Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 172 of 343
Found at i:57070062 original size:39 final size:39
Alignment explanation
Indices: 57069937--57070121 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
57069927 GCTACTCGTT
*
57069937 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
* *
57069977 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGATTTAGTAACTCGCA
* * * *
57070017 CCAATGCCTTCGGGCTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
** * * * * * *
57070056 CAAATGCCTTCAGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGATTTAGTAAC-TCGCA
57070097 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
57070122 CATCATTCGA
Statistics
Matches: 115, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
39 34 0.30
40 69 0.60
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:57070105 original size:79 final size:80
Alignment explanation
Indices: 57069937--57070117 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
57069927 GCTACTCGTT
* * *
57069937 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCTGGAAT-TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
* * *
57070001 GATTTAGTAACTCGCAC
64 AATATAGTAACTAGCAC
* * **
57070018 CAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCACAAATGCCTTCA-GATCTTAGTCCGA
1 CAAAGCCTTCGGGACTTAGCCTGGAATTAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGA
* *
57070081 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
57070097 CAAAGCCTTCGGGACTTAGCC
1 CAAAGCCTTCGGGACTTAGCC
57070118 CGGACATCAT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.69
80 21 0.25
81 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCTGGAATTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGAA
TATAGTAACTAGCAC
Found at i:57074333 original size:79 final size:80
Alignment explanation
Indices: 57074234--57074452 Score: 193
Period size: 78 Copynumber: 2.8 Consensus size: 80
57074224 CTCGTTCAAG
* * ** * *
57074234 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
57074297 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACGAA
* * *
57074313 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
57074378 AATAACTCGCAC-AA
66 AATAACTCGCACGAA
* * ** * * *
57074392 -ACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
57074453 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
77 5 0.04
78 40 0.34
79 40 0.34
80 32 0.27
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACGAA
Found at i:57074412 original size:38 final size:39
Alignment explanation
Indices: 57074274--57074452 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 39
57074264 CTCATTCAAT
* *
57074274 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCAC-AAA
* *
57074314 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
57074353 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
** * * *
57074393 -CCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACAAA
*
57074432 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
57074453 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
37 5 0.04
38 18 0.15
39 13 0.11
40 80 0.67
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
Found at i:57074451 original size:78 final size:80
Alignment explanation
Indices: 57074274--57074452 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
57074264 CTCATTCAAT
* *
57074274 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTA
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACGAATACCTTCGGGACTTAACCCGGAATTA
*
57074339 GTATCTCGCACAAAG
66 GTATCTAGCACAAAG
**
57074354 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCAC-AA-ACCTTC-GGATCTTAGTCCGG-AT
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACGAATACCTTCGGGA-CTTAACCCGGAAT
57074414 ATAGTCA-CTTAGCACAAA-
64 -TAGT-ATC-TAGCACAAAG
*
57074432 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
57074453 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
77 5 0.06
78 38 0.43
79 15 0.17
80 30 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACGAATACCTTCGGGACTTAACCCGGAATTA
GTATCTAGCACAAAG
Found at i:57084084 original size:26 final size:26
Alignment explanation
Indices: 57084048--57084103 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
57084038 ACTGAGTAGG
57084048 CACTCAGTGGTATTTCTATAAACCAA
1 CACTCAGTGGTATTTCTATAAACCAA
57084074 CACTCAGTGGTATTTCTATAAACCAA
1 CACTCAGTGGTATTTCTATAAACCAA
57084100 CACT
1 CACT
57084104 TAAATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
CACTCAGTGGTATTTCTATAAACCAA
Found at i:57085724 original size:9 final size:9
Alignment explanation
Indices: 57085712--57085772 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
57085702 CTGCTGTTCT
*
57085712 TTTTGTTTC
1 TTTTATTTC
*
57085721 TTTTACTTC
1 TTTTATTTC
57085730 TTTT-TTTC
1 TTTTATTTC
57085738 TTTTATTTC
1 TTTTATTTC
57085747 -TTTAGTTTC
1 TTTTA-TTTC
57085756 TTTTATTTAC
1 TTTTATTT-C
57085766 -TTTATTT
1 TTTTATTT
57085773 TATTTACTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
8 11 0.24
9 29 0.64
10 5 0.11
ACGTcount: A:0.10, C:0.11, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTATTTC
Found at i:57085739 original size:17 final size:17
Alignment explanation
Indices: 57085712--57085760 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
57085702 CTGCTGTTCT
57085712 TTTTGTTTCTTTTACTTC
1 TTTT-TTTCTTTTACTTC
*
57085730 TTTTTTTCTTTTATTTC
1 TTTTTTTCTTTTACTTC
*
57085747 TTTAGTTTCTTTTA
1 TTT-TTTTCTTTTA
57085761 TTTACTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTTTTTCTTTTACTTC
Found at i:57085773 original size:14 final size:14
Alignment explanation
Indices: 57085756--57085785 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57085746 CTTTAGTTTC
*
57085756 TTTTATTTACTTTA
1 TTTTATTTACTGTA
57085770 TTTTATTTACTGTA
1 TTTTATTTACTGTA
57085784 TT
1 TT
57085786 GTTTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTATTTACTGTA
Found at i:57092421 original size:44 final size:44
Alignment explanation
Indices: 57092371--57092460 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
57092361 TCGGATTAAA
57092371 TCGAAGT-AATAGTAACAGTACGACACACA-AGGTGCCTCATCGAC
1 TCGAAGTCAA-AGTAACAGTACGACACACATA-GTGCCTCATCGAC
* **
57092415 TCGAAGTCAAAGTAACAGTACGGCACTTATAGTGCCTCATCGAC
1 TCGAAGTCAAAGTAACAGTACGACACACATAGTGCCTCATCGAC
57092459 TC
1 TC
57092461 AAGGTCGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
44 38 0.93
45 3 0.07
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (44 bp):
TCGAAGTCAAAGTAACAGTACGACACACATAGTGCCTCATCGAC
Found at i:57093347 original size:19 final size:19
Alignment explanation
Indices: 57093323--57093385 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
57093313 GCTTCTGCTT
57093323 TTCTTTTTGTTTCTTTTAG
1 TTCTTTTTGTTTCTTTTAG
* *
57093342 TTCTTTTTTTTTCTTTTAC
1 TTCTTTTTGTTTCTTTTAG
*
57093361 TTC-TTTAGTTTCTTTTAG
1 TTCTTTTTGTTTCTTTTAG
57093379 TTACTTT
1 TT-CTTT
57093386 ATTTTATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 14 0.38
19 21 0.57
20 2 0.05
ACGTcount: A:0.08, C:0.13, G:0.06, T:0.73
Consensus pattern (19 bp):
TTCTTTTTGTTTCTTTTAG
Found at i:57093377 original size:10 final size:10
Alignment explanation
Indices: 57093322--57093385 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
57093312 GGCTTCTGCT
*
57093322 TTTCTTTTTG
1 TTTCTTTTAG
57093332 TTTCTTTTAG
1 TTTCTTTTAG
**
57093342 -TTCTTTTTT
1 TTTCTTTTAG
57093351 TTTCTTTTA-
1 TTTCTTTTAG
*
57093360 CTTC-TTTAG
1 TTTCTTTTAG
57093369 TTTCTTTTAG
1 TTTCTTTTAG
*
57093379 TTACTTT
1 TTTCTTT
57093386 ATTTTATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
8 4 0.09
9 13 0.30
10 27 0.61
ACGTcount: A:0.08, C:0.12, G:0.06, T:0.73
Consensus pattern (10 bp):
TTTCTTTTAG
Found at i:57093396 original size:14 final size:14
Alignment explanation
Indices: 57093373--57093402 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57093363 CTTTAGTTTC
57093373 TTTTAGTTACTTTA
1 TTTTAGTTACTTTA
*
57093387 TTTTATTTACTTTA
1 TTTTAGTTACTTTA
57093401 TT
1 TT
57093403 GTTTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTAGTTACTTTA
Found at i:57094270 original size:3 final size:3
Alignment explanation
Indices: 57094262--57094294 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
57094252 TTGCTAATGC
57094262 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57094295 AAACTTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:57100718 original size:19 final size:18
Alignment explanation
Indices: 57100690--57100725 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57100680 CTACATCCAT
57100690 AAACAAAAAAAAAAGGCC
1 AAACAAAAAAAAAAGGCC
57100708 AAACAAAAAAAAAAGGCC
1 AAACAAAAAAAAAAGGCC
57100726 TCCTTAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.17, G:0.11, T:0.00
Consensus pattern (18 bp):
AAACAAAAAAAAAAGGCC
Found at i:57103780 original size:22 final size:22
Alignment explanation
Indices: 57103755--57103831 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 22
57103745 AAACTTGCAA
57103755 ATATTAACTTAAAAAACTCATT
1 ATATTAACTTAAAAAACTCATT
* *
57103777 ATATTTAACATGAATGTATAATA-TAATT
1 ATA-TTAAC-TTAA---A-AA-ACTCATT
*
57103805 ATAATAACTTAAAAAACTCATT
1 ATATTAACTTAAAAAACTCATT
57103827 ATATT
1 ATATT
57103832 TAACATGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
21 1 0.02
22 13 0.32
23 6 0.15
24 3 0.07
26 3 0.07
27 5 0.12
28 9 0.22
29 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (22 bp):
ATATTAACTTAAAAAACTCATT
Found at i:57103834 original size:50 final size:50
Alignment explanation
Indices: 57103759--57103859 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
57103749 TTGCAAATAT
57103759 TAACTTAAAAAACTCATTATATTTAACATGAATGTATAATATAATTATAA
1 TAACTTAAAAAACTCATTATATTTAACATGAATGTATAATATAATTATAA
57103809 TAACTTAAAAAACTCATTATATTTAACATGAATGTATAATATAATTATAA
1 TAACTTAAAAAACTCATTATATTTAACATGAATGTATAATATAATTATAA
57103859 T
1 T
57103860 TAAAATTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.39
Consensus pattern (50 bp):
TAACTTAAAAAACTCATTATATTTAACATGAATGTATAATATAATTATAA
Found at i:57103856 original size:28 final size:28
Alignment explanation
Indices: 57103774--57103862 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
57103764 TAAAAAACTC
57103774 ATTATATTTAACATGAATGTATAATATA
1 ATTATATTTAACATGAATGTATAATATA
* * *
57103802 ATTATA-ATAAC-TTAA---A-AA-ACTC
1 ATTATATTTAACATGAATGTATAATA-TA
57103824 ATTATATTTAACATGAATGTATAATATA
1 ATTATATTTAACATGAATGTATAATATA
*
57103852 ATTATAATTAA
1 ATTATATTTAA
57103863 AATTTAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
21 1 0.02
22 9 0.20
23 5 0.11
24 3 0.07
26 3 0.07
27 5 0.11
28 19 0.41
29 1 0.02
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (28 bp):
ATTATATTTAACATGAATGTATAATATA
Found at i:57105395 original size:30 final size:30
Alignment explanation
Indices: 57105338--57105395 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
57105328 TAGGCACTTC
* *
57105338 CACACGGGTGAGCCACACACTCGTGTGTGA
1 CACACGGGTGAGCCACACACCCATGTGTGA
*
57105368 CACACGGGT-AGACCACACGCCCATGTGT
1 CACACGGGTGAG-CCACACACCCATGTGT
57105396 CATGGCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.24, C:0.33, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGTGAGCCACACACCCATGTGTGA
Found at i:57114497 original size:14 final size:14
Alignment explanation
Indices: 57114478--57114509 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
57114468 AGGTCATTTA
*
57114478 GCCCAACCAAATTG
1 GCCCAACCAAACTG
57114492 GCCCAACCAAACTG
1 GCCCAACCAAACTG
57114506 GCCC
1 GCCC
57114510 GGTGATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.44, G:0.16, T:0.09
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:57133848 original size:50 final size:50
Alignment explanation
Indices: 57133773--57133871 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
57133763 TTAATATATT
*
57133773 TTTGGAAATTAATTTTCAAGTCAGACAAGTGGCCCAATGGGTGATTGAAA
1 TTTGGAAATTAATTTTCAAGTCAGACAAGTGGCCCAATGAGTGATTGAAA
*
57133823 TTTGGGAATTAATTTTCAAGTCAGACAAGTGGCCCAATGAGTGATTGAA
1 TTTGGAAATTAATTTTCAAGTCAGACAAGTGGCCCAATGAGTGATTGAA
57133872 CTTGAAAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (50 bp):
TTTGGAAATTAATTTTCAAGTCAGACAAGTGGCCCAATGAGTGATTGAAA
Found at i:57134043 original size:34 final size:34
Alignment explanation
Indices: 57134000--57134064 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
57133990 GTAACTGGCT
57134000 CGAACAGAACCGATAGAAATCGAACCAACTCACC
1 CGAACAGAACCGATAGAAATCGAACCAACTCACC
57134034 CGAACAGAACCGATAGAAATCGAACCAACTC
1 CGAACAGAACCGATAGAAATCGAACCAACTC
