Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 222 of 378
Found at i:65686814 original size:37 final size:37
Alignment explanation
Indices: 65686695--65686816 Score: 157
Period size: 37 Copynumber: 3.5 Consensus size: 37
65686685 TTGCATTCAC
* *
65686695 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
65686732 ATTCT-A-----ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
65686763 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
65686800 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
65686817 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
31 27 0.37
32 1 0.01
36 1 0.01
37 44 0.60
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:65708105 original size:40 final size:40
Alignment explanation
Indices: 65708045--65708268 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
65708035 TATTCGGATG
65708045 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
65708085 ATATTCGGGCTAAGTCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
65708128 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
65708168 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
65708208 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
65708248 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
65708269 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 14 0.09
40 109 0.69
41 1 0.01
43 34 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:65708191 original size:83 final size:79
Alignment explanation
Indices: 65708052--65708268 Score: 258
Period size: 83 Copynumber: 2.7 Consensus size: 79
65708042 ATGATATCCG
* *
65708052 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTGTAC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATA-TCGGGCTAAGTCCCGAAGGCA-TT-CAC
*
65708117 GAGTAGTTG-CTATACCCA
63 G-CTAG-TGACTATACCCA
* *
65708135 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT-CGGGCTAAGTCCCGAAGGCATTCACGC
* *
65708200 TAGTGACTATATCCG
65 TAGTGACTATACCCA
* * * *
65708215 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCTGGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCGGGCTAAGTCCCGAAG
65708269 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.14
80 42 0.35
81 4 0.03
82 3 0.03
83 54 0.45
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCGGGCTAAGTCCCGAAGGCATTCACGCT
AGTGACTATACCCA
Found at i:65720664 original size:40 final size:40
Alignment explanation
Indices: 65720563--65720747 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
65720553 TATTCGAATG
* * * *
65720563 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
65720604 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
65720644 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
65720684 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
65720723 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
65720748 CTTGTGCGAG
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 92 0.77
41 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:65720708 original size:80 final size:81
Alignment explanation
Indices: 65720563--65720747 Score: 250
Period size: 80 Copynumber: 2.3 Consensus size: 81
65720553 TATTCGAATG
* * * *
65720563 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
*
65720628 ATTTATGCGAGTTA-C
66 ATTTATGCGAGTGATC
* * *
65720643 TATATCCGGGCCAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCTCGAAG
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATC-CGAAG
*
65720706 GCATTTATGCTAGTGATC
64 GCATTTATGCGAGTGATC
65720724 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
65720748 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 2 0.02
80 60 0.66
81 29 0.32
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTGATC
Found at i:65724459 original size:27 final size:26
Alignment explanation
Indices: 65724411--65724470 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65724401 GCGAGGCTGC
*
65724411 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
65724438 CAGATATTGTGGCTACGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
65724464 CAGATAT
1 CAGATAT
65724471 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65725122 original size:26 final size:27
Alignment explanation
Indices: 65725093--65725146 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
65725083 TCAAACAAGT
*
65725093 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
65725119 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
65725146 T
1 T
65725147 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:65725256 original size:80 final size:80
Alignment explanation
Indices: 65725164--65725317 Score: 227
Period size: 80 Copynumber: 1.9 Consensus size: 80
65725154 TTACCCCACA
** * * *
65725164 AGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGAGTATTTCG
1 AGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGAGAATTTCA
65725229 GTAATTCTATCCTAC
66 GTAATTCTATCCTAC
* * * *
65725244 AGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGAATTTCA
1 AGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGAGAATTTCA
65725309 GTAATTCTA
66 GTAATTCTA
65725318 CAACTTATCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (80 bp):
AGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGAGAATTTCA
GTAATTCTATCCTAC
Found at i:65725315 original size:27 final size:27
Alignment explanation
Indices: 65725147--65725318 Score: 220
Period size: 27 Copynumber: 6.4 Consensus size: 27
65725137 GGGGCAAAAT
* * * *
65725147 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65725174 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65725201 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65725228 GGTAATTCTATCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65725254 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
65725281 AATAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65725308 AGTAATTCTAC
1 GGTAATTCTAC
65725319 AACTTATCCA
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.18
27 104 0.82
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65731620 original size:52 final size:51
Alignment explanation
Indices: 65731552--65731683 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
65731542 ATGAATAGAT
* *
65731552 GAGTTACTTAATGCATGACTTAATTTAATGATGCT-AACTTTAACTAACATGA
1 GAGTTACATAAAGCATGACTTAATTTAATGATG-TAAAC-TTAACTAACATGA
* *
65731604 GAGTTACATAAAGCATGTCATAATTT-ATGATGTAAACTTAACTAACATGA
1 GAGTTACATAAAGCATGACTTAATTTAATGATGTAAACTTAACTAACATGA
* * *
65731654 GAGTTATATAACGCATGACTTTATTTAATG
1 GAGTTACATAAAGCATGACTTAATTTAATG
65731684 CAAAACACAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 35 0.51
51 12 0.17
52 22 0.32
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (51 bp):
GAGTTACATAAAGCATGACTTAATTTAATGATGTAAACTTAACTAACATGA
Found at i:65734344 original size:38 final size:38
Alignment explanation
Indices: 65734301--65734449 Score: 192
Period size: 39 Copynumber: 3.9 Consensus size: 38
65734291 GTTTTAAGTC
* *
65734301 TTTAATTATATCATAATTTTAACATCATTAATATGAG-T
1 TTTAATTATGTCATAATTTGAACATCATTAATAT-AGTT
*
65734339 TTTAATTATGTCATAATCTGAACATCATTAATAATAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAAT-ATAGTT
* *
65734378 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAAT-ATAGTT
* * *
65734417 TTTAATTATGTCATAGTTTGGACATCTTTAATA
1 TTTAATTATGTCATAATTTGAACATCATTAATA
65734450 CATGCTTTTA
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
38 32 0.32
39 67 0.68
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (38 bp):
TTTAATTATGTCATAATTTGAACATCATTAATATAGTT
Found at i:65734392 original size:39 final size:39
Alignment explanation
Indices: 65734301--65734466 Score: 187
Period size: 39 Copynumber: 4.3 Consensus size: 39
65734291 GTTTTAAGTC
* * *
65734301 TTTAATTATATCATAATTTTAACATCATTAAT-ATGAG-T
1 TTTAATTATGTCATAATCTGAACATCATTAATAAT-AGTT
65734339 TTTAATTATGTCATAATCTGAACATCATTAATAATAGTT
1 TTTAATTATGTCATAATCTGAACATCATTAATAATAGTT
*
65734378 TTTAATTATGTCATAA-CTTGAACATCATTAATAAAAGTT
1 TTTAATTATGTCATAATC-TGAACATCATTAATAATAGTT
* * * * *
65734417 TTTAATTATGTCATAGTTTGGACATCTTTAATACAT-GCT
1 TTTAATTATGTCATAATCTGAACATCATTAATA-ATAGTT
*
65734456 TTTAAGTATGT
1 TTTAATTATGT
65734467 TTAAATTCTA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 32 0.29
39 79 0.71
40 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (39 bp):
TTTAATTATGTCATAATCTGAACATCATTAATAATAGTT
Found at i:65734466 original size:78 final size:77
Alignment explanation
Indices: 65734301--65734466 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 77
65734291 GTTTTAAGTC
* * * **
65734301 TTTAATTATATCATAATTTTAACATCATTAATATGAGTTTTAATTATGTCATAATCTGAACATCA
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
*
65734366 TTAATAATAGTT
66 TTAATAATAGCT
* * *
65734378 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAGTTTGGACATC
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAG-TTTTAATTATGTCATAATCTGAACATC
*
65734443 TTTAATACAT-GCT
65 ATTAATA-ATAGCT
*
65734456 TTTAAGTATGT
1 TTTAATTATGT
65734467 TTAAATTCTA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
77 32 0.42
78 42 0.55
79 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (77 bp):
TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
TTAATAATAGCT
Found at i:65734480 original size:78 final size:77
Alignment explanation
Indices: 65734301--65734487 Score: 198
Period size: 78 Copynumber: 2.4 Consensus size: 77
65734291 GTTTTAAGTC
* * * **
65734301 TTTAATTATATCATAATTTTAACATCATTAATATGAGTTTTAATTATGTCATAATCTGAACATCA
1 TTTAAGTATGTCATAAATTTAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
*
