Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 59 of 91
Found at i:21134721 original size:13 final size:13
Alignment explanation
Indices: 21134703--21134727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21134693 GGAGAAATTG
21134703 TGATTTTATAAAA
1 TGATTTTATAAAA
21134716 TGATTTTATAAA
1 TGATTTTATAAA
21134728 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:21146043 original size:2 final size:2
Alignment explanation
Indices: 21146038--21146086 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
21146028 TTTCTATTAT
21146038 TA TA TA TA TA TA TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
21146081 TA TA TA
1 TA TA TA
21146087 ACTAAGCATG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21148410 original size:44 final size:42
Alignment explanation
Indices: 21148362--21148569 Score: 149
Period size: 44 Copynumber: 4.9 Consensus size: 42
21148352 ACATATGTAG
*
21148362 AATTTTTCTATTAGTTGAACTCGTAAACTAATAAATATATAA
1 AATTTTTATATTAGTTGAACTCGTAAACTAATAAATATATAA
* *
21148404 TAA-ATTTATATT-GCTTGAACTATGATACATACT--TAAATATATAA
1 -AATTTTTATATTAG-TTGAACT-CG-TA-A-ACTAATAAATATATAA
* *
21148448 AATTTTTATATTTGTTGAACTCGTAAACTACTAAATATA-AA
1 AATTTTTATATTAGTTGAACTCGTAAACTAATAAATATATAA
** * ** **
21148489 ATAAATTTATATTACTTGAACTATTATGC-AGATTTAAATATATAA
1 A-ATTTTTATATTAGTTGAACTCGTAAACTA-A--TAAATATATAA
* * *
21148534 AATTTTTCTATTAGTTGAACTTGTAAACTAGTAAAT
1 AATTTTTATATTAGTTGAACTCGTAAACTAATAAAT
21148570 GTAAAACAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 31
0.70 0.13 0.17
Matches are distributed among these distances:
40 3 0.02
41 6 0.05
42 48 0.38
43 6 0.05
44 55 0.43
45 6 0.05
46 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (42 bp):
AATTTTTATATTAGTTGAACTCGTAAACTAATAAATATATAA
Found at i:21148424 original size:42 final size:41
Alignment explanation
Indices: 21148376--21148510 Score: 141
Period size: 42 Copynumber: 3.2 Consensus size: 41
21148366 TTTCTATTAG
21148376 TTGAACTCGTAAACTAATAAATATATAATAAATTTATATTGC
1 TTGAACTCGTAAACT-ATAAATATATAATAAATTTATATTGC
* *
21148418 TTGAACTATGATACATACT-TAAATATATAA-AATTTTTATATTTG-
1 TTGAACT-CG-TA-A-ACTATAAATATATAATAA-ATTTATA-TTGC
* *
21148462 TTGAACTCGTAAACTACTAAATATAAAATAAATTTATATTAC
1 TTGAACTCGTAAACTA-TAAATATATAATAAATTTATATTGC
21148504 TTGAACT
1 TTGAACT
21148511 ATTATGCAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 32 0.42
43 6 0.08
44 26 0.34
45 4 0.05
46 3 0.04
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (41 bp):
TTGAACTCGTAAACTATAAATATATAATAAATTTATATTGC
Found at i:21148428 original size:86 final size:86
Alignment explanation
Indices: 21148313--21148594 Score: 366
Period size: 86 Copynumber: 3.3 Consensus size: 86
21148303 GTATAAAAAG
* * * * * * *
21148313 TAAAATATATTTATACTATTTGAAGTATGATACAAACTTACATATGTAGAATTTTTCTATTAGTT
1 TAAAATAAATTTATATTACTTGAACTATGATACAAACTTAAATATATAAAATTTTTCTATTAGTT
21148378 GAACTCGTAAACTAATAAATA
66 GAACTCGTAAACTAATAAATA
* * * * *
21148399 TATAATAAATTTATATTGCTTGAACTATGATACATACTTAAATATATAAAATTTTTATATTTGTT
1 TAAAATAAATTTATATTACTTGAACTATGATACAAACTTAAATATATAAAATTTTTCTATTAGTT
*
21148464 GAACTCGTAAACTACTAAATA
66 GAACTCGTAAACTAATAAATA
* * * *
21148485 TAAAATAAATTTATATTACTTGAACTATTATGCAGATTTAAATATATAAAATTTTTCTATTAGTT
1 TAAAATAAATTTATATTACTTGAACTATGATACAAACTTAAATATATAAAATTTTTCTATTAGTT
* * *
21148550 GAACTTGTAAACTAGTAAATG
66 GAACTCGTAAACTAATAAATA
* *
21148571 TAAAACAAAATTATATTACTTGAA
1 TAAAATAAATTTATATTACTTGAA
21148595 TATATATATA
Statistics
Matches: 170, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 170 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (86 bp):
TAAAATAAATTTATATTACTTGAACTATGATACAAACTTAAATATATAAAATTTTTCTATTAGTT
GAACTCGTAAACTAATAAATA
Found at i:21148537 original size:42 final size:42
Alignment explanation
Indices: 21148393--21148631 Score: 123
Period size: 44 Copynumber: 5.6 Consensus size: 42
21148383 CGTAAACTAA
* *
21148393 TAAATATATAATAAATTTATATTGCTTGAACTATGATACATACT
1 TAAATATAT-ATAAATTTATATTACTTGAACTATTATACATA-T
** ** * *
21148437 TAAATATATA-AAATTTTTATATTTGTTGAACTCGTAAAC-TAC
1 TAAATATATATAAA--TTTATATTACTTGAACTATTATACATAT
* * *
21148479 TAAATATAAAATAAATTTATATTACTTGAACTATTATGCAGATT
1 TAAATAT-ATATAAATTTATATTACTTGAACTATTATACATA-T
* * * *
21148523 TAAATATATA-AAATTTTTCTATTAGTTGAACT-TGTAAAC-TAG
1 TAAATATATATAAA--TTTATATTACTTGAACTAT-TATACATAT
* * * * *
21148565 TAAATGTAAAACAAAATTATATTACTTGAA-TA-TATATATAT
1 TAAATAT-ATATAAATTTATATTACTTGAACTATTATACATAT
* * *
21148606 ATATATATATATATATATATATTACT
1 -TAAATATATATAAATTTATATTACT
21148632 AAATTAAACT
Statistics
Matches: 143, Mismatches: 38, Indels: 31
0.67 0.18 0.15
Matches are distributed among these distances:
40 3 0.02
41 16 0.11
42 54 0.38
43 12 0.08
44 58 0.41
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (42 bp):
TAAATATATATAAATTTATATTACTTGAACTATTATACATAT
Found at i:21148601 original size:2 final size:2
Alignment explanation
Indices: 21148594--21148627 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21148584 TATTACTTGA
21148594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21148628 TACTAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21155485 original size:30 final size:30
Alignment explanation
Indices: 21155449--21155510 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
21155439 TCGTAAGAAT
*
21155449 TTATTTGACTCAAAATAAAAGTACAACGGC
1 TTATTTGACTCAAAATAAAAGTACAAAGGC
*
21155479 TTATTTGTCTCAAAATAAAAGTACAAAGGC
1 TTATTTGACTCAAAATAAAAGTACAAAGGC
21155509 TT
1 TT
21155511 GATTGAACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (30 bp):
TTATTTGACTCAAAATAAAAGTACAAAGGC
Found at i:21156691 original size:39 final size:39
Alignment explanation
Indices: 21156637--21156712 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
21156627 AATAATTACC
*
21156637 TTATTAAATATAACTTTTTAATAGTTGTATGATGAAAGG
1 TTATTAAATATAACTTTTGAATAGTTGTATGATGAAAGG
* *
21156676 TTATTAGATATAACTTTTGAATAGTTGTATTATGAAA
1 TTATTAAATATAACTTTTGAATAGTTGTATGATGAAA
21156713 AGAAACAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (39 bp):
TTATTAAATATAACTTTTGAATAGTTGTATGATGAAAGG
Found at i:21156939 original size:20 final size:21
Alignment explanation
Indices: 21156914--21156955 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
21156904 AGTCATACTT
21156914 TTCTTTCTTCTCAAA-ATTTC
1 TTCTTTCTTCTCAAACATTTC
*
21156934 TTCTTTCTTCTTAAACATTTC
1 TTCTTTCTTCTCAAACATTTC
21156955 T
1 T
21156956 AACAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (21 bp):
TTCTTTCTTCTCAAACATTTC
Found at i:21176028 original size:2 final size:2
Alignment explanation
Indices: 21176021--21176114 Score: 131
Period size: 2 Copynumber: 48.5 Consensus size: 2
21176011 GATGCATGTT
21176021 TC TC TC TC TC TC TC TC TC T- TC -C TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * *
21176061 TC TG TT TA TN T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21176102 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
21176115 GTTTATGATT
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
1 3 0.04
2 82 0.96
ACGTcount: A:0.01, C:0.45, G:0.01, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21178546 original size:28 final size:28
Alignment explanation
Indices: 21178503--21178572 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
21178493 CATTTGGAGC
*
21178503 TATTCTTGACCCAAGGTTTTTTTTTTTT
1 TATTCTTGACCTAAGGTTTTTTTTTTTT
21178531 TATTCTTGACCTAAGGTTTTTTTTTTTT
1 TATTCTTGACCTAAGGTTTTTTTTTTTT
21178559 TATTCTTGACCTAA
1 TATTCTTGACCTAA
21178573 TGTTGAAGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.59
Consensus pattern (28 bp):
TATTCTTGACCTAAGGTTTTTTTTTTTT
Found at i:21180996 original size:44 final size:44
Alignment explanation
Indices: 21180943--21181036 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
21180933 TTTAGTTTAA
*
21180943 AAGCTATTATGAAGCTCTTACAAAAAATAAAAACTTTTAAAATT
1 AAGCTATTATGAAACTCTTACAAAAAATAAAAACTTTTAAAATT
* *
21180987 AAGCTATTATGAAACTCTTACAAAAAATAATAATTTTTAAAATT
1 AAGCTATTATGAAACTCTTACAAAAAATAAAAACTTTTAAAATT
21181031 AAGCTA
1 AAGCTA
21181037 AAATTGTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (44 bp):
AAGCTATTATGAAACTCTTACAAAAAATAAAAACTTTTAAAATT
Found at i:21186439 original size:32 final size:32
Alignment explanation
Indices: 21186403--21186463 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
21186393 TATACCAATT
*
21186403 AGTTATTACATTATAATATACAACTCATTATA
1 AGTTATTACACTATAATATACAACTCATTATA
*
21186435 AGTTATTACACTATACTATACAACTCATT
1 AGTTATTACACTATAATATACAACTCATT
21186464 CTCTGTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.39
Consensus pattern (32 bp):
AGTTATTACACTATAATATACAACTCATTATA
Found at i:21205210 original size:87 final size:89
Alignment explanation
Indices: 21205057--21205231 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 89
21205047 TTATGAGCAA
* * **
21205057 AAAAGGTAAGGAAAAGAATAAAAAGCAACAAACTAAATTCTCCTTTCTACACAATCCTGATCATT
1 AAAAGGTAAGGAAAAGAATAAAAAGCAACAAACTAAATTCTCCTTTATACAAAATCCAAATCATT
* *
21205122 GCTT-GGGGAACGAGGGCTGAGAC
66 GCTTCAGGGAAAGAGGGCTGAGAC
* *
21205145 AAAAGGTAAGGAAAAGAAT-AAAAGCAAGAAACTAAATTCTCCTTTATACAAAATCCAAATGATT
