Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 94 of 226
Found at i:32481764 original size:30 final size:30
Alignment explanation
Indices: 32481730--32481792 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
32481720 ACTTAACAAG
32481730 CAAATG-CTTTTAAAATAATAACAAAATTAA
1 CAAATGTC-TTTAAAATAATAACAAAATTAA
32481760 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
32481790 CAA
1 CAA
32481793 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:32485969 original size:45 final size:44
Alignment explanation
Indices: 32485892--32485977 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 44
32485882 CTACTAAATA
* * *
32485892 TTAACTAAATTATATACTACTTTTTATAAATTATTTATATTAATC
1 TTAACAAAATTACATACTACTTTTTATAAATTAATTA-ATTAATC
* *
32485937 TTAACAAAATTACATATTA-TTTATTATTAATTAATTAATTA
1 TTAACAAAATTACATACTACTTT-TTATAAATTAATTAATTA
32485978 TTTATATGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 7 0.20
45 28 0.80
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (44 bp):
TTAACAAAATTACATACTACTTTTTATAAATTAATTAATTAATC
Found at i:32486909 original size:2 final size:2
Alignment explanation
Indices: 32486902--32486940 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
32486892 GATTTTGAAG
32486902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32486941 AGAAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32493744 original size:37 final size:37
Alignment explanation
Indices: 32493693--32493805 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 37
32493683 AGTACACAAG
* *
32493693 TAATCCAACCGATAACATGCCAAGTGCTCCGAAGAGC
1 TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
* * * * *
32493730 TAATCCAACTGATAACACGCCAAATGCTACAAAGAGT
1 TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
* * * * *
32493767 TAATGCAACAGATAACAGGTCATGTGCTCTGAAGAGC
1 TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
32493804 TA
1 TA
32493806 TACATCCGCC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (37 bp):
TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
Found at i:32496362 original size:21 final size:21
Alignment explanation
Indices: 32496311--32496370 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
32496301 AAGTTTTTCA
*
32496311 AAATTAAATATTTT-ATACACT
1 AAATTAAAAATTTTAATA-ACT
*
32496332 AAATTGAAAATTTTAATAACT
1 AAATTAAAAATTTTAATAACT
* *
32496353 AAATCAAAAA-GTTAATAA
1 AAATTAAAAATTTTAATAA
32496371 TTAGATTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 7 0.21
21 23 0.70
22 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATTAAAAATTTTAATAACT
Found at i:32496602 original size:12 final size:12
Alignment explanation
Indices: 32496585--32496609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32496575 TTCCTAATAA
32496585 TAGGGTTTTTAT
1 TAGGGTTTTTAT
32496597 TAGGGTTTTTAT
1 TAGGGTTTTTAT
32496609 T
1 T
32496610 TTAAGAGTTT
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:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TAGGGTTTTTAT
Found at i:32502114 original size:18 final size:18
Alignment explanation
Indices: 32502087--32502134 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
32502077 GAATTGGCCA
*
32502087 AGTGCAGTGGTGGTCTAT
1 AGTGCAGTGGTGGTCCAT
*
32502105 AGTGCGGTGGTGGTCCAT
1 AGTGCAGTGGTGGTCCAT
*
32502123 AGTGCAATGGTG
1 AGTGCAGTGGTG
32502135 CTTGTGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.12, G:0.42, T:0.29
Consensus pattern (18 bp):
AGTGCAGTGGTGGTCCAT
Found at i:32504629 original size:44 final size:43
Alignment explanation
Indices: 32504555--32504680 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 43