65734366 TTAATAATAGTT
66 TTAATAATAGCT
* * * * * *
65734378 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAGTTTGGACATC
1 TTTAAGTATGTCATAAATTTAACATCATTAATAAAAG-TTTTAATTATGTCATAATCTGAACATC
*
65734443 TTTAATACAT-GCT
65 ATTAATA-ATAGCT
* *
65734456 TTTAAGTATGT-TTAAATTCTAACATCTTTAAT
1 TTTAAGTATGTCATAAATT-TAACATCATTAAT
65734488 GTTTGTTTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
77 37 0.40
78 53 0.58
79 2 0.02
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.45
Consensus pattern (77 bp):
TTTAAGTATGTCATAAATTTAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
TTAATAATAGCT
Found at i:65741632 original size:40 final size:39
Alignment explanation
Indices: 65741403--65741625 Score: 292
Period size: 39 Copynumber: 5.7 Consensus size: 39
65741393 TCGAATGATG
* *
65741403 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
65741443 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
65741482 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
65741521 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
65741560 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
65741600 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65741626 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
38 14 0.08
39 80 0.48
40 63 0.38
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:65749632 original size:79 final size:80
Alignment explanation
Indices: 65749496--65749719 Score: 296
Period size: 79 Copynumber: 2.8 Consensus size: 80
65749486 TCGAATGATG
* * * *
65749496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
* *
65749559 TTGTGCGAGTTACTAAT
64 TTGTGCGAGTCACTAAA
* *
65749576 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
65749640 GTGCGAGTCACTAAA
66 GTGCGAGTCACTAAA
* *
65749655 TCCGGGTTAAGTCCC-AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
65749718 TG
65 TG
65749720 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 105 0.82
80 22 0.17
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTCACTAAA
Found at i:65749733 original size:40 final size:40
Alignment explanation
Indices: 65749496--65749719 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
65749486 TCGAATGATG
* * *
65749496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
65749536 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65749576 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
65749615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
65749655 TCCGGGTTAAGTCCC-AAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
65749695 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
65749720 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 68 0.41
40 88 0.54
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:65752597 original size:28 final size:29
Alignment explanation
Indices: 65752555--65752669 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
65752545 TACCTGTATC
* * *
65752555 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCTATTAGGCCCAAATCACATTCATA
* *
65752583 TGGCCTATTCGGCCCAAATCACCTGT-ATA
1 TGGCCTATTAGGCCCAAATCACAT-TCATA
*
65752612 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCTATTAGGCCCAAATCACATTCATA
* *
65752641 TGGTCC-GTTAGGCCC-AGTCACATTCATA
1 TGG-CCTATTAGGCCCAAATCACATTCATA
65752669 T
1 T
65752670 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 25 0.34
29 45 0.62
30 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
TGGCCTATTAGGCCCAAATCACATTCATA
Found at i:65758288 original size:27 final size:25
Alignment explanation
Indices: 65758258--65758314 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
65758248 ACATTGAACA
* * *
65758258 CTTAGGGGTATTTTGGTCATTTTTGCC
1 CTTAAGGGTATTTCGG-CAATTTT-CC
65758285 CTTAAGGGTATTTCGGCAATTTTCC
1 CTTAAGGGTATTTCGGCAATTTTCC
65758310 CTTAA
1 CTTAA
65758315 TTATGGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 6 0.22
27 14 0.52
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (25 bp):
CTTAAGGGTATTTCGGCAATTTTCC
Found at i:65762201 original size:2 final size:2
Alignment explanation
Indices: 65762194--65762219 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65762184 CGGCTCTTGC
65762194 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
65762220 GTTTGCACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65762966 original size:40 final size:40
Alignment explanation
Indices: 65762908--65763071 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
65762898 TGAATGATAC
* * * *
65762908 CCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
65762948 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTATAT
* * * ** *
65762988 CCGGGCTAAGACCTGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
65763028 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
65763068 CCGG
1 CCGG
65763072 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:65763041 original size:80 final size:80
Alignment explanation
Indices: 65762908--65763071 Score: 211
Period size: 80 Copynumber: 2.0 Consensus size: 80
65762898 TGAATGATAC
* * * ** * *
65762908 CCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCTGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
*
65762973 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * *
65762988 CCGGGCTAAGACCTGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCTGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
65763053 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
65763068 CCGG
1 CCGG
65763072 TTAAATCCCG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCTGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:65766409 original size:29 final size:28
Alignment explanation
Indices: 65766338--65766423 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
65766328 TATCTATATC
* * *
65766338 TGGCCCATTAAGCCCAACCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
** *
65766366 TGGCCCATTTTGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
65766395 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
65766423 T
1 T
65766424 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:65770880 original size:28 final size:29
Alignment explanation
Indices: 65770848--65770962 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
65770838 TACCTGTATC
* *
65770848 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
65770876 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
65770905 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** *
65770934 TGGCCCGCTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
65770962 T
1 T
65770963 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 27 0.36
29 48 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:65770900 original size:57 final size:58
Alignment explanation
Indices: 65770839--65770949 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
65770829 AAAATCACAT
* * *
65770839 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCACTAGGCCCAAATC
* * *
65770896 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGCTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCACTAGGCCCA
65770950 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCACTAGGCCCAAATC
Found at i:65771198 original size:16 final size:16
Alignment explanation
Indices: 65771177--65771216 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
65771167 CAAACTTTTA
65771177 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
* *
65771193 GCTTTTTGGCATTTTG
1 GCTTTTCGGCATTTCG
*
65771209 GCATTTCG
1 GCTTTTCG
65771217 ACTTTTGCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.07, C:0.20, G:0.25, T:0.47
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:65773234 original size:28 final size:28
Alignment explanation
Indices: 65773165--65773265 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65773155 GACAAGATTG
* * * *
65773165 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
65773195 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65773223 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
65773252 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65773266 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65780966 original size:28 final size:28
Alignment explanation
Indices: 65780897--65780997 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
65780887 GACAAGATTG
* * * *
65780897 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
65780927 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65780955 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
65780984 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65780998 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65785741 original size:40 final size:40
Alignment explanation
Indices: 65785686--65785895 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65785676 AACATTGGAA
65785686 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65785726 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65785766 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65785806 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65785845 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65785886 CTATATCCGG
1 ATATATCCGG
65785896 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65788636 original size:39 final size:40
Alignment explanation
Indices: 65788571--65788775 Score: 260
Period size: 39 Copynumber: 5.2 Consensus size: 40
65788561 AACATTGAAA
