Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 98 of 196
Found at i:29023146 original size:33 final size:31
Alignment explanation
Indices: 29023092--29023160 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 31
29023082 CAATTCAATA
29023092 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
1 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
*
29023123 ACAGTCTCAGTGTCAG-TGTGGCCTTATCCCATT
1 ACAGT-TCAGT-TCAGTTG-GGCCTTAGCCCATT
29023156 ACAGT
1 ACAGT
29023161 GACAGTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.15
32 7 0.21
33 22 0.65
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (31 bp):
ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
Found at i:29026354 original size:24 final size:24
Alignment explanation
Indices: 29026318--29026363 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
29026308 GTAATTTTAA
*
29026318 AAAATATATAATTATA-CCAATATT
1 AAAATATAAAATT-TACCCAATATT
*
29026342 AAAATTTAAAATTTACCCAATA
1 AAAATATAAAATTTACCCAATA
29026364 GTCAAAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATATAAAATTTACCCAATATT
Found at i:29041622 original size:25 final size:24
Alignment explanation
Indices: 29041584--29041650 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
29041574 CTATGATCGA
*
29041584 TAAGCTCATTTCGAGCTGAAGAACGG
1 TAAGCTCATATCGAGCTG-A-AACGG
*
29041610 TAAGCTC-TATCGAGTTGAAACGG
1 TAAGCTCATATCGAGCTGAAACGG
*
29041633 TAAGCTCATA-AGAGCTGA
1 TAAGCTCATATCGAGCTGA
29041651 TATATTGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 18 0.50
24 3 0.08
25 8 0.22
26 7 0.19
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (24 bp):
TAAGCTCATATCGAGCTGAAACGG
Found at i:29046784 original size:40 final size:40
Alignment explanation
Indices: 29046723--29046969 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
29046713 CGGAATTTAG
* * * *
29046723 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
29046763 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
29046803 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
29046843 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
29046883 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
29046923 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
29046963 CCGGATA
1 CCGGATA
29046970 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:29051895 original size:37 final size:37
Alignment explanation
Indices: 29051845--29051923 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
29051835 TTATTACGAA
* *
29051845 GTCTTACCCGGACATAA-TCTCCACACG-AAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGTAA-TCATCGG
*
29051882 GTCTTACCTGGACAAAATTCCCACACGTAATCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
29051919 GTCTT
1 GTCTT
29051924 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGTAATCATCGG
Found at i:29052159 original size:47 final size:47
Alignment explanation
Indices: 29052042--29052408 Score: 565
Period size: 47 Copynumber: 7.7 Consensus size: 47
29052032 CCCTTCGGGA
* * * * * * *
29052042 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
29052089 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29052135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29052182 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29052229 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29052276 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29052323 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29052372 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
29052409 ATATATACAC
Statistics
Matches: 300, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
46 37 0.12
47 188 0.63
49 75 0.25
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29052410 original size:76 final size:74
Alignment explanation
Indices: 29052326--29052482 Score: 296
Period size: 76 Copynumber: 2.1 Consensus size: 74
29052316 ATTAGGCCTT
29052326 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA
29052391 CTTTCACATTC
64 CTTTCACATTC
29052402 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
29052467 TTCACATTC
66 TTCACATTC
29052476 ATCACAT
1 ATCACAT
29052483 CGGCCATTAG
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
74 27 0.33
76 54 0.67
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (74 bp):
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTC
Found at i:29052413 original size:27 final size:27
Alignment explanation
Indices: 29052375--29052435 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
29052365 ATTAGGCCTT
29052375 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
29052402 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
29052429 ATCACAT
1 ATCACAT
29052436 CGGCCATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (27 bp):
ATCACATATATATACACTTTCACATTC
Found at i:29052425 original size:172 final size:171
Alignment explanation
Indices: 29052237--29052546 Score: 577
Period size: 172 Copynumber: 1.8 Consensus size: 171
29052227 GCCTTATTAC
*
29052237 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACAT
29052302 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT-CACATCGGCCA
66 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATGCACATCGGCCA
29052366 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
129 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
*
29052409 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACAT
29052474 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATGCACATCGGCCATT
66 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATGCACATCGGCCATT
29052539 AGGCCTTA
131 AGGCCTTA
29052547 CTATCATTTC
Statistics
Matches: 135, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
170 22 0.16
171 21 0.16
172 92 0.68
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (171 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATGCACATCGGCCATT
AGGCCTTATCACATATATATACACTTTCACATTCATCACAT
Found at i:29052467 original size:47 final size:47
Alignment explanation
Indices: 29052409--29052546 Score: 267
Period size: 47 Copynumber: 2.9 Consensus size: 47
29052399 TTCATCACAT
29052409 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
29052456 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
29052503 ATATATACACTTTCACATTCATGCACATCGGCCATTAGGCCTTA
1 ATATATACACTTTCACATTCAT-CACATCGGCCATTAGGCCTTA
29052547 CTATCATTTC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
47 69 0.77
48 21 0.23
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:29059569 original size:40 final size:40
Alignment explanation
Indices: 29059508--29059754 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
29059498 CGGAATTTAG
* * * *
29059508 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
29059548 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
29059588 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
29059628 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
29059668 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
29059708 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
29059748 CCGGATA
1 CCGGATA
29059755 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:29069075 original size:16 final size:15
Alignment explanation
Indices: 29069050--29069083 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29069040 AACGTTGATA
*
29069050 ATAATTAATATATATT
1 ATAATAAATATA-ATT
29069066 ATAATAAATATAATT
1 ATAATAAATATAATT
29069081 ATA
1 ATA
29069084 TACTAGGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:29088349 original size:33 final size:34
Alignment explanation
Indices: 29088307--29088436 Score: 111
Period size: 33 Copynumber: 3.7 Consensus size: 34
29088297 GTGAAAGGGC
29088307 TTGCTAAGTGCTGATTCC-CCAAATTACTGGTGG
1 TTGCTAAGTGCTGATTCCACCAAATTACTGGTGG
* ** * *
29088340 TTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAGGGG
1 TTGCTAAGTGCTGATTCCACC--AAATT--A-CTG--GTGG
* *
29088381 TTGCTAAGTGCTGATTCC-CCGAATCACTGGTGG
1 TTGCTAAGTGCTGATTCCACCAAATTACTGGTGG
*
29088414 TTGCTAAGTGCTGAATCCACCAA
1 TTGCTAAGTGCTGATTCCACCAA
29088437 TAACGGATAA
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
33 37 0.50
34 5 0.07
35 2 0.03
36 4 0.05
38 2 0.03
39 2 0.03
40 2 0.03
41 20 0.27
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (34 bp):
TTGCTAAGTGCTGATTCCACCAAATTACTGGTGG
Found at i:29088434 original size:74 final size:73
Alignment explanation
Indices: 29088157--29088427 Score: 345
Period size: 74 Copynumber: 3.7 Consensus size: 73
29088147 GAATACGAAG
* * *
29088157 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGGTGCTAAGTGCTGATTCCACCGTATCCT
1 GGGGTTGCTAAGTGCTGATTCCCCAA-TCACTGGTGGTTGCTAAGTGCTGATCCCACCGTAT-CT
* * *
29088222 TGAATATAAAA
64 TAAATGT-GAA
* * *
29088233 GGGGGTTGCTAAGTGTTGATTCCCC---CA-AGG-GGTTGCTAAGTGCTGATCCCACCGTATTTT
1 -GGGGTTGCTAAGTGCTGATTCCCCAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
29088293 AAATGTGAAA
65 AAATGTG-AA
* *
29088303 GGGCTTGCTAAGTGCTGATTCCCCAAATTACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCC-AATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
29088368 AAATGTGAA
65 AAATGTGAA
29088377 GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
1 GGGGTTGCTAAGTGCTGATTCCCC-AATCACTGGTGGTTGCTAAGTGCTGA
29088428 ATCCACCAAT
Statistics
Matches: 171, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
69 22 0.13
70 8 0.05
71 25 0.15
72 2 0.01
73 3 0.02
74 52 0.30
75 36 0.21
77 23 0.13
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (73 bp):
GGGGTTGCTAAGTGCTGATTCCCCAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
AATGTGAA
Found at i:29095109 original size:33 final size:33
Alignment explanation
Indices: 29095040--29095286 Score: 185
Period size: 33 Copynumber: 7.5 Consensus size: 33
29095030 ATACGAAGGG
*
29095040 GGTTGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
29095067 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
29095100 GGTTGCTAAGTGTTGATTCCACCGTATCCTTTAATATAAATGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--C--T--CAT---TGGT
* *
29095144 GGATGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