32504545 ATATGTGTTA
* * *
32504555 TCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATT
1 TCGTATAAGACCATGTCTAGGAC-ATGGCATCGATATTGAGATT
* * *
32504598 TATGTATAAGACCGTGTCTAGGACATCGGCATC-ATATT-TGATT
1 T-CGTATAAGACCATGTCTAGGACAT-GGCATCGATATTGAGATT
* * *
32504641 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTGA
1 TCGTATAAGACCATGTCTAGGACA-TGGCATCGATATTGA
32504681 TTACATGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
42 25 0.38
43 15 0.23
44 26 0.39
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGTATAAGACCATGTCTAGGACATGGCATCGATATTGAGATT
Found at i:32504712 original size:42 final size:41
Alignment explanation
Indices: 32504558--32504713 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 41
32504548 TGTGTTATCG
*
32504558 TGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTAGGACGTTGGCATCGATATT--GATTCA
** * * *
32504600 TGTATAAGACCGTGTCTAGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTAGGACGTTGGCATCGATA-TTGA-TTCA
*
32504644 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTGATT-CA
32504686 TGTAAGACCACGTCT-GAGACGTTGGCAT
1 TGTAAGACCACGTCTAG-GACGTTGGCAT
32504714 TGTACGAGTT
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
41 4 0.04
42 50 0.55
43 8 0.09
44 27 0.30
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGATATTGATTCA
Found at i:32505057 original size:17 final size:18
Alignment explanation
Indices: 32505013--32505057 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
32505003 TATGAAATTT
32505013 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
32505031 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
32505048 T-ATATGAAAT
1 TGATATGAAAT
32505058 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:32511078 original size:18 final size:18
Alignment explanation
Indices: 32511055--32511093 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32511045 ATTTTTATAT
32511055 ATTGTGT-AAATATATTTA
1 ATTGTGTGAAATA-ATTTA
*
32511073 ATTGTGTGCAATAATTTA
1 ATTGTGTGAAATAATTTA
32511091 ATT
1 ATT
32511094 TAATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (18 bp):
ATTGTGTGAAATAATTTA
Found at i:32511353 original size:2 final size:2
Alignment explanation
Indices: 32511346--32511376 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32511336 TCCATTCTTT
32511346 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32511377 TCCTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32513440 original size:21 final size:21
Alignment explanation
Indices: 32513397--32513453 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
32513387 TACATATTAT
* *
32513397 CACTGTTCATGG-TTTGACTC
1 CACTGTTCATGGACTTGACCC
32513417 CACTGTTCATGGACTTGACCC
1 CACTGTTCATGGACTTGACCC
*
32513438 CACTATTCATAGGACT
1 CACTGTTCAT-GGACT
32513454 AACATTCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 12 0.38
21 15 0.47
22 5 0.16
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (21 bp):
CACTGTTCATGGACTTGACCC
Found at i:32514449 original size:23 final size:24
Alignment explanation
Indices: 32514415--32514474 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
32514405 TTTTACCATT
*
32514415 TTAAATATAAAATATTTATTTCTAAA
1 TTAAATA-AAAATATTAATTT-TAAA
*
32514441 -T-AATAAAAAAATTAATTTTAAA
1 TTAAATAAAAATATTAATTTTAAA
32514463 TTAAATAAAAAT
1 TTAAATAAAAAT
32514475 TGTATTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 12 0.41
25 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAATAAAAATATTAATTTTAAA
Found at i:32514474 original size:22 final size:23
Alignment explanation