65788571 ATATATCCGGGCTAAGA--CGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65788609 ATATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65788648 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65788687 ATATAT-CGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65788725 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65788766 CTATATCCGG
1 ATATATCCGG
65788776 TTAAATCCGA
Statistics
Matches: 143, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
37 8 0.06
38 20 0.14
39 76 0.53
40 39 0.27
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65793317 original size:40 final size:40
Alignment explanation
Indices: 65793262--65793471 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65793252 AACATTGGAA
65793262 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65793302 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65793342 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65793382 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65793421 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65793462 CTATATCCGG
1 ATATATCCGG
65793472 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65801448 original size:40 final size:40
Alignment explanation
Indices: 65801393--65801602 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65801383 AACATTGGAA
65801393 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65801433 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65801473 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65801513 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65801552 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65801593 CTATATCCGG
1 ATATATCCGG
65801603 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65809583 original size:40 final size:40
Alignment explanation
Indices: 65809528--65809737 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
65809518 AACATTGGAA
65809528 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65809568 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
65809608 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
65809648 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
65809687 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
65809728 CTATATCCGG
1 ATATATCCGG
65809738 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:65822677 original size:49 final size:48
Alignment explanation
Indices: 65822532--65822791 Score: 400
Period size: 49 Copynumber: 5.4 Consensus size: 48
65822522 TACATATATG
* * * * *
65822532 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATTATA
* *
65822579 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA-TATA
1 TGTGATAAGGCC-TAATGGCCGATGTGGTGAATGTGAAAGTGTATTATA
65822626 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTAT-TATA
65822675 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTAT-TATA
65822724 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTAT-TATA
65822773 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
65822792 TAATGTAAAA
Statistics
Matches: 203, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 82 0.40
49 120 0.59
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATTATA
Found at i:65822942 original size:37 final size:37
Alignment explanation
Indices: 65822892--65823013 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
65822882 TGGAAATGTT
*
65822892 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
65822929 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
65822966 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
65823003 CCGGGTAAGAC
1 CCGGGTAAGAC
65823014 TTCGTAATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:65832957 original size:47 final size:48
Alignment explanation
Indices: 65832838--65832973 Score: 193
Period size: 47 Copynumber: 2.8 Consensus size: 48
65832828 CAGTTATAAG
* *
65832838 TGTAACGTGGTGCTAAGTGGACAAATACCACGATTACACATATTGATACA
1 TGTAACGTGGTGCTAAGTGG--ATATACCACGGTTACACATATTGATACA
* * *
65832888 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACA
*
65832936 T-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
65832974 GTAATGTGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
47 34 0.44
48 24 0.31
50 20 0.26
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACA
Found at i:65832992 original size:38 final size:38
Alignment explanation
Indices: 65832941--65833013 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
65832931 ATTCATTAAC
65832941 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
* *
65832979 GTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
65833014 TAATTTGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
Found at i:65834536 original size:99 final size:99
Alignment explanation
Indices: 65834365--65834562 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
65834355 GATTTGCTAT
65834365 AATTATACGCACGTTGTTCTAGTAATACTCATATTCTGTTCTAGTATTGAACACGGGTATGGGGT
1 AATTATACGCACGTTGTTCTAGTAATACTCATATTCTGTTCTAGTATTGAACACGGGTATGGGGT
65834430 GTTACAAAATATGCAAAATTTCCCTATACCCATG
66 GTTACAAAATATGCAAAATTTCCCTATACCCATG
*
65834464 AATTATACGTACGTTGTTCTAGTAATACTCATATTCTGTTCTAGTATTGAACACGGGTATGGGGT
1 AATTATACGCACGTTGTTCTAGTAATACTCATATTCTGTTCTAGTATTGAACACGGGTATGGGGT
65834529 GTTACAAAATATGCAAAATTTCCCTATACCCATG
66 GTTACAAAATATGCAAAATTTCCCTATACCCATG
65834563 TTGGGCTGAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (99 bp):
AATTATACGCACGTTGTTCTAGTAATACTCATATTCTGTTCTAGTATTGAACACGGGTATGGGGT
GTTACAAAATATGCAAAATTTCCCTATACCCATG
Found at i:65836582 original size:40 final size:40
Alignment explanation
Indices: 65836504--65836681 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
65836494 AACCCAAGTA
* * *
65836504 CCTTCGGGAT-TTAG-CCGGATAAAGCAACTCGCATAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATG
* *
65836543 CCTTCGGGTCTTAGCCCGGATATAGTAACTAGCCCAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
*
65836583 CCTTCGGGACTTAGCCCGGATATAGCAACTCA-CACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGCAACT-AGCACAAATG
* * *
65836623 GCTTCGGGTCTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
65836663 CCTTCGGGTCTTAGCCCGG
1 CCTTCGGGTCTTAGCCCGG
65836682 TTATCATCCG
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 108 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:65836628 original size:80 final size:80
Alignment explanation
Indices: 65836504--65836681 Score: 277
Period size: 80 Copynumber: 2.2 Consensus size: 80
65836494 AACCCAAGTA
* * *
65836504 CCTTCGGGATTTAG-CCGGATAAAGCAACTCGCATAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATAAAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
65836568 TAACTAGCCCAAATG
66 TAACTAGCACAAATG
* *
65836583 CCTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGGCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATAAAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
65836648 TAACTCGCACAAATG
66 TAACTAGCACAAATG
*
65836663 CCTTCGGGTCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
65836682 TTATCATCCG
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 13 0.14
80 77 0.86
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATAAAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:65840904 original size:40 final size:40
Alignment explanation
Indices: 65840848--65840986 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
65840838 GGATATAGCG
* * * *
65840848 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * **
65840888 GCTCGCACAAATGCCTTC-GGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
* ** **
65840927 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGA-CATAACCCGGATTTAAGA
65840967 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
65840987 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.39
40 51 0.60
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:65840932 original size:39 final size:40
Alignment explanation
Indices: 65840889--65841039 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
65840879 GTTATAATAG
*
65840889 CTCGCACAAATGCCTTCGGA-CTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGGAA
*
65840928 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGGAA
* * **
65840968 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGGAA
65841008 CTCAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CTC-GCACAAATGCCTTC-GGATCTTAGCCCGGA
65841040 CATCATTCGA
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
39 20 0.19
40 73 0.71
41 10 0.10
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGATCTTAGCCCGGATTTGGGAA
Found at i:65848948 original size:40 final size:41
Alignment explanation
Indices: 65848866--65849011 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 41
65848856 GCGACTCGCT
* * * *** *
65848866 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTCAGCA
* *
65848906 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTC-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTCAGCA
* **
65848946 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTCAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAACTCAGCA
65848987 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65849012 CATCATTCGA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 74 0.85
41 10 0.11
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGGGAACTCAGCA
Found at i:65849303 original size:28 final size:28
Alignment explanation
Indices: 65849249--65849312 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
65849239 TGTATTTGAC
65849249 ACTTAGTGTGAAAAATATTAAGAATGAA
1 ACTTAGTGTGAAAAATATTAAGAATGAA
* * * * * *
65849277 ACTTGGTGTGCAATATATTGAGTATGAC
1 ACTTAGTGTGAAAAATATTAAGAATGAA
65849305 ACTTAGTG
1 ACTTAGTG
65849313 AAAGTTCTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (28 bp):
