Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 248 of 333
Found at i:81615796 original size:14 final size:14
Alignment explanation
Indices: 81615757--81615803 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
81615747 TCGAGTTGGG
*
81615757 AAAATTATTTAATT
1 AAAATTAATTAATT
81615771 GAAAAGTTAATTAATT
1 -AAAA-TTAATTAATT
*
81615787 AAAATTAATTAAAT
1 AAAATTAATTAATT
81615801 AAA
1 AAA
81615804 TAATGTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.41
15 8 0.28
16 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:81621023 original size:22 final size:22
Alignment explanation
Indices: 81620995--81621038 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
81620985 ATCAACTAAT
81620995 CCGATACTTTTTCCTTTCCCCG
1 CCGATACTTTTTCCTTTCCCCG
81621017 CCGATACTTTTTCCTTTCCCCG
1 CCGATACTTTTTCCTTTCCCCG
81621039 ATCTAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.41, G:0.09, T:0.41
Consensus pattern (22 bp):
CCGATACTTTTTCCTTTCCCCG
Found at i:81621664 original size:13 final size:14
Alignment explanation
Indices: 81621640--81621668 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
81621630 GTAATGTGAT
81621640 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
81621654 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
81621667 TT
1 TT
81621669 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:81628080 original size:12 final size:12
Alignment explanation
Indices: 81628063--81628106 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 12
81628053 TGACCTAGTA
81628063 TTACTCGACCTG
1 TTACTCGACCTG
81628075 TTACTCGACCTAG
1 TTACTCGACCT-G
81628088 TATTACTCGACCTG
1 --TTACTCGACCTG
81628102 TTACT
1 TTACT
81628107 GAGACATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 16 0.55
13 1 0.03
14 1 0.03
15 11 0.38
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (12 bp):
TTACTCGACCTG
Found at i:81628085 original size:27 final size:27
Alignment explanation
Indices: 81628054--81628106 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
81628044 CACTGGTTAT
81628054 GACCTAGTATTACTCGACCTGTTACTC
1 GACCTAGTATTACTCGACCTGTTACTC
81628081 GACCTAGTATTACTCGACCTGTTACT
1 GACCTAGTATTACTCGACCTGTTACT
81628107 GAGACATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (27 bp):
GACCTAGTATTACTCGACCTGTTACTC
Found at i:81628095 original size:15 final size:15
Alignment explanation
Indices: 81628054--81628100 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
81628044 CACTGGTTAT
81628054 GACCTAGTATTACTC
1 GACCTAGTATTACTC
81628069 GACCT-G--TTACTC
1 GACCTAGTATTACTC
81628081 GACCTAGTATTACTC
1 GACCTAGTATTACTC
81628096 GACCT
1 GACCT
81628101 GTTACTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.38
13 1 0.03
14 1 0.03
15 16 0.55
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (15 bp):
GACCTAGTATTACTC
Found at i:81633680 original size:40 final size:40
Alignment explanation
Indices: 81633591--81633814 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
81633581 TTGAATTCTG
*
81633591 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
81633630 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
81633670 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
81633709 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
81633749 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
81633790 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
81633815 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 53 0.32
40 98 0.60
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:81633832 original size:80 final size:80
Alignment explanation
Indices: 81633591--81633847 Score: 221
Period size: 79 Copynumber: 3.2 Consensus size: 80
81633581 TTGAATTCTG
* * *
81633591 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGA-CAATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACCAA-ATCCGGGCTAAG-TCCCGAAGGC
** *
81633651 ATTTGTGCGAGAT-ACTAAT
62 ATTTGAACGAG-TGACTAAA
* *
81633670 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACCAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
81633734 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
81633749 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACCA-AATCCGGGCTAAGTCCCGAAGGCAT
*
81633812 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
81633829 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
81633848 TACGTGATTT
Statistics
Matches: 154, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
78 11 0.07
79 72 0.47
80 68 0.44
81 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACCAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:81641751 original size:40 final size:40
Alignment explanation
Indices: 81641662--81641885 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
81641652 TTGAATTCTG
*
81641662 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
81641701 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
81641741 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
81641780 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
81641820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
81641861 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
81641886 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 53 0.32
40 98 0.60
41 12 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:81641903 original size:80 final size:80
Alignment explanation
Indices: 81641662--81641918 Score: 221
Period size: 79 Copynumber: 3.2 Consensus size: 80
81641652 TTGAATTCTG
* * *
81641662 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGA-CAATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACCAA-ATCCGGGCTAAG-TCCCGAAGGC
** *
81641722 ATTTGTGCGAGAT-ACTAAT
62 ATTTGAACGAG-TGACTAAA
* *
81641741 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACCAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
81641805 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
81641820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACCA-AATCCGGGCTAAGTCCCGAAGGCAT
*
81641883 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
81641900 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
81641919 TACGTGATTT
Statistics
Matches: 154, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
78 11 0.07
79 72 0.47
80 68 0.44
81 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACCAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:81647591 original size:83 final size:83
Alignment explanation
Indices: 81647452--81647633 Score: 355
Period size: 83 Copynumber: 2.2 Consensus size: 83
81647442 TAAGAAGGAT
81647452 ACCCAGCATTGTTTCTTCCTTTCTCTGTACAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
1 ACCCAGCATTGTTTCTTCCTTTCTCTGTACAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
81647517 TGTTGCTTCTCTGTACAA
66 TGTTGCTTCTCTGTACAA
*
81647535 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
1 ACCCAGCATTGTTTCTTCCTTTCTCTGTACAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
81647600 TGTTGCTTCTCTGTACAA
66 TGTTGCTTCTCTGTACAA
81647618 ACCCAGCATTGTTTCT
1 ACCCAGCATTGTTTCT
81647634 CCCTCTTTCC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 98 1.00
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.41
Consensus pattern (83 bp):
ACCCAGCATTGTTTCTTCCTTTCTCTGTACAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
TGTTGCTTCTCTGTACAA
Found at i:81650018 original size:19 final size:20
Alignment explanation
Indices: 81649975--81650018 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
81649965 TCCGAGTTCA
81649975 ATTTTTATTTTATTTAAGCT
1 ATTTTTATTTTATTTAAGCT
* * *
81649995 CTTTTTATTTTTTTTCA-CT
1 ATTTTTATTTTATTTAAGCT
81650014 ATTTT
1 ATTTT
81650019 CACTCACAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTTATTTAAGCT
Found at i:81654451 original size:40 final size:38
Alignment explanation
Indices: 81654407--81654627 Score: 257
Period size: 38 Copynumber: 5.7 Consensus size: 38
81654397 GCTCCTCGTT
* *
81654407 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAT-TAGTAACTCGCA
*
81654447 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGA-TTAGTAACTCGCA
* *
81654487 CAAATGCCTTCGGACTTAACCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTAGTAACTCGCA
* *
81654525 CCAATGCCTTCGGACTTAGCCCGGATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
81654563 CAAATGCCTTCGGATCTTAG-TCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
81654603 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
81654628 CATCATTCAA
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 65 0.41
39 33 0.21
40 61 0.38
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:81654604 original size:116 final size:118
Alignment explanation
Indices: 81654409--81654625 Score: 282
Period size: 116 Copynumber: 1.9 Consensus size: 118
81654399 TCCTCGTTCA
*
81654409 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
