Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 304 of 425
Found at i:94408924 original size:30 final size:30
Alignment explanation
Indices: 94408890--94408947 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
94408880 CACGGGCTGG
* *
94408890 CACATCGGTGTGTGGCCATCCAGTGTGGCT
1 CACATCGGCGTGTGGCCAGCCAGTGTGGCT
* *
94408920 CACATGGGCGTGTGGCCAGCCCGTGTGG
1 CACATCGGCGTGTGGCCAGCCAGTGTGG
94408948 AAATGCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATCGGCGTGTGGCCAGCCAGTGTGGCT
Found at i:94409643 original size:15 final size:15
Alignment explanation
Indices: 94409619--94409650 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
94409609 TAGGCATGCA
*
94409619 AAATATAAAAGACAT
1 AAATACAAAAGACAT
94409634 AAATACAAAAGACAT
1 AAATACAAAAGACAT
94409649 AA
1 AA
94409651 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:94421278 original size:19 final size:19
Alignment explanation
Indices: 94421240--94421279 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94421230 ATCATGAATA
* * *
94421240 AAGAAAATAATTGAATCGC
1 AAGAAAAAAATTAAAACGC
94421259 AAGAAAAAAATTAAAACGC
1 AAGAAAAAAATTAAAACGC
94421278 AA
1 AA
94421280 AAACTTTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.15
Consensus pattern (19 bp):
AAGAAAAAAATTAAAACGC
Found at i:94422619 original size:5 final size:6
Alignment explanation
Indices: 94422606--94422646 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
94422596 ATAATTTAAT
94422606 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
94422647 ACATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:94422640 original size:21 final size:22
Alignment explanation
Indices: 94422583--94422640 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
94422573 CAACCCAATC
*
94422583 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAA-TA-AAA-AATCTAATAA
94422608 ATAAAAAT-AAAAATCTAA-AA
1 ATAAAAATAAAAAATCTAATAA
94422628 ATAAAAATAAAAA
1 ATAAAAATAAAAA
94422641 TAAAAAACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 10 0.32
21 10 0.32
22 3 0.10
24 1 0.03
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAAAAATAAAAAATCTAATAA
Found at i:94422647 original size:20 final size:20
Alignment explanation
Indices: 94422606--94422647 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
94422596 ATAATTTAAT
**
94422606 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
94422626 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
94422646 AA
1 AA
94422648 CATATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:94422680 original size:9 final size:9
Alignment explanation
Indices: 94422666--94422758 Score: 132
Period size: 9 Copynumber: 10.3 Consensus size: 9
94422656 TTTATACAAA
*
94422666 TAATTCTGT
1 TAATTCGGT
94422675 TAATTCGGT
1 TAATTCGGT
94422684 TAATTCGGT
1 TAATTCGGT
* *
94422693 TAATTTGGG
1 TAATTCGGT
*
94422702 TAATTCGGG
1 TAATTCGGT
94422711 TAATTCGGT
1 TAATTCGGT
*
94422720 TAATTCGAT
1 TAATTCGGT
94422729 TAATTCGGT
1 TAATTCGGT
*
94422738 TAATTCGAT
1 TAATTCGGT
94422747 TAATTCGGT
1 TAATTCGGT
94422756 TAA
1 TAA
94422759 CTTTATACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 75 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:94439605 original size:30 final size:30
Alignment explanation
Indices: 94439569--94439627 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
94439559 ATGGTATTTG
94439569 ATTGTGAATATGAATTTATATGATTAATTA
1 ATTGTGAATATGAATTTATATGATTAATTA
94439599 ATTGTGAATATGAATTTATATGATTAATT
1 ATTGTGAATATGAATTTATATGATTAATT
94439628 GGTTAATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (30 bp):
ATTGTGAATATGAATTTATATGATTAATTA
Found at i:94451934 original size:38 final size:39
Alignment explanation
Indices: 94451842--94451936 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
94451832 CGGTACCATT
* *
94451842 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCA-ACA
* * *
94451882 TGGTGTGTGGGGTTGGGTGGGTCGATTTTATCTCC-ACA
1 TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCAACA
**
94451920 TGGTGTGTTTGGTTGGA
1 TGGTGTGTAGGGTTGGA
94451937 CGGAGATGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 16 0.34
40 31 0.66
ACGTcount: A:0.12, C:0.11, G:0.38, T:0.40
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCAACA
Found at i:94462265 original size:40 final size:40
Alignment explanation
Indices: 94462228--94462371 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
94462218 GCTACTCGTT
* *
94462228 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
94462268 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTC-CA
1 CAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCA
* * * *
94462307 CAAATGCCTTCGGGACTTAACCCTGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAAC-TCGCA
*
94462348 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
94462372 ACATCATTCG
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.35
40 51 0.55
41 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
Found at i:94465549 original size:26 final size:26
Alignment explanation
Indices: 94465512--94465647 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
94465502 TGATACAAAT
* *
94465512 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
94465538 TGATAATGGGTTAGGTAAATGTTTGA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
94465564 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94465590 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94465616 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94465642 TGATAA
1 TGATAA
94465648 GAATTTCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94467163 original size:25 final size:26
Alignment explanation
Indices: 94467121--94467173 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
94467111 AAAAATGTTT
94467121 ATACCCCTAGGTGAAAATT-ACCGAA
1 ATACCCCTAGGTGAAAATTGACCGAA
* *
94467146 ATACCCCTAGG-GTTAAATTGACCTAA
1 ATACCCCTAGGTG-AAAATTGACCGAA
94467172 AT
1 AT
94467174 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 16 0.67
26 7 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
ATACCCCTAGGTGAAAATTGACCGAA
Found at i:94467670 original size:138 final size:137
Alignment explanation
Indices: 94467422--94467695 Score: 514
Period size: 138 Copynumber: 2.0 Consensus size: 137
94467412 GTAGTCTCCC
*
94467422 CAAATGGGCTTGCAATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 CAAATGGGCTTGCAATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTAT
94467487 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTTGGCCCAGTACCAC
66 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTC-TGGCCCAGTACCAC
94467552 TGTTACCA
130 TGTTACCA
94467560 CAAATGGGCTTGCATATGTTTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTA
1 CAAATGGGCTTGCA-ATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTA
94467624 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
65 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
94467689 TGTTACC
130 TGTTACC
94467696 TGAATGGCCT
Statistics
Matches: 134, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
137 21 0.16
138 106 0.79
139 7 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CAAATGGGCTTGCAATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTAT
TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTACCA
Found at i:94471494 original size:26 final size:26
Alignment explanation
Indices: 94471457--94471589 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
94471447 TGATACAAAT
*
94471457 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94471483 TGATAATGGGTTAGGTAAATGTT---
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94471506 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94471532 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94471558 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94471584 TGATAA
1 TGATAA
94471590 GAATTTCATG
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 22 0.22
26 78 0.78
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94471513 original size:49 final size:50
Alignment explanation
Indices: 94471456--94471589 Score: 225
Period size: 49 Copynumber: 2.7 Consensus size: 50
94471446 TTGATACAAA
94471456 TTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATG-T
1 TTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
94471505 TTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
1 TTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
* *
94471555 TCATGATAATGGGTTAGGTAAATGTTTCATGATAA
1 T--TGATAATAGGTTAGGTAAATGTTCCATGATAA
94471590 GAATTTCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
49 48 0.60
50 2 0.03
52 30 0.38
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.37
Consensus pattern (50 bp):
TTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
Found at i:94473642 original size:137 final size:136
Alignment explanation
Indices: 94473361--94473635 Score: 532
Period size: 137 Copynumber: 2.0 Consensus size: 136
94473351 GAGTAGTCTC
94473361 CCCAAATGGGCTTGCAATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCAATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
94473426 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
94473491 CTGTTA
131 CTGTTA
94473497 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCA-ATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
94473562 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
94473627 ACTGTTA
130 ACTGTTA
94473634 CC
1 CC
94473636 TGAATGGCCT
Statistics
Matches: 137, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 16 0.12
137 121 0.88
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCAATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:94475631 original size:45 final size:45
Alignment explanation
