Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 33 of 214
Found at i:9182673 original size:3 final size:3
Alignment explanation
Indices: 9182665--9182693 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9182655 CCTTTAATTT
9182665 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
9182694 ATGAACATGT
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:9182995 original size:16 final size:16
Alignment explanation
Indices: 9182974--9183004 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9182964 TCTTCTAAGG
9182974 TAGCTAAGGGTTAAAT
1 TAGCTAAGGGTTAAAT
9182990 TAGCTAAGGGTTAAA
1 TAGCTAAGGGTTAAA
9183005 ATGTTCAAGA
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:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (16 bp):
TAGCTAAGGGTTAAAT
Found at i:9185374 original size:8 final size:8
Alignment explanation
Indices: 9185360--9185407 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
9185350 CATATTTATT
9185360 TTTTAAAA
1 TTTTAAAA
*
9185368 TTAT-AAA
1 TTTTAAAA
9185375 TTTTAAAA
1 TTTTAAAA
9185383 TTTTAAAA
1 TTTTAAAA
9185391 TTTTAAAA
1 TTTTAAAA
9185399 TTTTAAAA
1 TTTTAAAA
9185407 T
1 T
9185408 ATAAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 6 0.16
8 31 0.84
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTTAAAA
Found at i:9185378 original size:15 final size:15
Alignment explanation
Indices: 9185360--9185420 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
9185350 CATATTTATT
9185360 TTTTAAAATTATAAA
1 TTTTAAAATTATAAA
*
9185375 TTTTAAAATTTTAAAA
1 TTTTAAAATTAT-AAA
*
9185391 TTTTAAAATTTTAAA
1 TTTTAAAATTATAAA
* * *
9185406 ATATAAAAATATAAA
1 TTTTAAAATTATAAA
9185421 ATATTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 25 0.62
16 15 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTTAAAATTATAAA
Found at i:9185414 original size:16 final size:16
Alignment explanation
Indices: 9185379--9185424 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9185369 TATAAATTTT
* *
9185379 AAAATTTTAAAATTTT
1 AAAATTTTAAAATATA
9185395 AAAATTTTAAAATATA
1 AAAATTTTAAAATATA
*
9185411 AAAA-TATAAAATAT
1 AAAATTTTAAAATAT
9185425 TATTTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATTTTAAAATATA
Found at i:9185636 original size:23 final size:23
Alignment explanation
Indices: 9185609--9185652 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9185599 TGAATTGTAA
*
9185609 AATTT-TAAAATTATATATATTTG
1 AATTTATAAAAGTATA-ATATTTG
9185632 AATTTATAAAAGTATAATATT
1 AATTTATAAAAGTATAATATT
9185653 ATTTAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
AATTTATAAAAGTATAATATTTG
Found at i:9185784 original size:19 final size:18
Alignment explanation
Indices: 9185767--9185811 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
9185757 TATTTTTTAA
9185767 ATAATATTTTA-GTTTTT
1 ATAATATTTTAGGTTTTT
*
9185784 ATATTATTTTAGGTTTTTT
1 ATAATATTTTAGG-TTTTT
*
9185803 TTAATATTT
1 ATAATATTT
9185812 ATATAACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 10 0.43
18 1 0.04
19 12 0.52
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
ATAATATTTTAGGTTTTT
Found at i:9187909 original size:316 final size:315
Alignment explanation
Indices: 9187288--9187919 Score: 1039
Period size: 316 Copynumber: 2.0 Consensus size: 315
9187278 CGTGTAGAAG
* * *
9187288 AGCTGTAGCCATTTGGTTCACGAATTAGCCTGAGGTTTTAAAGGCACATGGTCGTGTGGTGGCCA
1 AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAAAGGCACATAGTCGTGTGGTGGCCA
* *
9187353 TGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCTTACACACGATAAACACTGATTCACTT
66 TGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACAAACGATAAACACTGATTCACTT
* * * *
9187418 GGGAACGATCACACGCCTTTCATCAGTGTTCTGATTGACGTTCTTCACGATCAAACCTGATCTAA
131 GGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCAA
* * *
9187483 TACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTTATTAATGTCAAGATTGACGAGA
196 TACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTGATTAACGTCAAGAATGACGAGA
*
9187548 TTTGCAAAAGATTTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
261 TTTGCAAAAGATCTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
*
9187603 AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAAGAGGCACATAGTCGTGTGGTTGCC
1 AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAA-AGGCACATAGTCGTGTGGTGGCC
** *
9187668 ATGTGGTCCACCTATGTAGAAGATTGTGTGGCCCTAATCCTACAAACGATAAGCACTGATTCACT
65 ATGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACAAACGATAAACACTGATTCACT
* *
9187733 TGGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACTTGATCCG
130 TGGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCA
* *
9187798 ATACACTTAAATTCGATCCTTTAGACATATGTACACAATTAGTGATTAACGTCAAGAATGACGAG
195 ATACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTGATTAACGTCAAGAATGACGAG
* * *
9187863 ATTTTCAAAAGATCTATCAATATTTCAAATAGATCGATTGATCGAATTAAAGATTA
260 ATTTGCAAAAGATCTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
9187919 A
1 A
9187920 AGGTTGGAGA
Statistics
Matches: 292, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
315 39 0.13
316 253 0.87
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (315 bp):
AGCTATAGCCATTTGGTTCACGAACTAGCCTGAGGTTTTAAAGGCACATAGTCGTGTGGTGGCCA
TGTGGTCCACCTATGTAGAAGACCGTGTGGCCCTAATCCTACAAACGATAAACACTGATTCACTT
GGGAAAGATCACACGCCTTTCATCAGAGTTCTGATTGACGTTCCTCACGATCAAACCTGATCCAA
TACACTTAAATTCGATCCTTCAGAAATATGTACACAATTAGTGATTAACGTCAAGAATGACGAGA
TTTGCAAAAGATCTATCAAGATTTCAAATAGATCGATTCATCGAATTAAAGATTA
Found at i:9191494 original size:29 final size:29
Alignment explanation
Indices: 9191451--9191573 Score: 131
Period size: 29 Copynumber: 4.2 Consensus size: 29
9191441 CAAAAAATAA
*
9191451 AAAATTATATTTTAACCCCTAAACTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTTT
* * *
9191480 GAAATTGCATTTTAACCCCTAAA-TTTCAT
1 AAAATTACATTTTAACCCCTAAACTTT-TT
* * *
9191509 AAAATTACATTTTGACCCATGAACTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTTT
* * *
9191538 AAAATTACGTTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTT-TT
9191568 AAAATT
1 AAAATT
9191574 TTGTTTCAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.04
29 64 0.83
30 10 0.13
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTTTT
Found at i:9191514 original size:58 final size:59
Alignment explanation
Indices: 9191451--9191573 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 59
9191441 CAAAAAATAA
* * * *
9191451 AAAATTATATTTTAACCCCTAAACTTTTTGAAATTGCATTTTAACCCCTAAA-TTTCAT-
1 AAAATTACATTTTAACCCATAAACTTTTTAAAATTACATTTTAACCCCTAAACTTTC-TC
* * * *
9191509 AAAATTACATTTTGACCCATGAACTTTTTAAAATTACGTTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCATAAACTTTTTAAAATTACATTTTAACCCCTAAACTTTCTC
9191568 AAAATT
1 AAAATT
9191574 TTGTTTCAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 45 0.82
59 10 0.18
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACTTTTTAAAATTACATTTTAACCCCTAAACTTTCTC
Found at i:9191913 original size:3 final size:3
Alignment explanation
Indices: 9191905--9191974 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
9191895 CCAAGGCGTA
9191905 AAG AAG AAG AAG AAG AAG AAGG AAG AA- AA- AAG AAG AAGG AAG AA-
1 AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AA-G AAG AAG
* *
9191949 AA- AAG AAA AAG -AG AA- AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9191975 AAAATAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
2 12 0.21
3 39 0.68
4 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9191939 original size:17 final size:17
Alignment explanation
Indices: 9191907--9191974 Score: 82
Period size: 17 Copynumber: 3.8 Consensus size: 17
9191897 AAGGCGTAAA
9191907 GAAGAAGAAGAAGAAGAAG
1 GAAGAA-AA-AAGAAGAAG
9191926 GAAGAAAAAAGAAGAAG
1 GAAGAAAAAAGAAGAAG
*
9191943 GAAGAAAAAAGAAAAAG
1 GAAGAAAAAAGAAGAAG
*
9191960 AGAAAAGAAAAAGAA
1 -GAAGA-AAAAAGAA
9191975 AAAATAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 25 0.56
18 6 0.13
19 14 0.31
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
GAAGAAAAAAGAAGAAG
Found at i:9191960 original size:13 final size:13
Alignment explanation
Indices: 9191944--9191978 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
9191934 AAGAAGAAGG
9191944 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
*
9191957 AAGAGAAAAGAAA
1 AAGAAAAAAGAAA
9191970 AAGAAAAAA
1 AAGAAAAAA
9191979 TAATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:9191963 original size:8 final size:7
Alignment explanation
Indices: 9191927--9191978 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
9191917 AAGAAGAAGG
9191927 AAGAAAA
1 AAGAAAA
9191934 AAGAAGAA
1 AAGAA-AA
9191942 GGAAGAAAA
1 --AAGAAAA
9191951 AAG-AAA
1 AAGAAAA
*
9191957 AAGAGAA
1 AAGAAAA
9191964 AAG-AAA
1 AAGAAAA
9191970 AAGAAAA
1 AAGAAAA
9191977 AA
1 AA
9191979 TAATAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 11 0.29
7 18 0.47
8 2 0.05
9 2 0.05
10 5 0.13
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:9191978 original size:20 final size:22
Alignment explanation
Indices: 9191911--9191978 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
9191901 CGTAAAGAAG
*
9191911 AAGAAGAAGAAGAAGGAAGAAAA
1 AAGAAGAAGAAGAA-AAAGAAAA
9191934 AAGAAGAAGGAAGAAAAA-AGAAA
1 AAGAAGAA-GAAGAAAAAGA-AAA
9191957 AAG-AGAA-AAGAAAAAGAAAA
1 AAGAAGAAGAAGAAAAAGAAAA
9191977 AA
1 AA
9191979 TAATAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 13 0.32
21 1 0.02
22 5 0.12
23 16 0.39
24 6 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (22 bp):
AAGAAGAAGAAGAAAAAGAAAA
Found at i:9192059 original size:17 final size:18
Alignment explanation
Indices: 9192027--9192066 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
9192017 CCGGCTCAAA
9192027 ACCCAACCCGAGCAGAAG
1 ACCCAACCCGAGCAGAAG
*
9192045 ACCCGACCC-AGCAGAAG
1 ACCCAACCCGAGCAGAAG
9192062 -CCCAA
1 ACCCAA
9192067 AGCAGCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.38, C:0.42, G:0.20, T:0.00
Consensus pattern (18 bp):
ACCCAACCCGAGCAGAAG
Found at i:9192187 original size:26 final size:26
Alignment explanation
Indices: 9192136--9192188 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9192126 AGGGGGCAGG
** *
9192136 CCAACAGCAGGCCCAATTCCAGCAGC
1 CCAACAGCAGGCCCAAGCCCAACAGC
*
9192162 CCAACAGCAGGCCCTAGCCCAACAGC
1 CCAACAGCAGGCCCAAGCCCAACAGC
9192188 C
1 C
9192189 AGCCTGTCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.45, G:0.19, T:0.06
Consensus pattern (26 bp):
CCAACAGCAGGCCCAAGCCCAACAGC
Found at i:9192284 original size:11 final size:11
Alignment explanation
Indices: 9192268--9192341 Score: 80
Period size: 11 Copynumber: 6.6 Consensus size: 11
9192258 GCAGCCCAGC
*
9192268 AGAAAATGAAA
1 AGAAAAAGAAA
9192279 AGAAAAAAGAAA
1 AG-AAAAAGAAA
*
9192291 A-AAAGAAAAAA
1 AGAAA-AAGAAA
9192302 AGAAAAA-AAA
1 AGAAAAAGAAA
*
9192312 AGAAAAAAGAAG
1 AG-AAAAAGAAA
9192324 AGAAAAAGAAA
1 AGAAAAAGAAA