81654474 TTAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGAATTAGTAACTCGCACC
66 ATAGTAACTAGCACAAA-GCCTTCGGGACTTAACCCGAATTAGTAACTCGCACC
* * **
81654527 AATGCCTTC-GGACTTAGCCCGGAT-TAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTCGGA
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
81654588 TATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
65 TATAGTAAC-TAGCACAAAGCCTTCGGGACTTAACCCG
81654626 GACATCATTC
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
115 20 0.23
116 44 0.51
117 13 0.15
118 9 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAAGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACC
Found at i:81662421 original size:80 final size:79
Alignment explanation
Indices: 81662320--81662545 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 79
81662310 GCTCCTCGTT
* *
81662320 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
81662385 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
81662400 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
81662463 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * *
81662480 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
81662543 GGA
63 GGA
81662546 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
79 9 0.07
80 104 0.83
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:81662529 original size:120 final size:120
Alignment explanation
Indices: 81662320--81662545 Score: 291
Period size: 120 Copynumber: 1.9 Consensus size: 120
81662310 GCTCCTCGTT
81662320 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
81662385 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
81662440 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTT-TGGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
81662501 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
81662546 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
119 8 0.09
120 74 0.80
121 10 0.11
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:81662545 original size:40 final size:39
Alignment explanation
Indices: 81662320--81662545 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 39
81662310 GCTCCTCGTT
* *
81662320 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * *
81662360 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
81662400 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
81662440 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * * *
81662480 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
81662521 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
81662546 CATCATTCAA
Statistics
Matches: 163, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.02
40 146 0.90
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:81666255 original size:21 final size:23
Alignment explanation
Indices: 81666216--81666274 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
81666206 CTTTAACCAT
*
81666216 TTTTATTTTTATTGCAATT-TAA-
1 TTTT-TTTTTATTTCAATTATAAC
*
81666238 TTTTTTTTTATTTTAATTACTAAC
1 TTTTTTTTTATTTCAATTA-TAAC
*
81666262 TTTTCTTTTATTT
1 TTTTTTTTTATTT
81666275 ACTTTTGGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 12 0.39
22 4 0.13
23 3 0.10
24 12 0.39
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTTTTTATTTCAATTATAAC
Found at i:81669235 original size:16 final size:17
Alignment explanation
Indices: 81669214--81669252 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
81669204 TTACCCCACC
81669214 CTTTCTTTC-CCTTTTT
1 CTTTCTTTCTCCTTTTT
81669230 CTTTCTTTCTTCCTTTTT
1 CTTTCTTTC-TCCTTTTT
*
81669248 GTTTC
1 CTTTC
81669253 CCTTTATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (17 bp):
CTTTCTTTCTCCTTTTT
Found at i:81681095 original size:27 final size:27
Alignment explanation
Indices: 81681065--81681242 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
81681055 ATATTGAGTC
* * * *
81681065 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
81681092 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
81681119 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
81681147 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
81681174 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
81681201 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
81681228 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
81681243 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:81681204 original size:82 final size:81
Alignment explanation
Indices: 81681086--81681241 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
81681076 TGCTATATAA
* *
81681086 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
81681151 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
81681168 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
81681232 CACTTAGTGC
65 CACTTAGTGC
81681242 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:81687369 original size:18 final size:17
Alignment explanation
Indices: 81687346--81687392 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
81687336 AATTTTTCCT
81687346 TTTCTTTTTCTATTCTTC-
1 TTTCTTTTTCT-TT-TTCA
*
81687364 TTTCTTTATCCTTTTTCA
1 TTTCTTT-TTCTTTTTCA
81687382 TTTCTTTTTCT
1 TTTCTTTTTCT
81687393 GCTCCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTTTTTCTTTTTCA
Found at i:81687378 original size:24 final size:24
Alignment explanation
Indices: 81687349--81687419 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
81687339 TTTTCCTTTT
81687349 CTTTTTCTATTCTTCTTTCTTTATC
1 CTTTTTCTATTCTT-TTTCTTTATC
**
81687374 CTTTTTC-ATTTCTTTTTC-TGCTC
1 CTTTTTCTA-TTCTTTTTCTTTATC
81687397 CTTTTTCTATT-TTGTTTCTTTAT
1 CTTTTTCTATTCTT-TTTCTTTAT
81687420 TTTCTTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 2 0.05
23 16 0.42
24 8 0.21
25 12 0.32
ACGTcount: A:0.07, C:0.21, G:0.03, T:0.69
Consensus pattern (24 bp):
CTTTTTCTATTCTTTTTCTTTATC
Found at i:81687420 original size:13 final size:14
Alignment explanation
Indices: 81687404--81687436 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
81687394 CTCCTTTTTC
*
81687404 TATTTTGTTTC-TT
1 TATTTTCTTTCATT
81687417 TATTTTCTTTCATT
1 TATTTTCTTTCATT
81687431 TATTTT
1 TATTTT
81687437 ATGTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (14 bp):
TATTTTCTTTCATT
Found at i:81687459 original size:8 final size:8
Alignment explanation
Indices: 81687448--81687479 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
81687438 TGTTTTATTA
81687448 TATTATAT
1 TATTATAT
81687456 TATTATAT
1 TATTATAT
81687464 TATTATAT
1 TATTATAT
81687472 TA-TATAT
1 TATTATAT
81687479 T
1 T
81687480 TAAATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATAT
Found at i:81687460 original size:13 final size:12
Alignment explanation
Indices: 81687428--81687481 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 12
81687418 ATTTTCTTTC
*
81687428 ATTTATTTTATGT
1 ATTTATTATAT-T
81687441 -TTTATTATATT
1 ATTTATTATATT
81687452 ATATTATTATATT
1 AT-TTATTATATT
81687465 ATTATATTATA-T
1 ATT-TATTATATT
81687477 ATTTA
1 ATTTA
81687482 AATACTAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 3 0.08
12 15 0.41
13 19 0.51
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:81689041 original size:15 final size:14
Alignment explanation
Indices: 81689021--81689077 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 14
81689011 GGCAACCCAA
81689021 TTTTATTTTTAGTTT
1 TTTTATTTTTA-TTT
81689036 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
81689050 TTTTA-TTTT-TTA
1 TTTTATTTTTATTT
81689062 TTTTATTTTTTATTT
1 TTTTA-TTTTTATTT
81689077 T
1 T
81689078 CTTGCATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
14 12 0.32
15 14 0.38
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:81689044 original size:7 final size:7
Alignment explanation
Indices: 81689021--81689077 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
81689011 GGCAACCCAA
81689021 TTTTA-T
1 TTTTATT
81689027 TTTTAGTT
1 TTTTA-TT
81689035 TTTT-TAT
1 TTTTAT-T
81689042 TTTTATTT
1 TTTTA-TT
81689050 TTTTATT
1 TTTTATT
81689057 TTTTA--
1 TTTTATT
81689062 TTTTATT
1 TTTTATT
81689069 TTTTATT
1 TTTTATT
81689076 TT
1 TT
81689078 CTTGCATGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.11
6 6 0.14
7 21 0.48
8 11 0.25
9 1 0.02
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:81689046 original size:21 final size:20
Alignment explanation
Indices: 81689020--81689077 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
81689010 AGGCAACCCA
81689020 ATTTTATTTTTAGT-TTTTTT
1 ATTTTATTTTT-GTATTTTTT
*
81689040 ATTTTTATTTTTTTATTTTTT
1 A-TTTTATTTTTGTATTTTTT
81689061 ATTTTATTTTT-TATTTT
1 ATTTTATTTTTGTATTTT
81689078 CTTGCATGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 6 0.17
20 12 0.34
21 17 0.49
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (20 bp):
ATTTTATTTTTGTATTTTTT
Found at i:81690315 original size:107 final size:108
Alignment explanation