ACTTAGTGTGAAAAATATTAAGAATGAA
Found at i:65854359 original size:15 final size:14
Alignment explanation
Indices: 65854320--65854363 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
65854310 TTCAAATTTC
65854320 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
**
65854334 TTCACTCTTTTCTTT
1 TTTTCT-TTTTCTTT
65854349 TTGTTCTTTTTCTTT
1 TT-TTCTTTTTCTTT
65854364 CAATTGCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.17
15 18 0.75
16 2 0.08
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:65856397 original size:46 final size:46
Alignment explanation
Indices: 65856320--65856445 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
65856310 ATTTAAGTAT
* * * * **
65856320 TTAATGTGTCTTGAGTCTATTTAATATGTTCTAATTAGATTCGGTAA
1 TTAATATGTCTTAAGT-TATTTAATGTGTTCTAATTAGATTAGCCAA
* * * *
65856367 TTAATTTGTCTTAAGTTAATTAATGTGTTCTAATTAGTTTAGCCAT
1 TTAATATGTCTTAAGTTATTTAATGTGTTCTAATTAGATTAGCCAA
65856413 TTAATATGTCTTAAGTTTATTTAATGTGTTCTA
1 TTAATATGTCTTAAG-TTATTTAATGTGTTCTA
65856446 GTTAATATAG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 37 0.55
47 30 0.45
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (46 bp):
TTAATATGTCTTAAGTTATTTAATGTGTTCTAATTAGATTAGCCAA
Found at i:65856464 original size:47 final size:46
Alignment explanation
Indices: 65856320--65856474 Score: 150
Period size: 47 Copynumber: 3.3 Consensus size: 46
65856310 ATTTAAGTAT
* * * * *
65856320 TTAATGTGTCTTGAGTCTATTTAATATGTTCTAATTAGATTCGGTAA
1 TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTA-ATTAGCTAA
* * * * *
65856367 TTAATTTGTCTTAAG-TTAATTAATGTGTTCTAATTAGTTTAGCCAT
1 TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTA-ATTAGCTAA
* * *
65856413 TTAATATGTCTTAAGTTTATTTAATGTGTTCTAGTTAATATAGCTAC
1 TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTAAT-TAGCTAA
*
65856460 TTAATGTGTCATAAG
1 TTAATGTGTCTTAAG
65856475 CTTAGACAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
46 38 0.43
47 50 0.57
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (46 bp):
TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTAATTAGCTAA
Found at i:65860299 original size:43 final size:43
Alignment explanation
Indices: 65860173--65860334 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 43
65860163 CACTATGTGT
* * * *
65860173 TTTCATGTAAAACCACGTCTGGGAC-GTTGGCATCGACT-TATGA
1 TTTCGTGTAAGACCATGTCTGGGACAG-TGGCATCGA-TATTTGA
* * * *
65860216 TTTATGTGTAAAACCATGTCTGGGACA-TCGACTTCG-TATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGA
*
65860259 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
* * * *
65860302 TTACATGTAAGACCAAGTCTAGGAC-GTTGGCAT
1 TTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
65860335 TGTATGAGTT
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 27 0.28
43 45 0.47
44 24 0.25
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
Found at i:65867876 original size:43 final size:43
Alignment explanation
Indices: 65867741--65867899 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
65867731 ACATAGGATC
* * * * *
65867741 CGATATGTGTTTTCATGTAAGACCACGTCTGGGA-TGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
* * *
65867784 CGACT-TATGATTTACGTGTAAGACCATGTATGGGACA-TCGACAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
* *
65867828 C-ATATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* *
65867870 CGATATTTGATTACATGTAAGACCATGTCT
1 CGATATTTGATTTCGTGTAAGACCATGTCT
65867900 TGGAGGTTGG
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 26 0.28
43 43 0.46
44 24 0.26
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:65878459 original size:25 final size:25
Alignment explanation
Indices: 65878425--65878494 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
65878415 CTCTTTTAAT
65878425 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
65878450 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
65878475 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65878495 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:65878553 original size:10 final size:10
Alignment explanation
Indices: 65878540--65878578 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
65878530 ATATATGAAT
65878540 ATATCATGGC
1 ATATCATGGC
65878550 ATATCATGTGC
1 ATATCATG-GC
*
65878561 ATATTATGGC
1 ATATCATGGC
65878571 ATATCATG
1 ATATCATG
65878579 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:65878569 original size:21 final size:21
Alignment explanation
Indices: 65878540--65878579 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
65878530 ATATATGAAT
65878540 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
65878561 ATATTATGGCATATCATGT
1 ATATCATGGCATATCATGT
65878580 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:65878646 original size:25 final size:25
Alignment explanation
Indices: 65878618--65878665 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
65878608 ATAACATATC
* *
65878618 CTTAGGGGTATAATGGTCATTTTTA
1 CTTAGGGGCAAAATGGTCATTTTTA
65878643 CTTAGGGGCAAAATGGTCATTTT
1 CTTAGGGGCAAAATGGTCATTTT
65878666 CACATTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (25 bp):
CTTAGGGGCAAAATGGTCATTTTTA
Found at i:65883999 original size:40 final size:40
Alignment explanation
Indices: 65883954--65884120 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65883944 CGGAATATAA
65883954 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65883994 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
65884034 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65884074 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65884113 CCGGATAT
1 CCGGATAT
65884121 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65884104 original size:80 final size:79
Alignment explanation
Indices: 65883954--65884120 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
65883944 CGGAATATAA
* *
65883954 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
65884019 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
65884034 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
65884096 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
65884113 CCGGATAT
1 CCGGATAT
65884121 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:65884962 original size:17 final size:19
Alignment explanation
Indices: 65884939--65884984 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
65884929 AAGAAGCATG
65884939 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
65884957 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
65884975 AATCATGCTC
1 AATCATGCTC
65884985 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:65889306 original size:40 final size:40
Alignment explanation
Indices: 65889261--65889390 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
65889251 CGGAATATAA
65889261 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
65889301 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
65889340 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65889380 CCGGATATAAT
1 CCGGATATAAT
65889391 TTCCAGCATA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.46
40 38 0.53
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65889404 original size:40 final size:40
Alignment explanation
Indices: 65889261--65889426 Score: 135
Period size: 40 Copynumber: 4.2 Consensus size: 40
65889251 CGGAATATAA
* ** *
65889261 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
*
65889301 CCGGATA-AATGTCTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCTC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * * * *
65889340 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
* * *
65889380 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAG-
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGG-TCTTAGC
65889419 CCGGATAT
1 CCGGATAT
65889427 CATTCAATTT
Statistics
Matches: 99, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
39 41 0.41
40 57 0.58
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:65891772 original size:16 final size:16
Alignment explanation
Indices: 65891751--65891784 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
65891741 GTACGGATTT
65891751 TGCTATACATGCCATA
1 TGCTATACATGCCATA
65891767 TGCTATACATGCCATA
1 TGCTATACATGCCATA
65891783 TG
1 TG
65891785 TATGAATGTG
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:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (16 bp):
TGCTATACATGCCATA
Found at i:65897830 original size:46 final size:46
Alignment explanation
Indices: 65897780--65897955 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
65897770 TGGTTGAGCA
65897780 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65897826 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
65897871 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65897919 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65897956 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65897936 original size:93 final size:93
Alignment explanation
Indices: 65897777--65897948 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65897767 GGATGGTTGA
* *
65897777 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65897842 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
65897870 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65897935 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65897949 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65902817 original size:28 final size:28
Alignment explanation
Indices: 65902766--65902836 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
65902756 TCGCTGTCTC
*
