Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 204 of 216
Found at i:63244281 original size:22 final size:24
Alignment explanation
Indices: 63244248--63244292 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
63244238 TCATGAGTTT
*
63244248 TTCTAAAAATAAACTA-AGTTTTC
1 TTCTAAAAATAAACAATAGTTTTC
63244271 TTCT-AAAATAAACAATAGTTTT
1 TTCTAAAAATAAACAATAGTTTT
63244293 AAAATGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (24 bp):
TTCTAAAAATAAACAATAGTTTTC
Found at i:63246906 original size:51 final size:51
Alignment explanation
Indices: 63246790--63247076 Score: 366
Period size: 51 Copynumber: 5.6 Consensus size: 51
63246780 TCATTCAATA
* **
63246790 CACGTAGTAGCCTCCACATAGTACTACATGCGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
*
63246840 CACGTAGTAGCCTTCACATAGTACTACACAAGTGATCAAGTTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
63246891 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
* ** * *
63246942 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTT-CGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGGTT
* * * * * * *
63246993 CACATAGTAGCCTTCACTTAGTATTACACATGTGA-CCA-TTATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTT-TTTA-CGGTT
*
63247044 CACGTAGTAGCCTTCACACAGTACTACACACGT
1 CACGTAGTAGCCTTCACATAGTACTACACACGT
63247077 TTTCATCGAT
Statistics
Matches: 211, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 37 0.18
51 163 0.77
52 6 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
Found at i:63247580 original size:30 final size:30
Alignment explanation
Indices: 63247546--63247610 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
63247536 TCCTTAACTC
* *
63247546 AAACTTTGGCAAAATTATAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
* * * *
63247576 AAACTTTTGCATATTTACACTTTTGCCCCA
1 AAACTTTGGCAAAATTACAATTTTGCCCCA
63247606 AAACT
1 AAACT
63247611 CAGAAATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCA
Found at i:63250384 original size:12 final size:11
Alignment explanation
Indices: 63250366--63250391 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
63250356 TAGAATCTTT
63250366 CTTTTTTTTTG
1 CTTTTTTTTTG
63250377 CTTTTTTTTTG
1 CTTTTTTTTTG
63250388 CTTT
1 CTTT
63250392 GTGCCATTAG
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:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:63251076 original size:10 final size:10
Alignment explanation
Indices: 63251061--63251085 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63251051 CTTCTGATTT
63251061 AAGAGTTGAA
1 AAGAGTTGAA
63251071 AAGAGTTGAA
1 AAGAGTTGAA
63251081 AAGAG
1 AAGAG
63251086 ATTATGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (10 bp):
AAGAGTTGAA
Found at i:63256715 original size:120 final size:120
Alignment explanation
Indices: 63256549--63257016 Score: 893
Period size: 120 Copynumber: 3.9 Consensus size: 120
63256539 ACTAGCATCA
*
63256549 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
63256614 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
63256669 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
63256734 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
63256789 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
63256854 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
63256909 ACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
63256974 AATTATATA-TTGTAATTAAAATATATTTAATAATAATTATGTT
66 AATTATATAGTT-TAATTAAAATATATTTAATAATAATTATGTT
63257017 TAAATATGAT
Statistics
Matches: 344, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 342 0.99
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (120 bp):
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
Found at i:63257213 original size:44 final size:45
Alignment explanation
Indices: 63257164--63257254 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
63257154 ACCTCTATTC
* * *
63257164 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
63257208 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
63257253 CA
1 CA
63257255 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:63257256 original size:16 final size:16
Alignment explanation
Indices: 63257235--63257303 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
63257225 GATTAGCTAT
63257235 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
63257251 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
63257268 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
63257284 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
63257300 TACA
1 TACA
63257304 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:63257277 original size:33 final size:32
Alignment explanation
Indices: 63257235--63257303 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
63257225 GATTAGCTAT
63257235 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
63257268 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
63257300 TACA
1 TACA
63257304 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:63265734 original size:21 final size:22
Alignment explanation
Indices: 63265710--63265752 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
63265700 CAGACTGATT
63265710 AATAAAATTATA-AAAATAAAA
1 AATAAAATTATACAAAATAAAA
63265731 AATAAAATTATACAAAATAAAA
1 AATAAAATTATACAAAATAAAA
63265753 TAAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AATAAAATTATACAAAATAAAA
Found at i:63272495 original size:15 final size:15
Alignment explanation
Indices: 63272475--63272503 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63272465 TGTAGACTGA
63272475 GCACTTTTCTCAAGG
1 GCACTTTTCTCAAGG
63272490 GCACTTTTCTCAAG
1 GCACTTTTCTCAAG
63272504 CCAATTGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (15 bp):
GCACTTTTCTCAAGG
Found at i:63277463 original size:14 final size:14
Alignment explanation
Indices: 63277446--63277472 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63277436 TTTTTTTTTC
63277446 TATTATTTTATAAA
1 TATTATTTTATAAA
63277460 TATTATTTTATAA
1 TATTATTTTATAA
63277473 TTAAAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTTATAAA
Found at i:63280331 original size:3 final size:3
Alignment explanation
Indices: 63280323--63280369 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
63280313 GATTCACACA
63280323 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63280370 CAACAACGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:63286662 original size:14 final size:14
Alignment explanation
Indices: 63286640--63286677 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
63286630 AGTAATTCTT
*
63286640 ACCCCAAAC-CCAA
1 ACCCTAAACTCCAA
63286653 CACCCTAAACTCCAA
1 -ACCCTAAACTCCAA
63286668 ACCCTAAACT
1 ACCCTAAACT
63286678 TAAACCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (14 bp):
ACCCTAAACTCCAA
Found at i:63287601 original size:12 final size:12
Alignment explanation
Indices: 63287584--63287629 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
63287574 GAAAAATCTA
63287584 ATGGAGAGGGAG
1 ATGGAGAGGGAG
*
63287596 ATGGAGATGGAG
1 ATGGAGAGGGAG
**
63287608 ATCAAGAGGGAG
1 ATGGAGAGGGAG
*
63287620 AGGGAGAGGG
1 ATGGAGAGGG
63287630 TAGGTACTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.54, T:0.09
Consensus pattern (12 bp):
ATGGAGAGGGAG
Found at i:63287920 original size:24 final size:25
Alignment explanation
Indices: 63287893--63287940 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
63287883 GCTTTATATC
*
63287893 TTCCATGT-AATAAAAAAAATTGCT
1 TTCCAAGTCAATAAAAAAAATTGCT
* *
63287917 TTCCAAGTCAATAAGAAATATTGC
1 TTCCAAGTCAATAAAAAAAATTGC
63287941 ACTCGATGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (25 bp):
TTCCAAGTCAATAAAAAAAATTGCT
Found at i:63293985 original size:23 final size:24
Alignment explanation
Indices: 63293948--63293992 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
63293938 AATCGATATG
*
63293948 AAATATTGATAAATTTTGATAAAA
1 AAATATTGATAAATTTTAATAAAA
*
63293972 AAATATTTAT-AATTTTAATAA
1 AAATATTGATAAATTTTAATAA
63293993 TTGAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATTGATAAATTTTAATAAAA
Found at i:63295392 original size:3 final size:3
Alignment explanation
Indices: 63295384--63295408 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63295374 GATCTGTTTG
63295384 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
63295409 AGTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:63297753 original size:7 final size:7
Alignment explanation
Indices: 63297741--63297765 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63297731 CTATCTCTCT
63297741 ATTTTAA
1 ATTTTAA
63297748 ATTTTAA
1 ATTTTAA
63297755 ATTTTAA
1 ATTTTAA
63297762 ATTT
1 ATTT
63297766 GAGATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:63299973 original size:16 final size:17
Alignment explanation
Indices: 63299952--63299987 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
63299942 GGATCAAAGA
*
63299952 TAAATATATTTATT-AT
1 TAAATATAATTATTAAT
63299968 TAAATATAATTATTAAT
1 TAAATATAATTATTAAT
63299985 TAA
1 TAA
63299988 TGAAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATATAATTATTAAT
Found at i:63305915 original size:15 final size:15
Alignment explanation
Indices: 63305895--63305925 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
63305885 AAGTTTTGGT
63305895 CTTTTGTCTCAGCAA
1 CTTTTGTCTCAGCAA
63305910 CTTTTGTCTCAGCAA
1 CTTTTGTCTCAGCAA
63305925 C
1 C
63305926 CAAGCGTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (15 bp):
CTTTTGTCTCAGCAA