Indices: 32514418--32514475 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
32514408 TACCATTTTA
*
32514418 AATATAAAATATTTATTTCTAAAT
1 AATATAAAA-ATTAATTTCTAAAT
*
32514442 AATAAAAAAATTAATTT-TAAATT
1 AATATAAAAATTAATTTCTAAA-T
32514465 AA-ATAAAAATT
1 AATATAAAAATT
32514476 GTATTCTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.40
23 10 0.33
24 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATAAAAATTAATTTCTAAAT
Found at i:32514485 original size:23 final size:22
Alignment explanation
Indices: 32514421--32514485 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
32514411 CATTTTAAAT
32514421 ATAAAATATTTATTTCTAAA-TAA
1 ATAAAA-ATTTA-TTCTAAATTAA
* * *
32514444 TAAAAAAATTAATTTTAAATTAA
1 -ATAAAAATTTATTCTAAATTAA
32514467 ATAAAAATTGTATTCTAAA
1 ATAAAAATT-TATTCTAAA
32514486 AATTGTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 14 0.42
23 14 0.42
24 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAAATTTATTCTAAATTAA
Found at i:32515755 original size:31 final size:28
Alignment explanation
Indices: 32515720--32515786 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 28
32515710 TTTTATGCTA
32515720 AATTTAATCTTTTATGTTTATATATTTTGTT
1 AATTTAATCTTTTAT-TTT-TAT-TTTTGTT
* *
32515751 AATTTAATTTTTTATTTTTATTTTTTTT
1 AATTTAATCTTTTATTTTTATTTTTGTT
*
32515779 AAATTAAT
1 AATTTAAT
32515787 TAATTGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 13 0.39
29 3 0.09
30 3 0.09
31 14 0.42
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (28 bp):
AATTTAATCTTTTATTTTTATTTTTGTT
Found at i:32516171 original size:7 final size:7
Alignment explanation
Indices: 32516159--32516192 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
32516149 TAATAATATA
32516159 TATTTTT
1 TATTTTT
32516166 TA-TTTT
1 TATTTTT
32516172 TATTTTT
1 TATTTTT
32516179 TATTTTT
1 TATTTTT
*
32516186 TAATTTT
1 TATTTTT
32516193 AAAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TATTTTT
Found at i:32516177 original size:13 final size:13
Alignment explanation
Indices: 32516159--32516185 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32516149 TAATAATATA
32516159 TATTTTTTATTTT
1 TATTTTTTATTTT
32516172 TATTTTTTATTTT
1 TATTTTTTATTTT
32516185 T
1 T
32516186 TAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:32516235 original size:19 final size:20
Alignment explanation
Indices: 32516200--32516238 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
32516190 TTTAAAATAC
32516200 TTTTAAAATAAAATTTTTTAT
1 TTTTAAAAT-AAATTTTTTAT
32516221 TTTTAAAAT-AATTTTTTA
1 TTTTAAAATAAATTTTTTA
32516239 ATGTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAATAAATTTTTTAT
Found at i:32516245 original size:20 final size:20
Alignment explanation
Indices: 32516201--32516245 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
32516191 TTAAAATACT
*
32516201 TTTAAAATAAAATTTTTTATT
1 TTTAAAAT-AAATTTTTTATG
32516222 TTTAAAAT-AATTTTTTAATG
1 TTTAAAATAAATTTTTT-ATG
32516242 TTTA
1 TTTA
32516246 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAAAATAAATTTTTTATG
Found at i:32520227 original size:70 final size:70
Alignment explanation
Indices: 32520101--32520639 Score: 515
Period size: 70 Copynumber: 7.7 Consensus size: 70
32520091 TTGAATAAGT
* * * *
32520101 GAGCCTTTGCA-TATCAGTTGGGAGCTT-TGCTCGTGCTT-ACTATTTTGGAGGACGCGATATTG
1 GAGCCTTTGGATTA-CAGTTGGGAGCTTGAGCTCGCG-TTGACTATTTTGGAGGTCGCGATATTG
32520163 AATCAAC
64 AATCAAC
* * * * *
32520170 GAGTCTTTGGATTACAGCTAGGAGCTTGAGCTCACATTGACTATTTTGGAGGTCGCGATATTGAA
1 GAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCGTTGACTATTTTGGAGGTCGCGATATTGAA
32520235 TCAAC
66 TCAAC