9192335 AGAAAAA
1 AGAAAAA
9192342 TTCAATTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 8 0.15
11 30 0.56
12 16 0.30
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:9192288 original size:7 final size:7
Alignment explanation
Indices: 9192276--9192335 Score: 61
Period size: 7 Copynumber: 8.3 Consensus size: 7
9192266 GCAGAAAATG
9192276 AAAAGAA
1 AAAAGAA
9192283 AAAAGAAA
1 AAAAG-AA
9192291 AAAAGAAA
1 AAAAG-AA
9192299 AAAAGAA
1 AAAAGAA
9192306 AAAA-AA
1 AAAAGAA
9192312 AGAAA-AA
1 A-AAAGAA
*
9192319 AGAAGAGA
1 AAAAGA-A
9192327 AAAAGAA
1 AAAAGAA
9192334 AA
1 AA
9192336 GAAAAATTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 5 0.11
7 21 0.45
8 21 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:9192294 original size:8 final size:8
Alignment explanation
Indices: 9192276--9192341 Score: 73
Period size: 8 Copynumber: 8.2 Consensus size: 8
9192266 GCAGAAAATG
9192276 AAAAG-AA
1 AAAAGAAA
9192283 AAAAGAAA
1 AAAAGAAA
9192291 AAAAGAAA
1 AAAAGAAA
9192299 AAAAGAAA
1 AAAAGAAA
*
9192307 AAAAAAGAA
1 AAAAGA-AA
9192316 AAAAGAAGA
1 AAAAGAA-A
* *
9192325 GAAA-AAG
1 AAAAGAAA
9192332 AAAAGAAA
1 AAAAGAAA
9192340 AA
1 AA
9192342 TTCAATTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
7 8 0.16
8 30 0.61
9 11 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:9192306 original size:28 final size:30
Alignment explanation
Indices: 9192270--9192341 Score: 98
Period size: 28 Copynumber: 2.5 Consensus size: 30
9192260 AGCCCAGCAG
*
9192270 AAAATGAAAAGAAAAAAG-AAAAA-AAGAA
1 AAAAAGAAAAGAAAAAAGAAAAAAGAAGAA
*
9192298 AAAAAG-AAA-AAAAAAGAAAAAAGAAGAG
1 AAAAAGAAAAGAAAAAAGAAAAAAGAAGAA
9192326 AAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
9192342 TTCAATTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 7 0.18
27 8 0.21
28 15 0.39
29 3 0.08
30 5 0.13
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (30 bp):
AAAAAGAAAAGAAAAAAGAAAAAAGAAGAA
Found at i:9192316 original size:33 final size:33
Alignment explanation
Indices: 9192276--9192341 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
9192266 GCAGAAAATG
9192276 AAAAGAAAAAAGAA-AAAAAGAAAAAAAGAAAAA
1 AAAAGAAAAAAGAAGAAAAA-AAAAAAAGAAAAA
* *
9192309 AAAAGAAAAAAGAAGAGAAAAAGAAAAGAAAAA
1 AAAAGAAAAAAGAAGAAAAAAAAAAAAGAAAAA
9192342 TTCAATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (33 bp):
AAAAGAAAAAAGAAGAAAAAAAAAAAAGAAAAA
Found at i:9192731 original size:21 final size:20
Alignment explanation
Indices: 9192699--9192740 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
9192689 TCGGGTTTCG
9192699 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
*
9192719 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
9192740 A
1 A
9192741 TAAAGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:9192741 original size:19 final size:19
Alignment explanation
Indices: 9192699--9192740 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
9192689 TCGGGTTTCG
9192699 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTC-AAA
*
9192719 AAATTTCTCGTGTTTTCAAA
1 AAATTT-TCGTGTCTTCAAA
9192739 AA
1 AA
9192741 TAAAGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTTCGTGTCTTCAAA
Found at i:9192896 original size:35 final size:35
Alignment explanation
Indices: 9192846--9192975 Score: 154
Period size: 35 Copynumber: 3.7 Consensus size: 35
9192836 AAAAAATTAG
*
9192846 AAAATTTTTCGTGTTTTCAAAAAATTCCAATTTTC
1 AAAATTTTTCGTGTTTTCAAAAAATTCCAGTTTTC
* * *
9192881 AAAATTTTTCATGTTTTCAGAAAATTCCCGTGTTTC
1 AAAATTTTTCGTGTTTTCAAAAAATTCCAGT-TTTC
* * * * *
9192917 AAAAATTCTCGTGTTTTCAAAAATTTCGATGTTTTG
1 AAAATTTTTCGTGTTTTCAAAAAATTCCA-GTTTTC
9192953 AAAA-TTTTCGTGTTTTCAAAAAA
1 AAAATTTTTCGTGTTTTCAAAAAA
9192976 AATCTCGTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
35 44 0.56
36 33 0.42
37 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (35 bp):
AAAATTTTTCGTGTTTTCAAAAAATTCCAGTTTTC
Found at i:9192899 original size:18 final size:18
Alignment explanation
Indices: 9192846--9193004 Score: 114
Period size: 17 Copynumber: 8.9 Consensus size: 18
9192836 AAAAAATTAG
*
9192846 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* ***
9192864 AAAAA-ATTCCAATTTTC
1 AAAAATTTTCGTGTTTTC
* *
9192881 AAAATTTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
**
9192899 AGAAAATTCCCGTG-TTTC
1 A-AAAATTTTCGTGTTTTC
*
9192917 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
9192935 AAAAA-TTTCGATGTTTT-
1 AAAAATTTTCG-TGTTTTC
*
9192952 GAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
9192970 AAAAAAAATCTCGTG-TTTC
1 --AAAAATTTTCGTGTTTTC
*
9192989 ATAAATTTTCGT-TTTT
1 AAAAATTTTCGTGTTTT
9193005 TAGACAAAAT
Statistics
Matches: 109, Mismatches: 23, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
17 49 0.45
18 38 0.35
19 12 0.11
20 10 0.09
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:9192923 original size:17 final size:18
Alignment explanation
Indices: 9192892--9192974 Score: 82
Period size: 18 Copynumber: 4.7 Consensus size: 18
9192882 AAATTTTTCA
9192892 TGTTTTCAGAAAATTCCCG
1 TGTTTTCA-AAAATTCCCG
*
9192911 TG-TTTCAAAAATTCTCG
1 TGTTTTCAAAAATTCCCG
*
9192928 TGTTTTCAAAAATT-TCG
1 TGTTTTCAAAAATTCCCG
* **
9192945 ATGTTTT-GAAAATTTTCG
1 -TGTTTTCAAAAATTCCCG
9192963 TGTTTTCAAAAA
1 TGTTTTCAAAAA
9192975 AAATCTCGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
17 26 0.46
18 29 0.51
19 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (18 bp):
TGTTTTCAAAAATTCCCG
Found at i:9193029 original size:34 final size:34
Alignment explanation
Indices: 9192909--9193050 Score: 117
Period size: 34 Copynumber: 4.0 Consensus size: 34
9192899 AGAAAATTCC
* * * *
9192909 CGTGTTTCAAAAATTCTCGTGTTTT-CAAAAATTT
1 CGTGTTTC-AAAATTTTCGTTTTTTAAAAAAAATT
* *
9192943 CGATGTTTTGAAAATTTTCGTGTTTTCAAAAAAAATCT
1 CG-TG-TTTCAAAATTTTCGT-TTTTTAAAAAAAAT-T
* *
9192981 CGTGTTTCATAAATTTTCGTTTTTTAGACAAAATT
1 CGTGTTTCA-AAATTTTCGTTTTTTAAAAAAAATT
* *
9193016 -GTGTTTCCAAAATTCTCGTGTTTTAAAAAAAATT
1 CGTGTTT-CAAAATTTTCGTTTTTTAAAAAAAATT
9193050 C
1 C
9193051 TCGTGTTTTA
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
34 29 0.34
35 15 0.17
36 21 0.24
37 18 0.21
38 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (34 bp):
CGTGTTTCAAAATTTTCGTTTTTTAAAAAAAATT
Found at i:9193038 original size:17 final size:17
Alignment explanation
Indices: 9192895--9193058 Score: 100
Period size: 17 Copynumber: 9.2 Consensus size: 17
9192885 TTTTTCATGT
*
9192895 TTTCAGAAAATTCCCGTG
1 TTTCA-AAAATTCTCGTG
9192913 TTTCAAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
9192930 TTTTCAAAAATT-TCGATG
1 -TTTCAAAAATTCTCG-TG
** *
9192948 TTTTGAAAATTTTCGTG
1 TTTCAAAAATTCTCGTG
*
9192965 TTTTCAAAAAAAATCTCGTG
1 -TTTC--AAAAATTCTCGTG
* * *
9192985 TTTCATAAATTTTCGTT
1 TTTCAAAAATTCTCGTG
* *
9193002 TTTTAGACAAAAT-T-GTG
1 TTTCA-A-AAATTCTCGTG
*
9193019 TTTCCAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
*
9193036 TTTTAAAAAAAATTCTCGTG
1 -TTT--CAAAAATTCTCGTG
9193056 TTT
1 TTT
9193059 TAATCGGATC
Statistics
Matches: 113, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
15 4 0.04
16 2 0.02
17 46 0.41
18 28 0.25
19 11 0.10
20 22 0.19
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:9193049 original size:20 final size:20
Alignment explanation
Indices: 9193024--9193061 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9193014 TTGTGTTTCC
9193024 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTTAAAA
9193044 AAAATTCTCGTGTTTTAA
1 AAAATTCTCGTGTTTTAA
9193062 TCGGATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTAAAA
Found at i:9199683 original size:79 final size:80
Alignment explanation
Indices: 9199566--9199727 Score: 299
Period size: 79 Copynumber: 2.0 Consensus size: 80
9199556 TCAAGAAATA
9199566 TTTTTAAAATTCTATTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
1 TTTTTAAAATTCTATTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
9199631 CACGCTGAGGTATTT
66 CACGCTGAGGTATTT
* *
9199646 TTTTTAAAATTCTGTTTTTTTC-AAAAAATCAACTCATAATACAGATGTGAGTTGAGCCTCGGGT
1 TTTTTAAAATTCTATTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
9199710 CACGCTGAGGTATTT
66 CACGCTGAGGTATTT
9199725 TTT
1 TTT
9199728 AAATTGAGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 59 0.74
80 21 0.26
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (80 bp):
TTTTTAAAATTCTATTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
CACGCTGAGGTATTT
Found at i:9199756 original size:118 final size:120
Alignment explanation
Indices: 9199614--9199849 Score: 406
Period size: 122 Copynumber: 2.0 Consensus size: 120
9199604 AATACAGAGG
*
9199614 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTT-AA-AA-TTCTGTTTTTTTCAAAAAATC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATAATTTATG-TTTTTTCAAAAAATC
*
9199676 AACTCATAATACAGATGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAAT
65 AACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAAT
9199732 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTAATTTATGTTTTTTCAAAAAAT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAA--TAATTTATGTTTTTTCAAAAAAT
9199797 CAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTT
64 CAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTT
9199850 TTAATTTCTG
Statistics
Matches: 111, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
118 37 0.33
119 2 0.02
122 68 0.61
123 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (120 bp):
TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATAATTTATGTTTTTTCAAAAAATCA
ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAAT
Found at i:9199914 original size:77 final size:78
Alignment explanation
Indices: 9199732--9201010 Score: 1511
Period size: 76 Copynumber: 16.2 Consensus size: 78
9199722 TTTTTTAAAT
*
9199732 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTAATTTATG-TTTTTTCAAAAAA
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTTTT--A---AATTTCTGCTTTTTTCAAAAAA
9199796 TCAACTCATAATACAGAGG
60 TCAACTCATAATACAGAGG
*
9199815 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
9199880 CATAATACAGAGG
66 CATAATACAGAGG
*
9199893 TGAGTTGAGCCTC-GGTCACGCTGAGGTA--TTTTTAAATTTCTGCTTTTTTAAAAAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
9199955 CATAATACAGAGG
66 CATAATACAGAGG
*
9199968 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCTTTTTTCAAAAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
9200033 CATAATACAGAGG
66 CATAATACAGAGG
9200046 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTAATTTCTG-TTTTTTCAAAAAATC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTT-A---AATTTCTGCTTTTTTCAAAAAATC
9200110 AACTCATAATACAGAGG
62 AACTCATAATACAGAGG
9200127 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAAATTTCTGCTTTTTTCAAAAAAATCAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTC-AAAAAATCAAC
9200190 TCATAATACAGAGG