57134065 GAGTGTTGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.45, C:0.31, G:0.15, T:0.09
Consensus pattern (34 bp):
CGAACAGAACCGATAGAAATCGAACCAACTCACC
Found at i:57134813 original size:49 final size:49
Alignment explanation
Indices: 57134760--57134862 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 49
57134750 ACCATCTCGA
** *
57134760 GTGGCCCGGCAACGATGATTTTCACTAATTT-TATATTCTACCATCCCAG
1 GTGGCCCAACAACGATGATTTTCAC-AATTTGCATATTCTACCATCCCAG
* * * **
57134809 GTGGCGCAACAATGATGGTTTTCACAATTTGCATATTCTACCATCTTAG
1 GTGGCCCAACAACGATGATTTTCACAATTTGCATATTCTACCATCCCAG
57134858 GTGGC
1 GTGGC
57134863 TCGAAAATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
48 5 0.11
49 40 0.89
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (49 bp):
GTGGCCCAACAACGATGATTTTCACAATTTGCATATTCTACCATCCCAG
Found at i:57134872 original size:49 final size:49
Alignment explanation
Indices: 57134773--57134892 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
57134763 GCCCGGCAAC
* *
57134773 GATGATTTTCACTAATTT-TATATTCTACCATCCCAGGTGGCGCAACAAT
1 GATGGTTTTCAC-AATTTGCATATTCTACCATCCCAGGTGGCGCAACAAT
** *
57134822 GATGGTTTTCACAATTTGCATATTCTACCATCTTAGGTGGCTCGAA-AAT
1 GATGGTTTTCACAATTTGCATATTCTACCATCCCAGGTGGCGC-AACAAT
* **
57134871 GATGGCTTTCACTGTTTGCATA
1 GATGGTTTTCACAATTTGCATA
57134893 CTGTTTGCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 5 0.08
49 54 0.89
50 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (49 bp):
GATGGTTTTCACAATTTGCATATTCTACCATCCCAGGTGGCGCAACAAT
Found at i:57136784 original size:16 final size:16
Alignment explanation
Indices: 57136763--57136795 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57136753 TATTATTTTC
*
57136763 TTATATATTATGAAAT
1 TTATATAATATGAAAT
57136779 TTATATAATATGAAAT
1 TTATATAATATGAAAT
57136795 T
1 T
57136796 GAAATATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TTATATAATATGAAAT
Found at i:57145150 original size:86 final size:85
Alignment explanation
Indices: 57144976--57145397 Score: 390
Period size: 86 Copynumber: 4.9 Consensus size: 85
57144966 TAAAATATTG
* * * *
57144976 GTGTGCCAGTATAGTTGCTT-TAGTTTATCT-ATTGATGCATTGTGTGTTCTAGTATAGTTACTT
1 GTGTGCCAATATAGTTGCTTCGA-TTTATCTGA-TGATGCATTGTGTGTGCCAGTATAGTTACTT
* * *
57145039 CG-ATATACCTGATCATGTACTGT
64 CGTATAT-TC-GATGATGCACTGT
* * * * * * *
57145062 GTGTGTCAGTATAGTTGCCTCGATTTATCTGATGATGTACTGTGTGTGCTAGTATAGTTTCTTC-
1 GTGTGCCAATATAGTTGCTTCGATTTATCTGATGATGCATTGTGTGTGCCAGTATAGTTACTTCG
* * * *
57145126 TTTTTTCGATAATGCACTGC
66 TATATTCGATGATGCACTGT
* * * *
57145146 GTGTGCCAATATAATTGCTATTG-TTTATCAGATGATGCATAGTGTGTGCCAGTATAGTTACTTC
1 GTGTGCCAATATAGTTGCT-TCGATTTATCTGATGATGCATTGTGTGTGCCAGTATAGTTACTTC
57145210 GGTATATTCGATGATGCACTGT
65 -GTATATTCGATGATGCACTGT
* * * * * * * * * *
57145232 ATATGCCAATATAGTTGTTTCAATATATCTGATGATGTATTATGTATGCTAGTATGGTTACTTCG
1 GTGTGCCAATATAGTTGCTTCGATTTATCTGATGATGCATTGTGTGTGCCAGTATAGTTACTTC-
* *
57145297 GTATATCCAATGATGCACTGT
65 GTATATTCGATGATGCACTGT
* *
57145318 GTGTGTCAATATAGTTGCTTCGGTTTATC-GATGATGCATTGTGTGTGCCAGTATAGTTACTTCA
1 GTGTGCCAATATAGTTGCTTCGATTTATCTGATGATGCATTGTGTGTGCCAGTATAGTTACTTC-
57145382 GTATA-TCTGATGATGC
65 GTATATTC-GATGATGC
57145398 GTTACGAAGC
Statistics
Matches: 269, Mismatches: 59, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
84 61 0.23
85 45 0.17
86 161 0.60
87 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (85 bp):
GTGTGCCAATATAGTTGCTTCGATTTATCTGATGATGCATTGTGTGTGCCAGTATAGTTACTTCG
TATATTCGATGATGCACTGT
Found at i:57145223 original size:43 final size:42
Alignment explanation
Indices: 57144976--57145397 Score: 283
Period size: 43 Copynumber: 9.9 Consensus size: 42
57144966 TAAAATATTG
* ** * * *
57144976 GTGTGCCAGTATAGTTGCTTTAGTTTATCTATTGATGCATTGT
1 GTGTGCCAGTATAGTTACTTCGGTATATCGA-TGATGCACTGT
* * * * * *
57145019 GTGTTCTAGTATAGTTACTTCGATATACCTGATCATGTACTGT
1 GTGTGCCAGTATAGTTACTTCGGTATATC-GATGATGCACTGT
* * * * * *
57145062 GTGTGTCAGTATAGTTGCCTCGATTTATCTGATGATGTACTGT
1 GTGTGCCAGTATAGTTACTTCGGTATATC-GATGATGCACTGT
* * * * * * *
57145105 GTGTGCTAGTATAGTTTCTTC-TTTTTTCGATAATGCACTGC
1 GTGTGCCAGTATAGTTACTTCGGTATATCGATGATGCACTGT
* * * * *
57145146 GTGTGCCAATATAATTGCTAT-TGTTTATCAGATGATGCA-TAGT
1 GTGTGCCAGTATAGTTACT-TCGGTATATC-GATGATGCACT-GT
57145189 GTGTGCCAGTATAGTTACTTCGGTATATTCGATGATGCACTGT
1 GTGTGCCAGTATAGTTACTTCGGTATA-TCGATGATGCACTGT
* * * ** ** * * *
57145232 ATATGCCAATATAGTTGTTTCAATATATCTGATGATGTATTAT
1 GTGTGCCAGTATAGTTACTTCGGTATATC-GATGATGCACTGT
* * * *
57145275 GTATGCTAGTATGGTTACTTCGGTATATCCAATGATGCACTGT
1 GTGTGCCAGTATAGTTACTTCGGTATAT-CGATGATGCACTGT
* * * * *
57145318 GTGTGTCAATATAGTTGCTTCGGTTTATCGATGATGCATTGT
1 GTGTGCCAGTATAGTTACTTCGGTATATCGATGATGCACTGT
*
57145360 GTGTGCCAGTATAGTTACTTCAGTATATCTGATGATGC
1 GTGTGCCAGTATAGTTACTTCGGTATATC-GATGATGC
57145398 GTTACGAAGC
Statistics
Matches: 290, Mismatches: 78, Indels: 22
0.74 0.20 0.06
Matches are distributed among these distances:
41 25 0.09
42 51 0.18
43 209 0.72
44 5 0.02
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (42 bp):
GTGTGCCAGTATAGTTACTTCGGTATATCGATGATGCACTGT
Found at i:57145263 original size:170 final size:170
Alignment explanation
Indices: 57144976--57145397 Score: 474
Period size: 170 Copynumber: 2.5 Consensus size: 170
57144966 TAAAATATTG
* * * *
57144976 GTGTGCCAGTATAGTTGCTTTAGTTTATCTA-TTGATGCATTGTGTGTTCTAGTATAGTTACTTC
1 GTGTGCCAATATAGTTGCTTT-GTTTATC-AGATGATGCATTGTGTGTGCCAGTATAGTTACTTC
* * * * * * * * * * *
57145040 GATATACCTGATCATGTACTGTGTGTGTCAGTATAGTTGCCTCGATTTATCTGATGATGTACTGT
64 GGTATATCTGATGATGCACTGTATATGCCAATATAGTTGCCTCAATATATCTGATGATGTACTAT
* * * * * *
57145105 GTGTGCTAGTATAGTTTCTTC-TTTTTTCGATAATGCACTGC
129 GTATGCTAGTATAGTTACTTCGTATATCCAATAATGCACTGC
* *
57145146 GTGTGCCAATATAATTGCTATTGTTTATCAGATGATGCATAGTGTGTGCCAGTATAGTTACTTCG
1 GTGTGCCAATATAGTTGCT-TTGTTTATCAGATGATGCATTGTGTGTGCCAGTATAGTTACTTCG
** *
57145211 GTATAT-TCGATGATGCACTGTATATGCCAATATAGTTGTTTCAATATATCTGATGATGTATTAT
65 GTATATCT-GATGATGCACTGTATATGCCAATATAGTTGCCTCAATATATCTGATGATGTACTAT
* * *
57145275 GTATGCTAGTATGGTTACTTCGGTATATCCAATGATGCACTGT
129 GTATGCTAGTATAGTTACTTC-GTATATCCAATAATGCACTGC
* * *
57145318 GTGTGTCAATATAGTTGCTTCGGTTTATC-GATGATGCATTGTGTGTGCCAGTATAGTTACTTCA
1 GTGTGCCAATATAGTTGCTT-TGTTTATCAGATGATGCATTGTGTGTGCCAGTATAGTTACTTCG
57145382 GTATATCTGATGATGC
65 GTATATCTGATGATGC
57145398 GTTACGAAGC
Statistics
Matches: 211, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
169 2 0.01
170 120 0.57
171 50 0.24
172 39 0.18
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (170 bp):
GTGTGCCAATATAGTTGCTTTGTTTATCAGATGATGCATTGTGTGTGCCAGTATAGTTACTTCGG
TATATCTGATGATGCACTGTATATGCCAATATAGTTGCCTCAATATATCTGATGATGTACTATGT
ATGCTAGTATAGTTACTTCGTATATCCAATAATGCACTGC
Found at i:57147621 original size:46 final size:46
Alignment explanation
Indices: 57147561--57147742 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
57147551 TTTGACATGA
* * * * * *
57147561 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
57147607 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
57147653 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
57147699 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
57147743 AGAGCACACT
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 4 0.03
46 124 0.97
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:57150223 original size:30 final size:30
Alignment explanation
Indices: 57150167--57150234 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
57150157 CACCCTCAAA
* *
57150167 ATATTTGCACTATTAGTCCTTCAATTTTTC
1 ATATTTACACTATTAATCCTTCAATTTTTC
* *
57150197 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAATTTTTC
57150226 AGTATTTAC
1 A-TATTTAC
57150235 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAATTTTTC
Found at i:57152107 original size:28 final size:26
Alignment explanation
Indices: 57152075--57152135 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 26
57152065 AAAATCACAA
57152075 AAAAAAATTGTAAAATTTAAAATATTTAT
1 AAAAAAATT-TAAAA-TTAAAATA-TTAT
*
57152104 AAAAAAATTCAAACATTAAAATATTAT
1 AAAAAAATTTAAA-ATTAAAATATTAT
57152131 AAAAA
1 AAAAA
57152136 TTATAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.30
28 11 0.37
29 10 0.33
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAAAAATTTAAAATTAAAATATTAT
Found at i:57153997 original size:27 final size:27
Alignment explanation
Indices: 57153957--57154032 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
57153947 GGCAAAACAA
** *
57153957 TCATTTTACCCTACAGGGGTATGTCGG
1 TCATTTTATACTACAAGGGTATGTCGG
* *
57153984 TCATTTTATGCTACAAGGGTATTTCGG
1 TCATTTTATACTACAAGGGTATGTCGG
*
57154011 TAATTTTATACTACAAGGGTAT
1 TCATTTTATACTACAAGGGTAT
57154033 TTTGATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (27 bp):
TCATTTTATACTACAAGGGTATGTCGG
Found at i:57154033 original size:27 final size:27
Alignment explanation
Indices: 57153967--57154045 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
57153957 TCATTTTACC
* * * *
57153967 CTACAGGGGTATGTCGGTCATTTTATG
1 CTACAAGGGTATTTCGGTAATTTTATA
57153994 CTACAAGGGTATTTCGGTAATTTTATA
1 CTACAAGGGTATTTCGGTAATTTTATA
* *
57154021 CTACAAGGGTATTTTGATAATTTTA
1 CTACAAGGGTATTTCGGTAATTTTA
57154046 CAAATCGAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (27 bp):
CTACAAGGGTATTTCGGTAATTTTATA
Found at i:57154056 original size:27 final size:27
Alignment explanation
Indices: 57153999--57154420 Score: 376
Period size: 27 Copynumber: 15.7 Consensus size: 27
57153989 TTATGCTACA
* * * *
57153999 AGGGTATTTCGGTAATTTTA-TACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
57154026 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
57154053 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
57154080 AGGGTATTT-TAGTAATTTTACAAGTCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
57154107 AGGGTATTTC-AGTAATTTAAAAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
57154134 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
57154161 AGGGTGTTTCGGTAATTTTACAACTCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
57154188 ATGGTGTTTC-AGTAATTTTACAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * * *
57154215 AGGGTGTTTCAATAATTTCACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
57154242 GGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
57154269 ATGGTGTTTC-AGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * * *
57154296 ATGGTGTTTC-AGTAATTTTATAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
57154323 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
57154350 AGGGTATTTCGGTAATTTTACAAA-CG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
57154376 -GGAGTATTTTGGTAATTTTACAAA-CTG
1 AGG-GTATTTCGATAATTTTACAAATC-G
* *
57154403 GGGGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
57154421 CTTTTTATTA
Statistics
Matches: 337, Mismatches: 47, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.01
26 24 0.07
27 306 0.91
28 5 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:57157597 original size:17 final size:19
Alignment explanation
Indices: 57157575--57157618 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57157565 ACAATAATAT
57157575 AAAATA-AT-GATATGTAC
1 AAAATATATAGATATGTAC
*
57157592 AAAATATATATATATGTAC
1 AAAATATATAGATATGTAC
*
57157611 ATAATATA
1 AAAATATA
57157619 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 15 0.65
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAATATATAGATATGTAC
Found at i:57158430 original size:13 final size:13
Alignment explanation
Indices: 57158388--57158435 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
57158378 TGAATGTTCC
* *
57158388 TTTTTTGTTGTTT
1 TTTTTTGCTGATT
57158401 TTTTTTGCTGGAAATT
1 TTTTTTGCT-G--ATT
57158417 TTTTTTGCTGATT
1 TTTTTTGCTGATT
57158430 TTTTTT
1 TTTTTT
57158436 TGCTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 17 0.57
14 1 0.03
15 1 0.03
16 11 0.37
ACGTcount: A:0.08, C:0.04, G:0.15, T:0.73
Consensus pattern (13 bp):
TTTTTTGCTGATT
Found at i:57158446 original size:13 final size:14
Alignment explanation
Indices: 57158388--57158439 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
57158378 TGAATGTTCC
*
57158388 TTTTTTGTTG-TTT
1 TTTTTTGCTGATTT
*
57158401 TTTTTTGCTGGAAATT
1 TTTTTTGCT-G-ATTT
57158417 TTTTTTGCTGATTT
1 TTTTTTGCTGATTT
57158431 TTTTTTGCT
1 TTTTTTGCT
57158440 CTTTTTTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 8 0.24
14 13 0.39
15 1 0.03
16 11 0.33
ACGTcount: A:0.08, C:0.06, G:0.15, T:0.71
Consensus pattern (14 bp):
TTTTTTGCTGATTT
Found at i:57158717 original size:30 final size:30