* * * * * * * * * *
32520240 AAGCATTTGGATTACAATTAGGAGCTTTG-GCTCGTGCTAACTGTTTTGGAGGTTGCGATATTAA
1 GAGCCTTTGGATTACAGTTGGGAGC-TTGAGCTCGCGTTGACTATTTTGGAGGTCGCGATATTGA
*
32520304 ATCAGC
65 ATCAAC
** * * * *
32520310 GAGCCTTTGGATTACAACTGGGAGCTTTG-GCTCGCGCTAACTATTTTGGAGGCCGTGATATTGA
1 GAGCCTTTGGATTACAGTTGGGAGC-TTGAGCTCGCGTTGACTATTTTGGAGGTCGCGATATTGA
*
32520374 ATCAGC
65 ATCAAC
* * * * * * * *
32520380 GAGCCTTTGCA-TATCAGTTAGTAGCTTTAGCTTATGC-TT-ACTGTTTTGAAGGTTGCGATATT
1 GAGCCTTTGGATTA-CAGTTGGGAGCTTGAGC-T-CGCGTTGACTATTTTGGAGGTCGCGATATT
*
32520442 GAATCAGC
63 GAATCAAC
* * * *
32520450 AAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCGCTT-ATTGTTTTGGAGGCCGCGATATTGA
1 GAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCG-TTGACTATTTTGGAGGTCGCGATATTGA
32520514 ATCAAC
65 ATCAAC
* *
32520520 GAGCCTTTAGATTACAGTTGGGAGCTTTG-GCTCGCGTTGACTATTTTAGAGGTCGCGATATTGA
1 GAGCCTTTGGATTACAGTTGGGAGC-TTGAGCTCGCGTTGACTATTTTGGAGGTCGCGATATTGA
32520584 ATCAGA-
65 ATCA-AC
* *
32520590 GAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCACGCTGACTATTTTGGA
1 GAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCGTTGACTATTTTGGA
32520640 AGGATATGTT
Statistics
Matches: 388, Mismatches: 67, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
68 2 0.01
69 32 0.08
70 341 0.88
71 11 0.03
72 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (70 bp):
GAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCGTTGACTATTTTGGAGGTCGCGATATTGAA
TCAAC
Found at i:32520322 original size:140 final size:140
Alignment explanation
Indices: 32520101--32520639 Score: 638
Period size: 140 Copynumber: 3.9 Consensus size: 140
32520091 TTGAATAAGT
* * *
32520101 GAGCCTTTGCA-TATCAGTTGGGAGCTTT-GCTCGTGCTTACTATTTTGGAGGACGCGATATTGA
1 GAGCCTTTGGATTA-CAGTTAGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGTCGCGATATTGA
* * * ** *
32520164 ATCAACGAGTCTTTGGATTACAGCTAGGAGCTTGAGCTCACATTGACTATTTTGGAGGTCGCGAT
65 ATCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGAGGCCGCGAT
32520229 ATTGAATCAAC
130 ATTGAATCAAC
* * * * * * *
32520240 AAGCATTTGGATTACAATTAGGAGCTTTGGCTCGTGCTAACTGTTTTGGAGGTTGCGATATTAAA
1 GAGCCTTTGGATTACAGTTAGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGTCGCGATATTGAA
* * * *
32520305 TCAGCGAGCCTTTGGATTACAACTGGGAGCTTTG-GCTCGCGCTAACTATTTTGGAGGCCGTGAT
66 TCAGCGAGCCTTTGGATTACAGCTGGGAGC-TTGAGCTCACGCTGACTATTTTGGAGGCCGCGAT
*
32520369 ATTGAATCAGC
130 ATTGAATCAAC
* * * ** * * *
32520380 GAGCCTTTGCA-TATCAGTTAGTAGCTTTAGCTTATGCTTACTGTTTTGAAGGTTGCGATATTGA
1 GAGCCTTTGGATTA-CAGTTAGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGTCGCGATATTGA
* * * * * *
32520444 ATCAGCAAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGAT
65 ATCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGAGGCCGCGAT
32520509 ATTGAATCAAC
130 ATTGAATCAAC
* * * *
32520520 GAGCCTTTAGATTACAGTTGGGAGCTTTGGCTCGCG-TTGACTATTTTAGAGGTCGCGATATTGA
1 GAGCCTTTGGATTACAGTTAGGAGCTTTGGCTCGTGCTT-ACTATTTTGGAGGTCGCGATATTGA
* *
32520584 ATCAGAGAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCACGCTGACTATTTTGGA
65 ATCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGA
32520640 AGGATATGTT
Statistics
Matches: 335, Mismatches: 58, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
139 27 0.08
140 303 0.90
141 5 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (140 bp):
GAGCCTTTGGATTACAGTTAGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGTCGCGATATTGAA
TCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGAGGCCGCGATA
TTGAATCAAC
Found at i:32520462 original size:210 final size:210
Alignment explanation