Found at i:63317323 original size:31 final size:28
Alignment explanation
Indices: 63317260--63317324 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
63317250 TTTAACCATA
*
63317260 TAATAAATTATTAATATAATTTATTTTT
1 TAATAAATTATTAATATAATTTATATTT
63317288 TAATAAATTATTTAATATTTTAATTT-TATTT
1 TAATAAATTA-TTAATA---TAATTTATATTT
63317319 TAATAA
1 TAATAA
63317325 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 10 0.31
29 6 0.19
31 10 0.31
32 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATAAATTATTAATATAATTTATATTT
Found at i:63324684 original size:14 final size:15
Alignment explanation
Indices: 63324660--63324688 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63324650 TTTTTCTGTG
63324660 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
63324675 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
63324689 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:63324892 original size:28 final size:28
Alignment explanation
Indices: 63324859--63324915 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
63324849 TATAGTTTTT
63324859 ATAATA-ATTAGAAAGGTTATAATAATAA
1 ATAATATATTAGAAA-GTTATAATAATAA
* *
63324887 ATAATATATTATAAAGTTATTATAATAA
1 ATAATATATTAGAAAGTTATAATAATAA
63324915 A
1 A
63324916 AAAACAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (28 bp):
ATAATATATTAGAAAGTTATAATAATAA
Found at i:63325594 original size:64 final size:64
Alignment explanation
Indices: 63325509--63325685 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
63325499 ATATATATTT
* * *
63325509 AAAGTTCTTGAGTTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGATGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* * *
63325573 AAAGTTTTTGAGATGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATATGTTAC
1 AAAGTTTTTGAGATGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
* *
63325637 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTT-TTTGAGATGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
63325686 GAATGTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
62 15 0.15
63 3 0.03
64 73 0.72
65 10 0.10
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (64 bp):
AAAGTTTTTGAGATGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:63325876 original size:41 final size:41
Alignment explanation
Indices: 63325819--63325907 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
63325809 GGCTTAATGC
63325819 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
*
63325860 CTAGCAGACTTGATGTCGGTGAATTACTTCAGACTTTATGT
1 CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
63325901 CTAGCAG
1 CTAGCAG
63325908 GCTTTGTACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (41 bp):
CTAGCAGACTTGATGTCGGTGAATTACTTCAAACTTTATGT
Found at i:63329567 original size:51 final size:51
Alignment explanation
Indices: 63329485--63329916 Score: 274
Period size: 51 Copynumber: 8.5 Consensus size: 51
63329475 GATGAACACG
** *
63329485 TGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
* * * * * * *
63329536 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACT
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA-ATAATGGTCACA
**
63329587 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
* * * * * * **
63329638 TGTGTAATACTAAGTGAAGGCTACTATGTGTACCGAAAAACT-TTGATCATG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACA
* * * * * *
63329689 TGTGTAGTGCTATGTGAAGGCTACTTCGTG-AACTG-TAGAACT--TGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATA-AA-TAATGGTCACA
* * * * *
63329739 TGTGTAGTACTATGTGTAGGCTACTACGTGTATC-A-GAATGATAGGTCGCA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATAAT-GGTCACA
* * * * ** * *
63329789 TGTGTAGTACTATGTGAAGGCTACTATGCGTACCAGATAGCT--TCGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAAATAAT-GGTCACA
* * * * * *
63329840 TGTGTAGTACTATGTGAAGGCTAATACGTGTATCGGAT-AGTGATGTTCACC
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAAATAATGGTCACA
* * *
63329891 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
63329917 TGTGAACCGG
Statistics
Matches: 298, Mismatches: 68, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 1 0.00
50 73 0.24
51 216 0.72
52 4 0.01
53 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
Found at i:63329661 original size:102 final size:102
Alignment explanation
Indices: 63329484--63329718 Score: 373
Period size: 102 Copynumber: 2.3 Consensus size: 102
63329474 CGATGAACAC
* *
63329484 GTGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
* * *
63329549 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
66 GTGAAGGCTACAATGTGTACCGAAAAACTTTGATCA-T
63329587 -TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
*
63329651 GTGAAGGCTACTATGTGTACCGAAAAACTTTGATCAT
66 GTGAAGGCTACAATGTGTACCGAAAAACTTTGATCAT
* * *
63329688 GTGTGTAGTGCTATGTGAAGGCTACTTCGTG
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTG
63329719 AACTGTAGAA
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
101 1 0.01
102 121 0.99
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAATACTAA
GTGAAGGCTACAATGTGTACCGAAAAACTTTGATCAT
Found at i:63329815 original size:151 final size:153
Alignment explanation
Indices: 63329485--63329862 Score: 419
Period size: 151 Copynumber: 2.5 Consensus size: 153
63329475 GATGAACACG
* ** * * * * * *
63329485 TGTGTAGTACTGTGTGAAGGCTACTGCGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAAAAACT-TTGATCACGTGTGTAGTACTAT
* * * *
63329549 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACTTGTGTAGTACTGTGTGAAGGCTACTAC
65 GTGAAGGCTACAATGTGAACCGAGAAGCTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
63329614 GTGTATCGATAAATAATGGTCACA
130 GTGTATCGATAAATAATGGTCACA
* * * *
63329638 TGTGTAATACTAAGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCATGTGTGTAGTGCTATG
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCACGTGTGTAGTACTATG
* * *
63329703 TGAAGGCTAC-TTCGTGAACTGTAGAA-C-TTGATCACGTGTGTAGTACTATGTGTAGGCTACTA
66 TGAAGGCTACAAT-GTGAACCG-AGAAGCTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTA
* * *
63329765 CGTGTATC-A-GAATGATAGGTCGCA
129 CGTGTATCGATAAATAAT-GGTCACA
* * * *
63329789 TGTGTAGTACTATGTGAAGGCTACTATGCGTACC-AGATAGCTTCGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGA-AAAACTTTGATCACGTGTGTAGTACTAT
63329853 GTGAAGGCTA
65 GTGAAGGCTA
63329863 ATACGTGTAT
Statistics
Matches: 189, Mismatches: 31, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
150 6 0.03
151 71 0.38
152 40 0.21
153 67 0.35
154 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (153 bp):
TGTGTAGTACTATGTGAAGGCTACTATGTGTACCGAAAAACTTTGATCACGTGTGTAGTACTATG
TGAAGGCTACAATGTGAACCGAGAAGCTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
TGTATCGATAAATAATGGTCACA
Found at i:63329837 original size:101 final size:102
Alignment explanation
Indices: 63329689--63329918 Score: 283
Period size: 101 Copynumber: 2.3 Consensus size: 102
63329679 TTTGATCATG
* *
63329689 TGTGTAGTGCTATGTGAAGGCTACT-T-CGTGAACTGTAGAACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTATGCGTGAACAGTAG-ACTTGATCACGTGTGTAGTACTAT
* * *
63329752 GTGTAGGCTACTACGTGTATCAGA-A-TGATAGGTCGCA
65 GTGAAGGCTAATACGTGTATCAGATAGTGAT-GGTCACA
*
63329789 TGTGTAGTACTATGTGAAGGCTACTATGCGT-ACCAGATAG-CTTCGATCACGTGTGTAGTACTA
1 TGTGTAGTACTATGTGAAGGCTACTATGCGTGAACAG-TAGACTT-GATCACGTGTGTAGTACTA
* * *
63329852 TGTGAAGGCTAATACGTGTATCGGATAGTGATGTTCACC
64 TGTGAAGGCTAATACGTGTATCAGATAGTGATGGTCACA
* *
63329891 TGTGTAGTACTATGTGCATGCTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTATG
63329919 TGAACCGGCA
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
100 27 0.24
101 45 0.40
102 37 0.33
103 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTATGCGTGAACAGTAGACTTGATCACGTGTGTAGTACTATG
TGAAGGCTAATACGTGTATCAGATAGTGATGGTCACA
Found at i:63334555 original size:21 final size:21
Alignment explanation
Indices: 63334527--63334581 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
63334517 AACAGCGGTG
* *
63334527 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGGTACTATA
* *
63334548 GCGGTGAGATTGGGTACTATA
1 GCAGTGAGATTAGGTACTATA
63334569 GCAGTGAGATTAG
1 GCAGTGAGATTAG
63334582 AAACAGCGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (21 bp):
GCAGTGAGATTAGGTACTATA
Found at i:63334717 original size:19 final size:19
Alignment explanation
Indices: 63334693--63334740 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
63334683 TAGAAATTTT
*
63334693 TAAAATTATTTAATAATTA
1 TAAAATTATTAAATAATTA
* *
63334712 TAAAATTAATAAATGATTA
1 TAAAATTATTAAATAATTA
63334731 -AAAATTATTA
1 TAAAATTATTA
63334741 CAATTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAATTATTAAATAATTA
Found at i:63359558 original size:93 final size:92
Alignment explanation
Indices: 63359446--63359634 Score: 288
Period size: 93 Copynumber: 2.0 Consensus size: 92
63359436 AACATTGATT
* *
63359446 TTTTTAATATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAATTTGTTTTTA
1 TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
* * *
63359511 GTATTTTAATAGTAATTTATTTTTAATA
66 ATAATTTAACAGTAATTTATTTTT-ATA
* *
63359539 TTTTTAACATATTTGTACAAACTGTTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
* *
63359604 ATAATTTAGCAGTAGTTTATTTTTATA
66 ATAATTTAACAGTAATTTATTTTTATA
63359631 TTTT
1 TTTT
63359635 AATAAAATAG
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 7 0.08
93 80 0.92
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (92 bp):
TTTTTAACATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
ATAATTTAACAGTAATTTATTTTTATA