29095171 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * * * *
29095204 GGTTGTTAAGTGCTGATTCCTCGAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
29095237 GGTTGCTAAGTGCTGATTCCCCGAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
29095270 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
29095287 CCCACCGTAT
Statistics
Matches: 180, Mismatches: 17, Indels: 40
0.76 0.07 0.17
Matches are distributed among these distances:
27 35 0.19
28 8 0.04
30 2 0.01
31 4 0.02
32 5 0.03
33 95 0.53
34 3 0.02
35 1 0.01
37 2 0.01
39 1 0.01
41 2 0.01
42 2 0.01
43 1 0.01
44 19 0.11
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:29103195 original size:21 final size:22
Alignment explanation
Indices: 29103163--29103223 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
29103153 TATGAAATAT
29103163 GAAAATAAATATATAAAAAT-TCA
1 GAAAA-AAATATATAAAAATCT-A
* *
29103186 G-AAAACATATGTATAAAATCTA
1 GAAAAAAATATATA-AAAATCTA
29103208 GAAAAAAATATATAAA
1 GAAAAAAATATATAAA
29103224 TTATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 7 0.23
22 12 0.39
23 12 0.39
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
GAAAAAAATATATAAAAATCTA
Found at i:29103622 original size:15 final size:15
Alignment explanation
Indices: 29103602--29103630 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29103592 GTCAATGATC
29103602 AGTCAACAACTAGTT
1 AGTCAACAACTAGTT
29103617 AGTCAACAACTAGT
1 AGTCAACAACTAGT
29103631 CAAAGTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
AGTCAACAACTAGTT
Found at i:29103671 original size:21 final size:21
Alignment explanation
Indices: 29103647--29103699 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
29103637 CAATAGTATT
29103647 TTTTAATATTTAAATATTTAA
1 TTTTAATATTTAAATATTTAA
***
29103668 TTTT-ATAATTTTTTTATTTAA
1 TTTTAAT-ATTTAAATATTTAA
*
29103689 ATTTAATATTT
1 TTTTAATATTT
29103700 TTATTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATATTTAAATATTTAA
Found at i:29103700 original size:21 final size:21
Alignment explanation
Indices: 29103661--29103701 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29103651 AATATTTAAA
*
29103661 TATTTAATTTTATAATTTTTT
1 TATTTAATTTAATAATTTTTT
29103682 TATTTAAATTTAAT-ATTTTT
1 TATTT-AATTTAATAATTTTT
29103702 ATTTTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTAATTTAATAATTTTTT
Found at i:29123975 original size:61 final size:61
Alignment explanation
Indices: 29123901--29124040 Score: 147
Period size: 61 Copynumber: 2.3 Consensus size: 61
29123891 ATCAGTTTGA
* * * * ** * *
29123901 TCCTAAATATAAAAAGTTCAACAAATTTAGCTCTTAA-AGTTTACAAAATTTGTCATTTTAG
1 TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATA-TTTACAAAATTAATAAATTTAG
* * * * *
29123962 TTCTAATTCTAAAAAATTCAATAAATTTGGCCCTCAATATTTACAAAATTAATAAATTTAG
1 TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATATTTACAAAATTAATAAATTTAG
29124023 TCCTAACTCTAAAAAGTT
1 TCCTAACTCTAAAAAGTT
29124041 AAAAATATTT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
61 62 0.98
62 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.37
Consensus pattern (61 bp):
TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATATTTACAAAATTAATAAATTTAG
Found at i:29127634 original size:45 final size:45
Alignment explanation
Indices: 29127570--29127662 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
29127560 ACAGATACTT
* * * *
29127570 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
*
29127615 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTTC
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
29127660 GGT
1 GGT
29127663 TCACATAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
Found at i:29127726 original size:51 final size:50
Alignment explanation
Indices: 29127659--29127854 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 50
29127649 CAATCATGTT
* * * *
29127659 CGGTTCACATAGTAGCCTACACATAGTACTAGACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
29127710 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
** ** * *
29127761 CGGTATGCATAGTAGCCTGCACATAGTACTACACTTGCGACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
** **
29127811 TAGTACATGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
29127855 CACTTTCACT
Statistics
Matches: 113, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 35 0.31
51 74 0.65
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:29127842 original size:101 final size:101
Alignment explanation
Indices: 29127666--29127850 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
29127656 GTTCGGTTCA
* * *
29127666 CATAGTAGCCTACACATAGTACTAGACATGTGACCATTACCATCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCAGTACACGTAGTAGCCTGCA
29127731 CATAGTACTACACACGTGATCGAAACTATTCGGTATG
65 CATAGTACTACACACGTGATCGAAACTATTCGGTATG
* * * * *
29127768 CATAGTAGCCTGCACATAGTACTACACTTGCGACC-TATCATTCTAGTACATGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCAGTACACGTAGTAGCCTGCA
29127832 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
29127851 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.53
102 31 0.42
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCAGTACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATTCGGTATG
Found at i:29127873 original size:101 final size:101
Alignment explanation
Indices: 29127665--29127884 Score: 248
Period size: 101 Copynumber: 2.2 Consensus size: 101
29127655 TGTTCGGTTC
* * *
29127665 ACATAGTAGCCTACACATAGTACTAGACATGTGACCATTACCATCCGGTACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCAGTACACGTAGTAGCCTGC
* *
29127730 ACATAGTACTACACACGTGATCGAAACTATTCGGTAT
65 ACATAGTACTACACACGTGATCCAAACTATTCCGTAT
* * * * * *
29127767 GCATAGTAGCCTGCACATAGTACTACACTTGCGACC-TATCATTCTAGTACATGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCAGTACACGTAGTAGCCTGC
* * *
29127831 ACATAGTACTACACACGTGA-CCATCACT-TTCACTTTT
65 ACATAGTACTACACACGTGATCCA-AACTATTC-CGTAT
*
29127868 ACATAGTGGCCTACACA
1 ACATAGTAGCCTACACA
29127885 CAATCCGTGC
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
100 9 0.09
101 58 0.59
102 31 0.32
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
ACATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCAGTACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCCAAACTATTCCGTAT
Found at i:29136813 original size:16 final size:16
Alignment explanation
Indices: 29136792--29136827 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29136782 AGTTTCAAAA
29136792 AAAAATAAAAAAAATC
1 AAAAATAAAAAAAATC
* *
29136808 AAAAATCAAAAAAATG
1 AAAAATAAAAAAAATC
29136824 AAAA
1 AAAA
29136828 TGAAAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAATAAAAAAAATC
Found at i:29137769 original size:48 final size:47
Alignment explanation
Indices: 29137698--29137788 Score: 110
Period size: 48 Copynumber: 1.9 Consensus size: 47
29137688 AAGGAGAGGG
** *
29137698 GACCAAGGTGAAAACCCGTAAAGGACGCTTTGATTCCTAAAAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCC-AAAAAAAAAA
* * * *
29137746 GACCAATGTGAAAACTCACAAAGGGCGTTTTGAGTCCAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCCAAAAAA
29137789 TAATAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 6 0.17
48 30 0.83
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.18
Consensus pattern (47 bp):
GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCCAAAAAAAAAA
Found at i:29140149 original size:45 final size:45
Alignment explanation
Indices: 29139108--29140127 Score: 1425
Period size: 45 Copynumber: 22.7 Consensus size: 45
29139098 TTGAAAACAA
* ** *
29139108 CAGATCTTGTCTTCTTGTATTGGCAATGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
29139153 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
29139198 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
29139243 AAGATCTTGTCTTCCTATATTGGCAACGAAATAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
29139288 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
29139333 CAGACCTTGTCTTCCTGTATTGGCAGCGAAGAAGATCGAAGTTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
29139378 CAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** *
29139423 CAGATCTTGTCTTCCTATATTGGCAATGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
**
29139468 CAGATCTTGTCTT-CTAGTATTGGCAGTAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATCGAAGATAG
*
29139513 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * * *
29139558 CAAATCTTGCCTTCCTATATTGGCAGCAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
29139603 CAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
29139648 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGAAGATCGTAGTTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
29139693 CAAATCTTGTC-TCCTTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCC-TGTATTGGCAGCGAAGTAGATCGAAGATAG
**
29139738 CAGATCTTGTCTTCCTGTATTGATAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
** * *
29139783 CAGATCTTGTCTTCCTGTA-TGTTAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
29139827 CATATCTTGTCTTCCTATACTAGCAGCGAAGTAGATCGAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
29139872 CAGATCTTGTATTCCTATATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
29139917 TAGATCTTGTCTTTCTGTATTAGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
29139962 CAGATCTTGTCTTCCTGTATTGGCAACGAAGGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
29140007 CAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
29140052 TAGATTTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAATATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
29140097 CAGATCTTGTCTTCCTGTATTGGCAGCGAAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAG
29140128 CAAATTGAAT
Statistics
Matches: 869, Mismatches: 101, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
44 44 0.05
45 820 0.94
46 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:29149335 original size:138 final size:138
Alignment explanation
Indices: 29149082--29149363 Score: 546
Period size: 138 Copynumber: 2.0 Consensus size: 138
29149072 GAATTTCTCT
29149082 AAACATTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAA
1 AAAC-TTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAA
29149147 TTTGAGAAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGT
65 TTTGAGAAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGT
29149212 ATTGAATGA
130 ATTGAATGA
29149221 AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
1 AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
*
29149286 TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGTA
66 TTGAGAAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGTA
29149351 TTGAATGA
131 TTGAATGA
29149359 AAACT
1 AAACT
29149364 GAACACCAGG
Statistics
Matches: 142, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
138 138 0.97
139 4 0.03
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (138 bp):
AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
TTGAGAAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGTA
TTGAATGA
Found at i:29151383 original size:20 final size:20
Alignment explanation
Indices: 29151358--29151395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29151348 ACCCCCTTTA
29151358 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
29151378 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
29151396 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:29157753 original size:7 final size:7
Alignment explanation
Indices: 29157743--29157778 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
29157733 GAGTTGAGAG
29157743 GGATGAT
1 GGATGAT
29157750 GGATGAT
1 GGATGAT
29157757 GGATGAT
1 GGATGAT
29157764 GGATGAT
1 GGATGAT
29157771 GGATGAT
1 GGATGAT
29157778 G
1 G
29157779 AGAAATGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (7 bp):
GGATGAT
Found at i:29159608 original size:16 final size:16
Alignment explanation
Indices: 29159584--29159618 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
29159574 CAAGCCATAA
*
29159584 GGTTGAATAAAATGCT
1 GGTTAAATAAAATGCT
*
29159600 GGTTAAATAAAATGTT
1 GGTTAAATAAAATGCT
29159616 GGT
1 GGT
29159619 GTTGCGACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (16 bp):
GGTTAAATAAAATGCT
Found at i:29161745 original size:68 final size:69
Alignment explanation
Indices: 29161630--29161757 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 69
29161620 ACTTAACCAC
* *
29161630 TTTAATATTAAATTAATATAATATTTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
29161695 TCAA
66 TCAA
* *
29161699 TTTAATATTAAATTAATAAAATA-CTATTAAGATAAATATTAAATTAAATTTAATATTAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAA
29161758 ACTATTAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
68 33 0.60
69 22 0.40
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (69 bp):
TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
TCAA
Found at i:29161762 original size:37 final size:36
Alignment explanation
Indices: 29161700--29161775 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
29161690 GATAATCAAT
*
29161700 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAAT-AATA
*
29161737 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
29161773 TTA
1 TTA
29161776 TTTCTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:29171357 original size:20 final size:22
Alignment explanation
Indices: 29171330--29171385 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
29171320 CCTAATCAGT
*
29171330 ATACGACACATAAGTGCCT-GA
1 ATACGACACATAAGTGCCTAAA
*
29171351 A-ACGACACACGAAGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
29171373 ATACGACACATAA
1 ATACGACACATAA
29171386 AGTGTCTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 8 0.28
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:29171748 original size:26 final size:25
Alignment explanation
Indices: 29171717--29171766 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
29171707 TAGTTCAATA
29171717 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
29171743 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
29171767 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:29172040 original size:22 final size:22
Alignment explanation
Indices: 29172012--29172056 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29172002 CTCGTGTCTA
29172012 CTCCTCGTCCACTTTTTCTTTT
1 CTCCTCGTCCACTTTTTCTTTT
29172034 CTCCTCGTCCACTTTTTCTTTT
1 CTCCTCGTCCACTTTTTCTTTT
29172056 C
1 C
29172057 CTTTCTTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.38, G:0.04, T:0.53
Consensus pattern (22 bp):
CTCCTCGTCCACTTTTTCTTTT
Found at i:29188263 original size:119 final size:120
Alignment explanation
Indices: 29188081--29188303 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
29188071 TCCTCGTTCA
*
29188081 AATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
29188146 TTTGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATGGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
29188201 AATGCCTTC-GGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
29188263 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
29188304 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 68 0.76
120 17 0.19
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:29188303 original size:40 final size:40
Alignment explanation
Indices: 29188079--29188303 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
29188069 GCTCCTCGTT
* * *
29188079 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
29188119 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29188159 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29188199 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
29188238 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29188279 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29188304 CATCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 116 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29195797 original size:40 final size:40
Alignment explanation
Indices: 29195723--29195946 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
29195713 GCTCCTCGTT
*
29195723 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
29195762 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
29195802 CAAATGCCTTCGGGACTTAACCCTGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
29195842 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
29195881 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29195922 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29195947 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 42 0.26
40 103 0.64
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29195807 original size:79 final size:79
Alignment explanation
Indices: 29195723--29195946 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
29195713 GCTCCTCGTT
* *
29195723 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* *
29195788 TTTTGTAACTCGCA
66 ATTAGTAACTCGCA
* * *
29195802 CAAATGCCTTCGGGACTTAACCCTGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTC-GGACTTAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
29195865 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * *
29195881 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
29195945 GA
64 GA
29195947 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 5 0.04
79 63 0.51
80 52 0.42
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:29195936 original size:119 final size:119
Alignment explanation
Indices: 29195725--29195939 Score: 292
Period size: 119 Copynumber: 1.8 Consensus size: 119
29195715 TCCTCGTTCA
* *
29195725 AATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
* *
29195790 TTGTAACTCGCACAAATGCCTTCGGGACTTAACCCTGATTTAGTAACTCGCACC
66 TGGTAACTAGCACAAATGCCTTCGGGACTTAACCCTGATTTAGTAACTCGCACC
* * * **
29195844 AATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
*
29195907 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
64 TATGGTAAC-TAGCACAAATGCCTTCGGGACTTA
29195940 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 4 0.05
119 71 0.86
120 8 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (119 bp):
AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
TGGTAACTAGCACAAATGCCTTCGGGACTTAACCCTGATTTAGTAACTCGCACC
Found at i:29198170 original size:16 final size:16
Alignment explanation
Indices: 29198145--29198181 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
29198135 ATCACGATCT
*
29198145 TTACTTTCTTCTTTAC
1 TTACTCTCTTCTTTAC
*
29198161 TTACTCTCTTGTTTAC
1 TTACTCTCTTCTTTAC
29198177 TTACT
1 TTACT
29198182 TGCTTACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.03, T:0.59
Consensus pattern (16 bp):
TTACTCTCTTCTTTAC
Found at i:29200242 original size:11 final size:11
Alignment explanation
Indices: 29200219--29200247 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
29200209 TGAAGATGGT
29200219 TGTTTTG-GCA
1 TGTTTTGAGCA
29200229 TGTTTTGAGCA
1 TGTTTTGAGCA
29200240 TGTTTTGA
1 TGTTTTGA
29200248 ATAGGTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (11 bp):
TGTTTTGAGCA
Found at i:29200557 original size:21 final size:21
Alignment explanation
Indices: 29200521--29200563 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
29200511 GGTGTGTGAA
29200521 ATAGCACACAAGCATGT-AAG
1 ATAGCACACAAGCATGTCAAG
29200541 ATAGTCACAC-AGCCATGTCAAG
1 ATAG-CACACAAG-CATGTCAAG
29200563 A
1 A
29200564 GCCACACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (21 bp):
ATAGCACACAAGCATGTCAAG
Found at i:29206788 original size:17 final size:17
Alignment explanation
Indices: 29206766--29206798 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29206756 ACATATATGG
*
29206766 ATTGAATCCCAAAATTT
1 ATTGAAACCCAAAATTT
29206783 ATTGAAACCCAAAATT
1 ATTGAAACCCAAAATT
29206799 AACAAATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (17 bp):
ATTGAAACCCAAAATTT
Found at i:29208303 original size:24 final size:24
Alignment explanation
Indices: 29208274--29208328 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
29208264 GGATAGGAAA
* *
29208274 GAAAAAAATAAGTTAGGGATTTAGG
1 GAAAAAACTAAGCTAGGGATTT-GG
29208299 GAAAAAACTAAGCTAGGGATTTGG
1 GAAAAAACTAAGCTAGGGATTTGG
*
29208323 GTAAAA
1 GAAAAA
29208329 TGATTTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (24 bp):