Indices: 81690129--81690330 Score: 318
Period size: 107 Copynumber: 1.9 Consensus size: 108
81690119 ACAAAAAAAT
*
81690129 TTAGGAATATGTTGGGATGAGTAATCGGGATGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
1 TTAGGAATATGTTAGGATGAGTAATCGGGATGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
81690194 AGGTTCAATATATTCTTAAGAAAA-AAAAACATGTATAATAAA
66 AGGTTCAATATATTCTTAAGAAAAGAAAAACATGTATAATAAA
* * * * * *
81690236 TTAGGAGTATGTTAGGCTGAGTAA-CTGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCGTGTCAA
1 TTAGGAATATGTTAGGATGAGTAATC-GGGATGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAA
81690300 AAGGTTCAATATATTCTTAAGAAAAGAAAAA
65 AAGGTTCAATATATTCTTAAGAAAAGAAAAA
81690331 TGAAGTAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
106 1 0.01
107 80 0.93
108 5 0.06
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (108 bp):
TTAGGAATATGTTAGGATGAGTAATCGGGATGGGGTGCTTGGCTATCATCTCTCTTCGCGTCAAA
AGGTTCAATATATTCTTAAGAAAAGAAAAACATGTATAATAAA
Found at i:81692568 original size:46 final size:46
Alignment explanation
Indices: 81692517--81692611 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
81692507 CCAGTCAGTC
* * *
81692517 ACATCTATGCCTCTATCTTCTGGAGTCATCTGCTCTAATGCCCAAG
1 ACATCTATGCCTCTATCTTCTAGAGTCATCCGCTCCAATGCCCAAG
81692563 ACATCTATGCCTCTATCTTCTAGAGTCATCCGCTCCAATGCCCAAG
1 ACATCTATGCCTCTATCTTCTAGAGTCATCCGCTCCAATGCCCAAG
81692609 ACA
1 ACA
81692612 AAACATCTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (46 bp):
ACATCTATGCCTCTATCTTCTAGAGTCATCCGCTCCAATGCCCAAG
Found at i:81694377 original size:23 final size:22
Alignment explanation
Indices: 81694351--81694403 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
81694341 TAAAAATATA
81694351 AAAAAAACTAAATTTCTAAAAAT
1 AAAAAAACTAAATTT-TAAAAAT
*
81694374 AAAAATGACTAAATTTTAAAAAT
1 AAAAA-AACTAAATTTTAAAAAT
*
81694397 ATAAAAA
1 AAAAAAA
81694404 GAAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.62
24 9 0.35
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAAACTAAATTTTAAAAAT
Found at i:81694384 original size:24 final size:23
Alignment explanation
Indices: 81694343--81694403 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
81694333 TTTTAAATTA
81694343 AAAATATAAAAAAAACTAAATTTCT
1 AAAA-ATAAAAAAAACTAAATTT-T
**
81694368 AAAAATAAAAATGACTAAATTTT
1 AAAAATAAAAAAAACTAAATTTT
*
81694391 AAAAATATAAAAA
1 AAAAATAAAAAAA
81694404 GAAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 11 0.35
24 16 0.52
25 4 0.13
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAATAAAAAAAACTAAATTTT
Found at i:81701025 original size:39 final size:39
Alignment explanation
Indices: 81700968--81701225 Score: 464
Period size: 39 Copynumber: 6.6 Consensus size: 39
81700958 AACACAAATG
81700968 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
81701007 CCTTCGGGACTTATCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
81701046 CCTTC-GGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
81701084 CCTTCGGGACTTATCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
81701123 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
81701162 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
81701201 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
81701226 ATCTCACACA
Statistics
Matches: 211, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 37 0.18
39 174 0.82
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:81704002 original size:21 final size:21
Alignment explanation
Indices: 81703976--81704027 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
81703966 TGCAGGGCAC
* **
81703976 ACACGCTCGTGTGGTCCAAAG
1 ACACGCCCGTGTGACCCAAAG
*
81703997 ACACGCCCGTGTGACCCTAAG
1 ACACGCCCGTGTGACCCAAAG
81704018 ACACGCCCGT
1 ACACGCCCGT
81704028 ACTGCAGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCAAAG
Found at i:81709652 original size:19 final size:20
Alignment explanation
Indices: 81709621--81709659 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
81709611 ATAAATTTGA
*
81709621 TTATTTAAAAAATAATAATT
1 TTATTTAAAAAATAAAAATT
81709641 TTATTT-AAAAATAAAAATT
1 TTATTTAAAAAATAAAAATT
81709660 AACTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTAAAAAATAAAAATT
Found at i:81711251 original size:16 final size:17
Alignment explanation
Indices: 81711230--81711269 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
81711220 AATCAAGATG
81711230 AACATAAACCATAA-TC-
1 AACATAAACCA-AATTCA
81711246 AACAT-AACCAAATTCA
1 AACATAAACCAAATTCA
81711262 AACATAAA
1 AACATAAA
81711270 AGTTAAGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.10
15 7 0.33
16 10 0.48
17 2 0.10
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (17 bp):
AACATAAACCAAATTCA
Found at i:81714069 original size:14 final size:14
Alignment explanation
Indices: 81714050--81714076 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81714040 AATATATAAT
81714050 ATATTAAAATTTGA
1 ATATTAAAATTTGA
81714064 ATATTAAAATTTG
1 ATATTAAAATTTG
81714077 TATTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATTAAAATTTGA
Found at i:81714082 original size:12 final size:13
Alignment explanation
Indices: 81714050--81714083 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
81714040 AATATATAAT
81714050 ATATTAAAATTTG
1 ATATTAAAATTTG
81714063 AATATTAAAATTTG
1 -ATATTAAAATTTG
81714077 -TATTAAA
1 ATATTAAA
81714084 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
14 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
ATATTAAAATTTG
Found at i:81715855 original size:12 final size:12
Alignment explanation
Indices: 81715838--81715862 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81715828 ACTCATATTT
81715838 TATTATTATCTA
1 TATTATTATCTA
81715850 TATTATTATCTA
1 TATTATTATCTA
81715862 T
1 T
81715863 TTTAAACTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATCTA
Found at i:81726501 original size:27 final size:27
Alignment explanation
Indices: 81726460--81726512 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
81726450 GTCAAGGTGA
*
81726460 TTAACCATTTGCTCACTAAACTATGAC
1 TTAACCATTTGCTCACTAAACCATGAC
* * *
81726487 TTAACCTTTTTCTCATTAAACCATGA
1 TTAACCATTTGCTCACTAAACCATGA
81726513 TCATTTTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (27 bp):
TTAACCATTTGCTCACTAAACCATGAC
Found at i:81727811 original size:123 final size:124
Alignment explanation
Indices: 81727591--81727837 Score: 478
Period size: 123 Copynumber: 2.0 Consensus size: 124
81727581 ATTGTGGTGA
81727591 GGTGTTGTAAAGCAAATGCTAGAAGGATTGTAAAAAAAAGTTTCTTAGAGGAATATTCAATTAGT
1 GGTGTTGTAAAGCAAATGCTAGAAGGATTGTAAAAAAAAGTTTCTTAGAGGAATATTCAATTAGT
81727656 AAGTTTAAATTTTCTGGTTTTAATTGTAATTTTTTCATTCTCTACTTTATTGGTTGTCT
66 AAGTTTAAATTTTCTGGTTTTAATTGTAATTTTTTCATTCTCTACTTTATTGGTTGTCT
*
81727715 GGTGTTGTAAAGCAAATGCTAGAAGGATTGT-AAAAAAAGTTTCTTAGAGGGATATTCAATTAGT
1 GGTGTTGTAAAGCAAATGCTAGAAGGATTGTAAAAAAAAGTTTCTTAGAGGAATATTCAATTAGT
81727779 AAGTTTAAATTTTCTGGTTTTAATTGTAATTTTTTCATTCTCTACTTTATTGGTTGTCT
66 AAGTTTAAATTTTCTGGTTTTAATTGTAATTTTTTCATTCTCTACTTTATTGGTTGTCT
81727838 TTCTTACTAG
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
123 91 0.75
124 31 0.25
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (124 bp):
GGTGTTGTAAAGCAAATGCTAGAAGGATTGTAAAAAAAAGTTTCTTAGAGGAATATTCAATTAGT
AAGTTTAAATTTTCTGGTTTTAATTGTAATTTTTTCATTCTCTACTTTATTGGTTGTCT
Found at i:81747945 original size:87 final size:87
Alignment explanation
Indices: 81747840--81748013 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
81747830 AGTCAAGTCG
81747840 AGTCTAGTTAACGAATCCTATTATTTATACTCAATGTTGTGTTTACATGAACCGATTATTTAACT
1 AGTCTAGTTAACGAATCCTATTATTTATACTCAATGTTGTGTTTACATGAACCGATTATTTAACT
81747905 AGTAAACGAAGTATAAAATTAT
66 AGTAAACGAAGTATAAAATTAT
81747927 AGTCTAGTTAACGAATCCTATTATTTATACTCAATGTTGTGTTTACATGAACCGATTATTTAACT
1 AGTCTAGTTAACGAATCCTATTATTTATACTCAATGTTGTGTTTACATGAACCGATTATTTAACT
81747992 AGTAAACGAAGTATAAAATTAT
66 AGTAAACGAAGTATAAAATTAT
81748014 TTAACTACAT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (87 bp):
AGTCTAGTTAACGAATCCTATTATTTATACTCAATGTTGTGTTTACATGAACCGATTATTTAACT
AGTAAACGAAGTATAAAATTAT
Found at i:81748107 original size:21 final size:21
Alignment explanation
Indices: 81748081--81748122 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
81748071 CAAAACAACG
*
81748081 TGGTTTTGCCTTTTAACTTTA
1 TGGTTTTGACTTTTAACTTTA
81748102 TGGTTTTGACTTTTAACTTTA
1 TGGTTTTGACTTTTAACTTTA
81748123 GAAAATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (21 bp):
TGGTTTTGACTTTTAACTTTA
Found at i:81751808 original size:14 final size:14
Alignment explanation
Indices: 81751789--81751830 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
81751779 TGCATGATTG
81751789 TATGAAAGTTTCAT
1 TATGAAAGTTTCAT
81751803 TATGAAAGTTTCAT
1 TATGAAAGTTTCAT
*
81751817 TAAGAAA-TTTCAT
1 TATGAAAGTTTCAT
81751830 T
1 T
81751831 GATAGAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (14 bp):