1 AAAAGGTAAGGAAAAGAATAAAAAGCAACAAACTAAATTCTCCTTTATACAAAATCCAAATCATT
21205209 GCTTCAGGGAAAGAGGGCTGAGA
66 GCTTCAGGGAAAGAGGGCTGAGA
21205232 ACCAAAATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 43 0.55
88 35 0.45
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (89 bp):
AAAAGGTAAGGAAAAGAATAAAAAGCAACAAACTAAATTCTCCTTTATACAAAATCCAAATCATT
GCTTCAGGGAAAGAGGGCTGAGAC
Found at i:21206257 original size:139 final size:140
Alignment explanation
Indices: 21206006--21206269 Score: 460
Period size: 139 Copynumber: 1.9 Consensus size: 140
21205996 CTCCTAAAGG
21206006 CAGTAGCTTCAATTGTCAAACCTAGTTTTGTCCATAAATGTTGCTTTGATATTAAGACTATACTA
1 CAGTAGCTTCAATTGTCAAACCTAGTTTTGTCCATAAATGTTGCTTTGATATTAAGACTATACTA
**
21206071 AAACTTTTTTTTCTTTGGTGCATAAATATATTAACACTTTCAAGATTAGGTCAATGCTGAGAATC
66 AAACTCCTTTTTCTTTGGTGCATAAATATATTAACACTTTCAAGATTAGGTCAATGCTGAGAATC
21206136 CAATTCCGGT
131 CAATTCCGGT
* * *
21206146 CAGTAGCTTCAATTGTCAAACTTAG-TTTGTCCATAAATGTTGGTTTGATATTAAGACTATGCTA
1 CAGTAGCTTCAATTGTCAAACCTAGTTTTGTCCATAAATGTTGCTTTGATATTAAGACTATACTA
21206210 AAACTCCTTTTTCTTTGGTGCATAAATATATTAACACTGTT-AAGATTAGGTCAATGCTGA
66 AAACTCCTTTTTCTTTGGTGCATAAATATATTAACACT-TTCAAGATTAGGTCAATGCTGA
21206270 CCGATGTCTA
Statistics
Matches: 118, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
139 92 0.78
140 26 0.22
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (140 bp):
CAGTAGCTTCAATTGTCAAACCTAGTTTTGTCCATAAATGTTGCTTTGATATTAAGACTATACTA
AAACTCCTTTTTCTTTGGTGCATAAATATATTAACACTTTCAAGATTAGGTCAATGCTGAGAATC
CAATTCCGGT
Found at i:21218507 original size:16 final size:17
Alignment explanation
Indices: 21218464--21218508 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
21218454 TCCGTATAAT
21218464 TTAATATATATATATATA
1 TTAATATAT-TATATATA
*
21218482 TTATTATATTAT-TATA
1 TTAATATATTATATATA
*
21218498 TTAATGTATTA
1 TTAATATATTA
21218509 AATAGAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 3 0.12
18 8 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAATATATTATATATA
Found at i:21230494 original size:5 final size:5
Alignment explanation
Indices: 21230486--21230518 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
21230476 TTCTTTTATT
21230486 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTT
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTT
21230519 TTTCTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTCC
Found at i:21232607 original size:18 final size:18
Alignment explanation
Indices: 21232584--21232620 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21232574 AAATTAGGGC
21232584 GGTGGTGATGATGGAGGT
1 GGTGGTGATGATGGAGGT
* *
21232602 GGTGGTGGTGGTGGAGGT
1 GGTGGTGATGATGGAGGT
21232620 G
1 G
21232621 ATGATCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.62, T:0.27
Consensus pattern (18 bp):
GGTGGTGATGATGGAGGT
Found at i:21233921 original size:2 final size:2
Alignment explanation
Indices: 21233914--21233986 Score: 114
Period size: 2 Copynumber: 37.5 Consensus size: 2
21233904 GAAACATTAC
* *
21233914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TT TN TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21233954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21233987 TTAGTTTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21235796 original size:2 final size:2
Alignment explanation
Indices: 21235789--21235815 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21235779 AGACTTTATC
21235789 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21235816 AATTAGTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21236752 original size:4 final size:4
Alignment explanation
Indices: 21236743--21236768 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21236733 GTATGTGTGG
21236743 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
21236769 GTGTTTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:21237584 original size:2 final size:2
Alignment explanation
Indices: 21237577--21237685 Score: 88
Period size: 2 Copynumber: 57.0 Consensus size: 2
21237567 TACGCTCATC
*
21237577 AT AT AT AT AT AT AC A- AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** * * * *
21237617 AT AT AT CC AT -T CT TT CT -T A- ANT CAT AT AT AT AT AT AC A- AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T -AT AT AT AT AT AT AT AT AT
21237657 A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21237686 CCATTCTTTC
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
1 7 0.08
2 81 0.90
3 1 0.01
4 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21237674 original size:63 final size:62
Alignment explanation
Indices: 21237574--21237700 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 62
21237564 TTTTACGCTC
21237574 ATCATATATATATATACAATAATATATATATATATATATATATATATATCCATTCTTTCTTA
1 ATCATATATATATATACAATAATATATATATATATATATATATATATATCCATTCTTTCTTA
21237636 ANTCATATATATATATACAATAATATATATATATATATATATATATATATCCATTCTTTCTTA
1 A-TCATATATATATATACAATAATATATATATATATATATATATATATATCCATTCTTTCTTA
21237699 AT
1 AT
21237701 TATTCCAACA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 2 0.03
63 62 0.97
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.46
Consensus pattern (62 bp):
ATCATATATATATATACAATAATATATATATATATATATATATATATATCCATTCTTTCTTA
Found at i:21239504 original size:28 final size:28
Alignment explanation
Indices: 21239471--21239544 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
21239461 CAATAACTTA
*
21239471 AACAACATTACAAAGTTTACAACAAGAC
1 AACAACATTACAAAGTTTACAACAAAAC
*
21239499 AACAACATTATAAAGTTTACAACAAAAC
1 AACAACATTACAAAGTTTACAACAAAAC
*
21239527 AGCAACATTAC-AAGTTTA
1 AACAACATTACAAAGTTTA
21239545 AATAACTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 7 0.17
28 35 0.83
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.22
Consensus pattern (28 bp):
AACAACATTACAAAGTTTACAACAAAAC
Found at i:21244161 original size:3 final size:3
Alignment explanation
Indices: 21244155--21244179 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21244145 TGGGTTGTTA
21244155 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
21244180 AGGAATGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:21246813 original size:22 final size:22
Alignment explanation
Indices: 21246788--21246837 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
21246778 AATTAACAAG
21246788 TTAAATGTTTAGATTT-ATTT-TT
1 TTAAAT-TTT-GATTTAATTTATT
21246810 TTAAAATTTTGATTTAATTTATT
1 TT-AAATTTTGATTTAATTTATT
21246833 TTAAA
1 TTAAA
21246838 AAGAAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.20
22 12 0.48
23 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (22 bp):
TTAAATTTTGATTTAATTTATT
Found at i:21246834 original size:23 final size:23
Alignment explanation
Indices: 21246790--21246838 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
21246780 TTAACAAGTT
21246790 AAATGTTTAGATTTATTTTTTTA
1 AAATGTTTAGATTTATTTTTTTA
21246813 AAAT-TTT-GATTTAATTTATTTTA
1 AAATGTTTAGATTT-ATTT-TTTTA
21246836 AAA
1 AAA
21246839 AGAAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.21
22 7 0.29
23 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
AAATGTTTAGATTTATTTTTTTA
Found at i:21252559 original size:18 final size:18
Alignment explanation
Indices: 21252536--21252571 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21252526 ATCTATTAAA
21252536 GAATGTAGACATAGAAAT
1 GAATGTAGACATAGAAAT
21252554 GAATGTAGACATAGAAAT
1 GAATGTAGACATAGAAAT
21252572 AATTGGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (18 bp):
GAATGTAGACATAGAAAT
Found at i:21254610 original size:23 final size:24
Alignment explanation
Indices: 21254566--21254615 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
21254556 CTTTTCTTTC
21254566 TTTAGTTGTTTTTTCAACTTAT-T
1 TTTAGTTGTTTTTTCAACTTATAT
* *
21254589 TTTATTTGTTCTTTT-AAGTTATAT
1 TTTAGTTGTT-TTTTCAACTTATAT
21254613 TTT
1 TTT
21254616 CATAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.68
Consensus pattern (24 bp):
TTTAGTTGTTTTTTCAACTTATAT
Found at i:21258230 original size:31 final size:29
Alignment explanation
Indices: 21258195--21258252 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
21258185 CCAACAATCC
*
21258195 AAAGACACCAACAGACAACTAA-AAAAAAAGA
1 AAAGACA-AAACAGA-AA-TAAGAAAAAAAGA
21258226 AAAGACAAAACAGAAATAAGAAAAAAA
1 AAAGACAAAACAGAAATAAGAAAAAAA
21258253 CAAATCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 9 0.36
30 6 0.24
31 7 0.28
ACGTcount: A:0.72, C:0.14, G:0.10, T:0.03
Consensus pattern (29 bp):
AAAGACAAAACAGAAATAAGAAAAAAAGA
Found at i:21260060 original size:32 final size:31
Alignment explanation
Indices: 21260024--21260091 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 31
21260014 CACTATAAAA
* * * * *
21260024 AATACTTTTTAAGGCTCAAGCATAACCTTTAC
1 AATACCTTTCAAGGATCAAGCACAACCTCT-C
21260056 AATACCTTTCAAGGATCAAGCACAACCTCTC
1 AATACCTTTCAAGGATCAAGCACAACCTCTC
21260087 AATAC
1 AATAC
21260092 AATGCCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 6 0.19
32 25 0.81
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (31 bp):
AATACCTTTCAAGGATCAAGCACAACCTCTC