65902766 GCACACTAAGTGCC-TTACTTAATATCTA
1 GCACACTAAGTGCCATTACTCAATAT-TA
* *
65902794 GCACACCAAGTGCCATT-CTCAATATTT
1 GCACACTAAGTGCCATTACTCAATATTA
65902821 GACACACTAAGTGCCA
1 G-CACACTAAGTGCCA
65902837 CACACACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTAAGTGCCATTACTCAATATTA
Found at i:65902840 original size:2 final size:2
Alignment explanation
Indices: 65902835--65902862 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65902825 CACTAAGTGC
65902835 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
65902863 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:65907692 original size:40 final size:40
Alignment explanation
Indices: 65907637--65907819 Score: 210
Period size: 40 Copynumber: 4.5 Consensus size: 40
65907627 CTTGCACAAG
* * * *
65907637 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
65907677 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
65907717 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCAGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* *
65907757 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAGA-
1 GCCTTCAGGA-CTTAGCCCGGATATAGTCA-CTAGCACAA-AT
65907798 GCCTTCAGGACTTAGCCCGGAT
1 GCCTTCAGGACTTAGCCCGGAT
65907820 CTCATTCGAA
Statistics
Matches: 120, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 3 0.03
40 89 0.74
41 24 0.20
42 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:65907758 original size:80 final size:81
Alignment explanation
Indices: 65907630--65907819 Score: 237
Period size: 80 Copynumber: 2.4 Consensus size: 81
65907620 ATAACTACTT
* *
65907630 GCACAAG-GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCAGGA-CTTAGC
1 GCACAAGAGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGATCTTAGC
*
65907693 CCGGATATAGTC-GCTA
65 CCGGATATAGTCACCTA
* *
65907709 GCACAA-ATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGATCTTAG
1 GCACAAGA-GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGATCTTAG
* *
65907772 TCCGGTTATAGTCACCTA
64 CCCGGATATAGTCACCTA
* *
65907790 GCACAAGAGCCTTCAGGACTTAGCCCGGAT
1 GCACAAGAGCCTTCGGGTCTTAGCCCGGAT
65907820 CTCATTCGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 10 0.10
80 56 0.58
81 29 0.30
82 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
GCACAAGAGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCC
CGGATATAGTCACCTA
Found at i:65910514 original size:42 final size:43
Alignment explanation
Indices: 65910406--65910567 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
65910396 AGCTCGTACA
* * *
65910406 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
* *
65910449 ATGCCACTGTCCCAGAAAG-GGTCTTACATGAAATCAAATA-CG
1 ATGCCAATGTCCCAG-ACGTGGTCTTACATGAAATCAAATATCG
* * *
65910491 ATGCCAATGTACCAGACGTGGTCTTACACGTAAATCATAA-ATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-AAATCA-AATATCG
* * * * *
65910535 ATGACAACGTCCCAGATGTAGTTTTACATGAAA
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAA
65910568 ACACATATTG
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 25 0.26
43 43 0.44
44 27 0.28
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:65916046 original size:27 final size:27
Alignment explanation
Indices: 65916015--65916193 Score: 209
Period size: 27 Copynumber: 6.6 Consensus size: 27
65916005 TTAGTTTACC
* *
65916015 AAATTACCAAAATACCCTTGGTATGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
65916042 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
65916069 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* **
65916096 AAATTACCAAAATACCC-TCGATCAGTA
1 AAATTACCAAAATACCCTTAG-TTTGTA
*
65916123 AAATTACCAAAATACCAC-TAGTTTGTG
1 AAATTACCAAAATACC-CTTAGTTTGTA
* * * *
65916150 AAATTACCGAAATATCCTCAATTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
65916177 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
65916194 CTGATTTACA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 124 0.95
28 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:65916144 original size:81 final size:81
Alignment explanation
Indices: 65916015--65916193 Score: 254
Period size: 81 Copynumber: 2.2 Consensus size: 81
65916005 TTAGTTTACC
* * * *
65916015 AAATTACCAAAATACCCTTGGTATGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCGATATGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAA
*
65916080 ATACCC-CTAGTTTGTA
66 ATACCCTC-AATTTGTA
* *
65916096 AAATTACCAAAATACCCTCGATCA-GTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGA
1 AAATTACCAAAATACCCTCGAT-ATGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAA
*
65916160 AATATCCTCAATTTGTA
65 AATACCCTCAATTTGTA
65916177 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
65916194 CTGATTTACA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 86 0.98
82 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATATGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAA
ATACCCTCAATTTGTA
Found at i:65916216 original size:54 final size:52
Alignment explanation
Indices: 65916015--65916221 Score: 177
Period size: 54 Copynumber: 3.8 Consensus size: 52
65916005 TTAGTTTACC
* * *
65916015 AAATTACCAAAATACCCTTGGTATGTAAAATTACCA-AAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCT-G-ATTTAAAATTA-CAGAAATACCCTC-AATTTGTA
* * * **
65916069 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCCTCGATCAGTA
1 AAATTACCAAAATACCCCT-GATT-TAAAATTA-CAGAAATACCCTCAATTTGTA
* * * * *
65916123 AAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATATCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GATT-TAAAATTACAGAAATACCCTCAATTTGTA
65916177 AAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCT
1 AAATTACCAAAATACCCCTGATTTA-AAA-TTACAGAAATACCCT
65916222 TGACTTTCTA
Statistics
Matches: 126, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 8 0.06
54 116 0.92
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (52 bp):
AAATTACCAAAATACCCCTGATTTAAAATTACAGAAATACCCTCAATTTGTA
Found at i:65916291 original size:27 final size:27
Alignment explanation
Indices: 65916261--65916670 Score: 459
Period size: 27 Copynumber: 15.2 Consensus size: 27
65916251 TGGTTTACAA
* *
65916261 AATTACTGAAATGCCCATGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
65916288 AATTA-TCGAAATACTCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
65916315 AATTACCGCAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
65916342 AATTA-TCACAATACCCCTGTAGGGTAG
1 AATTACTGA-AATACCCCTGTAGGGTAG
* ** *
65916369 AACTACCAAAATGCCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
65916396 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
65916423 AATTATTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * * *
65916450 AATTACCAAAATAACCCTGTAAGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
65916477 AATTACAGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
65916504 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
65916531 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
65916558 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
65916585 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
65916612 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
65916639 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
65916665 AATTAC
1 AATTAC
65916671 CATTTTGCCT
Statistics
Matches: 322, Mismatches: 55, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.05
27 305 0.95
28 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:65916346 original size:81 final size:80
Alignment explanation
Indices: 65916261--65916670 Score: 509
Period size: 81 Copynumber: 5.1 Consensus size: 80
65916251 TGGTTTACAA
* * * * *
65916261 AATTACTGAAATGCCCATGTAGGGTAGAATTATCGAAATACTCCTGTAGGGTAGAATTACCGCAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATAC-CCTGTAGGGTAGAATTACCGAAA
*
65916326 TACCCTTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * *
65916342 AATTA-TCACAATACCCCTGTAGGGTAGAACTACCAAAATGCCCCTGTAGGGTAGAATTACCGAA
1 AATTACTGA-AATACCCCTGTAGGGTAGAATTACCAAAAT-ACCCTGTAGGGTAGAATTACCGAA
*
65916406 ATACCCCTATAGGGTAG
64 ATACCCCTGTAGGGTAG
* * * * *
65916423 AATTATTGAAATAACCCTGTAGGGTAGAATTACCAAAATAACCCTGTAAGGTAAAATTACAGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAAT-ACCCTGTAGGGTAGAATTACCGAAA
*
65916488 TACCCCTATAGGGTAG
65 TACCCCTGTAGGGTAG
* * *
65916504 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCC-TGTAGGGTAGAATTACCGAAA
65916569 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * * *
65916585 AATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATA-CCCTGTAGGGTAGAATTACCGAAA
* * *
65916650 TA-CCTTGTGGGGTAA
65 TACCCCTGTAGGGTAG
65916665 AATTAC
1 AATTAC
65916671 CATTTTGCCT
Statistics
Matches: 286, Mismatches: 38, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
80 22 0.08
81 258 0.90
82 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTGTAGGGTAGAATTACCGAAAT
ACCCCTGTAGGGTAG
Found at i:65917149 original size:22 final size:22
Alignment explanation
Indices: 65917097--65917161 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
65917087 TTAAAGCCTT
*
65917097 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
65917119 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
* *
65917141 TTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
65917162 ACATATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:65917414 original size:28 final size:27
Alignment explanation
Indices: 65917319--65917427 Score: 141
Period size: 27 Copynumber: 4.0 Consensus size: 27
65917309 ATTCTGTTAA
* *
65917319 GTGGCTTTGCCAC-ATTATCTGTTTCTG
1 GTGGCTATGCCACAAATATCTG-TTCTG
65917346 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