TATGAAAGTTTCAT
Found at i:81756026 original size:42 final size:40
Alignment explanation
Indices: 81755875--81756027 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 40
81755865 TGATTTTACG
* * *
81755875 TGTAAGAGCATATCTGGGATATGGCATCGTTATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA--TTA
* * * *
81755917 TGTCAGACCATGTTTGGGACATGGCATCGATATGAGAATTA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAG-ATTA
* * * * *
81755958 TGTAAGACCATAACTGAGCTATTGGCATCGATATGTGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAT--TA
*
81756001 TGTAAGACTATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
81756028 TGGTATGTTT
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 18 0.21
42 50 0.57
43 19 0.22
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (40 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTA
Found at i:81763921 original size:46 final size:43
Alignment explanation
Indices: 81763821--81763950 Score: 154
Period size: 46 Copynumber: 2.9 Consensus size: 43
81763811 TAGTATATTT
81763821 GTACCGATGCCATGTCCCAGACATATTCTTACACT-GACACATATC
1 GTACCGATG-CATGTCCCAGACATA-TCTTACACTAG-CACATATC
*
81763866 GTAGCCGATGCATGTCCCAGACATATCTTACACTAGCTTACATCTC
1 GTA-CCGATGCATGTCCCAGACATATCTTACACTAGC--ACATATC
* * *
81763912 GTGACCGATGCATGTCCTAGACATGTCTTACATTAGCAC
1 GT-ACCGATGCATGTCCCAGACATATCTTACACTAGCAC
81763951 TCGTCTTATT
Statistics
Matches: 76, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
44 12 0.16
45 19 0.25
46 44 0.58
47 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (43 bp):
GTACCGATGCATGTCCCAGACATATCTTACACTAGCACATATC
Found at i:81766061 original size:19 final size:19
Alignment explanation
Indices: 81766024--81766061 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
81766014 CAACTCAGAA
*
81766024 TTGCACACGGTTTGAGCAC
1 TTGCACACGGTGTGAGCAC
81766043 TTGCACACGGGTGTG-GCAC
1 TTGCACAC-GGTGTGAGCAC
81766062 AGGTCATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (19 bp):
TTGCACACGGTGTGAGCAC
Found at i:81776239 original size:48 final size:48
Alignment explanation
Indices: 81776151--81776249 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
81776141 GGAGGAAAAG
** *
81776151 TCCCTGTTGAAGAGTAGATCATTCATAATAAAGTGGAGTTGCATGTAA
1 TCCCTGTTGAAGAGTAGATCATTCATAATAAAGCAGAGTTGCATGCAA
* * *
81776199 TCCCTGTTTAAGAGTAGATCATTCATAATTAAGCATAGTTGCATGCAA
1 TCCCTGTTGAAGAGTAGATCATTCATAATAAAGCAGAGTTGCATGCAA
81776247 TCC
1 TCC
81776250 TAGAGATAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (48 bp):
TCCCTGTTGAAGAGTAGATCATTCATAATAAAGCAGAGTTGCATGCAA
Found at i:81783063 original size:48 final size:48
Alignment explanation
Indices: 81783004--81783350 Score: 507
Period size: 48 Copynumber: 7.1 Consensus size: 48
81782994 GCTGAAATTG
* *
81783004 ATGTATAAGATATGTATATGTGGTAAAGCCGAATTGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
81783052 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
81783102 ATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
81783152 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
81783200 ATGTATGAGATATGCATCTATGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
81783250 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
81783298 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
81783346 ATGTA
1 ATGTA
81783351 GGCGATGTGT
Statistics
Matches: 274, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.00
48 135 0.49
49 8 0.03
50 129 0.47
51 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:81783130 original size:50 final size:50
Alignment explanation
Indices: 81783011--81783347 Score: 508
Period size: 50 Copynumber: 6.9 Consensus size: 50
81783001 TTGATGTATA
* *
81783011 AGATATGTATATGTGGTAAAGCCGAATTGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
81783059 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
81783109 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
81783159 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* * *
81783207 AGATATGCATCTATGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
* *
81783257 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
81783305 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
81783348 GTAGGCGATG
Statistics
Matches: 263, Mismatches: 18, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
47 1 0.00
48 120 0.46
49 10 0.04
50 131 0.50
51 1 0.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (50 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:81783366 original size:98 final size:98
Alignment explanation
Indices: 81783004--81783347 Score: 532
Period size: 98 Copynumber: 3.5 Consensus size: 98
81782994 GCTGAAATTG
* * *
81783004 ATGTATAAGATATGTATATGTGGTAAAGCCGAATTGCTAATGTG-AA-ATATGTATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
*
81783067 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
81783102 ATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
81783167 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
81783200 ATGTATGAGATATGCATCTATGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
81783264 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
65 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
81783298 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
81783348 GTAGGCGATG
Statistics
Matches: 225, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
97 1 0.00
98 175 0.78
99 5 0.02
100 44 0.20
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (98 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:81783605 original size:37 final size:37
Alignment explanation
Indices: 81783500--81783605 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
81783490 AATATATTCT
*
81783500 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
81783537 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* * *
81783574 GGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
81783606 CATCTGAGCT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:81787295 original size:30 final size:30
Alignment explanation
Indices: 81787261--81787317 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
81787251 TAGGCACTTC
*
81787261 CACACGGGTAAACCACACGCCCGTGTGAGG
1 CACACGGGCAAACCACACGCCCGTGTGAGG
81787291 CACACGGGCAAACCACACGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
81787318 TCATGGCCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGAGG
Found at i:81795544 original size:28 final size:28
Alignment explanation
Indices: 81795501--81795564 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
81795491 TAGGAAGTAG
* *
81795501 TTGGGCCTGATAGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
* *
81795529 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATAGGCCATATGAACGAGA
81795557 TTGGGCCT
1 TTGGGCCT
81795565 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACGAGA
Found at i:81795911 original size:27 final size:27
Alignment explanation
Indices: 81795881--81796058 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
81795871 TAATAAAGAG
* *
81795881 AAATTACCGAAGTACCCCCGATTTATA
1 AAATTACCGAAATACCCCCGATTTGTA
*
81795908 AAATTATCGAAATACCCCC-AGTTTGTA
1 AAATTACCGAAATACCCCCGA-TTTGTA
**
81795935 AAATTACCGAAATACCCCTAATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* *
81795962 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCCCGATTTGTA
* ** * *
81795988 AAACTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCCCGATTTGTA
* ** *
81796015 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCCCGAT-TTGTA
*
81796042 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
81796059 TTGTAGTGTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.18
27 102 0.81
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCGATTTGTA
Found at i:81795964 original size:54 final size:53
Alignment explanation
Indices: 81795881--81796058 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 53
81795871 TAATAAAGAG
* ** *
81795881 AAATTACCGAAGTACCCCCGATTTATAAAATTATCGAAATACCCCCAGTTTGTA
1 AAATTACCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCCC-GTTTGTA
* * * *
81795935 AAATTACCGAAATACCCCTAATTTGTAAAATTACCGAAATACCCTCGATTGTG
1 AAATTACCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCCCGTTTGTA
* ** ** *
81795988 AAACTACTAAAATA-CCCTCAATTTGTAAAATTATCGAAATACCCTTGTAGTGTA
1 AAATTACCGAAATACCCCT-AATTTGTAAAATTATCGAAATACCCCCGT-TTGTA
*
81796042 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
81796059 TTGTAGTGTA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
52 4 0.04
53 42 0.42
54 53 0.52
55 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCCTAATTTGTAAAATTATCGAAATACCCCCGTTTGTA
Found at i:81796016 original size:53 final size:54
Alignment explanation
Indices: 81795901--81796032 Score: 169
Period size: 53 Copynumber: 2.5 Consensus size: 54
81795891 AGTACCCCCG
* * * * *
81795901 ATTTATAAAATTATCGAAATACCCCCAGTTTGTAAAATTACCGAAATACCCCTA