Alignment explanation
Indices: 57158662--57158764 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 30
57158652 GTAATTTTTA
* * *
57158662 GAAAATTTA-GGGTTAAAGTGTAATTTAAG
1 GAAAGTTTAGGGGTCAAAGTGAAATTTAAG
* * *
57158691 GAAATTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAGTGAAATTTAAG
* *
57158721 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAGTGAAATTTAAG
57158750 GAAAAGTTTAGGGGT
1 G-AAAGTTTAGGGGT
57158765 AAAAATGCAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
29 10 0.16
30 51 0.84
ACGTcount: A:0.41, C:0.02, G:0.26, T:0.31
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAGTGAAATTTAAG
Found at i:57158768 original size:29 final size:29
Alignment explanation
Indices: 57158658--57158777 Score: 100
Period size: 30 Copynumber: 4.1 Consensus size: 29
57158648 AAATGTAATT
* * *
57158658 TTTAGAAAA-TTTA-GGGTTAAAGTGTAA
1 TTTAGAAAAGTTTAGGGGTCAAAATGAAA
* * * *
57158685 TTTAAGGAAATTTTAGGGGTCTAAGTGAAA
1 TTT-AGAAAAGTTTAGGGGTCAAAATGAAA
* *
57158715 TTTAAAGAAAGTTTAAGGGTCAAAATGAAA
1 TTTAGA-AAAGTTTAGGGGTCAAAATGAAA
* *
57158745 TTTAGGAAAAGTTTAGGGGTAAAAATGCAA
1 TTTA-GAAAAGTTTAGGGGTCAAAATGAAA
57158775 TTT
1 TTT
57158778 TTATTTTTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.04
28 5 0.07
29 5 0.07
30 60 0.81
31 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
TTTAGAAAAGTTTAGGGGTCAAAATGAAA
Found at i:57158777 original size:60 final size:59
Alignment explanation
Indices: 57158661--57158777 Score: 128
Period size: 60 Copynumber: 2.0 Consensus size: 59
57158651 TGTAATTTTT
* * * * ** *
57158661 AGAAAATTTAGGGTTAAAGTGTAATTTAAGGAAATTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTAAAAATGAAATTTAA
* *
57158720 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTAAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTAAAAATGAAATTT
57158778 TTATTTTTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 11 0.23
60 36 0.77
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.31
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTAAAAATGAAATTTAA
Found at i:57158805 original size:24 final size:24
Alignment explanation
Indices: 57158774--57158819 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
57158764 TAAAAATGCA
57158774 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTGAAAATTTTTT
*
57158798 ATTTTTATTTTTTTAAAATTTT
1 ATTTTTATTTTTTGAAAATTTT
57158820 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTGAAAATTTTTT
Found at i:57159071 original size:10 final size:10
Alignment explanation
Indices: 57159056--57159216 Score: 63
Period size: 10 Copynumber: 16.5 Consensus size: 10
57159046 TGACATATGG
57159056 AAAAAATTAT
1 AAAAAATTAT
57159066 -AAAAA--AT
1 AAAAAATTAT
*
57159073 -AAAAATCA-
1 AAAAAATTAT
*
57159081 ATAAAAGTTAT
1 A-AAAAATTAT
57159092 -AAAAATTAT
1 AAAAAATTAT
* **
57159101 TAAATTTTAAT
1 AAAAAATT-AT
*
57159112 AAAAAAATATT
1 AAAAAATTA-T
* *
57159123 TAAAATTTAT
1 AAAAAATTAT
* *
57159133 TA-AAATTAG
1 AAAAAATTAT
57159142 AAAAAAATTAT
1 A-AAAAATTAT
*
57159153 -AAAAATCAT
1 AAAAAATTAT
57159162 AAAAAA-TAT
1 AAAAAATTAT
*
57159171 AAAAAAATTGT
1 -AAAAAATTAT
* *
57159182 AGAATATTAT
1 AAAAAATTAT
*
57159192 -AAAAATCAT
1 AAAAAATTAT
57159201 AAACAAATTAT
1 AAA-AAATTAT
57159212 AAAAA
1 AAAAA
57159217 TGCATAAAAA
Statistics
Matches: 110, Mismatches: 26, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
7 7 0.06
9 35 0.32
10 38 0.35
11 30 0.27
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:57159093 original size:9 final size:9
Alignment explanation
Indices: 57159057--57159217 Score: 75
Period size: 9 Copynumber: 17.7 Consensus size: 9
57159047 GACATATGGA
57159057 AAAAATTAT
1 AAAAATTAT
57159066 AAAAA--AT
1 AAAAATTAT
*
57159073 AAAAATCAAT
1 AAAAAT-TAT
*
57159083 AAAAGTTAT
1 AAAAATTAT
57159092 AAAAATTAT
1 AAAAATTAT
* *
57159101 -TAAATTTT
1 AAAAATTAT
57159109 AATAAA--A-
1 AA-AAATTAT
*
57159116 AAATATT-T
1 AAAAATTAT
*
57159124 AAAATTTAT
1 AAAAATTAT
* *
57159133 TAAAATTAGAA
1 AAAAATT--AT
57159144 AAAAATTAT
1 AAAAATTAT
*
57159153 AAAAATCAT
1 AAAAATTAT
*
57159162 AAAAAATATAA
1 -AAAAAT-TAT
*
57159173 AAAAATTGT
1 AAAAATTAT
*
57159182 AGAATATTAT
1 A-AAAATTAT
*
57159192 AAAAATCAT
1 AAAAATTAT
57159201 AAACAAATTAT
1 -AA-AAATTAT
57159212 AAAAAT
1 AAAAAT
57159218 GCATAAAAAA
Statistics
Matches: 111, Mismatches: 25, Indels: 32
0.66 0.15 0.19
Matches are distributed among these distances:
6 2 0.02
7 9 0.08
8 11 0.10
9 42 0.38
10 33 0.30
11 14 0.13
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:57159122 original size:21 final size:22
Alignment explanation
Indices: 57159092--57159137 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
57159082 TAAAAGTTAT
* *
57159092 AAAAATTA-TTAAATTTTAATA
1 AAAAAATATTTAAAATTTAATA
*
57159113 AAAAAATATTTAAAATTTATTA
1 AAAAAATATTTAAAATTTAATA
57159135 AAA
1 AAA
57159138 TTAGAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAAATATTTAAAATTTAATA
Found at i:57159147 original size:20 final size:20
Alignment explanation
Indices: 57159124--57159227 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
57159114 AAAAATATTT
* *
57159124 AAAATTTATTAAAATTAGAA
1 AAAATTTATAAAAATCAGAA
* *
57159144 AAAAATTATAAAAATCATAA
1 AAAATTTATAAAAATCAGAA
* * * *
57159164 AAAATATAAAAAAAT-TG-T
1 AAAATTTATAAAAATCAGAA
* *
57159182 AGAATATTATAAAAATCATAA
1 AAAAT-TTATAAAAATCAGAA
*
57159203 ACAAA-TTATAAAAATGCATAA
1 A-AAATTTATAAAAAT-CAGAA
57159224 AAAA
1 AAAA
57159228 GGTCCTTTAA
Statistics
Matches: 62, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
18 4 0.06
19 8 0.13
20 41 0.66
21 7 0.11
22 2 0.03
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATTTATAAAAATCAGAA
Found at i:57159158 original size:30 final size:30
Alignment explanation
Indices: 57159056--57159226 Score: 106
Period size: 30 Copynumber: 5.8 Consensus size: 30
57159046 TGACATATGG
*
57159056 AAAAAATTATAAAAA---ATAAAAATCA-A
1 AAAAAATTATAAAAATTTATAAAAATTATA
* * **
57159082 TAAAAGTTATAAAAA-TTATTAAATTTTAATA
1 AAAAAATTATAAAAATTTA-TAAAAATT-ATA
* * *
57159113 AAAAAA-TATTTAAAATTTATTAAAATTAGA
1 AAAAAATTA-TAAAAATTTATAAAAATTATA
* *
57159143 AAAAAATTATAAAAA-TCATAAAAAATATA
1 AAAAAATTATAAAAATTTATAAAAATTATA
* * *
57159172 AAAAAATTGT-AGAATATTATAAAAATCATA
1 AAAAAATTATAAAAAT-TTATAAAAATTATA
* **
57159202 AACAAATTATAAAAATGCATAAAAA
1 AAAAAATTATAAAAATTTATAAAAA
57159227 AGGTCCTTTA
Statistics
Matches: 107, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
26 13 0.12
28 4 0.04
29 24 0.22
30 42 0.39
31 21 0.20
32 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
AAAAAATTATAAAAATTTATAAAAATTATA
Found at i:57159209 original size:59 final size:60
Alignment explanation
Indices: 57159110--57159227 Score: 159
Period size: 59 Copynumber: 2.0 Consensus size: 60
57159100 TTAAATTTTA
* * *
57159110 ATAAAAAAATATTTAAAATTTATTAAAATTAGAAAAAAATTATAAAAAT-CATAAAAAAT
1 ATAAAAAAATATGTAAAATTTATAAAAATCAGAAAAAAATTATAAAAATGCATAAAAAAT
* * *
57159169 ATAAAAAAAT-TGTAGAATATTATAAAAATCATAAACAAATTATAAAAATGCATAAAAAA
1 ATAAAAAAATATGTAAAAT-TTATAAAAATCAGAAAAAAATTATAAAAATGCATAAAAAA
57159228 GGTCCTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
58 6 0.12
59 36 0.71
60 9 0.18
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (60 bp):
ATAAAAAAATATGTAAAATTTATAAAAATCAGAAAAAAATTATAAAAATGCATAAAAAAT
Found at i:57159226 original size:11 final size:10
Alignment explanation
Indices: 57159143--57159227 Score: 52
Period size: 10 Copynumber: 8.6 Consensus size: 10
57159133 TAAAATTAGA
*
57159143 AAAAAATTAT
1 AAAAAATCAT
57159153 -AAAAATCAT
1 AAAAAATCAT
57159162 AAAAAAT-AT
1 AAAAAATCAT
**
57159171 AAAAAAATTGT
1 -AAAAAATCAT
* * *
57159182 AGAATATTAT
1 AAAAAATCAT
57159192 -AAAAATCAT
1 AAAAAATCAT
*
57159201 AAACAAATTAT
1 AAA-AAATCAT
57159212 -AAAAATGCAT
1 AAAAAAT-CAT
57159222 AAAAAA
1 AAAAAA
57159228 GGTCCTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
9 20 0.34
10 26 0.45
11 12 0.21
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAAATCAT
Found at i:57159442 original size:38 final size:36
Alignment explanation
Indices: 57159399--57159528 Score: 104
Period size: 38 Copynumber: 3.4 Consensus size: 36
57159389 TAGTATGATA
57159399 ATTTTTATATATTTTTTATGAATTTTATATTTCTTTAC
1 ATTTTTATATATTTTTTAT-AATTTTATATTT-TTTAC
* * *
57159437 ATTTTTTTATAATTTTCTTACAATTTTATAAATTTTTT-T
1 ATTTTTATAT-ATTTT-TTATAATTTTAT--ATTTTTTAC
* **
57159476 ATTTTT-TCTATATTACTATATATTTTATATTTTTTAC
1 ATTTTTATATAT-TTTTTATA-ATTTTATATTTTTTAC
57159513 GATTTTTATA-ATTTTT
1 -ATTTTTATATATTTTT
57159529 CCCCTTTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 19
0.71 0.11 0.19
Matches are distributed among these distances:
36 7 0.10
37 7 0.10
38 28 0.39
39 20 0.28
40 6 0.08
41 4 0.06
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (36 bp):
ATTTTTATATATTTTTTATAATTTTATATTTTTTAC
Found at i:57159457 original size:21 final size:22
Alignment explanation
Indices: 57159421--57159476 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 22
57159411 TTTTTATGAA
*
57159421 TTTTAT-A-TTTCTTTACATTT
1 TTTTATAATTTTCTTTACAATT
57159441 TTTTATAATTTTC-TTACAATT
1 TTTTATAATTTTCTTTACAATT
*
57159462 TTATA-AATTTT-TTTA
1 TTTTATAATTTTCTTTA
57159477 TTTTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 15 0.48
21 12 0.39
22 4 0.13
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATAATTTTCTTTACAATT
Found at i:57159808 original size:87 final size:87
Alignment explanation
Indices: 57159709--57160034 Score: 279
Period size: 87 Copynumber: 3.6 Consensus size: 87
57159699 TCAAAGGGCC
* * *
57159709 TTTTTTACACATTTTGATAGTTCAAA-TATTCAATTGAGTGCAAAAAAAAATAGAGGCTTAATTG
1 TTTTTTATACATTATGA-AGTTCAAAGTACTCAATTGAGTGCAAAAAAAAATAGAGGCTTAATTG
57159773 CTTTGTTTGAAAAAGTTTGAA-GT
65 CTTTGTTTGAAAAAGTTT-AAGGT
* * *
57159796 TTTTTTATACATTATGAA-ATCTAAAGTACCCAATTGAGTGCAAAAAAAAAAAAAGAGTAGGGGC
1 TTTTTTATACATTATGAAGTTC-AAAGTACTCAATTGAGTGC-----AAAAAAAA-A-TAGAGGC
*
57159860 TTAATTGCTTTTTTTGAAAAAGTTTAAGGGT
58 TTAATTGCTTTGTTTGAAAAAGTTTAA-GGT
57159891 TTTTTTGATACATTATGAAAGTT-AAAGTACTCAATTGAGTG--AAAAAAAATAGAGGCTTAATG
1 TTTTTT-ATACATTATG-AAGTTCAAAGTACTCAATTGAGTGCAAAAAAAAATAGAGGCTTAA--
** * *
57159953 GTTTTTTTTTTTTTGAAAAAGTTTGAGGGATT
62 ---TTGCTTTGTTTGAAAAAGTTT-AAGG--T
* **
57159985 TTTTTTATACATTATGAAAGTT-AAAGTACCCAATTGAGTATAAAAAAAAA
1 TTTTTTATACATTATG-AAGTTCAAAGTACTCAATTGAGTGCAAAAAAAAA
57160035 GATACTTTTT
Statistics
Matches: 200, Mismatches: 15, Indels: 40
0.78 0.06 0.16
Matches are distributed among these distances:
85 2 0.01
86 4 0.02
87 38 0.19
88 1 0.00
89 7 0.04
92 29 0.14
93 36 0.18
94 37 0.19
95 16 0.08
96 27 0.14
97 2 0.01
98 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (87 bp):
TTTTTTATACATTATGAAGTTCAAAGTACTCAATTGAGTGCAAAAAAAAATAGAGGCTTAATTGC
TTTGTTTGAAAAAGTTTAAGGT
Found at i:57159894 original size:94 final size:93
Alignment explanation
Indices: 57159750--57160034 Score: 327
Period size: 92 Copynumber: 3.1 Consensus size: 93
57159740 AATTGAGTGC
*
57159750 AAAAAAAA-ATAGAGGCTTAATTGCTTTGTTTGAAAAAGTTTGAA--GTTTTTTTATACATTATG
1 AAAAAAAAGATAGAGGCTTAATTGCTTTTTTTGAAAAAGTTT-AAGGGTTTTTTTATACATTATG
57159812 AAA-TCTAAAGTACCCAATTGAGTGCAAAAA
65 AAAGT-TAAAGTACCCAATTGAGTG-AAAAA
*
57159842 AAAAAAAAGAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGTTTTTTTGATACATTAT
1 AAAAAAAAGA-TAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGTTTTTTT-ATACATTAT
*
57159907 GAAAGTTAAAGTACTCAATTGAGTGAAAAA
64 GAAAGTTAAAGTACCCAATTGAGTGAAAAA
* * * * ** *
57159937 AAATAGAGGCTTA-ATGG-TT--TTTTTTTTTTTGAAAAAGTTTGAGGGATTTTTTTTATACATT
1 AAAAAAAAG-ATAGA-GGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGG--TTTTTTTATACATT
*
57159998 ATGAAAGTTAAAGTACCCAATTGAGT-ATAAA
62 ATGAAAGTTAAAGTACCCAATTGAGTGAAAAA
57160029 AAAAAA
1 AAAAAA
57160035 GATACTTTTT
Statistics
Matches: 168, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
92 39 0.23
93 35 0.21
94 39 0.23
95 23 0.14
96 31 0.18
97 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (93 bp):
AAAAAAAAGATAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGTTTTTTTATACATTATGA
AAGTTAAAGTACCCAATTGAGTGAAAAA
Found at i:57160004 original size:93 final size:93
Alignment explanation
Indices: 57159739--57160033 Score: 322
Period size: 93 Copynumber: 3.2 Consensus size: 93
57159729 TTCAAATATT
* *
57159739 CAATTGAGTGCAAAAAAAAATAGAGGCTTAA----TTGCTTTGTTTGAAAAAGTTTGA---AGTT
1 CAATTGAGTGC-AAAAAAAATAGAGGCTTAAGGTTTTGCTTTTTTTGAAAAAGTTTGAGGGATTT
57159797 TTTTTATACATTATGAAA-TCTAAAGTACC
65 TTTTTATACATTATGAAAGT-TAAAGTACC
* * * ** * *
57159826 CAATTGAGTGCAAAAAAAAAAAAAGAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGG-