GAAAAAACTAAGCTAGGGATTTGG
Found at i:29221270 original size:19 final size:19
Alignment explanation
Indices: 29221246--29221288 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
29221236 CACGTTCAAA
* *
29221246 ATTTTAATACAATTTAATT
1 ATTTTAATAAAAATTAATT
29221265 ATTTT-ATAAAAATTAATT
1 ATTTTAATAAAAATTAATT
29221283 ATTTTA
1 ATTTTA
29221289 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAAATTAATT
Found at i:29224217 original size:40 final size:39
Alignment explanation
Indices: 29224167--29224355 Score: 213
Period size: 40 Copynumber: 4.7 Consensus size: 39
29224157 TAACCACAAG
* * *
29224167 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTCA
1 CACAA-TGCCTTCGGGTCTTAGCCCGGATATATCAATTCA
29224207 CACGAATGCCTTCGGGTCTTAGCCCGGATATATC-ATCTCA
1 CAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAAT-TCA
29224247 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCA
1 CAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAA-TT-CA
* * *
29224289 CA-AATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCA
1 CACAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAAT-TCA
* *
29224329 TA-AATGCCTTCGGGACTTAGCCCGGAT
1 CACAATGCCTTCGGGTCTTAGCCCGGAT
29224356 GTATTCAAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
39 2 0.02
40 117 0.88
41 9 0.07
42 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CACAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCA
Found at i:29224236 original size:80 final size:80
Alignment explanation
Indices: 29224146--29224355 Score: 259
Period size: 80 Copynumber: 2.6 Consensus size: 80
29224136 CTTCGGAATT
* * * *
29224146 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAA-TT-CAC
1 TTAGCCCGGATATAATCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTTGCAC
29224208 ACGAATGCCTTCGGGTC
66 A--AATGCCTTCGGGTC
* *
29224225 TTAGCCCGGATAT-ATCATCTCA-CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGC
1 TTAGCCCGGATATAATCA-C-AAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTTGC
29224288 ACAAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
* * * *
29224305 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGAT
1 TTAGCCCGGATATAATCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGAT
29224356 GTATTCAAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
79 8 0.07
80 95 0.83
81 7 0.06
82 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAATCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTTGCAC
AAATGCCTTCGGGTC
Found at i:29233777 original size:23 final size:23
Alignment explanation
Indices: 29233751--29233840 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
29233741 GAAAAGTTAA
29233751 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
29233774 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
29233797 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
29233816 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
29233839 AA
1 AA
29233841 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:29238318 original size:23 final size:23
Alignment explanation
Indices: 29238292--29238381 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
29238282 GAAAAGTTAA
29238292 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
29238315 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
29238338 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
29238357 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
29238380 AA
1 AA
29238382 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:29238370 original size:42 final size:42
Alignment explanation
Indices: 29238311--29238394 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
29238301 GAGACTTGAA
29238311 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
29238353 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
29238395 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:29238589 original size:23 final size:24
Alignment explanation
Indices: 29238563--29238614 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
29238553 TTATAAGGAA
29238563 TTTTATT-TC-TTCCATATAAATTT
1 TTTTATTCTCTTTCCAT-TAAATTT
* *
29238586 TTTT-TTCTCTTTTCATTATATTT
1 TTTTATTCTCTTTCCATTAAATTT
29238609 TTTTAT
1 TTTTAT
29238615 CATTCTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 16 0.67
24 6 0.25
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTATTCTCTTTCCATTAAATTT
Found at i:29238878 original size:6 final size:6
Alignment explanation
Indices: 29238867--29238894 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
29238857 AGAGCCTCGA
29238867 TTTGTT TTTGTT TTTGTT TTTGTT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTG
29238895 GATTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (6 bp):
TTTGTT
Found at i:29242081 original size:30 final size:30
Alignment explanation
Indices: 29242047--29242109 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
29242037 ACTTAACAAG
29242047 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
29242077 CAAATGCCTTTAACATAATATCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
29242107 CAA
1 CAA
29242110 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:29247820 original size:37 final size:36
Alignment explanation
Indices: 29247779--29247962 Score: 141
Period size: 37 Copynumber: 5.2 Consensus size: 36
29247769 GCTTAGCTTG
29247779 GCTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
29247816 GCTAACTCAAATAACTGGATGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
* ** * * * * * *
29247853 ACTAATCTTTAATCA-T-CAGTTGGGAACGT-ACATCC
1 GCTAA-CTCAAATAACTGGAGTTGCGAGCTTAAC-TCA
**
29247888 GC-AAGCT---ATTTC-GGAGTTGCGAGCTTAACTCA
1 GCTAA-CTCAAATAACTGGAGTTGCGAGCTTAACTCA
*
29247920 ACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCA
1 GCTAACTCAAATAACTGGA-GTTGCGAGCTTAACTCA
*
29247957 TCTAAC
1 GCTAAC
29247963 CTTTAATCAT
Statistics
Matches: 113, Mismatches: 23, Indels: 22
0.72 0.15 0.14
Matches are distributed among these distances:
31 2 0.02
32 14 0.12
33 4 0.04
34 6 0.05
35 14 0.12
36 4 0.04
37 63 0.56
38 6 0.05
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (36 bp):
GCTAACTCAAATAACTGGAGTTGCGAGCTTAACTCA
Found at i:29247979 original size:104 final size:104
Alignment explanation
Indices: 29247799--29247986 Score: 331
Period size: 104 Copynumber: 1.8 Consensus size: 104
29247789 ATAACTGGAG
* * *
29247799 GTTGCGAGCTTAACTCAGCTAACTCAAATAACTGGATGTTGCGAGCTTAACTCAACTAATCTTTA
1 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
29247864 ATCATCAGTTGGGAACGTACATCCGCAAGCTATTTCGGA
66 ATCATCAGTTGGGAACGTACATCCGCAAGCTATTTCGGA
*
29247903 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCATCTAACCTTTA
1 GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
*
29247968 ATCATTAGTTGGGAACGTA
66 ATCATCAGTTGGGAACGTA
29247987 AGTGTAACAC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (104 bp):
GTTGCGAGCTTAACTCAACTAACTCAAATAACTGGAGGTTGCGAGCTTAACTCAACTAACCTTTA
ATCATCAGTTGGGAACGTACATCCGCAAGCTATTTCGGA
Found at i:29248682 original size:16 final size:16
Alignment explanation
Indices: 29248662--29248692 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29248652 ATATGCAAAT
29248662 TAAAAAG-AAAAGAAA
1 TAAAAAGAAAAAGAAA
29248677 TAAAAAGAAAAAGAAA
1 TAAAAAGAAAAAGAAA
29248693 AAGAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (16 bp):
TAAAAAGAAAAAGAAA
Found at i:29249190 original size:9 final size:9
Alignment explanation
Indices: 29249170--29249203 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
29249160 TTGTGTTGTA
29249170 TTAATGTATT
1 TTAAT-TATT
29249180 TTAATTATT
1 TTAATTATT
29249189 TTAATTATT
1 TTAATTATT
29249198 TTAATT
1 TTAATT
29249204 TCGTAGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TTAATTATT
Found at i:29251359 original size:6 final size:6
Alignment explanation
Indices: 29251350--29251387 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
29251340 TGCTGATGCA
29251350 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
29251388 ATAGTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTGTT
Found at i:29253567 original size:26 final size:25
Alignment explanation
Indices: 29253531--29253605 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
29253521 GTAGCTTCGG
29253531 AGAGCCGTTAATCGAGAAGCTCACAA
1 AGAGCC-TTAATCGAGAAGCTCACAA
* *
29253557 AGAGCCTTTAATCGAAAAGCTCACGA
1 AGAGCC-TTAATCGAGAAGCTCACAA
* *
29253583 AGAGCCATATATCGAGACGCTCA
1 AGAGCCTTA-ATCGAGAAGCTCA
29253606 TAAGAGCTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (25 bp):
AGAGCCTTAATCGAGAAGCTCACAA
Found at i:29255228 original size:20 final size:20
Alignment explanation
Indices: 29255203--29255241 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29255193 TGAGTTATTT
29255203 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
29255223 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
29255242 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:29255309 original size:66 final size:66
Alignment explanation
Indices: 29255237--29255370 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
29255227 AAGAGAGTAA
29255237 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
1 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
29255302 T
66 T
29255303 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
1 GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
29255368 T
66 T
29255369 GT
1 GT
29255371 TGTTATTTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (66 bp):
GTAAAAAAGAAAGTAAAGATCATGATACTTGATGATAATTTATGAGTATAATTATTTATGATAAA
T
Found at i:29256970 original size:21 final size:21
Alignment explanation
Indices: 29256946--29256985 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29256936 GTAAATTTAG
*
29256946 ATCAATTTAATACAATTCATA
1 ATCAATTCAATACAATTCATA
*
29256967 ATCAATTCAATTCAATTCA
1 ATCAATTCAATACAATTCA
29256986 CATCTTAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
ATCAATTCAATACAATTCATA
Found at i:29262062 original size:14 final size:12
Alignment explanation
Indices: 29262021--29262066 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
29262011 TAAAAAGAAA
29262021 AGAAAGCAAAAAG