65 TCATAATACAGAGG
*
9200204 TGAGTTGAGCCTCGAGTCACGCTGAGGTA--TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
9200267 CATAATACAGAGG
66 CATAATACAGAGG
* *
9200280 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTCTTTTTTCAAAAAAGCAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTG-CTTTTTTCAAAAAATCAAC
9200342 TCATAATACAGAGG
65 TCATAATACAGAGG
* *
9200356 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTCTTTTTT-TAAAAATCAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTG-CTTTTTTCAAAAAATCAAC
9200417 TCATAATACAGAGG
65 TCATAATACAGAGG
* * *
9200431 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTTTTTTTTAAAAAAAATCAA
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTG-CTTTTTT-CAAAAAATCAA
9200493 CTCATAATACAGAGG
64 CTCATAATACAGAGG
* * * *
9200508 TGAGTTGAGCCTCGGGTCACACCGAGGTATTTCTTTTAAATTTATG---TTTTCAAAAAATTAAC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAAC
* * *
9200570 TCATATTGCGAGAAG
65 TCATAATAC-AGAGG
* * **
9200585 TGAGTTGAGCCTCGAGTCGCATGCTGAGGTATTTTTTTTAAATTTCTATTTTTTTTC-AAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTA-TTTTTTTAAATTTCT-GCTTTTTTCAAAAAATC
* *
9200649 AACTCATATTGCGAGAGG
62 AACTCATAATAC-AGAGG
* * * **
9200667 TGAGTTGAGTCTCGGATCACACGCTAAGGTATTTTTTT-AATTTCTATTTTTTTTTC-AAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTC--TGCTTTTTTCAAAAAATC
* * * *
9200730 AACTCATATTGCAATAAG
62 AACTCATAATAC-AGAGG
* * *
9200748 TGAGTTGAGCCTCGGGTCGCACGTTGAGGTATTTTTTTAAATTTTTGTTTTTTTTTC-AAAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTCTG--CTTTTTTCAAAAAATC
* * *
9200812 AACTCATATTGCGAGAAG
62 AACTCATAATAC-AGAGG
*
9200830 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAATTTCTGTTTTTTTTTC-AAAAAT
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT-AAATTTCTG--CTTTTTTCAAAAAAT
* * *
9200894 CAACTCATATTGCGAGAAG
61 CAACTCATAATAC-AGAGG
* **
9200913 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAAATTTCT-ATTTTTT--TTAAATC
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT--AAATTTCTGCTTTTTTCAAAAAATC
* * *
9200975 AACTCATATTGCGAGAAG
62 AACTCATAATAC-AGAGG
9200993 TGAGTTGAGCCTCGGGTC
1 TGAGTTGAGCCTCGGGTC
9201011 GCTCAACCTC
Statistics
Matches: 1111, Mismatches: 53, Indels: 69
0.90 0.04 0.06
Matches are distributed among these distances:
75 145 0.13
76 179 0.16
77 172 0.15
78 128 0.12
79 27 0.02
80 54 0.05
81 146 0.13
82 136 0.12
83 115 0.10
84 9 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (78 bp):
TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACT
CATAATACAGAGG
Found at i:9200052 original size:153 final size:154
Alignment explanation
Indices: 9199732--9201010 Score: 1488
Period size: 153 Copynumber: 8.1 Consensus size: 154
9199722 TTTTTTAAAT
*
9199732 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAAATTTAATTTATGTTTTTTCAAAAAAT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTT--A---AATTTCTGTTTTTTCAAAAAAT
* *
9199797 CAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATTTCTGCT
59 CAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCT
9199862 TTTTTCAAAAAATCAACTCATAATACAGAGG
124 TTTTTCAAAAAATCAACTCATAATACAGAGG
*
9199893 TGAGTTGAGCCTC-GGTCACGCTGAGGTA-TTTTTAAATTTCTGCTTTTTTAAAAAAATCAACTC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAATTTCTG-TTTTTTCAAAAAATCAACTC
9199956 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCTTTTTTC
65 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCTTTTTTC
9200021 AAAAAATCAACTCATAATACAGAGG
130 AAAAAATCAACTCATAATACAGAGG
9200046 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAATTTAATTTCTGTTTTTTCAAAAAATCA
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTTT-A---AATTTCTGTTTTTTCAAAAAATCA
*
9200111 ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTTAAATTTCTGCTTT
61 ACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCTTT
9200174 TTTCAAAAAAATCAACTCATAATACAGAGG
126 TTTC-AAAAAATCAACTCATAATACAGAGG
*
9200204 TGAGTTGAGCCTCGAGTCACGCTGAGGTA-TTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAATTTCTG-TTTTTTCAAAAAATCAACTC
9200268 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTCTTTTTT
65 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATG-CTTTTTT
*
9200330 CAAAAAAGCAACTCATAATACAGAGG
129 CAAAAAATCAACTCATAATACAGAGG
* **
9200356 TGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTTTT-AATTTATGTCTTTTTTTAAAAATCAACTC
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAATTTCTGT-TTTTTCAAAAAATCAACTC
*
9200419 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTTTT-AATTTATGTTTTTTTT
65 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATG-CTTTTTT
*
9200481 AAAAAAAATCAACTCATAATACAGAGG
129 -CAAAAAATCAACTCATAATACAGAGG
* * * *
9200508 TGAGTTGAGCCTCGGGTCACACCGAGGTATTTCTTTTAAATTTATG--TTTTCAAAAAATTAACT
1 TGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT-TTTTAAATTTCTGTTTTTTCAAAAAATCAACT
* * * * * *
9200571 CATATTGCGAGAAGTGAGTTGAGCCTCGAGTCGCATGCTGAGGTATTTTTTTTAAATTTCTAT-T
64 CATAATAC-AGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA-TTTTTTTAAA-TT-TATGC
* *
9200635 TTTTTTC-AAAAATCAACTCATATTGCGAGAGG
123 TTTTTTCAAAAAATCAACTCATAATAC-AGAGG
* * * * *
9200667 TGAGTTGAGTCTCGGATCACACGCTAAGGTATTTTTTTAATTTCTATTTTTTTTTC-AAAAATCA
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTAAATTTC---TGTTTTTTCAAAAAATCA
* * * * * *
9200731 ACTCATATTGCAATAAGTGAGTTGAGCCTCGGGTCGCACGTTGAGGTATTTTTTTAAATTTTTGT
61 ACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTATG-
* * * *
9200796 TTTTTTTTC-AAAAATCAACTCATATTGCGAGAAG
122 -CTTTTTTCAAAAAATCAACTCATAATAC-AGAGG
9200830 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAATTTCTGTTTTTTTTTC-AAAAAT
1 TGAGTTGAGCCTCGGGT--CACGCTGAGGTA-TTTTTT-AAATTTCTG---TTTTTTCAAAAAAT
* * * *
9200894 CAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAAATT-
59 CAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT-AAATTTA
*** * * *
9200958 T-CTATTTTT-TTTAAATCAACTCATATTGCGAGAAG
120 TGCT-TTTTTCAAAAAATCAACTCATAATAC-AGAGG
9200993 TGAGTTGAGCCTCGGGTC
1 TGAGTTGAGCCTCGGGTC
9201011 GCTCAACCTC
Statistics
Matches: 1015, Mismatches: 58, Indels: 90
0.87 0.05 0.08
Matches are distributed among these distances:
150 1 0.00
151 85 0.08
152 130 0.13
153 214 0.21
154 36 0.04
155 6 0.01
156 29 0.03
157 27 0.03
158 70 0.07
159 94 0.09
160 36 0.04
161 27 0.03
162 16 0.02
163 154 0.15
164 11 0.01
165 74 0.07
166 5 0.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (154 bp):
TGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTAAATTTCTGTTTTTTCAAAAAATCAACTCA
TAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTATGCTTTTTTCA
AAAAATCAACTCATAATACAGAGG
Found at i:9201283 original size:81 final size:80
Alignment explanation
Indices: 9201167--9201954 Score: 855
Period size: 81 Copynumber: 10.0 Consensus size: 80
9201157 ATGTTTTTTT
*
9201167 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
9201232 TTTCTGCTTTTTCAAA
66 TTTCTG-TTTTTCAAA
*
9201248 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
*
9201313 TTTTTGTTTTTCAAAA
66 TTTCTGTTTTTC-AAA
* *
9201329 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTAAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
*
9201394 TTTCTATTTTTCAAAAAA
66 TTTCTGTTTTTC---AAA
*
9201412 AAATCAACTCATATTAC-AGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
9201474 TTTCTGTTTTTTTTTTCAAA
66 TTTCTG-----TTTTTCAAA
* * ** * *
9201494 AAATCAACTAATATTGCGAGAGGTGAGTTGAGTCTC-GAAC-CATGCCGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
9201557 TTTCTGTTTTTC-AA
66 TTTCTGTTTTTCAAA
* * *
9201571 AAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTTGCACGCTGAGGTA----TTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
*
9201632 TTTCTATTTTTTC-AA
66 TTTCT-GTTTTTCAAA
*
9201647 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCACGCTGAGGTATTTCTTTTAAA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
9201712 TTTCTGTTTTTCAAAAAAA
66 TTTCTGTTTTTC----AAA
* * *
9201731 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTTGGGT--CACGCTGAGGTA--T-TTTT-AA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
* ***
9201789 TTTCGGTCTTTTTTTTTA
66 TTTC--T-GTTTTTCAAA
* * *
9201807 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--CACACTGAGGTA-TT-TTTT-AA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
* ***
9201866 TTTATGTTTTT-TTT
66 TTTCTGTTTTTCAAA
* * * * *
9201880 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG-CGACACTCCGAGGTA----TTTTCA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG-CACGCTGAGGTATTTCTTTTAA
9201939 ATTTCTGTTTTTCAAA
65 ATTTCTGTTTTTCAAA
9201955 TAAAAAGAAA
Statistics
Matches: 627, Mismatches: 49, Indels: 68
0.84 0.07 0.09
Matches are distributed among these distances:
73 44 0.07
74 17 0.03
75 23 0.04
76 108 0.17
77 50 0.08
78 11 0.02
79 18 0.03
80 50 0.08
81 159 0.25
82 40 0.06
83 84 0.13
84 17 0.03
85 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (80 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAA
TTTCTGTTTTTCAAA
Found at i:9202163 original size:29 final size:29
Alignment explanation
Indices: 9202121--9202233 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 29
9202111 AAAAAATAAA
9202121 AAATTACATTTTAACCCCTAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* * * *
9202150 AAATTTCATTTTAACGCCTAAA-TTTCATA
1 AAATTACATTTTAACCCCTAAACTTT-TTG
* * *
9202179 AAATTACATTTTGACCCATAAAATTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* * *
9202208 AAATTACGTTTTGACCACTAAACTTT
1 AAATTACATTTTAACCCCTAAACTTT
9202234 CTCAAAATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.04
29 62 0.91
30 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAAACTTTTTG
Found at i:9202229 original size:58 final size:59
Alignment explanation
Indices: 9202120--9202242 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 59
9202110 CAAAAAATAA
* * *
9202120 AAAATTACATTTTAACCCCTAAACTTTTTGAAATTTCATTTTAACGCCTAAA-TTTCAT-
1 AAAATTACATTTTAACCCATAAAATTTTTGAAATTACATTTTAACGCCTAAACTTTC-TC
* * *
9202178 AAAATTACATTTTGACCCATAAAATTTTTGAAATTACGTTTTGAC-CACTAAACTTTCTC
1 AAAATTACATTTTAACCCATAAAATTTTTGAAATTACATTTTAACGC-CTAAACTTTCTC
9202237 AAAATT
1 AAAATT
9202243 TTGTTTCGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 1 0.02
58 45 0.80
59 10 0.18
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAAATTTTTGAAATTACATTTTAACGCCTAAACTTTCTC
Found at i:9202584 original size:3 final size:3
Alignment explanation
Indices: 9202576--9202654 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
9202566 CCAAGGCGTA
9202576 AAG AAG AAG AAG AAG AAG AAG AAGG AAG AAG AAAG AAG AAGG AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG -AAG AAG AA-G AAG AAG
* * *
9202623 AA- AAG AAA AAG -AG AA- AAG AAA AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9202655 AAATAATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.12
3 47 0.73