Indices: 94475581--94475686 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 45
94475571 TGTTACAATG
** *
94475581 GTTGAAAGGCACTATGACACTATAT-TGAAAACGTATAAGACCATA
1 GTTGAAAAACACTATGACACTATATCAG-AAACGTATAAGACCATA
* * * *
94475626 GTTGAAAAACAGTATGGCATTGTATCAGAAACGTATAAGACCATA
1 GTTGAAAAACACTATGACACTATATCAGAAACGTATAAGACCATA
* *
94475671 GTTTAAAAACATTATG
1 GTTGAAAAACACTATG
94475687 GCAACATGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (45 bp):
GTTGAAAAACACTATGACACTATATCAGAAACGTATAAGACCATA
Found at i:94479259 original size:46 final size:46
Alignment explanation
Indices: 94479202--94479469 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
94479192 AGTGTGCTCT
* *
94479202 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94479248 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94479294 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC-T-G-ATA-
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA-AC
*
94479337 -T-AAATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94479380 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94479426 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94479470 TCATGTCAAA
Statistics
Matches: 203, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
40 29 0.14
41 5 0.02
42 3 0.01
43 2 0.01
44 2 0.01
45 6 0.03
46 156 0.77
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94479375 original size:86 final size:92
Alignment explanation
Indices: 94479202--94479469 Score: 379
Period size: 86 Copynumber: 3.0 Consensus size: 92
94479192 AGTGTGCTCT
* * *
94479202 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCATGAAATGAAATGTGTAAG
*
94479267 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
94479294 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC-T-G-A-TAT-AAATG-AATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCATGAAATGAAATGTGTAAG
94479353 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * *
94479380 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCATGAAATG-AAATGTGTAA
* * *
94479444 GACCATAGTTGAAAGACACTATGGCA
65 GACCATGGTTGAAAGATACCATGGCA
94479470 TCATGTCAAA
Statistics
Matches: 158, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
86 74 0.47
87 5 0.03
88 2 0.01
89 2 0.01
90 4 0.03
91 3 0.02
92 68 0.43
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCATGAAATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:94479448 original size:132 final size:133
Alignment explanation
Indices: 94479205--94479459 Score: 433
Period size: 132 Copynumber: 1.9 Consensus size: 133
94479195 GTGCTCTCTG
*
94479205 AAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACC
1 AAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
* * * * *
94479270 ATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCTGA
66 ATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGATACCTGA
94479335 TAT
131 TAT
94479338 AAATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 AAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
94479402 ATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
66 ATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGA
94479460 CACTATGGCA
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 109 0.95
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (133 bp):
AAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
ATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGATACCTGA
TAT
Found at i:94484717 original size:46 final size:46
Alignment explanation
Indices: 94484660--94484978 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
94484650 AGTGTGCTCT
* * *
94484660 CTGAAATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94484706 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
94484752 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94484798 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCAT-GCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94484843 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94484889 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94484935 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94484979 TCATGTCAAA
Statistics
Matches: 256, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
45 43 0.17
46 213 0.83
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94484912 original size:137 final size:138
Alignment explanation
Indices: 94484660--94484978 Score: 498
Period size: 137 Copynumber: 2.3 Consensus size: 138
94484650 AGTGTGCTCT
* * *
94484660 CTGAAATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGAAATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAG
*
94484725 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGACACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGACACC
94484790 ATGACAAC
131 ATGACAAC
* *
94484798 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCAT-GCAACCTGATATGAAATGTGTAAG
1 CTGAAATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAG
* *
94484862 GCCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGACACC
*
94484927 ATGGCAAC
131 ATGACAAC
* * * *
94484935 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGAAATG-AAATGTGTAAGACCATAGTTGAAAGACACCATGGCA
94484979 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
136 1 0.01
137 125 0.75
138 40 0.24
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (138 bp):
CTGAAATGAAATGTGTAAGACCATAGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGACACC
ATGACAAC
Found at i:94487076 original size:29 final size:29
Alignment explanation
Indices: 94487042--94487115 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
94487032 TAATCAGCCG
*
94487042 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
94487071 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
94487100 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
94487116 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:94495117 original size:29 final size:29
Alignment explanation
Indices: 94495083--94495156 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
94495073 TAATCAGCCG
*
94495083 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
94495112 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
94495141 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
94495157 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:94505104 original size:26 final size:26
Alignment explanation
Indices: 94505075--94505181 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
94505065 TGGTACAAAT
94505075 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
94505101 TGATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94505127 TGATAATGGGCTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94505153 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94505178 TGAT
1 TGAT
94505182 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 21 0.29
26 52 0.71
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94507901 original size:22 final size:22
Alignment explanation
Indices: 94507859--94507901 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
94507849 GAAGTGAAAA
* *
94507859 TGTTTTATTCTTTCTTTAATTT
1 TGTTTTAATCTTTCTTAAATTT
94507881 TGTTTTAAT-TTTCATTAAATT
1 TGTTTTAATCTTTC-TTAAATT
94507902 ACAAAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (22 bp):
TGTTTTAATCTTTCTTAAATTT
Found at i:94508040 original size:50 final size:50
Alignment explanation
Indices: 94507965--94508067 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
94507955 TCATCAATAA
*
94507965 TATCTAGGGCCTAATTGCCACTTAAGTCCTTTCTCATTTAGTAATTAAGC
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
94508015 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
94508065 TAT
1 TAT
94508068 TTGATCACCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (50 bp):
TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGC
Found at i:94508548 original size:295 final size:294
Alignment explanation
Indices: 94508015--94508560 Score: 966
Period size: 295 Copynumber: 1.9 Consensus size: 294
94508005 GTAATTAAGC
*
94508015 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAAGCTATTTGATCACCTAA
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
*
94508080 ATGAAATAGTTACCATGTTTTGCACCTTTTTCAATTTAGTCCTTCTTTCTTTAATTAGTTATCAA
66 ATGAAATAATTACCATGTTTTGCACCTTTTTCAATTTAGTCCTTCTTTCTTTAATTAGTTATCAA
* * *
94508145 AACGATAAAATTTCTTAACCAAAAATTACTAGGACTCTAATGACTCAAAAAATATTCTATAAATC
131 AACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAATA
* *
94508210 AAATCTTTGAGTCGACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCGTCACATATTATTT
196 AAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCGTCACATATTATTT
94508275 TATCATTTTCAATCAAATTATCACTCATCAATAA
261 TATCATTTTCAATCAAATTATCACTCATCAATAA
*
94508309 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCTCCTAA
1 TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
* *
94508374 ATGCAATAATTACCATGTTTTGCACCTTTTTCAATTTTAGTCCTTCTTTCTTTAATTAGTTATCT
66 ATGAAATAATTACCATGTTTTGCACCTTTTTCAA-TTTAGTCCTTCTTTCTTTAATTAGTTATCA
*
94508439 AAACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCGAAAAATATTCTATAAAT
130 AAACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAAT
* *
94508504 AAAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCGGAAACCACTGTTCTGTCAC
195 AAAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCGTCAC
94508561 CACTGAAAAA
Statistics
Matches: 238, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
294 95 0.40
295 143 0.60
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (294 bp):
TATCTAGGGCCTAATTGCCACTTAAGTCCTTCCTCATTTAGTAATTAACCTATTTGATCACCTAA
ATGAAATAATTACCATGTTTTGCACCTTTTTCAATTTAGTCCTTCTTTCTTTAATTAGTTATCAA