1 AGAAAG-AAAAAG
*
29262034 AAAAAGAAAAAG
1 AGAAAGAAAAAG
29262046 AGAAAGAAAAGAGG
1 AGAAAGAAAA-A-G
29262060 AGAAAGA
1 AGAAAGA
29262067 CGCACGACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 15 0.52
13 6 0.21
14 8 0.28
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:29263459 original size:16 final size:17
Alignment explanation
Indices: 29263428--29263461 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29263418 TTTAAATTCA
29263428 GAATAAATTGTGTCTTT
1 GAATAAATTGTGTCTTT
*
29263445 GAATCAATT-TGTCTTT
1 GAATAAATTGTGTCTTT
29263461 G
1 G
29263462 GCTTCATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (17 bp):
GAATAAATTGTGTCTTT
Found at i:29265853 original size:26 final size:26
Alignment explanation
Indices: 29265807--29265856 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
29265797 TGCATTGTCC
*
29265807 CTAATGCAAAAGAAAATTAAAAACTA
1 CTAATGCAAAAGAAAAATAAAAACTA
*
29265833 CTAATG-AAAATAAACAATAAAAAC
1 CTAATGCAAAAGAAA-AATAAAAAC
29265857 GTAAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (26 bp):
CTAATGCAAAAGAAAAATAAAAACTA
Found at i:29275203 original size:29 final size:31
Alignment explanation
Indices: 29275147--29275208 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
29275137 TTCTTCTACG
29275147 TTTATTCTTTTTCTTCCTCTTTTCTTGT-TC
1 TTTATTCTTTTTCTTCCTCTTTTCTTGTCTC
* *
29275177 TTTATT-TTTTTCTT-CTTTTCTTTTTGTCTC
1 TTTATTCTTTTTCTTCCTCTT-TTCTTGTCTC
29275207 TT
1 TT
29275209 GTCGCTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.14
29 14 0.50
30 10 0.36
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTATTCTTTTTCTTCCTCTTTTCTTGTCTC
Found at i:29281598 original size:18 final size:18
Alignment explanation
Indices: 29281565--29281603 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
29281555 TTAATTAAAC
29281565 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
29281584 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
29281601 AAA
1 AAA
29281604 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:29282684 original size:16 final size:15
Alignment explanation
Indices: 29282610--29282684 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 15
29282600 AATGTATTGT
*
29282610 ATTGAATTGAATTGTG
1 ATTGAATTGAA-AGTG
* *
29282626 ATTAAATTGGAA-TG
1 ATTGAATTGAAAGTG
29282640 ATTTGAATTGAAAGT-
1 A-TTGAATTGAAAGTG
29282655 A-TG-A--GAAAGTG
1 ATTGAATTGAAAGTG
29282666 ATTGAATTGAAATGTG
1 ATTGAATTGAAA-GTG
29282682 ATT
1 ATT
29282685 CGGAAACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
10 6 0.13
11 1 0.02
12 3 0.07
13 3 0.07
14 3 0.07
15 14 0.30
16 16 0.35
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (15 bp):
ATTGAATTGAAAGTG
Found at i:29291893 original size:21 final size:21
Alignment explanation
Indices: 29291867--29291909 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29291857 ATGTTTAATA
29291867 ATATTAAAAATATAATATTTT
1 ATATTAAAAATATAATATTTT
* * *
29291888 ATATTAATATTTTAATATTTT
1 ATATTAAAAATATAATATTTT
29291909 A
1 A
29291910 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTAAAAATATAATATTTT
Found at i:29291897 original size:13 final size:14
Alignment explanation
Indices: 29291875--29291906 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29291865 TAATATTAAA
29291875 AATA-TAATATTTT
1 AATATTAATATTTT
29291888 -ATATTAATATTTT
1 AATATTAATATTTT
29291901 AATATT
1 AATATT
29291907 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:29294043 original size:70 final size:70
Alignment explanation
Indices: 29293943--29294501 Score: 330
Period size: 72 Copynumber: 7.9 Consensus size: 70
29293933 TAGCAAGTTC
* * *
29293943 AATACCGCAGCCTCCAAACAGTTAGTGAGAGTTTAAAGCTCTCAACTGT-AATATTAAGGCTCGC
1 AATACCGCAGCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTCGC
29294007 ATATA
66 ATATA
* * * ** * * *
29294012 AAGTACCACAGCCCCCAAA-AGGTTAGCGAGAGTTCAAAGCTCCCAGTTAT-TAGATTAAGGCT-
1 AA-TACCGCAGCCCCCAAACA-GTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTC
*
29294074 -TATAAGTA
64 GCAT-A-TA
*** * ** * * * *
29294082 AAGTACTATAGCCCTCCAAACATTTAGAAAGAGTTAAAAGCTCCCAACTGTCATTATCAAGACTC
1 AA-TACCGCAGCCC-CCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTC
* *
29294147 GTA-AGTTC
64 GCATA--TA
* * * * * * *
29294155 AATACCGCAACCCTCCAAATAGTCAGTGAAAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCA
1 AATACCGCAGCCC-CCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTCG
*
29294220 CAGGT-TT
65 CA--TATA
* * * * ** *
29294227 AATATCGCAGCCCCCAAACAGTTAGTGAAAGTTTAAAGCTCTCAGTTGT-AATGTTAAGGCTCGC
1 AATACCGCAGCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTCGC
**
29294291 AGGTA
66 ATATA
* * * * * * * * * *
29294296 AATATCGTAGCCTCCAAAATAGTTAACGAGAGCT-AAAGCTCCCAAATGT-AATCTTAAGGCTCA
1 AATACCGCAGCC-CCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTCG
* * *
29294359 TAGATTT
65 CATA-TA
* * * * *
29294366 AATACCACAGCCCTCGAAATAGTTATCGAGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCG
1 AATACCGCAGCCC-CCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTCG
*
29294431 CAGGTGT-
65 CA--TATA
* *
29294438 AATACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAGCTGTCATTATTAAGGCTC
1 AATACCGCAG-CCCCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTC
29294502 ACAGGTTTAA
Statistics
Matches: 379, Mismatches: 89, Indels: 41
0.74 0.17 0.08
Matches are distributed among these distances:
68 2 0.01
69 43 0.11
70 116 0.31
71 71 0.19
72 138 0.36
73 7 0.02
74 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (70 bp):
AATACCGCAGCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAACTGTCAATATTAAGGCTCGC
ATATA
Found at i:29294444 original size:283 final size:284
Alignment explanation
Indices: 29293943--29294514 Score: 693
Period size: 283 Copynumber: 2.0 Consensus size: 284
29293933 TAGCAAGTTC
* *
29293943 AATACCGCAGCCTCCAAACAGTTAGTGAGAGTTTAAAGCTCTCAACTGTAATATTAAGGCTCGCA
1 AATACCGCAGCCCCCAAACAGTTAGTGAAAGTTTAAAGCTCTCAACTGTAATATTAAGGCTCGCA
* * * * ** *
29294008 TATAAAGTACCACAGCCCCCAAAAGGTTAGCGAGAGTTCAAAGCTCCCAGTTATTAGATTAAGGC
66 GATAAAGTACCACAGCCCCCAAAAAGTTAACGAGAGCTCAAAGCTCCCAAATATAAGATTAAGGC
* * * *
29294073 TTATAAGTAAAGTACTATAGCCCTCCAAACATTTAGAAAGAGTTAAAAGCTCCCAACTGTCATTA
131 TCATAAGTAAAGTACCACAGCCCTCCAAACAGTTAGAAAGAGTTAAAAGCTCCCAACTGTCATTA
* * * *
29294138 TCAAGACTCGTAAGTTCAATACCGCAACCCTCCAAATAGTCAGTGAAAGTTAAAAGCTCTCAACT
196 TCAAGACTCGCAAGTTCAATACCGCAACCCCCCAAACAGTCAGCGAAAGTTAAAAGCTCTCAACT
29294203 GTCATTATTAAGGCTCACAGGTTT
261 GTCATTATTAAGGCTCACAGGTTT
* ** *
29294227 AATATCGCAGCCCCCAAACAGTTAGTGAAAGTTTAAAGCTCTCAGTTGTAATGTTAAGGCTCGCA
1 AATACCGCAGCCCCCAAACAGTTAGTGAAAGTTTAAAGCTCTCAACTGTAATATTAAGGCTCGCA
* * ** * * **
29294292 GGTAAA-TATCGTAGCCTCCAAAATAGTTAACGAGAGCT-AAAGCTCCCAAATGTAATCTTAAGG
66 GATAAAGTACCACAGCCCCCAAAA-AGTTAACGAGAGCTCAAAGCTCCCAAATATAAGATTAAGG
* * * * *** *
29294355 CTCATAGATTTAA-TACCACAGCCCTCGAAATAGTTATCGAGAGTTAAAAGCTCTCAACTGTCAT
130 CTCATA-AGTAAAGTACCACAGCCCTCCAAACAGTTAGAAAGAGTTAAAAGCTCCCAACTGTCAT
* * * * * *
29294419 TATTAAGGCTCGCAGGTGT-AATACCGCAGCCCCCCAAACAGTTAGCGAGAGTTAAAAGCTCTCA
194 TATCAAGACTCGCAAGT-TCAATACCGCAACCCCCCAAACAGTCAGCGAAAGTTAAAAGCTCTCA
*
29294483 GCTGTCATTATTAAGGCTCACAGGTTT
258 ACTGTCATTATTAAGGCTCACAGGTTT
29294510 AATAC
1 AATAC
29294515 TGTAACACCC
Statistics
Matches: 240, Mismatches: 45, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
283 161 0.67
284 79 0.33
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (284 bp):
AATACCGCAGCCCCCAAACAGTTAGTGAAAGTTTAAAGCTCTCAACTGTAATATTAAGGCTCGCA
GATAAAGTACCACAGCCCCCAAAAAGTTAACGAGAGCTCAAAGCTCCCAAATATAAGATTAAGGC
TCATAAGTAAAGTACCACAGCCCTCCAAACAGTTAGAAAGAGTTAAAAGCTCCCAACTGTCATTA
TCAAGACTCGCAAGTTCAATACCGCAACCCCCCAAACAGTCAGCGAAAGTTAAAAGCTCTCAACT
GTCATTATTAAGGCTCACAGGTTT
Found at i:29294449 original size:72 final size:72
Alignment explanation
Indices: 29294111--29294514 Score: 383
Period size: 72 Copynumber: 5.7 Consensus size: 72
29294101 ACATTTAGAA
* * * ** * * *
29294111 AGAGTTAAAAGCTCCCAACTGTCATTATCAAGACTCGTAAGTTCAATACCGCAACCCTCCAAATA
1 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATACCGCAGCCCTCCAAATA
*
29294176 GTCAGT-G
66 GTTA-TCG
* * *
29294183 AAAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATATCGCAGCCC-CCAAACA
1 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATACCGCAGCCCTCCAAATA
29294247 GTTAGT-G
66 GTTA-TCG
* * ** * * * * * *
29294254 AAAGTTTAAAGCTCTCAGTTGT-AATGTTAAGGCTCGCAGG-TAAATATCGTAG-CCTCCAAAAT
1 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATACCGCAGCCCTCC-AAAT
*
29294316 AGTTAACG
65 AGTTATCG
* * * * * * * * *
29294324 AGAGCT-AAAGCTCCCAAATGT-AATCTTAAGGCTCATAGATTTAATACCACAGCCCTCGAAATA
1 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATACCGCAGCCCTCCAAATA
29294387 GTTATCG
66 GTTATCG
* * * *
29294394 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCGCAGGTGTAATACCGCAGCCCCCCAAACA
1 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATACCGCAGCCCTCCAAATA
*
29294459 GTTAGCG
66 GTTATCG
*
29294466 AGAGTTAAAAGCTCTCAGCTGTCATTATTAAGGCTCACAGGTTTAATAC
1 AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATAC
29294515 TGTAACACCC
Statistics
Matches: 271, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
68 2 0.01
69 38 0.14
70 52 0.19
71 48 0.18
72 131 0.48
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (72 bp):
AGAGTTAAAAGCTCTCAACTGTCATTATTAAGGCTCACAGGTTTAATACCGCAGCCCTCCAAATA
GTTATCG
Found at i:29295932 original size:40 final size:40
Alignment explanation
Indices: 29295895--29296080 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
29295885 GCTACTCGTT
* *
29295895 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
29295935 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29295975 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
29296015 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
29296056 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29296081 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29297897 original size:70 final size:70
Alignment explanation
Indices: 29297678--29298338 Score: 492
Period size: 70 Copynumber: 9.4 Consensus size: 70