65917373 GTGGCTATGCCACAAATATCTGTATCTG
1 GTGGCTATGCCACAAATATCTGT-TCTG
* * *
65917401 GTGACTTTGTCAC-AATATCTGTTCTG
1 GTGGCTATGCCACAAATATCTGTTCTG
65917427 G
1 G
65917428 CAGCAATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.07
27 49 0.65
28 21 0.28
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAAATATCTGTTCTG
Found at i:65917581 original size:6 final size:6
Alignment explanation
Indices: 65917542--65917661 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
65917532 TTGCATTCAC
* *
65917542 ATTCTG ATTTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * * * *
65917592 -TTACCTA ATACTG ATTCTG ATTCTG ATTTTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
65917642 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
65917662 AATGTTTCTT
Statistics
Matches: 86, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
5 7 0.08
6 63 0.73
7 12 0.14
8 3 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:65917588 original size:31 final size:31
Alignment explanation
Indices: 65917542--65917652 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
65917532 TTGCATTCAC
* *
65917542 ATTCTGATTTTTGATTCTGTTACCTGATATTG
1 ATTCTGA-TTCTGATTCTGTTACCTAATATTG
* *
65917574 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATATTG
* *
65917605 ATTCTGATTCTGATTTTGTCACCTAAT-TCTG
1 ATTCTGATTCTGATTCTGTTACCTAATAT-TG
65917636 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
65917653 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATATTG
Found at i:65919550 original size:43 final size:42
Alignment explanation
Indices: 65919393--65919551 Score: 101
Period size: 43 Copynumber: 3.7 Consensus size: 42
65919383 TATGCGTTTT
* * *
65919393 CATGTAAGACCACGTTTGAGACGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACATCTGGGACGTTGGCATC-ATATT-AGA-TTA
** ** * * * * *
65919437 TGTGTAAGACCATGTCTAGGACATCGGCATCATATTTGATTT
1 CATGTAAGACCACATCTGGGACGTTGGCATCATATTAGATTA
* *
65919479 CGTGTAAGACTC-TATCTGGGTGA-G-TGGCATCTATATTAGATTA
1 CATGTAAGAC-CACATCT-GG-GACGTTGGCATC-ATATTAGATTA
65919522 CATGTAAGACCACATCTGGGACGTTGGCAT
1 CATGTAAGACCACATCTGGGACGTTGGCAT
65919552 TGTACGAGTT
Statistics
Matches: 88, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
41 2 0.02
42 25 0.28
43 34 0.39
44 27 0.31
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCACATCTGGGACGTTGGCATCATATTAGATTA
Found at i:65924696 original size:25 final size:25
Alignment explanation
Indices: 65924641--65924697 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
65924631 ATTTTCCTCC
* *
65924641 TAAA-TTTCTATTTTATTTAATTAT
1 TAAATTTTCAATTTTATTGAATTAT
*
65924665 TTAATTTTCAATTTT-TTGAATTAT
1 TAAATTTTCAATTTTATTGAATTAT
65924689 TAATATTTT
1 TAA-ATTTT
65924698 ATACTAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TAAATTTTCAATTTTATTGAATTAT
Found at i:65932577 original size:38 final size:40
Alignment explanation
Indices: 65932390--65932650 Score: 335
Period size: 39 Copynumber: 6.7 Consensus size: 40
65932380 GCTACTCGTT
* *
65932390 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
65932430 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
65932470 CAAATGCCTTCGGATCTTAG-CCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
65932509 CAAATGCCTTCGGATCTTAGT-CGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
65932548 CAAATGCCTTC-GATCTTAGTCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * *
65932586 CAAATGCCTTCGG-TCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
65932626 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
65932651 CATCATTCGA
Statistics
Matches: 205, Mismatches: 7, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
38 45 0.22
39 88 0.43
40 70 0.34
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:65932611 original size:77 final size:77
Alignment explanation
Indices: 65932418--65932636 Score: 318
Period size: 77 Copynumber: 2.8 Consensus size: 77
65932408 AGCCCGGTTA
* **
65932418 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTC-GGTCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-G
65932483 ATCTTAGCCGGATT
64 ATCTTAGCCGGATT
65932497 TAGTAACTCGCACAAATGCCTTCGGATCTTAGT-CGGATTTAGTAACTCGCACAAATGCCTTCGA
1 TAGTAACTCGCACAAATGCCTTCGG-TCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGA
65932561 TCTTAGTCCGGA-T
65 TCTTAG-CCGGATT
* * *
65932574 TAGTAACTCGCACAAATGCCTTCGGTCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGTCTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCG
65932637 GGACTTAGCC
Statistics
Matches: 130, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
76 7 0.05
77 52 0.40
78 44 0.34
79 27 0.21
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (77 bp):
TAGTAACTCGCACAAATGCCTTCGGTCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGAT
CTTAGCCGGATT
Found at i:65932644 original size:116 final size:118
Alignment explanation
Indices: 65932390--65932649 Score: 354
Period size: 116 Copynumber: 2.2 Consensus size: 118
65932380 GCTACTCGTT
*
65932390 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGG
* *
65932455 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCGGATTTAGTAACTCGCA
65 ATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCGGATATAGTAACTAGCA
* **
65932509 CAAATGCCTTC-GGATCTTAG-TCGGATT-TAGTAACTCGCACAAATGCCTTC-GATCTTAGTCC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCC
*
65932570 GGA-TTAGTAACTCGCACAAATGCCTTCGG-TCTTAGTCCGGATATAGTCACTTAGCA
63 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG-CCGGATATAGTAAC-TAGCA
65932626 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
65932650 ACATCATTCG
Statistics
Matches: 126, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
115 6 0.05
116 51 0.40
117 23 0.18
118 29 0.23
119 17 0.13
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (118 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
TTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCGGATATAGTAACTAGCA
Found at i:65940585 original size:39 final size:40
Alignment explanation
Indices: 65940506--65940769 Score: 378
Period size: 40 Copynumber: 6.7 Consensus size: 40
65940496 GCTACTCGTT
* *
65940506 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
*
65940546 CAAATGCCTTCGGA-CTTAATCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
65940585 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
65940625 CAAATGCCTT-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
*
65940664 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * *
65940704 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
65940745 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
65940770 CATCATTCGA
Statistics
Matches: 209, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
39 75 0.36
40 123 0.59
41 11 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:65940617 original size:79 final size:80
Alignment explanation
Indices: 65940506--65940769 Score: 396
Period size: 79 Copynumber: 3.3 Consensus size: 80
65940496 GCTACTCGTT
* *
65940506 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGA-CTTAATCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
65940569 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
*
65940585 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTT-GGATCTTAGTCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
65940648 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
65940664 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
* * *
65940728 GATATAGTCACTTAGCA
65 GATTTAGTAAC-TCGCA
65940745 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65940770 CATCATTCGA
Statistics
Matches: 172, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
78 6 0.03
79 114 0.66
80 41 0.24
81 11 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:65949176 original size:44 final size:44
Alignment explanation
Indices: 65949128--65949216 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
65949118 ATATGTATGA
* *
65949128 AGCATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTG
1 AGCATCTGAGCTCATTGAGTTGGTCCGAGTTCATCATGGATGTG
65949172 AGCATCTGAGCTCATTGAGTTGGTCCGAGTTCATCATGGATGTG
1 AGCATCTGAGCTCATTGAGTTGGTCCGAGTTCATCATGGATGTG
65949216 A
1 A
65949217 TACATGTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (44 bp):
AGCATCTGAGCTCATTGAGTTGGTCCGAGTTCATCATGGATGTG
Found at i:65950298 original size:14 final size:15
Alignment explanation
Indices: 65950279--65950311 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
65950269 AATTGAGAGC
65950279 AAAAGAAT-AAAAAG
1 AAAAGAATGAAAAAG
*
65950293 AAAAGAGTGAAAAAG
1 AAAAGAATGAAAAAG
65950308 AAAA
1 AAAA
65950312 AGAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (15 bp):
AAAAGAATGAAAAAG
Found at i:65950299 original size:22 final size:21
Alignment explanation
Indices: 65950274--65950319 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
65950264 TGAAAAATTG
*
65950274 AGAGCAAAAGAATAAAAAGAAA
1 AGAGCAAAA-AAGAAAAAGAAA
**
65950296 AGAGTGAAAAAGAAAAAGAAA
1 AGAGCAAAAAAGAAAAAGAAA
65950317 AGA
1 AGA
65950320 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (21 bp):
AGAGCAAAAAAGAAAAAGAAA
Found at i:65950332 original size:27 final size:27
Alignment explanation
Indices: 65950302--65950365 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
65950292 GAAAAGAGTG
65950302 AAAAA-GAAA-AAGAAAAGAAAATTAAA
1 AAAAAGGAAAGAA-AAAAGAAAATTAAA
*
65950328 AAAAAGGAAAGCAAAAAGAAAATTAAA
1 AAAAAGGAAAGAAAAAAGAAAATTAAA
65950355 AAAAAGGAAAG
1 AAAAAGGAAAG
65950366 CAAGAGGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 5 0.14
27 29 0.83