AACGATAAAATTTCTTAACCAAAAATTAATACGACTCTAATGACTCAAAAAATATTCTATAAATA
AAATCTGTGAGTCAACACAATGGAAATTTGTGGTTCAGAAACCACTGTTCCGTCACATATTATTT
TATCATTTTCAATCAAATTATCACTCATCAATAA
Found at i:94516159 original size:27 final size:27
Alignment explanation
Indices: 94516127--94516228 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
94516117 TAAATGAACC
* *
94516127 GCCTTTATGGCATACTATGTATATATG
1 GCCTTTGTGGCATACTCTGTATATATG
* *
94516154 GTCTTTGTGGCATACTCTATATATATG
1 GCCTTTGTGGCATACTCTGTATATATG
* *
94516181 GCCTTTGTGGCGTACTCTGTATATATA
1 GCCTTTGTGGCATACTCTGTATATATG
*
94516208 GCCTTTGTGGCGTACTCTGTA
1 GCCTTTGTGGCATACTCTGTA
94516229 CGGATCACCT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
GCCTTTGTGGCATACTCTGTATATATG
Found at i:94516170 original size:54 final size:54
Alignment explanation
Indices: 94516101--94516225 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
94516091 ATCCTGTCAA
* *
94516101 CCTTTGTGTCGTACTCTAAATGA-ACCGCCTTTATGGCATACTATGTATATATGG
1 CCTTTGTGGCGTACTCTAAAT-ATACCGCCTTTATGGCATACTATGTATATATAG
* * * ** * * *
94516155 TCTTTGTGGCATACTCTATATATATGGCCTTTGTGGCGTACTCTGTATATATAG
1 CCTTTGTGGCGTACTCTAAATATACCGCCTTTATGGCATACTATGTATATATAG
94516209 CCTTTGTGGCGTACTCT
1 CCTTTGTGGCGTACTCT
94516226 GTACGGATCA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (54 bp):
CCTTTGTGGCGTACTCTAAATATACCGCCTTTATGGCATACTATGTATATATAG
Found at i:94516239 original size:27 final size:27
Alignment explanation
Indices: 94516156--94516244 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
94516146 TATATATGGT
* * * * *
94516156 CTTTGTGGCATACTCTATATATATGGC
1 CTTTGTGGCGTACTCTGTACAGATAGC
* *
94516183 CTTTGTGGCGTACTCTGTATATATAGC
1 CTTTGTGGCGTACTCTGTACAGATAGC
*
94516210 CTTTGTGGCGTACTCTGTACGGATCA-C
1 CTTTGTGGCGTACTCTGTACAGAT-AGC
94516237 CTTTGTGG
1 CTTTGTGG
94516245 TGTATTTTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (27 bp):
CTTTGTGGCGTACTCTGTACAGATAGC
Found at i:94516240 original size:54 final size:54
Alignment explanation
Indices: 94516128--94516244 Score: 126
Period size: 54 Copynumber: 2.2 Consensus size: 54
94516118 AAATGAACCG
* * * * * **
94516128 CCTTTATGGCATACTATGTATATATGGTCTTTGTGGCATACTCTATATATATGG
1 CCTTTGTGGCATACTATGTATATATAGCCTTTGTGGCATACTCTATACAGATCA
* * * * *
94516182 CCTTTGTGGCGTACTCTGTATATATAGCCTTTGTGGCGTACTCTGTACGGATCA
1 CCTTTGTGGCATACTATGTATATATAGCCTTTGTGGCATACTCTATACAGATCA
94516236 CCTTTGTGG
1 CCTTTGTGG
94516245 TGTATTTTGT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (54 bp):
CCTTTGTGGCATACTATGTATATATAGCCTTTGTGGCATACTCTATACAGATCA
Found at i:94517097 original size:10 final size:10
Alignment explanation
Indices: 94517084--94517162 Score: 72
Period size: 10 Copynumber: 7.7 Consensus size: 10
94517074 AACATACATT
94517084 TCATAAATTA
1 TCATAAATTA
*
94517094 TCATAAACATA
1 TCATAAA-TTA
*
94517105 TACATACATT-
1 T-CATAAATTA
94517115 TCATAAATTA
1 TCATAAATTA
*
94517125 TCATAAACATA
1 TCATAAA-TTA
*
94517136 TACATACATT-
1 T-CATAAATTA
94517146 TCATAAATTA
1 TCATAAATTA
94517156 TCATAAA
1 TCATAAA
94517163 CATATAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 14 0.25
10 23 0.42
11 8 0.15
12 10 0.18
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.35
Consensus pattern (10 bp):
TCATAAATTA
Found at i:94517103 original size:21 final size:21
Alignment explanation
Indices: 94517079--94517180 Score: 79
Period size: 21 Copynumber: 4.9 Consensus size: 21
94517069 ACATAAACAT
94517079 ACATTTCATAAATTATCATAA
1 ACATTTCATAAATTATCATAA
* *
94517100 ACATATACATACATT-TCAT-A
1 ACAT-TTCATAAATTATCATAA
*
94517120 A-ATTATCATAAA-CAT-ATACA
1 ACATT-TCATAAATTATCATA-A
94517140 TACATTTCATAAATTATCATAA
1 -ACATTTCATAAATTATCATAA
* * *
94517162 ACATATAATAAATAATCAT
1 ACATTTCATAAATTATCAT
94517181 TCACCTACAT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
18 3 0.05
19 8 0.13
20 3 0.05
21 32 0.51
22 14 0.22
23 3 0.05
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (21 bp):
ACATTTCATAAATTATCATAA
Found at i:94517110 original size:31 final size:31
Alignment explanation
Indices: 94517069--94517168 Score: 191
Period size: 31 Copynumber: 3.2 Consensus size: 31
94517059 CTAACAGAAC
*
94517069 ACATAAACATACATTTCATAAATTATCATAA
1 ACATATACATACATTTCATAAATTATCATAA
94517100 ACATATACATACATTTCATAAATTATCATAA
1 ACATATACATACATTTCATAAATTATCATAA
94517131 ACATATACATACATTTCATAAATTATCATAA
1 ACATATACATACATTTCATAAATTATCATAA
94517162 ACATATA
1 ACATATA
94517169 ATAAATAATC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (31 bp):
ACATATACATACATTTCATAAATTATCATAA
Found at i:94526892 original size:40 final size:39
Alignment explanation
Indices: 94526811--94526956 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 39
94526801 CCGCACCAAG
* * * * * * *
94526811 GCCTACGGGACTTAACCCAGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCAGATATAACAACTAGCAC-AAT
* *
94526851 GCCTTCGGGTCTTAGCCCAGATTTAACAACTGGCACGAAT
1 GCCTTCGGGTCTTAGCCCAGATATAACAACTAGCAC-AAT
* * *
94526891 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCAGATATAACAACTAGCACAA-T
*
94526931 GCCTTCGGGTCTTAACCCAGATATAA
1 GCCTTCGGGTCTTAGCCCAGATATAA
94526957 TTTTCAGCAT
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.02
40 86 0.98
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCAGATATAACAACTAGCACAAT
Found at i:94526971 original size:40 final size:40
Alignment explanation
Indices: 94526843--94526994 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
94526833 ATCACGATTT
* * * * * *
94526843 GCACAAATGCCTTCGGGTCTTAGCCCAGATTTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
94526883 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * * **
94526923 GCACAATTGCCTTCGGGTCTTAACCCAGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
94526963 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
94526995 CATTCAATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 4 0.04
40 88 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:94534840 original size:71 final size:71
Alignment explanation
Indices: 94534754--94534917 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94534744 CGATTTGTCT
94534754 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94534819 CTTTCA
66 CTTTCA
94534825 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94534890 CTTTCA
66 CTTTCA
94534896 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
94534918 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:94534955 original size:71 final size:70
Alignment explanation
Indices: 94534754--94534951 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
94534744 CGATTTGTCT
* * * *
94534754 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94534819 CTTTCA
65 CTTTCA
* * * *
94534825 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94534890 CTTTCA
65 CTTTCA
* *
94534896 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
94534952 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:94537808 original size:39 final size:40
Alignment explanation
Indices: 94537630--94537812 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
94537620 CCGCACCAAG
* * * * * * * *
94537630 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
94537670 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
94537710 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
94537750 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
94537789 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
94537813 CATTCAATTT
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 31 0.26
40 88 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:94540664 original size:55 final size:54
Alignment explanation
Indices: 94540580--94540831 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 54
94540570 AGGGTTTAAG
*
94540580 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGAAAA
* ** * *
94540635 GATACCATGTAAGACCATGTCAAGACATGGC-ATTAATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGAAAA
* * * * *
94540690 GGT-CCTATGTAAAACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGCAAA
1 GATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGAAAA
* * *
94540743 GATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC--A--AAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGAAAA
* * *
94540792 GATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
94540832 GTACCAGTGT
Statistics
Matches: 164, Mismatches: 26, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 1 0.01
53 41 0.25
54 15 0.09
55 68 0.41
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGAAAA
Found at i:94541045 original size:16 final size:16
Alignment explanation
Indices: 94541024--94541054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94541014 ATAAACTTGA
94541024 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
94541040 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
94541055 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:94548883 original size:192 final size:192
Alignment explanation
Indices: 94548544--94548934 Score: 710
Period size: 192 Copynumber: 2.0 Consensus size: 192
94548534 GGCTTAAGTC
94548544 GTGGGCCCCACACGGGTAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
1 GTGGGCCCCACACGGGTAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
94548609 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGGCATGTGGGCCAACATGGGCCGTATTG
66 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGGCATGTGGGCCAACATGGGCCGTATTG
* * *
94548674 TAGGCTTTGGGCCCATTTCCACTGTTTGACTGCTAAAGTCTCATGGGTCGCCTAAGACGACT
131 TAAGCTTTAGGCCCATTTCCACTGTTTGACTGCTAAAGTCGCATGGGTCGCCTAAGACGACT
94548736 GTGGGCCCCACACGGGTAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
1 GTGGGCCCCACACGGGTAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
* *