1 CAATTGAGTGCAAAAAAAATAGAGGCTTA-AGG-TT--TTGCTTTTTTTGAAAAAGTTTGAGGGA
* *
57159890 TTTTTTTGATACATTATGAAAGTTAAAGTACT
62 TTTTTTTTATACATTATGAAAGTTAAAGTACC
**
57159922 CAATTGAGTG-AAAAAAAATAGAGGCTTAATGGTTTTTTTTTTTTTGAAAAAGTTTGAGGGATTT
1 CAATTGAGTGCAAAAAAAATAGAGGCTTAA-GGTTTTGCTTTTTTTGAAAAAGTTTGAGGGATTT
57159986 TTTTTATACATTATGAAAGTTAAAGTACC
65 TTTTTATACATTATGAAAGTTAAAGTACC
**
57160015 CAATTGAGTATAAAAAAAA
1 CAATTGAGTGCAAAAAAAA
57160034 AGATACTTTT
Statistics
Matches: 170, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
86 13 0.08
87 11 0.06
92 23 0.14
93 39 0.23
94 31 0.18
95 15 0.09
96 37 0.22
97 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (93 bp):
CAATTGAGTGCAAAAAAAATAGAGGCTTAAGGTTTTGCTTTTTTTGAAAAAGTTTGAGGGATTTT
TTTTATACATTATGAAAGTTAAAGTACC
Found at i:57163831 original size:23 final size:23
Alignment explanation
Indices: 57163805--57163853 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
57163795 TTGGATTTGT
57163805 TTCCAACTTGATTTGTTTAAACA
1 TTCCAACTTGATTTGTTTAAACA
57163828 TTCCAACTTGATTTGTTTAAACA
1 TTCCAACTTGATTTGTTTAAACA
57163851 TTC
1 TTC
57163854 TTTTAAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (23 bp):
TTCCAACTTGATTTGTTTAAACA
Found at i:57173684 original size:2 final size:2
Alignment explanation
Indices: 57173677--57174045 Score: 205
Period size: 2 Copynumber: 182.0 Consensus size: 2
57173667 TTAAAGAATG
* * *
57173677 AT AT AT AT CAT AT CT AT -T AT AT AT CT AT AT AT A- ACT TT CA-
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT
* * * *
57173717 AT A- AT AT AT AT CT AT CT AT AT AT AT AT AT GAC AT AT AT GAT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT
*
57173760 AT AT AT AT AT AT GAT AT AT AT AT AT -T AT CT AT -T AT AT CAT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * * *
57173802 CT AT AT AT AT -T AT -T GAA AGT -T AT AT AT AG AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
57173843 AT GAT AT AT AT AT CT AT AT AT AT AT GAT AT AT AT GAT CT AT AT
1 AT -AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT
* * * *
57173886 AT AT AG AT CAT AT AT AT CAT AT AT AT AG AT AG AT AG AT AT AT AT
1 AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
57173930 AT -T AT -T GAA AGT -T AT AT AT AT GAT AT AT AT AT -T AT CT AT
1 AT AT AT AT -AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* *
57173969 -T AT AT AT CAT AT AT AT A- ACT TT CA- AT A- AT AT AT AT AT CT
1 AT AT AT AT -AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT
* *
57174008 AT AT AT AT AT AT AT GAC AT AT AT GAT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT -AT AT AT AT AT AT AT
57174046 TGAAATGATG
Statistics
Matches: 280, Mismatches: 48, Indels: 78
0.69 0.12 0.19
Matches are distributed among these distances:
1 17 0.06
2 237 0.85
3 26 0.09
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:57173754 original size:13 final size:13
Alignment explanation
Indices: 57173720--57174043 Score: 160
Period size: 13 Copynumber: 24.9 Consensus size: 13
57173710 ACTTTCAATA
* *
57173720 ATATATATCTATCT
1 ATATATATATAT-G
57173734 ATATATATATATG
1 ATATATATATATG
* *
57173747 ACATATATGATCT-
1 ATATATAT-ATATG
57173760 ATATATATATATG
1 ATATATATATATG
*
57173773 ATATATATATATT
1 ATATATATATATG
* *
57173786 ATCTAT-TATATC
1 ATATATATATATG
*
57173798 ATATCTATATAT-
1 ATATATATATATG
*
57173810 AT-TAT-TGA-AAG
1 ATATATAT-ATATG
57173821 -T-TATATATA-G
1 ATATATATATATG
*
57173831 ATATCTATATAT-
1 ATATATATATATG
57173843 ATGATATATATAT-
1 AT-ATATATATATG
*
57173856 CTATATATATATG
1 ATATATATATATG
*
57173869 ATATATATGATCT-
1 ATATATAT-ATATG
* *
57173882 ATATATATAGATC
1 ATATATATATATG
57173895 ATATATATCATAT-
1 ATATATAT-ATATG
* *
57173908 ATATAGATAGATAG
1 ATATATATATAT-G
57173922 ATATATATATTATTG
1 ATATATATA-TA-TG
*
57173937 AAAGTTATATATATG
1 ATA--TATATATATG
57173952 ATATATATAT-T-
1 ATATATATATATG
* *
57173963 ATCTATTATATATC
1 ATATA-TATATATG
* *
57173977 ATATATATAACTTTCA
1 ATATATAT-A-TAT-G
57173993 ATAATATATATAT-
1 AT-ATATATATATG
*
57174006 CTATATATATAT-
1 ATATATATATATG
*
57174018 ATATGACATATATG
1 ATAT-ATATATATG
*
57174032 ATCTATATATAT
1 ATATATATATAT
57174044 ATTGAAATGA
Statistics
Matches: 243, Mismatches: 37, Indels: 61
0.71 0.11 0.18
Matches are distributed among these distances:
10 8 0.03
11 10 0.04
12 57 0.23
13 102 0.42
14 36 0.15
15 12 0.05
16 6 0.02
17 12 0.05
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (13 bp):
ATATATATATATG
Found at i:57173930 original size:120 final size:122
Alignment explanation
Indices: 57173735--57173985 Score: 343
Period size: 122 Copynumber: 2.1 Consensus size: 122
57173725 TATCTATCTA
* * * *
57173735 TATATATATATGACATATATGATCTATATATATATATGATATATATATATTATCTATTATATCAT
1 TATATATATATGACATATATGATCTATATATATAGATCATATATATATATTATATATGATATCAT
** *
57173800 ATCTATATATATTATTGAAAGTTATATATA-GATATCTATA-TATATGATATATATATC
66 AGATATATATATTATTGAAAGTTATATATATGATATATATATTATAT-AT-TATATATC
* *
57173857 TATATATATATGATATATATGATCTATATATATAGATCATATATATCATA-TATATA-GATA-GA
1 TATATATATATGACATATATGATCTATATATATAGATCATATATAT-ATATTATATATGATATCA
*
57173919 TAGATATATATATTATTGAAAGTTATATATATGATATATATATTATCTATTATATATC
65 TAGATATATATATTATTGAAAGTTATATATATGATATATATATTATATATTATATATC
57173977 -ATATATATA
1 TATATATATA
57173986 ACTTTCAATA
Statistics
Matches: 116, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
119 9 0.08
120 38 0.33
121 14 0.12
122 52 0.45
123 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (122 bp):
TATATATATATGACATATATGATCTATATATATAGATCATATATATATATTATATATGATATCAT
AGATATATATATTATTGAAAGTTATATATATGATATATATATTATATATTATATATC
Found at i:57188282 original size:11 final size:11
Alignment explanation
Indices: 57188266--57188291 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57188256 GACCACACTC
57188266 ACACACAATTG
1 ACACACAATTG
57188277 ACACACAATTG
1 ACACACAATTG
57188288 ACAC
1 ACAC
57188292 TAATTCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (11 bp):
ACACACAATTG
Found at i:57196194 original size:93 final size:93
Alignment explanation
Indices: 57196082--57196253 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
57196072 CGCCCATAAG
*
57196082 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
57196146 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
57196175 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57196240 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57196254 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57196248 original size:46 final size:46
Alignment explanation
Indices: 57196075--57196250 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
57196065 TGTAACCCGC
* *
57196075 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
57196121 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57196171 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57196214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57196251 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57206219 original size:93 final size:93
Alignment explanation
Indices: 57206090--57206261 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
57206080 CGCCCATAAG
* * *
57206090 CGAACTTGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAACTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAACTGAACTCGGACTCAACTCA
57206155 AAGAGTTCGGATGCCTAGTTACATCTCA
66 AAGAGTTCGGATGCCTAGTTACATCTCA
* *
57206183 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAACTGAACTCGGACTCAACTC
*
57206247 AACGAGTTCGGATGC
65 AAAGAGTTCGGATGC
57206262 TCAATCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAACTGAACTCGGACTCAACTCA
AAGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57206256 original size:46 final size:46
Alignment explanation
Indices: 57206083--57206258 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
57206073 TGTAACCCGC
* * * *
57206083 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
57206129 CCATAA-CTGAACTCGGACTCAACTCAAAGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGC-GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57206179 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57206222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57206259 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 5 0.05
46 58 0.53
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57206277 original size:46 final size:46
Alignment explanation
Indices: 57206126--57206277 Score: 134
Period size: 46 Copynumber: 3.3 Consensus size: 46
57206116 CAGGCGTTCG
* *
57206126 CATCCATAACTGAACTCGGACTCAACTCAAAGAGTTCGGATGC-CTAGTT
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A--T
* * *** *
57206175 ACAT-CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-G
1 -CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAT
57206219 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAT
1 CATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-AT
57206267 CATCCT-AGTGA
1 CATCCTAAGTGA
57206278 CATGTCACTT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 36 0.43
47 29 0.35
48 8 0.10
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
CATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAT
Found at i:57215807 original size:14 final size:14
Alignment explanation
Indices: 57215788--57215814 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57215778 AGACACGGTC
57215788 GTGTAGTGGTATGA
1 GTGTAGTGGTATGA
57215802 GTGTAGTGGTATG
1 GTGTAGTGGTATG
57215815 GGCCACAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (14 bp):
GTGTAGTGGTATGA
Found at i:57222326 original size:40 final size:40
Alignment explanation
Indices: 57222289--57222512 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
57222279 GCTACTCGTT
* *
57222289 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
57222329 -AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57222368 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57222408 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
57222447 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57222488 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57222513 CATCATTCAA
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 68 0.41
40 86 0.51
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57222392 original size:79 final size:80
Alignment explanation
Indices: 57222289--57222512 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 80
57222279 GCTACTCGTT
* *
57222289 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA-AAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
57222353 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
57222368 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
57222431 GAATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * * * *
57222447 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
57222510 GGA
64 GGA
57222513 CATCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 4 0.03
79 91 0.71
80 34 0.26
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:57230566 original size:38 final size:39
Alignment explanation
Indices: 57230519--57230740 Score: 231
Period size: 40 Copynumber: 5.7 Consensus size: 39
57230509 GCTACTCGTT
* *
57230519 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCG-
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGA
57230557 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCG-A
57230597 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCG-
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGA
* * *
57230635 CACAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CA-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCG-A
** * * * *
57230675 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCG-A
*
57230716 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57230741 CATCATTCAA
Statistics
Matches: 161, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 57 0.35
39 23 0.14
40 70 0.43
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGA
Found at i:57230621 original size:78 final size:79
Alignment explanation
Indices: 57230519--57230740 Score: 290
Period size: 78 Copynumber: 2.8 Consensus size: 79
57230509 GCTACTCGTT
* *
57230519 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA-AATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGA
*
57230583 TTTAGTAACTCGCA
66 ATTAGTAACTCGCA
*
57230597 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGG
*
57230660 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
