26
21 21 0.39
22 8 0.15
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
ATAAATAATAATATAATAATA
Found at i:7128057 original size:8 final size:8
Alignment explanation
Indices: 7128020--7128080 Score: 88
Period size: 8 Copynumber: 7.4 Consensus size: 8
7128010 TATAAATAGA
7128020 AATATAAT
1 AATATAAT
7128028 AATAATAAT
1 AAT-ATAAT
7128037 AATAATAAT
1 AAT-ATAAT
7128046 AATA-ATAT
1 AATATA-AT
7128054 AATATAAT
1 AATATAAT
7128062 AATATAAT
1 AATATAAT
7128070 AATATAAT
1 AATATAAT
7128078 AAT
1 AAT
7128081 GAATAAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
7 1 0.02
8 31 0.62
9 18 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATAAT
Found at i:7128917 original size:19 final size:19
Alignment explanation
Indices: 7128895--7128933 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7128885 TTAAAGAATG
7128895 AATGAGTAAATAAATAAGA
1 AATGAGTAAATAAATAAGA
7128914 AATGAGTAAATAAATAAGA
1 AATGAGTAAATAAATAAGA
7128933 A
1 A
7128934 CGAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (19 bp):
AATGAGTAAATAAATAAGA
Found at i:7128938 original size:23 final size:22
Alignment explanation
Indices: 7128895--7128953 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 22
7128885 TTAAAGAATG
7128895 AATGAGTAAATAAAT---AAGA
1 AATGAGTAAATAAATAAGAAGA
7128914 AATGAGTAAATAAATAAGAACGA
1 AATGAGTAAATAAATAAGAA-GA
*
7128937 AATGA-AAAATAAA-AAGA
1 AATGAGTAAATAAATAAGA
7128954 CCACATTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 15 0.43
21 4 0.11
22 9 0.26
23 7 0.20
ACGTcount: A:0.66, C:0.02, G:0.15, T:0.17
Consensus pattern (22 bp):
AATGAGTAAATAAATAAGAAGA
Found at i:7141085 original size:4 final size:4
Alignment explanation
Indices: 7141076--7141101 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7141066 ATTATCAATA
7141076 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
7141102 TTTATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:7142630 original size:24 final size:25
Alignment explanation
Indices: 7142603--7142649 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
7142593 TCATTTTGTT
7142603 TTTCTTTTTAAG-TTTTTTATTTAA
1 TTTCTTTTTAAGTTTTTTTATTTAA
7142627 TTTCTTTTTAAGTTTTTTTATTT
1 TTTCTTTTTAAGTTTTTTTATTT
7142650 GTCCTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTCTTTTTAAGTTTTTTTATTTAA
Found at i:7142910 original size:23 final size:23
Alignment explanation
Indices: 7142879--7142964 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 23
7142869 TTATAATATT
*
7142879 TTTATAATATTAAAAAAATTATA
1 TTTAAAATATTAAAAAAATTATA
*
7142902 TTTAAAATAATTAAAAATA-TAT-
1 TTTAAAAT-ATTAAAAAAATTATA
* *
7142924 TTTAAAATTTTTAAAAAAATAATA
1 TTTAAAA-TATTAAAAAAATTATA
* *
7142948 TTATAAAACATTTAAAA
1 TT-TAAAATATTAAAAA
7142965 TATACAATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
22 15 0.30
23 13 0.26
24 17 0.34
25 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAAATATTAAAAAAATTATA
Found at i:7142910 original size:73 final size:76
Alignment explanation
Indices: 7142772--7142925 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 76
7142762 TGATATGATC
* * **
7142772 TTTCAAATTTATTATTTGTTTTATAATATTTTAAATGTATATTTTAAAAATTTTATATTTAAAAT
1 TTTCAAATTTATTATTTGTTTTATAATATTTT--ATATATATATTAAAAAAATTATATTTAAAAT
7142837 AATTAAAAATATA
64 AATTAAAAATATA
7142850 TTTCAAATTTATTA-TTGTTTTATAATATTTT-TATA-ATATTAAAAAAATTATATTTAAAATAA
1 TTTCAAATTTATTATTTGTTTTATAATATTTTATATATATATTAAAAAAATTATATTTAAAATAA
7142912 TTAAAAATATA
66 TTAAAAATATA
7142923 TTT
1 TTT
7142926 TAAAATTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
73 38 0.53
74 3 0.04
77 17 0.24
78 14 0.19
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (76 bp):
TTTCAAATTTATTATTTGTTTTATAATATTTTATATATATATTAAAAAAATTATATTTAAAATAA
TTAAAAATATA
Found at i:7142922 original size:21 final size:23
Alignment explanation
Indices: 7142892--7142940 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
7142882 ATAATATTAA
7142892 AAAAATTATA-TTTAAAATAATT
1 AAAAATTATATTTTAAAATAATT
**
7142914 AAAAA-TATATTTTAAAATTTTT
1 AAAAATTATATTTTAAAATAATT
7142936 AAAAA
1 AAAAA
7142941 AATAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAATTATATTTTAAAATAATT
Found at i:7142927 original size:22 final size:21
Alignment explanation
Indices: 7142873--7142968 Score: 68
Period size: 24 Copynumber: 4.3 Consensus size: 21
7142863 ATTGTTTTAT
*
7142873 AATAT-TTTTATAATATTAAA
1 AATATATTTTAAAATATTAAA
*
7142893 AAAATTATATTTAAAATAATTAAA
1 AATA-TAT-TTTAAAAT-ATTAAA
*
7142917 AATATATTTTAAAATTTTTAAAAA
1 AATATATTTTAAAA-TATT--AAA
* * *
7142941 AATAATATTATAAAACATTTAA
1 AAT-ATATTTTAAAATATTAAA
7142963 AATATA
1 AATATA
7142969 CAATTCAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
20 3 0.05
21 4 0.07
22 15 0.25
23 11 0.18
24 17 0.28
25 10 0.17
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATATTTTAAAATATTAAA
Found at i:7143057 original size:31 final size:32
Alignment explanation
Indices: 7143008--7143067 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
7142998 ACAAATAAAT
*
7143008 AAAATAAATAAAG-GAAAAA-TTAAAAAATTA
1 AAAATAAATAAAGAAAAAAACTTAAAAAATTA
*
7143038 AAAAGTAAATAAATAAAAAAACTTAAAAAA
1 AAAA-TAAATAAAGAAAAAAACTTAAAAAA
7143068 AAACAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 5 0.20
33 8 0.32
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (32 bp):
AAAATAAATAAAGAAAAAAACTTAAAAAATTA
Found at i:7149962 original size:40 final size:40
Alignment explanation
Indices: 7149909--7150007 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 40
7149899 AACACACCAG
* *
7149909 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
* * * *
7149949 TTTGACACGCAGTGTCTCATCGGCTAAATCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
* *
7149987 TTAG-CACCCAATGCCTCATCG
1 TTTGACACCCAGTGCCTCATCG
7150008 AATTAATCCG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 14 0.29
38 5 0.10
39 1 0.02
40 29 0.59
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
Found at i:7151010 original size:40 final size:41
Alignment explanation
Indices: 7150954--7151030 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
7150944 TTTATTACTT
*
7150954 ATTTTATTATTATAATATA-ATACATATACTTAAACATTAAG
1 ATTTTATTATTATAATATATATA-ATAAACTTAAACATTAAG
*
7150995 ATTTTA-TATTATAATATATATAATAAACTTACACAT
1 ATTTTATTATTATAATATATATAATAAACTTAAACAT
7151031 ATTTTAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 24 0.73
41 9 0.27
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (41 bp):
ATTTTATTATTATAATATATATAATAAACTTAAACATTAAG
Found at i:7152932 original size:14 final size:14
Alignment explanation
Indices: 7152913--7152942 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7152903 CAGACTTCGC
7152913 TCCTACAAACACTA
1 TCCTACAAACACTA
7152927 TCCTACAAACACTA
1 TCCTACAAACACTA
7152941 TC
1 TC
7152943 TCAAACTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TCCTACAAACACTA
Found at i:7163665 original size:16 final size:16
Alignment explanation
Indices: 7163639--7163681 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7163629 AAAAAAATAT
**
7163639 ACAAACAAAAGATGGAA
1 ACAAAC-AAAGAAAGAA
7163656 ACAAACAAAGAAAGAA
1 ACAAACAAAGAAAGAA
*
7163672 ACAAAAAAAG
1 ACAAACAAAG
7163682 GTACAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.72, C:0.12, G:0.14, T:0.02
Consensus pattern (16 bp):
ACAAACAAAGAAAGAA
Found at i:7165348 original size:32 final size:32
Alignment explanation
Indices: 7165312--7165416 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
7165302 CATTAATGAT
*
7165312 AATTTTCAAAAGATTTAAGAGAATTTAATTAA
1 AATTTTCAAAAGATTTAAGAGAATATAATTAA
** * *
7165344 AATTTTCAAAAGAAATAAAAG-ATATAATGAA
1 AATTTTCAAAAGATTTAAGAGAATATAATTAA
* **
7165375 ATTTTTCAAAA-ATTT--GAGCAACCTAATTAA
1 AATTTTCAAAAGATTTAAGAG-AATATAATTAA
7165405 AATTTTCTAAAA
1 AATTTTC-AAAA
7165417 ACTTTAAAGG
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
28 2 0.04
30 15 0.26
31 22 0.39
32 18 0.32
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (32 bp):
AATTTTCAAAAGATTTAAGAGAATATAATTAA
Found at i:7165384 original size:31 final size:31
Alignment explanation
Indices: 7165305--7165385 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
7165295 TTTTTAACAT
** * *
7165305 TAATGATAATTTTCAAAAGATTTAAGAGAATT
1 TAATGA-AATTTTCAAAAGAAATAAAAGAATA
*
7165337 TAATTAAAATTTTCAAAAGAAATAAAAG-ATA
1 TAA-TGAAATTTTCAAAAGAAATAAAAGAATA
7165368 TAATGAAATTTTTCAAAA
1 TAATGAAA-TTTTCAAAA
7165386 ATTTGAGCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
30 4 0.10
31 14 0.34
32 21 0.51
33 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (31 bp):
TAATGAAATTTTCAAAAGAAATAAAAGAATA
Found at i:7165461 original size:18 final size:17
Alignment explanation
Indices: 7165434--7165468 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
7165424 AGGAGAAATG
7165434 AAAATTTCTAAAAATTT
1 AAAATTTCTAAAAATTT
7165451 AAAATTTTCTAAAAATTT
1 AAAA-TTTCTAAAAATTT
7165469 CAAGAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTTCTAAAAATTT
Found at i:7167459 original size:127 final size:127
Alignment explanation
Indices: 7167174--7167870 Score: 1066
Period size: 127 Copynumber: 5.5 Consensus size: 127
7167164 GATAAAATCA
* * * * * *
7167174 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGTGCCCACGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
7167238 TAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TATAAAAAACGCTTC
65 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAACGCTTC
* * *
7167299 AAGCAGGATGCT-TTATGAGAAGAATTTTTGAAATCGCGCCCTTGTGGACGTGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
7167363 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAATGCTTC
65 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAACGCTTC
* *
7167426 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCACTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
7167491 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTT
66 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAACGCTTC
* *
7167553 AAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTAGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
7167618 AGGTCCTGGAAGAAATAATTTCAAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACCACTTC
66 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAACGCTTC
* *
7167680 AAGCAGGATGCTATTAGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
7167745 AGGTCCTGGAA-AAATAATTTCGAGTTAACGTTTCTGAGCAAATAG-T-ATAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAACGCTTC
* * **