Found at i:63359680 original size:8 final size:9
Alignment explanation
Indices: 63359663--63359693 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
63359653 TTGAATAAGA
63359663 TAATATTTT
1 TAATATTTT
63359672 TAATATTTT
1 TAATATTTT
63359681 T-ATATTTT
1 TAATATTTT
63359689 TAATA
1 TAATA
63359694 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATATTTT
Found at i:63362356 original size:50 final size:50
Alignment explanation
Indices: 63362281--63362381 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
63362271 GAACAACAGT
63362281 AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
1 AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
* * *
63362331 AAATGTTGAAGTTGCAAATGCTTTATTTGGCGATGAAAATTATATATATA
1 AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
63362381 A
1 A
63362382 CTCAAGATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.37
Consensus pattern (50 bp):
AAATGTTGAAGTTACAAATGCTTTATTTGGCAATGAAAATTATACATATA
Found at i:63363031 original size:123 final size:124
Alignment explanation
Indices: 63362811--63363303 Score: 681
Period size: 123 Copynumber: 4.0 Consensus size: 124
63362801 AGAGTGTCCA
* *
63362811 CGTCCACGT-GAGAGCTTTTTTCAGTAATTTTGTTGACAGTGCACCTTGCTTGAAGCGTTTTTGA
1 CGTCCACGTGGA-AGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGA
* *
63362875 CACTATTTGTTCATAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTATAGAAAGAG
65 CACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAGAG
*
63362935 CGTCCACGTTGAAGC-TTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGAC
1 CGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGAC
* * *
63362999 ACTATTTGCTCATAATCGTCTTCTCAAAATTATTTTTTCAGGAACTATTGTAGAAAGAG
66 ACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAGAG
* * * *
63363058 CGTCCACGTGGAAAC-TTTTTCAGTAATTTTGCTGACA-TGCATCCTGCTTGAAGTGTTTTTTAC
1 CGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGAC
* *
63363121 ACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTTGAAGAACTACTGTAGAAAAAGAG
66 ACTATTTGTTCAGAATCGTCTTCTCAAAATTA-TTTTTTCAGGAACTACTGTAG--AAAGAG
* * * * * * * *
63363183 CGTCCACGTGGGATCTTTTTTCAGTAATTTTGCTGACAATGCATCTTGCTTAAAGTGTTTTTTAC
1 CGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGAC
* * *
63363248 ATTATCTT-TTTAGAATCGTCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAA
66 ACTAT-TTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAA
63363304 AAATAAAAGT
Statistics
Matches: 338, Mismatches: 24, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
122 53 0.16
123 156 0.46
124 15 0.04
125 21 0.06
126 40 0.12
127 51 0.15
128 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (124 bp):
CGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGAC
ACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAGAG
Found at i:63363286 original size:249 final size:246
Alignment explanation
Indices: 63362827--63363303 Score: 681
Period size: 249 Copynumber: 1.9 Consensus size: 246
63362817 CGTGAGAGCT
* *
63362827 TTTTTCAGTAATTTTGTTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCATAAT
1 TTTTTCAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAT
* *
63362892 CGTCTTCTCAAAATTATTTTTTCAGGAACTACTATAGAAAGAGCGTCCACGTTGAAGCTTTTTCA
66 CGTCTTCTCAAAATTATTTTTTCAAGAACTACTATAGAAAGAGCGTCCACGTGGAAGCTTTTTCA
* * *
63362957 GTAATTTTGCTGACAGTGCACCCTGCTTGAAGCGTTTTTGACACTATTTGCTCATAATCGTCTTC
131 GTAATTTTGCTGACAATGCACCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAATCGTCTTC
* *
63363022 TCAAAATTATTTTTTCAGGAACTATTGTAGAAAGAGCGTCCACGTGGAAAC
196 TCAAAATTATTTTTTCAGAAACTACTGTAGAAAGAGCGTCCACGTGGAAAC
* *
63363073 TTTTTCAGTAATTTTGCTGACA-TGCATCC-TGCTTGAAGTGTTTTTTACACTATTTGTTCAGAA
1 TTTTTCAGTAATTTTGCTGACAGTGCA-CCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAA
* * * *
63363136 TCGTCTTCTCAAAATTATTTTTTTGAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGATCTTT
65 TCGTCTTCTCAAAATTA-TTTTTTCAAGAACTACTATAG--AAAGAGCGTCCACGTGGAAGC-TT
* * * * * * *
63363201 TTTCAGTAATTTTGCTGACAATGCATCTTGCTTAAAGTGTTTTTTACATTATCTT-TTTAGAATC
126 TTTCAGTAATTTTGCTGACAATGCACCCTGCTTAAAGCGTTTTTGACACTAT-TTGCTCAGAATC
63363265 GTCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAA
190 GTCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAA
63363304 AAATAAAAGT
Statistics
Matches: 203, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
245 52 0.26
246 41 0.20
248 18 0.09
249 90 0.44
250 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (246 bp):
TTTTTCAGTAATTTTGCTGACAGTGCACCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAT
CGTCTTCTCAAAATTATTTTTTCAAGAACTACTATAGAAAGAGCGTCCACGTGGAAGCTTTTTCA
GTAATTTTGCTGACAATGCACCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAATCGTCTTC
TCAAAATTATTTTTTCAGAAACTACTGTAGAAAGAGCGTCCACGTGGAAAC
Found at i:63363416 original size:34 final size:33
Alignment explanation
Indices: 63363378--63363464 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 33
63363368 CTAAACCATG
*
63363378 ATTTAATTAATTTTCTTAAAACC-CAGAAATCCTA
1 ATTTAATTAATTTT-TTAAAACCTCA-AAAACCTA
*
63363412 ATTTAATCAATTTATTTAAAACCTCAAAAACCTA
1 ATTTAATTAATTT-TTTAAAACCTCAAAAACCTA
63363446 ATTTAATT-ATTTTTTAAAA
1 ATTTAATTAATTTTTTAAAA
63363465 AACCCTAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.15
33 4 0.08
34 34 0.71
35 3 0.06
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (33 bp):
ATTTAATTAATTTTTTAAAACCTCAAAAACCTA
Found at i:63379428 original size:118 final size:118
Alignment explanation
Indices: 63379220--63379456 Score: 474
Period size: 118 Copynumber: 2.0 Consensus size: 118
63379210 TGATCTGAGG
63379220 ATCTTCAGTTTTGCAGAATTGAAGTCTGCAACTAAGAATTTCAGGCCTGAAATGGTGCTGGGCGA
1 ATCTTCAGTTTTGCAGAATTGAAGTCTGCAACTAAGAATTTCAGGCCTGAAATGGTGCTGGGCGA
63379285 GGGAGGTTTCGGTAAAGTCTTCAAAGGTTGGCTTGACGAGAAATCGCCAGGGA
66 GGGAGGTTTCGGTAAAGTCTTCAAAGGTTGGCTTGACGAGAAATCGCCAGGGA
63379338 ATCTTCAGTTTTGCAGAATTGAAGTCTGCAACTAAGAATTTCAGGCCTGAAATGGTGCTGGGCGA
1 ATCTTCAGTTTTGCAGAATTGAAGTCTGCAACTAAGAATTTCAGGCCTGAAATGGTGCTGGGCGA
63379403 GGGAGGTTTCGGTAAAGTCTTCAAAGGTTGGCTTGACGAGAAATCGCCAGGGA
66 GGGAGGTTTCGGTAAAGTCTTCAAAGGTTGGCTTGACGAGAAATCGCCAGGGA
63379456 A
1 A
63379457 GAGTGGTAGT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (118 bp):
ATCTTCAGTTTTGCAGAATTGAAGTCTGCAACTAAGAATTTCAGGCCTGAAATGGTGCTGGGCGA
GGGAGGTTTCGGTAAAGTCTTCAAAGGTTGGCTTGACGAGAAATCGCCAGGGA
Found at i:63386545 original size:3 final size:3
Alignment explanation
Indices: 63386537--63386565 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63386527 CATTTAACTG
63386537 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
63386566 AAAACTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:63386660 original size:6 final size:6
Alignment explanation
Indices: 63386649--63386678 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
63386639 CTTAAATATA
*
63386649 ATAATT ATAATT ATAAGT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT
63386679 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:63389461 original size:2 final size:2
Alignment explanation
Indices: 63389456--63389486 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
63389446 ATATATATAT
63389456 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
63389487 TAATACCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63389895 original size:2 final size:2
Alignment explanation
Indices: 63389888--63389912 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63389878 TATTTAGGTG
63389888 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
63389913 AACTCTTAAG
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:63393663 original size:14 final size:16
Alignment explanation
Indices: 63393640--63393671 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
63393630 TCAAAAATAA
63393640 TTTAATTTATTAA-AT
1 TTTAATTTATTAAGAT
63393655 TTTAA-TTATTAAGAT
1 TTTAATTTATTAAGAT
63393670 TT
1 TT
63393672 AGTGCTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAATTTATTAAGAT
Found at i:63393831 original size:26 final size:26
Alignment explanation
Indices: 63393777--63393831 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 26
63393767 AGAGTCGAAA
* *
63393777 TTAAATTATAATTTTTTTACAAGAGT
1 TTAAATTATAATTTTTTTAAAAGAAT
63393803 TTAAA-TAT-ATTTATTTTAAAAGTAAT
1 TTAAATTATAATTT-TTTTAAAAG-AAT
63393829 TTA
1 TTA
63393832 CATAAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 4 0.16
25 11 0.44
26 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (26 bp):
TTAAATTATAATTTTTTTAAAAGAAT
Found at i:63394746 original size:6 final size:6
Alignment explanation
Indices: 63394701--63394746 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
63394691 TAATTAGGCC
* * * *
63394701 ATATCT AAATCT GTATCT ATACCT ATACCT ATATCT ATATCT ATAT
1 ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
63394747 ATATTAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (6 bp):
ATATCT
Found at i:63397971 original size:19 final size:18
Alignment explanation
Indices: 63397938--63397985 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
63397928 TTTGACAGCT
63397938 AAAATT-AATTAAAAAATA
1 AAAATTAAATTAAAAAA-A
*
63397956 AAAATTAAATTGAAAAAA
1 AAAATTAAATTAAAAAAA
*
63397974 AAGATGTAAATT
1 AAAAT-TAAATT
63397986 TTGAAGTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (18 bp):
AAAATTAAATTAAAAAAA
Found at i:63398909 original size:5 final size:5
Alignment explanation
Indices: 63398899--63398925 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