29297668 CACAAATACT
* * ** * * *
29297678 GTAGCCCCCAAAGAGTTAGCGAGAGTTCAAAGCTCCCAATTGTAATGTTAAGGCTCGCAAGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGGTAAA
* *
29297743 ATACT
66 GTACC
* * * * * * * ** * * *
29297748 GCAGCCTCCAAAATAGTTAGCGAGGGTT-GAAGCTCCTAGCTATAA-CCTCAGGCTCGCAGGTTC
1 GTAGCC-CCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGG-TA
29297811 AA-TACC
64 AAGTACC
* * * ** * * * *
29297817 GTAGCCCCCAAACAGTTAGCGAGATTTCAAAGCTTTCATCTGTAATATTAACGTTCACAAGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGGTAAA
*
29297882 TTACC
66 GTACC
* * * *
29297887 TTAGCCCCCAAATAGTTAGCAAGAGTTCAAAACTTCCAGCTGTAATATTAAGGCTCACGGGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGGTAAA
*
29297952 GTATC
66 GTACC
* * * * *
29297957 ATAG-CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAAGGCTCACAGGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGGTAAA
29298021 GTACC
66 GTACC
* * *
29298026 GTAGACCCCAAATAGTTACCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGATCACAGGTAAA
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGGTAAA
29298091 GTACC
66 GTACC
* *** * ** * *
29298096 GCAGCCCCCAAATAGTTAATGAGAGTTAAAAGCTCCCAATTGTCATTATTAAGGCTCACAGGTTT
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGCTCACAGG-TA
*
29298161 AAG-GCC
64 AAGTACC
* * * * * * * ** *
29298167 GCAGCCCCCCAAATAGTTAGCGATAGTTAAAATCTCCCAACTGTCATTATTAAGGCTCGTAGATT
1 GTAG-CCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGCTCACAG-GT
* *
29298232 CAATACTACA
63 -AA-AGTACC
** * * * *
29298242 GT--CCCCCAAATAGTTAGGTAGAGTTAAAAGCTCCCAGCTGTCATTATTAAGGCTCACAGATTC
1 GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGT-AATATTAAGGCTCACAG-GTA
29298305 AA-TACC
64 AAGTACC
* *
29298311 GCAGCCCCTCAAATAGTTAGCGAGAGTT
1 GTAGCCCC-CAAATAGTTAGCAAGAGTT
29298339 AAAATATCTC
Statistics
Matches: 475, Mismatches: 100, Indels: 30
0.79 0.17 0.05
Matches are distributed among these distances:
68 17 0.04
69 97 0.20
70 187 0.39
71 45 0.09
72 125 0.26
73 1 0.00
74 1 0.00
75 2 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (70 bp):
GTAGCCCCCAAATAGTTAGCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGCTCACAGGTAAA
GTACC
Found at i:29297965 original size:139 final size:139
Alignment explanation
Indices: 29297822--29298155 Score: 425
Period size: 139 Copynumber: 2.4 Consensus size: 139
29297812 ATACCGTAGC
* * * * *
29297822 CCCCAAACAGTTAGCGAGATTTCAAAGCTTTCATCTGTAATATTAACGTTCACAAGTAAATTACC
1 CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTACC
* * * * * *
29297887 TTAGCCCCCAAATAGTTAGCAAGAGTTCAAAACTTCCAGCTGTAATATTAAGGCTCACGGGTAAA
66 GTAGACCCCAAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGGTAAA
29297952 GTATCATAG
131 GTATCATAG
* *
29297961 CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAAGGCTCACAGGTAAAGTACC
1 CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTACC
*
29298026 GTAGACCCCAAATAGTTACCAAGAGTTCAAAGCTCCCAGCTGTAATATTAAGGATCACAGGTAAA
66 GTAGACCCCAAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGGTAAA
* **
29298091 GTACCGCAG
131 GTATCATAG
* ** * * * * *
29298100 CCCCCAAATAGTTAATGAGAGTTAAAAGCTCCCAATTGTCATTATTAAGGCTCACA
1 -CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGT-AATATTAACGCTCACA
29298156 GGTTTAAGGC
Statistics
Matches: 169, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
139 122 0.72
140 32 0.19
141 15 0.09
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (139 bp):
CCCCAAACAGTTAGCGAGAGTTCAAAGCTCTCAACTGTAATATTAACGCTCACAAGTAAAGTACC
GTAGACCCCAAATAGTTACCAAGAGTTCAAAACTCCCAGCTGTAATATTAAGGATCACAGGTAAA
GTATCATAG
Found at i:29298888 original size:27 final size:27
Alignment explanation
Indices: 29298847--29298904 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
29298837 TTAGCCCGCG
* *
29298847 TTGTCATTCTTAGCAATAGGGACCACA
1 TTGTCATTCTCAGCAAGAGGGACCACA
* *
29298874 TTGTCATTCTCAGCAGGAGGGTCCACA
1 TTGTCATTCTCAGCAAGAGGGACCACA
29298901 TTGT
1 TTGT
29298905 TGTTCACAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
TTGTCATTCTCAGCAAGAGGGACCACA
Found at i:29298917 original size:27 final size:27
Alignment explanation
Indices: 29298864--29298918 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
29298854 TCTTAGCAAT
* *
29298864 AGGGACCACATTGTCATTCTCAGCAGG
1 AGGGACCACATTGTCATTCACAACAGG
* **
29298891 AGGGTCCACATTGTTGTTCACAACAGG
1 AGGGACCACATTGTCATTCACAACAGG
29298918 A
1 A
29298919 TGAGTCATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (27 bp):
AGGGACCACATTGTCATTCACAACAGG
Found at i:29298993 original size:27 final size:27
Alignment explanation
Indices: 29298960--29299015 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
29298950 CATCTAAGTA
* *
29298960 TCATTCTTAGCAGGAGGGACCACATTG
1 TCATTCTCAGCAGGAAGGACCACATTG
* *
29298987 TCATTCTCAGTAGGAAGGTCCACATTG
1 TCATTCTCAGCAGGAAGGACCACATTG
29299014 TC
1 TC
29299016 GTTCATGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (27 bp):
TCATTCTCAGCAGGAAGGACCACATTG
Found at i:29299043 original size:110 final size:110
Alignment explanation
Indices: 29298850--29299179 Score: 525
Period size: 110 Copynumber: 3.0 Consensus size: 110
29298840 GCCCGCGTTG
* * * *
29298850 TCATTCTTAGCAATAGGGACCACATTGTCATTCTCAGCAGGAGGGTCCACATTGTTGTTCACAAC
1 TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
29298915 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
66 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
* * * *
29298960 TCATTCTTAGCAGGAGGGACCACATTGTCATTCTCAGTAGGAAGGTCCACATTGTCGTTCATGAC
1 TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
*
29299025 AGGATGAGTCATGTTGTCATTCTCAACTAGGTCCTCATCTAAGTA
66 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
* * * * * *
29299070 TCATTTTTAGCAAGAGGGATCATACTGTCATTCTCAGAAGGAGGGTTCACATTGTCATTCACGAC
1 TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
29299135 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
66 AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
29299180 GGAATCCTGT
Statistics
Matches: 201, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 201 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (110 bp):
TCATTCTTAGCAAGAGGGACCACATTGTCATTCTCAGAAGGAGGGTCCACATTGTCGTTCACGAC
AGGATGAGTCATGTTGTCATTCTCAACTGGGTCCTCATCTAAGTA
Found at i:29302003 original size:88 final size:88
Alignment explanation
Indices: 29301842--29302004 Score: 200
Period size: 88 Copynumber: 1.9 Consensus size: 88
29301832 GGGGACTGCA
* * ** *
29301842 TGCTCCACAGGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCCGCACCGAATGTTAG
1 TGCTCCACAAGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCAGCACCGAATGCCAA
29301907 TACTAGGAACAGAAAGGACCGTG
66 TACTAGGAACAGAAAGGACCGTG
* * * * * * * *
29301930 TGCTCCACAAGCGACCTAGAGTGAAACACGTGTCGAGCGGGTCTGGAGCCAGCACGGAATGCCAA
1 TGCTCCACAAGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCAGCACCGAATGCCAA
*
29301995 TGCTAGGAAC
66 TACTAGGAAC
29302005 GGCGAAGTCA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 61 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (88 bp):
TGCTCCACAAGCAACCCAGAGTGAAACACATGTCCAGCAGGCCTGAAGCCAGCACCGAATGCCAA
TACTAGGAACAGAAAGGACCGTG
Found at i:29304857 original size:23 final size:22
Alignment explanation
Indices: 29304806--29304857 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
29304796 CCTCGTCTTT
*
29304806 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
29304828 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
29304851 TTCTTTT
1 TTCTTTT
29304858 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:29312552 original size:21 final size:21
Alignment explanation
Indices: 29312487--29312553 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
29312477 GTTAATCATG
*
29312487 ATTCAAACAAATAAGACCATA
1 ATTCAAACAAGTAAGACCATA
* * * * *
29312508 GTTGAAAGATGCTATGACATCATA
1 ATTCAAACAAG-TAAGAC--CATA
29312532 ATTCAAACAAGTAAGACCATA
1 ATTCAAACAAGTAAGACCATA
29312553 A
1 A
29312554 CTTAAAGACA
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
21 11 0.34
22 5 0.16
23 5 0.16
24 11 0.34
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.22
Consensus pattern (21 bp):
ATTCAAACAAGTAAGACCATA
Found at i:29312561 original size:45 final size:45
Alignment explanation
Indices: 29312481--29312575 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
29312471 GAGCAGGTTA
* * **
29312481 ATCATGATTCAAACAAATAAGACCATAGTTGAAAGATGCTATGAC
1 ATCATAATTCAAACAAATAAGACCATACTTGAAAGACACTATGAC
* *
29312526 ATCATAATTCAAACAAGTAAGACCATAACTT-AAAGACACTATGGC
1 ATCATAATTCAAACAAATAAGACCAT-ACTTGAAAGACACTATGAC
29312571 ATCAT
1 ATCAT
29312576 GACGGAAGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (45 bp):
ATCATAATTCAAACAAATAAGACCATACTTGAAAGACACTATGAC
Found at i:29321767 original size:129 final size:130
Alignment explanation
Indices: 29321599--29321875 Score: 391
Period size: 130 Copynumber: 2.2 Consensus size: 130
29321589 GATTTAGATA
* * *
29321599 TTCTTAGTTCTTT--AAACTACGGTCTTTGCTTTTGTGTTTTTTCAGTTC-AATTAAAATGGGTT
1 TTCTTAGCTCTTTGCAAACTACAGTCTTTACTTTTGTGTTTTTTCAGTTCAAATTAAAATGGGTT
* **
29321661 TGTTTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGC-CCATTTTGTTGATTTTTTT
66 TGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCTCC-TTTTGTTGATTTTACT
29321725 G
130 G
* * * *
29321726 TTCTTAGCTCTTTGCAAATTACAGTCTTTACTTTTGTGTTTTTTCGGTTCAAATTTAAATTGGTT
1 TTCTTAGCTCTTTGCAAACTACAGTCTTTACTTTTGTGTTTTTTCAGTTCAAATTAAAATGGGTT
* *
29321791 TGTCTGTTTTTACTTTTTTTGTACTGTTTGATTCTTATTGATTGCTCCTTTTGTTGATTTTACTG
66 TGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCTCCTTTTGTTGATTTTACTG
* *
29321856 TTCTTAGCTATTGGCAAACT
1 TTCTTAGCTCTTTGCAAACT
29321876 GCACAACATT
Statistics
Matches: 131, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
127 12 0.09
129 31 0.24
130 86 0.66
131 2 0.02
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (130 bp):
TTCTTAGCTCTTTGCAAACTACAGTCTTTACTTTTGTGTTTTTTCAGTTCAAATTAAAATGGGTT
TGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCTCCTTTTGTTGATTTTACTG
Found at i:29322258 original size:32 final size:30
Alignment explanation
Indices: 29322172--29322268 Score: 140