7167804 TAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCAAGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
7167869 AG
66 AG
7167871 CATGTTTGGG
Statistics
Matches: 528, Mismatches: 41, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
124 71 0.13
125 69 0.13
126 66 0.12
127 320 0.61
128 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (127 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAAACGCTTC
Found at i:7171084 original size:21 final size:21
Alignment explanation
Indices: 7171032--7171136 Score: 158
Period size: 21 Copynumber: 5.0 Consensus size: 21
7171022 TCAAATTATA
7171032 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
7171053 TTT-ATTTAAGGGTTACGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
7171073 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
7171095 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
7171116 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
7171137 AGGGTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 17 0.23
21 39 0.53
22 18 0.24
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:7171110 original size:43 final size:41
Alignment explanation
Indices: 7171035--7171136 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 41
7171025 AATTATATTT
7171035 AAGTTAAGGGTTAGGGTTTTTATTTAAGGGTTACGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTATTTAAGGGTTACGGTTTTA
* *
7171076 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTT
1 AAGTTAAGGG-TTAGGGTTTTT-ATTTAAGGGTTACGGTTTTA
7171119 AAGTTAAGGGTTAGGGTT
1 AAGTTAAGGGTTAGGGTT
7171137 AGGGTTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
41 10 0.18
42 19 0.33
43 28 0.49
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (41 bp):
AAGTTAAGGGTTAGGGTTTTTATTTAAGGGTTACGGTTTTA
Found at i:7171128 original size:15 final size:15
Alignment explanation
Indices: 7171106--7171158 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
7171096 TTAATTTAAG
7171106 GGTT-AGGGTTTTTA
1 GGTTAAGGGTTTTTA
*
7171120 AGTTAAGGG---TTA
1 GGTTAAGGGTTTTTA
7171132 GGGTT-AGGGTTTTTA
1 -GGTTAAGGGTTTTTA
7171147 GGTTAAGGGTTT
1 GGTTAAGGGTTT
7171159 AATGTTTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 7 0.23
15 14 0.45
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (15 bp):
GGTTAAGGGTTTTTA
Found at i:7171137 original size:27 final size:27
Alignment explanation
Indices: 7171104--7171157 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
7171094 TTTTAATTTA
7171104 AGGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTTTTAAGTTAAGGGTT
*
7171131 AGGGTTAGGGTTTTTAGGTTAAGGGTT
1 AGGGTTAGGGTTTTTAAGTTAAGGGTT
7171158 TAATGTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (27 bp):
AGGGTTAGGGTTTTTAAGTTAAGGGTT
Found at i:7172408 original size:7 final size:7
Alignment explanation
Indices: 7172398--7172423 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7172388 TTATATACAT
7172398 AATACTA
1 AATACTA
7172405 AATACTA
1 AATACTA
7172412 AATACTA
1 AATACTA
7172419 AATAC
1 AATAC
7172424 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:7172629 original size:20 final size:20
Alignment explanation
Indices: 7172592--7172629 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7172582 TTTATTTTTA
*
7172592 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
7172612 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
7172630 TACCTCGTTA
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:7173619 original size:50 final size:51
Alignment explanation
Indices: 7173565--7173663 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
7173555 AATTATTTAA
7173565 AAATAGGGATTTAAGAGAAATTTAAG-AGGAACTTGAGAG-AAATTGAGATT
1 AAATAGGGATTTAAGAG-AATTTAAGAAGGAACTTGAGAGCAAATTGAGATT
* * ** *
7173615 AAATATGGATTTGAGAGAATTTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAATTTAAGAAGGAACTTGAGAGCAAATTGAGA
7173664 GGAAATTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 6 0.14
50 27 0.64
51 9 0.21
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAATTTAAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:7173659 original size:12 final size:12
Alignment explanation
Indices: 7173623--7173698 Score: 74
Period size: 11 Copynumber: 6.8 Consensus size: 12
7173613 TTAAATATGG
7173623 ATTTGAGA-GAA
1 ATTTGAGAGGAA
*
7173634 TTTTG-GAAGG-A
1 ATTTGAG-AGGAA
*
7173645 ATTTGAGAGCAA
1 ATTTGAGAGGAA
7173657 A-TTGAGAGGAA
1 ATTTGAGAGGAA
7173668 ATTT-AGA-GAA
1 ATTTGAGAGGAA
*
7173678 AATTGAGAGGAA
1 ATTTGAGAGGAA
7173690 ATTTGAGAG
1 ATTTGAGAG
7173699 AGGATTAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
10 7 0.13
11 28 0.54
12 17 0.33
ACGTcount: A:0.42, C:0.01, G:0.30, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:7173666 original size:22 final size:23
Alignment explanation
Indices: 7173623--7173699 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
7173613 TTAAATATGG
**
7173623 ATTTGAGAGAATTTTG-GAAGG-A
1 ATTTGAGAGAAAATTGAG-AGGAA
*
7173645 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAGAAAATTGAGAGGAA
7173668 ATTT-AGAGAAAATTGAGAGGAA
1 ATTTGAGAGAAAATTGAGAGGAA
7173690 ATTTGAGAGA
1 ATTTGAGAGA
7173700 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 37 0.77
23 11 0.23
ACGTcount: A:0.43, C:0.01, G:0.30, T:0.26
Consensus pattern (23 bp):
ATTTGAGAGAAAATTGAGAGGAA
Found at i:7177008 original size:7 final size:7
Alignment explanation
Indices: 7176996--7177030 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
7176986 CCACAACTGA
7176996 TACTAAC
1 TACTAAC
7177003 TACTAAC
1 TACTAAC
7177010 TACTAAC
1 TACTAAC
7177017 TACTAAC
1 TACTAAC
7177024 TACTAAC
1 TACTAAC
7177031 AGATACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
TACTAAC
Found at i:7183081 original size:7 final size:7
Alignment explanation
Indices: 7183069--7183096 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7183059 CCACAACTGA
7183069 TACTAAC
1 TACTAAC
7183076 TACTAAC
1 TACTAAC
7183083 TACTAAC
1 TACTAAC
7183090 TACTAAC
1 TACTAAC
7183097 AGACACTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
TACTAAC
Found at i:7185168 original size:4 final size:4
Alignment explanation
Indices: 7185135--7185182 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
7185125 TTTATTATTG
*
7185135 TTAT TT-T TTAT TCTA- TTAT TTA- TTAC TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
7185181 TT
1 TT
7185183 TTACTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
3 8 0.21
4 29 0.74
5 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:7185212 original size:3 final size:3
Alignment explanation
Indices: 7185201--7185280 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
7185191 AAAAAATTAG
* * * * * *
7185201 ATT ATTT ATT ATT ATT ACT ATTT ATT ATT GTT GTT GTT TTT ATT AGT
1 ATT A-TT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* *
7185248 ATT ATT ATC ATT ATC ATT -TT CATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
7185281 CTATTATGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
2 2 0.03
3 53 0.85
4 7 0.11
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:7195782 original size:45 final size:44
Alignment explanation
Indices: 7195714--7196918 Score: 867
Period size: 45 Copynumber: 26.9 Consensus size: 44
7195704 TAATCGTGGT
** *
7195714 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCATTTTGAAGATAGC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* * *
7195759 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* *
7195803 AAA-CTTTATCTCTCTGAAGTTGCAATGGAGCAGGTTAAAGATATC
1 AAATC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* * **
7195848 AAATCTTATCTC-CTTGAAGTTGCAGTGAAGCATATTAAAGCGAC
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * * *
7195892 AAATCCTATAC-CTCTGAAGTTACAATGG-GTCGGATTAAATCAAGTTAC
1 AAATCTTAT-CTCTCTGAAGTTGCAGTGGAG-CAGATT--A--AAGATAC
* * * * ** *
7195940 AAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATT-GAGCCAT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * *
7195983 AAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAAATAGA
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
** * **
7196028 AAATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATTAAACCTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * * * *
7196072 AAATCTTATTTCTCTGAAGTTGCAGTAGAACAAATTCAAGTTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* *
7196116 AAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATAAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAGAT-AC
* * *
7196161 AAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * ** * * *
7196205 AAACCTTTATCTCCCTGAAGTTTTAGTGGAGTAGGTTAAAGCTAC
1 AAATC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * *
7196250 AAATCTTATCTC-CTTGAAGTTGTAGTGGAGCAGATTGAGGATAAC
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGAT-AC
* * * * *
7196295 AAAAT-TTCTTTCTCTAAAGTTGCAGTGGAGCAGATTGAAGATAGG
1 -AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* * * *
7196340 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTAT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
** * * * * **
7196384 AGGTTTTTATCTCTTTGAAGTTGCAATGGAGTAGATTAAAGCCAC
1 A-AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * * * *
7196429 AAATATTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAGGATAAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGAT-AC
* * *
7196474 AAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAA-ATAAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAGAT-AC
* ** *
7196519 AAATCTTATCTCTTTGAAGTTGCAGTTAAGCAGATTAAAGCTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * * *
7196563 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAAATGAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGAT-AC
* * *
7196608 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
* ** * *
7196652 AAAACTTATCTCTCT-AGAGTTGCAGCAGAGCATG-TCAAA-ACCAC
1 AAATCTTATCTCTCTGA-AGTTGCAGTGGAGCA-GATTAAAGA-TAC
* * * * *
7196696 AAATCTTATCTC-CTTGAAGTTACAGTGGAGCAAATTGAATATGC
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGATAC
* * * * * **
7196740 GAATCTTATTTCCCTGAAGTTACAATGGAAAAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAG-----A--TAC
* * *
7196791 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-C
* * * * *
7196836 AAATCTTATATCTCT-AAATATGTAGTGGAGCAGATTGAATATGA-
1 AAATCTTATCTCTCTGAAGT-TGCAGTGGAGCAGATTAAAGAT-AC
* * * *
7196880 GAATCTTATTTC-CTTAAAGTTGCAGTGGAACAGATTAAA
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAA
7196919 ACTACAAGTT
Statistics
Matches: 921, Mismatches: 189, Indels: 101
0.76 0.16 0.08
Matches are distributed among these distances:
43 42 0.05
44 368 0.40
45 432 0.47
46 10 0.01
47 1 0.00
48 30 0.03
49 2 0.00
51 36 0.04
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATAC
Found at i:7195834 original size:89 final size:88
Alignment explanation
Indices: 7195714--7196918 Score: 892
Period size: 89 Copynumber: 13.4 Consensus size: 88
7195704 TAATCGTGGT
** * * *
7195714 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCATTTTGAAGATAGCAAACCTTATCTCTCTGAAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGT
*
7195779 TGCAGTAGAGCAGATTAAAGCTAC
65 TGCAGTGGAGCAGATTAAAGCTAC
* * *
7195803 AAA-CTTTATCTCTCTGAAGTTGCAATGGAGCAGGTTAAAGATATCAAATCTTATCTCCTTGAAG
1 AAATC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAG
* * *
7195867 TTGCAGTGAAGCATATTAAAGCGAC
64 TTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
7195892 AAATCCTATAC-CTCTGAAGTTACAATGG-GTCGGATTAAATCAAGTTACAAATCTTATCTCCCT
1 AAATCTTAT-CTCTCTGAAGTTGCAGTGGAG-CAGATT--A--AAGATACAAATCTTATCTCCCT
* * * * *
7195955 GAAGTTGCAGTGCAGTAGATT-GAGCCAT
60 GAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
7195983 AAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAAATAGAAAATCTTATCTCTCTGAAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGT
** * *
7196048 TGCAGTAAAGTAGATTAAACCTAC
65 TGCAGTGGAGCAGATTAAAGCTAC
* * * * * * *
7196072 AAATCTTATTTCTCTGAAGTTGCAGTAGAACAAATTCAAGTTACAAATATTATCTCCCTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTT
*
7196137 GCAGTGGAGCAGATTGAAA-ATAAC
66 GCAGTGGAGCAGATT-AAAGCT-AC
* * * *
7196161 AAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTACAAACCTTTATCTCCCTGAAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATC-TTATCTCCCTGAAGT
** * *
7196226 TTTAGTGGAGTAGGTTAAAGCTAC
65 TGCAGTGGAGCAGATTAAAGCTAC
* * * * * * *
7196250 AAATCTTATCTC-CTTGAAGTTGTAGTGGAGCAGATTGAGGATAACAAAAT-TTCTTTCTCTAAA
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGAT-AC-AAATCTTATCTCCCTGAA
* * *
7196313 GTTGCAGTGGAGCAGATTGAAGATAGG
63 GTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * ** * **
7196340 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAGGTTTTTATCTCTTTGAAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACA-AATCTTATCTCCCTGAAGT
* * *
7196405 TGCAATGGAGTAGATTAAAGCCAC
65 TGCAGTGGAGCAGATTAAAGCTAC
* * * * * * * *
7196429 AAATATTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAGGATAACAAATTTTATCTCCCTAAAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGAT-ACAAATCTTATCTCCCTGAAGT
*
7196494 TGCAGTGGAGCAGATTGAAA-ATAAC
65 TGCAGTGGAGCAGATT-AAAGCT-AC
* ** * * *
7196519 AAATCTTATCTCTTTGAAGTTGCAGTTAAGCAGATTAAAGCTACAAACCTTATCTCCCTAAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTT
* **
7196584 GCAGTGGAGCAAATTAAAAATGAC
66 GCAGTGGAGCAGATTAAAGCT-AC
* * * * *
7196608 AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAAACTTATCTCTCT-AGAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGA-AGT
** * * *
7196672 TGCAGCAGAGCATG-TCAAAACCAC
65 TGCAGTGGAGCA-GATTAAAGCTAC
* * * * * * *
7196696 AAATCTTATCTC-CTTGAAGTTACAGTGGAGCAAATTGAATATGCGAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGT
* * **
7196760 TACAATGGAAAAGATTAAAGCTACAAGTTAC
65 TGCAGTGGAGCAGATTAAAG---C----TAC
* * * * * *
7196791 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATATCTCT-AAAT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CAAATCTTATCTCCCTGAAGT
* * *
7196855 ATGTAGTGGAGCAGATTGAA--TATG
65 -TGCAGTGGAGCAGATTAAAGCTA-C
* * *
7196879 AGAATCTTATTTC-CTTAAAGTTGCAGTGGAACAGATTAAA
1 A-AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAA
7196919 ACTACAAGTT
Statistics
Matches: 882, Mismatches: 189, Indels: 90
0.76 0.16 0.08
Matches are distributed among these distances:
87 8 0.01
88 135 0.15
89 459 0.52
90 135 0.15
91 36 0.04
92 34 0.04
93 5 0.01
95 43 0.05
96 27 0.03
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (88 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGATACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCTAC
Found at i:7196294 original size:134 final size:133
Alignment explanation
Indices: 7195714--7196925 Score: 853
Period size: 134 Copynumber: 9.0 Consensus size: 133
7195704 TAATCGTGGT
** * * *
7195714 AAATCTTATCT-CTCTGAAGTTGCAGTGGAGCATTTTGAAGATAGCAAACCTTATCTCTCTGAAG
1 AAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGATAACAAATCTTATCTCTCTGAAG
* * *
7195778 TTGCAGTAGAGCAGATTAAAGCTACAAA-CTTTATCTCTCTGAAGTTGCAATGGAGCAGGTTAAA
65 TTGCAGTAGAGCAGATTAAAGATACAAATC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
*
7195842 GATATC
129 GCTA-C
* * ** *
7195848 AAATCTTATCTCCTTGAAGTTGCAGTGAAGCATATTAAAG-CGACAAATCCTATAC-CTCTGAAG
1 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAATCTTAT-CTCTCTGAAG
* * * * * * * *
7195911 TTACAAT-GGGTCGGATTAAATCAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGAT
65 TTGCAGTAGAG-CAGATT--A--AAGATACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * *
7195975 T-GAGCCAT
125 TAAAGCTAC
* * *
7195983 AAATCTTATCT-CTCTGAAGTTGTAGTGGAGTAGATTAAAAATAGA-AAATCTTATCTCTCTGAA
1 AAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGATA-ACAAATCTTATCTCTCTGAA
* * ** * * * * *
7196046 GTTGCAGTAAAGTAGATTAAACCTACAAATCTTATTTCTCTGAAGTTGCAGTAGAACAAATTCAA
64 GTTGCAGTAGAGCAGATTAAAGATACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
*
7196111 GTTAC
129 GCTAC
* *
7196116 AAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATAACAAATCTTATCTCTCTGAAG
1 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAGATAACAAATCTTATCTCTCTGAAG
* * * * ** * *
7196180 TTACAGTAGAGCAGATTAAAGCTACAAACCTTTATCTCCCTGAAGTTTTAGTGGAGTAGGTTAAA
65 TTGCAGTAGAGCAGATTAAAGATACAAATC-TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
7196245 GCTAC
129 GCTAC
* * * * * *
7196250 AAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAGGATAACAAAAT-TTCTTTCTCTAAAG
1 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGATAAC-AAATCTTATCTCTCTGAAG
* * * * *
7196314 TTGCAGTGGAGCAGATTGAAGATAGGAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
65 TTGCAGTAGAGCAGATTAAAGATA-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
*
7196379 GCTAT
129 GCTAC
** * * * * ** * * *
7196384 AGGTTTTTATCTCTTTGAAGTTGCAATGGAGTAGATTAAAG-CCACAAATATTATCTCCCTAAAG
1 A-AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAATCTTATCTCTCTGAAG
* * * * * * *
7196448 TTGTAGTGGAGCAGATTGAGGATAACAAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
65 TTGCAGTAGAGCAGATTAAAGAT-ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA
*
7196513 A-ATAAC
128 AGCT-AC
* ** * * * *
7196519 AAATCTTATCTCTTTGAAGTTGCAGTTAAGCAGATTAAAGCT-ACAAACCTTATCTCCCTAAAGT
1 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAATCTTATCTCTCTGAAGT
* * * * *
7196583 TGCAGTGGAGCAAATTAAAAATGACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAG
66 TGCAGTAGAGCAGATTAAAGAT-ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAG
7196648 CTAC
130 CTAC
* * ** * **
7196652 AAAACTTATCTCTCTAG-AGTTGCAGCAGAGCATG-TCAAA-ACCACAAATCTTATCTC-CTTGA
1 AAATCTTATCTC-CTTGAAGTTGCAGTGGAGCA-GATTAAAGATAACAAATCTTATCTCTC-TGA
* * * * * * * * * * * **
7196713 AGTTACAGTGGAGCAAATTGAATATGCGAATCTTATTTCCCTGAAGTTACAATGGAAAAGATTAA
63 AGTTGCAGTAGAGCAGATTAAAGATACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAA
7196778 AGCTACAAGTTAC
128 AG---C----TAC
* * * * * *
7196791 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATATCTCT-AAAT
1 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAATCTTATCTCTCTGAAGT
* * * * * * * *
7196855 ATGTAGTGGAGCAGATTGAATATGA-GAATCTTATTTC-CTTAAAGTTGCAGTGGAACAGATTAA
66 -TGCAGTAGAGCAGATTAAAGAT-ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAA
*
7196918 AACTAC
128 AGCTAC
7196924 AA
1 AA
7196926 GTTACAAATC
Statistics
Matches: 852, Mismatches: 180, Indels: 93
0.76 0.16 0.08
Matches are distributed among these distances:
132 71 0.08
133 185 0.22
134 345 0.40
135 81 0.10
136 28 0.03
137 38 0.04
138 4 0.00
139 33 0.04
140 66 0.08
141 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (133 bp):
AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGATAACAAATCTTATCTCTCTGAAGT
TGCAGTAGAGCAGATTAAAGATACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGC
TAC
Found at i:7196368 original size:179 final size:179
Alignment explanation
Indices: 7195714--7196925 Score: 762
Period size: 179 Copynumber: 6.8 Consensus size: 179
7195704 TAATCGTGGT
* ** * * * * *
7195714 AAATCTTATCT-CTCTGAAGTTGCAGTGGAGCATTTTGAAGATAGCAAACCTTATC-TCTCTGAA
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAA-ATT-TCTTCCCTAAA
* * * * *
7195777 GTTGCAGTAGAGCAGATT-AAAGCT-ACAAA-CTTTATCTCTCTGAAGTTGCAATGGAGCAGGTT
64 GTTGCAGTGGAGCAGATTGAAA-ATAACAAATC-TTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* * * * * * *
7195839 AAAGATATCAAATC-TTATCTCCTTGAAGTTGCAGTGAAGCATATTAAAGCGAC
127 AAAGCTA-CAAACCTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * * * * * * * *
7195892 AAATCCTAT-ACCTCTGAAGTTACAAT-GGGTCGGATT-A-AATCAAGTTACAAATCTTATCTCC
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAG-CAGATTGAGGAT-AA--CA-AAAT-TTCT-TCC
* * * ** * * *
7195953 CTGAAGTTGCAGTGCAGTAGATTGAGCCAT---AAATCTTATCTCTCTGAAGTTGTAGTGGAGTA
59 CTAAAGTTGCAGTGGAGCAGATTGA-AAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCA
** * * * ** *
7196015 GATTAAAAATAGAAA-ATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATTAAACCTAC
123 GATTAAAGCTACAAACCT-TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * * * * * *
7196072 AAATCTTAT-TTCTCTGAAGTTGCAGTAGAACAAATTCAAG-TTACAAATATTATC-TCCCTGAA
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAA-ATT-TCTTCCCTAAA
*
7196134 GTTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAA
64 GTTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAA
** *
7196199 AGCTACAAACCTTTATCTCCCTGAAGTTTTAGTGGAGTAGGTTAAAGCTAC
129 AGCTACAAACCTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * *
7196250 AAATCTTATCTCCT-TGAAGTTGTAGTGGAGCAGATTGAGGATAACAAAATTTCTTTCTCTAAAG
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAAATTTC-TTCCCTAAAG
* ** *
7196314 TTGCAGTGGAGCAGATTGAAGATAGGAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAA
65 TTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
* **** ** * *
7196379 GCTATAGGTTTTTATCTCTTTGAAGTTGCAATGGAGTAGATTAAAGCCAC
130 GCTACAAACCTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAC
* * * * * *