63398889 GATCAAATAT
63398899 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
63398926 ATATATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:63400080 original size:24 final size:23
Alignment explanation
Indices: 63400053--63400108 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
63400043 GAAAACAATG
*
63400053 ATAAGTAGAA-GAAATAAAAAAGAA
1 ATAAGTAAAAGGAAAT--AAAAGAA
*
63400077 ATAAAGAAAAAGGAAATAAAAGAA
1 AT-AAGTAAAAGGAAATAAAAGAA
63400101 ATAAGTAA
1 ATAAGTAA
63400109 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.19
24 11 0.41
25 6 0.22
26 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (23 bp):
ATAAGTAAAAGGAAATAAAAGAA
Found at i:63400092 original size:15 final size:16
Alignment explanation
Indices: 63400068--63400101 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
63400058 TAGAAGAAAT
63400068 AAAAAAGAAAT-AAAG
1 AAAAAAGAAATAAAAG
*
63400083 AAAAAGGAAATAAAAG
1 AAAAAAGAAATAAAAG
63400099 AAA
1 AAA
63400102 TAAGTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAAAAGAAATAAAAG
Found at i:63411434 original size:11 final size:11
Alignment explanation
Indices: 63411418--63411482 Score: 78
Period size: 11 Copynumber: 6.0 Consensus size: 11
63411408 TTTTTTTTTT
*
63411418 TCAATTCACTC
1 TCAATTCTCTC
*
63411429 TCAATTCTCTT
1 TCAATTCTCTC
63411440 TCAATTCTCTC
1 TCAATTCTCTC
*
63411451 T-AATTCTTTC
1 TCAATTCTCTC
*
63411461 TCAATTCACTC
1 TCAATTCTCTC
*
63411472 TCAATTTTCTC
1 TCAATTCTCTC
63411483 ACTTTTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
10 9 0.20
11 36 0.80
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.48
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:63411456 original size:32 final size:32
Alignment explanation
Indices: 63411420--63411482 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
63411410 TTTTTTTTTC
* *
63411420 AATTCACTCTCAATTCTCTTTCAATTCTCTCT
1 AATTCACTCTCAATTCACTCTCAATTCTCTCT
** *
63411452 AATTCTTTCTCAATTCACTCTCAATTTTCTC
1 AATTCACTCTCAATTCACTCTCAATTCTCTC
63411483 ACTTTTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTCACTCTCAATTCACTCTCAATTCTCTCT
Found at i:63415057 original size:9 final size:9
Alignment explanation
Indices: 63415039--63415070 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
63415029 TTTGGTTAAA
*
63415039 AATTAACCG
1 AATTACCCG
63415048 AATTACCCG
1 AATTACCCG
63415057 AATTACCCG
1 AATTACCCG
63415066 AATTA
1 AATTA
63415071 ACTAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:63415078 original size:18 final size:18
Alignment explanation
Indices: 63415038--63415087 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
63415028 TTTTGGTTAA
*
63415038 AAATTAACCGAATTACCC
1 AAATTAACCGAATTAACC
* * *
63415056 GAATTACCCGAATTAACT
1 AAATTAACCGAATTAACC
*
63415074 AAATTAACCAAATT
1 AAATTAACCGAATT
63415088 GAATCACTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:63416162 original size:6 final size:6
Alignment explanation
Indices: 63416151--63416203 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
63416141 CAGGTCTGAT
63416151 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
63416199 GGTGG
1 GGTGG
63416204 GGTTGATCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.15, C:0.00, G:0.68, T:0.17
Consensus pattern (6 bp):
GGTGGA
Found at i:63423699 original size:19 final size:19
Alignment explanation
Indices: 63423675--63423725 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
63423665 TCAAACCTTA
63423675 TACCAAAATTTCTTTAATT
1 TACCAAAATTTCTTTAATT
*
63423694 TACC-AAATTTCTCTAATT
1 TACCAAAATTTCTTTAATT
* * *
63423712 AATCAAACTTTCTT
1 TACCAAAATTTCTT
63423726 ACACTTCTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (19 bp):
TACCAAAATTTCTTTAATT
Found at i:63432276 original size:13 final size:14
Alignment explanation
Indices: 63432255--63432291 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
63432245 CTTAAACCAA
*
63432255 ACTTTTCAAAAAT-
1 ACTTCTCAAAAATC
63432268 ACTTCTC-AAAATC
1 ACTTCTCAAAAATC
63432281 ACTTCTCAAAA
1 ACTTCTCAAAA
63432292 GCAATACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 13 0.62
14 3 0.14
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
ACTTCTCAAAAATC
Found at i:63432817 original size:30 final size:29
Alignment explanation
Indices: 63432783--63432858 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
63432773 TAAATTTTAG
*
63432783 AAAGTATAGGGACTAAATTTGACCAATTC
1 AAAGTATAGGGACTAAATTTGACCAAATC
* * *
63432812 AAAAGTATAGGAATTAAA-TTGATCAAATC
1 -AAAGTATAGGGACTAAATTTGACCAAATC
**
63432841 AAAGTATAAAGACTAAAT
1 AAAGTATAGGGACTAAAT
63432859 CTACAACTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 13 0.35
29 9 0.24
30 15 0.41
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.26
Consensus pattern (29 bp):
AAAGTATAGGGACTAAATTTGACCAAATC
Found at i:63433376 original size:42 final size:42
Alignment explanation
Indices: 63433329--63433408 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
63433319 TAATAATAAC
*
63433329 TTAAAAAGTAGAGTAATATAAGAACCAAATTAAGTCAAATTA
1 TTAAAAAGTAGAGTAATATAAGAACCAAATTAAATCAAATTA
* *
63433371 TTAAAAATTAGATTAATATAAGAACCAAATTAAATCAA
1 TTAAAAAGTAGAGTAATATAAGAACCAAATTAAATCAA
63433409 TTTAAAACAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.28
Consensus pattern (42 bp):
TTAAAAAGTAGAGTAATATAAGAACCAAATTAAATCAAATTA
Found at i:63435219 original size:24 final size:24
Alignment explanation
Indices: 63435175--63435220 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
63435165 GCCCTTTAAA
*
63435175 TATTAAATTAATTCTTTTAAAATT
1 TATTAAATTAATTCTTCTAAAATT
*
63435199 TATTAATTTAACTTC-TCTAAAA
1 TATTAAATTAA-TTCTTCTAAAA
63435221 ATAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTAAATTAATTCTTCTAAAATT
Found at i:63435337 original size:124 final size:125
Alignment explanation
Indices: 63435174--63435424 Score: 495
Period size: 124 Copynumber: 2.0 Consensus size: 125
63435164 GGCCCTTTAA
63435174 ATATTAAATTAATTCTTTTAAAATTTATTAATTTAACTTCTCTAAAAATAATAAAATTATATTTT
1 ATATTAAATTAATTCTTTTAAAATTTATTAATTTAACTTCTCTAAAAATAATAAAATTATATTTT
63435239 CATCATTCAAGGGAAAGTTTGTGTGTTAATCGGTTAATCCTTGTGGCTGTGGGGAGTGCT
66 CATCATTCAAGGGAAAGTTTGTGTGTTAATCGGTTAATCCTTGTGGCTGTGGGGAGTGCT
63435299 ATATTAAATTAATT-TTTTAAAATTTATTAATTTAACTTCTCTAAAAATAATAAAATTATATTTT
1 ATATTAAATTAATTCTTTTAAAATTTATTAATTTAACTTCTCTAAAAATAATAAAATTATATTTT
63435363 CATCATTCAAGGGAAAGTTTGTGTGTTAATCGGTTAATCCTTGTGGCTGTGGGGAGTGCT
66 CATCATTCAAGGGAAAGTTTGTGTGTTAATCGGTTAATCCTTGTGGCTGTGGGGAGTGCT
63435423 AT
1 AT
63435425 GTATCTGAAT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 112 0.89
125 14 0.11
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (125 bp):
ATATTAAATTAATTCTTTTAAAATTTATTAATTTAACTTCTCTAAAAATAATAAAATTATATTTT
CATCATTCAAGGGAAAGTTTGTGTGTTAATCGGTTAATCCTTGTGGCTGTGGGGAGTGCT
Found at i:63436892 original size:11 final size:11
Alignment explanation
Indices: 63436866--63436901 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
63436856 AACTAATCCT
63436866 CTCTCAAATTTC
1 CTCTC-AATTTC
*
63436878 CTCTCAATTTG
1 CTCTCAATTTC
63436889 CTCTCAATTTC
1 CTCTCAATTTC
63436900 CT
1 CT
63436902 TCCAAATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.19, C:0.33, G:0.03, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:63440012 original size:3 final size:3
Alignment explanation
Indices: 63440004--63440068 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
63439994 GTATTATCAT
* *
63440004 TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TTA TGTA -TA TTA CTG
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
63440049 TTA CTTA TCA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA T
63440069 GTGATAGCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 3 0.06
3 42 0.82
4 6 0.12
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:63452479 original size:44 final size:43
Alignment explanation
Indices: 63452369--63452748 Score: 224
Period size: 44 Copynumber: 8.8 Consensus size: 43
63452359 ATTATACAGG
* *** * *
63452369 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* *
63452415 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* ** *
63452459 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
63452503 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
63452542 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* * * ** * * *
63452583 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* *
63452629 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * **
63452673 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* *
63452716 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT
63452749 AAAATAAAGG
Statistics
Matches: 263, Mismatches: 54, Indels: 37
0.74 0.15 0.10
Matches are distributed among these distances:
38 2 0.01
39 24 0.09
40 1 0.00
41 28 0.11
42 8 0.03
43 30 0.11
44 104 0.40
45 1 0.00
46 63 0.24
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:63454424 original size:3 final size:3
Alignment explanation
Indices: 63454416--63454477 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
63454406 GTATTATCAT
* *
63454416 TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TGTA -TA TTA CTG TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
63454461 CTTA TCA TTA TTA TTA T
1 -TTA TTA TTA TTA TTA T
63454478 GTGATAGCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
2 3 0.06
3 39 0.81
4 6 0.12
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:63459020 original size:20 final size:20
Alignment explanation