94548801 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGGCGTGTGGGCCGACATGGGCCGTATTG
66 ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGGCATGTGGGCCAACATGGGCCGTATTG
* * *
94548866 TAAGCTTTAGTCCCATTTCCACTGTTTGACTGCTAAGGTCGCATGGGTCGCCTTAGACGACT
131 TAAGCTTTAGGCCCATTTCCACTGTTTGACTGCTAAAGTCGCATGGGTCGCCTAAGACGACT
94548928 GTGGGCC
1 GTGGGCC
94548935 TACTGATGGG
Statistics
Matches: 191, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
192 191 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (192 bp):
GTGGGCCCCACACGGGTAAACCACATGGATGTGTAGAGTTTTGTGGGCTAGGCTGTGTAGATCAC
ACAGCCAAGGTCATTATTGGGTTTAATGGGCTACACGGGCATGTGGGCCAACATGGGCCGTATTG
TAAGCTTTAGGCCCATTTCCACTGTTTGACTGCTAAAGTCGCATGGGTCGCCTAAGACGACT
Found at i:94549120 original size:21 final size:21
Alignment explanation
Indices: 94549096--94549136 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
94549086 AAGTGTACTG
*
94549096 TACTAGAAGCTCTGCTGCAAT
1 TACTAGAAGCTCTACTGCAAT
* *
94549117 TACTGGCAGCTCTACTGCAA
1 TACTAGAAGCTCTACTGCAA
94549137 ACACTGATTA
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:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
TACTAGAAGCTCTACTGCAAT
Found at i:94549142 original size:21 final size:21
Alignment explanation
Indices: 94549103--94549142 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94549093 CTGTACTAGA
* **
94549103 AGCTCTGCTGCAATTACTGGC
1 AGCTCTACTGCAAACACTGGC
94549124 AGCTCTACTGCAAACACTG
1 AGCTCTACTGCAAACACTG
94549143 ATTAATGCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (21 bp):
AGCTCTACTGCAAACACTGGC
Found at i:94549316 original size:34 final size:34
Alignment explanation
Indices: 94549271--94549347 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
94549261 GTTGCATTTT
*
94549271 CTGATACTGTTATTGTAATGGGCTAAAGCCCACA
1 CTGATATTGTTATTGTAATGGGCTAAAGCCCACA
* *
94549305 CTGATATTGTTATTGTAATGGGCTAAGGCCTACA
1 CTGATATTGTTATTGTAATGGGCTAAAGCCCACA
94549339 CTGATATTG
1 CTGATATTG
94549348 GACTGTAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (34 bp):
CTGATATTGTTATTGTAATGGGCTAAAGCCCACA
Found at i:94556579 original size:29 final size:29
Alignment explanation
Indices: 94556537--94556605 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
94556527 TTAACCTTTA
94556537 GCGGCGCTTTTAAGCGCCACTAAATTTTT
1 GCGGCGCTTTTAAGCGCCACTAAATTTTT
94556566 GCGGCGCTTTTAAGCGCCACTAAATTTTT
1 GCGGCGCTTTTAAGCGCCACTAAATTTTT
*
94556595 GCGGCTCTTTT
1 GCGGCGCTTTT
94556606 GAAAACGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (29 bp):
GCGGCGCTTTTAAGCGCCACTAAATTTTT
Found at i:94556782 original size:42 final size:42
Alignment explanation
Indices: 94556665--94556783 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 42
94556655 GGCGTTTATT
* * *
94556665 TAAAAAAAGGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTG
1 TAAAAAAAAGCCGCTAAAAGTCATGACTTTTAGAGGCGTTTG
** **
94556707 TAAAAATAAAAGTTGCTAAAAGTCATGGTTTTTAGAGGCGTTTG
1 T-AAAA-AAAAGCCGCTAAAAGTCATGACTTTTAGAGGCGTTTG
*
94556751 TAAAAAAATGCCGCTAAAAGTCATGACTTTTAG
1 TAAAAAAAAGCCGCTAAAAGTCATGACTTTTAG
94556784 CGGACTTTTA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 24 0.38
43 8 0.13
44 31 0.49
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (42 bp):
TAAAAAAAAGCCGCTAAAAGTCATGACTTTTAGAGGCGTTTG
Found at i:94556996 original size:33 final size:31
Alignment explanation
Indices: 94556918--94557000 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
94556908 CTTCCTGCAT
* * *
94556918 TAAAATTCAACCAAATACAATAAATATAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * *
94556949 TAAAATGCAGCCAAAAACAACAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
94556980 TAAAAAATACAACCAAAAACA
1 T--AAAATACAACCAAAAACA
94557001 TTAATTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 27 0.63
33 16 0.37
ACGTcount: A:0.60, C:0.18, G:0.05, T:0.17
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:94557259 original size:21 final size:21
Alignment explanation
Indices: 94557235--94557310 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
94557225 ACTGCCATCA
94557235 CTGCTGCCTCTGCCTCCTTTG
1 CTGCTGCCTCTGCCTCCTTTG
* * * *
94557256 CTGCTGTCGCTGCCTCCCTCG
1 CTGCTGCCTCTGCCTCCTTTG
* *
94557277 CTACTGCCGT-TGCCTCCCTCT-
1 CTGCTGCC-TCTGCCT-CCTTTG
94557298 CTGCTGCCTCTGC
1 CTGCTGCCTCTGC
94557311 TCTAAGTTGT
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 38 0.93
22 2 0.05
ACGTcount: A:0.01, C:0.46, G:0.20, T:0.33
Consensus pattern (21 bp):
CTGCTGCCTCTGCCTCCTTTG
Found at i:94557747 original size:13 final size:14
Alignment explanation
Indices: 94557722--94557750 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94557712 TGATGAATTG
94557722 AATTAAACAATTAT
1 AATTAAACAATTAT
94557736 AATTAAAC-ATTAT
1 AATTAAACAATTAT
94557749 AA
1 AA
94557751 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:94558287 original size:22 final size:22
Alignment explanation
Indices: 94558236--94558279 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
94558226 TCTTTCCTAA
*
94558236 AATATTATTTTTTTAAAGTGCT
1 AATATTGTTTTTTTAAAGTGCT
94558258 AATATTGTTTTTTTAAAGTGCT
1 AATATTGTTTTTTTAAAGTGCT
94558280 TTTATTGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (22 bp):
AATATTGTTTTTTTAAAGTGCT
Found at i:94562774 original size:9 final size:9
Alignment explanation
Indices: 94562748--94562860 Score: 56
Period size: 9 Copynumber: 12.8 Consensus size: 9
94562738 TAAATTTCAT
*
94562748 AGTTAAGTA
1 AGTTATGTA
94562757 AGCTT-TGTA
1 AG-TTATGTA
94562766 AGTTATGTA
1 AGTTATGTA
*
94562775 AGTTATGTT
1 AGTTATGTA
* *
94562784 A-TGATATA
1 AGTTATGTA
*
94562792 CATTTATGTA
1 -AGTTATGTA
*
94562802 AGGTATGTA
1 AGTTATGTA
94562811 AGTTATGATA
1 AGTTATG-TA
* * *
94562821 TGATATAT-
1 AGTTATGTA
*
94562829 ATTTATGT-
1 AGTTATGTA
94562837 A-TTATGTA
1 AGTTATGTA
*
94562845 AGTTGTGTA
1 AGTTATGTA
*
94562854 GGTTATG
1 AGTTATG
94562861 ATATGATATA
Statistics
Matches: 77, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
7 6 0.08
8 12 0.16
9 46 0.60
10 13 0.17
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
AGTTATGTA
Found at i:94562802 original size:36 final size:36
Alignment explanation
Indices: 94562762--94563011 Score: 151
Period size: 36 Copynumber: 7.0 Consensus size: 36
94562752 AAGTAAGCTT
*
94562762 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
* *
94562798 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
* * *
94562834 TGT-A-TTATGTAAGTTGTGTAGGTTATGATATGATATATA
1 TGTAAGTTATGTAAGTTATG-A---TATGATAT-ACATTTA
* * * * ** * **
94562873 TTTAAGATATAT-ATTTATG-TATTTTGTA-AGGTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
* * *
94562906 TATAAGTTATGTAAGTTATTATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
**
94562942 TGTAAGTTAT-T-A--TATGATAT-ATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGATA--TACAT-TTA
* * *
94562976 TGTAAGTTTTGTAAGTTATTATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
94563012 ACATTAAGAT
Statistics
Matches: 164, Mismatches: 32, Indels: 36
0.71 0.14 0.16
Matches are distributed among these distances:
31 3 0.02
32 7 0.04
33 16 0.10
34 31 0.19
35 15 0.09
36 52 0.32
37 4 0.02
38 15 0.09
39 11 0.07
40 6 0.04
41 4 0.02
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGATATACATTTA
Found at i:94562859 original size:43 final size:43
Alignment explanation
Indices: 94562795--94563011 Score: 195
Period size: 43 Copynumber: 4.9 Consensus size: 43
94562785 TGATATACAT
*
94562795 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
* * *
94562838 TTATGTAAGTTGTGTAGGTTATGATATGATATATATTTAAGATA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG-TA
* * * * * * * *
94562882 TATATTTATGTATTTTGTAAGGTAT-ATAAGTTATGTAAGTTAT-TA
1 T-TATGTAAG--TTATGTAAGTTATGATATGATATAT-ATTTATGTA
* * *
94562927 TATGATATATATTTATGTAAGTTATTATATGATATATATTTATGTA
1 T-T-ATGTA-AGTTATGTAAGTTATGATATGATATATATTTATGTA
* *
94562973 TTATGTAAGTTTTGTAAGTTATTATATGATATATATTTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
94563012 ACATTAAGAT
Statistics
Matches: 139, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
43 67 0.48
44 7 0.05
45 28 0.20
46 23 0.17
47 14 0.10
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.50
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:94562883 original size:13 final size:13
Alignment explanation
Indices: 94562865--94562889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94562855 GTTATGATAT
94562865 GATATATATTTAA
1 GATATATATTTAA
94562878 GATATATATTTA
1 GATATATATTTA
94562890 TGTATTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
GATATATATTTAA
Found at i:94562915 original size:56 final size:52
Alignment explanation
Indices: 94562800--94562945 Score: 157
Period size: 56 Copynumber: 2.7 Consensus size: 52
94562790 TACATTTATG
* * * * * *
94562800 TAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTGTG
1 TAAGTTATGTAAGTTATTATAAGATATATATTTATGTATTATGTAAGGTATA
* * * *
94562852 TAGGTTATGATATGATATATATTTAAGATATATATTTATGTATTTTGTAAGGTATA
1 TAAGTTATG-TAAG-T-TAT-TATAAGATATATATTTATGTATTATGTAAGGTATA
*
94562908 TAAGTTATGTAAGTTATTATATGATATATATTTATGTA
1 TAAGTTATGTAAGTTATTATAAGATATATATTTATGTA
94562946 AGTTATTATA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
52 26 0.34
53 6 0.08
54 2 0.03
55 6 0.08
56 36 0.47
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (52 bp):
TAAGTTATGTAAGTTATTATAAGATATATATTTATGTATTATGTAAGGTATA
Found at i:94562989 original size:70 final size:70
Alignment explanation
Indices: 94562805--94563011 Score: 257
Period size: 70 Copynumber: 3.0 Consensus size: 70
94562795 TTATGTAAGG
* * * *
94562805 TATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTGTGTAGGTTATGATATGATAT
1 TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATAT
94562870 ATA--
66 ATATT