Indices: 32520119--32520642 Score: 626
Period size: 210 Copynumber: 2.5 Consensus size: 210
32520109 GCATATCAGT
* * * * *
32520119 TGGGAGCTTT-GCTCGTGCTTACTATTTTGGAGGACGCGATATTGAATCAACGAGTCTTTGGATT
1 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
*
32520183 ACAGCTAGGAGCTTGAGCTCACATTGACTATTTTGGAGGTCGCGATATTGAATCAACAAGCATTT
66 ACAGCTAGGAGCTTGAGCTCACATTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATTT
* ** *
32520248 GGATTACAATTAGGAGCTTTG-GCTCGTGCTAACTGTTTTGGAGGTTGCGATATTAAATCAGCGA
131 GGATTACAATTAGGAGC-TTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGA
*
32520312 GCCTTTGGATTACAAC
195 GCCTTTAGATTACAAC
* *
32520328 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGCCGTGATATTGAATCAGCGAGCCTTTGCA-T
1 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
* * * * * * * *
32520392 ATCAGTTAGTAGCTTTAGCTTATGC-TT-ACTGTTTTGAAGGTTGCGATATTGAATCAGCAAGCC
66 A-CAGCTAGGAGCTTGAGCTCA--CATTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCA
* * * * *
32520455 TTTGGATTACAGTTGGGAGCTTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGATATTGAATCAAC
128 TTTGGATTACAATTAGGAGCTTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAAC
**
32520520 GAGCCTTTAGATTACAGT
193 GAGCCTTTAGATTACAAC
* * * * * *
32520538 TGGGAGCTTTGGCTCGCGTTGACTATTTTAGAGGTCGCGATATTGAATCAGAGAGCCTTTGGATT
1 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
* * **
32520603 ACAGTTGGGAGCTTGAGCTCACGCTGACTATTTTGGAAGG
66 ACAGCTAGGAGCTTGAGCTCACATTGACTATTTT-GAAGG
32520643 ATATGTTGTA
Statistics
Matches: 265, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
208 1 0.00
209 16 0.06
210 238 0.90
211 9 0.03
212 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (210 bp):
TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGCATT
ACAGCTAGGAGCTTGAGCTCACATTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATTT
GGATTACAATTAGGAGCTTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGAG
CCTTTAGATTACAAC
Found at i:32522453 original size:19 final size:20
Alignment explanation
Indices: 32522408--32522454 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32522398 ACATATTACC
*
32522408 ACTATTCATGACTTGACTCT
1 ACTATTCACGACTTGACTCT
*
32522428 ACTATTCACGATTTGA-TCT
1 ACTATTCACGACTTGACTCT
*
32522447 CCTATTCA
1 ACTATTCA
32522455 TAAGACTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (20 bp):
ACTATTCACGACTTGACTCT
Found at i:32535704 original size:56 final size:55
Alignment explanation
Indices: 32535622--32535726 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 55
32535612 AGCAAAATTG
* * * * *
32535622 AAAAGAAAAAAAAATTAAATTACACAATGTGTAAATGTTGAGGATTAAATTTTTA
1 AAAAAAAAAAAAAACTAAATGACACAATCTATAAATGTTGAGGATTAAATTTTTA
*
32535677 AAAAAAAAAAAAAACTAAATAGACACAATCTATAAATGTTGAGGGTTAAA
1 AAAAAAAAAAAAAACTAAAT-GACACAATCTATAAATGTTGAGGATTAAA
32535727 ATTACCATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 18 0.42
56 25 0.58
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (55 bp):
AAAAAAAAAAAAAACTAAATGACACAATCTATAAATGTTGAGGATTAAATTTTTA
Found at i:32544361 original size:188 final size:189
Alignment explanation
Indices: 32544013--32544413 Score: 662
Period size: 188 Copynumber: 2.1 Consensus size: 189
32544003 GCAGCAACCT
* *
32544013 TCACAATTCTATCTCAATGCCTAATCATATAATGCAAGTTCAAGAATCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
* *
32544078 GGTTCATGCAATCTCCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
66 AGTTCATGCAATCACCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
32544143 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