Indices: 63458979--63459020 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
63458969 CTTTTATGTT
* *
63458979 AAAAGAGATGGAGAAGAGAG
1 AAAAGAGAGGGAGAAGACAG
63458999 AAAAGTAGAGGGAGAAG-CAG
1 AAAAG-AGAGGGAGAAGACAG
63459019 AA
1 AA
63459021 GAGAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.55, C:0.02, G:0.38, T:0.05
Consensus pattern (20 bp):
AAAAGAGAGGGAGAAGACAG
Found at i:63467085 original size:28 final size:28
Alignment explanation
Indices: 63467047--63467143 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 28
63467037 ACTTTTTACT
*
63467047 AATTTGATACTTAAGCTTTTTTTCATTC
1 AATTTGGTACTTAAGCTTTTTTTCATTC
* *
63467075 AATTTGGTACTTAAACTTGACACCTTTTC-TT-
1 AATTTGGTACTTAAGCTT-----TTTTTCATTC
* **
63467106 AATTTGGTACTTAAGATTTTTTAGATTC
1 AATTTGGTACTTAAGCTTTTTTTCATTC
63467134 AATTTGGTAC
1 AATTTGGTAC
63467144 CCAAACCTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
26 3 0.06
27 2 0.04
28 26 0.48
31 16 0.30
32 2 0.04
33 5 0.09
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.48
Consensus pattern (28 bp):
AATTTGGTACTTAAGCTTTTTTTCATTC
Found at i:63467663 original size:60 final size:60
Alignment explanation
Indices: 63467532--63467675 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 60
63467522 GAAAAGATTA
* * * ** *
63467532 ATTAAGTACTAAATTGAGGAAAAAAGTGTCAAGTTTAGGCATTAAATTGGACCCAAAAAAG
1 ATTAAGTACCAAATTTAAG-AAAAAGTGTCAAGTTTAAACATTAAACTGGACCCAAAAAAG
* * * *
63467593 ATGAACTACCAAATTTAAGAAAAAGTGTCAAGTTTAAATATTAAACTGGA-CCAAAAAACT
1 ATTAAGTACCAAATTTAAGAAAAAGTGTCAAGTTTAAACATTAAACTGGACCCAAAAAA-G
* *
63467653 TTTAAGTACCAAA-GTAAGAAAAA
1 ATTAAGTACCAAATTTAAGAAAAA
63467676 AAATTAAGTT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 17 0.25
60 37 0.54
61 14 0.21
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.24
Consensus pattern (60 bp):
ATTAAGTACCAAATTTAAGAAAAAGTGTCAAGTTTAAACATTAAACTGGACCCAAAAAAG
Found at i:63471228 original size:10 final size:10
Alignment explanation
Indices: 63471197--63471258 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
63471187 TATAGTATAT
63471197 ATAAATTTAA
1 ATAAATTTAA
*
63471207 AT--ATTAAA
1 ATAAATTTAA
63471215 ATAAATTTAA
1 ATAAATTTAA
63471225 ATAAA-TT-A
1 ATAAATTTAA
*
63471233 ATAATATTGAA
1 ATAA-ATTTAA
* *
63471244 ATAAGTTGAA
1 ATAAATTTAA
63471254 ATAAA
1 ATAAA
63471259 ATAAAGATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 12 0.29
9 3 0.07
10 22 0.52
11 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
ATAAATTTAA
Found at i:63471235 original size:18 final size:19
Alignment explanation
Indices: 63471197--63471258 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
63471187 TATAGTATAT
63471197 ATAAATTTAAAT--ATTAAA
1 ATAAATTTAAATAAATT-AA
63471215 ATAAATTTAAATAAATT-A
1 ATAAATTTAAATAAATTAA
* *
63471233 ATAATATTGAAATAAGTTGAA
1 ATAA-ATTTAAATAAATT-AA
63471254 ATAAA
1 ATAAA
63471259 ATAAAGATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 17 0.46
19 11 0.30
20 4 0.11
21 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
ATAAATTTAAATAAATTAA
Found at i:63471238 original size:29 final size:28
Alignment explanation
Indices: 63471197--63471272 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
63471187 TATAGTATAT
* *
63471197 ATAAATTTAAATATTAAAATAAATTTAA
1 ATAAATTAAAATATTAAAATAAATTGAA
* *
63471225 ATAAATTAATAATATTGAAATAAGTTGAA
1 ATAAATTAA-AATATTAAAATAAATTGAA
* *
63471254 ATAAAATAAAGATGTTAAA
1 ATAAATTAAA-ATATTAAA
63471273 GCATTTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.23
29 30 0.77
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (28 bp):
ATAAATTAAAATATTAAAATAAATTGAA
Found at i:63472237 original size:20 final size:18
Alignment explanation
Indices: 63472115--63472240 Score: 60
Period size: 20 Copynumber: 6.8 Consensus size: 18
63472105 ACCCGAATTA
**
63472115 AATCACTACATAA-TTAA
1 AATCACTACATAATTTTG
* *
63472132 AAACATTACATAAATCTTTG
1 AATCACTACAT-AAT-TTTG
***
63472152 AATCACTACATAATTAAA
1 AATCACTACATAATTTTG
*
63472170 AAT-ATTACATAAGTTTTTG
1 AATCACTACATAA--TTTTG
* ***
63472189 AATCACTACATGATTAAA
1 AATCACTACATAATTTTG
*
63472207 AAT-ATTACATAAGTCTTTG
1 AATCACTACATAA-T-TTTG
63472226 AATCACTACATAATT
1 AATCACTACATAATT
63472241 AAAAATATTA
Statistics
Matches: 76, Mismatches: 24, Indels: 17
0.65 0.21 0.15
Matches are distributed among these distances:
17 24 0.32
18 13 0.17
19 13 0.17
20 26 0.34
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (18 bp):
AATCACTACATAATTTTG
Found at i:63472254 original size:17 final size:17
Alignment explanation
Indices: 63472121--63472255 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
63472111 ATTAAATCAC
*
63472121 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
*** *
63472138 TACATAAATCTTTGAATCAC
1 TACAT-AAT-TAAAAAT-AT
63472158 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
63472175 TACATAAGTTTTTGAATCAC
1 TACATAA--TTAAAAAT-AT
*
63472195 TACATGATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
63472212 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
63472232 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
63472249 TACATAA
1 TACATAA
63472256 GTCTTGAAAT
Statistics
Matches: 82, Mismatches: 27, Indels: 18
0.65 0.21 0.14
Matches are distributed among these distances:
17 28 0.34
18 17 0.21
19 16 0.20
20 21 0.26
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:63472277 original size:37 final size:37
Alignment explanation
Indices: 63472115--63472260 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
63472105 ACCCGAATTA
* *
63472115 AATCACTACATAATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
63472152 AATCACTACATAATTAAAAATATTACATAAGTTTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
63472189 AATCACTACATGATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
63472226 AATCACTACATAATTAAAAATATTACATAAGTCTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTT
63472261 GAAATTAACA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:63476496 original size:6 final size:6
Alignment explanation
Indices: 63476473--63476511 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
63476463 TAAGTGTGTG
** *
63476473 AGTGAA AGTTTA AGTGAA ACTGAA AGTGAA AGTGAA AGT
1 AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGT
63476512 AGGGAGGGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (6 bp):
AGTGAA
Found at i:63477172 original size:19 final size:18
Alignment explanation
Indices: 63477150--63477190 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
63477140 TATATTTTCT
*
63477150 TCCCTTTTTTCTGTATCAA
1 TCCCTTTTCTCT-TATCAA
*
63477169 TCCCTTTTCTCTTTTCAA
1 TCCCTTTTCTCTTATCAA
63477187 TCCC
1 TCCC
63477191 CCCATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.12, C:0.34, G:0.02, T:0.51
Consensus pattern (18 bp):
TCCCTTTTCTCTTATCAA
Found at i:63477176 original size:18 final size:19
Alignment explanation
Indices: 63477150--63477190 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
63477140 TATATTTTCT
63477150 TCCCTTTTT-TCTGTATCAA
1 TCCCTTTTTCTCT-TATCAA
*
63477169 TCCC-TTTTCTCTTTTCAA
1 TCCCTTTTTCTCTTATCAA
63477187 TCCC
1 TCCC
63477191 CCCATTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.12, C:0.34, G:0.02, T:0.51
Consensus pattern (19 bp):
TCCCTTTTTCTCTTATCAA
Found at i:63479400 original size:9 final size:9
Alignment explanation
Indices: 63479371--63479407 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
63479361 TGAGTTTTCG
63479371 AATTCGAAT
1 AATTCGAAT
*
63479380 AACTCGAAT
1 AATTCGAAT
63479389 AATTCGAAT
1 AATTCGAAT
*
63479398 AATTCAAAT
1 AATTCGAAT
63479407 A
1 A
63479408 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:63483777 original size:26 final size:27
Alignment explanation
Indices: 63483740--63483797 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
63483730 AAATATGTTA
* *
63483740 TAAAAAGAAAAG-AGA-AAACCTAATC
1 TAAAAAGAAAAGAAAAGAAACCTAACC
63483765 TAAAAATGAAAAGAAAAGAAACCTAACC
1 TAAAAA-GAAAAGAAAAGAAACCTAACC
63483793 TAAAA
1 TAAAA
63483798 CTATAAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 2 0.07
28 14 0.50
ACGTcount: A:0.66, C:0.12, G:0.10, T:0.12
Consensus pattern (27 bp):
TAAAAAGAAAAGAAAAGAAACCTAACC
Found at i:63485365 original size:19 final size:18
Alignment explanation
Indices: 63485306--63485358 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
63485296 ATATACATAT
* *
63485306 ATTAATTAAAAATTTAATA
1 ATTAATT-AAATTTTTATA
63485325 A-TAATTAAATTTTTATA
1 ATTAATTAAATTTTTATA
*
63485342 ATTAATTAAGTTTTTAT
1 ATTAATTAAATTTTTAT
63485359 TTATTAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.33
18 19 0.63
19 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTAATTAAATTTTTATA
Found at i:63488531 original size:12 final size:12
Alignment explanation
Indices: 63488514--63488540 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63488504 AATAAATCAT
63488514 ATATGTATATTA
1 ATATGTATATTA
63488526 ATATGTATATTA
1 ATATGTATATTA
63488538 ATA
1 ATA
63488541 GAAAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:63488885 original size:21 final size:21
Alignment explanation
Indices: 63488861--63488913 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
63488851 CATTGTTTCT
* *
63488861 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
63488882 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
63488903 AATCTCACCGC
1 AATCTCACCGC
63488914 CACCGTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:63501647 original size:18 final size:18