4 9 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9202657 original size:7 final size:7
Alignment explanation
Indices: 9202604--9202657 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
9202594 AAGAAGGAAG
*
9202604 AAGAAAG
1 AAGAAAA
**
9202611 AAGAAGG
1 AAGAAAA
9202618 AAGAAAA
1 AAGAAAA
9202625 AAG-AAA
1 AAGAAAA
*
9202631 AAGAGAA
1 AAGAAAA
9202638 AAG-AAA
1 AAGAAAA
9202644 AAG-AAA
1 AAGAAAA
9202650 AAGAAAA
1 AAGAAAA
9202657 A
1 A
9202658 TAATAAAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
6 17 0.43
7 23 0.57
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:9202665 original size:19 final size:19
Alignment explanation
Indices: 9202601--9202657 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
9202591 AAGAAGAAGG
*
9202601 AAGAAGAAAGAAGAAG-GAA
1 AAGAA-AAAGAAAAAGAGAA
*
9202620 GA-AAAAAGAAAAAGAGAA
1 AAGAAAAAGAAAAAGAGAA
9202638 AAGAAAAAGAAAAAGA-AA
1 AAGAAAAAGAAAAAGAGAA
9202656 AA
1 AA
9202658 TAATAAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 9 0.27
18 10 0.30
19 14 0.42
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAAAAAGAGAA
Found at i:9202740 original size:17 final size:18
Alignment explanation
Indices: 9202708--9202742 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9202698 CCGGCTCAAA
9202708 ACCCGACCCGAGCAGAAG
1 ACCCGACCCGAGCAGAAG
9202726 ACCCGACCC-AGCAGAAG
1 ACCCGACCCGAGCAGAAG
9202743 CCCAAAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.40, G:0.26, T:0.00
Consensus pattern (18 bp):
ACCCGACCCGAGCAGAAG
Found at i:9202922 original size:26 final size:25
Alignment explanation
Indices: 9202893--9202942 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
9202883 CCTAGCAGTG
*
9202893 CAGCGGCCCAAACCAACGCAGCCCAA
1 CAGCAGCCCAAACCAA-GCAGCCCAA
* *
9202919 CAGCAGCCCACAGCAAGCAGCCCA
1 CAGCAGCCCAAACCAAGCAGCCCA
9202943 GCAGAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.34, C:0.46, G:0.20, T:0.00
Consensus pattern (25 bp):
CAGCAGCCCAAACCAAGCAGCCCAA
Found at i:9202956 original size:5 final size:5
Alignment explanation
Indices: 9202948--9202991 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
9202938 GCCCAGCAGA
* *
9202948 AAAAG AAAAG AAAA- AAGAAA AAAAG AAAAA AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAA
9202992 ATTCAATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 2 0.06
5 30 0.88
6 2 0.06
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:9202965 original size:7 final size:7
Alignment explanation
Indices: 9202953--9202992 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
9202943 GCAGAAAAAG
9202953 AAAAGAA
1 AAAAGAA
9202960 AAAAGAAA
1 AAAAG-AA
9202968 AAAAGAA
1 AAAAGAA
*
9202975 AAAAAAA
1 AAAAGAA
9202982 GAAAAGAA
1 -AAAAGAA
9202990 AAA
1 AAA
9202993 TTCAATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:9202973 original size:15 final size:15
Alignment explanation
Indices: 9202947--9202992 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
9202937 AGCCCAGCAG
9202947 AAAAAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
9202962 AAGAAA-AAAAGAAAA
1 AA-AAAGAAAAGAAAA
9202977 AAAAAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
9202992 A
1 A
9202993 TTCAATTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:9203379 original size:21 final size:21
Alignment explanation
Indices: 9203353--9203395 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9203343 TCGGGTTTCG
*
9203353 AAATTTTTCGTGTCTTCAAAA
1 AAATTTCTCGTGTCTTCAAAA
*
9203374 AAATTTCTCGTGTTTTCAAAA
1 AAATTTCTCGTGTCTTCAAAA
9203395 A
1 A
9203396 TAAAGTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (21 bp):
AAATTTCTCGTGTCTTCAAAA
Found at i:9203578 original size:17 final size:18
Alignment explanation
Indices: 9203550--9203587 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9203540 TTTTTCATGT
9203550 TTTCAGAAAATTCCCGTG
1 TTTCAGAAAATTCCCGTG
*
9203568 TTTCA-AAAATTCTCGTG
1 TTTCAGAAAATTCCCGTG
9203585 TTT
1 TTT
9203588 TATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (18 bp):
TTTCAGAAAATTCCCGTG
Found at i:9203587 original size:36 final size:35
Alignment explanation
Indices: 9203509--9203588 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
9203499 AGAAAATTTT
* *
9203509 TCGTGTTTTCAAAAAATTCCAATTTTCAAAATTTT
1 TCGTGTTTTCAAAAAATTCCAATTTTCAAAAATTC
* * **
9203544 TCATGTTTTCAGAAAATTCCCGTGTTTCAAAAATTC
1 TCGTGTTTTCAAAAAATTCCAAT-TTTCAAAAATTC
9203580 TCGTGTTTT
1 TCGTGTTTT
9203589 ATAAATTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 19 0.51
36 18 0.49
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (35 bp):
TCGTGTTTTCAAAAAATTCCAATTTTCAAAAATTC
Found at i:9203594 original size:17 final size:17
Alignment explanation
Indices: 9203556--9203661 Score: 81
Period size: 17 Copynumber: 6.1 Consensus size: 17
9203546 ATGTTTTCAG
* *
9203556 AAAATTCCCGTGTTTCA
1 AAAATTCTCGTGTTTTA
9203573 AAAATTCTCGTGTTTTA
1 AAAATTCTCGTGTTTTA
* * *
9203590 TAAATTTTCGTTTTTTA
1 AAAATTCTCGTGTTTTA
* **
9203607 GACAAAAT-T-GTGTTTCC
1 -A-AAATTCTCGTGTTTTA
9203624 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTT---A
9203644 AAAATTCTCGTGTTTTA
1 AAAATTCTCGTGTTTTA
9203661 A
1 A
9203662 TCGGATCACG
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
15 4 0.06
16 2 0.03
17 42 0.61
18 1 0.01
19 4 0.06
20 16 0.23
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAATTCTCGTGTTTTA
Found at i:9203649 original size:20 final size:20
Alignment explanation
Indices: 9203624--9203661 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
9203614 TTGTGTTTCC
9203624 AAAATTCTCGTGTTTTAAAA
1 AAAATTCTCGTGTTTTAAAA
9203644 AAAATTCTCGTGTTTTAA
1 AAAATTCTCGTGTTTTAA
9203662 TCGGATCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAATTCTCGTGTTTTAAAA
Found at i:9213659 original size:5 final size:5
Alignment explanation
Indices: 9213649--9213674 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9213639 GAGATGGAAT
9213649 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
9213675 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:9214201 original size:19 final size:20
Alignment explanation
Indices: 9214177--9214215 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9214167 AAAGGGTGAG
9214177 AAAT-AAAAGTTTAGGGGAA
1 AAATAAAAAGTTTAGGGGAA
*
9214196 AAATAAAAAGTTTTGGGGAA
1 AAATAAAAAGTTTAGGGGAA
9214216 TAAAAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (20 bp):
AAATAAAAAGTTTAGGGGAA
Found at i:9216907 original size:27 final size:27
Alignment explanation
Indices: 9216869--9216926 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
9216859 TAAAGCATTG
* *
9216869 AAGGTCAGATGCTATTGTATTGGTGTT
1 AAGGTCAAATGCTACTGTATTGGTGTT
9216896 AAGGTCAAATGCTACTGTATTGGTGTT
1 AAGGTCAAATGCTACTGTATTGGTGTT
9216923 AAGG
1 AAGG
9216927 CTGCAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.36
Consensus pattern (27 bp):
AAGGTCAAATGCTACTGTATTGGTGTT
Found at i:9217200 original size:13 final size:13
Alignment explanation
Indices: 9217182--9217207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9217172 CCAGAAACTG
9217182 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
9217195 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
9217208 TCCCATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:9217383 original size:14 final size:14
Alignment explanation
Indices: 9217364--9217393 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9217354 AACAAAACTA
9217364 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
9217378 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
9217392 GC
1 GC
9217394 TGCAATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:9217453 original size:24 final size:24
Alignment explanation
Indices: 9217416--9217461 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9217406 GGTGAAGAGA
* *
9217416 GTGAAGAGAGGAGCTGTGGAAAGG
1 GTGAAGAAAAGAGCTGTGGAAAGG
9217440 GTGAAGAAAAGAGCTGTGGAAA
1 GTGAAGAAAAGAGCTGTGGAAA
9217462 TGGTTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.13
Consensus pattern (24 bp):
GTGAAGAAAAGAGCTGTGGAAAGG
Found at i:9218639 original size:29 final size:29
Alignment explanation
Indices: 9218607--9218716 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 29
9218597 TAATAAAAAT
9218607 ATATAATTTAATAAAATTCTTAATATTAA
1 ATATAATTTAATAAAATTCTTAATATTAA
* *
9218636 ATATTAATTTACTAAAA-TCATAATATATAA
1 ATA-TAATTTAATAAAATTCTTAATAT-TAA
* ** *
9218666 TACTATAAAATATAATTTAAAATAATTATTATTAA
1 -A-TAT--AATTTAA--TAAAATTCTTAATATTAA
9218701 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
9218717 ATATATAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
29 16 0.25
30 15 0.24
31 8 0.13
32 2 0.03
33 8 0.13
34 1 0.02
35 8 0.13
36 5 0.08
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATAATTTAATAAAATTCTTAATATTAA
Found at i:9218693 original size:112 final size:116
Alignment explanation
Indices: 9218569--9218808 Score: 398
Period size: 112 Copynumber: 2.1 Consensus size: 116
9218559 TTAATCATAT
*
9218569 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-T-TAA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCATATAATT
*
9218631 ATT-AAATATTAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 ATTCAAATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
9218681 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCAATATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-ATATAAT
**
9218746 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 TATTCAAATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
9218798 ATTAAAATAAT
1 TTTAAAATAAT
9218809 CTACTTTATT
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
112 56 0.47
114 1 0.01
115 3 0.03
116 4 0.03
117 54 0.46
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (116 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCATATAATT
ATTCAAATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:9218736 original size:10 final size:10
Alignment explanation
Indices: 9218674--9218746 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
9218664 AATACTATAA
9218674 AATATAATTT
1 AATATAATTT
*
9218684 AAAATAA-TT
1 AATATAATTT
*
9218693 -AT-T-ATTA
1 AATATAATTT
9218700 AATATAATTT
1 AATATAATTT
**
9218710 AATA-AAAAT
1 AATATAATTT
9218719 -ATATAATTT
1 AATATAATTT
* *
9218728 AATAAAATTC
1 AATATAATTT
9218738 AATATAATT
1 AATATAATT
9218747 ATTCTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.13
9 9 0.20
10 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATAATTT
Found at i:9221323 original size:12 final size:12
Alignment explanation
Indices: 9221308--9221341 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
9221298 ACTTAACAGA
9221308 AACCAAAACATG
1 AACCAAAACATG
9221320 AACCAAAACATG
1 AACCAAAACATG
9221332 AACCAAAACA
1 AACCAAAACA
9221342 ATAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.26, G:0.06, T:0.06