Found at i:21260745 original size:21 final size:21
Alignment explanation
Indices: 21260721--21260770 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
21260711 TGCAATGGAG
*
21260721 GTTTAAAA-CTAATTTAAACAA
1 GTTTAAAAGCT-ATTCAAACAA
21260742 GTTTAAAAGCTATTCAAACAA
1 GTTTAAAAGCTATTCAAACAA
*
21260763 GTTCAAAA
1 GTTTAAAA
21260771 ATCATTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (21 bp):
GTTTAAAAGCTATTCAAACAA
Found at i:21260913 original size:117 final size:118
Alignment explanation
Indices: 21260725--21260963 Score: 288
Period size: 117 Copynumber: 2.0 Consensus size: 118
21260715 ATGGAGGTTT
* * *
21260725 AAAACTAATTTAAACAAGTTTAAAAGCTATTCAAACAAGTTCAAAAATCATTAAAGCAATTTTCA
1 AAAACTAATTTAAACAAGTTTAAAAACTATTCAAACAACTTCAAAAATCATTAAAGCAATGTTCA
* *
21260790 AAATCATTCAAATAATTTTGA-AACTTTTCACATGGAAACATTTAAGCACTTC
66 AAATCATTCAAACAATTTTGATAACTTTTCACATGGAAACACTTAAGCACTTC
* * * *
21260842 AAAACTTATTTTAAA-AAGTTTAAAAACTATTCAAACAACTTTAAAAATTATTCAAA-TAA-GTT
1 AAAAC-TAATTTAAACAAGTTTAAAAACTATTCAAACAACTTCAAAAATCATT-AAAGCAATGTT
* * * * * *
21260904 CAAAGATCATTTAAGCAGTTTTGATTATTTTTCACATGGAAACACTTATGCACTTC
64 CAAA-ATCATTCAAACAATTTTGATAACTTTTCACATGGAAACACTTAAGCACTTC
21260960 AAAA
1 AAAA
21260964 GCAAATGTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
116 6 0.06
117 55 0.53
118 42 0.41
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (118 bp):
AAAACTAATTTAAACAAGTTTAAAAACTATTCAAACAACTTCAAAAATCATTAAAGCAATGTTCA
AAATCATTCAAACAATTTTGATAACTTTTCACATGGAAACACTTAAGCACTTC
Found at i:21261047 original size:21 final size:21
Alignment explanation
Indices: 21260998--21261048 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
21260988 TTAATAAATT
21260998 AAGTTCAAAAACATTTTCAAAC
1 AAGTTCAAAAACA-TTTCAAAC
*
21261020 AACTTCAAAAATCA-TTCAAAC
1 AAGTTCAAAAA-CATTTCAAAC
*
21261041 ATGTTCAA
1 AAGTTCAA
21261049 GGATCACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 10 0.40
23 2 0.08
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (21 bp):
AAGTTCAAAAACATTTCAAAC
Found at i:21261054 original size:21 final size:21
Alignment explanation
Indices: 21261023--21261077 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
21261013 TTCAAACAAC
* *
21261023 TTCAAAAATCATTCAA-ACATG
1 TTCAAAGATCATTCAAGA-AAG
* *
21261044 TTCAAGGATCACTCAAGAAAG
1 TTCAAAGATCATTCAAGAAAG
21261065 TTCAAAGATCATT
1 TTCAAAGATCATT
21261078 GAAGCAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (21 bp):
TTCAAAGATCATTCAAGAAAG
Found at i:21263538 original size:2 final size:2
Alignment explanation
Indices: 21263531--21263556 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21263521 TGAAAAATAC
21263531 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21263557 GCTAGGGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21270838 original size:16 final size:16
Alignment explanation
Indices: 21270797--21270842 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
21270787 AAAACTTGCC
21270797 TTTTCTC-TCTC-CTG
1 TTTTCTCTTCTCTCTG
**
21270811 TGCTCTCTTTCTCTCTG
1 TTTTCTC-TTCTCTCTG
21270828 TTTTCTCTTCTCTCT
1 TTTTCTCTTCTCTCT
21270843 AAAACCCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.20
16 12 0.48
17 8 0.32
ACGTcount: A:0.00, C:0.35, G:0.07, T:0.59
Consensus pattern (16 bp):
TTTTCTCTTCTCTCTG
Found at i:21277878 original size:2 final size:2
Alignment explanation
Indices: 21277873--21277906 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
21277863 TTATTTTTTG
* *
21277873 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21277907 GCACGGCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21279968 original size:19 final size:20
Alignment explanation
Indices: 21279941--21279978 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21279931 TAGATTTAAG
21279941 AAAAATAG-AGGTCAAAATC
1 AAAAATAGAAGGTCAAAATC
* *
21279960 AAAATTAGAATGTCAAAAT
1 AAAAATAGAAGGTCAAAAT
21279979 TAATATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (20 bp):
AAAAATAGAAGGTCAAAATC
Found at i:21296273 original size:23 final size:23
Alignment explanation
Indices: 21296223--21296283 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
21296213 ACTGAATAAT
** *
21296223 GAATATGTGACACGATATGCTGG
1 GAATATGTGACACGGCATGCTGA
*
21296246 GAATATGTGACACGGCATGGTGA
1 GAATATGTGACACGGCATGCTGA
* *
21296269 TAATATGTGAGACGG
1 GAATATGTGACACGG
21296284 GTGTGACACG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.25
Consensus pattern (23 bp):
GAATATGTGACACGGCATGCTGA
Found at i:21296466 original size:80 final size:80
Alignment explanation
Indices: 21296361--21296515 Score: 249
Period size: 80 Copynumber: 1.9 Consensus size: 80
21296351 AATGTGATAG
*
21296361 GGGTGTGACACGGCAAGGTTCAGAGTGTGTGACACTCCATGGTCAGACGTGTGACAAGAGA-AGG
1 GGGTGTGACACGGCAAGGTTCAGAGTGTGTGACACGCCATGGTCAGACGTGTGACAAGAGAGA-G
21296425 TTATAATGTGTAACAC
65 TTATAATGTGTAACAC
* * * *
21296441 GGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTGTGACATGAGAGAGT
1 GGGTGTGACACGGCAAGGTTCAGAGTGTGTGACACGCCATGGTCAGACGTGTGACAAGAGAGAGT
21296506 TATAATGTGT
66 TATAATGTGT
21296516 GAAACAGCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
80 68 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.35, T:0.25
Consensus pattern (80 bp):
GGGTGTGACACGGCAAGGTTCAGAGTGTGTGACACGCCATGGTCAGACGTGTGACAAGAGAGAGT
TATAATGTGTAACAC
Found at i:21296918 original size:207 final size:205
Alignment explanation
Indices: 21296427--21297019 Score: 647
Period size: 207 Copynumber: 2.9 Consensus size: 205
21296417 AGAGAAGGTT
* * *
21296427 ATAATGTGTAACACGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTG
1 ATAATGTGTGACACGGGTGTGACACGATAGGGTTTAGAGTGTGTGACACGCCATGGTCAAACGTG
* * * *
21296492 TGACATGAG-AGAGTTATAATGTGTGAAACAGCACAGTGATAAATGTTTGACACGGGTGTGACAC
66 TGACACG-GCAGGGTCATAATGTGTGAAACAGCACAGTGAT-AATGTGTGACACGGGTGTGACAC
* * * *** * *
21296556 AGCAAGGTTTAGAGTATGTGACACACCATGGAGGGAATC-TATGACACTGCAGGATGATAGAGTG
129 AGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAA-CGTGTGACA-TG-AGGATCATAGAGTG
*
21296620 TGAGACGACACAGTG
191 TGAAACGACACAGTG
* * * * * *
21296635 AGAATATGTGACACGGGTGTAACACGACAGCGTTTAGAGTGTGAGACACGCCATGGTCAGAACGT
1 ATAATGTGTGACACGGGTGTGACACGATAGGGTTTAGAGTGTGTGACACGCCATGGTCA-AACGT
* * ** *
21296700 GTGAAACGGCAGGGTCATAATGTGTGAAACAACACAGTGATAATGTGTGACACAAGTGTCACACA
65 GTGACACGGCAGGGTCATAATGTGTGAAACAGCACAGTGATAATGTGTGACACGGGTGTGACACA
* *
21296765 GTAGGGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGTGTGACATGAGAAGGTCATA-ATGTGT
130 GCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGTGTGACATGAG--GATCATAGA-GTGT
*
21296828 GAAACGGCACAGTG
192 GAAACGACACAGTG
* * * *
21296842 ATAATGTTTGACACAGGTGTGACACTATAGGGTTTAGAGTGTGTGACACGCCATGGATGAAATC-
1 ATAATGTGTGACACGGGTGTGACACGATAGGGTTTAGAGTGTGTGACACGCCATGG-TCAAA-CG
* * * * * * * *
21296906 TGCGACACGGCAGGGTGATAATGTGTGAGACGGCATAGTGAGAATATGTGAGACGGGTGTGACAC
64 TGTGACACGGCAGGGTCATAATGTGTGAAACAGCACAGTGATAATGTGTGACACGGGTGTGACAC
* * *
21296971 GGCAGCGTTTAGAATGTGTGACACGCCATGGTCAGAACGTGTGACATGA
129 AGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGTGTGACATGA
21297020 CAGGGNAGAG
Statistics
Matches: 319, Mismatches: 57, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
205 2 0.01
206 4 0.01
207 160 0.50
208 115 0.36
209 38 0.12
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (205 bp):
ATAATGTGTGACACGGGTGTGACACGATAGGGTTTAGAGTGTGTGACACGCCATGGTCAAACGTG
TGACACGGCAGGGTCATAATGTGTGAAACAGCACAGTGATAATGTGTGACACGGGTGTGACACAG
CAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGTGTGACATGAGGATCATAGAGTGTGAAA
CGACACAGTG
Found at i:21296996 original size:311 final size:312
Alignment explanation
Indices: 21296427--21297014 Score: 896
Period size: 311 Copynumber: 1.9 Consensus size: 312
21296417 AGAGAAGGTT
** * *
21296427 ATAATGTGTAACACGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTG
1 ATAATGTGTAACACAAGTGTCACACAGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTG
* *
21296492 TGACATGAGAGAGTTATAATGTGTGAAACAGCACAGTGATAAATGTTTGACACGGGTGTGACACA
66 TGACATGAGAGAGTCATAATGTGTGAAACAGCACAGTGATAAATGTTTGACACAGGTGTGACACA
* * *
21296557 GCAAGGTTTAGAGTATGTGACACACCATGGAGGGAATCTATGACACTGCAGGATGATAGAGTGTG
131 GCAAGGTTTAGAGTATGTGACACACCATGGAGGAAATCTACGACACGGCAGGATGATAGAGTGTG
*
21296622 AGACGACACAGTGAGAATATGTGACACGGGTGTAACACGACAGCGTTTAGAGTGTGAGACACGCC
196 AGACGACACAGTGAGAATATGTGACACGGGTGTAACACGACAGCGTTTAGAATGTGAGACACGCC
21296687 ATGGTCAGAACGTGTGAAACGGCAGGGTCATAATGTGTGAAACAACACAGTG
261 ATGGTCAGAACGTGTGAAACGGCAGGGTCATAATGTGTGAAACAACACAGTG
*
21296739 ATAATGTGTGACACAAGTGTCACACAGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTG
1 ATAATGTGTAACACAAGTGTCACACAGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTG
*
21296804 TGACATGAGA-AGGTCATAATGTGTGAAACGGCACAGTGAT-AATGTTTGACACAGGTGTGACAC
66 TGACATGAGAGA-GTCATAATGTGTGAAACAGCACAGTGATAAATGTTTGACACAGGTGTGACAC
* * * * * * *
21296867 TA-TAGGGTTTAGAGTGTGTGACACGCCATGGATGAAATCTGCGACACGGCAGGGTGATA-ATGT
130 -AGCAAGGTTTAGAGTATGTGACACACCATGGAGGAAATCTACGACACGGCAGGATGATAGA-GT
* * * * * *
21296930 GTGAGACGGCATAGTGAGAATATGTGAGACGGGTGTGACACGGCAGCGTTTAGAATGTGTGACAC