28 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.06
Consensus pattern (27 bp):
AAAAAGGAAAGAAAAAAGAAAATTAAA
Found at i:65950366 original size:27 final size:27
Alignment explanation
Indices: 65950314--65950368 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
65950304 AAAGAAAAAG
65950314 AAAAGAAAATTAAAAAAAAGGAAAGCA
1 AAAAGAAAATTAAAAAAAAGGAAAGCA
65950341 AAAAGAAAATTAAAAAAAAGGAAAGCA
1 AAAAGAAAATTAAAAAAAAGGAAAGCA
65950368 A
1 A
65950369 GAGGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.07
Consensus pattern (27 bp):
AAAAGAAAATTAAAAAAAAGGAAAGCA
Found at i:65953344 original size:27 final size:26
Alignment explanation
Indices: 65953300--65953350 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
65953290 CTCGTTGCAA
*
65953300 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
65953327 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
65953351 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:65953393 original size:2 final size:2
Alignment explanation
Indices: 65953388--65953423 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
65953378 CGCCACACAC
65953388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65953424 CTGTTCTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65953472 original size:27 final size:26
Alignment explanation
Indices: 65953420--65953479 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65953410 ATATATATAT
*
65953420 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
65953446 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
65953473 ATATCTG
1 ATATCTG
65953480 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:65959664 original size:15 final size:15
Alignment explanation
Indices: 65959644--65959683 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
65959634 TATATGGTAT
65959644 CTTGGATTTCTGTAC
1 CTTGGATTTCTGTAC
* * *
65959659 CTTGGATATCTTTAT
1 CTTGGATTTCTGTAC
65959674 CTTGGATTTC
1 CTTGGATTTC
65959684 ACTGTCATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (15 bp):
CTTGGATTTCTGTAC
Found at i:65962116 original size:28 final size:29
Alignment explanation
Indices: 65962083--65962141 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
65962073 CAAGATTCAG
*
65962083 ACTTAGAATGAGATT-AACAGGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
65962111 ACTTAGAATGAGATTGAACAAGGTTAAGC
1 ACTTAGAATGAGATTGAACAAGGTTAAGC
65962140 AC
1 AC
65962142 AAACTCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (29 bp):
ACTTAGAATGAGATTGAACAAGGTTAAGC
Found at i:65964888 original size:26 final size:26
Alignment explanation
Indices: 65964852--65964905 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
65964842 CTTCAATACT
65964852 GATTCCGTTTGTTTCTATAGAAACTA
1 GATTCCGTTTGTTTCTATAGAAACTA
65964878 GATTCCGTTTGTTTCTATAGAAACTA
1 GATTCCGTTTGTTTCTATAGAAACTA
65964904 GA
1 GA
65964906 CTCAAATAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (26 bp):
GATTCCGTTTGTTTCTATAGAAACTA
Found at i:65965925 original size:40 final size:40
Alignment explanation
Indices: 65965876--65966083 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
65965866 TCTTCGGAAT
* *
65965876 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
65965915 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
65965955 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
65965995 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
65966035 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
65966075 TTAGCCCGG
1 TTAGCCCGG
65966084 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:65973076 original size:29 final size:29
Alignment explanation
Indices: 65973043--65973107 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
65973033 GTGACGAGAT
65973043 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
65973072 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
65973101 CGGCACT
1 TGGCACT
65973108 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:65975741 original size:40 final size:39
Alignment explanation
Indices: 65975573--65975743 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
65975563 AGAAATTGAA
* *
65975573 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
65975613 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
65975653 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
65975693 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
65975733 TGATATCCGGG
1 TGATATCCGGG
65975744 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:65983634 original size:39 final size:40
Alignment explanation
Indices: 65983576--65983676 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
65983566 AAATTGAATG
* *
65983576 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
65983615 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
65983655 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
65983677 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:65983669 original size:40 final size:40
Alignment explanation
Indices: 65983576--65983752 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
65983566 AAATTGAATG
* * * * *
65983576 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
65983615 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
65983655 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
65983695 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
65983735 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
65983753 TTGGCCTTGG
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 40 0.34
40 75 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:65993404 original size:17 final size:18
Alignment explanation
Indices: 65993362--65993410 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
65993352 AGTTGAAAAG
65993362 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
65993381 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
65993398 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
65993411 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:65994299 original size:40 final size:40
Alignment explanation
Indices: 65994233--65994399 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
65994223 AAATTGAATG
* * *
65994233 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
65994272 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
65994312 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
65994352 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
65994392 ATATCCGG
1 ATATCCGG
65994400 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:65996092 original size:48 final size:48
Alignment explanation
Indices: 65996021--65996210 Score: 186
Period size: 51 Copynumber: 3.9 Consensus size: 48
65996011 CCGAAGCTAT
* *
65996021 TGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACAACAGTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACAACAGTC
* ** *
65996069 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACA--TG-CGACAACAGTC
** * * *
65996119 TAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CAACAG---TC
* *
65996170 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGAC
65996211 CTCACAATAG
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
47 2 0.02
48 34 0.30
50 38 0.33
51 40 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (48 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACAACAGTC
Found at i:65996144 original size:50 final size:51
Alignment explanation
Indices: 65996030--65996204 Score: 178
Period size: 50 Copynumber: 3.5 Consensus size: 51
65996020 TTGGTACGCA
* * **
65996030 TAGTAGCCTGCACTTAGTATTACACA--TG-CGACAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCACAACAGTCTAATACACG
* *
65996078 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCACAACAGTCTAATACACG
* **** *** * *
65996128 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCACAACAGTCTAATACACG
65996179 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
65996205 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
48 25 0.23
50 45 0.42
51 37 0.35
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCACAACAGTCTAATACACG
Found at i:65996203 original size:101 final size:98
Alignment explanation
Indices: 65996030--65996215 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 98
65996020 TTGGTACGCA
* * * *
65996030 TAGTAGCCTGCACTTAGTATTACACATGCGACAACAGTCTGGTACACGTAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAACAGTCGGGTACACATAGTAGCCTGCACTTAG
*
65996095 TACTACACACGTGACCTCACCATCTAATACACG
66 TACTACACACGCGACCTCACCATCTAATACACG
* *
65996128 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAACAG---TCGGGTACACATAGTAGCCTGCAC
*
65996192 TTAGTACTACACATGCGACCTCAC
62 TTAGTACTACACACGCGACCTCAC
65996216 AATAGATCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
98 32 0.42
99 1 0.01
101 43 0.57
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAACAGTCGGGTACACATAGTAGCCTGCACTTAG
TACTACACACGCGACCTCACCATCTAATACACG
Found at i:65997578 original size:15 final size:15
Alignment explanation
Indices: 65997522--65997586 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
65997512 TAAAGATAAC
*
65997522 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65997536 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
65997551 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
65997566 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
65997581 AAGAAA
1 AAGAAA
65997587 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65997588 original size:30 final size:31
Alignment explanation
Indices: 65997522--65997590 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