1 ATTTGTAAAATTATCGAAATACCCTCAGATTGTAAAACTACCAAAATACCCCTA
* * *
81795955 ATTTGTAAAATTACCGAAATACCCTC-GATTGTGAAACTACTAAAATA-CCCTCA
1 ATTTGTAAAATTATCGAAATACCCTCAGATTGTAAAACTACCAAAATACCCCT-A
81796008 ATTTGTAAAATTATCGAAATACCCT
1 ATTTGTAAAATTATCGAAATACCCT
81796033 TGTAGTGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.06
53 41 0.60
54 23 0.34
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
ATTTGTAAAATTATCGAAATACCCTCAGATTGTAAAACTACCAAAATACCCCTA
Found at i:81796059 original size:27 final size:27
Alignment explanation
Indices: 81796011--81796097 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
81796001 ACCCTCAATT
81796011 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
81796038 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
81796065 TGTAAAATAACCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
81796092 GGTAAA
1 TGTAAA
81796098 GTGACTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:81799413 original size:24 final size:25
Alignment explanation
Indices: 81799377--81799455 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 25
81799367 CTTCTTTGTT
* *
81799377 TTCACCTCCACCATTGTGCTT-ATC
1 TTCATCTCTACCATTGTGCTTCATC
**
81799401 TTCATCTCTACCATCAT-CTTCATC
1 TTCATCTCTACCATTGTGCTTCATC
*
81799425 TGCATCTCTACC-TTCG-GCTTCATC
1 TTCATCTCTACCATT-GTGCTTCATC
81799449 TTCATCT
1 TTCATCT
81799456 TCTTCTCCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
23 4 0.09
24 40 0.91
ACGTcount: A:0.16, C:0.37, G:0.06, T:0.41
Consensus pattern (25 bp):
TTCATCTCTACCATTGTGCTTCATC
Found at i:81811229 original size:40 final size:40
Alignment explanation
Indices: 81811152--81811329 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
81811142 AAACCAAGTA
* * *
81811152 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
*
81811191 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
81811231 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
81811271 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
81811311 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
81811330 TTATCATCCG
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 15 0.12
40 110 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:81813510 original size:40 final size:38
Alignment explanation
Indices: 81813466--81813558 Score: 96
Period size: 40 Copynumber: 2.4 Consensus size: 38
81813456 GTACCTTTTG
* * *
81813466 GTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATATTTA
1 GTGTGTAGGGTTGGATGGGTCGATTCTATCCCCACA--TA
** * *
81813506 GTGTGTAAAGCTGGGTGGGTCGATTCTATCCCCACATA
1 GTGTGTAGGGTTGGATGGGTCGATTCTATCCCCACATA
*
81813544 GTGTGTTGGGTTGGA
1 GTGTGTAGGGTTGGA
81813559 CGAAGATGGT
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
38 12 0.29
40 29 0.71
ACGTcount: A:0.17, C:0.13, G:0.33, T:0.37
Consensus pattern (38 bp):
GTGTGTAGGGTTGGATGGGTCGATTCTATCCCCACATA
Found at i:81820634 original size:16 final size:18
Alignment explanation
Indices: 81820613--81820649 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
81820603 AGTCTCTAGT
81820613 AGTTT-ACTATAGTT-TC
1 AGTTTAACTATAGTTATC
81820629 AGTTTAACTATAGTTATC
1 AGTTTAACTATAGTTATC
81820647 AGT
1 AGT
81820650 ATATACTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 9 0.47
18 5 0.26
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (18 bp):
AGTTTAACTATAGTTATC
Found at i:81827553 original size:26 final size:26
Alignment explanation
Indices: 81827519--81827570 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
81827509 GATTTAATTC
81827519 TTTCTCATAGTCATCAAAGAAAGGAA
1 TTTCTCATAGTCATCAAAGAAAGGAA
81827545 TTTCTCATAGTCATCAAAGAAAGGAA
1 TTTCTCATAGTCATCAAAGAAAGGAA
81827571 GTGGATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (26 bp):
TTTCTCATAGTCATCAAAGAAAGGAA
Found at i:81830644 original size:6 final size:6
Alignment explanation
Indices: 81830629--81830743 Score: 94
Period size: 6 Copynumber: 19.7 Consensus size: 6
81830619 ATTTAGGGTT
* * * ** *
81830629 ATTTCG ATTTTA ATTTTG ATTTTG ATTTTG ATTTAG -GGTT- ATTTCG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** * **
81830675 ATTTTG -GGTT- ATTTAG ATTTCA ATTTTG ATTTTTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG A-TTTTG ATTTTG ATTTTG
81830722 ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTT
81830744 CAATTTAGGG
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
5 5 0.06
6 73 0.87
7 6 0.07
ACGTcount: A:0.19, C:0.03, G:0.17, T:0.62
Consensus pattern (6 bp):
ATTTTG
Found at i:81830677 original size:16 final size:16
Alignment explanation
Indices: 81830653--81830694 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
81830643 TTTGATTTTG
*
81830653 ATTTTGATTTAGGGTT
1 ATTTAGATTTAGGGTT
* *
81830669 ATTTCGATTTTGGGTT
1 ATTTAGATTTAGGGTT
81830685 ATTTAGATTT
1 ATTTAGATTT
81830695 CAATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.21, T:0.57
Consensus pattern (16 bp):
ATTTAGATTTAGGGTT
Found at i:81831119 original size:62 final size:61
Alignment explanation
Indices: 81831012--81831147 Score: 209
Period size: 62 Copynumber: 2.2 Consensus size: 61
81831002 GTTAAAGTGT
* *
81831012 TTGGTTATTGTCTGCCATGTGCATGACAGAAATTATTATGGTTGTATTAAATTATTTTTGTA
1 TTGGTTATTGTCTACCATGTGCATGACAGAAATGATTATGGTTGTATTAAATTA-TTTTGTA
* * * *
81831074 TTGGTTACTGTCTACCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTA
1 TTGGTTATTGTCTACCATGTGCATGACAGAAATGATTATGGTTGTATTAAATTATTTTGTA
81831135 TTGGTTATTGTCT
1 TTGGTTATTGTCT
81831148 GACAAAAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
61 19 0.28
62 48 0.72
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.47
Consensus pattern (61 bp):
TTGGTTATTGTCTACCATGTGCATGACAGAAATGATTATGGTTGTATTAAATTATTTTGTA
Found at i:81831272 original size:15 final size:15
Alignment explanation
Indices: 81831252--81831301 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
81831242 AAATAAGAAA
81831252 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
81831267 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
* ***
81831282 TATCTTAAAGTGATG
1 TGTCTGGTAGTGATG
81831297 TGTCT
1 TGTCT
81831302 AATAGGATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.18, C:0.08, G:0.32, T:0.42
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:81833155 original size:68 final size:66
Alignment explanation
Indices: 81833015--81833176 Score: 234
Period size: 68 Copynumber: 2.4 Consensus size: 66
81833005 CACTTGTGTA
* * *
81833015 TGACTTTTTTTTAATATGCATGCAGTGATTATTGGTGCGTATGACTATTTTTAATATACATGATG
1 TGACTATTTTTTAATATGCATGCAGTGATTATTGATGCGTAAGACTATTTTTAATATACATGATG
81833080 T
66 T
* * * * *
81833081 TAACTATTTTTTAATATGCATGCAGTGATTGTTGATGTGTAAGATTATTTTTTTAATATACATGT
1 TGACTATTTTTTAATATGCATGCAGTGATTATTGATGCGTAAGACTA--TTTTTAATATACATGA
81833146 TGT
64 TGT
81833149 TGACTATTTTTTAATATGCATGCAGTGA
1 TGACTATTTTTTAATATGCATGCAGTGA
81833177 GCGTGAGTAT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 40 0.47
68 45 0.53
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (66 bp):
TGACTATTTTTTAATATGCATGCAGTGATTATTGATGCGTAAGACTATTTTTAATATACATGATG
T
Found at i:81833227 original size:2 final size:2
Alignment explanation
Indices: 81833222--81833286 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
81833212 TGTTTTTTAG
81833222 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
81833264 GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT G
81833287 ATTGTTGGTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:81833966 original size:21 final size:21
Alignment explanation
Indices: 81833940--81833989 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
81833930 CAAGTGGTTG
* *
81833940 CCCCAACTTAGTAATAG-GCTA
1 CCCCAACTTAGCAAGAGAG-TA
*
81833961 CCCCAAATTAGCAAGAGAGTA
1 CCCCAACTTAGCAAGAGAGTA
81833982 CCCCAACT
1 CCCCAACT
81833990 CAACAGGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (21 bp):
CCCCAACTTAGCAAGAGAGTA
Found at i:81834803 original size:36 final size:36
Alignment explanation
Indices: 81834748--81834824 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
81834738 GTTAGCCATG
*
81834748 TATACCAGCAGTCAAGTATAACAACATAAGCAACAA
1 TATACCAGCAGCCAAGTATAACAACATAAGCAACAA
* * *
81834784 TATACCAGTAGCCATGTATAACAACATAAGTAACAA
1 TATACCAGCAGCCAAGTATAACAACATAAGCAACAA
81834820 TATAC
1 TATAC
81834825 TAGCGACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (36 bp):
TATACCAGCAGCCAAGTATAACAACATAAGCAACAA
Found at i:81835204 original size:3 final size:3
Alignment explanation
Indices: 81835196--81835254 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
81835186 CTCTTCTCAT
81835196 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
81835244 TCA TCA TCA TC
1 TCA TCA TCA TC
81835255 TTCTTCTTCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:81835259 original size:3 final size:3
Alignment explanation
Indices: 81835253--81835289 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