Alignment explanation
Indices: 63501619--63501674 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
63501609 TGTAGGTGGG
* *
63501619 TGGCTTGTGGACGATGGT
1 TGGCCTGTGGATGATGGT
* *
63501637 TGGTCTGTGGATGGTGGT
1 TGGCCTGTGGATGATGGT
63501655 TGGCCTGTGGATGATGGT
1 TGGCCTGTGGATGATGGT
63501673 TG
1 TG
63501675 TGGAGGTGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.09, C:0.09, G:0.46, T:0.36
Consensus pattern (18 bp):
TGGCCTGTGGATGATGGT
Found at i:63504418 original size:24 final size:23
Alignment explanation
Indices: 63504390--63504443 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
63504380 AATATATAAT
*
63504390 ATTAATTTTAAATATTTCTAAATA
1 ATTAATTTTAAATATTTATAAA-A
* *
63504414 ATTAATATTAATTATTTATAAAA
1 ATTAATTTTAAATATTTATAAAA
*
63504437 TTTAATT
1 ATTAATT
63504444 AGAATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAATTTTAAATATTTATAAAA
Found at i:63506833 original size:20 final size:20
Alignment explanation
Indices: 63506793--63506831 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
63506783 AATTTAATAA
63506793 AAAATTATTTTTTTATTTTT
1 AAAATTATTTTTTTATTTTT
63506813 AAAA-TATTTTTTTATTTTT
1 AAAATTATTTTTTTATTTTT
63506832 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
AAAATTATTTTTTTATTTTT
Found at i:63506837 original size:26 final size:27
Alignment explanation
Indices: 63506801--63506851 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
63506791 AAAAAATTAT
63506801 TTTTTTATTTTTAAAA-TATTTTTTTA
1 TTTTTTATTTTTAAAATTATTTTTTTA
63506827 TTTTTTATTTTTAAAATTATTTTTT
1 TTTTTTATTTTTAAAATTATTTTTT
63506852 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTTATTTTTAAAATTATTTTTTTA
Found at i:63506859 original size:26 final size:26
Alignment explanation
Indices: 63506804--63506861 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
63506794 AAATTATTTT
* *
63506804 TTTATTTTTAAAATATTTTTTTATTT
1 TTTATTTTTAAAATATTTTTTTAGTG
*
63506830 TTTATTTTTAAAAT-TATTTTTTGGTG
1 TTTATTTTTAAAATAT-TTTTTTAGTG
63506856 TTTATT
1 TTTATT
63506862 AAAAAATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (26 bp):
TTTATTTTTAAAATATTTTTTTAGTG
Found at i:63510183 original size:35 final size:34
Alignment explanation
Indices: 63510134--63510201 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
63510124 TGTCTCATGA
63510134 AAATGTATCCATTGAAAGATAAATCATCACTTTCG
1 AAATGTATCCATTGAAAGATAAAT-ATCACTTTCG
* * *
63510169 AAATGTATCTATTGAATGATAACTATCACTTTC
1 AAATGTATCCATTGAAAGATAAATATCACTTTC
63510202 CAAAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (34 bp):
AAATGTATCCATTGAAAGATAAATATCACTTTCG
Found at i:63510517 original size:17 final size:17
Alignment explanation
Indices: 63510497--63510529 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
63510487 TTAAAAATTA
63510497 TAAA-AATATAAATTATT
1 TAAATAATA-AAATTATT
63510514 TAAATAATAAAATTAT
1 TAAATAATAAAATTAT
63510530 ATTTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATAATAAAATTATT
Found at i:63511858 original size:30 final size:30
Alignment explanation
Indices: 63511815--63511872 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
63511805 GGAATTATTT
63511815 ATTATGTTATATCAATTA-ATTATTCATATA
1 ATTATGTTATATCAATTATATT-TTCATATA
*
63511845 ATTAT-TTATTATCACTTATATTTTCATA
1 ATTATGTTA-TATCAATTATATTTTCATA
63511873 AATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 19 0.76
31 3 0.12
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTATGTTATATCAATTATATTTTCATATA
Found at i:63513369 original size:35 final size:35
Alignment explanation
Indices: 63513323--63513410 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
63513313 TTAAGTCCAC
* *
63513323 TTATATTATTTTAAATTTTATTAAAAATATTTATA
1 TTATATTATTTTAAATTTTAATAAAAATATATATA
** *
63513358 TTATATTATTTT-AATATTTAATAATTATATATATT
1 TTATATTATTTTAAAT-TTTAATAAAAATATATATA
*
63513393 TTAT-TTATTTAAAATTTT
1 TTATATTATTTTAAATTTT
63513411 TATATAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 12 0.27
35 33 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (35 bp):
TTATATTATTTTAAATTTTAATAAAAATATATATA
Found at i:63513401 original size:26 final size:24
Alignment explanation
Indices: 63513348--63513408 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
63513338 TTTTATTAAA
63513348 AATATTT-AT-ATTATATTATTTT
1 AATATTTAATAATTATATTATTTT
63513370 AATATTTAATAATTATATATATTTT
1 AATATTTAATAATTATAT-TATTTT
*
63513395 ATTTATTTAA-AATT
1 A-ATATTTAATAATT
63513409 TTTATATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 7 0.21
23 2 0.06
24 7 0.21
25 11 0.32
26 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AATATTTAATAATTATATTATTTT
Found at i:63513414 original size:26 final size:25
Alignment explanation
Indices: 63513358--63513416 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
63513348 AATATTTATA
63513358 TTATATTATTTTAATATTTAATAATT
1 TTATA-TATTTTAATATTTAATAATT
* *
63513384 ATATATATTTTATTTATTTAA-AATTT
1 TTATATATTTTA-ATATTTAATAA-TT
63513410 TTATATA
1 TTATATA
63513417 ATCATCTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATATTTTAATATTTAATAATT
Found at i:63513864 original size:20 final size:21
Alignment explanation
Indices: 63513806--63513867 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
63513796 AGGCTACATA
63513806 AAAAAATAAGAAGAGAATTGT
1 AAAAAATAAGAAGAGAATTGT
* *
63513827 TAAAAATATATAA-A-AATT-T
1 AAAAAATA-AGAAGAGAATTGT
63513846 AAAAAATAAGAAGAGAATTGT
1 AAAAAATAAGAAGAGAATTGT
63513867 A
1 A
63513868 GGGATCACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.09
19 9 0.27
20 8 0.24
21 10 0.30
22 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (21 bp):
AAAAAATAAGAAGAGAATTGT
Found at i:63523754 original size:14 final size:14
Alignment explanation
Indices: 63523730--63523773 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
63523720 TAAATATATA
63523730 TTTTA-TTTTTATT
1 TTTTATTTTTTATT
63523743 TTTTATTTTTTAATT
1 TTTTATTTTTT-ATT
* *
63523758 TTTAATTTTTAATT
1 TTTTATTTTTTATT
63523772 TT
1 TT
63523774 AAAATACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 12 0.44
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:63523775 original size:6 final size:7
Alignment explanation
Indices: 63523730--63523773 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
63523720 TAAATATATA
63523730 TTTT-AT
1 TTTTAAT
*
63523736 TTTTATT
1 TTTTAAT
*
63523743 TTTTATT
1 TTTTAAT
63523750 TTTTAAT
1 TTTTAAT
63523757 TTTTAAT
1 TTTTAAT
63523764 TTTTAAT
1 TTTTAAT
63523771 TTT
1 TTT
63523774 AAAATACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 4 0.11
7 31 0.89
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTAAT
Found at i:63523806 original size:20 final size:21
Alignment explanation
Indices: 63523781--63523830 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
63523771 TTTAAAATAC
63523781 TTTAAAAATATTTTTT-TATT
1 TTTAAAAATATTTTTTGTATT
*
63523801 TTT-AAAATATTTTTTGTGTT
1 TTTAAAAATATTTTTTGTATT
63523821 TATTAAAAAT
1 T-TTAAAAAT
63523831 CGGGCCGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 12 0.46
20 7 0.27
21 2 0.08
22 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTAAAAATATTTTTTGTATT
Found at i:63530389 original size:30 final size:30
Alignment explanation
Indices: 63530350--63530416 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
63530340 ACCAAAAAAA
*
63530350 GCCGTTTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
* ** *
63530380 GCCGA-TTTTTTGATTATTTACCGGAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
63530409 GCC-ATTTT
1 GCCGATTTT
63530417 CCGCGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.84
30 4 0.13
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:63530510 original size:40 final size:41
Alignment explanation
Indices: 63530422--63530511 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
63530412 ATTTTCCGCG
* * * * *
63530422 AAATCGCGTCCACGTTAGCGCGATGTTAGGGTACGTGTCAG
1 AAATCGCGTCCACATCAGCGCGATGTTAGCGTACGTGACAC
*
63530463 AACATCGCGTCCACATCAGCGCGAT-TT-GCTTACGTGGACAC
1 AA-ATCGCGTCCACATCAGCGCGATGTTAGCGTACGT-GACAC
63530504 AAATCGCG
1 AAATCGCG
63530512 CCTACGAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
40 12 0.29
41 9 0.22
42 20 0.49
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (41 bp):
AAATCGCGTCCACATCAGCGCGATGTTAGCGTACGTGACAC
Found at i:63542278 original size:15 final size:15
Alignment explanation
Indices: 63542258--63542287 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63542248 ATCATACTAA
63542258 AAAATATTATTATAC
1 AAAATATTATTATAC
63542273 AAAATATTATTATAC
1 AAAATATTATTATAC
63542288 CCATCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATTATTATAC
Found at i:63542351 original size:18 final size:16
Alignment explanation
Indices: 63542335--63542365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63542325 CTTTAATTAA
63542335 ATTATTTAAAATAATT
1 ATTATTTAAAATAATT
*
63542351 ATTTTTTAAAATAAT
1 ATTATTTAAAATAAT
63542366 AAACAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTAAAATAATT
Found at i:63544127 original size:126 final size:126
Alignment explanation
Indices: 63543902--63544199 Score: 470
Period size: 126 Copynumber: 2.4 Consensus size: 126
63543892 TAATTTAAAG
* * * *
63543902 AAGCTTCCACGTGGATGCGCTTTTGCTACAGTGGCTCTTGAGAAAATAATTTTAAGTAGACGTTT
1 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTAAGTAGACGTTT
*
63543967 CTGAGCAAACAGTGTTAAAAATACTTTAAACAGGATGCTTTGTCAACAGAAGTACTGAAAA
66 CTGAGCAAACAGTGTCAAAAATACTTTAAACAGGATGCTTTGTCAACAGAAGTACTGAAAA
* * *