57230675 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCG
57230739 GA
64 GA
57230741 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
77 4 0.03
78 81 0.64
79 30 0.24
80 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:57234859 original size:28 final size:28
Alignment explanation
Indices: 57234827--57234886 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
57234817 GTTTGACAAA
57234827 TTTCTTAAAAATATTTCATAAAAGTTGT
1 TTTCTTAAAAATATTTCATAAAAGTTGT
*
57234855 TTTCTTAGAAATATTTCATAAAAGTTGT
1 TTTCTTAAAAATATTTCATAAAAGTTGT
57234883 TTTC
1 TTTC
57234887 AAGGAAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTCTTAAAAATATTTCATAAAAGTTGT
Found at i:57235324 original size:15 final size:14
Alignment explanation
Indices: 57235294--57235327 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
57235284 ACGTAAATAA
57235294 TATTA-TTTAAAAT
1 TATTATTTTAAAAT
57235307 TATTATTTTAAAATT
1 TATTATTTTAAAA-T
57235322 TATTAT
1 TATTAT
57235328 CAAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 7 0.37
15 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTTAAAAT
Found at i:57235434 original size:32 final size:33
Alignment explanation
Indices: 57235341--57235457 Score: 114
Period size: 32 Copynumber: 3.4 Consensus size: 33
57235331 AATAAAATTG
*
57235341 AAAT-ATTAAATAATTTATTAAAAT-AATAAATTAT
1 AAATAATT-AATAATTTATT-ATATGAATAAA-TAT
*
57235375 ATTAATTATATTAATAGTTTATTATATGAATAAATAT
1 A--AA-TA-ATTAATAATTTATTATATGAATAAATAT
*
57235412 AAATAATTAATAATTT-TTATATGATTAAATAT
1 AAATAATTAATAATTTATTATATGAATAAATAT
*
57235444 AAATATTTAATAAT
1 AAATAATTAATAAT
57235458 ATAAATTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
32 28 0.39
33 10 0.14
34 3 0.04
35 2 0.03
36 2 0.03
37 8 0.11
38 16 0.22
39 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (33 bp):
AAATAATTAATAATTTATTATATGAATAAATAT
Found at i:57239614 original size:37 final size:37
Alignment explanation
Indices: 57239564--57239642 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57239554 TTATTACGAA
* * *
57239564 GTCTTACCCGGACATAATCTCCACACGAAATTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAATCATCGG
* *
57239601 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAATCATCGG
57239638 GTCTT
1 GTCTT
57239643 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAATCATCGG
Found at i:57239839 original size:47 final size:47
Alignment explanation
Indices: 57239763--57240024 Score: 434
Period size: 47 Copynumber: 5.5 Consensus size: 47
57239753 CTTCGGGACG
* * * * * * *
57239763 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
57239810 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
57239857 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
57239904 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
57239951 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
57240000 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
57240025 ACCAACCCTT
Statistics
Matches: 204, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 157 0.77
49 47 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:57240286 original size:40 final size:40
Alignment explanation
Indices: 57240249--57240470 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
57240239 GCTACTCGTT
* *
57240249 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
57240289 CAAATTCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
57240329 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
57240368 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
57240408 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57240449 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
57240471 AGACATCATT
Statistics
Matches: 159, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.70
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57240349 original size:79 final size:78
Alignment explanation
Indices: 57240249--57240466 Score: 233
Period size: 79 Copynumber: 2.7 Consensus size: 78
57240239 GCTACTCGTT
* * *
57240249 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATTCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
57240314 ATTTAGTAACTAGCA
64 ATTTAGTAACTAGCA
* * **
57240329 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
57240393 ATTTAGTATCTCGCA
64 ATTTAGTAACTAGCA
* * * * *
57240408 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
57240467 GCCCAGACAT
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 64 0.55
80 36 0.31
81 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTAGCA
Found at i:57242511 original size:22 final size:22
Alignment explanation
Indices: 57242485--57242528 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
57242475 TGGCTTTCCA
57242485 TTTTATGTTTTATAATACTTAT
1 TTTTATGTTTTATAATACTTAT
57242507 TTTTATGTTTTATAATACTTAT
1 TTTTATGTTTTATAATACTTAT
57242529 AAAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTATGTTTTATAATACTTAT
Found at i:57249584 original size:38 final size:38
Alignment explanation
Indices: 57249542--57249645 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 38
57249532 GGCTTAAAGA
* *
57249542 CCTGCAGGCTATATGCTAGAATTATATCCAGGTTAAAT
1 CCTGCAGGCTATGTGCTAGTATTATATCCAGGTTAAAT
* *
57249580 CCTGCACGCT-TCGTGCTGGTATTATATCCAGGTTAAAT
1 CCTGCAGGCTAT-GTGCTAGTATTATATCCAGGTTAAAT
*
57249618 CCCGCAGGCCTA-GTGCTAGTATTATATC
1 CCTGCAGG-CTATGTGCTAGTATTATATC
57249646 TAACTTTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
37 1 0.02
38 53 0.95
39 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (38 bp):
CCTGCAGGCTATGTGCTAGTATTATATCCAGGTTAAAT
Found at i:57249674 original size:40 final size:38
Alignment explanation
Indices: 57249555--57249674 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 38
57249545 GCAGGCTATA
* * * * *
57249555 TGCTAGAATTATATCCAGGTTAAATCCTGCACGCTTCG
1 TGCTAGTATTATATCAACGTTAAATCCCGCAGGCTTCG
* * * * *
57249593 TGCTGGTATTATATCCAGGTTAAATCCCGCAGGCCTAG
1 TGCTAGTATTATATCAACGTTAAATCCCGCAGGCTTCG
* *
57249631 TGCTAGTATTATATCTAACTTTAAAGTCCCGTAGGCTTCG
1 TGCTAGTATTATATC-AACGTTAAA-TCCCGCAGGCTTCG
57249671 TGCT
1 TGCT
57249675 GGTGTTATGT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 46 0.69
39 6 0.09
40 15 0.22
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (38 bp):
TGCTAGTATTATATCAACGTTAAATCCCGCAGGCTTCG
Found at i:57250959 original size:60 final size:60
Alignment explanation
Indices: 57250834--57250968 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
57250824 GAGTTAACTG
* * * *
57250834 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATGAGAGTATACTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACGAGAGTATACTA
* * * *
57250895 GGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACAAGT-CGAGA-TATATTA
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACGAGAGTATACTA
*
57250955 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
57250969 TAACACAGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 48 0.76
61 12 0.19
62 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACGAGAGTATACTA
Found at i:57251014 original size:19 final size:19
Alignment explanation
Indices: 57250973--57251015 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
57250963 CCATATTAAC
* *
57250973 ACAGTTGGGCCCATTCAAT
1 ACAGTTGGGCCCATACAAA
57250992 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCAT-ACAAA
57251011 ACAGT
1 ACAGT
57251016 CTCATATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
ACAGTTGGGCCCATACAAA
Found at i:57253252 original size:3 final size:3
Alignment explanation
Indices: 57253244--57253272 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
57253234 AAACATACGA
57253244 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
57253273 CATCCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:57255095 original size:18 final size:18
Alignment explanation
Indices: 57255074--57255117 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
57255064 TGCTCCACCG
*
57255074 CCTAAACCTCCTGG-TCCA
1 CCTAAACCTCC-GGCCCCA
57255092 CCTAAACCTCCGGCCCCA
1 CCTAAACCTCCGGCCCCA
57255110 CCTAAACC
1 CCTAAACC
57255118 GCCGAGACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (18 bp):
CCTAAACCTCCGGCCCCA
Found at i:57258761 original size:15 final size:15
Alignment explanation
Indices: 57258728--57258761 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57258718 TTAGGAAACG
*
57258728 TACATAAAAAATATA
1 TACATAAAAAAAATA
*
57258743 TACATAAAAAAAATT
1 TACATAAAAAAAATA
57258758 TACA
1 TACA
57258762 ACAATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
TACATAAAAAAAATA
Found at i:57258914 original size:15 final size:16
Alignment explanation
Indices: 57258891--57258926 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
57258881 AATATGGTAT
57258891 TTTAAATATAAT-ATA
1 TTTAAATATAATAATA
*
57258906 TTTATATATAATAATA
1 TTTAAATATAATAATA
57258922 TTTAA
1 TTTAA
57258927 GAATATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAATATAATAATA
Found at i:57259027 original size:11 final size:11
Alignment explanation
Indices: 57258998--57259042 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
57258988 ATTGCATTAA
57258998 AAAATATATAT
1 AAAATATATAT
57259009 ACATAATATATAT
1 A-A-AATATATAT
*
57259022 AAAATACATAT
1 AAAATATATAT
*
57259033 AATATATATA
1 AAAATATATA
57259043 CGTATTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 10 0.34
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:57259111 original size:13 final size:12
Alignment explanation
Indices: 57259083--57259123 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
57259073 ACTACATAAG
57259083 TAAATAA-AATA
1 TAAATAATAATA
57259094 T-AATAATAATA
1 TAAATAATAATA
*
57259105 CTAAATAATAATT
1 -TAAATAATAATA
57259118 TAAATA
1 TAAATA
57259124 GTAAAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 5 0.19
11 5 0.19
12 7 0.27
13 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAATAATAATA
Found at i:57260768 original size:77 final size:74
Alignment explanation
Indices: 57260672--57261239 Score: 504
Period size: 72 Copynumber: 7.6 Consensus size: 74
57260662 GTGATCTGAA
57260672 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
57260737 ATGTGAACCGAG
64 ATGTG-TCCGAG
*
57260749 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAACAGAAATTGAAAATACCTCA
* *
57260814 --ACGTGTCTTGAG
62 GCATGTGTC-CGAG
** * * * * *
57260826 GCTCAACTCATTTCTCACAATTTAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGC--
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCAT
57260888 GTGTCCCGAG
66 GTGT-CCGAG
57260898 GCTCAACTCACCTCTCGCAATA-GAGTTGATTTTTTGAAAGACA-AAATTG-AAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAAATACCTCAGCA
* *
57260960 TGTCT-TGAG
65 TGTGTCCGAG
** * *
57260969 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTACAAACAG-AATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAACAGAAATTGAAAATACCTCAGC
*
57261033 ATGT-TCTGAG
64 ATGTGTCCGAG
* *
57261043 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAG-AATTGAAAACGGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTG---A---AAA-T--
* * * *
57261107 AAATACTCAGCGTGTGACCTAAG
56 --A-CCTCAGCATGTGTCC-GAG
* * ** *
57261130 GCCCAACTCGCCTCTCGC-ATACAAGTTGATTTTTTGACAACAGAAATTG-AAATACCTCAG--T
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCAT
57261191 GTGTCCGAG
66 GTGTCCGAG
* *
57261200 GCTCAACTCACCTCTCGC-ATATGTGTTGATTTTTTTAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
57261240 ATACCTCAGC
Statistics
Matches: 406, Mismatches: 52, Indels: 73
0.76 0.10 0.14
Matches are distributed among these distances:
70 35 0.09
71 46 0.11
72 76 0.19
73 43 0.11
74 49 0.12
76 2 0.00
77 62 0.15
78 1 0.00
79 26 0.06
80 12 0.03
84 1 0.00
85 12 0.03
86 24 0.06
87 17 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCAT
GTGTCCGAG
Found at i:57261062 original size:145 final size:146
Alignment explanation
Indices: 57260672--57261095 Score: 561
Period size: 145 Copynumber: 2.9 Consensus size: 146
57260662 GTGATCTGAA
** *
57260672 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
*
57260737 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAA-ACAGAAAT
65 ATGT--ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAGACA-AAAT
*
57260801 TGAAAATACCTCAACGTGTCTTGAG
123 TG-AAATACCTCAACATGTCTTGAG
* * * * *
57260826 GCTCAACTCATTTCTCACAATTTAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCA
*
57260889 TGTCCCGAGGCTCAACTCACCTCTCGCAATA-GAGTTGATTTTTTGAAAGACAAAATTGAAATAC
66 TGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAATTGAAATAC
*
57260953 CTCAGCATGTCTTGAG
131 CTCAACATGTCTTGAG
*