Period size: 30 Copynumber: 3.2 Consensus size: 30
29322162 GGATTGAAGT
29322172 TTTATATGAGCATGCTGGGAAGGGTATAGG
1 TTTATATGAGCATGCTGGGAAGGGTATAGG
* * *
29322202 TTTATATGAGCCTGCTGGGAAGGGTGTAAG
1 TTTATATGAGCATGCTGGGAAGGGTATAGG
*
29322232 TTTATATGAGCATATGTTGGGAAGGGTATAGG
1 TTTATATGAGC--ATGCTGGGAAGGGTATAGG
29322264 TTTAT
1 TTTAT
29322269 GTATTTAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 38 0.66
32 20 0.34
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (30 bp):
TTTATATGAGCATGCTGGGAAGGGTATAGG
Found at i:29323868 original size:26 final size:26
Alignment explanation
Indices: 29323837--29323939 Score: 143
Period size: 26 Copynumber: 4.0 Consensus size: 26
29323827 ACACCAATAC
*
29323837 CGCAGCAAAGCTGCCAGTAATAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
29323863 CACAGCAAAGCTGCTAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * *
29323889 TGCAGCAGAGCTGCCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
29323915 CGCAGCAAAGCTACCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
29323940 TTTGTGGCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:29323965 original size:52 final size:52
Alignment explanation
Indices: 29323838--29323965 Score: 125
Period size: 52 Copynumber: 2.5 Consensus size: 52
29323828 CACCAATACC
** * *
29323838 GCAGCAAAGCTGCCAGTAAT-AGTAACACAGCAAAGCTGCTAGTAACAGTAAT
1 GCAGCAAAGCCACCAGT-ATCAGTAACACAGCAAAGCTACCAGTAACAGTAAT
* ** * *
29323890 GCAGCAGAGCTGCCAGTATCAGTAACGCAGCAAAGCTACCAGTAACAGTATTT
1 GCAGCAAAGCCACCAGTATCAGTAACACAGCAAAGCTACCAGTAACAGTA-AT
**
29323943 GTGGCAAAGCCACCAGTA-CAGTA
1 GCAGCAAAGCCACCAGTATCAGTA
29323966 TACTTCCCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
51 2 0.03
52 48 0.75
53 14 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (52 bp):
GCAGCAAAGCCACCAGTATCAGTAACACAGCAAAGCTACCAGTAACAGTAAT
Found at i:29324164 original size:27 final size:27
Alignment explanation
Indices: 29324134--29324304 Score: 238
Period size: 27 Copynumber: 6.3 Consensus size: 27
29324124 TATAATGGTC
*
29324134 ATTTTACCCTAT-AAGGGTATTTC-AGTA
1 ATTTTACCC-ATCGAGGGTATTTCGA-TA
*
29324161 ATTTTACCCATCGAGGGTATTTCGATT
1 ATTTTACCCATCGAGGGTATTTCGATA
*
29324188 ATTTTACCCATCGGGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* *
29324215 ATTTTACCCATCAAGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
29324242 ATTTTATCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
29324269 ATTTTACCCATCGAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
29324296 GTTTTACCC
1 ATTTTACCC
29324305 CATTTCGGCC
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.02
27 126 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:29324231 original size:81 final size:81
Alignment explanation
Indices: 29324134--29324304 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
29324124 TATAATGGTC
* *
29324134 ATTTTACCCTATAAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGATTATTTTACCCAT
1 ATTTTACCCTATAAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
*
29324199 CGGGGGTATTTCGATA
66 CGAGGGTATTTCGATA
*
29324215 ATTTTACCC-ATCAAGGGTATTTCAATAATTTTATCCATCGAGGGTATTTCGATAATTTTACCCA
1 ATTTTACCCTAT-AAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCA
*
29324279 TCGAGGGTATTTCGGTA
65 TCGAGGGTATTTCGATA
*
29324296 GTTTTACCC
1 ATTTTACCC
29324305 CATTTCGGCC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 2 0.02
81 81 0.98
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (81 bp):
ATTTTACCCTATAAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
CGAGGGTATTTCGATA
Found at i:29325744 original size:4 final size:4
Alignment explanation
Indices: 29325735--29325767 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
29325725 TTAAACTAAG
29325735 TAAA TAAA TAAA TAAA TAAA TAAA TAAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA
29325768 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:29327172 original size:23 final size:22
Alignment explanation
Indices: 29327120--29327172 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
29327110 TCCACGTCTT
*
29327120 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
29327142 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
29327165 TTTCTTTT
1 TTTCTTTT
29327173 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:29329533 original size:4 final size:4
Alignment explanation
Indices: 29329524--29329551 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
29329514 TTAAACTAAG
29329524 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
29329552 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:29332699 original size:36 final size:37
Alignment explanation
Indices: 29332623--29332703 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 37
29332613 GTAGTAAAGC
* * *
29332623 AAAGCAGTAATCCAGAATTTTCCCTGAAAATTCTAATCG
1 AAAGCAATAAGCCAGAAATTTCCCTG--AATTCTAATCG
29332662 AAAGCAATAAGCCAGAAATTTCCCTG-ATTCTAATCG
1 AAAGCAATAAGCCAGAAATTTCCCTGAATTCTAATCG
29332698 AAAGCA
1 AAAGCA
29332704 GTAAAGCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 16 0.41
39 23 0.59
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (37 bp):
AAAGCAATAAGCCAGAAATTTCCCTGAATTCTAATCG
Found at i:29332729 original size:22 final size:22
Alignment explanation
Indices: 29332701--29332743 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
29332691 CTAATCGAAA
29332701 GCAGTAAAGCAAAAGAAGTAAT
1 GCAGTAAAGCAAAAGAAGTAAT
* * *
29332723 GCAGTAAGGCACAAGCAGTAA
1 GCAGTAAAGCAAAAGAAGTAA
29332744 AGCAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.26, T:0.12
Consensus pattern (22 bp):
GCAGTAAAGCAAAAGAAGTAAT
Found at i:29332779 original size:13 final size:13
Alignment explanation
Indices: 29332698--29332773 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
29332688 ATTCTAATCG
29332698 AAAGCAGTAAAGC
1 AAAGCAGTAAAGC
*
29332711 AAA--AG--AAGT
1 AAAGCAGTAAAGC
* *
29332720 AATGCAGTAAGGC
1 AAAGCAGTAAAGC
29332733 ACAAGCAGTAAAGC
1 A-AAGCAGTAAAGC
29332747 AAAAGAAGCAGTAAAGC
1 ---A-AAGCAGTAAAGC
29332764 AAAGCAGTAA
1 AAAGCAGTAA
29332774 GCCAAAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
9 5 0.10
11 4 0.08
13 15 0.31
14 11 0.23
17 13 0.27
ACGTcount: A:0.54, C:0.13, G:0.24, T:0.09
Consensus pattern (13 bp):
AAAGCAGTAAAGC
Found at i:29332780 original size:30 final size:31
Alignment explanation
Indices: 29332699--29332773 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 31
29332689 TTCTAATCGA
*
29332699 AAGCAGTAAAGCAAAAGAAGTAATGCAGTAAGGCAC
1 AAGCAGTAAAGC--AA-AAG-AA-GCAGTAAAGCAC
29332735 AAGCAGTAAAGCAAAAGAAGCAGTAAAGCA-
1 AAGCAGTAAAGCAAAAGAAGCAGTAAAGCAC
29332765 AAGCAGTAA
1 AAGCAGTAA
29332774 GCCAAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
30 9 0.24
31 10 0.26
32 2 0.05
33 3 0.08
34 2 0.05
36 12 0.32
ACGTcount: A:0.53, C:0.13, G:0.24, T:0.09
Consensus pattern (31 bp):
AAGCAGTAAAGCAAAAGAAGCAGTAAAGCAC
Found at i:29333439 original size:18 final size:17
Alignment explanation
Indices: 29333418--29333470 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
29333408 ATATTTATTC
29333418 ATATAATAAATTATATTA
1 ATATAATAAATTAT-TTA
**
29333436 ATATAATTTATTATTT-
1 ATATAATAAATTATTTA
29333452 -T-TAATAAATTATTTA
1 ATATAATAAATTATTTA
29333467 ATAT
1 ATAT
29333471 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
14 11 0.39
15 1 0.04
16 1 0.04
17 3 0.11
18 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATAATAAATTATTTA
Found at i:29333445 original size:31 final size:30
Alignment explanation
Indices: 29333410--29333470 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
29333400 TATCATTTAT
29333410 ATTTATTCA-TATAATAAATTATATTAATATA
1 ATTTATT-ATTATAATAAATTAT-TTAATATA
*
29333441 ATTTATTATTTTTAATAAATTATTTAATAT
1 ATTTATTA-TTATAATAAATTATTTAATAT
29333471 TTAAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 1 0.04
31 14 0.52
32 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTATTATTATAATAAATTATTTAATATA
Found at i:29333485 original size:31 final size:32
Alignment explanation
Indices: 29333421--29333488 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
29333411 TTTATTCATA
*
29333421 TAATAAATTATATTAATATAATTTATTATTTT
1 TAATAAATTATATTAATATAAATTATTATTTT
29333453 TAATAAATTAT-TTAATATTTAAATT-TTA-TTT
1 TAATAAATTATATTAATA--TAAATTATTATTTT
29333484 TAATA
1 TAATA
29333489 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 14 0.42
32 14 0.42
33 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TAATAAATTATATTAATATAAATTATTATTTT
Found at i:29334211 original size:16 final size:16
Alignment explanation
Indices: 29334190--29334245 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
29334180 TAAATTATTA
29334190 ATTACAGTTCTATTTC
1 ATTACAGTTCTATTTC
** *
29334206 ATTACAACTCTATTAC
1 ATTACAGTTCTATTTC
*
29334222 ATTACAGTTTTA-TTC
1 ATTACAGTTCTATTTC
29334237 TATTACAGT
1 -ATTACAGT
29334246 CCCATTCTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 2 0.06
16 30 0.94
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTACAGTTCTATTTC
Found at i:29337364 original size:16 final size:17
Alignment explanation
Indices: 29337340--29337386 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
29337330 TGCCAAGTTC
29337340 ATGCATATCATAACAAA
1 ATGCATATCATAACAAA
* **
29337357 AT-CATATC-TAAGATT
1 ATGCATATCATAACAAA
29337372 ATGCATATCATAACA
1 ATGCATATCATAACA
29337387 CATGCATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (17 bp):
ATGCATATCATAACAAA
Found at i:29337391 original size:16 final size:16
Alignment explanation
Indices: 29337339--29337393 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
29337329 TTGCCAAGTT
29337339 CATGCATATCATAACAA
1 CATGCATATCATAAC-A
* *
29337356 AAT-CATATC-TAAGA
1 CATGCATATCATAACA
*
29337370 TTATGCATATCATAACA
1 -CATGCATATCATAACA
29337387 CATGCAT
1 CATGCAT
29337394 TGATTAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.03
15 5 0.17
16 18 0.60
17 6 0.20
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (16 bp):
CATGCATATCATAACA
Found at i:29344097 original size:4 final size:4
Alignment explanation
Indices: 29344090--29344180 Score: 157
Period size: 4 Copynumber: 23.0 Consensus size: 4
29344080 ACTTGCTTGA