193 GTGAGACGACACAGTGAGAATATGTGACACGGGTGTAACACGACAGCGTTTAGAATGTGAGACAC
21296995 GCCATGGTCAGAACGTGTGA
258 GCCATGGTCAGAACGTGTGA
21297015 CATGACAGGG
Statistics
Matches: 248, Mismatches: 25, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
310 1 0.00
311 150 0.60
312 97 0.39
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (312 bp):
ATAATGTGTAACACAAGTGTCACACAGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAGACGTG
TGACATGAGAGAGTCATAATGTGTGAAACAGCACAGTGATAAATGTTTGACACAGGTGTGACACA
GCAAGGTTTAGAGTATGTGACACACCATGGAGGAAATCTACGACACGGCAGGATGATAGAGTGTG
AGACGACACAGTGAGAATATGTGACACGGGTGTAACACGACAGCGTTTAGAATGTGAGACACGCC
ATGGTCAGAACGTGTGAAACGGCAGGGTCATAATGTGTGAAACAACACAGTG
Found at i:21297012 original size:23 final size:23
Alignment explanation
Indices: 21296981--21297061 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
21296971 GGCAGCGTTT
*
21296981 AGAATGTGTGACACGCCATGGTC
1 AGAACGTGTGACACGCCATGGTC
* * **
21297004 AGAACGTGTGACATGACA-GGGN
1 AGAACGTGTGACACGCCATGGTC
**
21297026 AGAGTGTGTGACACGCCATGGTC
1 AGAACGTGTGACACGCCATGGTC
*
21297049 AAAACGTGTGACA
1 AGAACGTGTGACA
21297062 GGGCAGGGTC
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
22 16 0.37
23 27 0.63
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (23 bp):
AGAACGTGTGACACGCCATGGTC
Found at i:21297024 original size:104 final size:104
Alignment explanation
Indices: 21296427--21297024 Score: 591
Period size: 104 Copynumber: 5.8 Consensus size: 104
21296417 AGAGAAGGTT
* * *
21296427 ATAATGTGTAACACGGGTGTGACACGGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGT
1 ATAATATGTGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGT
* * * *
21296491 GTGACATGAGAGAGTTATAATGTGTGAAACAGCACAGTG
66 GTGACATGACAGGGTCATAATGTGTGAAACGGCACAGTG
* * * * ***
21296530 ATAA-ATGTTTGACACGGGTGTGACACAGCAAGGTTTAGAGTATGTGACACACCATGGAGGGAAT
1 ATAATATG--TGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAA-
* * * * *
21296594 C-TATGACACTG-CAGGATGATAGA-GTGTGAGACGACACAGTG
63 CGTGTGACA-TGACAGGGTCATA-ATGTGTGAAACGGCACAGTG
* * * * *
21296635 AGAATATGTGACACGGGTGTAACACGACAGCGTTTAGAGTGTGAGACACGCCATGGTCAGAACGT
1 ATAATATGTGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGT
* * * **
21296700 GTGAAACGGCAGGGTCATAATGTGTGAAACAACACAGTG
66 GTGACATGACAGGGTCATAATGTGTGAAACGGCACAGTG
* ** * * *
21296739 ATAATGTGTGACACAAGTGTCACACAGTAGGGTTTAGAGTGTGTGACACGCCATGGTCAG-ACGT
1 ATAATATGTGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGT
* *
21296803 GTGACATGAGAAGGTCATAATGTGTGAAACGGCACAGTG
66 GTGACATGACAGGGTCATAATGTGTGAAACGGCACAGTG
* * * *** *
21296842 ATAATGTTTGACACAGGTGTGACACTATAGGGTTTAGAGTGTGTGACACGCCATGGATGA-AATC
1 ATAATATGTGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGG-TCAGAA-C
* * * * * *
21296906 -TGCGACACGGCAGGGTGATAATGTGTGAGACGGCATAGTG
64 GTGTGACATGACAGGGTCATAATGTGTGAAACGGCACAGTG
* * * *
21296946 AGAATATGTGAGACGGGTGTGACACGGCAGCGTTTAGAATGTGTGACACGCCATGGTCAGAACGT
1 ATAATATGTGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGT
21297011 GTGACATGACAGGG
66 GTGACATGACAGGG
21297025 NAGAGTGTGT
Statistics
Matches: 398, Mismatches: 82, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
102 2 0.01
103 97 0.24
104 260 0.65
105 32 0.08
106 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.22
Consensus pattern (104 bp):
ATAATATGTGACACGGGTGTGACACGGCAGGGTTTAGAGTGTGTGACACGCCATGGTCAGAACGT
GTGACATGACAGGGTCATAATGTGTGAAACGGCACAGTG
Found at i:21297071 original size:23 final size:23
Alignment explanation
Indices: 21296986--21297082 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 23
21296976 CGTTTAGAAT
* *
21296986 GTGTGACACGCCATGGTCAGAAC
1 GTGTGACACGCCAGGGTCAAAAC
* * * * **
21297009 GTGTGACATGACAGGG-NAGAGT
1 GTGTGACACGCCAGGGTCAAAAC
*
21297031 GTGTGACACGCCATGGTCAAAAC
1 GTGTGACACGCCAGGGTCAAAAC
* * * *
21297054 GTGTGACAGGGCAGGGTCATAAT
1 GTGTGACACGCCAGGGTCAAAAC
21297077 GTGTGA
1 GTGTGA
21297083 AACTACACAG
Statistics
Matches: 55, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
22 16 0.29
23 39 0.71
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (23 bp):
GTGTGACACGCCAGGGTCAAAAC
Found at i:21297167 original size:242 final size:243
Alignment explanation
Indices: 21296774--21297258 Score: 636
Period size: 242 Copynumber: 2.0 Consensus size: 243
21296764 AGTAGGGTTT
* *
21296774 AGAGTGTGTGACACGCCATGGTCAGACGTGTGACATGAGAAGGTCATAATGTGTGAAACGGCACA
1 AGAGTGTGTGACACGCCATGGTCAAACGTGTGACATGAGAAGGTCATAATGTGTGAAACGACACA
* *
21296839 GTGATAATGTTTGACACAGGTGTGACACTATAGGGTTTAGAGTGTGTGACACGCCATGGATGAAA
66 GTGATAATGTTTGACAC------GACAC--TAGGGTTTAGAATGTGTGACACGCCATGGAGGAAA
* * * *
21296904 TCTGCGACACGGCAGGGTGATAATGTGTGAGACGGCATAGTGAGAATATGTGAGACGGGTGTGAC
123 TCCGCGACACGGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAATATGTGAGACAGGTGTGAA
* * *
21296969 ACGGCAGCGTTTAGAATGTGTGACACGCCATGGTCAGAACGTGTGACATGACAGGG
188 ACGACAGCGCTTAGAATGTGGGACACGCCATGGTCAGAACGTGTGACATGACAGGG
* * *
21297025 NAGAGTGTGTGACACGCCATGGTCAAAACGTGTGACA-GGGCAGGGTCATAATGTGTGAAACTAC
1 -AGAGTGTGTGACACGCCATGGTC-AAACGTGTGACATGAG-AAGGTCATAATGTGTGAAACGAC
* * *
21297089 ACAGTGATAATGTTTGACAC-A-AC-AGGGTTTAGAATGTGTGACACGCTATGGAGGGAATCCGT
63 ACAGTGATAATGTTTGACACGACACTAGGGTTTAGAATGTGTGACACGCCATGGAGGAAATCCGC
* * * *
21297151 GACACGGTAGGGTGATAATGTGTGAGGCGGCACGGTGAGAATATGTGGGACAGGTGTGAAACGAC
128 GACACGGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAATATGTGAGACAGGTGTGAAACGAC
* *
21297216 AGCGCTTAGAGTGTGGGACATGCCATGGTCAGAACGTGTGACA
193 AGCGCTTAGAATGTGGGACACGCCATGGTCAGAACGTGTGACA
21297259 CGGCATGGCT
Statistics
Matches: 208, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
242 129 0.62
245 2 0.01
246 1 0.00
252 25 0.12
253 51 0.25
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.22
Consensus pattern (243 bp):
AGAGTGTGTGACACGCCATGGTCAAACGTGTGACATGAGAAGGTCATAATGTGTGAAACGACACA
GTGATAATGTTTGACACGACACTAGGGTTTAGAATGTGTGACACGCCATGGAGGAAATCCGCGAC
ACGGCAGGGTGATAATGTGTGAGACGGCACAGTGAGAATATGTGAGACAGGTGTGAAACGACAGC
GCTTAGAATGTGGGACACGCCATGGTCAGAACGTGTGACATGACAGGG
Found at i:21297288 original size:23 final size:23
Alignment explanation
Indices: 21297247--21297312 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
21297237 GCCATGGTCA
* *
21297247 GAACGTGTGACACGGCATGGCTT
1 GAACATGTGACACGCCATGGCTT
* * *
21297270 GAACATGTGGCATGCCATGGGTT
1 GAACATGTGACACGCCATGGCTT
* *
21297293 TAATATGTGACACGCCATGG
1 GAACATGTGACACGCCATGG
21297313 TGTGAAAGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (23 bp):
GAACATGTGACACGCCATGGCTT
Found at i:21297832 original size:55 final size:55
Alignment explanation
Indices: 21297748--21297959 Score: 253
Period size: 55 Copynumber: 3.9 Consensus size: 55
21297738 CGTCTGCATA
*
21297748 TGGCGTGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCATGTCACGGCTGTTCT
1 TGGCGTGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCT
* *
21297803 TGGCGTGTTGTGAGTTAACTAGTTTTTTGGGTTTTTAGCGTATCACGGCTGTTCT
1 TGGCGTGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCT
** * * * * * * *
21297858 TGGCGTGTCATGGGTTAATTGGATTTATGGGTTTTTGGTGTGTCACGGCTGTTCC
1 TGGCGTGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCT
* * **** *
21297913 TAGCGTGTTGTGGGTTAACTGGTCACATGGGTTTTTGGCGTGTCACG
1 TGGCGTGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCGTGTCACG
21297960 ACAGTGATGC
Statistics
Matches: 134, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 134 1.00
ACGTcount: A:0.12, C:0.13, G:0.33, T:0.42
Consensus pattern (55 bp):
TGGCGTGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCT
Found at i:21297975 original size:23 final size:23
Alignment explanation
Indices: 21297948--21298031 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
21297938 CATGGGTTTT
*
21297948 TGGCGTGTCACGACAGTGATGCA
1 TGGCGTGTCACGACACTGATGCA
21297971 TGGCGTGTCACGACACTGATGCA
1 TGGCGTGTCACGACACTGATGCA
* * *
21297994 TGGCTTGTCACAACACTAATGCA
1 TGGCGTGTCACGACACTGATGCA
21298017 TGGCGTGTCACGACA
1 TGGCGTGTCACGACA
21298032 TTTGACTTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (23 bp):
TGGCGTGTCACGACACTGATGCA
Found at i:21298055 original size:31 final size:31
Alignment explanation
Indices: 21298012--21298096 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
21298002 CACAACACTA
* *
21298012 ATGCATGGCGTGTCACGACATTTGACTTGAT
1 ATGCATGACGTGTCACAACATTTGACTTGAT
* *
21298043 ATGCATGACGTGTTACAACATTTTACTTGAT
1 ATGCATGACGTGTCACAACATTTGACTTGAT
* ** *
21298074 GTGCATGGTGTGTAACAACATTT
1 ATGCATGACGTGTCACAACATTT
21298097 ATTTCTTTCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (31 bp):
ATGCATGACGTGTCACAACATTTGACTTGAT
Found at i:21302213 original size:115 final size:115
Alignment explanation
Indices: 21302018--21302226 Score: 332
Period size: 115 Copynumber: 1.8 Consensus size: 115
21302008 GCCTGTCACA
* *
21302018 CCAAGTCTGCATGCACTTAGCGTGTCACCACAATTGGCCCTTGTCGTGTCACCCTCCAAGACTGG
1 CCAAGTCTGCATGCACTTAGCGTGTCACCACAATTGGCCCTTGTCGTATCACCCTCCAAGACTGC
* *
21302083 AAGAAGTCAACGTGTCACGTCATAAGTCTGAATTAACTCAGCGTGTCATG
66 AACAAGTCAACGTGTCACGCCATAAGTCTGAATTAACTCAGCGTGTCATG
*