* * * * *
94562873 T-T-TAAGATA-TATAT-TTATGTATTT-TGTAAGGTATATAAGTTATGTAAGTTATTATATGAT
1 TATGTAAGTTATTATATGATATATATTTATGT-A-TTATGTAAGTTATGTAAGTTATTATATGAT
94562933 ATATATT
64 ATATATT
*
94562940 TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATTATATGATAT
1 TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATAT
94563005 ATATT
66 ATATT
94563010 TA
1 TA
94563012 ACATTAAGAT
Statistics
Matches: 115, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
63 3 0.03
64 9 0.08
65 34 0.30
66 6 0.05
67 2 0.02
68 2 0.02
69 6 0.05
70 41 0.36
71 9 0.08
72 3 0.03
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (70 bp):
TATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATAT
ATATT
Found at i:94563754 original size:88 final size:88
Alignment explanation
Indices: 94563595--94563756 Score: 191
Period size: 88 Copynumber: 1.8 Consensus size: 88
94563585 AGTTTGAAGG
* * * * * ** * * *
94563595 CCTTTTTGATGCATTTTGAAAGTTTAAGTACCTAATTGAGTGAAAAAAAAGTAGGGGTTTAATTT
1 CCTTTTTGATACATTTTAAAAGTTTAAGTACCCAAATGAATGAAAAAAAACAAGGAGCTTAATTA
**
94563660 TTTTTTTTTTTTAAATTTGAGAA
66 AATTTTTTTTTTAAATTTGAGAA
*
94563683 CCTTTTTGATACATTTTAAAAGTTTAAGTACCCAAATGAAT-AAAAAAGAACAAGGAGCTTAGTT
1 CCTTTTTGATACATTTTAAAAGTTTAAGTACCCAAATGAATGAAAAAA-AACAAGGAGCTTAATT
94563747 AAATTTTTTT
65 AAATTTTTTT
94563757 GTAAAAAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
87 6 0.10
88 54 0.90
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (88 bp):
CCTTTTTGATACATTTTAAAAGTTTAAGTACCCAAATGAATGAAAAAAAACAAGGAGCTTAATTA
AATTTTTTTTTTAAATTTGAGAA
Found at i:94565510 original size:19 final size:20
Alignment explanation
Indices: 94565476--94565514 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
94565466 AAGAAATTTG
*
94565476 TCTAATATGATTAAAAATAT
1 TCTAAAATGATTAAAAATAT
94565496 TCTAAAATG-TTAAAAATAT
1 TCTAAAATGATTAAAAATAT
94565515 ATATGTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
TCTAAAATGATTAAAAATAT
Found at i:94567679 original size:14 final size:13
Alignment explanation
Indices: 94567645--94567680 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
94567635 TATTATCTCT
94567645 TAAAAATTTAATC
1 TAAAAATTTAATC
94567658 TAAAAATTTAATC
1 TAAAAATTTAATC
94567671 TAAATAATTT
1 TAAA-AATTT
94567681 TATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAAATTTAATC
Found at i:94567942 original size:8 final size:7
Alignment explanation
Indices: 94567832--94568030 Score: 79
Period size: 7 Copynumber: 28.3 Consensus size: 7
94567822 ACCTTAAAAT
94567832 CCTAAAC
1 CCTAAAC
*
94567839 CCTATA-
1 CCTAAAC
*
94567845 CATAAAC
1 CCTAAAC
94567852 CCTAAAC
1 CCTAAAC
*
94567859 CCTGAAC
1 CCTAAAC
94567866 CC-ATAAC
1 CCTA-AAC
* *
94567873 CATTAACC
1 C-CTAAAC
94567881 CCTAAAC
1 CCTAAAC
*
94567888 CTTAAAC
1 CCTAAAC
*
94567895 CC-CAAC
1 CCTAAAC
94567901 CCTTAAAC
1 CC-TAAAC
* **
94567909 CATAATT
1 CCTAAAC
*
94567916 CATAAAC
1 CCTAAAC
*
94567923 CTTAAAC
1 CCTAAAC
94567930 CCTAAACC
1 CCTAAA-C
94567938 CCT-AAC
1 CCTAAAC
* *
94567944 CTTATAC
1 CCTAAAC
94567951 CCTAAAAC
1 CCT-AAAC
*
94567959 CATAAAC
1 CCTAAAC
* *
94567966 CTTATA-
1 CCTAAAC
*
94567972 CATAAAC
1 CCTAAAC
94567979 CCTAAAC
1 CCTAAAC
*
94567986 CCTAAGCC
1 CCTAA-AC
94567994 CCT-AAC
1 CCTAAAC
94568000 CCGT-AAC
1 CC-TAAAC
*
94568007 CCTTAAC
1 CCTAAAC
*
94568014 CATTAAAC
1 C-CTAAAC
*
94568022 CTTAAAC
1 CCTAAAC
94568029 CC
1 CC
94568031 CAGCCCTTAA
Statistics
Matches: 142, Mismatches: 36, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
6 20 0.14
7 96 0.68
8 25 0.18
9 1 0.01
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:94567979 original size:56 final size:56
Alignment explanation
Indices: 94567898--94568025 Score: 152
Period size: 56 Copynumber: 2.3 Consensus size: 56
94567888 CTTAAACCCC
* * * * *
94567898 AACCCTTAAACCATAATTCATAAACCTTAAACCCTAAACCCCTAA-CCTTATACCCTAA
1 AACCATTAAACC-TTATACATAAACCCTAAACCCTAAACCCCTAACCCGTA-ACCCT-A
* *
94567956 AACCA-TAAACCTTATACATAAACCCTAAACCCTAAGCCCCTAACCCGTAACCCTT
1 AACCATTAAACCTTATACATAAACCCTAAACCCTAAACCCCTAACCCGTAACCCTA
94568011 AACCATTAAACCTTA
1 AACCATTAAACCTTA
94568026 AACCCCAGCC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
55 5 0.08
56 42 0.69
57 10 0.16
58 4 0.07
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.23
Consensus pattern (56 bp):
AACCATTAAACCTTATACATAAACCCTAAACCCTAAACCCCTAACCCGTAACCCTA
Found at i:94568240 original size:7 final size:7
Alignment explanation
Indices: 94568228--94568339 Score: 73
Period size: 7 Copynumber: 15.7 Consensus size: 7
94568218 ACTAATTAAT
94568228 CTAAACC
1 CTAAACC
94568235 CTAAACC
1 CTAAACC
*
94568242 CATAATCC
1 C-TAAACC
*
94568250 CTAATCC
1 CTAAACC
*
94568257 CTAATCC
1 CTAAACC
*
94568264 ATAAACC
1 CTAAACC
*
94568271 CTAAATC
1 CTAAACC
* *
94568278 ATAAAAC
1 CTAAACC
* *
94568285 ATAAACT
1 CTAAACC
94568292 CTAAACCC
1 CTAAA-CC
*
94568300 CTAACCC
1 CTAAACC
94568307 CT-AACC
1 CTAAACC
94568313 CTTAAACC
1 C-TAAACC
* *
94568321 ATAATCC
1 CTAAACC
94568328 CTAAACC
1 CTAAACC
*
94568335 TTAAA
1 CTAAA
94568340 ATAATAACTC
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
6 4 0.05
7 64 0.77
8 15 0.18
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:94571358 original size:20 final size:20
Alignment explanation
Indices: 94571310--94571392 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
94571300 TACACCATAC
* *
94571310 TAGAGGCATCATAGATGCATAA
1 TAGAGGCACCAAAG-TGCA-AA
*
94571332 CAGAGGCACCAAAGTGCAAA
1 TAGAGGCACCAAAGTGCAAA
94571352 TAGAGGCA-CAAATGTGC-AA
1 TAGAGGCACCAAA-GTGCAAA
* **
94571371 TCAAAGGCACTGAAGTGCAAA
1 T-AGAGGCACCAAAGTGCAAA
94571392 T
1 T
94571393 CCCGTACAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
19 7 0.14
20 23 0.46
21 9 0.18
22 11 0.22
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (20 bp):
TAGAGGCACCAAAGTGCAAA
Found at i:94573006 original size:128 final size:121
Alignment explanation
Indices: 94572817--94573044 Score: 325
Period size: 128 Copynumber: 1.8 Consensus size: 121
94572807 AAAAATAGAA
* *
94572817 AGTTTAGATTTTAACAAATAAAAATCTATTTTTTTATTTTAAAGAAAATATTAAATTTTTAAAAC
1 AGTTTAAATTTTAACAAATAAAAATCTATTTTTTTATTTTAAAGAAAATATTAAAATTTTAAAAC
*
94572882 AAAGTTTTGATTTTTCTTTCAACTATTTCAAAGTAAAAAATACTGTTTTTTTAAAGAG
66 AAAGTTTTGATTTTTC-TT-AACTATTTCAAAATAAAAAATACTGTTTTTTTAAAGAG
94572940 AGTTTAAATTTTAA-AAAGTAAAAATCTATTTTTTTAAGTCATTTTAAAGAAAAGT-TTAAAATT
1 AGTTTAAATTTTAACAAA-TAAAAATCTA-TTTTTT---T-ATTTTAAAGAAAA-TATTAAAATT
*
94573003 TTAAAACAAAGTTTTGTTTTTTCTTAACTATTTCAAAATAAA
59 TTAAAACAAAGTTTTGATTTTTCTTAACTATTTCAAAATAAA
94573045 GTTTTGATTT
Statistics
Matches: 94, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
122 3 0.03
123 23 0.24
124 6 0.06
126 16 0.17
127 3 0.03
128 42 0.45
129 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (121 bp):
AGTTTAAATTTTAACAAATAAAAATCTATTTTTTTATTTTAAAGAAAATATTAAAATTTTAAAAC
AAAGTTTTGATTTTTCTTAACTATTTCAAAATAAAAAATACTGTTTTTTTAAAGAG
Found at i:94582772 original size:42 final size:42
Alignment explanation
Indices: 94582703--94583054 Score: 461
Period size: 42 Copynumber: 8.4 Consensus size: 42
94582693 AAAGAGAACA
* * **
94582703 TTCATTGCATTTAAAGGCCCAAATGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
*
94582745 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTTCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * * * *
94582787 TTCATTGCATTTAGAGGCCTAGGTGTTGAGGTTCATTCATTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* *
94582829 TTCATTGCATTTAGAGACCCAGGTGTGGAGGGCCATTGACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * * *
94582871 TTCATTGCATTTAGAGGCCCAAGTATGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * * * *
94582913 TTCATTGCTTTTAGAGAACCAAGTGTGGAAGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* **
94582955 TTCATTGCATTTAGAGGCCCAGGTGTTAAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
* * *
94582997 TTCTTTGCATTTAGAGACCTAGGTGTGGAGGTCCATTAACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
94583039 TTCATTGCATTTAGAG
1 TTCATTGCATTTAGAG
94583055 CGGTCCATTT
Statistics
Matches: 269, Mismatches: 41, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 269 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
Found at i:94583099 original size:16 final size:16
Alignment explanation
Indices: 94583078--94583108 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
94583068 TTTCTAGTTT
94583078 ACTTTTCATTGCATTG
1 ACTTTTCATTGCATTG
94583094 ACTTTTCATTGCATT
1 ACTTTTCATTGCATT
94583109 TAGAGGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (16 bp):
ACTTTTCATTGCATTG
Found at i:94584151 original size:156 final size:150
Alignment explanation
Indices: 94583862--94584264 Score: 489
Period size: 156 Copynumber: 2.7 Consensus size: 150
94583852 TTTTTTTTAA
* *
94583862 AATAA-AAAGAGAAAGTTTAGTTTTT-AACAAATAAAAATCTTTTTTTTTGTTATTTTAAAGGAA
1 AATAATAAAGAGAAAGTTTAATTTTTGAA-AAATAAAAATCTTTTTTTTTGTCATTTTAAAGGAA
* *
94583925 AGTTTAAATTTTTAAAACAAAGTTTTGA-TTTTTTTTTCAACTATTTCAAAGTAATAACTTTAAT
65 AGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTACAAAGTAATAACTTTAAT
* *
94583989 CTTTTAAGAAAAATAGTGTTTAAAAAT
130 CATTTAA-AAAAATAGAGTTT-----T
* * *
94584016 AATAATAAAGAGAAAGTTTAATTTTTGAAAATTAAAATTTTGTTTTTTTTGTCATTTTAAAGGAA
1 AATAATAAAGAGAAAGTTTAATTTTTGAAAAATAAAAATCT-TTTTTTTTGTCATTTTAAAGGAA
94584081 AGTTTAAATTTTTAAAACAAAGTTTTGATTTTTGTTTTTCAACTACTACAAA-TAA-AAGCTTTA
65 AGTTTAAATTTTTAAAACAAAGTTTTGATTTTT-TTTTTCAACTACTACAAAGTAATAA-CTTTA
94584144 AT-ATTTAAAAAAATAGAGTTTT
128 ATCATTTAAAAAAATAGAGTTTT
* ** * * **
94584166 -TTTTTAAA-AAAAAGTTTAAATTTTGAAAAATAAAAATCTATTTTTTCAAGTCATTTTAAAGGA
1 AATAATAAAGAGAAAGTTTAATTTTTGAAAAATAAAAATCT-TTTTTT-TTGTCATTTTAAAGGA
*
94584229 AAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTT
64 AAGTTTAAATTTTTAAAACAAAGTTTTGATTTTTTT
94584265 AACTATTTTG
Statistics
Matches: 221, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
148 34 0.15
149 52 0.24
150 1 0.00
154 5 0.02
155 40 0.18
156 59 0.27
157 14 0.06
158 16 0.07
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (150 bp):
AATAATAAAGAGAAAGTTTAATTTTTGAAAAATAAAAATCTTTTTTTTTGTCATTTTAAAGGAAA
GTTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTTTCAACTACTACAAAGTAATAACTTTAATC
ATTTAAAAAAATAGAGTTTT
Found at i:94584266 original size:30 final size:31
Alignment explanation
Indices: 94584232--94584293 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
94584222 TAAAGGAAAG
*
94584232 TTTAA-AATTTTAAAACAAAGTTTTGATTTT
1 TTTAACAATTTTAAAACAAAGTTTTGACTTT
* * *
94584262 TTTAACTATTTTGAAATAAAGTTTTGACTTT
1 TTTAACAATTTTAAAACAAAGTTTTGACTTT
94584293 T
1 T
94584294 AAGAAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTAACAATTTTAAAACAAAGTTTTGACTTT
Found at i:94584841 original size:2 final size:2
Alignment explanation
Indices: 94584834--94584865 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94584824 TTTTCATGTC
94584834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94584866 GTTTACACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94587608 original size:59 final size:60
Alignment explanation
Indices: 94587487--94587623 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 60
94587477 TCAAGCTCTA
* *
94587487 CTGGGCCTAAGCCCTATTCAGAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATACAGAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATCAAT
* * * *
94587548 CTGGGCCATAGCCCT-TACAGTATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAAT
1 CTGGGCC-TAGCCCTATACAGAATCAGAGTTA-ACTAGGCCTTAGCCCATATCAATATCAAT
94587607 CTGGGCCGTAGCCCTAT
1 CTGGGCC-TAGCCCTAT
94587624 TACAAGTCGA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 33 0.50
60 19 0.29
61 13 0.20
62 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATACAGAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATCAAT
Found at i:94591628 original size:61 final size:63
Alignment explanation
Indices: 94591495--94591628 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 63
94591485 ACTAGACCTA
*
94591495 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATATGGGCCAT
1 AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATATGGGCCAT
* * * * * *
94591557 AGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAATCTGGGCCGT
1 AGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATATGGGCCAT
94591617 AGCCCTATTACA
1 AGCCCTATTACA
94591629 AGTCGAGATA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 31 0.51
61 22 0.36
62 8 0.13
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (63 bp):
AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATATGGGCCAT
Found at i:94591675 original size:20 final size:20
Alignment explanation
Indices: 94591650--94591695 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
94591640 GTTGGGCATT
94591650 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
94591670 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
94591689 GCCCATA
1 GCCCATA
94591696 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:94591704 original size:19 final size:20
Alignment explanation
Indices: 94591662--94591705 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
94591652 CCATATTAAC
** *
94591662 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
94591682 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
94591701 ACAGT
1 ACAGT
94591706 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:94596137 original size:12 final size:12
Alignment explanation
Indices: 94596122--94596155 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
94596112 CAGTAAAAGA
*
94596122 ATGATATGTATC
1 ATGACATGTATC
94596134 ATGACATGTATC
1 ATGACATGTATC
94596146 ATGACATGTA
1 ATGACATGTA
94596156 CATATATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (12 bp):
ATGACATGTATC
Found at i:94607251 original size:45 final size:45
Alignment explanation
Indices: 94607187--94607282 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
94607177 TTATCATAAA
* * *
94607187 CATGACGAAAACGAGTAAGACTATAGCCGAAAGACGCTATGGCAT
1 CATGACGAAAACAAGTAAGACCATAGCCAAAAGACGCTATGGCAT
* **
94607232 CATGATGAAAACAAGTAAGACCATAGTTAAAAGACGCTATGGCAT
1 CATGACGAAAACAAGTAAGACCATAGCCAAAAGACGCTATGGCAT
94607277 CATGAC
1 CATGAC
94607283 AGAAGTGAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.18
Consensus pattern (45 bp):
CATGACGAAAACAAGTAAGACCATAGCCAAAAGACGCTATGGCAT
Found at i:94609751 original size:39 final size:41
Alignment explanation
Indices: 94609702--94609787 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
94609692 TGTAAAACAT
94609702 AGAGCAATAGC-GACG-TTTTTGGT-AAACGCCGCTAAAAAC
1 AGAGCAATAGCAG-CGTTTTTTGGTAAAACGCCGCTAAAAAC
* * *
94609741 AGAGTAATAGCAGCGTTTTTTGTTAAAATGCCGCTAAAAAC
1 AGAGCAATAGCAGCGTTTTTTGGTAAAACGCCGCTAAAAAC
94609782 AGAGCA
1 AGAGCA
94609788 TAAACCGCCG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 12 0.30
40 8 0.20
41 20 0.50
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (41 bp):
AGAGCAATAGCAGCGTTTTTTGGTAAAACGCCGCTAAAAAC
Found at i:94609855 original size:41 final size:41
Alignment explanation
Indices: 94609795--94610008 Score: 266
Period size: 41 Copynumber: 5.2 Consensus size: 41
94609785 GCATAAACCG
* * * *
94609795 CCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGAAAAACA
1 CCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGTAAAACA
* * * **
94609836 CCCCTAAAAACCAGAGCATTAACGGCGCTTTCGGTAAAATG
1 CCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGTAAAACA
* * *
94609877 CCGCTAAAAATCGGAGCATTAGCGGCGTTTTCGGTAAAACG
1 CCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGTAAAACA
*
94609918 CCGCTAAAAATCGGAGCATTAGCGGCGCTTTCGGTAAAACA
1 CCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGTAAAACA
* * * *
94609959 CTGCTAAAAACTGGAGCATTAACGGTGCTTTCGGTAAAACA
1 CCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGTAAAACA
*
94610000 CTGCTAAAA
1 CCGCTAAAA
94610009 GTCATATAAC
Statistics
Matches: 153, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 153 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (41 bp):
CCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGTAAAACA
Found at i:94610126 original size:14 final size:15
Alignment explanation
Indices: 94610103--94610143 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
94610093 TAAAAAATCT
*
94610103 TAAACCCTAAACTA-
1 TAAACCCTAAAATAC
*
94610117 TAACCCCTAAAATAC
1 TAAACCCTAAAATAC
94610132 TAAACCCTAAAA
1 TAAACCCTAAAA
94610144 AACATCACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCTAAAATAC
Found at i:94610335 original size:15 final size:15
Alignment explanation
Indices: 94610312--94610365 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
94610302 TATTTTAAGT
*
94610312 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
94610327 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
94610341 TTTAAGGG-TTAGGGG
1 TTT-AGGGATTATGGG
*
94610356 TCTA-GGATTA
1 TTTAGGGATTA
94610366 AGAGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:94610338 original size:22 final size:21
Alignment explanation
Indices: 94610313--94610367 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
94610303 ATTTTAAGTT
*
94610313 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
94610335 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
94610356 TCTA-GGATTAAG
1 T-TATGGATTAAG
94610368 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:94610549 original size:14 final size:14
Alignment explanation
Indices: 94610530--94610568 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
94610520 ATCATTATAG
94610530 TTTAGGGTTTACGA
1 TTTAGGGTTTACGA
* *
94610544 TTTAGGGTATATGA
1 TTTAGGGTTTACGA
*
94610558 TTAAGGGTTTA
1 TTTAGGGTTTA
94610569 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTACGA
Found at i:94610644 original size:7 final size:7
Alignment explanation
Indices: 94610634--94610667 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
94610624 TAAAGTTTAA
94610634 GGGTTAG
1 GGGTTAG
94610641 GGGTTAG
1 GGGTTAG
94610648 GGGTTAG
1 GGGTTAG
94610655 GGGTTAG
1 GGGTTAG
94610662 GGGTTA
1 GGGTTA
94610668 TACATTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:94611040 original size:19 final size:19
Alignment explanation
Indices: 94611018--94611057 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
94611008 CATTGATAAC
*
94611018 AAATAAAAATGAAATACAA
1 AAATAAAAATAAAATACAA
* *
94611037 AAATGAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
94611056 AA
1 AA
94611058 TAGAGATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:94611743 original size:2 final size:2
Alignment explanation
Indices: 94611738--94611762 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94611728 TGAAAAAAGT
94611738 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
94611763 TGTATTTATT
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:94613997 original size:42 final size:44
Alignment explanation
Indices: 94613951--94614100 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 44
94613941 CGTTTATGTG
* *
94613951 AAAAGCGTCGCTAAAGGTC-T-GTTTTATAGCGGCGTTTGTGAA
1 AAAAGCGCCGCTAAAGGTCATGGTTTTATAGCGGCGTTTGCGAA
* * * * ** *
94613993 AAAAGTGCCACTAAAAGTCATGGTCTT-TAGCGATGTTTGCGAG
1 AAAAGCGCCGCTAAAGGTCATGGTTTTATAGCGGCGTTTGCGAA
*
94614036 AAAAGCGCCGCTAAAGGTCATGGTCTTTA-A-CGGAGTTTGCGAA
1 AAAAGCGCCGCTAAAGGTCATGGT-TTTATAGCGGCGTTTGCGAA
*
94614079 AAAAGCGCCGCTAAAAGTCATG
1 AAAAGCGCCGCTAAAGGTCATG
94614101 ATCTTTAGCG
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
42 15 0.17
43 65 0.75
44 7 0.08
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