7196429 AAATATTATCTCC-CTAAAGTTGTAGTGGAGCAGATTGAGGATAACAAATTTTATCTCCCTAAAG
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAAATTTCT-TCCCTAAAG
*
7196493 TTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTTTGAAGTTGCAGTTA-AGCAGATTAA
65 TTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAG-TAGAGCAGATTAA
* * * **
7196557 AGCTACAAACC-TTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAAATGAC
129 AGCTACAAACCTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT-AC
* * * * * *
7196608 AAATCTTATCT-CTCTGAAGTTGCAGTAGAGTAGATTAAAGCT-ACAAAACTTATC-TCTCTAGA
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAAA-TT-TCTTCCCTAAA
** * ** * * *
7196670 GTTGCAGCAGAGC--ATGTCAAAACCACAAATCTTATCTC-CTTGAAGTTACAGTGGAGCAAATT
64 GTTGCAGTGGAGCAGAT-TGAAAATAACAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATT
* ** * * * * * * **
7196732 GAATATGCGAATC-TTATTTCCCTGAAGTTACAATGGAAAAGATTAAAGCTACAAGTTAC
127 AAAGCTACAAACCTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG---C----TAC
* * * * * *
7196791 AAATCTTATCTCC-CTGAAGTTACAGTGGAGCAGATTGAAGATAGC-AAATCTTATATCTCTAAA
1 AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAAAT-TTCT-TCCCTAAA
* * * * * * * *
7196854 -TATGTAGTGGAGCAGATTGAATATGA-GAATCTTATTTC-CTTAAAGTTGCAGTGGAACAGATT
64 GT-TGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATT
*
7196916 AAAACTACAA
127 AAAGCTACAA
7196926 GTTACAAATC
Statistics
Matches: 803, Mismatches: 179, Indels: 98
0.74 0.17 0.09
Matches are distributed among these distances:
175 2 0.00
176 31 0.04
177 79 0.10
178 184 0.23
179 275 0.34
180 100 0.12
181 26 0.03
182 4 0.00
183 42 0.05
184 53 0.07
185 5 0.01
186 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (179 bp):
AAATCTTATCTCCTCTGAAGTTGCAGTAGAGCAGATTGAGGATAACAAAATTTCTTCCCTAAAGT
TGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAG
CTACAAACCTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTAC
Found at i:7196405 original size:313 final size:309
Alignment explanation
Indices: 7195714--7196727 Score: 969
Period size: 313 Copynumber: 3.2 Consensus size: 309
7195704 TAATCGTGGT
* * ** * ** *
7195714 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCATTTTGAAGATAGCAAACCTTATCTCTCTGAAGT
1 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAACCTA-CAAATCTTATCTCTCTGAAGT
* * *
7195779 TGCAGTAGAGCAGATTAAAGCTACAAACT-TTATCTCTCTGAAGTTGCAATGGAGCAGGTT-AAA
65 TGCAGTAGAGCAGATTAAAGCTACAAA-TATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
* * * *
7195842 GATATCAAATCTTATCTCCTTGAAGTTGCAGTGAAGCATATTAAAGCGACAAATCCTATA-C-CT
129 -ATAACAAATCTTATCTCC-TGAAGTTGCAGTG-AGCAGATTAAAGCTACAAA-CCTTTATCTCT
* * * *
7195905 CTGAAGTTACAATGG-GTCGGATTAAATCAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGCA
190 CTGAAGTTACAGTGGAGTAGG-TT--A--AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * *
7195969 GTAGATTGAG--CCATAAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAAATAGA
250 GCAGATTGAGATACA-AAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGATAGA
* * * *
7196028 AAATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATTAAACCTACAAATCTTATTTCTCTGAAGTT
1 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAACCTACAAATCTTATCTCTCTGAAGTT
* * * *
7196093 GCAGTAGAACAAATTCAAGTTACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAT
66 GCAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAT
* *
7196158 AACAAATCTTATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTACAAACCTTTATCTCCCTGA
131 AACAAATCTTATCTC-CTGAAGTTGCAGT-GAGCAGATTAAAGCTACAAACCTTTATCTCTCTGA
** * *
7196223 AGTTTTAGTGGAGTAGGTTAAAGCTACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGA
194 AGTTACAGTGGAGTAGGTTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * * * *
7196288 GGATAACAAAAT-TTCTTTCTCTAAAGTTGCAGTGGAGCAGATTGAAGATAGG
259 -GAT-ACAAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGATAGA
* * ** * *
7196340 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAGGTTTTTATCTCTTTGAAGT
1 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAACCTACA-AATCTTATCTCTCTGAAGT
* * * * * * **
7196405 TGCAATGGAGTAGATTAAAGCCACAAATATTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAGGA
65 TGCAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAA
* * * * *
7196470 TAACAAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAA-ATAACAAATC-TTATCTCTT
130 TAACAAATCTTATCT-CCTGAAGTTGCAGT-GAGCAGATT-AAAGCT-ACAAACCTTTATCTCTC
* ** * * * * *
7196533 TGAAGTTGCAGTTAAGCAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAAT
191 TGAAGTTACAGTGGAGTAGGTTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
7196598 TAAAAATGAC-AAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACA
256 T-GAGAT-ACAAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGATAGA
* * *
7196653 AAA-CTTATCTCTCTAGAGTTGCAGCAGAGCATG-TCAAAACC-ACAAATCTTATCTC-CTTGAA
1 AAATCTTATCTCTCTAAAGTTGCAGTAGAGCA-GAT-TAAACCTACAAATCTTATCTCTC-TGAA
* *
7196714 GTTACAGTGGAGCA
63 GTTGCAGTAGAGCA
7196728 AATTGAATAT
Statistics
Matches: 574, Mismatches: 106, Indels: 43
0.79 0.15 0.06
Matches are distributed among these distances:
310 40 0.07
311 24 0.04
312 112 0.20
313 326 0.57
314 68 0.12
315 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (309 bp):
AAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAACCTACAAATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATTAAAGCTACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAT
AACAAATCTTATCTCCTGAAGTTGCAGTGAGCAGATTAAAGCTACAAACCTTTATCTCTCTGAAG
TTACAGTGGAGTAGGTTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGA
TACAAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGATAGA
Found at i:7196884 original size:140 final size:140
Alignment explanation
Indices: 7196108--7197128 Score: 492
Period size: 134 Copynumber: 7.4 Consensus size: 140
7196098 AGAACAAATT
* * * * * *
7196108 CAAGTTACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAAATCTTATCTC
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATA
* * ** * * ** * * * * **
7196173 TCTGAAGTTACAGTAGAGCAGATTAAAGCTACAAACCTTTATCTCCCTGAAGTTTTAGTGG---A
66 TCTAAAGATGTAGTGGAGCAGATTGAATATGCGAATC-TTATTTCCCTGAAGTTGCAGTGGAACA
* *
7196235 G--T-AGGTTA
130 GATTAAAGCTA
* * * * * * * *
7196243 -AAGCTACAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAGGATAACAAAAT-TTCTTT
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGC-AAATCTTATAT
* * * * * * * * *
7196306 CTCTAAAGTTGCAGTGGAGCAGATTGAAGATAG-GAAATCTTATCTCTCTAAAGTTGCAGTAGAG
65 ATCTAAAGATGTAGTGGAGCAGATTGAATAT-GCG-AATCTTATTTCCCTGAAGTTGCAGTGGAA
7196370 CAGATTAAAGCTA
128 CAGATTAAAGCTA
* * ** * * * * ** * * *
7196383 TAGGTT-----T-TTATCTCTTTGAAGTTGCAATGGAGTAGATTAAAGCCA-CAAATATTATCTC
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATA
* * * * * * * *
7196441 CCTAAAGTTGTAGTGGAGCAGATTGAGGATA-ACAAATTTTATCTCCCTAAAGTTGCAGTGGAGC
66 TCTAAAGATGTAGTGGAGCAGATTGA--ATATGCGAATCTTATTTCCCTGAAGTTGCAGTGGAAC
7196505 AGATT---G--A
129 AGATTAAAGCTA
* * ** * ** * * * * *
7196512 -AAATAACAAATCTTATCTCTTTGAAGTTGCAGTTAAGCAGATTAAAGCTA-CAAACCTTATCTC
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATA
* * * * * * * * * * **
7196575 CCTAAAGTTGCAGTGGAGCAAATTAAAAATGACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTA
66 TCTAAAGATGTAGTGGAGCAGATTGAATATG-CGAATCTTATTTCCCTGAAGTTGCAGTGGAACA
7196640 GATTAAAGCTA
130 GATTAAAGCTA
* * ** * * * *
7196651 C-----A-AAA-CTTATCTCTCTAGAGTTGCAGCAGAGC--ATGTCAAAACCA-CAAATCTTATC
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT-TGAAGA-TAGCAAATCTTATA
* * * ** * * *
7196706 T-CCTTGAAGTTACAGTGGAGCAAATTGAATATGCGAATCTTATTTCCCTGAAGTTACAATGGAA
64 TATC-TAAAGATGTAGTGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAGTTGCAGTGGAA
*
7196770 AAGATTAAAGCTA
128 CAGATTAAAGCTA
* * *
7196783 CAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATATC
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATA
* * * *
7196848 TCTAAATATGTAGTGGAGCAGATTGAATATGAGAATCTTATTTCCTTAAAGTTGCAGTGGAACAG
66 TCTAAAGATGTAGTGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
*
7196913 ATTAAAACTA
131 ATTAAAGCTA
*
7196923 CAAGTTACAAATCTATATAAGTTACAAATCTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGA
1 CAAGTTACAAATC--------TT----ATC--TC-C-CTAAAGTTGCAGTGGAGCAGATTGAAGA
* * * *
7196988 TAGCAAATCTTATCTATCTGAAGATGTAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGA
50 TAGCAAATCTTATATATCTAAAGATGTAGTGGAGCAGATTGAATATGCGAATCTTATTTCCCTGA
* *
7197053 AGTTGCAGTAGAACAGATTAAGGCTA
115 AGTTGCAGTGGAACAGATTAAAGCTA
* * *
7197079 CAAATTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGAT
1 CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAT
7197129 GCGAACCTTA
Statistics
Matches: 699, Mismatches: 129, Indels: 111
0.74 0.14 0.12
Matches are distributed among these distances:
128 2 0.00
129 1 0.00
131 3 0.00
132 44 0.06
133 63 0.09
134 258 0.37
135 38 0.05
136 3 0.00
137 4 0.01
138 3 0.00
139 24 0.03
140 118 0.17
141 7 0.01
142 2 0.00
144 3 0.00
148 4 0.01
152 3 0.00
154 2 0.00
155 1 0.00
156 116 0.17
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (140 bp):
CAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATA
TCTAAAGATGTAGTGGAGCAGATTGAATATGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAG
ATTAAAGCTA
Found at i:7197053 original size:44 final size:44
Alignment explanation
Indices: 7196947--7197139 Score: 136
Period size: 44 Copynumber: 4.2 Consensus size: 44
7196937 ATATAAGTTA
* * * * *
7196947 CAAATC-TATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGAT-G
** *
7196991 CAAATCTTATCTATCTGAAGATGTAGTGGAGTAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATG
* * * * ** * *
7197035 CGAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTAAGGCTACAAATTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATT---G--A-AGA-TG
*
7197086 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATG
* *
7197130 CGAACCTTAT
1 CAAATCTTAT
7197140 TTCTCCGAAG
Statistics
Matches: 113, Mismatches: 28, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
44 44 0.39
45 32 0.28
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 2 0.02
51 31 0.27
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATG
Found at i:7197081 original size:156 final size:157
Alignment explanation
Indices: 7196784--7197092 Score: 458
Period size: 156 Copynumber: 2.0 Consensus size: 157
7196774 TTAAAGCTAC
* * *
7196784 AAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATATCT
1 AAGTTACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAGATAGCAAATCTTATATAT
* * * *
7196849 CTAAATATGTAGTGGAGCAGATTGAATATGAGAATCTTATTTCCTTAAAGTTGCAGTGGAACAGA
66 CTAAAGATGTAGTGGAGCAGATTGAAGATGAGAATCTTATTTCCCTAAAGTTGCAGTAGAACAGA
*
7196914 TTAAAACTACAAGTTACAAATCTATAT
131 TTAAAACTACAAATTACAAATCTATAT
* * *
7196941 AAGTTACAAATC-TATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTTATCTAT
1 AAGTTACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAGATAGCAAATCTTATATAT
* * * *
7197005 CTGAAGATGTAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGAAGTTGCAGTAGAACAGA
66 CTAAAGATGTAGTGGAGCAGATTGAAGATGAGAATCTTATTTCCCTAAAGTTGCAGTAGAACAGA
**
7197070 TTAAGGCTACAAATTACAAATCT
131 TTAAAACTACAAATTACAAATCT
7197093 TATCTCCCTA
Statistics
Matches: 135, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
156 123 0.91
157 12 0.09
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (157 bp):
AAGTTACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAGATAGCAAATCTTATATAT
CTAAAGATGTAGTGGAGCAGATTGAAGATGAGAATCTTATTTCCCTAAAGTTGCAGTAGAACAGA
TTAAAACTACAAATTACAAATCTATAT
Found at i:7197113 original size:95 final size:95
Alignment explanation
Indices: 7196991--7197189 Score: 292
Period size: 95 Copynumber: 2.1 Consensus size: 95
7196981 TTGAAGATAG
* * *
7196991 CAAATCTTATCTATCTGAAGATGTAGTGGAGTAGATTGAAGATGCGAATCTTATTTC-CCTGAAG
1 CAAATCTTATCTACCTAAAGATGTAGTGGAGTAGATTGAAGATGCGAACCTTATTTCTCC-GAAG
* *
7197055 TTGCAGTAGAACAGATTAAGGCTACAAATTA
65 TCGCAGTAGAACAGATTAAGGCCACAAATTA
* *
7197086 CAAATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGATGCGAACCTTATTTCTCCGAAGT
1 CAAATCTTATCTACCTAAAGATGTAGTGGAGTAGATTGAAGATGCGAACCTTATTTCTCCGAAGT
* *
7197151 CGCAGTGGAACAGATTAAGGCCACAAGTTA
66 CGCAGTAGAACAGATTAAGGCCACAAATTA
*
7197181 CAACTCTTA
1 CAAATCTTA
7197190 AGTTGCAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
95 91 0.98
96 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (95 bp):
CAAATCTTATCTACCTAAAGATGTAGTGGAGTAGATTGAAGATGCGAACCTTATTTCTCCGAAGT
CGCAGTAGAACAGATTAAGGCCACAAATTA
Found at i:7197876 original size:23 final size:22
Alignment explanation
Indices: 7197822--7197876 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
7197812 TCAAAACCCT
*
7197822 AAAAAATAAAAAAGAGAAATCG
1 AAAAAAAAAAAAAGAGAAATCG
** *
7197844 AAATCGAAAAAAAAGAGTAATCG
1 AAA-AAAAAAAAAAGAGAAATCG
*
7197867 AATAAAAAAA
1 AAAAAAAAAA
7197877 CTCTAAAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (22 bp):
AAAAAAAAAAAAAGAGAAATCG
Found at i:7198831 original size:3 final size:3
Alignment explanation
Indices: 7198813--7198922 Score: 100
Period size: 3 Copynumber: 36.7 Consensus size: 3
7198803 AAAAAATTAA
7198813 ATT ATTT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
7198858 ATT ATT ATC ATT -TT AATT ATT ATT -CT ATT ATG AAT ATT AGT ATC
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
7198902 ATG ATTT ATT ATT ACT ATT AT
1 ATT A-TT ATT ATT ATT ATT AT
7198923 ACTTTTATAT
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.06
3 74 0.86
4 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:7201110 original size:9 final size:9
Alignment explanation
Indices: 7201096--7201133 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
7201086 TTTAATTAGA
7201096 AAATTAATT
1 AAATTAATT
7201105 AAATTAATT
1 AAATTAATT
**
7201114 TGATTAATT
1 AAATTAATT
7201123 AAATTAATT
1 AAATTAATT
7201132 AA
1 AA
7201134 TATTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (9 bp):
AAATTAATT
Found at i:7201122 original size:13 final size:13
Alignment explanation
Indices: 7201096--7201134 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
7201086 TTTAATTAGA
7201096 AAATTAATTAAATT
1 AAATTAATT-AATT
* *
7201110 AATTTGATTAATT
1 AAATTAATTAATT
7201123 AAATTAATTAAT
1 AAATTAATTAAT
7201135 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:7201973 original size:30 final size:29
Alignment explanation
Indices: 7201939--7201995 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
7201929 AAATTTAAGT
7201939 TAATAAAATGATA-AAATTACATTTTAACTC
1 TAATAAAAT-ATATAAATTA-ATTTTAACTC
*
7201969 TAATAAAATATATAATTTAATTTTAAC
1 TAATAAAATATATAAATTAATTTTAAC
7201996 CCCCAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (29 bp):
TAATAAAATATATAAATTAATTTTAACTC
Found at i:7203996 original size:19 final size:19
Alignment explanation
Indices: 7203972--7204071 Score: 73
Period size: 19 Copynumber: 5.3 Consensus size: 19
7203962 CTACATTTAT
7203972 TAAAAATTAG-AAAAAAATA
1 TAAAAA-TAGTAAAAAAATA
7203991 TAAAAATAGTAAAAAAATA
1 TAAAAATAGTAAAAAAATA
** * *
7204010 T-AAAATTTTATAACAATCA
1 TAAAAATAGTAAAAAAAT-A
* *
7204029 TAAAAA-ATTATAAAATATA
1 TAAAAATAGTA-AAAAAATA
*
7204048 TAGAAATA-TAAAAAAATTA
1 TAAAAATAGTAAAAAAA-TA
7204067 TAAAA
1 TAAAA
7204072 TTTTATAAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
18 20 0.31
19 35 0.55
20 9 0.14
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (19 bp):
TAAAAATAGTAAAAAAATA
Found at i:7204041 original size:10 final size:10
Alignment explanation
Indices: 7203968--7204071 Score: 58
Period size: 10 Copynumber: 10.8 Consensus size: 10
7203958 GCCCCTACAT
*
7203968 TTATTAAAAA
1 TTATAAAAAA
*
7203978 TTAGAAAAAA
1 TTATAAAAAA
*
7203988 ATAT-AAAAA
1 TTATAAAAAA
7203997 -TAGTAAAAAA
1 TTA-TAAAAAA
* **
7204007 ATATAAAATT
1 TTATAAAAAA
*
7204017 TTAT-AACAA
1 TTATAAAAAA
*
7204026 TCATAAAAAA
1 TTATAAAAAA
*
7204036 TTATAAAATA
1 TTATAAAAAA
*
7204046 -TAT-AGAAA
1 TTATAAAAAA
7204054 -TATAAAAAAA
1 TTAT-AAAAAA
7204064 TTATAAAA
1 TTATAAAA
7204072 TTTTATAAAG
Statistics
Matches: 70, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
8 8 0.11
9 14 0.20
10 43 0.61
11 5 0.07
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:7204352 original size:27 final size:27
Alignment explanation
Indices: 7204300--7204353 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7204290 AAAAAATTCT
* *
7204300 AATTTTTAATAAATTTTAAATTTTTTA
1 AATTTTTAATAAAATTTAAATATTTTA
*
7204327 AATTTTTATTAAAATTT-AATAATTTTA
1 AATTTTTAATAAAATTTAAAT-ATTTTA
7204354 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTTTTAATAAAATTTAAATATTTTA
Found at i:7204565 original size:90 final size:90
Alignment explanation
Indices: 7204416--7204600 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 90
7204406 GCTTAGTTAC
* *
7204416 TTTTTTGAAAATTTTTGAAGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATTGATTG-A
1 TTTTTTGAAAAATTTTGAAGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATTGAGTGAA
*
7204480 AAAAAAATAGGGGCTTAATTGCTTCT
66 AAAAAAAGAGGGGCTTAATTGCTT-T
* * * * * *
7204506 TTTTTTGAAGAAATTTT-AGGGTCTTTTTGATGTATTTTGAAAGTTCATGTGCTCAATTGAGTGC
1 TTTTTTGAA-AAATTTTGAAGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATTGAGTG-
7204570 AAAAAAAAAAGAGGGGCTTAATTGCTTT
64 -AAAAAAAAAGAGGGGCTTAATTGCTTT
7204598 TTT
1 TTT
7204601 AAAAAAAAAC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
90 48 0.59
91 6 0.07
92 4 0.05
93 24 0.29
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (90 bp):
TTTTTTGAAAAATTTTGAAGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATTGAGTGAA
AAAAAAAGAGGGGCTTAATTGCTTT
Found at i:7221664 original size:8 final size:8
Alignment explanation
Indices: 7221651--7221679 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
7221641 ACTAAGGTAC
7221651 AATAATCT
1 AATAATCT
7221659 AATAATCT
1 AATAATCT
7221667 AATAATC-
1 AATAATCT
7221674 AATAAT
1 AATAAT
7221680 AATAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (8 bp):
AATAATCT
Found at i:7222016 original size:16 final size:16
Alignment explanation
Indices: 7221995--7222025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7221985 TTCACTATTA
*
7221995 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
7222011 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
7222026 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:7223640 original size:20 final size:20
Alignment explanation
Indices: 7223615--7223668 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
7223605 ATTCCAAAAA
7223615 TAATATTAAATTTATTAAT-T
1 TAATATTAAATTTATT-ATCT
* *
7223635 TAATATTAAAGTGATTATCT
1 TAATATTAAATTTATTATCT
7223655 TAATATTAAATTTA
1 TAATATTAAATTTA
7223669 ATTTAATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
TAATATTAAATTTATTATCT
Found at i:7227144 original size:27 final size:27
Alignment explanation
Indices: 7227104--7227329 Score: 269
Period size: 27 Copynumber: 8.4 Consensus size: 27
7227094 GTAATGGGCC
*
7227104 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
7227131 TAAAATGACTGAAATATCCTTGAAGAG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
7227158 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
** * **
7227185 TAAAATGACCAAAATACTCTTAAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
7227212 -AAAATGA-TCGAAATACCCCCGAAAGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
7227238 TAAAATGACTGAAATACCC-CTGAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
*
7227265 TAAAATGACTAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
7227292 TAAAATGACCGAAATACCCCCGAAGAG
1 TAAAATGACTGAAATACCCTCGAAGGG
7227319 TAAAATGACTG
1 TAAAATGACTG
7227330 TTATACCTCT
Statistics
Matches: 168, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 19 0.11
27 147 0.88
28 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:7227186 original size:54 final size:54
Alignment explanation
Indices: 7227104--7227327 Score: 297
Period size: 54 Copynumber: 4.2 Consensus size: 54
7227094 GTAATGGGCC
* * *
7227104 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATATCCTTGAAGAG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAGAG
* * * *
7227158 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACTCTTAAAG-G
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAGAG
* * * * * *
7227211 GAAAATGATCGAAATACCCCCGAAAGGTAAAATGACTGAAATACCCCTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAGAG
** *
7227265 TAAAATGACTAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGAG
1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAGAG
7227319 TAAAATGAC
1 TAAAATGAC
7227328 TGTTATACCT
Statistics
Matches: 146, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
53 44 0.30
54 102 0.70
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (54 bp):
TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAGAG
Found at i:7227291 original size:107 final size:107
Alignment explanation
Indices: 7227105--7227308 Score: 327
Period size: 107 Copynumber: 1.9 Consensus size: 107
7227095 TAATGGGCCT
* * * * *