63544028 AAGCTTCCACATAGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTAAGTAGACGTTT
* * * *
63544093 CTGAGCAAACAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAG
66 CTGAGCAAACAGTGTCAAAAATACTTTAAACAGGATGCTTTGTCAACAGAAGTACTGAAAA
* *
63544154 AAGCTCCCACGTGGACGCGCTTTTGCTACGGTAGCTCCTGAAAAAA
1 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA
63544200 GCTCCCACGT
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 156 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTAAGTAGACGTTT
CTGAGCAAACAGTGTCAAAAATACTTTAAACAGGATGCTTTGTCAACAGAAGTACTGAAAA
Found at i:63549719 original size:11 final size:10
Alignment explanation
Indices: 63549705--63549769 Score: 60
Period size: 11 Copynumber: 6.1 Consensus size: 10
63549695 AAATAGGGAT
63549705 TTGAGAGAAA
1 TTGAGAGAAA
63549715 TTTGAGAGGAAA
1 -TTGAGA-GAAA
*
63549727 TTGAAAGCAAA
1 TTGAGAG-AAA
*
63549738 TTGAGTGGAAA
1 TTGAG-AGAAA
63549749 TTGAGAGCAAA
1 TTGAGAG-AAA
63549760 TT-AGAGAAA
1 TTGAGAGAAA
63549769 T
1 T
63549770 GATTTATTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
9 4 0.09
10 6 0.13
11 31 0.67
12 5 0.11
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:63549741 original size:22 final size:22
Alignment explanation
Indices: 63549716--63549769 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
63549706 TGAGAGAAAT
63549716 TTGAGAGGAAATTGAAAGCAAA
1 TTGAGAGGAAATTGAAAGCAAA
* *
63549738 TTGAGTGGAAATTGAGAGCAAA
1 TTGAGAGGAAATTGAAAGCAAA
63549760 TT-AGA-GAAAT
1 TTGAGAGGAAAT
63549770 GATTTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 22 0.76
ACGTcount: A:0.46, C:0.04, G:0.28, T:0.22
Consensus pattern (22 bp):
TTGAGAGGAAATTGAAAGCAAA
Found at i:63552956 original size:31 final size:32
Alignment explanation
Indices: 63552892--63552956 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
63552882 GGATTTTAAT
* *
63552892 TTGACCAATTTTAGTTCCTGTACTTTTTTGAA
1 TTGACCAATTTTAGTTCCTATACTTTTTCGAA
* *
63552924 TTGATCAATTTTAGTTCTTATA-TTTTTCGAA
1 TTGACCAATTTTAGTTCCTATACTTTTTCGAA
63552955 TT
1 TT
63552957 TTGAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.23, C:0.12, G:0.11, T:0.54
Consensus pattern (32 bp):
TTGACCAATTTTAGTTCCTATACTTTTTCGAA
Found at i:63553832 original size:18 final size:18
Alignment explanation
Indices: 63553794--63553835 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
63553784 AACGATTAGT
**
63553794 AGTTCGTCGTCGTGTCAG
1 AGTTCGTCGTCGCCTCAG
*
63553812 AGTTCGTCGTCGCCTCGG
1 AGTTCGTCGTCGCCTCAG
63553830 AGTTCG
1 AGTTCG
63553836 CCGTATGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (18 bp):
AGTTCGTCGTCGCCTCAG
Found at i:63566802 original size:18 final size:18
Alignment explanation
Indices: 63566781--63566834 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
63566771 AAATAGTAAC
63566781 AAAATTAACAATAAAATA
1 AAAATTAACAATAAAATA
**
63566799 AAAATTATACAAT-ATCTA
1 AAAATTA-ACAATAAAATA
* *
63566817 AAAAATAACAAAAAAATA
1 AAAATTAACAATAAAATA
63566835 GTAACAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATTAACAATAAAATA
Found at i:63567827 original size:41 final size:41
Alignment explanation
Indices: 63567776--63567882 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 41
63567766 CGAATTTGAG
*
63567776 GTTTGAGATTTAGGTTTAATGGTTTAA-G-GTTATGAGTTACGA
1 GTTTG-GATTTAGGTTTAA-GGTTTAACGATTTA-GAGTTACGA
*
63567818 GTTTGGATTTAGGTTTAAGGTTTAACGATTTAGAGTTACGT
1 GTTTGGATTTAGGTTTAAGGTTTAACGATTTAGAGTTACGA
*
63567859 GTTTGG-TGTTCAAGTTTAAGGTTT
1 GTTTGGAT-TT-AGGTTTAAGGTTT
63567883 TGGGTTGGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
40 8 0.14
41 30 0.52
42 20 0.34
ACGTcount: A:0.23, C:0.04, G:0.28, T:0.45
Consensus pattern (41 bp):
GTTTGGATTTAGGTTTAAGGTTTAACGATTTAGAGTTACGA
Found at i:63568728 original size:24 final size:24
Alignment explanation
Indices: 63568700--63568756 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
63568690 AATAGTAAAT
* * *
63568700 TATTTTTTTTTAAAATTTCATCCA
1 TATTTATTATTAAAATTTAATCCA
*
63568724 TATTTATTATTAAAATTTAATCTA
1 TATTTATTATTAAAATTTAATCCA
*
63568748 TATATATTA
1 TATTTATTA
63568757 GAATGAGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTATTATTAAAATTTAATCCA
Found at i:63577422 original size:216 final size:216
Alignment explanation
Indices: 63576299--63577385 Score: 1356
Period size: 216 Copynumber: 5.0 Consensus size: 216
63576289 ACTGCTAAGT
** * * * * * *
63576299 CCATCTTAGGTTCCATATTCAAAGTAATAC-CTTCAATTTTACCAATTCTCTCATCATTTTCCCC
1 CCATCTTAGACTCCGTATTCAAAATAGTACAC-TCAATTTTACCAATTCCCTCACCATTTTCCTC
* * * * * * *
63576363 GGCACCA-CTATTTTCTTCCTCCTCCAGCTTCACACTGTGAGGAACTTCGCTTTTGGAACT-AAG
65 AGCACCAGC-ATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGA-
* * * * * * * *
63576426 CTCTAAAGAAGCTAATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAG
128 CTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAG
**
63576491 CCTTTTCTAAATCAGGAACTAAAG
193 CCTTTTCTGTATCAGGAACTAAAG
** * * * * *
63576515 CCATCTTAGACTCAATATTCGAAGTAGTACACTCAAATTTACCAA-TCCTTTCACCTTTTTCCTC
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCC-CTCACCATTTTCCTC
* ** * * * * *
63576579 AGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTAGAACCGGACT
65 AGCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACT
* * *
63576644 CTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAGAAGCC
130 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCC
*
63576709 TTTTCTGTATCAGCAACTAAAG
195 TTTTCTGTATCAGGAACTAAAG
* *
63576731 CTATCTTAGACTCCGTATTGAAAATAGTACACTCAATTTTACCAATTCCCTCACC-TTCTTCCTC
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCATT-TTCCTC
* * * * * *
63576795 AGCGCCAGTATTTTCTTCCTTTTCCAACTTAACACTCTGGGGAACTTTACTTTTGGAACTGGACC
65 AGCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACT
* *
63576860 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAAAAGATTCCAGTGGAGGAGAAGCC
130 CTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCC
63576925 TTTTCTGTATCAGGAACTAAAG
195 TTTTCTGTATCAGGAACTAAAG
* *
63576947 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCTTTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCATTTTCCTCA
* * *
63577012 GCACCCGCATTTTCATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACTGGACTC
66 GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * *
63577077 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAGCGAAGCCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
*
63577142 TTTCTGTATCAAGAACTAAAG
196 TTTCTGTATCAGGAACTAAAG
* *
63577163 CCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAATCCCTCACCATTTTCCTCA
1 CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCATTTTCCTCA
* * *** **
63577228 GCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCCAAACCAGACTC
66 GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
* * * * * *
63577293 TGAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCT
131 TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
* * *
63577358 TTTCTATATCAGGAGCTAAAT
196 TTTCTGTATCAGGAACTAAAG
63577379 CCATCTT
1 CCATCTT
63577386 TGATACCATA
Statistics
Matches: 757, Mismatches: 107, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
215 4 0.01
216 746 0.99
217 7 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (216 bp):
CCATCTTAGACTCCGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCACCATTTTCCTCA
GCACCAGCATTTTCTTCCTCTTCCAACTTAACACTGTGGGGAACTTCACTTTTGGAACTGGACTC
TGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAGCTTCCAGTGGAGGAGAAGCCT
TTTCTGTATCAGGAACTAAAG
Found at i:63577474 original size:432 final size:429
Alignment explanation
Indices: 63576439--63577491 Score: 1192
Period size: 432 Copynumber: 2.4 Consensus size: 429
63576429 TAAAGAAGCT
* * * ** * * * * *
63576439 AATTCAGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATC
1 AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGATCCCAGTGGAGGAGAAACCTTTTCTATATC
* * ** *
63576504 AGGAACTAAAGCCATCTTAGACTCAATATTCGAAGTAGTACACTCAAATTTACCAA-TCCTTTCA
66 AGGAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATTCC--TCA
** ** ** * * * *
63576568 CCTTTTTCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTT
129 CCTACTTCCTCAGCACCCGCATTTTCATCCTCGT-CAACTTAACAC-CTGGGGAACTTCACTTTT
* * *
63576633 AGAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTG
192 AGAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTG
* * *
63576698 GAGGAGAAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTGAAAATAGTACAC
257 GAAGAGAAGCCTTTTCTGTATCAGCAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTACAC
* * *
63576763 TCAATTTTACCAATTCCCTCACCTTCTTCCTCAGCGCCAGTATTTTCTTCCTTTTCCAACTTAAC
322 TCAATTTTACCAAATCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTTAAC
* *** ** *
63576828 ACTCTGGGGAACTTTACTTTTGGAACTGGACCCTGAAGGAGCT
387 ACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCC
* * * *
63576871 AATTCAGTTGTAATTTCACTTTCAATAGCAAAAGATTCCAGTGGAGGAGAAGCCTTTTCTGTATC
1 AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGATCCCAGTGGAGGAGAAACCTTTTCTATATC
** *
63576936 AGGAACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAATTCCCTCAC
66 AGGAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATT-CCTCAC
** * *
63577001 CTTTTTCCTCAGCACCCGCATTTTCATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTG
130 CTACTTCCTCAGCACCCGCATTTTCATCCTCGT-CAACTTAACACC-TGGGGAACTTCACTTTTA
* * *
63577066 GAACTGGACTCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGG
193 GAACCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGG
* *