AAAAGCGCCGCTAAAGGTCATGGTTTTATAGCGGCGTTTGCGAA
Found at i:94614031 original size:43 final size:42
Alignment explanation
Indices: 94613984--94614110 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 42
94613974 TTATAGCGGC
* * *
94613984 GTTTGTGAAAAAAGTGCCACTAAAAGTCATGGTCTTTAGCGA
1 GTTTGCGAAAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGA
* * *
94614026 TGTTTGCGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAACGGA
1 -GTTTGCGAAAAAAGCGCCGCTAAAAGTCATGGTCTTTAGC-GA
*
94614070 GTTTGCGAAAAAAGCGCCGCTAAAAGTCATGATCTTTAGCG
1 GTTTGCGAAAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCG
94614111 GCTTTTTTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.96
44 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (42 bp):
GTTTGCGAAAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGA
Found at i:94614107 original size:86 final size:85
Alignment explanation
Indices: 94613950--94614110 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
94613940 GCGTTTATGT
* * * *
94613950 GAAAAGCGTCGCTAAAGGTCTGTTTTATAGCGGCGTTTGTGAAAAAAGTGCCACTAAAAGTCATG
1 GAAAAGCGCCGCTAAAGGTCTGTTTTATAGCGGAGTTTGCGAAAAAAGCGCCACTAAAAGTCATG
*
94614015 GTCTTTAGCGATGTTTGCGA
66 ATCTTTAGCGATGTTTGCGA
*
94614035 GAAAAGCGCCGCTAAAGGTCATGGTCTTTA-A-CGGAGTTTGCGAAAAAAGCGCCGCTAAAAGTC
1 GAAAAGCGCCGCTAAAGGTC-T-GT-TTTATAGCGGAGTTTGCGAAAAAAGCGCCACTAAAAGTC
94614098 ATGATCTTTAGCG
63 ATGATCTTTAGCG
94614111 GCTTTTTTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 19 0.28
86 41 0.61
87 3 0.04
88 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (85 bp):
GAAAAGCGCCGCTAAAGGTCTGTTTTATAGCGGAGTTTGCGAAAAAAGCGCCACTAAAAGTCATG
ATCTTTAGCGATGTTTGCGA
Found at i:94619251 original size:19 final size:19
Alignment explanation
Indices: 94619227--94619273 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
94619217 AGTATTGGAA
94619227 AAAAAAACGTAA-TAAAAAT
1 AAAAAAACG-AAGTAAAAAT
94619246 AAAAAATA-GAAGTAAAAAT
1 AAAAAA-ACGAAGTAAAAAT
94619265 AAAGAAAAC
1 AAA-AAAAC
94619274 TAGTTGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAAAAACGAAGTAAAAAT
Found at i:94619483 original size:11 final size:11
Alignment explanation
Indices: 94619469--94619494 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94619459 ATAGGCAAAA
94619469 AATATAATAGT
1 AATATAATAGT
94619480 AATATAATAGT
1 AATATAATAGT
94619491 AATA
1 AATA
94619495 ATAGCAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (11 bp):
AATATAATAGT
Found at i:94619612 original size:14 final size:13
Alignment explanation
Indices: 94619593--94619642 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
94619583 ATGATATATT
*
94619593 AAATAACAATAGTA
1 AAATAATAA-AGTA
94619607 AAATAAT-AAGTA
1 AAATAATAAAGTA
94619619 ACAATAATAAAGTA
1 A-AATAATAAAGTA
94619633 TAAATAATAA
1 -AAATAATAA
94619643 TAGTGATGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.16
13 7 0.22
14 19 0.59
15 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (13 bp):
AAATAATAAAGTA
Found at i:94619650 original size:65 final size:64
Alignment explanation
Indices: 94619529--94619651 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 64
94619519 ATGAGGATAA
* * * * * *
94619529 AAATAACAAACTAATATATTAAGTTACAATAGTAAAATAAAAATGATGATAATGATGATATATT
1 AAATAACAAACTAAAATAATAAGTAACAATAATAAAATAAAAATAATAATAATGATGATATATT
* * * *
94619593 AAATAACAATAGTAAAATAATAAGTAACAATAATAAAGTATAAATAATAATAGTGATGA
1 AAATAACAA-ACTAAAATAATAAGTAACAATAATAAAATAAAAATAATAATAATGATGA
94619652 GAATAATAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
64 9 0.19
65 39 0.81
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (64 bp):
AAATAACAAACTAAAATAATAAGTAACAATAATAAAATAAAAATAATAATAATGATGATATATT
Found at i:94619668 original size:19 final size:19
Alignment explanation
Indices: 94619635--94619680 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
94619625 ATAAAGTATA
* *
94619635 AATAATAA-TAGTGATGAG
1 AATAATAACGAGTGATAAG
*
94619653 AATAATAACGAGTGATAAT
1 AATAATAACGAGTGATAAG
94619672 AATAATAAC
1 AATAATAAC
94619681 AGTAACAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.26
Consensus pattern (19 bp):
AATAATAACGAGTGATAAG
Found at i:94619825 original size:3 final size:3
Alignment explanation
Indices: 94619817--94619958 Score: 98
Period size: 3 Copynumber: 47.3 Consensus size: 3
94619807 GTGTACATAT
* * *
94619817 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGG A-A ATA GTA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * *
94619862 A-A ATGGC ATT AGA ATA A-A ATA A-A TATA AGT- ATA AGT- ATA ATG
1 ATA AT--A ATA ATA ATA ATA ATA ATA -ATA A-TA ATA A-TA ATA ATA
* * *
94619904 ATG ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94619952 ATA ATA A
1 ATA ATA A
94619959 GGAAATGATA
Statistics
Matches: 114, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
2 7 0.06
3 101 0.89
4 4 0.04
5 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:94622466 original size:16 final size:15
Alignment explanation
Indices: 94622445--94622477 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
94622435 AATGATTGAT
94622445 TTTTTTTATAAGTGAA
1 TTTTTTTAT-AGTGAA
94622461 TTTTTTTATAGTGAA
1 TTTTTTTATAGTGAA
94622476 TT
1 TT
94622478 AAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTTTTTATAGTGAA
Found at i:94632275 original size:21 final size:20
Alignment explanation
Indices: 94632223--94632276 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
94632213 CTCAATCCTC
*
94632223 AATTTCCAATTTTCTATTATA
1 AATTT-CAATTTTCAATTATA
* *
94632244 AATCTTCAATTTTCAATTTTT
1 AAT-TTCAATTTTCAATTATA
94632265 AATTTCGAATTT
1 AATTTC-AATTT
94632277 CTGGTCCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTCAATTTTCAATTATA
Found at i:94634952 original size:35 final size:37
Alignment explanation
Indices: 94634906--94635037 Score: 98
Period size: 35 Copynumber: 3.6 Consensus size: 37
94634896 GGTTTATCTG
*
94634906 ACTAGCGCTGGG-T-ACAATTACCATTGGTTAATCCA
1 ACTAGAGCTGGGCTCACAATTACCATTGGTTAATCCA
** *
94634941 ACTAGAGCTGGGCTCACAATTATTATCGTCGG-TATATCCG
1 ACTAGAGCTGGGCTCACAATTACCAT--T-GGTTA-ATCCA
* * *
94634981 ACTAGCA-CTGAG-TGCA-AA-TACCGTTGGTTCATCCA
1 ACTAG-AGCTGGGCT-CACAATTACCATTGGTTAATCCA
94635016 ACTAGAGCTGGGCTCACAATTA
1 ACTAGAGCTGGGCTCACAATTA
94635038 TTATCGTCGG
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
34 1 0.01
35 28 0.38
36 6 0.08
37 11 0.15
38 3 0.04
39 6 0.08
40 17 0.23
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (37 bp):
ACTAGAGCTGGGCTCACAATTACCATTGGTTAATCCA
Found at i:94635211 original size:75 final size:75
Alignment explanation
Indices: 94634894--94635183 Score: 393
Period size: 75 Copynumber: 3.9 Consensus size: 75
94634884 CACACAACCT
* * * * * * *
94634894 TCGGTTTATCTGACTAGCGCTGGGTACAATTACCATTGGTTAATCCAACTAGAGCTGGGCTCACA
1 TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
94634959 ATTATTATCG
66 ATTATTATCG
* *
94634969 TCGGTATATCCGACTAGCACTGAGTGCAAATACCGTTGGTTCATCCAACTAGAGCTGGGCTCACA
1 TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
94635034 ATTATTATCG
66 ATTATTATCG
* * * * *
94635044 TCGGTATATCCAACTAGCACTAGGTGTAAATATCC-TTGTTTTATCCAACGAGAGCTGGGCTCAC
1 TCGGTATATCCGACTAGCACTGGGTGCAAATA-CCGTTGGTTTATCCAACTAGAGCTGGGCTCAC
*
94635108 AATTACTATCG
65 AATTATTATCG
* * * *
94635119 TCAGTATACCCGACTAGCACTGGGTGCAATTACCGTTGATTTATCCAACTAGAGCTGGGCTCACA
1 TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
94635184 TTTAATACTG
Statistics
Matches: 189, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
74 2 0.01
75 185 0.98
76 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (75 bp):
TCGGTATATCCGACTAGCACTGGGTGCAAATACCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
ATTATTATCG
Found at i:94640463 original size:3 final size:3
Alignment explanation
Indices: 94640440--94640491 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
94640430 AATATCCTTG
94640440 TTA TT- TTA -TA TTA TTGA -TA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
94640482 TTA TTA TTA T
1 TTA TTA TTA T
94640492 ATATGTTAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 7 0.16
3 36 0.82
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:94640468 original size:14 final size:14
Alignment explanation
Indices: 94640457--94640495 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
94640447 ATATTATTGA
94640457 TATTATTATATTAT
1 TATTATTATATTAT
94640471 TATTATTATTATTAT
1 TATTATTA-TATTAT
94640486 TATTA-TATAT
1 TATTATTATAT
94640496 GTTAGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 3 0.12
14 10 0.42
15 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTATATTAT
Found at i:94641123 original size:16 final size:16
Alignment explanation
Indices: 94641097--94641136 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
94641087 TTATACGTGT
*
94641097 ATATATATTTTTATATA
1 ATAT-TATTTTCATATA
*
94641114 GTATTATTTTCATATA
1 ATATTATTTTCATATA
94641130 ATATTAT
1 ATATTAT
94641137 ACTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTATTTTCATATA
Found at i:94641320 original size:21 final size:21
Alignment explanation
Indices: 94641287--94641333 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
94641277 ATATATATTG
94641287 TATATGTTCATTTATACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
94641310 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
94641329 TATAT
1 TATAT
94641334 TTAGTATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:94641325 original size:15 final size:15
Alignment explanation
Indices: 94641307--94641340 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94641297 TTTATACTAT
*
94641307 GTATATATGTATTTA
1 GTATATATATATTTA
*
94641322 GTATGTATATATTTA
1 GTATATATATATTTA
94641337 GTAT
1 GTAT