7227105 AAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAAATATCCTTGAAGAGTAAAATGACCGA
1 AAAATGACCGAAATACCCCCGAAAGGTAAAATGACTGAAATACCCCTGAAGAGTAAAATGACCAA
7227170 AATACCCTCGAAGGGTAAAATGACCAAAATACTCTTAAAGGG
66 AATACCCTCGAAGGGTAAAATGACCAAAATACTCTTAAAGGG
* * *
7227212 AAAATGATCGAAATACCCCCGAAAGGTAAAATGACTGAAATACCCCTGAAGGGTAAAATGACTAA
1 AAAATGACCGAAATACCCCCGAAAGGTAAAATGACTGAAATACCCCTGAAGAGTAAAATGACCAA
*
7227277 AATACCCTCGAAGGGTAAAATGACCGAAATAC
66 AATACCCTCGAAGGGTAAAATGACCAAAATAC
7227309 CCCCGAAGAG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 88 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.18
Consensus pattern (107 bp):
AAAATGACCGAAATACCCCCGAAAGGTAAAATGACTGAAATACCCCTGAAGAGTAAAATGACCAA
AATACCCTCGAAGGGTAAAATGACCAAAATACTCTTAAAGGG
Found at i:7227534 original size:26 final size:26
Alignment explanation
Indices: 7227502--7227578 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
7227492 TTGCCACATA
*
7227502 TACTGTTATTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
7227528 TACTGTTACTGGCAGCTTTGTTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
7227554 CATTATTACTGGCAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
7227579 ATATTGGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.40
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:7227726 original size:28 final size:28
Alignment explanation
Indices: 7227686--7227805 Score: 143
Period size: 28 Copynumber: 4.3 Consensus size: 28
7227676 TGCATTGTAT
7227686 TGTTACTGTAATGGGCTAAGGCCCACAC
1 TGTTACTGTAATGGGCTAAGGCCCACAC
7227714 TGTTACTGTAATGGGCTAAGGCCCACAC
1 TGTTACTGTAATGGGCTAAGGCCCACAC
* * *
7227742 TGTTATTATATTGGGCTAAGGCCCACAC
1 TGTTACTGTAATGGGCTAAGGCCCACAC
* ** * *
7227770 CGTTGTTGT-ATAGGGCTCAGGCCCAGAC
1 TGTTACTGTAAT-GGGCTAAGGCCCACAC
*
7227798 TGCTACTG
1 TGTTACTG
7227806 CATGTTGTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 1 0.01
28 77 0.99
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.28
Consensus pattern (28 bp):
TGTTACTGTAATGGGCTAAGGCCCACAC
Found at i:7237360 original size:22 final size:21
Alignment explanation
Indices: 7237285--7237357 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
7237275 CAAAACAACA
*
7237285 GTTTCTCCCCTCGTTCTTGTTG
1 GTTTCT-CCCTCGTTCTTGCTG
*
7237307 GTTTCTCCCTTGTTCTTGCTG
1 GTTTCTCCCTCGTTCTTGCTG
*
7237328 GTTTGTCCCTCGTT-TCTGCTG
1 GTTTCTCCCTCGTTCT-TGCTG
7237349 GTTTCTCCC
1 GTTTCTCCC
7237358 CTCTTTTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.02
21 38 0.84
22 6 0.13
ACGTcount: A:0.00, C:0.32, G:0.19, T:0.49
Consensus pattern (21 bp):
GTTTCTCCCTCGTTCTTGCTG
Found at i:7240854 original size:60 final size:62
Alignment explanation
Indices: 7240742--7240862 Score: 185
Period size: 60 Copynumber: 2.0 Consensus size: 62
7240732 GCTTTGATCA
* *
7240742 GAGGAGGGCACGGGGTTTGGGACTTTGATCGGTGGAAGAGGATAAATGGGAAT-GGGAAATGG
1 GAGGAGGGCACGGGGTTTGGGA-TTTGATCGGTGGAAGAGGAGAAATCGGAATGGGGAAATGG
7240804 GAGGAGGGCACGGGGTTTGGG-TTTGATCGGTGGAAGAAGG-GAAATCGGAATGGGGAAAT
1 GAGGAGGGCACGGGGTTTGGGATTTGATCGGTGGAAG-AGGAGAAATCGGAATGGGGAAAT
7240863 TGCACTGTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
60 24 0.44
61 10 0.18
62 21 0.38
ACGTcount: A:0.27, C:0.07, G:0.47, T:0.19
Consensus pattern (62 bp):
GAGGAGGGCACGGGGTTTGGGATTTGATCGGTGGAAGAGGAGAAATCGGAATGGGGAAATGG
Found at i:7240985 original size:23 final size:23
Alignment explanation
Indices: 7240949--7240995 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7240939 TATTTTGATA
*
7240949 AAAAGCGTCACTAAAAATCAAGC
1 AAAAGCGCCACTAAAAATCAAGC
* * *
7240972 AAAAGCGCCGCTAAAGATCGAGC
1 AAAAGCGCCACTAAAAATCAAGC
7240995 A
1 A
7240996 GTAGCGGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (23 bp):
AAAAGCGCCACTAAAAATCAAGC
Found at i:7241684 original size:19 final size:19
Alignment explanation
Indices: 7241657--7241722 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
7241647 GGGGTTATGC
*
7241657 TTTACGGGTTATAGGGGGA
1 TTTAGGGGTTATAGGGGGA
*
7241676 TTTAGGGGTTATGATCGGGG-
1 TTTAGGGGTTAT-A-GGGGGA
7241696 -TTAGGGG-T-TAGGGGGA
1 TTTAGGGGTTATAGGGGGA
7241712 TTTAGGGGTTA
1 TTTAGGGGTTA
7241723 GGGATTTGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
15 4 0.11
16 1 0.03
17 8 0.21
18 2 0.05
19 18 0.47
20 1 0.03
21 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.45, T:0.33
Consensus pattern (19 bp):
TTTAGGGGTTATAGGGGGA
Found at i:7241718 original size:17 final size:17
Alignment explanation
Indices: 7241668--7241725 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 17
7241658 TTACGGGTTA
7241668 TAGGGGGATTTAGGGGT
1 TAGGGGGATTTAGGGGT
7241685 TATGATCGGGG--TTAGGGGT
1 TA-G---GGGGATTTAGGGGT
7241704 TAGGGGGATTTAGGGGT
1 TAGGGGGATTTAGGGGT
7241721 TAGGG
1 TAGGG
7241726 ATTTGGGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
15 4 0.11
17 15 0.43
18 2 0.06
19 10 0.29
21 4 0.11
ACGTcount: A:0.17, C:0.02, G:0.52, T:0.29
Consensus pattern (17 bp):
TAGGGGGATTTAGGGGT
Found at i:7241739 original size:15 final size:15
Alignment explanation
Indices: 7241696--7241735 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
7241686 ATGATCGGGG
7241696 TTAGGGGTTAGGGGGAT
1 TTAGGGGTTA--GGGAT
7241713 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
7241728 TT-GGGGTT
1 TTAGGGGTT
7241736 TAGGTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
17 10 0.43
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:7242156 original size:24 final size:24
Alignment explanation
Indices: 7242129--7242209 Score: 108
Period size: 24 Copynumber: 3.2 Consensus size: 24
7242119 AATAAACAAA
7242129 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
*
7242153 TAAATTAATTTTTAGGTAATTAATTATT
1 TAAA-TAA---ATAGGTAATTAATTATT
*
7242181 TAAATAGATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
7242205 TAAAT
1 TAAAT
7242210 GAAAGATACA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 25 0.50
25 3 0.06
27 2 0.04
28 20 0.40
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (24 bp):
TAAATAAATAGGTAATTAATTATT
Found at i:7242160 original size:13 final size:13
Alignment explanation
Indices: 7242142--7242185 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
7242132 ATAAATAGGT
7242142 AATTAATTATTTA
1 AATTAATTATTTA
7242155 AATTAATT-TTTA
1 AATTAATTATTTA
7242167 GGTAATTAATTATTTA
1 ---AATTAATTATTTA
7242183 AAT
1 AAT
7242186 AGATAGGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
15 8 0.30
16 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (13 bp):
AATTAATTATTTA
Found at i:7242228 original size:4 final size:4
Alignment explanation
Indices: 7242219--7242244 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7242209 TGAAAGATAC
7242219 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
7242245 ATATGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:7242817 original size:30 final size:29
Alignment explanation
Indices: 7242767--7242940 Score: 285
Period size: 30 Copynumber: 5.8 Consensus size: 29
7242757 TTAAAATACA
7242767 TGTATTTTAAAAATAAAAAATATATGTAG
1 TGTATTTTAAAAATAAAAAATATATGTAG
*
7242796 TGTACTTTAAAAATAAAAAAATATATGTAG
1 TGTATTTTAAAAAT-AAAAAATATATGTAG
7242826 TGTATTTTAAAAATAAAAAAAAATATATGTAG
1 TGTATTTTAAAAAT---AAAAAATATATGTAG
7242858 TGTATTTTAAAAATAAAAATATATATGTAG
1 TGTATTTTAAAAATAAAAA-ATATATGTAG
7242888 TGTATTTTAAAAATAAAAAATATATGTAG
1 TGTATTTTAAAAATAAAAAATATATGTAG
*
7242917 TGTGTTTTAAAAATAAAAAATATA
1 TGTATTTTAAAAATAAAAAATATA
7242941 GTTGATATTC
Statistics
Matches: 138, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
29 51 0.37
30 57 0.41
32 30 0.22
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (29 bp):
TGTATTTTAAAAATAAAAAATATATGTAG
Found at i:7242867 original size:62 final size:59
Alignment explanation
Indices: 7242767--7242940 Score: 287
Period size: 62 Copynumber: 2.9 Consensus size: 59
7242757 TTAAAATACA
*
7242767 TGTATTTTAAAAATAAAAAATATATGTAGTGTACTTTAAAAATAAAAAAATATATGTAG
1 TGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAG
*
7242826 TGTATTTTAAAAATAAAAAAAAATATATGTAGTGTATTTTAAAAATAAAAATATATATGTAG
1 TGTATTTTAAAAAT---AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAG
*
7242888 TGTATTTTAAAAATAAAAAATATATGTAGTGTGTTTTAAAAAT-AAAAAATATA
1 TGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATA
7242941 GTTGATATTC
Statistics
Matches: 108, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
58 9 0.08
59 42 0.39
62 57 0.53
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (59 bp):
TGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAG
Found at i:7244573 original size:2 final size:2
Alignment explanation
Indices: 7244566--7244590 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7244556 ATTATACTAT
7244566 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7244591 TAAATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7249450 original size:28 final size:28
Alignment explanation
Indices: 7249382--7249450 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
7249372 CACATTCAAA
*
7249382 AAAAAAATCAAAGTCAAAAGTAAAAAAG
1 AAAAAAATAAAAGTCAAAAGTAAAAAAG
* *
7249410 AAAAAAATCAAAGTCAAAA-TAAAATATG
1 AAAAAAATAAAAGTCAAAAGTAAAA-AAG
7249438 AAAAGAAA-AAAAG
1 AAAA-AAATAAAAG
7249451 AAAAGAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 5 0.14
28 29 0.78
29 3 0.08
ACGTcount: A:0.72, C:0.06, G:0.10, T:0.12
Consensus pattern (28 bp):
AAAAAAATAAAAGTCAAAAGTAAAAAAG
Found at i:7251231 original size:88 final size:88
Alignment explanation
Indices: 7251068--7251528 Score: 710
Period size: 88 Copynumber: 5.3 Consensus size: 88
7251058 CAGATCAGTG
* * *
7251068 AAGATAGCAGGTCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
7251133 TCAGTGGCAGTTGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* * * * *
7251156 AAGATAGCAGATCTTGGCTTCCTGCGTTAGCAACGAAACAGATCAAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
7251221 TTGGTTGCAG-TGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* *
7251243 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
7251308 TCGGTTGTAGTTGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* * *
7251331 AAGATAGCAGATCTTGCTTTCCTGTGTTAACAGCGAAGCAGATCGAAAATAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
7251396 TCGGTTGCAGTTGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
*
7251419 AAGATAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
7251484 TTGGTTGCAG-TGAAGCTGCTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
*
7251506 AAGATAACAGATCTTGCCTTCCT
1 AAGATAGCAGATCTTGCCTTCCT