21302133 CCAAGTCTGCATGCACTTAGTGTGTCACCACAATTGGTCCC-TGTCGTATCACCC-CACAAGACT
1 CCAAGTCTGCATGCACTTAGCGTGTCACCACAATTGG-CCCTTGTCGTATCACCCTC-CAAGACT
*
21302196 GCAACAAGTCAGCGTGTCACGCCATAAGTCT
64 GCAACAAGTCAACGTGTCACGCCATAAGTCT
21302227 ACATGCACTC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
114 1 0.01
115 82 0.95
116 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (115 bp):
CCAAGTCTGCATGCACTTAGCGTGTCACCACAATTGGCCCTTGTCGTATCACCCTCCAAGACTGC
AACAAGTCAACGTGTCACGCCATAAGTCTGAATTAACTCAGCGTGTCATG
Found at i:21303169 original size:31 final size:30
Alignment explanation
Indices: 21303134--21303323 Score: 110
Period size: 31 Copynumber: 6.4 Consensus size: 30
21303124 CTGCAAGAAG
*
21303134 TCAGCGTGTCACGCCATAAGTTTGCATTAAC
1 TCAGCGTGTCACGCCATAAGTCTGC-TTAAC
* * *
21303165 TCAGCATGTCACGTCATAAGTCTGCTTGCAC
1 TCAGCGTGTCACGCCATAAGTCTGCTT-AAC
*
21303196 TCAGCGTGTCA--CCACAA-T-TGGC----C
1 TCAGCGTGTCACGCCATAAGTCT-GCTTAAC
* * * * * ** *
21303219 CCTGC-TGTTCACCCCACAAGACTGCAAGAAG
1 TCAGCGTG-TCACGCCATAAGTCTGC-TTAAC
*
21303250 TCAGTGTGTCACGCCATAAGTCTGCATTAAC
1 TCAGCGTGTCACGCCATAAGTCTGC-TTAAC
*
21303281 TCAGCGTGTCACGCCATAAGTCTGCTTGCAC
1 TCAGCGTGTCACGCCATAAGTCTGCTT-AAC
*
21303312 TCAACGTGTCAC
1 TCAGCGTGTCAC
21303324 CACAATTGGC
Statistics
Matches: 122, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.02
23 7 0.06
25 6 0.05
26 2 0.02
27 2 0.02
28 3 0.02
29 4 0.03
30 4 0.03
31 90 0.74
32 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (30 bp):
TCAGCGTGTCACGCCATAAGTCTGCTTAAC
Found at i:21303410 original size:117 final size:117
Alignment explanation
Indices: 21303073--21303544 Score: 700
Period size: 117 Copynumber: 4.1 Consensus size: 117
21303063 AGTATTTGGA
* *
21303073 TGCACTCAGCGTGTCACCACAAATTGGCCCCTGTCATGTCACCCCACAAGACTGCAAGAAGTCAG
1 TGCACTCAACGTGTCACCAC-AATTGGCCCCTGTCGTGTCACCCCACAAGACTGCAAGAAGTCAG
* * *
21303138 CGTGTCACGCCATAAGTTTGCATTAACTCAGCATGTCACGTCATAAGTCTGCT
65 CGTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCCATAAGTCTGCT
*
21303191 TGCACTCAGCGTGTCACCACAATTGGCCCCTG-C-TGTTCACCCCACAAGACTGCAAGAAGTCAG
1 TGCACTCAACGTGTCACCACAATTGGCCCCTGTCGTG-TCACCCCACAAGACTGCAAGAAGTCAG
*
21303254 TGTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCCATAAGTCTGCT
65 CGTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCCATAAGTCTGCT
* * ** *
21303307 TGCACTCAACGTGTCACCACAATTGGCCCCTGTCGTGTTACCTCGTAAGACTGCAAGAAATCAGC
1 TGCACTCAACGTGTCACCACAATTGGCCCCTGTCGTGTCACCCCACAAGACTGCAAGAAGTCAGC
* * *
21303372 GTGTCACGCCATAAGTTTGCATTAACTCAACGTATCACGCCATAAGTCTGCT
66 GTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCCATAAGTCTGCT
* * * ** *
21303424 TGCATTTAACGTGTCACCAGAATTGGCCCCTACCGTGTCACCCCACAAGACTGCAACAAGTCAGC
1 TGCACTCAACGTGTCACCACAATTGGCCCCTGTCGTGTCACCCCACAAGACTGCAAGAAGTCAGC
*
21303489 GTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCC--AAGTCTGCA
66 GTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCCATAAGTCTGCT
21303539 TGCACT
1 TGCACT
21303545 TAGCGTAACA
Statistics
Matches: 321, Mismatches: 30, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
115 15 0.05
116 108 0.34
117 176 0.55
118 22 0.07
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (117 bp):
TGCACTCAACGTGTCACCACAATTGGCCCCTGTCGTGTCACCCCACAAGACTGCAAGAAGTCAGC
GTGTCACGCCATAAGTCTGCATTAACTCAGCGTGTCACGCCATAAGTCTGCT
Found at i:21303527 original size:31 final size:30
Alignment explanation
Indices: 21303457--21303539 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
21303447 TGGCCCCTAC
* * * *
21303457 CGTGTCACCCCACAAGACTGCAACAAGTCAG
1 CGTGTCACGCCA-AAGTCTGCATCAACTCAG
*
21303488 CGTGTCACGCCATAAGTCTGCATTAACTCAG
1 CGTGTCACGCCA-AAGTCTGCATCAACTCAG
21303519 CGTGTCACGCC-AAGTCTGCAT
1 CGTGTCACGCCAAAGTCTGCAT
21303540 GCACTTAGCG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.22
31 36 0.78
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (30 bp):
CGTGTCACGCCAAAGTCTGCATCAACTCAG
Found at i:21303549 original size:29 final size:30
Alignment explanation
Indices: 21303457--21303550 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
21303447 TGGCCCCTAC
* * ** *
21303457 CGTGTCACCCCACAAGACTGCAACAAGTCAG
1 CGTGTCACGCCA-AAGTCTGCATGAACTCAG
*
21303488 CGTGTCACGCCATAAGTCTGCATTAACTCAG
1 CGTGTCACGCCA-AAGTCTGCATGAACTCAG
* *
21303519 CGTGTCACGCC-AAGTCTGCATGCACTTAG
1 CGTGTCACGCCAAAGTCTGCATGAACTCAG
21303548 CGT
1 CGT
21303551 AACATCCACT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.33
31 36 0.67
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (30 bp):
CGTGTCACGCCAAAGTCTGCATGAACTCAG
Found at i:21304499 original size:15 final size:14
Alignment explanation
Indices: 21304456--21304503 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
21304446 ATATATTTTT
21304456 TAAATTA-AAAATA
1 TAAATTATAAAATA
* *
21304469 TAAATTCATGACATA
1 TAAATT-ATAAAATA
21304484 TAAATTATATAAATA
1 TAAATTATA-AAATA
21304499 TAAAT
1 TAAAT
21304504 AAAAGTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 19 0.68
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAATTATAAAATA
Found at i:21308266 original size:31 final size:31
Alignment explanation
Indices: 21308225--21308459 Score: 247
Period size: 31 Copynumber: 7.4 Consensus size: 31
21308215 TCATGTTGTT
21308225 ACACGCCATGCATATAACGTAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* * *
21308256 ACCCGCCATGCATATAACATAACATAAAATGTTGTA
1 ACACGCCATGC--AT---ATAACGTAAAATGTGGTA
* * *
21308292 ACACGCCATGCATGTAGCGTCAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
21308323 ACACGACATGCATATAACGTAAAATGTCGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* * *
21308354 ACATGCCATGCATTTAACGAAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* *
21308385 ACACGCCATGCATAGAACATAAAATGTGGTA
1 ACACGCCATGCATATAACGTAAAATGTGGTA
* * ** *
21308416 ACACACCATGCATATCAA-GTCAAATGTCATG
1 ACACGCCATGCATAT-AACGTAAAATGTGGTA
21308447 ACACGCCATGCAT
1 ACACGCCATGCAT
21308460 CAGTGTCGTT
Statistics
Matches: 166, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
31 134 0.81
32 2 0.01
33 2 0.01
34 2 0.01
36 26 0.16
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (31 bp):
ACACGCCATGCATATAACGTAAAATGTGGTA
Found at i:21308603 original size:28 final size:28
Alignment explanation
Indices: 21308528--21308604 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 28
21308518 ACACGGCCAA
21308528 AACCAATGTTGTAACACGCCATGCATAT
1 AACCAATGTTGTAACACGCCATGCATAT
**
21308556 ATCATTAAATGTTGTAACACGCCATGCATAT
1 A--A-CCAATGTTGTAACACGCCATGCATAT
* *
21308587 AACCAATGTCGTGACACG
1 AACCAATGTTGTAACACG
21308605 TTAAAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 13 0.32
29 1 0.03
30 1 0.03
31 25 0.62
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (28 bp):
AACCAATGTTGTAACACGCCATGCATAT
Found at i:21308997 original size:17 final size:17
Alignment explanation
Indices: 21308968--21309001 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21308958 ACAGTTGAGC
21308968 ATTTATTTTTATTTTTT
1 ATTTATTTTTATTTTTT
21308985 ATTT-TTTTCTATTTTTT
1 ATTTATTTT-TATTTTTT
21309002 CTCTGGTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
ATTTATTTTTATTTTTT
Found at i:21316079 original size:34 final size:34
Alignment explanation
Indices: 21316032--21316098 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 34
21316022 TAAGCATCAC
21316032 ATAATTTATTTTTTAGTAAAAAAATCAAACACTAT
1 ATAATTTATTTTTTAGTAAAAAAAT-AAACACTAT
21316067 ATAATTTATTTTTTAGTAAAAAAATAAACACT
1 ATAATTTATTTTTTAGTAAAAAAATAAACACT
21316099 GTGCCTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 7 0.22
35 25 0.78
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (34 bp):
ATAATTTATTTTTTAGTAAAAAAATAAACACTAT
Found at i:21332828 original size:21 final size:20
Alignment explanation
Indices: 21332796--21332849 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
21332786 TAACAATCTT
*
21332796 TAAAGTAAATTAAAGCAAAA
1 TAAAGTAAATTAAAACAAAA
*
21332816 TAAAGTAAAATTAAAATAAAA
1 TAAAGT-AAATTAAAACAAAA
**
21332837 TAACTTAAATTAA
1 TAAAGTAAATTAA
21332850 CTACTTAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (20 bp):
TAAAGTAAATTAAAACAAAA
Found at i:21332830 original size:11 final size:11
Alignment explanation
Indices: 21332795--21332837 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
21332785 ATAACAATCT
21332795 TTAAAGT-AAA
1 TTAAAGTAAAA
*
21332805 TTAAAGCAAAA
1 TTAAAGTAAAA
21332816 -TAAAGTAAAA
1 TTAAAGTAAAA
*
21332826 TTAAAATAAAA
1 TTAAAGTAAAA
21332837 T
1 T
21332838 AACTTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (11 bp):
TTAAAGTAAAA
Found at i:21341998 original size:2 final size:2
Alignment explanation
Indices: 21341991--21342044 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
21341981 AGGCAGCTTT
21341991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21342032 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
21342045 GTAGTACTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21345207 original size:90 final size:90
Alignment explanation
Indices: 21345031--21345204 Score: 257
Period size: 90 Copynumber: 2.0 Consensus size: 90
21345021 TTCATATCAT
* * *