57260969 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTACAAACAG-AATTGAAATTACCTCAGC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTGAAATTACCTCAGC
* * * * *
57261033 ATGTTCTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAGAATTGAAA
65 ATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAATTGAAA
57261096 ACGGAAATTG
Statistics
Matches: 242, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
143 47 0.19
144 16 0.07
145 54 0.22
146 34 0.14
148 6 0.02
149 27 0.11
151 25 0.10
152 8 0.03
154 25 0.10
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCA
TGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAATTGAAATAC
CTCAACATGTCTTGAG
Found at i:57271226 original size:16 final size:17
Alignment explanation
Indices: 57271188--57271228 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
57271178 ACAATAATAT
57271188 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
57271205 AAAATATATATAT-TAC
1 AAAATATATATATGTAC
*
57271221 ATAATATA
1 AAAATATA
57271229 CACTAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 10 0.45
18 2 0.09
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:57271435 original size:23 final size:23
Alignment explanation
Indices: 57271320--57271450 Score: 64
Period size: 25 Copynumber: 5.7 Consensus size: 23
57271310 TATATATATT
* *
57271320 TATATATATAATAT-T-TAAGAA
1 TATATACATAATATATATAAAAA
*
57271341 TATATACATAAGATGATAT-AAAA
1 TATATACATAATAT-ATATAAAAA
* *
57271364 TACATACATGGAATAGTATA-AGAAA
1 TATATACAT--AATA-TATATAAAAA
*
57271389 TATATA-ACTAAT-TGCATTAAAAAAA
1 TATATACA-TAATAT--A-TATAAAAA
57271414 TATATACATAATATATAT-AAAA
1 TATATACATAATATATATAAAAA
*
57271436 TACAT--ATAATATATA
1 TATATACATAATATATA
57271451 ACGTATTAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
20 10 0.12
21 13 0.15
22 8 0.09
23 18 0.21
24 5 0.06
25 29 0.34
26 3 0.03
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (23 bp):
TATATACATAATATATATAAAAA
Found at i:57271440 original size:18 final size:18
Alignment explanation
Indices: 57271417--57271451 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57271407 AAAAAAATAT
57271417 ATACATA-ATATATATAAA
1 ATACATATA-ATATATAAA
57271435 ATACATATAATATATAA
1 ATACATATAATATATAA
57271452 CGTATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
ATACATATAATATATAAA
Found at i:57271785 original size:16 final size:18
Alignment explanation
Indices: 57271760--57271797 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57271750 GAAGAGAGAA
* *
57271760 AGAAAAAAAAAAGAAGGG
1 AGAAAAAAGAGAGAAGGG
57271778 AGAAAAAAGAGAGAAGGG
1 AGAAAAAAGAGAGAAGGG
57271796 AG
1 AG
57271798 GGGGAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
AGAAAAAAGAGAGAAGGG
Found at i:57272261 original size:8 final size:8
Alignment explanation
Indices: 57272238--57272267 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
57272228 GGGGGTTAGG
57272238 TTTTTCTT
1 TTTTTCTT
57272246 TTTCTTCTT
1 TTT-TTCTT
57272255 TTTTTCTT
1 TTTTTCTT
57272263 TTTTT
1 TTTTT
57272268 TGGTTAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTCTT
Found at i:57273377 original size:76 final size:75
Alignment explanation
Indices: 57273049--57273533 Score: 570
Period size: 76 Copynumber: 6.4 Consensus size: 75
57273039 GTGATTTGAA
57273049 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
*
57273114 CATGTGAACC-GAG
65 C--GTG-TCCTGAG
* * * *
57273127 GCTCAATTCACCTCTCTCAATATAAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
*
57273191 GTGTCTTGAG
66 GTGTCCTGAG
** * *
57273201 GCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
*
57273263 --GTCTTGAG
66 GTGTCCTGAG
** * *
57273271 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAACAGAAATTGAAAATACCTCAG
57273336 CGTGTCCTGAG
65 CGTGTCCTGAG
* * *
57273347 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT----TG-A-AAACAGAAATTGAAAATAC
* *
57273412 CTCGGCGTGTGACCTAAG
60 CTCAGCGTGT--CCTGAG
* * * * *
57273430 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAACAGAAATTGAAAATACCTCAG
57273495 CGTGTCCTGAG
65 CGTGTCCTGAG
57273506 GCTCAACTCACCTCTCGCAATATGAGTT
1 GCTCAACTCACCTCTCGCAATATGAGTT
57273534 CAAGGATATG
Statistics
Matches: 353, Mismatches: 38, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
70 38 0.11
72 29 0.08
73 1 0.00
74 61 0.17
75 7 0.02
76 87 0.25
77 11 0.03
78 51 0.14
79 2 0.01
80 2 0.01
81 25 0.07
83 32 0.09
84 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
GTGTCCTGAG
Found at i:57273462 original size:159 final size:155
Alignment explanation
Indices: 57273049--57273533 Score: 613
Period size: 159 Copynumber: 3.2 Consensus size: 155
57273039 GTGATTTGAA
57273049 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA-AG--ACAGAAATTGAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAGAGAAACAGAAATTGAAAATACCT
* * * *
57273111 CAGCATGTGAACC-GAGGCTCAATTCACCTCTCTCAATATAAGTTGA--TTTTTTTGAAAACAGA
65 CAGC-TGTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGA
* * *
57273173 AATTGAAAATACCTCAACGTGTCTTGAG
128 AATTGAAATTACCTCAGCGTGTCCTGAG
** * *
57273201 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTT---GA-AAACAGAAATTGAAATTACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGAAACAGAAATTGAAAATACCTC
* **
57273260 AGC-GT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAAT
66 AGCTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAAT
57273322 TGAAATTACCTCAGCGTGTCCTGAG
131 TGAAATTACCTCAGCGTGTCCTGAG
* *
57273347 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AA-G-AGAAACAGAAATTGAAAATAC
* * * * *
57273412 CTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAG
63 CTCAGC-TGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGACAACAG
57273477 AAATTGAAATTACCTCAGCGTGTCCTGAG
127 AAATTGAAATTACCTCAGCGTGTCCTGAG
57273506 GCTCAACTCACCTCTCGCAATATGAGTT
1 GCTCAACTCACCTCTCGCAATATGAGTT
57273534 CAAGGATATG
Statistics
Matches: 285, Mismatches: 29, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
143 1 0.00
144 28 0.10
146 69 0.24
147 1 0.00
148 26 0.09
149 4 0.01
152 28 0.10
153 1 0.00
154 1 0.00
155 22 0.08
157 2 0.01
159 102 0.36
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (155 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGAAACAGAAATTGAAAATACCTC
AGCTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAAT
TGAAATTACCTCAGCGTGTCCTGAG
Found at i:57274031 original size:78 final size:73
Alignment explanation
Indices: 57273932--57274412 Score: 497
Period size: 74 Copynumber: 6.4 Consensus size: 73
57273922 GTGATTTGAA
57273932 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
*
57273997 CATGTGAACCGAG
64 C--GTG-TCCGAG
* * * *
57274010 GCTCAATTCACCTCTCTCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
57274075 TGTCTTGAG
66 TGTC-CGAG
** * * *
57274084 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTAAAAACAGAAATTGAAATTA-CTCAGC-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
**
57274145 -GTCTTAG
66 TGTCCGAG
** * *
57274152 GCTCAACTCATTTCTCGCAATATGAG-TGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATACCTCAG
*
57274216 CGTGTCTGAG
64 CGTGTCCGAG
* *
57274226 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----G-A-AAACAGAAATTGAAAATAC
*
57274291 CTCAGCGTGTGACCTAAG
59 CTCAGCGTGT--CC-GAG
* * * * *
57274309 GCTCAACTCGCCTCTCGCAATACGAGTTGATATTTTTTTGACAATAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTG--ATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
57274374 CGTGTCCTGAG
64 CGTGTCC-GAG
57274385 GCTCAACTCACCTCTCGCAATATGAGTT
1 GCTCAACTCACCTCTCGCAATATGAGTT
57274413 CAAGGATATG
Statistics
Matches: 344, Mismatches: 38, Indels: 44
0.81 0.09 0.10
Matches are distributed among these distances:
67 3 0.01
68 29 0.08
69 3 0.01
71 27 0.08
72 28 0.08
73 8 0.02
74 60 0.17
75 3 0.01
76 53 0.15
77 11 0.03
78 53 0.15
79 2 0.01
80 27 0.08
82 1 0.00
83 28 0.08
85 8 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCCGAG
Found at i:57274934 original size:883 final size:883
Alignment explanation
Indices: 57272640--57276165 Score: 6700
Period size: 883 Copynumber: 4.0 Consensus size: 883
57272630 CAATCTATTC
* *
57272640 CAATGTGACTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
1 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
57272705 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
66 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
57272770 GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
131 GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
57272835 TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATGA
196 TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATGA
57272900 GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGCT
261 GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGCT
57272965 CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAATA
326 CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAATA
57273030 CCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
391 CCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
57273095 GAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGATTT
456 GAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGATTT
57273160 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
521 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
57273225 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCA
586 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCA
57273290 ATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCACT
651 ATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCACT
57273355 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGGCGT
716 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGGCGT
57273420 GTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTGAA
781 GTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTGAA
57273485 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
846 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
57273523 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
1 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
57273588 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
66 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
57273653 GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
131 GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
57273718 TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATGA
196 TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATGA
57273783 GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGCT
261 GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGCT
57273848 CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAATA
326 CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAATA
57273913 CCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
391 CCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
57273978 GAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGATTT
456 GAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGATTT
57274043 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
521 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
57274108 AGTTGAATTTTAAAAACAGAAATTGAAATTA-CTCAGCGTCTT-AGGCTCAACTCATTTCTCGCA
586 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCA
57274171 ATATGAG-TGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGT-CTGAGGCTCCACT
651 ATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCACT
*
57274234 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCAGCGT
716 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGGCGT
*
57274299 GTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATATTTTTTTGACAATAGAAATTGAA
781 GTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTGAA
57274364 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
846 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
57274402 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
1 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
57274467 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
66 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
57274532 GCGACTTCAGAAAGGCAAGATCTGATG-CCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
131 GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
57274596 TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTA-TCGGCATGTGATCCTCTCGCAATATGA
196 TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATGA
57274660 GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGAC-TGTGACTCGA-GCT
261 GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGCT
57274723 CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACC-TTCGCAATATAAATTG-AAAAAATA
326 CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAATA
57274786 CCACAATGTGTGA-TTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
391 CCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
57274850 GAAATTGAAAATACCTCAGCATGTGAA-CGAGGCTCAATTCA-CTCTCTCAATATAAGTTGATTT
456 GAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGATTT
57274913 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC-ATATT
521 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA-T
57274977 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGC
585 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGC
57275042 AATATGAGTTGA-TTTTTTTTGACAACAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCCAC
650 AATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCAC
57275105 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGGCG
715 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGGCG
57275170 TGTGACCTAAGGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTG
780 TGTGACCTAA-GGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTG
*
57275235 AAATTACCTCAGCGTGTCCTGTGGCTCAACTCACCTCTCG
844 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
57275275 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
1 CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
*
57275340 AGATCTACAACTTCAATCTTCTC-TCTATCGCTTCAGTGAGATAAGGTTTGTGG-CTTTTCTTTT
66 AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
*
57275403 GCGACTTTAGAAAGGCAAGATCTGATGCCCTCGATCAAACTCTACTGCAACTTTAAGGAGACAGA
131 GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATC-AACTCTACTGCAACTTTAAGGAGACAGA
*
57275468 ATCTGACGTC-TCAATCAGCTTCAATCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATG
195 ATCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATG
57275532 AGTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGC
260 AGTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGC
57275597 TCAACTCACCTCTCGCAGAAATTAAAAAGCTCAACT-ACCTTTCGCAATATAAATTG-AAAAAAT
325 TCAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAAT
*
57275660 ACCACAATGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAG
390 ACCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTGAAAG
*
57275725 ACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCGCAATATAAGTTGA
453 ACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGA
57275790 TTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
518 TTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
57275855 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTC
583 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTC
57275920 GCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCC
648 GCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCC
* **
57275985 ACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAGGCAGAAACAAAAATTGAAAATACCTCGG
713 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGG
* *
57276050 CGTGTGACTTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTTGACAACAGAAATT
778 CGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATT
57276114 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
843 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
*
57276155 TAATATGAGTT
1 CAATATGAGTT
57276166 GATTTTTTTA
Statistics
Matches: 2602, Mismatches: 21, Indels: 43
0.98 0.01 0.02
Matches are distributed among these distances:
869 3 0.00
870 113 0.04
871 73 0.03
872 281 0.11
873 319 0.12
874 29 0.01
875 117 0.04
876 44 0.02
877 77 0.03
878 117 0.04
879 350 0.13
880 271 0.10
881 87 0.03
882 108 0.04
883 613 0.24
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (883 bp):
CAATATGAGTTCAAGGATATGAAATTTATGGCTTCGATCTACTTCACTGTAACTTCAGAAAGGTG
AGATCTACAACTTCAATCTTCTCTTCTATCGCTTCAGTGAGATAAGGTTTGTGGTCTTTTCTTCT
GCGACTTCAGAAAGGCAAGATCTGATGCCCTCGATCAACTCTACTGCAACTTTAAGGAGACAGAA
TCTGACGTCTTCAATCAGCTTCAACCTTTATTCTCTACTCGGCATGTGATCCTCTCGCAATATGA
GTTGATTTTTGAAACTTATCTTGAAAAGCAGATTTTGAAAATACCTAGACATGTGACTCGAGGCT
CAACTCACCTCTCGCAGAAATTAAAAAGCTCAACTCACCTTTCGCAATATAAATTGAAAAAAATA
CCACAATGTGTGATTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACA
GAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAATTCACCTCTCTCAATATAAGTTGATTT
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCACT
CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATACCTCGGCGT
GTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTGAA
ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
Found at i:57274939 original size:74 final size:72
Alignment explanation
Indices: 57274804--57275285 Score: 434
Period size: 74 Copynumber: 6.4 Consensus size: 72
57274794 TGTGATTGAA
57274804 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
**
57274869 CATGTGAACGAG
64 C--GT-CTCGAG
* * *
57274881 GCTCAATTCA-CTCTCTCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTC-A-G
* *
57274945 TGTCTTGAG
64 CGTCTCGAG
** * *
57274954 GCTCAACTCATTTCTCGC-ATATTGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATA-TGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
*
57275016 GTCTTGAG
65 GTCTCGAG
** *
57275024 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTG-AAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
*
57275088 GTGTCCTGAG
65 GTCT-C-GAG
* *
57275098 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----G-A-AAACAGAAATTGAAAATAC
* * *
57275163 CTCGGCGTGTGACCTAAGG
59 CTCAGCGTCT---C-GA-G
* * * * *
57275182 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
57275247 CGTGTCCTGTG
64 CGTCT-C-GAG
57275258 GCTCAACTCACCTCTCGCAATATGAGTT
1 GCTCAACTCACCTCTCGCAATATGAGTT
57275286 CAAGGATATG
Statistics
Matches: 344, Mismatches: 38, Indels: 47
0.80 0.09 0.11
Matches are distributed among these distances:
70 35 0.10
71 4 0.01
72 41 0.12
73 39 0.11
74 64 0.19
75 12 0.03
76 45 0.13
77 12 0.03
78 1 0.00
79 25 0.07
80 11 0.03
81 16 0.05
83 4 0.01
84 28 0.08
86 7 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TCTCGAG
Found at i:57275084 original size:144 final size:146
Alignment explanation
Indices: 57274804--57275285 Score: 524
Period size: 144 Copynumber: 3.2 Consensus size: 146
57274794 TGTGATTGAA
*
57274804 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TATTTTGAAA-ACAGAAATTGAAAATACCTCAG
* * * * * *
57274869 CATGTGAACGAGGCTCAATTCACTCTCTCAATATAAGTTGA-TTTTTTTGAAAACAGAAATTGAA
63 C-TGTGCATGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTG-A
* *
57274933 AATACCTCAACGTGTCTTGAG
126 AATACCTCAGCGTGTCCTGAG
** *
57274954 GCTCAACTCATTTCTCGC-ATATTGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGC-
1 GCTCAACTCACCTCTCGCAATA-TGAGTTGATATTTTGAAAACAGAAATTGAAAATACCTCAGCT
* *
57275016 GT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAAT
65 GTGCATGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAAT
57275080 ACCTCAGCGTGTCCTGAG
129 ACCTCAGCGTGTCCTGAG
* * *
57275098 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAACGGAAATTGAAAATAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TATTTT-----G-A-AAACAGAAATTGAAAATAC
* * * * * *
57275163 CTCGGCGTGTGACCTAAGGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGACAATA
58 CTCAGC-TGTG-CATGA-GGCTCAACTC-ACTCTCGCAATATGAGTTGA-TTTTTTTTGACAACA
*
57275228 GAAATTGAAATTACCTCAGCGTGTCCTGTG
118 GAAATTGAAA-TACCTCAGCGTGTCCTGAG
57275258 GCTCAACTCACCTCTCGCAATATGAGTT
1 GCTCAACTCACCTCTCGCAATATGAGTT
57275286 CAAGGATATG
Statistics
Matches: 282, Mismatches: 29, Indels: 32
0.82 0.08 0.09
Matches are distributed among these distances:
143 12 0.04
144 61 0.22
145 23 0.08
146 26 0.09
147 8 0.03
149 3 0.01
150 24 0.09
151 1 0.00
152 1 0.00
153 22 0.08
155 2 0.01
157 3 0.01
158 27 0.10
159 24 0.09
160 45 0.16
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (146 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAAATACCTCAGCTG
TGCATGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATAC
CTCAGCGTGTCCTGAG
Found at i:57275209 original size:84 final size:80
Alignment explanation
Indices: 57274991--57275285 Score: 258
Period size: 84 Copynumber: 3.8 Consensus size: 80
57274981 TGAATTTTGA
* * * ** *
57274991 AAACAGAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACGGAAATTGAAA-TACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGA
57275054 TTTTTTTTG--A--C--
65 -TTTTTTTGAAAGGCAG
* * * *
57275065 -AACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTGAT
1 AAACGGAAATTGAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGAT
57275129 TTTTTTGAAAGGCAG
66 TTTTTTGAAAGGCAG
* *
57275144 AAACGGAAATTGAAAATACCTCGGCGTGTGACCTAAGGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAACGGAAATTG-AAATACCTCAGCGTGT--CCTAA-GGCTCAACTCACCTCTCGCAATACGAGT
** *
57275209 TGATTTTTTT--TTGACA-
62 TGATTTTTTTGAAAGGCAG
* ** *
57275225 ATA--GAAATTGAAATTACCTCAGCGTGTCCTGTGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACGGAAATTGAAA-TACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTT
57275286 CAAGGATATG
Statistics
Matches: 188, Mismatches: 19, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
72 9 0.05
73 22 0.12
74 34 0.18
75 1 0.01
76 27 0.14
77 4 0.02
78 3 0.02
79 19 0.10
80 10 0.05
81 17 0.09
82 3 0.02
83 4 0.02
84 35 0.19
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (80 bp):
AAACGGAAATTGAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGAT
TTTTTTGAAAGGCAG
Found at i:57276010 original size:76 final size:76
Alignment explanation
Indices: 57275675--57276174 Score: 579
Period size: 76 Copynumber: 6.6 Consensus size: 76
57275665 AATGTGTGAT
*
57275675 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAA-ACAGAAATTGAAAAT
*
57275740 ACCTCAGCATGTGAAC
64 ACCTCAGC--GTG-TC
* *
57275756 C-GAGGCTCAATTCACCTCTCGCAATATAAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
*
57275818 CTCAACGTGTC
66 CTCAGCGTGTC
* ** * *
57275829 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
57275890 CTCAGC--GTC
66 CTCAGCGTGTC
* ** * *
57275899 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
57275964 CTCAGCGTGTC
66 CTCAGCGTGTC
* ** *
57275975 CTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAGGCAGAAACAAAAATTGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT---TTG-A-AAACAGAAATTGAA
*
57276040 AATACCTCGGCGTGTGAC
61 AATACCTCAGCGTGT--C
* * * * * *
57276058 TTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTTGACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
57276122 CTCAGCGTGTC
66 CTCAGCGTGTC
*
57276133 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
57276175 AAAAATACCT
Statistics
Matches: 363, Mismatches: 41, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
70 38 0.10
72 29 0.08
73 1 0.00
74 62 0.17
75 31 0.09
76 69 0.19
77 36 0.10
78 1 0.00
79 2 0.01
80 31 0.09
81 26 0.07
82 6 0.02
83 31 0.09
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
CTCAGCGTGTC
Found at i:57276014 original size:74 final size:74
Alignment explanation
Indices: 57275675--57276301 Score: 591
Period size: 74 Copynumber: 8.5 Consensus size: 74
57275665 AATGTGTGAT
*
57275675 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAA-ACAGAAATTGAAAAT
*
57275740 ACCTCAGCATGTGAAC
62 ACCTCAGC--GTG-TC
* *
57275756 C-GAGGCTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
57275820 CAACGTGTC
66 CAGCGTGTC
* ** * *
57275829 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
57275892 CAGC--GTC
66 CAGCGTGTC
* ** * *
57275899 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATAC
57275964 CTCAGCGTGTC
64 CTCAGCGTGTC
* *
57275975 CTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAGGCAGAAACAAAAATTGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----G-A-AAACAGAAATTGAA
*
57276040 AATACCTCGGCGTGTGAC
59 AATACCTCAGCGTGT--C
* * * * * *
57276058 TTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACC
57276123 TCAGCGTGTC
65 TCAGCGTGTC
*
57276133 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTT---------AA---AAA-TACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
57276185 CAGCGCGTC
66 CAGCGTGTC
* *** * * *
57276194 CTGAGGCTCAACTCACCTCTCGCAATATTAGTTGA---ACAT-ACAA-A-AATTTGACAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
57276253 CAGCGTGTC
66 CAGCGTGTC
* * *
57276262 CCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
57276302 AAATAAAACA
Statistics
Matches: 465, Mismatches: 51, Indels: 70
0.79 0.09 0.12
Matches are distributed among these distances:
58 1 0.00
61 46 0.10
62 3 0.01
64 1 0.00
65 2 0.00
67 2 0.00
68 45 0.10
70 38 0.08
72 29 0.06