7251529 AAGCACCAAC
Statistics
Matches: 339, Mismatches: 33, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
87 111 0.33
88 228 0.67
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTTGGAGCTGGTTA
Found at i:7251387 original size:175 final size:175
Alignment explanation
Indices: 7251068--7251528 Score: 701
Period size: 175 Copynumber: 2.6 Consensus size: 175
7251058 CAGATCAGTG
* * *
7251068 AAGATAGCAGGTCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
7251133 TCAGTGGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTGGCTTCCTGCGTTAGCAACGAAACAGA
66 TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTT-GCTTCCTGCGTTAACAACGAAACAGA
*
7251198 TCAAAAACAAAGCCTTGCCTCCATTGGTTGCAG-TGGAGCTGGTTA
130 TCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
* *
7251243 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * * *
7251308 TCGGTTGTAGTTGGAGCTGGTTAAAGATAGCAGATCTTGCTTTCCTGTGTTAACAGCGAAGCAGA
66 TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTGC-TTCCTGCGTTAACAACGAAACAGA
* *
7251373 TCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
130 TCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
*
7251419 AAGATAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * * *
7251484 TTGGTTGCAG-TGAAGCTGCTTAAAGATAACAGATCTTGCCTTCCT
66 TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTG-CTTCCT
7251529 AAGCACCAAC
Statistics
Matches: 260, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
174 2 0.01
175 175 0.67
176 83 0.32
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (175 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTGCTTCCTGCGTTAACAACGAAACAGAT
CAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
Found at i:7251707 original size:44 final size:44
Alignment explanation
Indices: 7251657--7251841 Score: 140
Period size: 44 Copynumber: 4.2 Consensus size: 44
7251647 GTCTTATCCC
*
7251657 CCCTGAAGTCACAGTGGAGCAGACAGAAGAAATCAATCCTATCT
1 CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAATCCTATCT
*** * * * * * *
7251701 CCCTGAAGTTGTAGCGAAGTAGACTG-AGAAAACAAGTCTTATCC
1 CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAA-TCCTATCT
* * * * *
7251745 CCCTGAAGTCACAGTGGGGCAGACTGAAGAAGTAAATCTTCTCT
1 CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAATCCTATCT
* * ** * **
7251789 CCCTCAGGTTGCAGTGGAGCAGATTGAAGTCGAT-AATCCTATCT
1 CCCTGAAGTCACAGTGGAGCAGACTGAAG-AAATCAATCCTATCT
7251833 CCCTGAAGT
1 CCCTGAAGT
7251842 TGTAGTGGAG
Statistics
Matches: 103, Mismatches: 35, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
43 8 0.08
44 88 0.85
45 7 0.07
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAATCCTATCT
Found at i:7251849 original size:44 final size:44
Alignment explanation
Indices: 7251786--7251900 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
7251776 GTAAATCTTC
* * * *
7251786 TCTCCCTCAGGTTGCAGTGGAGCAGATTGAAGTCGATA-ATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-AATAGATCCTA
* * *
7251830 TCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCCTA
* *
7251874 TCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TCTCCCTGAAGTTGCAGTGGAGCAGAT
7251901 CGCATCAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.05
44 56 0.95
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCCTA
Found at i:7253320 original size:25 final size:25
Alignment explanation
Indices: 7253272--7253320 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7253262 ACTGTTATTT
* * *
7253272 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
7253297 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
7253321 TTTATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:7253399 original size:27 final size:27
Alignment explanation
Indices: 7253368--7253433 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
7253358 TTTACTACAT
7253368 ATTATTTTAAAATTGTTTT-TAT-ATA
1 ATTATTTTAAAATTGTTTTATATAATA
* *
7253393 GTT-TTATTCCAAATTGTTTTATATAATA
1 ATTATT-TT-AAAATTGTTTTATATAATA
7253421 ATTATTTTAAAAT
1 ATTATTTTAAAAT
7253434 CATCTTATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 10 0.31
27 7 0.22
28 7 0.22
29 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (27 bp):
ATTATTTTAAAATTGTTTTATATAATA
Found at i:7257944 original size:21 final size:21
Alignment explanation
Indices: 7257920--7257971 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
7257910 CACCATTGTT
*
7257920 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCACTACAGTA
*
7257941 TCTAATATCACCACTACAGTA
1 TCTAATCTCACCACTACAGTA
*
7257962 ACTAATCTCA
1 TCTAATCTCA
7257972 ACGCCACCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCACTACAGTA
Found at i:7265598 original size:23 final size:22
Alignment explanation
Indices: 7265555--7265598 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
7265545 TTCACTAGTC
**
7265555 CAATACAGTACAGTTAGATGTA
1 CAATACAGTACAAATAGATGTA
*
7265577 CAATACAGGTACAAATATATGT
1 CAATACA-GTACAAATAGATGT
7265599 CCGACCAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (22 bp):
CAATACAGTACAAATAGATGTA
Found at i:7272088 original size:35 final size:35
Alignment explanation
Indices: 7272049--7272121 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
7272039 TGCGCATACT
*
7272049 TTTGTTGCAACATAGAACCTGAATTTGTGCATGTA
1 TTTGTTGCAAAATAGAACCTGAATTTGTGCATGTA
7272084 TTTGTTGCAAAATAGAACCTGAATTTGTGCATGTA
1 TTTGTTGCAAAATAGAACCTGAATTTGTGCATGTA
7272119 TTT
1 TTT
7272122 TGTGAAGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (35 bp):
TTTGTTGCAAAATAGAACCTGAATTTGTGCATGTA
Found at i:7274649 original size:29 final size:30
Alignment explanation
Indices: 7274617--7274682 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
7274607 GGTTTTGGAC
7274617 AAAATAAATTAAGG-TTTA-GATATTTTAAA
1 AAAATAAATT-AGGATTTAGGATATTTTAAA
*
7274646 AAAATAAATTAGGATTTAGGGATTTTTTAAA
1 AAAATAAATTAGGATTTA-GGATATTTTAAA
7274677 ATAAAT
1 A-AAAT
7274683 TTATGTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 14 0.44
31 11 0.34
32 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (30 bp):
AAAATAAATTAGGATTTAGGATATTTTAAA
Found at i:7274691 original size:28 final size:27
Alignment explanation
Indices: 7274646--7274698 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
7274636 ATATTTTAAA
7274646 AAAATAAATTAGGATTTAGGGATTTTTT
1 AAAATAAATTAGGATTTAGGG-TTTTTT
*
7274674 AAAATAAATTTATG-TTTAGGGTTTT
1 AAAATAAA-TTAGGATTTAGGGTTTT
7274699 AGAGGTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 15 0.65
29 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (27 bp):
AAAATAAATTAGGATTTAGGGTTTTTT
Found at i:7274982 original size:124 final size:125
Alignment explanation
Indices: 7274770--7275441 Score: 811
Period size: 126 Copynumber: 5.4 Consensus size: 125
7274760 TTTTTATTCA
* * * * *
7274770 ATCAGCAAAAGTACTAAAAAAAGCTTCCAGC-TGGACACTATTTTTCTACAATAGTTTCTAAAAA
1 ATCAGCAAAAGTACTGAAAAAA-CTCCCA-CATGGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* *
7274834 AATAATTTTGAGAAGATTGTTTTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
64 AATAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACT
* * * * * *
7274896 GTCAACAAAAGTAGTGAAAAAAATCCCACCTAGG-CGCTCTTTTTCTACAGTTA-TTTCTG-AAA
1 ATCAGCAAAAGTACTGAAAAAACTCCCACAT-GGACGCTATTTTTCTACAG-TAGTTTCTGAAAA
* *
7274958 AATAATTTTGAGAAGATGGTTTTAAAAAAATAGGGTCAAAAATGCTTTAAGCAGGATGCACT
64 AATAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACT
* *
7275020 TTCAGCAAAAGTACTGGAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
1 ATCAGCAAAAGTACT-GAAAAAACTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
* * *
7275085 ATAATTTTGAGAATATGGTTCT-AAAAAA-AGTGTCAAAAACGCTTCAAGCAGGATGCACT
65 ATAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACT
* * * * *
7275144 ATCAGCAAAAGTACTGAAAAAGCTCCC-CCTGGATGCTATTTTTTTACGGTAGTTTCTGAAAAAA
1 ATCAGCAAAAGTACTGAAAAAACTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* * * * *
7275208 TAATTTTGAAAAGATGGTTCTAAGAAAATAGTGTAAAAAATGCTTCAAACAGGATGCACT
66 TAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACT
* * * * **
7275268 GTTAGCAAAAATACT-AAAACAAGCTCCAAGTTGGACGCTATTTTTCTACAGTAGTTTCTGAAAA
1 ATCAGCAAAAGTACTGAAAA-AA-CTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* * *
7275332 AATAATTTTGAAAAGATGGTTTTGAAAAAATAGTGTCAAAAATGCTTCAAACAGGATGCACT
64 AATAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACT
* * * ** *
7275394 ATTAGTAAAAGTATTGAAAAAAGCTCCCACATGGGTGCTCTTTTTCTA
1 ATCAGCAAAAGTACTGAAAAAA-CTCCCACATGGACGCTATTTTTCTA
7275442 TAATACATCA
Statistics
Matches: 472, Mismatches: 61, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
122 52 0.11
123 21 0.04
124 161 0.34
125 67 0.14
126 167 0.35
127 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (125 bp):
ATCAGCAAAAGTACTGAAAAAACTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
TAATTTTGAGAAGATGGTTTTAAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACT
Found at i:7275438 original size:126 final size:125
Alignment explanation
Indices: 7274773--7275441 Score: 818
Period size: 124 Copynumber: 5.4 Consensus size: 125
7274763 TTATTCAATC
* * * * *
7274773 AGCAAAAGTACTAAAAAAAGCTTCCAGC-TGGACACTATTTTTCTACAATAGTTTCTAAAAAAAT
1 AGCAAAAGTACTGAAAAAAGCTCCCA-CATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAAT
* * * *
7274837 AATTTTGAGAAGATTGTTTTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTC
65 AATTTTGAGAAGATGGTTTT-AAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATT
* * * * *
7274899 AACAAAAGTAGTGAAAAAA-ATCCCACCTAGG-CGCTCTTTTTCTACAGTTA-TTTCTG-AAAAA
1 AGCAAAAGTACTGAAAAAAGCTCCCACAT-GGACGCTATTTTTCTACAG-TAGTTTCTGAAAAAA
* *
7274960 TAATTTTGAGAAGATGGTTTTAAAAAAATAGGGTCAAAAATGCTTTAAGCAGGATGCACT-TT
64 TAATTTTGAGAAGATGGTTTT-AAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATT
*
7275022 CAGCAAAAGTACTGGAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAAT
1 -AGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAAT
* * * *
7275087 AATTTTGAGAATATGGTTCTAAAAAA-AGTGTCAAAAACGCTTCAAGCAGGATGCACTATC
65 AATTTTGAGAAGATGGTTTTAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATT
* * * *
7275147 AGCAAAAGTACTG-AAAAAGCTCCC-CCTGGATGCTATTTTTTTACGGTAGTTTCTGAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAATA
* * * * *
7275210 ATTTTGAAAAGATGGTTCTAAGAAAATAGTGTAAAAAATGCTTCAAACAGGATGCACTGTT
66 ATTTTGAGAAGATGGTTTTAA-AAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATT
* * **
7275271 AGCAAAAATACT-AAAACAAGCTCCAAGTTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAAT
1 AGCAAAAGTACTGAAAA-AAGCTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAAT
* *
7275335 AATTTTGAAAAGATGGTTTTGAAAAAATAGTGTCAAAAATGCTTCAAACAGGATGCACTATT
65 AATTTTGAGAAGATGGTTTT-AAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATT
* * ** *
7275397 AGTAAAAGTATTGAAAAAAGCTCCCACATGGGTGCTCTTTTTCTA
1 AGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTATTTTTCTA
7275442 TAATACATCA
Statistics
Matches: 471, Mismatches: 56, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
122 54 0.11
123 16 0.03
124 166 0.35
125 65 0.14
126 164 0.35
127 6 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (125 bp):
AGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAATA
ATTTTGAGAAGATGGTTTTAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATT
Found at i:7275543 original size:25 final size:25
Alignment explanation
Indices: 7275514--7275585 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
7275504 TTATAGCAAG
7275514 AGAAATT-AGAGAAGTTCAGAAGAAT
1 AGAAATTGA-AGAAGTTCAGAAGAAT
*
7275539 AGAAATTGAAGGAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
* *
7275564 ATAAATTGAAGAAGTTGAGAAG
1 AGAAATTGAAGAAGTTCAGAAG
7275586 GTATAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.26, T:0.21
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:7277281 original size:2 final size:2
Alignment explanation
Indices: 7277229--7277261 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7277219 GAAATCGATA
*
7277229 AT AT AT -T AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7277262 TTTATCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7277495 original size:21 final size:22
Alignment explanation
Indices: 7277471--7277517 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7277461 TGTTTAGAAC
*
7277471 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
7277492 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
7277514 AATA
1 AATA
7277518 TACTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:7283690 original size:17 final size:18
Alignment explanation
Indices: 7283668--7283702 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7283658 ATCTGGGTCA
7283668 TGTGGG-CCACAAGGGCG
1 TGTGGGCCCACAAGGGCG
*
7283685 TGTGGGCCCACACGGGCG
1 TGTGGGCCCACAAGGGCG
7283703 AACATCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.29, G:0.46, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACAAGGGCG
Found at i:7284690 original size:18 final size:18
Alignment explanation
Indices: 7284661--7284708 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7284651 AAATAAATGT
*
7284661 TTTGAAATTGAATAACGA
1 TTTGAAAATGAATAACGA
* * *
7284679 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAACGA
7284697 TTTGAAAATGAA
1 TTTGAAAATGAA
7284709 CGACACTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGAAAATGAATAACGA
Found at i:7285383 original size:8 final size:8
Alignment explanation
Indices: 7285372--7285401 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
7285362 AAAAAACCTA
7285372 AAAATATT
1 AAAATATT
7285380 AAAATATT
1 AAAATATT
7285388 AAAATATT
1 AAAATATT
7285396 AAAATA
1 AAAATA
7285402 AATGTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:7285757 original size:17 final size:17
Alignment explanation
Indices: 7285718--7285750 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7285708 CGAGTCTTAT
7285718 TTTTTTGCCCAAGCCTA
1 TTTTTTGCCCAAGCCTA
7285735 TTTTTTGCCCAAGCCT
1 TTTTTTGCCCAAGCCT
7285751 TTCTTTTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTTTTGCCCAAGCCTA
Found at i:7288679 original size:12 final size:12
Alignment explanation
Indices: 7288664--7288717 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
7288654 TAATTTTTCC
7288664 AAATTTCTCTCT
1 AAATTTCTCTCT
*
7288676 AAA-TT-TCTCA
1 AAATTTCTCTCT
***
7288686 AAAAAGCTCTC-
1 AAATTTCTCTCT
7288697 AAATTTCTCTCT
1 AAATTTCTCTCT
7288709 AAATTTCTC
1 AAATTTCTC
7288718 AAAGCTCTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 7 0.21
11 10 0.30
12 16 0.48
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (12 bp):
AAATTTCTCTCT
Found at i:7288726 original size:21 final size:21
Alignment explanation
Indices: 7288693--7288733 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7288683 TCAAAAAAGC
**
7288693 TCTCAAATTTCTCTCTAAATT
1 TCTCAAAGCTCTCTCTAAATT
*
7288714 TCTCAAAGCTCTCTTTAAAT
1 TCTCAAAGCTCTCTCTAAAT
7288734 CACAATTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.44
Consensus pattern (21 bp):
TCTCAAAGCTCTCTCTAAATT
Found at i:7290417 original size:25 final size:25
Alignment explanation
Indices: 7290380--7290462 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
7290370 TCAACAGCTC
* *
7290380 ACGAGCTGTGAATCGATAAGCTCAT
1 ACGAGCTGAGAATCGGTAAGCTCAT
* *
7290405 ACGAGTTGAGAATCGGTGAGCTC-T
1 ACGAGCTGAGAATCGGTAAGCTCAT
*
7290429 CACGAGCT-ACAAATCGGTAAGCTCAT
1 -ACGAGCTGA-GAATCGGTAAGCTCAT
7290455 ACGAGCTG
1 ACGAGCTG
7290463 TGGTGTGTCC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 44 0.94
26 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCAT
Found at i:7295107 original size:52 final size:50
Alignment explanation
Indices: 7295050--7295177 Score: 118
Period size: 53 Copynumber: 2.5 Consensus size: 50
7295040 CATAAATTTG
*
7295050 AAAAAAAAAATTAGGGTTTGAGGGAAGTAAAAATTTT-GAGAGAAAGTAAA
1 AAAAAAAAAATTAGGGTTTGAGGGAAGTAAAAATTTTGGA-AAAAAGTAAA
* ** * *
7295100 AGGAAAAAGAAACTGCGGGTTT-AGGGGAAGTAAAAGTTTTGGAAAAAATTAAA
1 A--AAAAA-AAAATTAGGGTTTGA-GGGAAGTAAAAATTTTGGAAAAAAGTAAA
* *
7295153 AAGAAAAAAATTAGTGTTTG-GGGAA
1 AAAAAAAAAATTAGGGTTTGAGGGAA
7295178 AATAGATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
49 5 0.08
50 10 0.16
51 4 0.07
52 6 0.10
53 34 0.56
54 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.27, T:0.22
Consensus pattern (50 bp):
AAAAAAAAAATTAGGGTTTGAGGGAAGTAAAAATTTTGGAAAAAAGTAAA
Found at i:7296745 original size:8 final size:7
Alignment explanation
Indices: 7296727--7296792 Score: 55
Period size: 8 Copynumber: 8.9 Consensus size: 7
7296717 TGGCATCTCC
*
7296727 CTTTATT
1 CTTTTTT
7296734 CTTTTCTT
1 CTTTT-TT
7296742 C-TTTTT
1 CTTTTTT
7296748 CTTTTTCT
1 CTTTTT-T
7296756 CTCTTTATT
1 CT-TTT-TT
7296765 CTTTTCTT
1 CTTTT-TT
7296773 C-TTTTT
1 CTTTTTT
7296779 CTTTTTCT
1 CTTTTT-T
7296787 CTTTTT
1 CTTTTT
7296793 CTTCTAGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
6 6 0.12
7 18 0.36
8 19 0.38
9 6 0.12
10 1 0.02
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (7 bp):
CTTTTTT
Found at i:7296751 original size:14 final size:15
Alignment explanation
Indices: 7296722--7296795 Score: 91
Period size: 14 Copynumber: 4.9 Consensus size: 15
7296712 ATGACTGGCA
*
7296722 TCTCCCTTTATTCTTT
1 TCTCTCTTT-TTCTTT
7296738 TCT-TCTTTTTCTTTT
1 TCTCTCTTTTTC-TTT
7296753 TCTCTCTTTATTCTTT
1 TCTCTCTTT-TTCTTT
7296769 TCT-TCTTTTTCTTT
1 TCTCTCTTTTTCTTT
7296783 T-TCTCTTTTTCTT
1 TCTCTCTTTTTCTT
7296796 CTAGTATCCA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
13 1 0.02
14 20 0.38
15 15 0.28
16 14 0.26
17 3 0.06
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTCTCTTTTTCTTT
Found at i:7296765 original size:31 final size:31
Alignment explanation
Indices: 7296722--7296797 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
7296712 ATGACTGGCA
*
7296722 TCTCCCTTTATTCTTTTCTTCTTTTTCTTTT
1 TCTCTCTTTATTCTTTTCTTCTTTTTCTTTT
7296753 TCTCTCTTTATTCTTTTCTTCTTTTTCTTTT
1 TCTCTCTTTATTCTTTTCTTCTTTTTCTTTT
* *
7296784 TCTCTTTTTCTTCT
1 TCTCTCTTTATTCT
7296798 AGTATCCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (31 bp):
TCTCTCTTTATTCTTTTCTTCTTTTTCTTTT
Found at i:7303483 original size:9 final size:8
Alignment explanation
Indices: 7303466--7303644 Score: 67
Period size: 8 Copynumber: 21.2 Consensus size: 8
7303456 TCTTTTCTTG
7303466 ATTTCTTTT
1 ATTT-TTTT
7303475 ATTTGTTTTT
1 A-TT-TTTTT
*
7303485 AATTTTTT
1 ATTTTTTT
*
7303493 ACTTTTTCTG
1 A-TTTTT-TT
7303503 ATTTTTTTT
1 A-TTTTTTT
*
7303512 ATTTGTTT
1 ATTTTTTT
* *
7303520 CTCCTTTTT
1 AT-TTTTTT
**
7303529 CGTTTTTT
1 ATTTTTTT
*
7303537 ATTTGTTT
1 ATTTTTTT
*
7303545 -TTTATTT
1 ATTTTTTT
* *
7303552 ACTTTTTC
1 ATTTTTTT
7303560 ATTTTTTT
1 ATTTTTTT
*
7303568 ATTTATTT
1 ATTTTTTT
* ** *
7303576 -GTCATTC
1 ATTTTTTT
7303583 ATTTTTTT
1 ATTTTTTT
7303591 ATTTGTTTT
1 ATTT-TTTT
*
7303600 -TTTGTTT
1 ATTTTTTT
*
7303607 ATTTATTT
1 ATTTTTTT
7303615 ATTTTTATT
1 ATTTTT-TT
7303624 ATTTATTATT
1 ATTT-TT-TT
7303634 ATTTGTTTT
1 ATTT-TTTT
7303643 AT
1 AT
7303645 AATATTTTAT
Statistics
Matches: 127, Mismatches: 32, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
7 13 0.10
8 61 0.48
9 27 0.21
10 25 0.20
11 1 0.01
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:7303565 original size:20 final size:20
Alignment explanation
Indices: 7303542--7303620 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
7303532 TTTTTATTTG
*
7303542 TTTTTTATTTACTTTTTCAT
1 TTTTTTATTTATTTTTTCAT
7303562 TTTTTTATTTATTTGTCATTCAT
1 TTTTTTATTTATTT-T--TTCAT
* **
7303585 TTTTTTATTTGTTTTTTTGT
1 TTTTTTATTTATTTTTTCAT
*
7303605 TTATTTATTTATTTTT
1 TTTTTTATTTATTTTT
7303621 ATTATTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 30 0.60
21 1 0.02
22 1 0.02
23 18 0.36
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (20 bp):
TTTTTTATTTATTTTTTCAT
Found at i:7303574 original size:4 final size:4
Alignment explanation
Indices: 7303534--7303630 Score: 56
Period size: 4 Copynumber: 24.5 Consensus size: 4
7303524 TTTTTCGTTT
* * * * *
7303534 TTTA TTTG TTT- TTTA TTTA CTTT- TTCA TTTT TTTA TTTA TTT- GTCA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
7303580 TTCA TTTT TTTA TTTG TTTT TTTG TTTA TTTA TTTA TTTT TATTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
7303629 TT
1 TT
7303631 ATTATTTGTT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
3 6 0.08
4 59 0.83
5 6 0.08
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7303583 original size:23 final size:20
Alignment explanation
Indices: 7303542--7303633 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
7303532 TTTTTATTTG
7303542 TTTTTTATTTACTTTTTCAT
1 TTTTTTATTTACTTTTTCAT
*
7303562 TTTTTTATTTATTTGTCATTCAT
1 TTTTTTATTTACTT-T--TTCAT
** **
7303585 TTTTTTATTTGTTTTTTTGT
1 TTTTTTATTTACTTTTTCAT
*
7303605 TTATTTATTTA-TTTTT-AT
1 TTTTTTATTTACTTTTTCAT
7303623 TATTTATTATT
1 T-TTT-TTATT
7303634 ATTTGTTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.03
19 7 0.12
20 30 0.51
21 1 0.02
22 1 0.02
23 18 0.31
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTACTTTTTCAT
Done.