81835243 ATCATCATCA
81835253 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
81835290 TTTGTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:81842626 original size:30 final size:30
Alignment explanation
Indices: 81842586--81842663 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
81842576 GTAATTTGAT
*
81842586 ACAT-AAACTTTAATTTGGTGCAATTGTAC
1 ACATGAAACTTTAATTTGGTGCAAATGTAC
* * *
81842615 ACATGAAACTTTTATTATGGTTCAAATGTAT
1 ACATGAAACTTTAATT-TGGTGCAAATGTAC
*
81842646 ATATGAAA-TTTGAATTTG
1 ACATGAAACTTT-AATTTG
81842664 ATCAATCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 4 0.10
30 15 0.38
31 21 0.52
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (30 bp):
ACATGAAACTTTAATTTGGTGCAAATGTAC
Found at i:81845214 original size:16 final size:16
Alignment explanation
Indices: 81845193--81845242 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
81845183 CGAAAATGAT
81845193 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
81845209 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
81845223 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
81845237 ATAATA
1 ATAATA
81845243 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:81846734 original size:133 final size:133
Alignment explanation
Indices: 81846480--81847103 Score: 836
Period size: 133 Copynumber: 4.7 Consensus size: 133
81846470 GATCTGCTGT
* * * * * *
81846480 AATTTGATTTGCTTTACTCCTGCTCAGTAAAGATAAGATCT-GTATGTTTAGCCTACTTTACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTA--TATAGCCTGCTTCACTCC
* * ** * * * * * * *
81846544 TGCTCAATGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATATATAGAGATAAGACTC
64 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTC
*
81846609 GCCAA
129 ACCAA
* * * *
81846614 AATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTTCACTCCTG
* *
81846679 CTCAGTGAAGATAAGGCTGGTGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTCAT
66 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTCAC
81846744 CAA
131 CAA
* * * * *
81846747 AATTCGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGCTTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTTCACTCCTG
* *
81846812 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAT
66 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTCAC
81846877 CAA
131 CAA
* *
81846880 AATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTTTATAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTTCACTCCTG
* *
81846945 CTCAGTGAAGATAAGGCTGATGATTGGAATATGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTCAC
81847010 CAA
131 CAA
* * * ** *
81847013 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTTCTATATTTAACCTGCTTCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATA--TAGCCTGCTTCACTCC
81847078 TGCTCAGTGAAGATAAGGCTGATGAT
64 TGCTCAGTGAAGATAAGGCTGATGAT
81847104 ATCTGTAATC
Statistics
Matches: 442, Mismatches: 45, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
133 361 0.82
134 37 0.08
135 44 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATATAGCCTGCTTCACTCCTG
CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTCAC
CAA
Found at i:81846817 original size:43 final size:44
Alignment explanation
Indices: 81846615--81846959 Score: 185
Period size: 43 Copynumber: 7.8 Consensus size: 44
81846605 ACTCGCCAAA
* * *
81846615 ATTT-GATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTAGT
1 ATTTAGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT
* * * *
81846658 ATATAG-CCTGCTCCACTCCTACTCAGTGAAGATAAG-GCTGGT
1 ATTTAGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT
* * * * ***
81846700 GA-TTGGAATCTGCTCCA-TCGCCGGTACA-TGGAGATAAGATTCATCAA
1 -ATTTAG-ATCTGCTCCACTC-CTGCT-CAGTGAAGATAAGA-TC-TGGT
* * * *
81846747 AATTCGATCTGCTTCACTTCTGCTCAGTGAAGATAAGATCTGGT
1 ATTTAGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT
* * *
81846791 ATTTAGCT-TGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGAT
1 ATTTAGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT
* * * * ***
81846833 GA-TTGGAATCTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCATCAA
1 -ATTTAG-ATCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-TGGT
* * *
81846880 AATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT
1 ATTTAGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT
* *
81846924 -TTATAG-CCTGCTTCACTCCTGCTCAGTGAAGATAAG
1 ATT-TAGATCTGCTCCACTCCTGCTCAGTGAAGATAAG
81846960 GCTGATGATT
Statistics
Matches: 227, Mismatches: 51, Indels: 48
0.70 0.16 0.15
Matches are distributed among these distances:
42 13 0.06
43 95 0.42
44 49 0.22
45 8 0.04
46 49 0.22
47 13 0.06
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
ATTTAGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT
Found at i:81859001 original size:16 final size:16
Alignment explanation
Indices: 81858980--81859029 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
81858970 CGAAAATGAT
81858980 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
81858996 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
81859010 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
81859024 ATAATA
1 ATAATA
81859030 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:81863423 original size:3 final size:3
Alignment explanation
Indices: 81863415--81863439 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
81863405 GTTATTTACC
81863415 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
81863440 TCCTTTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:81865575 original size:26 final size:27
Alignment explanation
Indices: 81865523--81865580 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
81865513 CTTAATGGAG
81865523 GCACCAAATTGGATTAAAAAAAATATT
1 GCACCAAATTGGATTAAAAAAAATATT
81865550 GCACCAAATTGGATT-AAAAAAATATT
1 GCACCAAATTGGATTAAAAAAAATATT
81865576 GCACC
1 GCACC
81865581 GTATTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (27 bp):
GCACCAAATTGGATTAAAAAAAATATT
Found at i:81865680 original size:132 final size:129
Alignment explanation
Indices: 81865446--81865681 Score: 429
Period size: 132 Copynumber: 1.8 Consensus size: 129
81865436 GTTTTCTAAA
81865446 TGCACCGTATTTTCATAGGTATTTCGAAGGTAAATGAAAAAAAATTATTAATTTTTGTTGCTGCC
1 TGCACCGTATTTTCATAGGTATTTCGAAGGTAAATGAAAAAAAATTATTAATTTTTGTTGCTGCC
81865511 TCCTTAATGGAGGCACCAAATTGGATTAAAAAAAATATTGCACCAAATTGGATTAAAAAAATAT
66 TCCTTAATGGAGGCACCAAATTGGATTAAAAAAAATATTGCACCAAATTGGATTAAAAAAATAT
81865575 TGCACCGTATTTTCATAGGTATTTTCGAAGGTAAATGGAAAAAAAAATTATTAATTTTTGTTGCT
1 TGCACCGTATTTTCATAGGTA-TTTCGAAGGTAAAT-G-AAAAAAAATTATTAATTTTTGTTGCT
81865640 GCCTCCTTTAATGGAGGCACCAAATTGGATT-AAAAAAATATT
63 GCCTCC-TTAATGGAGGCACCAAATTGGATTAAAAAAAATATT
81865682 TGTTAGTGCC
Statistics
Matches: 103, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
129 21 0.20
130 14 0.14
131 1 0.01
132 43 0.42
133 24 0.23
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (129 bp):
TGCACCGTATTTTCATAGGTATTTCGAAGGTAAATGAAAAAAAATTATTAATTTTTGTTGCTGCC
TCCTTAATGGAGGCACCAAATTGGATTAAAAAAAATATTGCACCAAATTGGATTAAAAAAATAT
Found at i:81866041 original size:27 final size:28
Alignment explanation
Indices: 81865997--81866052 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
81865987 ATTTTTATAT
81865997 ACATAACTAACAGATTAAATATTGCTTA
1 ACATAACTAACAGATTAAATATTGCTTA
**
81866025 ACATAA-TAACATTTTAAATATTGCTTA
1 ACATAACTAACAGATTAAATATTGCTTA
81866052 A
1 A
81866053 AACATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (28 bp):
ACATAACTAACAGATTAAATATTGCTTA
Found at i:81866424 original size:11 final size:11
Alignment explanation
Indices: 81866408--81866437 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
81866398 GTATAAAAAC
81866408 TTATTTTATTA
1 TTATTTTATTA
*
81866419 TTATTTTGTTA
1 TTATTTTATTA
81866430 TTATTTTA
1 TTATTTTA
81866438 AAGGCATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:81866582 original size:17 final size:16
Alignment explanation
Indices: 81866553--81866593 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
81866543 GGAAAATATT
81866553 TATTTTAATTTTATAG
1 TATTTTAATTTTATAG
81866569 TATTTTAGATTTTATA-
1 TATTTTA-ATTTTATAG
81866585 TATATTTAA
1 TAT-TTTAA
81866594 AATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TATTTTAATTTTATAG
Found at i:81896263 original size:25 final size:25
Alignment explanation
Indices: 81896229--81896278 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
81896219 AAAAACCACT
81896229 TAGTAAAAGATGTTTATCATACATC
1 TAGTAAAAGATGTTTATCATACATC
81896254 TAGTAAAAGATGTTTATCATACATC
1 TAGTAAAAGATGTTTATCATACATC
81896279 AAACTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (25 bp):
TAGTAAAAGATGTTTATCATACATC
Found at i:81900815 original size:24 final size:24
Alignment explanation
Indices: 81900759--81900895 Score: 102
Period size: 23 Copynumber: 5.8 Consensus size: 24