73 1 0.00
74 76 0.16
75 31 0.07
76 56 0.12
77 36 0.08
78 1 0.00
79 2 0.00
80 31 0.07
81 26 0.06
83 31 0.07
84 7 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:57276178 original size:158 final size:152
Alignment explanation
Indices: 57275675--57276176 Score: 635
Period size: 158 Copynumber: 3.3 Consensus size: 152
57275665 AATGTGTGAT
* **
57275675 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAGAAA-ACAGAAATTGAAAAT
* * * *
57275740 ACCTCAGCATGTGAAC-CGAGGCTCAATTCACCTCTCGCAATATAAGTTGA-TTTTTTTGAAAAC
64 ACCTCAGC-TGTG-ACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACAAC
* *
57275803 AGAAATTGAAAATACCTCAACGTGTC
127 AGAAATTGAAATTACCTCAGCGTGTC
* ** * *
57275829 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTT--GAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAGAAAACAGAAATTGAAAATAC
**
57275890 CTCAGC-GT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGA
66 CTCAGCTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGACAACAGA
57275952 AATTGAAATTACCTCAGCGTGTC
130 AATTGAAATTACCTCAGCGTGTC
* *
57275975 CTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAGGCAGAAACAAAAATTGAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AA-G-A-AAACAGAAATTGAA
* * * *
57276040 AATACCTCGGCGTGTGACTTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTGACA
61 AATACCTCAGC-TGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACA
57276105 ACAGAAATTGAAATTACCTCAGCGTGTC
125 ACAGAAATTGAAATTACCTCAGCGTGTC
*
57276133 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAA
57276177 AAATACCTCA
Statistics
Matches: 303, Mismatches: 29, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
143 1 0.00
144 29 0.10
146 69 0.23
148 26 0.09
149 4 0.01
151 4 0.01
153 1 0.00
154 32 0.11
155 22 0.07
156 2 0.01
157 2 0.01
158 80 0.26
159 31 0.10
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (152 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAGAAAACAGAAATTGAAAATAC
CTCAGCTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAA
ATTGAAATTACCTCAGCGTGTC
Found at i:57276640 original size:17 final size:18
Alignment explanation
Indices: 57276615--57276648 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57276605 ATATCACTCT
57276615 TTTGCCCTTG-GTTGAGC
1 TTTGCCCTTGCGTTGAGC
*
57276632 TTTGTCCTTGCGTTGAG
1 TTTGCCCTTGCGTTGAG
57276649 GCTCTTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.21, G:0.29, T:0.44
Consensus pattern (18 bp):
TTTGCCCTTGCGTTGAGC
Found at i:57286151 original size:19 final size:19
Alignment explanation
Indices: 57286129--57286215 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 19
57286119 TAATAATAAT
57286129 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
*
57286148 ATAAAAATACATATATATATGTGC
1 AT-AAAAT--A-ATA-ATATGTAC
*
57286172 ATATAATAA-AAGTATGTA-
1 ATAAAATAATAA-TATGTAC
*
57286190 ATAATAATAATAATATCTAC
1 ATAA-AATAATAATATGTAC
57286210 AATAAA
1 -ATAAA
57286216 TGAAATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 19
0.69 0.06 0.25
Matches are distributed among these distances:
18 4 0.08
19 18 0.34
20 9 0.17
21 5 0.09
22 1 0.02
23 7 0.13
24 9 0.17
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:57286529 original size:23 final size:22
Alignment explanation
Indices: 57286417--57286547 Score: 71
Period size: 23 Copynumber: 5.9 Consensus size: 22
57286407 ATATATATTT
*
57286417 ATATATAATAATAT-T-TAAGA
1 ATATATAATAATATATATAAAA
*
57286437 ATATATACATAAGATGATAT-AAA
1 ATATATA-ATAATAT-ATATAAAA
* *
57286460 ATACATACATGGAATAGTATA-AGAA
1 ATATATA-AT--AATA-TATATAAAA
57286485 ATATATAACTAAT-TGCAT-TAAAA
1 ATATATAA-TAATAT--ATATAAAA
57286508 ATATATACATAATATATAT-AAA
1 ATATATA-ATAATATATATAAAA
*
57286530 ATACAT-ATAATATATATA
1 ATATATAATAATATATATA
57286548 CCTATTAGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
20 18 0.21
21 7 0.08
22 10 0.11
23 32 0.37
24 4 0.05
25 15 0.17
26 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATAATAATATATATAAAA
Found at i:57286532 original size:11 final size:11
Alignment explanation
Indices: 57286505--57286547 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
57286495 AATTGCATTA
*
57286505 AAAATATATAC
1 AAAATATATAT
*
57286516 ATAATATATAT
1 AAAATATATAT
*
57286527 AAAATACATAT
1 AAAATATATAT
*
57286538 AATATATATA
1 AAAATATATA
57286548 CCTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:57287060 original size:12 final size:12
Alignment explanation
Indices: 57287024--57287065 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
57287014 ATGTATATAT
57287024 AAAGAAAGAAAA
1 AAAGAAAGAAAA
* *
57287036 AAACAACACAAAA
1 AAAGAA-AGAAAA
57287049 AAAGAAAGAAAA
1 AAAGAAAGAAAA
57287061 AAAGA
1 AAAGA
57287066 TTCGAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:57293631 original size:21 final size:21
Alignment explanation
Indices: 57293593--57293632 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57293583 TTTGAAAACA
* *
57293593 TTAATAATTATTTTATAAATT
1 TTAATAATTATGTAATAAATT
*
57293614 TTAATAGTTATGTAATAAA
1 TTAATAATTATGTAATAAA
57293633 AAGAAAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTAATAATTATGTAATAAATT
Found at i:57295301 original size:132 final size:132
Alignment explanation
Indices: 57295059--57295301 Score: 360
Period size: 132 Copynumber: 1.8 Consensus size: 132
57295049 TTGCCTCGCC
* * * * *
57295059 TTAGAAAAGACGAATGAAATTCCAAAGGGATATTCGATTATTTTACGCAAACGAGAAATTGTAAC
1 TTAGAAAACACGAATGAAATTCCAAAGAGACATTCAATTATTTTACGCAAACGAGAAATTGCAAC
57295124 CCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTTCATTCGTTTTAAAAAGT
66 CCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTTCATTCGTTTTAAAAAGT
57295189 TT
131 TT
* * ** *
57295191 TTAGAAAACATGAATGAAATTCTAAAGAGACATTCAATTATTTTGGGTAAACGAGAAATTGCAAC
1 TTAGAAAACACGAATGAAATTCCAAAGAGACATTCAATTATTTTACGCAAACGAGAAATTGCAAC
* * * *
57295256 CCAGCACGATAGGGCACGATTCCCCGAATTGCTAAATATCGAACAT
66 CCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACAT
57295302 CGTCTCCGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 97 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (132 bp):
TTAGAAAACACGAATGAAATTCCAAAGAGACATTCAATTATTTTACGCAAACGAGAAATTGCAAC
CCAGCACAATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTTCATTCGTTTTAAAAAGT
TT
Found at i:57298008 original size:16 final size:16
Alignment explanation
Indices: 57297987--57298020 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57297977 ACTGGCATGT
57297987 GTACGAGGGCTGTGGC
1 GTACGAGGGCTGTGGC
57298003 GTACGAGGGCTGTGGC
1 GTACGAGGGCTGTGGC
57298019 GT
1 GT
57298021 GGCTGCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.21
Consensus pattern (16 bp):
GTACGAGGGCTGTGGC
Found at i:57302382 original size:26 final size:26
Alignment explanation
Indices: 57302353--57302410 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
57302343 TTCTATATAT
*
57302353 ACACACTAAAAGAGGACCTAAAGGGG
1 ACACACTAAAAGAGGACCTAAAGGGA
57302379 ACACACTAAAAGAGGACCTAAAGGGA
1 ACACACTAAAAGAGGACCTAAAGGGA
57302405 ACACAC
1 ACACAC
57302411 AGACTAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (26 bp):
ACACACTAAAAGAGGACCTAAAGGGA
Found at i:57303393 original size:11 final size:11
Alignment explanation
Indices: 57303360--57303402 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
57303350 TAATTTAGTC
57303360 ATTTTTATTTT
1 ATTTTTATTTT
**
57303371 A-TTGCATTTT
1 ATTTTTATTTT
*
57303381 ATTTTTGTTTT
1 ATTTTTATTTT
57303392 ATTTTTATTTT
1 ATTTTTATTTT
57303403 TTTAATTACT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:57305158 original size:6 final size:6
Alignment explanation
Indices: 57305127--57305248 Score: 88
Period size: 6 Copynumber: 19.8 Consensus size: 6
57305117 TATTAGAACT
* * * *
57305127 AGAATC AAAATA AGAATC AGAGTC AGAATC AGAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * * *
57305176 AGAATC AGAATT AGAATC ACAATT AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
57305225 AAGTAA-C AGAATC AGAATC AGAAT
1 -AG-AATC AGAATC AGAATC AGAAT
57305249 GTGAATACAA
Statistics
Matches: 89, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
5 4 0.04
6 74 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:57305192 original size:37 final size:37
Alignment explanation
Indices: 57305139--57305225 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
57305129 AATCAAAATA
* *
57305139 AGAATCAGAGTCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCACAATCAGGTGACAGAATC
* *
57305176 AGAATCAGAATTAGAATCACAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCACAATCAGGTGACAGAATC
*
57305213 AGAATCAGTATCA
1 AGAATCAGAATCA
57305226 AGTAACAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCACAATCAGGTGACAGAATC
Found at i:57305241 original size:31 final size:31
Alignment explanation
Indices: 57305139--57305248 Score: 107
Period size: 31 Copynumber: 3.5 Consensus size: 31
57305129 AATCAAAATA
* * *
57305139 AGAATCAGAGTCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAAC
* * *
57305170 AGAATCAGAATCAGAATTAGAATCACAATTA-
1 AGAATCAGAATCAGAATCAGAATCA-AGTAAC
* * *
57305201 GGTGA-CAGAATCAGAATCAGTATCAAGTAAC
1 AG-AATCAGAATCAGAATCAGAATCAAGTAAC
57305232 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
57305249 GTGAATACAA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
30 4 0.06
31 55 0.89
32 3 0.05
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAAGTAAC
Found at i:57305462 original size:27 final size:26
Alignment explanation
Indices: 57305365--57305459 Score: 118
Period size: 27 Copynumber: 3.6 Consensus size: 26
57305355 CAGCATGGCT
* *
57305365 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGGCAGAGCC
* *
57305391 ACCAGATGCAAATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGGCAGAGCC
* *
57305418 ACCAGAACAGGTATTTGTGGCATAGCC
1 ACCAGAACAGATA-TTGTGGCAGAGCC
57305445 ACCAGAACAGATATT
1 ACCAGAACAGATATT
57305460 TGTAGAAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
26 12 0.21
27 46 0.79
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGGCAGAGCC
Found at i:57305684 original size:22 final size:22
Alignment explanation
Indices: 57305650--57305711 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
57305640 AATTCGTTTT
*
57305650 GCACACAGCCATAATCAGGTTG
1 GCACAAAGCCATAATCAGGTTG
* * *
57305672 GCATAGAGCCAT-ATGTAGGTTG
1 GCACAAAGCCATAAT-CAGGTTG
*
57305694 GCGCAAAGCCATAATCAG
1 GCACAAAGCCATAATCAG
57305712 AATAGGCTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (22 bp):
GCACAAAGCCATAATCAGGTTG
Found at i:57306475 original size:27 final size:27
Alignment explanation
Indices: 57306097--57306473 Score: 472
Period size: 27 Copynumber: 14.0 Consensus size: 27
57306087 GGGTAAAATG
* * * *
57306097 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57306123 GATAATTCTA-CCTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * * *
57306150 GTATTTCTACCATACAAGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-A
* *
57306177 GTAATTATACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57306204 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57306231 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57306258 GTAATTCTACCCTACAAGGGTATTTAA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * * *
57306285 GTAATTTTACCTTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57306312 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57306339 ATAATTATACCGTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57306366 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57306393 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
57306420 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57306447 ATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57306474 ATCATTTTGT
Statistics
Matches: 305, Mismatches: 41, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
26 22 0.07
27 280 0.92
28 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:57308570 original size:6 final size:6
Alignment explanation
Indices: 57308549--57308664 Score: 74
Period size: 6 Copynumber: 18.8 Consensus size: 6
57308539 TATTAGAACT
* * **
57308549 AGAATC AAAATG AGAATC AGAATC AGAATC AGGTTAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT-C AGAATC AGAATC
* * * * * **
57308598 ATAATT AGAATC AGAATT AGGTGAT- AGAAAC AGAATC AGTTTC AAGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC -AG-AATC
57308648 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
57308665 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
5 3 0.04
6 68 0.83
7 9 0.11
8 2 0.02
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
AGAATC
Done.