Consensus pattern (12 bp):
AACCAAAACATG
Found at i:9221821 original size:20 final size:20
Alignment explanation
Indices: 9221780--9221839 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
9221770 AAACAGGAAA
* *
9221780 AAATTTGGAAGAAGAAGCAG
1 AAATCTGGAAGAAGAAGAAG
9221800 AAATCTGGAGAGAAGAA-AAG
1 AAATCTGGA-AGAAGAAGAAG
*
9221820 AAATGTGAGAAGAA-AAGAAG
1 AAATCTG-GAAGAAGAAGAAG
9221840 CGTACCGTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 23 0.68
21 9 0.26
ACGTcount: A:0.55, C:0.03, G:0.30, T:0.12
Consensus pattern (20 bp):
AAATCTGGAAGAAGAAGAAG
Found at i:9223712 original size:17 final size:17
Alignment explanation
Indices: 9223692--9223747 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
9223682 TCGCACATTG
*
9223692 ACACAAATCGCATATAA
1 ACACAACTCGCATATAA
* * *
9223709 ACACAACTCACAAATAG
1 ACACAACTCGCATATAA
*
9223726 ACACAGCTCGCATATAA
1 ACACAACTCGCATATAA
9223743 ACACA
1 ACACA
9223748 TATATGTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (17 bp):
ACACAACTCGCATATAA
Found at i:9237647 original size:26 final size:26
Alignment explanation
Indices: 9237611--9237672 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
9237601 CTTGTAAGTG
9237611 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* **
9237637 TTCTGAAACTGATATATTTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
9237663 TTTTGAAACT
1 TTCTGAAACT
9237673 ACTATAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:9241959 original size:17 final size:17
Alignment explanation
Indices: 9241937--9241970 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9241927 GTTTTTTCCC
*
9241937 TTTTTGTTCCCTTTTGG
1 TTTTTGTTCCCCTTTGG
9241954 TTTTTGTTCCCCTTTGG
1 TTTTTGTTCCCCTTTGG
9241971 CCGAGTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.18, T:0.62
Consensus pattern (17 bp):
TTTTTGTTCCCCTTTGG
Found at i:9247662 original size:15 final size:14
Alignment explanation
Indices: 9247640--9247680 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
9247630 ATGAAAATAC
9247640 AAAAATTAAATTAT
1 AAAAATTAAATTAT
* *
9247654 ATTAAATTAAAATAT
1 A-AAAATTAAATTAT
9247669 AAAAATTAAATT
1 AAAAATTAAATT
9247681 TTATAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:9255345 original size:26 final size:26
Alignment explanation
Indices: 9255316--9255377 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
9255306 CCTGTAAGTG
*
9255316 TTCTGAAACTGATACATGCTGTGATA
1 TTCTGAAACTGATACATGCTATGATA
* **
9255342 TTCTGAAACTGATATATTTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
9255368 TTCTGAAACT
1 TTCTGAAACT
9255378 ACTATAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:9261519 original size:40 final size:39
Alignment explanation
Indices: 9261427--9261689 Score: 269
Period size: 40 Copynumber: 6.6 Consensus size: 39
9261417 TCCTCGTTCA
* * * *
9261427 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
9261466 AACGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
9261505 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
9261545 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
9261585 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGTAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
9261625 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
9261666 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
9261690 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
39 38 0.20
40 144 0.75
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:9261649 original size:120 final size:119
Alignment explanation
Indices: 9261427--9261689 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
9261417 TCCTCGTTCA
* *
9261427 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAACGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAACGCCTTCGGGACTTAACCCGGATT
* * *
9261492 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
9261545 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AACGCCTTCGGGACTTAACCCGG-
* * * ** * *
9261610 ATTT-GTATCTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
9261666 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
9261690 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAACGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:9270291 original size:18 final size:19
Alignment explanation
Indices: 9270268--9270306 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9270258 AACAAACTTT
*
9270268 ACATAAT-TCACATTCTTC
1 ACATAATATCACATTATTC
9270286 ACATAATAATCACATTATTC
1 ACATAAT-ATCACATTATTC
9270306 A
1 A
9270307 TTTGCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (19 bp):
ACATAATATCACATTATTC
Found at i:9273260 original size:15 final size:14
Alignment explanation
Indices: 9273238--9273278 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
9273228 ATGAAAATAC
9273238 AAAAATTAAATTAT
1 AAAAATTAAATTAT
* *
9273252 ATTAAATTAAAATAT
1 A-AAAATTAAATTAT
9273267 AAAAATTAAATT
1 AAAAATTAAATT
9273279 TTATAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:9273378 original size:21 final size:20
Alignment explanation
Indices: 9273352--9273392 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9273342 CATTTGATAT
9273352 AAAAAAAATTAGTATATTAAA
1 AAAAAAAATTAGTAT-TTAAA
* *
9273373 AAAAAATATTTGTATTTAAA
1 AAAAAAAATTAGTATTTAAA
9273393 TTGATTGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAAAATTAGTATTTAAA
Found at i:9285411 original size:17 final size:17
Alignment explanation
Indices: 9285379--9285412 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9285369 GTTTTCTCCT
*
9285379 TTTTTGTTCACTTTTGG
1 TTTTTGTTCACCTTTGG
*
9285396 TTTTTGTTCTCCTTTGG
1 TTTTTGTTCACCTTTGG
9285413 CCCAATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.15, G:0.18, T:0.65
Consensus pattern (17 bp):
TTTTTGTTCACCTTTGG
Found at i:9292387 original size:15 final size:14
Alignment explanation
Indices: 9292365--9292405 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
9292355 TAAAAAATAC
9292365 AAAAATTAAATTAT
1 AAAAATTAAATTAT
* *
9292379 ATTAAATTAAAATAT
1 A-AAAATTAAATTAT
9292394 AAAAATTAAATT
1 AAAAATTAAATT
9292406 TTATAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:9292410 original size:31 final size:29
Alignment explanation
Indices: 9292358--9292415 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
9292348 TTTAAACTAA
*
9292358 AAAATACAAAAATTAAATTATATTAAATT
1 AAAATACAAAAATTAAATTATAGTAAATT
*
9292387 AAAATATAAAAATTAAATTTTATAGTAAA
1 AAAATACAAAAATTAAA--TTATAGTAAA
9292416 AAATCATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
31 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATACAAAAATTAAATTATAGTAAATT
Found at i:9297611 original size:18 final size:19
Alignment explanation
Indices: 9297579--9297619 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9297569 ACTTCATGGT
9297579 TTTGAATTATGATTTATGA
1 TTTGAATTATGATTTATGA
* *
9297598 TTTG-ATTATTATTTATTA
1 TTTGAATTATGATTTATGA
9297616 TTTG
1 TTTG
9297620 GGTTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (19 bp):
TTTGAATTATGATTTATGA
Found at i:9306866 original size:36 final size:36
Alignment explanation
Indices: 9306819--9306890 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
9306809 GTATGAGTCT
9306819 TAGTCTCGGCACTAAGGTTTTGATGGGGTGGTTGTG
1 TAGTCTCGGCACTAAGGTTTTGATGGGGTGGTTGTG
9306855 TAGTCTCGGCACTAAGGTTTTGATGGGGTGGTTGTG
1 TAGTCTCGGCACTAAGGTTTTGATGGGGTGGTTGTG
9306891 ATATATTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.11, G:0.39, T:0.36
Consensus pattern (36 bp):
TAGTCTCGGCACTAAGGTTTTGATGGGGTGGTTGTG
Found at i:9312728 original size:26 final size:24
Alignment explanation
Indices: 9312680--9312730 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
9312670 TTTAAAATAC
* *
9312680 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTAATGTTTAT
9312704 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAAT-A-TTTTTAATGTTTAT
9312730 T
1 T
9312731 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTTTAATGTTTAT
Found at i:9314857 original size:17 final size:17
Alignment explanation
Indices: 9314825--9314858 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9314815 GTTTTCTCCC
*
9314825 TTTTTGTTCACTTTTGG
1 TTTTTGTTCACCTTTGG
*
9314842 TTTTTGTTCCCCTTTGG
1 TTTTTGTTCACCTTTGG
9314859 CCGAATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.62
Consensus pattern (17 bp):
TTTTTGTTCACCTTTGG
Found at i:9316889 original size:18 final size:17
Alignment explanation
Indices: 9316863--9316898 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9316853 AATTTTGGGT
*
9316863 TTTTATTTATTTATTTA
1 TTTTATTTATTGATTTA
9316880 TTTTACTTTATTGATTTA
1 TTTTA-TTTATTGATTTA
9316898 T
1 T
9316899 ACCTGCTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTATTTATTGATTTA
Found at i:9323889 original size:85 final size:86
Alignment explanation
Indices: 9323728--9323891 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
9323718 ATATGAGTTA
* * * ** *
9323728 TCGTGTAAGACCAAGTCTGGGACATTGGCGTCGATTTGAGATTTACGTGTAAGACCATGTCTGGT
1 TCGTGTAAGACCAAGTCTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGACCACATCTGGG
9323793 ACTTCGGCATTGTATACAATT
66 ACTTCGGCATTGTATACAATT
** *
9323814 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT-TG-TTTACATGTAAGACCACATCTGG
1 TCGTGTAAGACCAAGTCTGGGACAGTGGCATCGAT-TTGAGATTTACATGTAAGACCACATCTGG
*
9323877 GA-TGTTGGCATTGTA
65 GACT-TCGGCATTGTA
9323892 AGAGCTTCCA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
84 1 0.02
85 31 0.47
86 32 0.48
87 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (86 bp):
TCGTGTAAGACCAAGTCTGGGACAGTGGCATCGATTTGAGATTTACATGTAAGACCACATCTGGG
ACTTCGGCATTGTATACAATT
Found at i:9327068 original size:15 final size:15
Alignment explanation
Indices: 9327048--9327079 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9327038 CATTTCACTA
*
9327048 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
9327063 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
9327078 TT
1 TT
9327080 TGCAGGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:9329350 original size:13 final size:13
Alignment explanation
Indices: 9329332--9329358 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9329322 ATTTCTCGTC
9329332 TTTTTGAATGATT
1 TTTTTGAATGATT
9329345 TTTTTGAATGATT
1 TTTTTGAATGATT
9329358 T
1 T
9329359 GATTACATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (13 bp):
TTTTTGAATGATT
Found at i:9357166 original size:16 final size:17
Alignment explanation
Indices: 9357145--9357176 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9357135 CTATGTATTT
9357145 TGAAAT-TAAAAATATA
1 TGAAATGTAAAAATATA
9357161 TGAAATGTAAAAATAT
1 TGAAATGTAAAAATAT
9357177 GATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (17 bp):
TGAAATGTAAAAATATA
Found at i:9357783 original size:20 final size:21
Alignment explanation