63577131 AAGCGAAGCCTTTTCTGTATCAAG-AACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACAC
258 AAGAGAAGCCTTTTCTGTATC-AGCAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTACAC
*
63577195 TCAATTTTACCAAATCCCTCACCATT-TTCCTCAGCACCAGCGTTTTCTT-CTTCTTCCAACTTA
322 TCAATTTTACCAAATCCCTCACC-TTCTTCCTCAGCACCAGCATTTTCTTCCTT-TTCCAACTTA
* *
63577258 ACACTGTGGGGAACTTCACTTTCCAAACCAGACTCTGAAGGAGCC
385 ACACTCTGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCC
* * * *
63577303 AATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTGGGGGAGAAACCTTTTCTATATC
1 AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGATCCCAGTGGAGGAGAAACCTTTTCTATATC
* * * * * *
63577368 AGGAGCTAAATCCATCTTTGA-TACCATATTCAGAGCAGTATC-CTCAGTTTTACCATCATT-CT
66 AGGAACTAAAGCCATCTTAGACT-CCATATTCAAAACAGTA-CACTCAATTTTACCA--ATTCCT
** *
63577430 CACC-ACTTCCTTCAGAACCACCCTTATTTGTC-TCCT-GT-AACTTAACACCATGGGGCACTTC
127 CACCTACTTCC-TCAG---CACCCGCATTT-TCATCCTCGTCAACTTAACACC-TGGGGAACTTC
63577491 A
186 A
63577492 ACTTCGGAAC
Statistics
Matches: 535, Mismatches: 71, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
431 9 0.02
432 499 0.93
433 6 0.01
434 6 0.01
435 13 0.02
436 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (429 bp):
AATTCAGTTGTAATTTCACTTCCAATAGCAAAAGATCCCAGTGGAGGAGAAACCTTTTCTATATC
AGGAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATTTTACCAATTCCTCACC
TACTTCCTCAGCACCCGCATTTTCATCCTCGTCAACTTAACACCTGGGGAACTTCACTTTTAGAA
CCGGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATAGCAGAAACTTCAAGTGGAAG
AGAAGCCTTTTCTGTATCAGCAACTAAAGCCATCTTAGACTCCGTATTCAAAATAGTACACTCAA
TTTTACCAAATCCCTCACCTTCTTCCTCAGCACCAGCATTTTCTTCCTTTTCCAACTTAACACTC
TGGGGAACTTCACTTTCCAAACCAGACCCTGAAGGAGCC
Found at i:63577538 original size:648 final size:646
Alignment explanation
Indices: 63576314--63577543 Score: 1428
Period size: 648 Copynumber: 1.9 Consensus size: 646
63576304 TTAGGTTCCA
* * * * * *
63576314 TATTCAAAGTAATACCTTCAATTTTACCAATTCTCTCATCATTTTCCCCGGCACCACTATTTTCT
1 TATTCAAAATAATACCTTCAATTTTACCAATTCCCTCACCATTTTCCCCAGCACCACCATTTTCA
* * * *
63576379 TCCTCCTCCAGCTTCACACTGTGAGGAACTTCGCTTTTGGAACTAAGCTCTAAAGAAGCTAATTC
66 TCCTCCTCCAACTTAACACCGTGAGGAACTTCACTTTTGGAACTAAGCTCTAAAGAAGCTAATTC
* * * * * *
63576444 AGTTCTAGTTTCACTTCCACTAGCAGGAGCTTCCAATGGAGGAGAAGCCTTTTCTAAATCAGGAA
131 AGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCTTTTCTAAATCAAGAA
* * * *
63576509 CTAAAGCCATCTTAGACTCAATATTCGAAGTAGTACACTCAAATTTACCAATCCTTTCACCTTTT
196 CTAAAGCCATCTTAGACTCAATATTCAAAATAGTACACTCAAATTTACCAATCCTCTCACCATTT
* * * *
63576574 TCCTCAGCACTAGTGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGATCTTCACTTTTAGAACC
261 TCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTTCACTTTCAGAACC
* * * * *
63576639 GGACTCTAAAGGAGCTAATTCAGCTGTAATTTCACTTTCAATGGCAGAAGCTTCCAGTGGAGGAG
326 AGACTCTAAAGGAGCCAATTCAGCTGTAATTTCACTTCCAATAGCAGAAGCTCCCAGTGGAGGAG
* * * * * *
63576704 AAGCCTTTTCTGTATCAGCAACTAAAGCTATCTTAGACTCCGTATTGAAAATAGTACACTCAATT
391 AAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATT
* * *
63576769 TTACCAATTCCCTCACCTTCTTCCTCAGCGCCAGTATTTTCTTCCTTTTCCAACTTAACACTCTG
456 TTACCAATT-CCTCACCTACTTCCTCAGCACCAGTATTTTCTTCCTTGT-CAACTTAACACTCTG
* * *** * * * *
63576834 GGGAACTTTACTTTTGGAACTGGACCCTGAAGGAGCTAATTCAGTTGTAATTTCACTTTCAATAG
519 GGGAACTTAACTTTCGGAACCCAACCCTGAAGAACCTAATACAGTAGTAATTTCACTTTCAATAG
63576899 CAAAAGATTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTG
584 CAAAAGATTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTG
* * *
63576962 TATTCAAAATAGTACAC-TCAATTTTACCAATTCCCTCACCTTTTTCCTCAGCACC-CGCATTTT
1 TATTCAAAATAATAC-CTTCAATTTTACCAATTCCCTCACCATTTTCCCCAGCACCAC-CATTTT
* * * * *
63577025 CATCCTCTTCCAACTTAACACCGTGGGGAACTTCACTTTTGGAACT-GGACTCTGAAGGAGCTAA
64 CATCCTCCTCCAACTTAACACCGTGAGGAACTTCACTTTTGGAACTAAG-CTCTAAAGAAGCTAA
* * * **
63577089 TTCAGTTGTAATTTCACTTTCAATAGCAGAAACTT-CAAGTGGAAGCGAAGCCTTTTCTGTATCA
128 TTCAGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAA-TGGAAGAGAAGCCTTTTCTAAATCA
** *
63577153 AGAACTAAAGCCATCTTAGACTCTGTATTCAAAATAGTACACTCAATTTTACCAAATCC-CTCAC
192 AGAACTAAAGCCATCTTAGACTCAATATTCAAAATAGTACACTCAAATTTACC-AATCCTCTCAC
* * *
63577217 CATTTTCCTCAGCACCAGCGTTTTCTTCTTCTTCCAACTTAACACTGTGGGGAACTTCACTTTCC
256 CATTTTCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTTCACTTT-C
* * *
63577282 A-AACCAGACTCTGAAGGAGCCAATTCAGTTGTAATTTCACTTCCAATATCAGAAGCTCCCAGTG
320 AGAACCAGACTCTAAAGGAGCCAATTCAGCTGTAATTTCACTTCCAATAGCAGAAGCTCCCAGTG
* * * * * * *
63577346 GGGGAGAAACCTTTTCTATATCAGGAGCTAAATCCATCTTTGA-TACCATATTCAGAGCAGTATC
385 GAGGAGAAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACT-CCATATTCAAAACAGTA-C
* **
63577410 -CTCAGTTTTACCATCATT-CTCACC-ACTTCCTTCAGAACCACCCTTATTTGTC-TCC-TGT-A
448 ACTCAATTTTACCA--ATTCCTCACCTACTTCC-TCAG---CACCAGTATTT-TCTTCCTTGTCA
* * * * *
63577469 ACTTAACAC-CATGGGGCACTTCAAC-TTCGGAACCCAACTCTGGAGAACCTAATAGAGTAGTAG
506 ACTTAACACTC-TGGGGAACTT-AACTTTCGGAACCCAACCCTGAAGAACCTAATACAGTAGTAA
63577532 TTTCACTTTCAA
569 TTTCACTTTCAA
63577544 CAACAGAAGC
Statistics
Matches: 481, Mismatches: 84, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
647 12 0.02
648 441 0.92
649 10 0.02
650 5 0.01
651 11 0.02
652 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (646 bp):
TATTCAAAATAATACCTTCAATTTTACCAATTCCCTCACCATTTTCCCCAGCACCACCATTTTCA
TCCTCCTCCAACTTAACACCGTGAGGAACTTCACTTTTGGAACTAAGCTCTAAAGAAGCTAATTC
AGTTCTAATTTCACTTCCAATAGCAGAAACTTCCAATGGAAGAGAAGCCTTTTCTAAATCAAGAA
CTAAAGCCATCTTAGACTCAATATTCAAAATAGTACACTCAAATTTACCAATCCTCTCACCATTT
TCCTCAGCACCAGCGTCTTCTTCCTCTTCCAACTTAACACTCTGGGGAACTTCACTTTCAGAACC
AGACTCTAAAGGAGCCAATTCAGCTGTAATTTCACTTCCAATAGCAGAAGCTCCCAGTGGAGGAG
AAACCTTTTCTATATCAGCAACTAAAGCCATCTTAGACTCCATATTCAAAACAGTACACTCAATT
TTACCAATTCCTCACCTACTTCCTCAGCACCAGTATTTTCTTCCTTGTCAACTTAACACTCTGGG
GAACTTAACTTTCGGAACCCAACCCTGAAGAACCTAATACAGTAGTAATTTCACTTTCAATAGCA
AAAGATTCCAGTGGAGGAGAAGCCTTTTCTGTATCAGGAACTAAAGCCATCTTAGACTCTG
Found at i:63583987 original size:27 final size:30
Alignment explanation
Indices: 63583948--63584004 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
63583938 AAATAAGGTG
*
63583948 AATATCGATATTGAATTAAA-TGAATTAAA
1 AATATCGATATTGAATAAAAGTGAATTAAA
63583977 AATAT-GA-ATTGAATAAAAGTGAATTAAA
1 AATATCGATATTGAATAAAAGTGAATTAAA
63584005 TTATGATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (30 bp):
AATATCGATATTGAATAAAAGTGAATTAAA
Found at i:63584130 original size:27 final size:27
Alignment explanation
Indices: 63584099--63584153 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
63584089 TGAAATATGT
63584099 ATTGGTACTGAATTGTATATTGATTAG
1 ATTGGTACTGAATTGTATATTGATTAG
63584126 ATTGGTACTGAATTGTATATTGATTAG
1 ATTGGTACTGAATTGTATATTGATTAG
63584153 A
1 A
63584154 AAGTGGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.44
Consensus pattern (27 bp):
ATTGGTACTGAATTGTATATTGATTAG
Found at i:63585382 original size:17 final size:17
Alignment explanation
Indices: 63585360--63585410 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
63585350 ACGTGGCATG
63585360 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
63585377 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
*
63585394 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
63585411 GGGATTAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:63587990 original size:21 final size:22
Alignment explanation
Indices: 63587944--63587991 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
63587934 GAGAATTATT
*
63587944 ATTATAATTATAATTAATGAAT
1 ATTATAATTATAATTAATGAAA
*
63587966 ATTA-AATTATATTTAAAT-AAA
1 ATTATAATTATAATT-AATGAAA
63587987 ATTAT
1 ATTAT
63587992 TAATATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTATAATTATAATTAATGAAA
Found at i:63588202 original size:14 final size:15
Alignment explanation
Indices: 63588185--63588237 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 15
63588175 CATAACATAT
63588185 AATATA-TAAATTAC
1 AATATAGTAAATTAC
* *
63588199 AATATAGT-CATTAT
1 AATATAGTAAATTAC
63588213 AAT-TA-TAAATTAC
1 AATATAGTAAATTAC
*
63588226 AATATATTAAAT
1 AATATAGTAAAT
63588238 ACATACAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 1 0.03
13 9 0.29
14 15 0.48
15 6 0.19
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATAGTAAATTAC
Found at i:63596991 original size:21 final size:21
Alignment explanation
Indices: 63596965--63597004 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
63596955 CAAAACAACG
*
63596965 TAGTTTTGTCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
63596986 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
63597005 TAAATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:63597321 original size:9 final size:9
Alignment explanation
Indices: 63597301--63597339 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
63597291 CAAAATTATT
63597301 ATTTTATAAA
1 ATTTT-TAAA
63597311 ATTTTTAAA
1 ATTTTTAAA
63597320 A-TTTTAAA
1 ATTTTTAAA
*
63597328 ATTTTAAAA
1 ATTTTTAAA
63597337 ATT
1 ATT
63597340 CAACTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 8 0.30
9 14 0.52
10 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:63597324 original size:8 final size:8
Alignment explanation
Indices: 63597307--63597336 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
63597297 TATTATTTTA
63597307 TAAAATTTT
1 TAAAA-TTT
63597316 TAAAATTT
1 TAAAATTT
63597324 TAAAATTT
1 TAAAATTT
63597332 TAAAA
1 TAAAA
63597337 ATTCAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAAAATTT
Done.