81900749 CGTTGCATGA
*
81900759 CTCTTTGTGAGCTTCCTGATA-GG
1 CTCTTTGTGAGCTTCCCGATATGG
*
81900782 CTCTTCGTGAGCTTCCCGATATGG
1 CTCTTTGTGAGCTTCCCGATATGG
* * *
81900806 TTCTTTGTGAACTTCCCAATTATGG
1 CTCTTTGTGAGCTTCCCGA-TATGG
* * *
81900831 CTC-TTATGAGCTTCCTGTTATATAG
1 CTCTTTGTGAGCTTCCCG--ATATGG
* * * *
81900856 CTC-TTATAAGTTTCCCGATA-GA
1 CTCTTTGTGAGCTTCCCGATATGG
*
81900878 CTCTTTATGAGCTTCCCG
1 CTCTTTGTGAGCTTCCCG
81900896 CTACAAGGTT
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.03
23 34 0.38
24 27 0.30
25 25 0.28
26 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (24 bp):
CTCTTTGTGAGCTTCCCGATATGG
Found at i:81915658 original size:48 final size:48
Alignment explanation
Indices: 81915593--81915843 Score: 439
Period size: 48 Copynumber: 5.2 Consensus size: 48
81915583 GCTGAAATTG
*
81915593 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
*
81915641 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
81915689 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
81915737 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
*
81915785 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
* *
81915833 ATGTAGGAGAT
1 ATATATGAGAT
81915844 GTGTGTATAT
Statistics
Matches: 194, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 194 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
Found at i:81925576 original size:20 final size:20
Alignment explanation
Indices: 81925551--81925588 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
81925541 GGGACTAAAA
*
81925551 TGAAAAATTGTAAAATTTGC
1 TGAAAAATTCTAAAATTTGC
81925571 TGAAAAATTCTAAAATTT
1 TGAAAAATTCTAAAATTT
81925589 TATGAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (20 bp):
TGAAAAATTCTAAAATTTGC
Found at i:81925594 original size:20 final size:20
Alignment explanation
Indices: 81925550--81925594 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
81925540 AGGGACTAAA
*
81925550 ATGAAAAATTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
81925570 CTGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
81925590 ATGAA
1 ATGAA
81925595 TACATGTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:81927643 original size:40 final size:40
Alignment explanation
Indices: 81927599--81927731 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 40
81927589 AATAGATTAA
*
81927599 TAGCGACGTTTTTAAAAAAGCGCCGCTATAGATCGACCTT
1 TAGCGACGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
** * * * * * * *
81927639 TAGCGGTGCTTTTCTAAATGCGCCGCTAAAGATCTAACAT
1 TAGCGACGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
* * * * *
81927679 TAGC-AGCATTTTTCAAGAAGCGTCGCTATATATCGACCTA
1 TAGCGA-CGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
*
81927719 TAGCGGCGTTTTT
1 TAGCGACGTTTTT
81927732 TTACGTAAGC
Statistics
Matches: 65, Mismatches: 26, Indels: 4
0.68 0.27 0.04
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
TAGCGACGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
Found at i:81927857 original size:40 final size:39
Alignment explanation
Indices: 81927790--81927898 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 39
81927780 TCAATTGCAT
81927790 TAGCGGCG-TTTTCTAAAAAATG-CCTAAAAATC-ATCTTA
1 TAGCGGCGCTTTT-TAAAAAATGCCCTAAAAATCGA-CTTA
*
81927828 TAGCGGCGCTTTTTAAAAAACGCCTCTAAAAATCGACTTA
1 TAGCGGCGCTTTTTAAAAAATGCC-CTAAAAATCGACTTA
81927868 TAGCGGCGCTTTTTAAAAAATGCCGCTAAAA
1 TAGCGGCGCTTTTTAAAAAATGCC-CTAAAA
81927899 GATTAAATAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 16 0.25
39 5 0.08
40 42 0.66
41 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (39 bp):
TAGCGGCGCTTTTTAAAAAATGCCCTAAAAATCGACTTA
Found at i:81928425 original size:12 final size:12
Alignment explanation
Indices: 81928405--81928441 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
81928395 AATAAATTTC
*
81928405 ATATGGATATAT
1 ATATTGATATAT
81928417 ATATTGATATAT
1 ATATTGATATAT
81928429 ATA-TG-TATAT
1 ATATTGATATAT
81928439 ATA
1 ATA
81928442 GATATTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (12 bp):
ATATTGATATAT
Found at i:81930041 original size:51 final size:50
Alignment explanation
Indices: 81929907--81930041 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 50
81929897 GAAGCTATCT
* *
81929907 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACACCATCG
** * * * ***
81929957 AATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACA-CCATCG
* *
81930008 GGTACGCATAGTAGTCTGCACTTACTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
81930042 TGCGACCTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 38 0.56
51 30 0.44
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACACCATCG
Found at i:81931704 original size:3 final size:3
Alignment explanation
Indices: 81931696--81931730 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
81931686 ATTAATAGGA
81931696 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
81931731 AAGAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:81932953 original size:22 final size:22
Alignment explanation
Indices: 81932926--81932971 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
81932916 TTGAATATTG
81932926 TTGTATCAGTGAATGCTTATGC
1 TTGTATCAGTGAATGCTTATGC
81932948 TTGTATCAGTGAATGCTTATGC
1 TTGTATCAGTGAATGCTTATGC
81932970 TT
1 TT
81932972 ATGTATGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (22 bp):
TTGTATCAGTGAATGCTTATGC
Found at i:81934699 original size:23 final size:23
Alignment explanation
Indices: 81934669--81934718 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
81934659 AACATTAATC
*
81934669 AAATGTATGAATTGCAGGCCATT
1 AAATGTATGAATTGCAGCCCATT
*
81934692 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCATT
81934715 AAAT
1 AAAT
81934719 AAACTTGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCATT
Found at i:81935546 original size:9 final size:9
Alignment explanation
Indices: 81935523--81935650 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
81935513 ATTGATCATT
*
81935523 ACTTAAATA
1 ACTTACATA
*
81935532 AATTACATA
1 ACTTACATA
81935541 ACTTACATA
1 ACTTACATA
* *
81935550 ACTCATATA
1 ACTTACATA
81935559 ACTTACATA
1 ACTTACATA
*
81935568 ATTTACATAACA
1 ACTTACAT---A
81935580 ACTTACATA
1 ACTTACATA
*
81935589 ACTCACATA
1 ACTTACATA
81935598 ACTTACATA
1 ACTTACATA
*
81935607 ATTTACATA
1 ACTTACATA
*
81935616 ACTCACATA
1 ACTTACATA
*
81935625 ACGTACATAACA
1 ACTTACAT---A
81935637 ACTTACATA
1 ACTTACATA
81935646 ACTTA
1 ACTTA
81935651 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:81935592 original size:39 final size:39
Alignment explanation
Indices: 81935540--81935617 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
81935530 TAAATTACAT
*
81935540 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
81935579 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
81935618 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:81935617 original size:57 final size:57
Alignment explanation
Indices: 81935536--81935648 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
81935526 TAAATAAATT
* * **
81935536 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
81935593 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
81935649 TAACTAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:81957777 original size:46 final size:46
Alignment explanation
Indices: 81957710--81957887 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
81957700 TGTAACCCGC
* *
81957710 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * *
81957756 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * * **
81957802 ACATTTCA-CGAACTCGGACTCAACTCAACGAATTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
81957849 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
81957888 CTCAACCATC
Statistics
Matches: 105, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 33 0.31
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:81957877 original size:93 final size:93
Alignment explanation
Indices: 81957718--81957888 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
81957708 GCCCATAAGT
* *** *
81957718 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
81957783 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
81957811 GAACTCGGACTCAACTCAACGAATTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
81957876 CGAGTTCGGATGC
66 CGAGTTCGGATGC
81957889 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:81960316 original size:30 final size:30
Alignment explanation
Indices: 81960272--81960360 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
81960262 CAAAGATAAC
81960272 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
81960301 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
81960331 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
81960361 CGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:81960320 original size:15 final size:15
Alignment explanation