Indices: 9357758--9357808 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
9357748 AATTGGAAGG
*
9357758 AGTAAAAGT-TTTGGGGGAAA
1 AGTAAAAATGTTTGGGGGAAA
*
9357778 AGTAAAAATGTTTGGGGTAAA
1 AGTAAAAATGTTTGGGGGAAA
*
9357799 AATATAAAAT
1 AGTA-AAAAT
9357809 ATTATAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 13 0.50
22 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.27
Consensus pattern (21 bp):
AGTAAAAATGTTTGGGGGAAA
Found at i:9357800 original size:22 final size:20
Alignment explanation
Indices: 9357758--9357800 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
9357748 AATTGGAAGG
* *
9357758 AGTAAAAGTTTTGGGGGAAA
1 AGTAAAAATTTTGGGGAAAA
9357778 AGTAAAAATGTTTGGGGTAAAA
1 AGTAAAAAT-TTTGGGG-AAAA
9357800 A
1 A
9357801 TATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (20 bp):
AGTAAAAATTTTGGGGAAAA
Found at i:9358100 original size:20 final size:21
Alignment explanation
Indices: 9358075--9358113 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9358065 TAAACCTATT
*
9358075 CAAAATATATCAA-AACATGC
1 CAAAATATACCAATAACATGC
9358095 CAAAATATACCAATAACAT
1 CAAAATATACCAATAACAT
9358114 TCAACCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (21 bp):
CAAAATATACCAATAACATGC
Found at i:9359498 original size:21 final size:21
Alignment explanation
Indices: 9359474--9359526 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
9359464 TAACAAAGGA
9359474 ACCGAAGTGCAAAATAGAGAC
1 ACCGAAGTGCAAAATAGAGAC
** **
9359495 ACCGAAGTGC-TTATAGAGGT
1 ACCGAAGTGCAAAATAGAGAC
9359515 ACCGAAGTGCAA
1 ACCGAAGTGCAA
9359527 TCCCGTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (21 bp):
ACCGAAGTGCAAAATAGAGAC
Found at i:9360562 original size:24 final size:23
Alignment explanation
Indices: 9360516--9360562 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
9360506 AGGTGATGGC
*
9360516 TTTATTTGTTTTATCTTATATTT
1 TTTATTTGTTTTATATTATATTT
9360539 TTTATCTTGTTTTATTATTA-ATTT
1 TTTAT-TTGTTTTA-TATTATATTT
9360563 AATATTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTATTTGTTTTATATTATATTT
Found at i:9361758 original size:17 final size:17
Alignment explanation
Indices: 9361728--9361771 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
9361718 TTTTGTTAGT
9361728 TTTTG-TTT-TTATTTA
1 TTTTGTTTTATTATTTA
9361743 TTTTGTTTTATTATTTA
1 TTTTGTTTTATTATTTA
*
9361760 TTTTCTTTTATT
1 TTTTGTTTTATT
9361772 CACGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 5 0.19
16 3 0.12
17 18 0.69
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTGTTTTATTATTTA
Found at i:9364469 original size:38 final size:38
Alignment explanation
Indices: 9364418--9364495 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
9364408 TTTTGCCCTA
9364418 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
1 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
9364456 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
1 AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
9364494 AA
1 AA
9364496 CAACTGAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (38 bp):
AAGGTCCAAGGTATCAATACCTAGCTTAATTGTTGCGG
Found at i:9365621 original size:20 final size:20
Alignment explanation
Indices: 9365596--9365660 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
9365586 GTTGTATTGG
9365596 TACTTCTCTAGAGGTACCTA
1 TACTTCTCTAGAGGTACCTA
* * * *
9365616 TACTTCACCCACAAGGTACCTG
1 TACTTC-TCTA-GAGGTACCTA
9365638 TACTTCT-TCAGAGGTACCTA
1 TACTTCTCT-AGAGGTACCTA
9365658 TAC
1 TAC
9365661 CTCTATTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
20 17 0.50
21 3 0.09
22 14 0.41
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (20 bp):
TACTTCTCTAGAGGTACCTA
Found at i:9373094 original size:44 final size:44
Alignment explanation
Indices: 9372984--9374141 Score: 760
Period size: 44 Copynumber: 25.7 Consensus size: 44
9372974 ATTAAAGTTT
* * *
9372984 CAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATCGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* ** * * *
9373028 GCAAATCTTCTCTATCTAAAGTTGCAGTAGAGCAGATTGAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * ** *
9373073 AAAATCTTATCTCTCTGAAGTTGTAGTAAAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* ** * *
9373117 AAAATCTTATCTCCCTGAAGTTATAGTAGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** *
9373161 CAAATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
9373205 CAAATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
9373249 GCGAATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACTAATTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TA
* * * * *
9373301 CAAATCTTATTTGCCTGAAGTTGCAGTGAAGCAGATTGAATATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
9373345 CTAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGATA
* * * *
9373396 CAAATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * ** *
9373440 CGAATCTTATTTCCCTGGAGTTGCAGTGTAATAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGATA
* *
9373491 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A
* * * *
9373536 CAAATCTTATCTCTCTGAAGTGGCAGTAGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
9373580 CAAAACTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* *** * * * * * *
9373624 GAAAATCTTATCAATCTAAAGCTGAAGTAGAGCATATTGAATATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * * * *
9373669 GTGAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * * * *
9373714 GTGAATCTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * *
9373759 GTGAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * *
9373804 GTAAATCTTATTTCCCTGAAGTGGTAGTGGAACAGATTAAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
9373849 CAAGT-TACATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTA
1 CAAATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * ** * *
9373893 CAAAT-TTATCTCCCTAAATTTGTAGTAAAACGGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
9373936 GCAAATCTTATCTCCTTGAAGTTGCAATGGAACAGATTGAAGTTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
9373981 CAAATCTTATCTCCATGAAGTTGCAGTGGAGTAGATT-AAAATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * * * * * *
9374025 CAAATCTCATCCCCCTAAAGTTGCAGTGAAGCAGAATAAAGCTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
9374069 CAAATCTAATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCA-A
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATA
* *
9374113 CAAATTTTATAC-CTCTGAAGTTGCAGTGG
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGG
9374142 GTTAGAATGA
Statistics
Matches: 892, Mismatches: 190, Indels: 63
0.78 0.17 0.06
Matches are distributed among these distances:
43 30 0.03
44 428 0.48
45 328 0.37
47 2 0.00
48 2 0.00
51 100 0.11
52 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:9373336 original size:51 final size:49
Alignment explanation
Indices: 9373252--9373582 Score: 210
Period size: 51 Copynumber: 6.9 Consensus size: 49
9373242 GAAGATAGCG
* *
9373252 AATCTTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAGCTACTAATTACA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTAC-AATTACA
* * * *
9373303 AATCTTATTTGCCTGAAGTTGCAGTGAAGCAGATTGAA--T---A-TGCT
1 AATCTTATTTCCCTGAAGTTGCAGTGAA-CAGATTAAAGCTACAATTACA
* *
9373347 AATCTTATTTCTCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAA-TTACA
* * * ** * * *
9373398 AATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAG-----A-TGCG
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAATTACA
* *
9373442 AATCTTATTTCCCTGGAGTTGCAGTGTAATAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAAGTTGCAGTG-AACAGATTAAAGCTACAA-TTACA
* * * *
9373493 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT---G-TA-GATAACA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAATTACA
* * * * *
9373538 AATCTTATCTCTCTGAAGTGGCAGTAGAGCAGATTGAAGCTACAA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAACAGATTAAAGCTACAA
9373583 AACTTATCTC
Statistics
Matches: 218, Mismatches: 39, Indels: 47
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 65 0.30
45 41 0.19
46 3 0.01
47 2 0.01
48 2 0.01
49 5 0.02
50 4 0.02
51 94 0.43
52 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (49 bp):
AATCTTATTTCCCTGAAGTTGCAGTGAACAGATTAAAGCTACAATTACA
Found at i:9373384 original size:95 final size:95
Alignment explanation
Indices: 9373118--9374115 Score: 525
Period size: 95 Copynumber: 10.9 Consensus size: 95
9373108 TTGAAGCTAA
** * * * * *
9373118 AAATCTTATCTCCCTGAAGTTATAGT-AGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGT
* *
9373182 TACAGTGGAATAGATT---G----AAGTTAC
65 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * *
9373206 AAATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTAAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAGT
*
9373271 TGTAGTGGAACAGATTAAAGCTACTAA-TTAC
65 TGCAGTGGAACAGATTAAAGCTAC-AAGTTAC
* * * * *
9373302 AAATCTTATTTGCCTGAAGTTGCAGTGAAGCAGATTGAATATGCTAATCTTATTTCTCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGTT
*
9373367 ACAGTGGAACAGATTAAAGCTACAAGTTAC
66 GCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * *
9373397 AAATCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTGAAGATGCGAATCTTATTTCCCTGGAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGTT
* *
9373462 GCAGTGTAATAGATTAAAGCTACAAGTTAC
66 GCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * *
9373492 AAATCTTATCTCCCTGAAGTTGCAGT-AGAGCAGATTGTAGATAACAAATCTTATCTCTCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAG
* * * *
9373556 TGGCAGTAGAGCAGATTGAAGCTAC-----A-
64 TTGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * ** **** * *
9373582 AAA-CTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGTAGATAGAAAATCTTATCAATCTAAAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAGT
* * * * * *
9373646 TGAAGTAGAGCATATTGAA--TA-TAG-T--
65 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * * * * * *
9373671 GAATCTTATCTCCCTTAATTTTCAATGGAA-CAGATTGAAGATAGTGAATCTTATCTCCCTTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAG
* * * *
9373735 TTTCAATGGAACAGATTGAAG--A-TAG-T--
64 TTGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * **
9373761 GAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGTAAATCTTATTTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGAT-GCGAATCTTATTTCCCTGAAGT
* * *
9373826 GGTAGTGGAACAGATTAAAGTTACAAGTT--
65 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * * * * * * *
9373855 --A-C--ATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGTTACAAAT-TTATCTCCCTAAATTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGTT
* ** * * *
9373914 GTAGTAAAACGGATTGAAG--A-TAG---C
66 GCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * * * *
9373938 AAATCTTATCTCCTTGAAGTTGCAATGGAA-CAGATTGAAGTTACAAATCTTATCTCCATGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGT
**
9374002 TGCAGTGGAGTAGATT--A---A-AA-TTAC
65 TGCAGTGGAACAGATTAAAGCTACAAGTTAC