21345031 AATAGATAAGAAAAATATTTAGCTTCAAAAATTTTTAAAATATTTAATGTGTTATATATTTAAAA
1 AATAGATAAGAAAAATATTTAGCATCAAAAATTTTTAAAATATTTAATATATTATATATTTAAAA
*
21345096 CATTAATTAATACTATCATTATGAG
66 AATTAATTAATACTATCATTATGAG
* *
21345121 AATATATAAGAAAAATATTTAGCAT-ATAAAATTTTTAAAATATTTTATATATTATATATTTAAA
1 AATAGATAAGAAAAATATTTAGCATCA-AAAATTTTTAAAATATTTAATATATTATATATTTAAA
21345185 AAATTAATT--TA-TATCATTAT
65 AAATTAATTAATACTATCATTAT
21345205 TATAAAAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
87 9 0.12
88 2 0.03
89 1 0.01
90 65 0.84
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (90 bp):
AATAGATAAGAAAAATATTTAGCATCAAAAATTTTTAAAATATTTAATATATTATATATTTAAAA
AATTAATTAATACTATCATTATGAG
Found at i:21350090 original size:2 final size:2
Alignment explanation
Indices: 21350085--21350137 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
21350075 AAAGCAATGC
21350085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21350127 AT AT AT AT AT A
1 AT AT AT AT AT A
21350138 NACGGTGCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21350683 original size:33 final size:33
Alignment explanation
Indices: 21350605--21350683 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
21350595 AAGGTAAAAA
* * * *
21350605 ATATC-ACATGTTATATTATTATCAATTATGAT
1 ATATCAACATATTATATCATCATCAATTATGAC
* *
21350637 ATGTCAACGTATTATATCATCATCAATTATGAC
1 ATATCAACATATTATATCATCATCAATTATGAC
*
21350670 ATATTAACATATTA
1 ATATCAACATATTA
21350684 CATGGCATAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (33 bp):
ATATCAACATATTATATCATCATCAATTATGAC
Found at i:21354064 original size:21 final size:22
Alignment explanation
Indices: 21354038--21354079 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
21354028 ATTTCGAATG
21354038 AATGTATAGATACAT-TGGGGT
1 AATGTATAGATACATATGGGGT
*
21354059 AATGTATTGATACATATGGGG
1 AATGTATAGATACATATGGGG
21354080 CAAAATAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (22 bp):
AATGTATAGATACATATGGGGT
Found at i:21359825 original size:2 final size:2
Alignment explanation
Indices: 21359818--21359849 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21359808 TGAGTAGAAG
21359818 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
21359850 GTTCAATGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21376110 original size:13 final size:13
Alignment explanation
Indices: 21376092--21376116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21376082 TTTCAGAAAA
21376092 TTTATAAAATCAT
1 TTTATAAAATCAT
21376105 TTTATAAAATCA
1 TTTATAAAATCA
21376117 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:21383621 original size:27 final size:27
Alignment explanation
Indices: 21383573--21383631 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
21383563 TGTTGAGTTG
* *
21383573 TTTTATTTTAGTTTTATGTTAAATTT-C
1 TTTTAGTTTAGTTTTATATT-AATTTAC
21383600 TTTTAGTTTAG-TTTAGTATTAATTTAC
1 TTTTAGTTTAGTTTTA-TATTAATTTAC
21383627 TTTTA
1 TTTTA
21383632 TGCTTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.64
Consensus pattern (27 bp):
TTTTAGTTTAGTTTTATATTAATTTAC
Found at i:21384105 original size:22 final size:23
Alignment explanation
Indices: 21384062--21384106 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
21384052 AATTTAGGTT
* *
21384062 TTTTAGAGGCTATTTAAAGGCAC
1 TTTTAGAGGCAATTGAAAGGCAC
21384085 TTTTAGA-GCAATTGAAAGGCAC
1 TTTTAGAGGCAATTGAAAGGCAC
21384107 AATTAAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (23 bp):
TTTTAGAGGCAATTGAAAGGCAC
Found at i:21388397 original size:24 final size:24
Alignment explanation
Indices: 21388360--21388408 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
21388350 AAAATGACCA
21388360 AAATACCCCTGTACGGTAGAAATT
1 AAATACCCCTGTACGGTAGAAATT
21388384 NAAATA-CCCTGTACGGTAGAAATT
1 -AAATACCCCTGTACGGTAGAAATT
21388408 A
1 A
21388409 CTTTTGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 18 0.75
25 5 0.21
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.24
Consensus pattern (24 bp):
AAATACCCCTGTACGGTAGAAATT
Found at i:21404144 original size:70 final size:68
Alignment explanation
Indices: 21404070--21404321 Score: 236
Period size: 65 Copynumber: 3.8 Consensus size: 68
21404060 ATGTTTTGTT
*
21404070 ATTATTATGGATGAGTTTAGGATCTTTGGCTAGTGTTTTTATGCTTTATTTAATTTCTCAATGTT
1 ATTATTATGGATGAGTTTAGGATCTTTGGCTAGTGTTTTTATACTTTATTT-ATTTCTCAATGTT
21404135 TAATG
65 T-ATG
* * * * * **
21404140 ATTATTATGGATGAGTTTAGGGTATTAGGCTATTGTTTTTGTA----ATTTATTTCTCTCTGTTT
1 ATTATTATGGATGAGTTTAGGATCTTTGGCTAGTGTTTTTATACTTTATTTATTTCTCAATG-TT
21404201 TATG
65 TATG
* * * * * * *
21404205 ATTATTATTGATAAGTTTAAGACCTTTGGATAGT-ATTTTATACTTTA-TT-TCTCT-ATAT-TT
1 ATTATTATGGATGAGTTTAGGATCTTTGGCTAGTGTTTTTATACTTTATTTATTTCTCA-ATGTT
21404265 TATG
65 TATG
21404269 ATTATTATGGATGAGTTTAAGG-TCTTTGGCTAGTGTTCTTTGATACTTTATTT
1 ATTATTATGGATGAGTTT-AGGATCTTTGGCTAGTGTT-TTT-ATACTTTATTT
21404322 CTCTATGTTT
Statistics
Matches: 143, Mismatches: 28, Indels: 24
0.73 0.14 0.12
Matches are distributed among these distances:
64 38 0.27
65 40 0.28
66 15 0.10
67 10 0.07
68 3 0.02
70 37 0.26
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.52
Consensus pattern (68 bp):
ATTATTATGGATGAGTTTAGGATCTTTGGCTAGTGTTTTTATACTTTATTTATTTCTCAATGTTT
ATG
Found at i:21404267 original size:64 final size:67
Alignment explanation
Indices: 21404184--21404327 Score: 195
Period size: 64 Copynumber: 2.2 Consensus size: 67
21404174 GTTTTTGTAA
* * *
21404184 TTTATTTCTCTCTGTTTTATGATTATTATTGATAAGTTTAAGACCTTTGGATAGT-AT-TTT-AT
1 TTTATTTCTCTATATTTTATGATTATTATGGATAAGTTTAAGACCTTTGGATAGTGATCTTTGAT
21404246 AC
66 AC
* ** * *
21404248 TTTATTTCTCTATATTTTATGATTATTATGGATGAGTTTAAGGTCTTTGGCTAGTGTTCTTTGAT
1 TTTATTTCTCTATATTTTATGATTATTATGGATAAGTTTAAGACCTTTGGATAGTGATCTTTGAT
21404313 AC
66 AC
21404315 TTTATTTCTCTAT
1 TTTATTTCTCTAT
21404328 GTTTAGGATT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 48 0.70
65 1 0.01
66 3 0.04
67 17 0.25
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.54
Consensus pattern (67 bp):
TTTATTTCTCTATATTTTATGATTATTATGGATAAGTTTAAGACCTTTGGATAGTGATCTTTGAT
AC
Found at i:21408682 original size:28 final size:28
Alignment explanation
Indices: 21408628--21408684 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
21408618 AGCTTCAACT
* * *
21408628 ATAACCATTGCCTTTTTAAGGATCAAGC
1 ATAACCATTGACTTTTCAAGAATCAAGC
21408656 ATAACCATTGACTTTTCAA-AATACAAGC
1 ATAACCATTGACTTTTCAAGAAT-CAAGC
21408684 A
1 A
21408685 CAACTGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (28 bp):
ATAACCATTGACTTTTCAAGAATCAAGC
Found at i:21410733 original size:25 final size:24
Alignment explanation
Indices: 21410705--21410761 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
21410695 TGGACTTCTC
21410705 CCATTTCTT-TTTAATTGCACCATGT
1 CCATTT-TTCTTT-ATTGCACCATGT
*
21410730 CCATTTTTCCTTTATTGGACCATGT
1 CCATTTTT-CTTTATTGCACCATGT
21410755 CCATTTT
1 CCATTTT
21410762 CCTTGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 2 0.07
25 24 0.83
26 3 0.10
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.49
Consensus pattern (24 bp):
CCATTTTTCTTTATTGCACCATGT
Found at i:21410784 original size:5 final size:5
Alignment explanation
Indices: 21410770--21410822 Score: 97
Period size: 5 Copynumber: 10.6 Consensus size: 5
21410760 TTCCTTGTTA
*
21410770 TTTTC TTTTC CTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
21410820 TTT
1 TTT
21410823 CTCTCCCACC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:21411036 original size:35 final size:35
Alignment explanation
Indices: 21410946--21411036 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 35
21410936 TTCAATTCAG
*
21410946 AAAATTTTAGTAGCTAAAGCTGCTCATTTTTGCTTC
1 AAAATTTCAGTAGCT-AAGCTGCTCATTTTTGCTTC
* * *
21410982 AAAA--TCAGTAGCTATGCTGCTC-TGTTTTTCTTT
1 AAAATTTCAGTAGCTAAGCTGCTCAT-TTTTGCTTC
*
21411015 AAAATTTCAGCAGCTAAGCTGC
1 AAAATTTCAGTAGCTAAGCTGC
21411037 ACCTTTACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 1 0.02
33 19 0.41
34 8 0.17
35 14 0.30
36 4 0.09
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (35 bp):
AAAATTTCAGTAGCTAAGCTGCTCATTTTTGCTTC
Found at i:21411165 original size:34 final size:35
Alignment explanation
Indices: 21411127--21411220 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
21411117 ACAAAATTTT
** * * *
21411127 GCACTTTTTGGCCTCCTAAACTAAC-AGAAAAATG
1 GCACTTTTCAGCCTCCAAAACCAACAAAAAAAATG
21411161 GCACTTTTCAGCCTCCAAAACCAACAAAAAAAATG
1 GCACTTTTCAGCCTCCAAAACCAACAAAAAAAATG
* *
21411196 GCTCTTTTCAACCTCCAAAACCAAC
1 GCACTTTTCAGCCTCCAAAACCAAC
21411221 CCTTAAATGG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
34 21 0.40
35 31 0.60
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (35 bp):
GCACTTTTCAGCCTCCAAAACCAACAAAAAAAATG
Found at i:21416465 original size:21 final size:21
Alignment explanation
Indices: 21416441--21416529 Score: 99
Period size: 21 Copynumber: 4.2 Consensus size: 21
21416431 TTTAAACAAG
21416441 TTTAAAAA-CTATTCAAATAAC
1 TTTAAAAATC-ATTCAAATAAC
21416462 TTTAAAAATCATTCAAATAAC
1 TTTAAAAATCATTCAAATAAC
* * *
21416483 TTCAAAAATCATTCAAACAAG
1 TTTAAAAATCATTCAAATAAC
* * * *
21416504 TTCAAAGATCATTCAAGTAAT