94641341 CATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:94644562 original size:28 final size:28
Alignment explanation
Indices: 94644530--94644585 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
94644520 GAATGGAAAG
*
94644530 AAGAAATTATCAACATCAAATGCGGGAT
1 AAGAAATTAGCAACATCAAATGCGGGAT
94644558 AAGAAATTAGCAACATCAAATGCGGGAT
1 AAGAAATTAGCAACATCAAATGCGGGAT
94644586 GGAATTTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (28 bp):
AAGAAATTAGCAACATCAAATGCGGGAT
Found at i:94652363 original size:25 final size:25
Alignment explanation
Indices: 94652335--94652387 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
94652325 CCCATGACAA
94652335 GAAAGTACAGCCAAGAGAATTCCAT
1 GAAAGTACAGCCAAGAGAATTCCAT
94652360 GAAAGTACAGCCAAGAGAATTCCAT
1 GAAAGTACAGCCAAGAGAATTCCAT
94652385 GAA
1 GAA
94652388 GGAGGACTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (25 bp):
GAAAGTACAGCCAAGAGAATTCCAT
Found at i:94653663 original size:75 final size:75
Alignment explanation
Indices: 94653556--94653873 Score: 264
Period size: 75 Copynumber: 4.0 Consensus size: 75
94653546 TATACTTTTC
* *
94653556 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCACGCTGAGGTAATTTCAATTTC
94653621 TGTTTTTCAA
66 TGTTTTTCAA
* * *
94653631 AAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGTTCACATACTGAGGT-ATTTCCAAT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCAC--GCTGAGGTAATTT-CAAT
*
94653695 TTCTGTTCTTTTAATTTATGTTTCA
63 TTCTG----TTT--TTCA------A
** * *
94653720 AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACTCATATGCTGAGGTATTTTCAAT
1 A-AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTC--ACGCTGAGGTAATTTCAAT
* *
94653785 TACTGTTTGTC--
63 TTCTGTTTTTCAA
* * * * *
94653796 AAAAACCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGTCACACGCTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGT--CACGCTGAGGTAATTTCAATT
* *
94653861 TCTATCTTTCAA
64 TCTGTTTTTCAA
94653873 A
1 A
94653874 TTCTGTTTTT
Statistics
Matches: 194, Mismatches: 26, Indels: 44
0.73 0.10 0.17
Matches are distributed among these distances:
75 101 0.52
76 5 0.03
77 18 0.09
81 3 0.02
83 3 0.02
84 1 0.01
86 3 0.02
89 2 0.01
90 54 0.28
91 3 0.02
92 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCACGCTGAGGTAATTTCAATTTC
TGTTTTTCAA
Found at i:94653773 original size:90 final size:90
Alignment explanation
Indices: 94653625--94653791 Score: 271
Period size: 90 Copynumber: 1.9 Consensus size: 90
94653615 AATTTCTGTT
**
94653625 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGTTCACATACTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGACTCACATACTGAGGTATTT
*
94653690 CCAATTTCTGTTCTTTTAATTTATG
66 CCAATTACTGTTCTTTTAATTTATG
* * *
94653715 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACTCATATGCTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGACTCACATACTGAGGTATTT
*
94653780 TCAATTACTGTT
66 CCAATTACTGTT
94653792 TGTCAAAAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (90 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGACTCACATACTGAGGTATTT
CCAATTACTGTTCTTTTAATTTATG
Found at i:94653808 original size:165 final size:164
Alignment explanation
Indices: 94653556--94653863 Score: 429
Period size: 165 Copynumber: 1.9 Consensus size: 164
94653546 TATACTTTTC
* ** *
94653556 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACGCACGCTGAGGTAATTTCAATTAC
* * * *
94653621 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAACCTCGGTTCACATACTGAGGT
66 TGTTTGTC-AAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCGGGTCACACACTGAGGT
*
94653686 ATTTCCAATTTCTGTTCTTTTAATTTATGTTTCAA
130 ATTTCCAAATTCTGTTCTTTTAATTTATGTTTCAA
* * *
94653721 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACTCATATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACGC--ACGCTGAGGTAATTTCAATT
* ** *
94653786 ACTGTTTGTC-AAAAACCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGTCACACGCTGAGG
64 ACTGTTTGTCAAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCGGGTCACACACTGAGG
*
94653850 TATTTTCAAATTCT
129 TATTTCCAAATTCT
94653864 ATCTTTCAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
165 98 0.79
167 26 0.21
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (164 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGACGCACGCTGAGGTAATTTCAATTAC
TGTTTGTCAAAAAACCAACTCATATTGCGAGAGATGAGTTGAACCTCGGGTCACACACTGAGGTA
TTTCCAAATTCTGTTCTTTTAATTTATGTTTCAA
Found at i:94654034 original size:14 final size:15
Alignment explanation
Indices: 94654022--94654050 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94654012 GTATTTTCAG
94654022 TTTCTGTTTTTCAAA
1 TTTCTGTTTTTCAAA
94654037 TTTCTG-TTTTCAAA
1 TTTCTGTTTTTCAAA
94654051 AATCAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (15 bp):
TTTCTGTTTTTCAAA
Found at i:94654135 original size:87 final size:89
Alignment explanation
Indices: 94653960--94654167 Score: 271
Period size: 89 Copynumber: 2.3 Consensus size: 89
94653950 CAATTTATAG
* * * * *
94653960 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGTATGCTGAGGTATTTTCAGTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCACG-ACGCTGAGGTAATTTCAATTT
94654025 CTGTTTTTCAAATTTCTGTTTTC-A
65 CTGTTTTTCAAATTTCTGTTTTCAA
* *
94654049 AAAATCAACTCATGTTGTGAGAGGTGAGTTAAGCCTCAGG-AC-ACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGCACGACGCTGAGGTAATTTCAATTT
*
94654112 CTGTTTTT-TAATTTCTGCTTTTCAAA
65 CTGTTTTTCAAATTTCTG-TTTTC-AA
*
94654138 AAAATCAACTCATATTGCGGGAGGTGAGTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTT
94654168 GAGCTTTGGC
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
86 8 0.08
87 31 0.30
89 63 0.61
90 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (89 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCACGACGCTGAGGTAATTTCAATTTC
TGTTTTTCAAATTTCTGTTTTCAA
Found at i:94654263 original size:75 final size:75
Alignment explanation
Indices: 94654140--94654279 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 75
94654130 TTTTCAAAAA
* * *
94654140 AATCAACTCATATTGCGGGAGGTGAGTTGAGCTTTGGCTCACACGCTGAAG-TATTTT-AAGTTT
1 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTG-AGCTATTTTCAA-TTT
94654203 CTGTTTGTCAAG
64 CTGTTTGTCAAG
**
94654215 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCT
94654280 ATTTTTAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 2 0.03
75 54 0.93
76 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (75 bp):
AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCT
GTTTGTCAAG
Found at i:94654298 original size:13 final size:13
Alignment explanation
Indices: 94654265--94654298 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
94654255 ATGCGCTGAG
* *
94654265 CTATTTTCAATTT
1 CTATTTTTAATGT
94654278 CTATTTTTAATGT
1 CTATTTTTAATGT
94654291 CTATTTTT
1 CTATTTTT
94654299 TAAGAGTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:94655571 original size:16 final size:16
Alignment explanation
Indices: 94655550--94655580 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
94655540 TCTCTCCCTT
94655550 CTTTCTCCCCTCTCTC
1 CTTTCTCCCCTCTCTC
94655566 CTTTCTCCCCTCTCT
1 CTTTCTCCCCTCTCT
94655581 TTTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
CTTTCTCCCCTCTCTC
Found at i:94656055 original size:3 final size:3
Alignment explanation
Indices: 94656031--94656075 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
94656021 AATATCCTTG
*
94656031 TTA TTT TTA -TA TTA TTGA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
94656075 T
1 T
94656076 ATATGTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 33 0.89
4 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:94656271 original size:12 final size:11
Alignment explanation
Indices: 94656240--94656299 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 11
94656230 TGTTATATAC
94656240 GTATATATT-T
1 GTATATATTAT
94656250 -TATATATTAT
1 GTATATATTAT
94656260 GTATATTATTAT
1 GTATA-TATTAT
*
94656272 -T-TTTATTA-
1 GTATATATTAT
*
94656280 -TACATATTAT
1 GTATATATTAT
94656290 GTATATATTA
1 GTATATATTA
94656300 AATATCGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.03
9 18 0.45
10 2 0.05
11 13 0.32
12 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:94656456 original size:24 final size:25
Alignment explanation
Indices: 94656428--94656479 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
94656418 TATGTATGTA
* *
94656428 TATATCGTGTAAACGTTTTA-ATAT
1 TATATCATATAAACGTTTTATATAT
* *
94656452 TATATTATATATACGTTTTATATAT
1 TATATCATATAAACGTTTTATATAT
94656477 TAT
1 TAT
94656480 GAACATGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (25 bp):
TATATCATATAAACGTTTTATATAT
Found at i:94656711 original size:16 final size:16
Alignment explanation
Indices: 94656685--94656724 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
94656675 TTATACGTGT
*
94656685 ATATATATTTTTATATA
1 ATAT-TATTTTCATATA
*
94656702 GTATTATTTTCATATA
1 ATATTATTTTCATATA
94656718 ATATTAT
1 ATATTAT
94656725 ACTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTATTTTCATATA
Found at i:94656908 original size:21 final size:21
Alignment explanation
Indices: 94656875--94656921 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
94656865 ATATATATTG
94656875 TATATGTTCATTTATACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
94656898 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
94656917 TATAT
1 TATAT
94656922 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:94656913 original size:15 final size:15
Alignment explanation
Indices: 94656895--94656928 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94656885 TTTATACTAT
*
94656895 GTATATATGTATTTA
1 GTATATATATATTTA
*
94656910 GTATGTATATATTTA
1 GTATATATATATTTA
94656925 GTAT
1 GTAT
94656929 TATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Done.