* * * * * * * * * *
9374026 AAATCTCATCCCCCTAAAGTTGCAGTGAAGCAGAATAAAGCTGCAAATCTAATCTCTCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGTT
** *
9374091 GCAGTGGAGTAGATTAAAGCAACAA
66 GCAGTGGAACAGATTAAAGCTACAA
9374116 ATTTTATACC
Statistics
Matches: 720, Mismatches: 146, Indels: 82
0.76 0.15 0.09
Matches are distributed among these distances:
84 2 0.00
85 2 0.00
86 3 0.00
87 33 0.05
88 135 0.19
89 157 0.22
90 133 0.18
91 5 0.01
92 3 0.00
93 3 0.00
94 5 0.01
95 163 0.23
96 74 0.10
97 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (95 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATGCGAATCTTATTTCCCTGAAGTT
GCAGTGGAACAGATTAAAGCTACAAGTTAC
Found at i:9373653 original size:89 final size:89
Alignment explanation
Indices: 9373489--9373664 Score: 241
Period size: 89 Copynumber: 2.0 Consensus size: 89
9373479 AGCTACAAGT
* ** *
9373489 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCTCTCTGA
1 TACAAAACTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCAATCTAA
*
9373554 AGTGGCAGTAGAGCAGATTGAAGC
66 AGTGGAAGTAGAGCAGATTGAAGC
*
9373578 TACAAAACTTATCTCTCTGAAGTTGCAGT-GAAGCAGATTGTAGATAGA-AAATCTTATCAATCT
1 TACAAAACTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGTAGATA-ACAAATCTTATCAATCT
*
9373641 AAAGCT-GAAGTAGAGCATATTGAA
64 AAAG-TGGAAGTAGAGCAGATTGAA
9373665 TATAGTGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
88 1 0.01
89 74 0.96
90 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (89 bp):
TACAAAACTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAGATAACAAATCTTATCAATCTAA
AGTGGAAGTAGAGCAGATTGAAGC
Found at i:9373721 original size:90 final size:90
Alignment explanation
Indices: 9373585--9373814 Score: 221
Period size: 90 Copynumber: 2.6 Consensus size: 90
9373575 AGCTACAAAA
* * * * * * *
9373585 CTTATCTCTCTGAAGTTGCAGT-GAAGCAGATTGTAGATAGAAAATCTTATCAATC-TAAAGCTG
1 CTTATCTCCCTGAAGTTACAATGGAA-CAGATTGAAGATAGTAAATCTTATCAACCTTAAAGCTC
* * *
9373648 AAGTAGAGCATATTGAATATAGTGAAT
65 AA-TAGAACAGATTGAAGATAGTGAAT
* * * * ** ***
9373675 CTTATCTCCCTTAATTTTCAATGGAACAGATTGAAGATAGTGAATCTTATCTCCCTTAATTTTCA
1 CTTATCTCCCTGAAGTTACAATGGAACAGATTGAAGATAGTAAATCTTATCAACCTTAAAGCTCA
*
9373740 ATGGAACAGATTGAAGATAGTGAAT
66 ATAGAACAGATTGAAGATAGTGAAT
* * *
9373765 CTTATTTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGTAAATCTTAT
1 CTTATCTCCCTGAAGTTACAATGGAACAGATTGAAGATAGTAAATCTTAT
9373815 TTCCCTGAAG
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
90 103 0.92
91 9 0.08
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (90 bp):
CTTATCTCCCTGAAGTTACAATGGAACAGATTGAAGATAGTAAATCTTATCAACCTTAAAGCTCA
ATAGAACAGATTGAAGATAGTGAAT
Found at i:9374778 original size:14 final size:14
Alignment explanation
Indices: 9374748--9374794 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
9374738 TTGAAAACAA
* *
9374748 AAAAAAAG-GGAAG
1 AAAAAAAGAGAAAT
9374761 AAAAAAAGA-AAAT
1 AAAAAAAGAGAAAT
*
9374774 AAAAAAAGAGATAT
1 AAAAAAAGAGAAAT
9374788 AAAAAAA
1 AAAAAAA
9374795 CACCACAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAGAAAT
Found at i:9375863 original size:21 final size:22
Alignment explanation
Indices: 9375838--9375887 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
9375828 ATGTTGTTCA
*
9375838 TATTTATACA-TTTTCGCTCAT
1 TATTTATACATTTTTCACTCAT
*
9375859 TATTTGTACATTTTTCACTCAT
1 TATTTATACATTTTTCACTCAT
9375881 TATTTAT
1 TATTTAT
9375888 TTATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTATACATTTTTCACTCAT
Found at i:9377418 original size:9 final size:9
Alignment explanation
Indices: 9377404--9377429 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9377394 ACTACCCAAC
9377404 CTATGTTGT
1 CTATGTTGT
9377413 CTATGTTGT
1 CTATGTTGT
9377422 CTATGTTG
1 CTATGTTG
9377430 AATAATTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.54
Consensus pattern (9 bp):
CTATGTTGT
Found at i:9377447 original size:24 final size:24
Alignment explanation
Indices: 9377415--9377463 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9377405 TATGTTGTCT
9377415 ATGTTGTCTATGTTGAATAATTAG
1 ATGTTGTCTATGTTGAATAATTAG
9377439 ATGTTGTCTATGTTGAATAATTAG
1 ATGTTGTCTATGTTGAATAATTAG
9377463 A
1 A
9377464 GTATTAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (24 bp):
ATGTTGTCTATGTTGAATAATTAG
Found at i:9378201 original size:37 final size:40
Alignment explanation
Indices: 9378108--9378226 Score: 109
Period size: 37 Copynumber: 3.0 Consensus size: 40
9378098 TTCAACCTCG
* *
9378108 AGTCGATGACACACTGGGTGTCAATCTATTACTTCGAATTA
1 AGTCGATGAGACACTGGGTGCCAA-CTATTACTTCGAATTA
* * * * *
9378149 ATTTGATGAGGCACTGGGTGCCAA-T-TTACTTCG-GTTT
1 AGTCGATGAGACACTGGGTGCCAACTATTACTTCGAATTA
* * *
9378186 AGTCGATGAGACACTGGGTGTCACCTTATTACTTGGAATTA
1 AGTCGATGAGACACTGGGTGCCAAC-TATTACTTCGAATTA
9378227 TCCGACGAGG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
37 21 0.36
38 8 0.14
39 2 0.03
40 7 0.12
41 21 0.36
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (40 bp):
AGTCGATGAGACACTGGGTGCCAACTATTACTTCGAATTA
Found at i:9380765 original size:64 final size:64
Alignment explanation
Indices: 9380659--9380804 Score: 195
Period size: 64 Copynumber: 2.3 Consensus size: 64
9380649 CCTATGTGTC
*
9380659 TTACACGGCCTA-ACACACAACCATTTCCTCCGCTCGTGTGATCCTTATTTTGTAATCAATGAG
1 TTACACGGCCTAGACACACAACCATGTCCTCCGCTCGTGTGATCCTTATTTTGTAATCAATGAG
*** ** * *
9380722 TTACACGGCCTAGACACATGCCCATGTCCTTGGCTCTTGTGATCCTTATTTTGTAATCAGTGAG
1 TTACACGGCCTAGACACACAACCATGTCCTCCGCTCGTGTGATCCTTATTTTGTAATCAATGAG
* *
9380786 TTACATGGCCAAGACACAC
1 TTACACGGCCTAGACACAC
9380805 GCTCGTGTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 12 0.17
64 59 0.83
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (64 bp):
TTACACGGCCTAGACACACAACCATGTCCTCCGCTCGTGTGATCCTTATTTTGTAATCAATGAG
Found at i:9381443 original size:12 final size:12
Alignment explanation
Indices: 9381397--9381458 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
9381387 TGGTAAAAGC
*
9381397 AAAAGAAAATGA
1 AAAAGAAAAGGA
* *
9381409 AATATGAAAATGA
1 AA-AAGAAAAGGA
*
9381422 AGAAGAAAAAGGA
1 AAAAG-AAAAGGA
9381435 AAAAGAAAAGGA
1 AAAAGAAAAGGA
**
9381447 ACTAGAAAAGGA
1 AAAAGAAAAGGA
9381459 GAGGGAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 21 0.51
13 20 0.49
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.08
Consensus pattern (12 bp):
AAAAGAAAAGGA
Found at i:9381791 original size:8 final size:8
Alignment explanation
Indices: 9381778--9381811 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
9381768 ACTGGAACTC
9381778 AACACTTA
1 AACACTTA
9381786 AACACTTA
1 AACACTTA
9381794 AACACTTA
1 AACACTTA
9381802 AACACTTA
1 AACACTTA
9381810 AA
1 AA
9381812 ATTTTTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (8 bp):
AACACTTA
Found at i:9381958 original size:13 final size:13
Alignment explanation
Indices: 9381942--9381998 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 13
9381932 ATTTTGAATT
9381942 AAAATTATAAATA
1 AAAATTATAAATA
* *
9381955 AAAATAATAAGTTTA
1 AAAATTATAA--ATA
9381970 AAAATTATCAAATA
1 AAAATTAT-AAATA
9381984 AAATATTATTAAATA
1 AAA-ATTA-TAAATA
9381999 TTTAATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 9 0.26
14 5 0.14
15 18 0.51
16 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAATTATAAATA
Found at i:9386670 original size:19 final size:19
Alignment explanation
Indices: 9386642--9386678 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9386632 TGAAACATGA
*
9386642 AATGGGATGATAATGAAAC
1 AATGGAATGATAATGAAAC
9386661 AATGGAATGATAATGAAA
1 AATGGAATGATAATGAAA
9386679 TAGAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.24, T:0.22
Consensus pattern (19 bp):
AATGGAATGATAATGAAAC
Found at i:9387386 original size:19 final size:18
Alignment explanation
Indices: 9387358--9387403 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
9387348 AAAAGTTTTA
9387358 TAAT-TTTTTTATAAACTT
1 TAATATTTTTTA-AAACTT
*
9387376 TAATATTTTTTAAAATTT
1 TAATATTTTTTAAAACTT
9387394 TAAATATTTT
1 T-AATATTTT
9387404 AAATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATATTTTTTAAAACTT
Found at i:9387433 original size:41 final size:40
Alignment explanation
Indices: 9387380--9387458 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
9387370 AAACTTTAAT
9387380 ATTTTTTAAAATTTT-AAATATTTTAAATAATTTTTATATG
1 ATTTTTTAAAATTTTCAAAT-TTTTAAATAATTTTTATATG
* * *
9387420 ATTTTCTTGAAATTTTCAAATTTTTAATTATTTTTTATA
1 ATTTT-TTAAAATTTTCAAATTTTTAAATAATTTTTATA
9387459 ATTTTAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 5 0.15
41 25 0.74
42 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (40 bp):
ATTTTTTAAAATTTTCAAATTTTTAAATAATTTTTATATG
Found at i:9387661 original size:9 final size:9
Alignment explanation
Indices: 9387649--9387675 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9387639 ATTTTATAGT
9387649 TTTTTGAAA
1 TTTTTGAAA
9387658 TTTTTGAAA
1 TTTTTGAAA
9387667 TTTTTGAAA
1 TTTTTGAAA
9387676 AAAATCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
TTTTTGAAA
Found at i:9398129 original size:44 final size:44
Alignment explanation
Indices: 9397991--9398129 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 44
9397981 AATAGCAGAT
* *
9397991 CTTGCTTTCCTGCACCGACAGTAAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
* * ** * * ** * * * *
9398035 CTTACCTCCCTG-AGTTG-CAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCA-CCGACAGTGAAGCAGATCGAAGACACCAG-C
*
9398079 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
9398123 CTTGCCT
1 CTTGCCT
9398130 CCTTGGGTTG
Statistics
Matches: 64, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 18 0.28
44 28 0.44
45 18 0.28
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
Found at i:9398131 original size:88 final size:88
Alignment explanation
Indices: 9397977--9398476 Score: 709
Period size: 88 Copynumber: 5.7 Consensus size: 88
9397967 AACAGATCAG
* ** *
9397977 TAAAAATAGCAGATCTTGCTTTCCTGCACCGACAGTAAAGCAGATCGAAGACACCAGCCTTACCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
9398042 CCCT-GAGTTGCAGTGGAGCAGGT
66 CCCTAG-GTTGCAGCGGAACAGGT
9398065 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * *
9398130 CCTTGGGTTGCAGCAGAGCAAGT
66 CCCTAGGTTGCAGCGGAACAGGT
** * * *
9398153 TAAAAAATAATAGATCTTGCCTTCCTACACCGATAGCGAAACAGATCGAAGACACCAGCCTTGCC
1 T-AAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
9398218 TCCCTAGGTTGCAGCGGAACAAGT
65 TCCCTAGGTTGCAGCGGAACAGGT
* * * *
9398242 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGACCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
9398307 CCCTAGGTTGCAGCGGAACAGGT
66 CCCTAGGTTGCAGCGGAACAGGT
** *
9398330 TAAAAATAGCAGATCTTGCCTTCCTATACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
9398395 CCCTAGGTTGCAGC-GAATCAGGT
66 CCCTAGGTTGCAGCGGAA-CAGGT
* *