1 TTTAAAAATCATTCAAATAAC
21416525 TTTAA
1 TTTAA
21416530 TCATTTTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
21 58 0.98
22 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (21 bp):
TTTAAAAATCATTCAAATAAC
Found at i:21416678 original size:21 final size:21
Alignment explanation
Indices: 21416615--21416680 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
21416605 TCATAAACAT
*
21416615 ATTCAAAC-AGCTTCAAAAATC
1 ATTCAAACAAG-TTTAAAAATC
**
21416636 ATTCAAACAAGTTTAAGGATC
1 ATTCAAACAAGTTTAAAAATC
*
21416657 ATTCAAACAAGTTTAAATATC
1 ATTCAAACAAGTTTAAAAATC
21416678 ATT
1 ATT
21416681 GAAGCAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 37 0.95
22 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (21 bp):
ATTCAAACAAGTTTAAAAATC
Found at i:21417145 original size:2 final size:2
Alignment explanation
Indices: 21417140--21417167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21417130 TTAGTTCCTC
21417140 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21417168 TTGAATCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:21422653 original size:19 final size:19
Alignment explanation
Indices: 21422631--21422674 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
21422621 AAACCTCATG
21422631 GGAAAAAAATTCGAATGAA
1 GGAAAAAAATTCGAATGAA
21422650 GGAAAAAAATTCGAATGAA
1 GGAAAAAAATTCGAATGAA
21422669 GGAAAA
1 GGAAAA
21422675 GTAGTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.23, T:0.14
Consensus pattern (19 bp):
GGAAAAAAATTCGAATGAA
Found at i:21422844 original size:42 final size:42
Alignment explanation
Indices: 21422797--21422881 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
21422787 TTTACTTCTA
* *
21422797 TAGAGATCTTTACAATGATGCATTCCAATCTTTTATACCAAC
1 TAGAGATCTTTAAAATGATACATTCCAATCTTTTATACCAAC
*
21422839 TAGAGATCTTTAAAATGATACATTTCAATCTTTTATACCAAC
1 TAGAGATCTTTAAAATGATACATTCCAATCTTTTATACCAAC
21422881 T
1 T
21422882 TTTCAAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (42 bp):
TAGAGATCTTTAAAATGATACATTCCAATCTTTTATACCAAC
Found at i:21465279 original size:8 final size:8
Alignment explanation
Indices: 21465248--21465282 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
21465238 TGAATTTTAA
21465248 AAAAATA-
1 AAAAATAT
21465255 AAAAATAAT
1 AAAAAT-AT
21465264 AAAAATAT
1 AAAAATAT
21465272 AAAAATAT
1 AAAAATAT
21465280 AAA
1 AAA
21465283 GGAGACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.23
8 14 0.54
9 6 0.23
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAATAT
Found at i:21467090 original size:21 final size:21
Alignment explanation
Indices: 21467066--21467109 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
21467056 TAACCTATAG
* *
21467066 AAAGACTTAAGTGTGAAGGAA
1 AAAGACTTAAGTGAGAAGCAA
* *
21467087 AAAGATTTGAGTGAGAAGCAA
1 AAAGACTTAAGTGAGAAGCAA
21467108 AA
1 AA
21467110 GTAGATAGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.27, T:0.18
Consensus pattern (21 bp):
AAAGACTTAAGTGAGAAGCAA
Found at i:21469206 original size:22 final size:22
Alignment explanation
Indices: 21469181--21469233 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
21469171 GGGTCCTCGT
*
21469181 TGCAGCGAAAAGGCATTCTTAC
1 TGCAGCGAAAAGGAATTCTTAC
* * *
21469203 TGCAGCG-TAATGAATTTTTAC
1 TGCAGCGAAAAGGAATTCTTAC
21469224 TGCAGCGAAA
1 TGCAGCGAAA
21469234 TTTGGCTCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
TGCAGCGAAAAGGAATTCTTAC
Found at i:21471137 original size:30 final size:31
Alignment explanation
Indices: 21471103--21471166 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
21471093 GAATAAGTTG
21471103 AGGGGTGGAA-TTGTAAATAATG-AAAAG-TAA
1 AGGGGT-GAAGTTGT-AATAATGAAAAAGTTAA
*
21471133 AGGGGTGAAGTTGTAATTATGAAAAAGTTAA
1 AGGGGTGAAGTTGTAATAATGAAAAAGTTAA
21471164 AGG
1 AGG
21471167 ATCAAATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.30
30 15 0.50
31 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (31 bp):
AGGGGTGAAGTTGTAATAATGAAAAAGTTAA
Found at i:21473870 original size:25 final size:24
Alignment explanation
Indices: 21473789--21473880 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 24
21473779 GTCGCGACAG
*
21473789 GTTGTTACACGTGGCTAGGCCACA
1 GTTGTTATACGTGGCTAGGCCACA
* * *
21473813 GTCTATGATTATACGTAGCAAGGCCACCT
1 G--T-TG-TTATACGTGGCTAGGCCA-CA
*
21473842 GTTGTTAAACGTGGCTAGGCCACGA
1 GTTGTTATACGTGGCTAGGCCAC-A
*
21473867 GTTGATATACGTGG
1 GTTGTTATACGTGG
21473881 TTGTGACCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
24 2 0.04
25 27 0.52
26 3 0.06
27 3 0.06
28 15 0.29
29 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (24 bp):
GTTGTTATACGTGGCTAGGCCACA
Found at i:21481633 original size:25 final size:25
Alignment explanation
Indices: 21481580--21481638 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
21481570 GGTCTGTGAT
* **
21481580 TATACGTGGCAAGGCCACAGGTTGT
1 TATACGTGGCAAGGCCACAAGTTCA
* *
21481605 TATATGTGGCTAGGCCACAAGTTCA
1 TATACGTGGCAAGGCCACAAGTTCA
21481630 TATACGTGG
1 TATACGTGG
21481639 TTACGACCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (25 bp):
TATACGTGGCAAGGCCACAAGTTCA
Found at i:21485724 original size:10 final size:10
Alignment explanation
Indices: 21485690--21485724 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
21485680 ATACATAATT
*
21485690 AAAAATAAAG
1 AAAAATAAAA
*
21485700 AAAAATAATA
1 AAAAATAAAA
21485710 AAAAATAAAA
1 AAAAATAAAA
21485720 AAAAA
1 AAAAA
21485725 AATGCATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:21485724 original size:20 final size:20
Alignment explanation
Indices: 21485673--21485724 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
21485663 TCCCTATTAC
*
21485673 TAAAAAAATACATAATTAAAAA
1 TAAAAAAA-A-ATAATAAAAAA
*
21485695 TAAAGAAAAATAATAAAAAA
1 TAAAAAAAAATAATAAAAAA
21485715 TAAAAAAAAA
1 TAAAAAAAAA
21485725 AATGCATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 19 0.70
21 1 0.04
22 7 0.26
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
TAAAAAAAAATAATAAAAAA
Found at i:21493312 original size:24 final size:25
Alignment explanation
Indices: 21493259--21493312 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
21493249 TACTTGTTTT
* *
21493259 TATTTTATTTTATTTTATTTCATGC
1 TATTTTACTTTATTTTATTTAATGC
21493284 T-TTTTACTTTATTTCT-TTTAAT-C
1 TATTTTACTTTATTT-TATTTAATGC
21493307 TATTTT
1 TATTTT
21493313 TGTTTATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 21 0.84
25 2 0.08
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (25 bp):
TATTTTACTTTATTTTATTTAATGC
Found at i:21497446 original size:8 final size:8
Alignment explanation
Indices: 21497433--21497472 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
21497423 TGCTATAGCA
*
21497433 TTTCTTTC
1 TTTCTTTT
21497441 TTTCTTTT
1 TTTCTTTT
21497449 TTTCTTTT
1 TTTCTTTT
21497457 TTTCTTTT
1 TTTCTTTT
21497465 TTT-TTTT
1 TTTCTTTT
21497472 T
1 T
21497473 GGTCTTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:21497478 original size:16 final size:16
Alignment explanation
Indices: 21497433--21497478 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
21497423 TGCTATAGCA
21497433 TTTCTTTCTT-TCTTTT
1 TTTCTTT-TTGTCTTTT
*
21497449 TTTCTTTTTTTCTTTT
1 TTTCTTTTTGTCTTTT
21497465 TTT-TTTTTGGTCTT
1 TTTCTTTTT-GTCTT
21497479 CTCTTGGCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTGTCTTTT
Found at i:21499815 original size:20 final size:20
Alignment explanation
Indices: 21499770--21499807 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
21499760 TTTTGGCCCC
21499770 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
21499790 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
21499808 AGATTTGAGG
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:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:21501048 original size:13 final size:13
Alignment explanation
Indices: 21501030--21501054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21501020 AGAGAAATTG
21501030 TGATTTTATAAAA
1 TGATTTTATAAAA
21501043 TGATTTTATAAA
1 TGATTTTATAAA
21501055 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:21507363 original size:23 final size:23
Alignment explanation
Indices: 21507333--21507382 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
21507323 AAGAGACAGA
21507333 AAATCCGAGTCTAACAGTTATGC
1 AAATCCGAGTCTAACAGTTATGC
21507356 AAATCCGAGTCTAACAGTTATGC
1 AAATCCGAGTCTAACAGTTATGC
21507379 AAAT
1 AAAT
21507383 GTGCATGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (23 bp):
AAATCCGAGTCTAACAGTTATGC
Found at i:21512984 original size:27 final size:27
Alignment explanation
Indices: 21512954--21513011 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
21512944 GTAGTAATGG
* *
21512954 TTGTAGTAGTTGTGGATGTAGCAGTAA
1 TTGTAGTAGCTGTGGATGTAGCAGCAA
* * * *
21512981 TTGTGGTTGCTGTGGTTGTAGTAGCAA
1 TTGTAGTAGCTGTGGATGTAGCAGCAA
21513008 TTGT
1 TTGT
21513012 TGTTGTAGCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.05, G:0.34, T:0.41
Consensus pattern (27 bp):
TTGTAGTAGCTGTGGATGTAGCAGCAA
Found at i:21513016 original size:27 final size:27
Alignment explanation
Indices: 21512964--21513016 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