65997512 TAAAGATAAC
*
65997522 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
65997552 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
65997581 AAGAAACCCA
1 AAGAAACCCA
65997591 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:66004634 original size:40 final size:40
Alignment explanation
Indices: 66004583--66004827 Score: 343
Period size: 40 Copynumber: 6.1 Consensus size: 40
66004573 GGATGATAAT
* *
66004583 TCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
66004622 TTCCGGGCTAAGTCCCGAAGGCATTTGTTCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
66004662 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
66004703 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* * *
66004743 TCCGGGCTAAGTCCTGAAGACATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* *
66004783 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
66004823 TCCGG
1 TCCGG
66004828 TTAAAGCCCG
Statistics
Matches: 189, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 184 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:66011129 original size:34 final size:34
Alignment explanation
Indices: 66011090--66011171 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
66011080 CAAGATAGTC
* **
66011090 TGGGCCTAAGCCCA-TATCAGTTGCAATATCAGTG
1 TGGGCCTTAGCCCATTAT-AGTAACAATATCAGTG
*
66011124 TGGGCCTTAGCCCATTATAGTAACAGTATCAGTG
1 TGGGCCTTAGCCCATTATAGTAACAATATCAGTG
66011158 TGGGCCTTAGCCCA
1 TGGGCCTTAGCCCA
66011172 ATTCAGTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 40 0.93
35 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTATAGTAACAATATCAGTG
Found at i:66017727 original size:46 final size:46
Alignment explanation
Indices: 66017592--66017813 Score: 180
Period size: 46 Copynumber: 4.7 Consensus size: 46
66017582 GTTATTGTGG
* * * * *
66017592 GCTAGTGTAAGACATGTCTGAGACATGCATTGGCCAT-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GACGAGA
* * * *
66017638 GCTTGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGACGAGA
* *
66017686 GCTAGTGTAAGACATGTCCGGGACAAGCATCGGCCTTGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACG-AGA
* * * * * *
66017732 GCCAGTGTCAGACATGTCTAGGACATGCATCGG-CTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGACGAGA
* * *
66017778 GTTAGTGTAAGACCATATCTGGGATATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
66017814 ACCCGACCCC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
45 3 0.02
46 69 0.50
47 37 0.27
48 29 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGAGA
Found at i:66025318 original size:46 final size:46
Alignment explanation
Indices: 66025145--66025318 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 46
66025135 GTTATTGTAG
* * * *
66025145 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCAT--ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGAGA
** *
66025191 GCCTA-TGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGAGT
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGA
* * *
66025239 GCTAGTGTAAAACATGTCCGGGACAT-AAGTCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TCGGCCTCGAGACG-AGA
66025285 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
66025319 TACGGGAAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 49 0.48
47 35 0.34
48 17 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGA
Found at i:66028855 original size:40 final size:40
Alignment explanation
Indices: 66028789--66028955 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
66028779 AAATTGAATG
* * *
66028789 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
66028828 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
66028868 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
66028908 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
66028948 ATATCCGG
1 ATATCCGG
66028956 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:66036856 original size:40 final size:40
Alignment explanation
Indices: 66036797--66036938 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
66036787 AAATTGAATG
* *
66036797 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
66036837 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
66036877 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
66036917 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
66036939 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:66036939 original size:40 final size:39
Alignment explanation
Indices: 66036836--66036964 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
66036826 TGCTGGAAAT
* * *
66036836 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
66036876 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
66036916 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
66036956 TATATCCGG
1 TATATCCGG
66036965 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:66070059 original size:31 final size:31
Alignment explanation
Indices: 66070021--66070085 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
66070011 CCTCCAAGAA
66070021 AAAGAAAGATTATTAAAATAACTTCTAAAAG
1 AAAGAAAGATTATTAAAATAACTTCTAAAAG
* *
66070052 AAAGAAAGATTGTTAAAATAAGTTCTAAAAG
1 AAAGAAAGATTATTAAAATAACTTCTAAAAG
66070083 AAA
1 AAA
66070086 CTCAAGAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.25
Consensus pattern (31 bp):
AAAGAAAGATTATTAAAATAACTTCTAAAAG
Found at i:66070568 original size:9 final size:9
Alignment explanation
Indices: 66070554--66070580 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
66070544 GTTTCCTGGA
66070554 CCAAGATTT
1 CCAAGATTT
66070563 CCAAGATTT
1 CCAAGATTT
66070572 CCAAGATTT
1 CCAAGATTT
66070581 GAAATCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
CCAAGATTT
Found at i:66077483 original size:43 final size:43
Alignment explanation
Indices: 66077434--66077676 Score: 183
Period size: 43 Copynumber: 5.7 Consensus size: 43
66077424 TATGAGTATT
* *
66077434 CATGTAATACCACGTTTGAGACATTGGCATTGATATGTGATTA
1 CATGTAAGACCACGTCTGAGACATTGGCATTGATATGTGATTA
* * * * * * * *
66077477 CGTGTAAGACCATGTTTGGGACATCGACATCG-TATTTGATT-
1 CATGTAAGACCACGTCTGAGACATTGGCATTGATATGTGATTA
* * * **
66077518 CATGTAAAATCATGTCTGAGATGTTGGCATTGATATGTGATTA
1 CATGTAAGACCACGTCTGAGACATTGGCATTGATATGTGATTA
** * * * * *
66077561 TGTGTAAGACCATGTCTGGGACATTGGCA-TCATATTTG-TTT
1 CATGTAAGACCACGTCTGAGACATTGGCATTGATATGTGATTA
* * *
66077602 CATGTAAGACC-CTGTCT-AGGACAGTGGCATCGATATGTGGTTA
1 CATGTAAGACCAC-GTCTGA-GACATTGGCATTGATATGTGATTA
* *
66077645 CATGTAAGACCACGTCTGGGACGTTGGCATTG
1 CATGTAAGACCACGTCTGAGACATTGGCATTG
66077677 TACGATATGT
Statistics
Matches: 150, Mismatches: 42, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
41 46 0.31
42 29 0.19
43 74 0.49
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGAGACATTGGCATTGATATGTGATTA
Found at i:66077618 original size:84 final size:85
Alignment explanation
Indices: 66077431--66077674 Score: 273
Period size: 84 Copynumber: 2.9 Consensus size: 85
66077421 CGATATGAGT
* * * *
66077431 ATTCATGTAATACCACGT-TTGAGACA-TTGGCATTGATATGTGATTACGTGTAAGACCATGTTT
1 ATTCATGTAAAACCATGTCTAG-GACAGTTGGCATTGATATGTGATTACGTGTAAGACCATGTCT
* * *
66077494 GGGACATCGACATCGTATTTG
65 GGGACATTGGCATCATATTTG
* * *
66077515 ATTCATGTAAAATCATGTCT-GAGA-TGTTGGCATTGATATGTGATTATGTGTAAGACCATGTCT
1 ATTCATGTAAAACCATGTCTAG-GACAGTTGGCATTGATATGTGATTACGTGTAAGACCATGTCT
66077578 GGGACATTGGCATCATATTTG
65 GGGACATTGGCATCATATTTG
* * * * * * *
66077599 TTTCATGTAAGACCCTGTCTAGGACAG-TGGCATCGATATGTGGTTACATGTAAGACCACGTCTG
1 ATTCATGTAAAACCATGTCTAGGACAGTTGGCATTGATATGTGATTACGTGTAAGACCATGTCTG
*
66077663 GGACGTTGGCAT
66 GGACATTGGCAT
66077675 TGTACGATAT
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
84 133 0.98
85 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (85 bp):
ATTCATGTAAAACCATGTCTAGGACAGTTGGCATTGATATGTGATTACGTGTAAGACCATGTCTG
GGACATTGGCATCATATTTG
Found at i:66082042 original size:10 final size:10
Alignment explanation
Indices: 66082027--66082065 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
66082017 TGCTTTTGTA
66082027 CATGATATGC
1 CATGATATGC
66082037 CATGATATGC
1 CATGATATGC
66082047 ACATGATATGC
1 -CATGATATGC
66082058 CATGATAT
1 CATGATAT
66082066 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:66082051 original size:21 final size:21
Alignment explanation
Indices: 66082026--66082065 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
66082016 CTGCTTTTGT
66082026 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
66082047 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
66082066 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:66082179 original size:25 final size:25
Alignment explanation
Indices: 66082112--66082181 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
66082102 AGGAAGTGCT
* *
66082112 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
66082137 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
66082162 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
66082182 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:66082194 original size:24 final size:25
Alignment explanation
Indices: 66082112--66082194 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
66082102 AGGAAGTGCT
* * *
66082112 AAAAG-GGCTTTGCCCCAATTTACC
1 AAAAGAGGCTTTACCCCAGTTTATC
*
66082136 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTACCCCAGTTTATC
*
66082161 AAAA-AGGGCTTTACCCCAG-TTATT
1 AAAAGA-GGCTTTACCCCAGTTTATC
66082185 AAAAGAGGCT
1 AAAAGAGGCT
66082195 AAGCCTCTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 16 0.31
25 35 0.69
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTACCCCAGTTTATC
Done.