9398418 TAAAAATAGCAGA-CTTTGCCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATC-TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
9398477 CTATCTCCCT
Statistics
Matches: 371, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
87 4 0.01
88 287 0.77
89 80 0.22
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAACAGGT
Found at i:9398274 original size:177 final size:176
Alignment explanation
Indices: 9397977--9398476 Score: 711
Period size: 177 Copynumber: 2.8 Consensus size: 176
9397967 AACAGATCAG
* * * *
9397977 TAAAAATAGCAGATCTTGCTTTCCTGCACCGACAG-TAAAGCAGATCGAAGACACCAGCCTTACC
1 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAA-CAGATCGAAGACACCAGCCTTGCC
* *
9398041 TCCCT-GAGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
65 TCCCTAG-GTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
* * *
9398105 CAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTGCAGCAGAGCAAGT
129 CAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCAGAACAAGT
** *
9398153 TAAAAAATAATAGATCTTGCCTTCCTACACCGATAGCGAAACAGATCGAAGACACCAGCCTTGCC
1 T-AAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCC
* * *
9398218 TCCCTAGGTTGCAGCGGAACAAGTTAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCTAAGC
65 TCCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGC
* * * *
9398283 AGACCAAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAACAGGT
130 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCAGAACAAGT
* **
9398330 TAAAAATAGCAGATCTTGCCTTCCTATACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
9398395 CCCTAGGTTGCAGC-GAATCAGGTTAAAAATAGCAGA-CTTTGCCTTCCTGCACCGACAGCGAAG
66 CCCTAGGTTGCAGCGGAA-CAGGTTAAAAATAGCAGATC-TTGCCTTCCTGCACCGACAGCGAAG
* *
9398458 CAGATCGATGACCCCAGCC
129 CAGATCGAAGACACCAGCC
9398477 CTATCTCCCT
Statistics
Matches: 287, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
175 4 0.01
176 128 0.45
177 151 0.53
178 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (176 bp):
TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCAGAACAAGT
Found at i:9398348 original size:44 final size:44
Alignment explanation
Indices: 9398212--9398355 Score: 105
Period size: 44 Copynumber: 3.3 Consensus size: 44
9398202 AGACACCAGC
*
9398212 CTTGCCTCCCTAGGTTGCAGCGGAACAAGTTAAAAATAACAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAACAGGTTAAAAATAACAGAT
* *** * *** * * * *
9398256 CTTGCCTTCCT-GCACCGACAGC-TAAGCAGACCAAAGACACCAG-C
1 CTTGCCTCCCTAG-GTTG-CAGCGGAA-CAGGTTAAAAATAACAGAT
*
9398300 CTTGCCTCCCTAGGTTGCAGCGGAACAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAACAGGTTAAAAATAACAGAT
*
9398344 CTTGCCTTCCTA
1 CTTGCCTCCCTA
9398356 TACCGACAGC
Statistics
Matches: 68, Mismatches: 26, Indels: 12
0.64 0.25 0.11
Matches are distributed among these distances:
43 16 0.24
44 37 0.54
45 15 0.22
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTAGGTTGCAGCGGAACAGGTTAAAAATAACAGAT
Found at i:9398437 original size:44 final size:44
Alignment explanation
Indices: 9398301--9398438 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
9398291 GACACCAGCC
9398301 TTGCCTCCCTAGGTTGCAGCGGAA-CAGGTTAAAAATAGCAGA-T
1 TTGCCTCCCTAGGTTGCAGC-GAATCAGGTTAAAAATAGCAGACT
* **** * ** * * * *
9398344 CTTGCCTTCCTATACCGACAGCGAAGT-AGATCGAAGACACCAG-CC
1 -TTGCCTCCCTAGGTTG-CAGCGAA-TCAGGTTAAAAATAGCAGACT
9398389 TTGCCTCCCTAGGTTGCAGCGAATCAGGTTAAAAATAGCAGACT
1 TTGCCTCCCTAGGTTGCAGCGAATCAGGTTAAAAATAGCAGACT
9398433 TTGCCT
1 TTGCCT
9398439 TCCTGCACCG
Statistics
Matches: 64, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
42 1 0.02
43 17 0.27
44 32 0.50
45 14 0.22
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (44 bp):
TTGCCTCCCTAGGTTGCAGCGAATCAGGTTAAAAATAGCAGACT
Found at i:9398541 original size:45 final size:45
Alignment explanation
Indices: 9398476--9398617 Score: 180
Period size: 45 Copynumber: 3.2 Consensus size: 45
9398466 TGACCCCAGC
*
9398476 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAATTCACAAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAATTCACAAAGT
* * ***
9398521 CCTATCTCCCTGGTCTGCAGTGTAATAGGTTGAAGATT-GTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA-ATTCACAAAGT
* * *
9398565 CCTATCTCCCTGGTCAACAGTAGAATAGGTTGAAAATCACAAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAATTCACAAAGT
9398610 CCTATCTC
1 CCTATCTC
9398618 TTTGGCATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 2 0.03
44 33 0.41
45 42 0.52
46 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAATTCACAAAGT
Found at i:9398741 original size:50 final size:50
Alignment explanation
Indices: 9398687--9398845 Score: 147
Period size: 50 Copynumber: 3.2 Consensus size: 50
9398677 GTAATAGAAC
* *
9398687 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTAACATTGCAATTAAAA
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTAACATTGCAATTAAAA
* * ** ** ** * * ** *
9398737 AGATTGAAGCCACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTAACATTGCAATTAAAA
* * *
9398787 AGATTGAAGCCACGACGGCAAATCTGGTTTCCCTAACATTGCAATTTAAA
1 AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTAACATTGCAATTAAAA
*
9398837 AGACTGAAG
1 AGATTGAAG
9398846 ATGGTGAATC
Statistics
Matches: 78, Mismatches: 31, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACGACGGCGAATCTTGTTTCCCTAACATTGCAATTAAAA
Found at i:9398906 original size:44 final size:43
Alignment explanation
Indices: 9398852--9399270 Score: 223
Period size: 44 Copynumber: 9.6 Consensus size: 43
9398842 GAAGATGGTG
*
9398852 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * *
9398896 AATTTTATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * *
9398940 GATCTTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * *
9398981 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * * * *
9399023 CAAGTCTTATC-CTTCTTAAGTTGTAGT-AAGGCAGACTGAAGATGGC--G
1 -AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
*
9399070 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * ***
9399114 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * * * * * *
9399157 AGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATC--G
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * * * * *
9399199 GGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
9399243 AAGTCTTATCCCCCTGAAATTGCAGTGG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGG
9399271 GGCAAACTAA
Statistics
Matches: 281, Mismatches: 68, Indels: 51
0.70 0.17 0.13
Matches are distributed among these distances:
40 21 0.07
41 39 0.14
42 3 0.01
43 9 0.03
44 134 0.48
45 68 0.24
46 5 0.02
47 1 0.00
49 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:9399057 original size:85 final size:87
Alignment explanation
Indices: 9398900--9399100 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 87
9398890 GCCAATAATT
* *
9398900 TTATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAG
* *
9398965 AGAGCAGA-TCG-CAT-CTAGTC
66 AGAGCAGACT-GACATGCGAATC
*
9398985 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCA-AG-TC-TTATC-CTTCTTAAGTTG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AATCACAGATCTTTATCTC-TCTGAAGTTG
* *
9399046 TAGTA-AGGCAGACTGAAGATGGCGAATC
63 CAG-AGA-GCAGACTG-ACAT-GCGAATC
9399074 TTATCTCCCTGAAGTTGCAGTGGAGCA
1 TTATCTCCCTGAAGTTGCAGTGGAGCA
9399101 AATTAAAGCC
Statistics
Matches: 99, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
83 1 0.01
84 17 0.17
85 40 0.40
86 3 0.03
87 7 0.07
89 31 0.31
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (87 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAG
AGAGCAGACTGACATGCGAATC
Found at i:9399215 original size:218 final size:219
Alignment explanation
Indices: 9398837--9399253 Score: 658
Period size: 218 Copynumber: 1.9 Consensus size: 219
9398827 GCAATTTAAA
* * * **
9398837 AGACTGAAGATGGTGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTTT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCT
* * *
9398902 ATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAGAG
66 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAGAG
* * * *
9398967 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAATCAAGTCTT
131 AGCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAACCAAGTCTT
9399031 ATCCTTCTTAAGTTGTAGTAAGGC
196 ATCCTTCTTAAGTTGTAGTAAGGC
9399055 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCT
* *
9399120 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCAGATC-TTATCTCTCTGAAGTTACAGTA
66 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAG-A
* * *
9399184 GAGTAGATCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAACCAAGTCT
130 GAGCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAACCAAGTCT
9399249 TATCC
195 TATCC
9399254 CCCTGAAATT
Statistics
Matches: 180, Mismatches: 17, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
217 19 0.11
218 144 0.80
219 17 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (219 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCT
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAGAG
AGCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAACCAAGTCTT
ATCCTTCTTAAGTTGTAGTAAGGC
Found at i:9399301 original size:218 final size:218
Alignment explanation
Indices: 9398852--9399315 Score: 594
Period size: 218 Copynumber: 2.1 Consensus size: 218
9398842 GAAGATGGTG
* * * **
9398852 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTTTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
* * * * *
9398917 CAGTTGAGCAGATTAAAATCACAGATCTTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTA
66 CAGTGGAGCAGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCGA
* * ** * * *
9398982 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTTCTTAAGTTGT
131 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACCAAGTCTTATCCCCCTGAAATTGC
* ** *
9399047 AGTAAGGCAGACTGAAGATGGCG
196 AGTAAGGCAAACTGAAGATAACA
*
9399070 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
* * *
9399135 CAGTGGAGCGGATTAAAACCCCAGATC-TTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCG
66 CAGTGGAGCAGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAG-AGAGCAGATCACATCG
* *
9399199 GGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAAGAAACCAAGTCTTATCCCCCTGAAATT
130 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAACCAAGTCTTATCCCCCTGAAATT
**
9399264 GCAGTGGGGCAAACT-AA-ATAAACA
194 GCAGTAAGGCAAACTGAAGAT-AACA
* *
9399288 AATCCTGTCTCCCT-AAGTTGTAGTGGAG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAG
9399316 TGGATTAGAG
Statistics
Matches: 213, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
217 34 0.16
218 145 0.68
219 34 0.16
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (218 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAACCACAGATCTTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCGA
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACCAAGTCTTATCCCCCTGAAATTGC
AGTAAGGCAAACTGAAGATAACA
Done.