29344090 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
**
29344138 TATG TACA T-TG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29344181 ATGATGCATG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
3 1 0.01
4 81 0.99
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:29353293 original size:2 final size:2
Alignment explanation
Indices: 29353288--29353316 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29353278 ATATATATAT
29353288 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
29353317 GGGTTAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:29355137 original size:22 final size:22
Alignment explanation
Indices: 29355112--29355153 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29355102 TAAAGAACAA
* *
29355112 AAAATAAAAATAAAAAAAAAGG
1 AAAAGAAAAAGAAAAAAAAAGG
29355134 AAAAGAAAAAGAAAAAAAAA
1 AAAAGAAAAAGAAAAAAAAA
29355154 AGGTAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.05
Consensus pattern (22 bp):
AAAAGAAAAAGAAAAAAAAAGG
Found at i:29355155 original size:11 final size:11
Alignment explanation
Indices: 29355111--29355155 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
29355101 TTAAAGAACA
*
29355111 AAAAATAAAAAT
1 AAAAA-AAAAAG
*
29355123 AAAAAAAAAGG
1 AAAAAAAAAAG
*
29355134 AAAAGAAAAAG
1 AAAAAAAAAAG
29355145 AAAAAAAAAAG
1 AAAAAAAAAAG
29355156 GTAAAGTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:29366197 original size:75 final size:74
Alignment explanation
Indices: 29366063--29366212 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 74
29366053 GTGTCTAGTA
29366063 ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
1 ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
29366128 TAAGTTTTT
66 TAAGTTTTT
*
29366137 ATCGCCAGATGTGTGTTAACTATTATTTTTTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAAC
1 ATCGCCAGATGTGTGTTAACTATTA-TTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAAC
29366202 TTAAGTTTTT
65 TTAAGTTTTT
29366212 A
1 A
29366213 AACTAAGTTC
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 25 0.34
75 49 0.66
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (74 bp):
ATCGCCAGATGTGTGTTAACTATTATTATTTTTAGTATGAGTGTATTGTTATGCTTCTAAAAACT
TAAGTTTTT
Found at i:29372610 original size:20 final size:20
Alignment explanation
Indices: 29372550--29372610 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
29372540 TTGCAGAAAA
29372550 GTGGCTTGTCTACAATACTG
1 GTGGCTTGTCTACAATACTG
*** * *
29372570 ACAGCTTGTTTGCAATACTG
1 GTGGCTTGTCTACAATACTG
*
29372590 GTGGCTTGTCCACAATACTG
1 GTGGCTTGTCTACAATACTG
29372610 G
1 G
29372611 CAGTTTATCC
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (20 bp):
GTGGCTTGTCTACAATACTG
Found at i:29372625 original size:40 final size:41
Alignment explanation
Indices: 29372550--29372645 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 41
29372540 TTGCAGAAAA
* * **
29372550 GTGGCTTGTCTACAATACTGACAGCTTGTTTGCAA-TACTG
1 GTGGCTTGTCCACAATACTGACAGCTTATCCGCAATTACTG
* *
29372590 GTGGCTTGTCCACAATACTGGCAGTTTATCCGCAATTACTG
1 GTGGCTTGTCCACAATACTGACAGCTTATCCGCAATTACTG
* *
29372631 GTGGTTTGACCACAA
1 GTGGCTTGTCCACAA
29372646 ACTAGTGTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 29 0.62
41 18 0.38
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (41 bp):
GTGGCTTGTCCACAATACTGACAGCTTATCCGCAATTACTG
Found at i:29372637 original size:21 final size:20
Alignment explanation
Indices: 29372581--29372637 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
29372571 CAGCTTGTTT
* *
29372581 GCAATACTGGTGGCTTGTCC
1 GCAATACTGGTGGTTTATCC
* **
29372601 ACAATACTGGCAGTTTATCC
1 GCAATACTGGTGGTTTATCC
29372621 GCAATTACTGGTGGTTT
1 GCAA-TACTGGTGGTTT
29372638 GACCACAAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (20 bp):
GCAATACTGGTGGTTTATCC
Found at i:29381970 original size:30 final size:30
Alignment explanation
Indices: 29381925--29381984 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29381915 GACGACGATG
* * *
29381925 CAGGTCCATCAACAGCGCCCATACAATCAC
1 CAGGCCCAGCAACAGCACCCATACAATCAC
29381955 CAGGCCCAGCAACAGCACCCATACAATCAC
1 CAGGCCCAGCAACAGCACCCATACAATCAC
29381985 TGGGCCGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.42, G:0.13, T:0.10
Consensus pattern (30 bp):
CAGGCCCAGCAACAGCACCCATACAATCAC
Found at i:29382069 original size:18 final size:18
Alignment explanation
Indices: 29382046--29382088 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
29382036 TGCCAGGTGC
* *
29382046 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
29382064 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
29382082 GTTTCCT
1 GTATCCT
29382089 TTTTTCTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:29385681 original size:126 final size:126
Alignment explanation
Indices: 29385448--29385729 Score: 469
Period size: 126 Copynumber: 2.2 Consensus size: 126
29385438 GGCCAAATAG
*
29385448 GAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACATTGCATC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATC
* *
29385513 CTGCTTGAAGCATTTTGGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTC-A
66 CTGCTTAAAGCATTTTGGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAA
*
29385573 GAAACTACTGTAGCAAAAGAGCGTCTACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCAT
1 G-AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCAT
* *
29385638 CCTGCTTAAAGCGTGTTT-GACACTATTTGCTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTAAAGCAT-TTTGGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAA
*
29385700 GAACTACAGTAGCAAAAGAGCGTCCACGTG
1 GAACTACTGTAGCAAAAGAGCGTCCACGTG
29385730 GGAGATTTTT
Statistics
Matches: 146, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
125 1 0.01
126 140 0.96
127 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (126 bp):
GAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATC
CTGCTTAAAGCATTTTGGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAA
Found at i:29385867 original size:95 final size:97
Alignment explanation
Indices: 29385761--29386190 Score: 611
Period size: 96 Copynumber: 4.5 Consensus size: 97
29385751 ATAATTAAAT
* * * *
29385761 TAACCCTAAACCCTAATTTATTTGA-TTTTTCATT-AAAACCCTAAACCCTAAATCCTAATTTAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
*
29385824 TTTTTTTAAAATTTATAGTTAATTTACTCAAG
66 TTTTTTTAAAATTTATAATTAATTTACTCAAG
* * * *
29385856 TAACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAAACCTAAACACTAAAGCTTAATCTAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
29385921 TTTTTTTTAAAATTTATAATTAATTTACTCAAG
66 -TTTTTTTAAAATTTATAATTAATTTACTCAAG
*
29385954 TAACCCTAAACCCTAATTTATTTGATTTTTT-CTTAAAAACCTTAAACACTAAACCCTAATCT-A
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
* * *
29386017 TTTTTTAAAAATTTATAATTAATTTACTTAAA
66 TTTTTTTAAAATTTATAATTAATTTACTCAAG
* *
29386049 TAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
* * *
29386114 -TTTTTTAAAACTTATAATTAATTTAATTAAG
66 TTTTTTTAAAATTTATAATTAATTTACTCAAG
* * * *
29386145 AAACCCTAAACTCTTATTTATTTAATTTTTTCCTT-AAAACCCTAAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAA
29386191 TCTAAAAACC
Statistics
Matches: 304, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
95 93 0.31
96 98 0.32
97 52 0.17
98 61 0.20
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (97 bp):
TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
TTTTTTTAAAATTTATAATTAATTTACTCAAG
Found at i:29386062 original size:193 final size:192
Alignment explanation
Indices: 29385761--29386190 Score: 609
Period size: 193 Copynumber: 2.2 Consensus size: 192
29385751 ATAATTAAAT
* * *
29385761 TAACCCTAAACCCTAATTTATTTGA-TTTTTCATT-AAAACCCTAAACCCTAAATCCTAATTTAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTC-TTAAAAACCCTAAACACTAAACCCTAATCTAA
* * * *
29385824 TTTTTTTAAAATTTATAGTTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTGATTTTTTCC
65 TTTTTTAAAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAATTTATTTAATTTTTTCC
* * * *
29385889 TTAAAAAACC-TAAACACTAAAGCTTAATCTAATTTTTTTTAAAATTTATAATTAATTTACTCAA
130 TT-AAAAACCATAAACACTAAACCCTAATCTAA--TTTTTTAAAACTTATAATTAATTTAATCAA
29385953 G
192 G
*
29385954 TAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCTTAAACACTAAACCCTAATCT-AT
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
* *
29386018 TTTTTAAAAATTTATAATTAATTTACTTAAATAACCCTAAACCCTAATTTATTTAATTTTTTCCT
66 TTTTTAAAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAATTTATTTAATTTTTTCCT
*
29386083 TAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAACTTATAATTAATTTAATTAAG
131 TAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAACTTATAATTAATTTAATCAAG
* * * *
29386145 AAACCCTAAACTCTTATTTATTTAATTTTTTCCTT-AAAACCCTAAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTT-CTTAAAAACCCTAAA
29386191 TCTAAAAACC
Statistics
Matches: 213, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
191 65 0.31
192 10 0.05
193 109 0.51
194 29 0.14
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (192 bp):
TAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
TTTTTAAAAATTTATAATTAATTTACTCAAATAACCCCAAACCCTAATTTATTTAATTTTTTCCT
TAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAACTTATAATTAATTTAATCAAG
Found at i:29390376 original size:4 final size:4
Alignment explanation
Indices: 29390359--29390400 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
29390349 AAGAATTCAA
*
29390359 ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
29390401 TTCAACATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:29400343 original size:50 final size:50
Alignment explanation
Indices: 29400263--29400375 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 50
29400253 TGATGGATTA
* * **
29400263 TATGGGATAGAAATGAATCAAATGGCTTTGCGGAGGAAAGTTTGGTTAAGC
1 TATGGGA-AGAAATGAATCAAATAGATTTGCGGAGGAAAGGCTGGTTAAGC
* *
29400314 TATGGGAATAAATGAATCAAATAGATTTGCGGAGGAAAGGCTGGTTAAGT
1 TATGGGAAGAAATGAATCAAATAGATTTGCGGAGGAAAGGCTGGTTAAGC
*
29400364 TATAGGAAGAAA
1 TATGGGAAGAAA
29400376 GGAGTTTCGC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (50 bp):
TATGGGAAGAAATGAATCAAATAGATTTGCGGAGGAAAGGCTGGTTAAGC
Done.