21512954 TTGTAGTAGT
*
21512964 TGTGGATGTAGCAGTAATTGTGGTTGC
1 TGTGGATGTAGCAGCAATTGTGGTTGC
* * *
21512991 TGTGGTTGTAGTAGCAATTGTTGTTG
1 TGTGGATGTAGCAGCAATTGTGGTTG
21513017 TAGCAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.36, T:0.42
Consensus pattern (27 bp):
TGTGGATGTAGCAGCAATTGTGGTTGC
Found at i:21514062 original size:28 final size:29
Alignment explanation
Indices: 21514021--21514080 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
21514011 GTCTATGGGC
* *
21514021 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
21514049 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
21514079 AA
1 AA
21514081 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:21518660 original size:1 final size:1
Alignment explanation
Indices: 21518654--21518683 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
21518644 TTTCAAAGGC
*
21518654 AAAAAAAAAAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21518684 GGAGAGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:21519015 original size:2 final size:2
Alignment explanation
Indices: 21519008--21519047 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
21518998 ATTTATACAT
21519008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
21519048 CACACAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21524489 original size:2 final size:2
Alignment explanation
Indices: 21524482--21524511 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21524472 CAGTCCTCAG
21524482 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21524512 ATTATACAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21525529 original size:20 final size:20
Alignment explanation
Indices: 21525501--21525573 Score: 121
Period size: 20 Copynumber: 3.6 Consensus size: 20
21525491 TTAAGATAAA
*
21525501 CGATGTGATCCTAACTATAT
1 CGATATGATCCTAACTATAT
21525521 CGATATGATCCTAACTATAT
1 CGATATGATCCTAACTATAT
21525541 CGATATGATCCTAAAC-ATAT
1 CGATATGATCCT-AACTATAT
21525561 CGATATGATCCTA
1 CGATATGATCCTA
21525574 TAGGGTTTCT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
19 1 0.02
20 47 0.92
21 3 0.06
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
CGATATGATCCTAACTATAT
Found at i:21527522 original size:23 final size:23
Alignment explanation
Indices: 21527491--21527536 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21527481 AAGTTCTTTG
*
21527491 TAGATTTTAAAATAATAAAATAA
1 TAGACTTTAAAATAATAAAATAA
21527514 TAGACTTTAAAATAATAAAATAA
1 TAGACTTTAAAATAATAAAATAA
21527537 AAATCAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (23 bp):
TAGACTTTAAAATAATAAAATAA
Found at i:21534205 original size:9 final size:9
Alignment explanation
Indices: 21534183--21534227 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
21534173 CATTTCTTCT
21534183 TTATTTTT-
1 TTATTTTTA
*
21534191 TAATTTTTA
1 TTATTTTTA
21534200 TTATTTTTA
1 TTATTTTTA
21534209 TTATTTTTAA
1 TTATTTTT-A
21534219 TTCATTTTT
1 TT-ATTTTT
21534228 TGTTTATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 7 0.22
9 16 0.50
10 3 0.09
11 6 0.19
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTTA
Found at i:21536141 original size:23 final size:23
Alignment explanation
Indices: 21536115--21536167 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
21536105 AAATTATATA
21536115 ATTTATATAAAAAATATAATTTT
1 ATTTATATAAAAAATATAATTTT
* * * * *
21536138 ATTTTTTTAAAATATTTATTTTT
1 ATTTATATAAAAAATATAATTTT
21536161 A-TTATAT
1 ATTTATAT
21536168 TTCTTTACGT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTATATAAAAAATATAATTTT
Found at i:21537190 original size:17 final size:17
Alignment explanation
Indices: 21537144--21537191 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21537134 TAGAAAATAA
* *
21537144 TTTCAATCATTATCCAT
1 TTTCAATTATTTTCCAT
*
21537161 TTTCAAATT-TTTTTCAT
1 TTTC-AATTATTTTCCAT
21537178 TTTCAATTATTTTC
1 TTTCAATTATTTTC
21537192 TACCATGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.16
17 18 0.72
18 3 0.12
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCAATTATTTTCCAT
Found at i:21541418 original size:17 final size:16
Alignment explanation
Indices: 21541396--21541438 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
21541386 TTGATGGAGA
21541396 ACCAAATCACGCACAAC
1 ACCAAATCACGCA-AAC
*
21541413 ACCAAAGCACGCAAAC
1 ACCAAATCACGCAAAC
*
21541429 AACAAATCAC
1 ACCAAATCAC
21541439 ACTCAGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.51, C:0.37, G:0.07, T:0.05
Consensus pattern (16 bp):
ACCAAATCACGCAAAC
Found at i:21549985 original size:29 final size:29
Alignment explanation
Indices: 21549943--21549998 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
21549933 TTTGACCTAA
*
21549943 AATAAAAGTATAAGGGCTTAATTGAATGT
1 AATAAAAGAATAAGGGCTTAATTGAATGT
* *
21549972 AATAAAAGAATAAGGGTTTATTTGAAT
1 AATAAAAGAATAAGGGCTTAATTGAAT
21549999 TTTTTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (29 bp):
AATAAAAGAATAAGGGCTTAATTGAATGT
Found at i:21550393 original size:22 final size:21
Alignment explanation
Indices: 21550364--21550429 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
21550354 AGACATTTAC
21550364 TATATATATAATATATAATATA
1 TATATATATAATATA-AATATA
* * *
21550386 TATTTATAT-ATAAAAAAATA
1 TATATATATAATATAAATATA
*
21550406 TATATATATAACATAAACTATA
1 TATATATATAATATAAA-TATA
21550428 TA
1 TA
21550430 CTTACGAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 13 0.37
21 9 0.26
22 13 0.37
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATATATAATATAAATATA
Found at i:21550398 original size:24 final size:22
Alignment explanation
Indices: 21550364--21550415 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
21550354 AGACATTTAC
*
21550364 TATATATATAATATATAATATATA
1 TATATATATAA-A-AAAATATATA
*
21550388 TTTATATATAAAAAAATATATA
1 TATATATATAAAAAAATATATA
21550410 TATATA
1 TATATA
21550416 ACATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 1 0.04
24 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATATATAAAAAAATATATA
Found at i:21550429 original size:2 final size:2
Alignment explanation
Indices: 21550364--21550415 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
21550354 AGACATTTAC
* * * *
21550364 TA TA TA TA TA -A TA TA TA -A TA TA TA TT TA TA TA TA AA AA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21550404 TA TA TA TA TA TA
1 TA TA TA TA TA TA
21550416 ACATAAACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:21550570 original size:31 final size:31
Alignment explanation
Indices: 21550532--21550593 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21550522 TTGGCACGTT
21550532 TTTCTTTTATACTATACAATATAGCAATCTA
1 TTTCTTTTATACTATACAATATAGCAATCTA
21550563 TTTCTTTTATACTATACAATATAGCAATCTA
1 TTTCTTTTATACTATACAATATAGCAATCTA
21550594 CCATTTGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTCTTTTATACTATACAATATAGCAATCTA
Found at i:21552371 original size:28 final size:30
Alignment explanation
Indices: 21552303--21552373 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 30
21552293 ATCATTAATT
*
21552303 ATAAGAGTTTATTTGACTTAAAATAAAAATA
1 ATAAGAGTTTA-TTGACATAAAATAAAAATA
* * *
21552334 A-AAAAATTTATTGA-ATATAATAAAAA-A
1 ATAAGAGTTTATTGACATAAAATAAAAATA
21552361 ATAAGAGTTTATT
1 ATAAGAGTTTATT
21552374 TGTATTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
27 2 0.06
28 19 0.58
29 4 0.12
30 7 0.21
31 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.35
Consensus pattern (30 bp):
ATAAGAGTTTATTGACATAAAATAAAAATA
Found at i:21554775 original size:102 final size:103
Alignment explanation
Indices: 21554524--21554777 Score: 296
Period size: 102 Copynumber: 2.5 Consensus size: 103
21554514 ATTAGATGCT
*
21554524 TGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTAAATATCTATTAAGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACTAAATATCTATTAAGCG
* ** * * *
21554589 TTGCGTGACAGTTACTACGTGACTGAATATTAACTGAC
66 TTACGTGACAGGCACTACATGAATGAATATTAACTAAC
* * * * * *
21554627 TGAATATTTGTTGAGCATTGCGTTAGTTTTTTATAGGTATTACGTGACTGAATATTTGTT-AGCG
1 TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACTAAATATCTATTAAGCG
** *
21554691 TTACGTGACAGGCGTTACATGAATTAATATT-ACGTAAC
66 TTACGTGACAGGCACTACATGAATGAATATTAAC-TAAC
* ** * *
21554729 TGAATATTTGTTGAGTATTGCGTGACCTATTTGTAGGCATTGCGTGACT
1 TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACT
21554778 TTAGCTACCT
Statistics
Matches: 127, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
101 2 0.02
102 71 0.56
103 54 0.43
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (103 bp):
TGAATATTTGTTGAGCATTGCGTGAGTTATTTATAGGCATTACGTGACTAAATATCTATTAAGCG
TTACGTGACAGGCACTACATGAATGAATATTAACTAAC
Found at i:21555342 original size:30 final size:30
Alignment explanation
Indices: 21555306--21555366 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
21555296 GGAGGTGCCT
* *
21555306 TTGAGTGTGAGGGATCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACAAATTC
21555336 TTGAGTGTGAGGGACCAGTTGCACAAATTC
1 TTGAGTGTGAGGGACCAGTTGCACAAATTC
21555366 T
1 T
21555367 AGTAGGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAGTTGCACAAATTC
Done.