Indices: 81960272--81960351 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
81960262 CAAAGATAAC
*
81960272 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
81960286 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
81960301 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
81960316 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
81960331 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
81960346 AAGAAA
1 AAGAAA
81960352 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:81960360 original size:15 final size:15
Alignment explanation
Indices: 81960283--81960360 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
81960273 AGAAAACCGA
*
81960283 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
81960298 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
81960312 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
81960327 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
81960343 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
81960358 ATA
1 ATA
81960361 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:81963441 original size:93 final size:93
Alignment explanation
Indices: 81963282--81963451 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
81963272 CCCATAAGCG
*** * *
81963282 AACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAGGTGAAGTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
81963347 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
81963375 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
81963440 GAGTTCGGATGC
66 GAGTTCGGATGC
81963452 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:81963442 original size:46 final size:46
Alignment explanation
Indices: 81963273--81963448 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
81963263 TGTAACCCGC
* * ***
81963273 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
81963319 CCATAGGTGAAGTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-T
* *
81963370 TCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
81963412 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
81963449 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
46 60 0.58
47 27 0.26
50 2 0.02
51 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:81963467 original size:46 final size:45
Alignment explanation
Indices: 81963281--81963467 Score: 125
Period size: 46 Copynumber: 4.0 Consensus size: 45
81963271 GCCCATAAGC
* * * *
81963281 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TA-GT
* * *
81963327 GAAGTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * * *
81963374 AAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
81963420 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
81963466 GA
1 GA
81963468 CATGTCACTT
Statistics
Matches: 110, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 60 0.55
47 29 0.26
48 1 0.01
49 5 0.05
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:81973537 original size:25 final size:24
Alignment explanation
Indices: 81973500--81973550 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
81973490 ATGTTCATGC
*
81973500 GAGCCATGTCAGGAAGCTCATAAA
1 GAGCCATATCAGGAAGCTCATAAA
*
81973524 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
81973549 GA
1 GA
81973551 TCTGTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:81980954 original size:26 final size:26
Alignment explanation
Indices: 81980897--81980963 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
81980887 TACATAGTTC
81980897 CTCACACGAGTTGTGAAATAGGTATG
1 CTCACACGAGTTGTGAAATAGGTATG
* * * *
81980923 CACACATGAGTTGTGAAATGGGTCTG
1 CTCACACGAGTTGTGAAATAGGTATG
*
81980949 CTCACACGAGATGTG
1 CTCACACGAGTTGTG
81980964 GGTCAAAATC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (26 bp):
CTCACACGAGTTGTGAAATAGGTATG
Found at i:81989692 original size:28 final size:28
Alignment explanation
Indices: 81989661--81989723 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
81989651 TGTCATCTGA
*
81989661 CCGTGTCACACACTGCTGAGACACATGC
1 CCGTGTCACACACGGCTGAGACACATGC
81989689 CCGTGTCACACACGGCTGAGACACATGC
1 CCGTGTCACACACGGCTGAGACACATGC
81989717 CCGTGTC
1 CCGTGTC
81989724 TCTACCTATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (28 bp):
CCGTGTCACACACGGCTGAGACACATGC
Found at i:82002505 original size:46 final size:46
Alignment explanation
Indices: 82002438--82002612 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
82002428 TGTAACCCGC
* *
82002438 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
82002484 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
82002534 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
82002577 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
82002613 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:82002558 original size:93 final size:93
Alignment explanation
Indices: 82002445--82002616 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
82002435 CGCCCATAAG
** *
82002445 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82002510 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
82002538 CGAACTC-GAACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAG-ACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTC
82002602 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
82002617 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:82004319 original size:27 final size:28
Alignment explanation
Indices: 82004289--82004356 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
82004279 ATGAAGTCCG
82004289 CACACTCAGTGCTATATAATC-AACTCA
1 CACACTCAGTGCTATATAATCAAACTCA
*
82004316 CACAC-CTAGTGCTATATAATCAAACTCG
1 CACACTC-AGTGCTATATAATCAAACTCA
*
82004344 CACACTTAGTGCT
1 CACACTCAGTGCT
82004357 GTACAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 1 0.03
27 19 0.53
28 16 0.44
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.26
Consensus pattern (28 bp):
CACACTCAGTGCTATATAATCAAACTCA
Found at i:82004353 original size:28 final size:28
Alignment explanation
Indices: 82004287--82004384 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
82004277 ATATGAAGTC
*
82004287 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
82004314 CACACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
82004342 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
82004371 CGCACACTTAGTGC
1 CGCACACTTAGTGC
82004385 CAATCTCATG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 20 0.33
28 21 0.35
29 19 0.32
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:82009634 original size:27 final size:28
Alignment explanation
Indices: 82009554--82009647 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 28
82009544 AGATTGGCGT
* * * *
82009554 TAAGTGTGCGGGTTTAAATTGTACAGCAC
1 TAAGTGTGCGAGTTT-GATTATATAGCAC
82009583 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
82009611 TAAGTGTGCGAG-TTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
*
82009638 TGAGTGTGCG
1 TAAGTGTGCG
82009648 GACTTAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.40
28 22 0.37
29 14 0.23
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
TAAGTGTGCGAGTTTGATTATATAGCAC
Found at i:82009661 original size:29 final size:27
Alignment explanation
Indices: 82009578--82009661 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
82009568 TAAATTGTAC
* *
82009578 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
82009606 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
82009633 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
82009662 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:82017611 original size:27 final size:28
Alignment explanation
Indices: 82017530--82017624 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
82017520 GAGATTGGCG
* * * *
82017530 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
82017559 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
82017587 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
82017614 CTGAGTGTGCG
1 CTAAGTGTGCG
82017625 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:82017638 original size:29 final size:27
Alignment explanation
Indices: 82017555--82017638 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
82017545 TAAATTGTAC
* *
82017555 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
82017583 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
82017610 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
82017639 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:82020581 original size:19 final size:19
Alignment explanation
Indices: 82020557--82020593 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
82020547 AGGGACTAAA
82020557 ATGAAAAGTT-TAAAATTTG
1 ATGAAAA-TTATAAAATTTG
82020576 ATGAAAATTATAAAATTT
1 ATGAAAATTATAAAATTT
82020594 AATGGATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
ATGAAAATTATAAAATTTG
Done.