131 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* * *
32544202 TCACAATTATACCTCAATGCCTAATCAGATGATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
**
32544267 AGTTCATGCAATCACCC-TTATGAG-TGGTATTTTGATATGTCTCAAGTTAGATTCTCAACATTG
66 AGTTCATGCAATCACCCTTTA-GAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTG
* * * *
32544330 CAATCGTTCCCCTATCCCCATACTAAGGCCTCCTTTACACGAAATATTGCAAGTTCAACA
130 CAATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
32544390 TCACAATTCTATCTCAATGCCTAA
1 TCACAATTCTATCTCAATGCCTAA
32544414 CCAAATAACG
Statistics
Matches: 196, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
188 118 0.60
189 78 0.40
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (189 bp):
TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
AGTTCATGCAATCACCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
Found at i:32545292 original size:6 final size:7
Alignment explanation
Indices: 32545267--32545291 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32545257 TGAAAAAAAA
32545267 AAAAAGG
1 AAAAAGG
32545274 AAAAAGG
1 AAAAAGG
32545281 AAAAAGG
1 AAAAAGG
32545288 AAAA
1 AAAA
32545292 GAAGAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:32546210 original size:25 final size:26
Alignment explanation
Indices: 32546151--32546210 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
32546141 GGCCCGAATA
32546151 TAATA-AAAATATATTTTTTATTTTT
1 TAATATAAAATATATTTTTTATTTTT
*
32546176 TAATTTTAAAATAT-TTTTTTATTTTTT
1 TAA-TATAAAATATATTTTTTA-TTTTT
32546203 TAA-ATAAA
1 TAATATAAA
32546211 TTTTTGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 7 0.23
26 8 0.27
27 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TAATATAAAATATATTTTTTATTTTT
Found at i:32546503 original size:2 final size:2
Alignment explanation
Indices: 32546496--32546551 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
32546486 TTAAAGTTAA
32546496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32546538 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
32546552 TAAGTTATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32547818 original size:17 final size:17
Alignment explanation
Indices: 32547796--32547828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32547786 GTAATACGGA
32547796 TAGGCCAAACTCCAATT
1 TAGGCCAAACTCCAATT
*
32547813 TAGGCCGAACTCCAAT
1 TAGGCCAAACTCCAAT
32547829 ATGGTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (17 bp):
TAGGCCAAACTCCAATT
Found at i:32555537 original size:13 final size:13
Alignment explanation
Indices: 32555521--32555586 Score: 82
Period size: 13 Copynumber: 5.1 Consensus size: 13
32555511 TTTAAACCAA
32555521 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
32555534 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
32555547 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
32555560 ACTTTTCTACAA-C
1 ACTTTTC-AAAAGC
32555573 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
32555586 A
1 A
32555587 TTGCCAAAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.16
13 31 0.69
14 7 0.16
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:32555550 original size:26 final size:26
Alignment explanation
Indices: 32555521--32555586 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
32555511 TTTAAACCAA
32555521 ACTTTTCAAAAGCACTTTTCCACAAC
1 ACTTTTCAAAAGCACTTTTCCACAAC
*
32555547 ACTTTTCAAAAGCACTTTTCTACAAC
1 ACTTTTCAAAAGCACTTTTCCACAAC
32555573 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
32555587 TTGCCAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTTTCCACAAC
Found at i:32560636 original size:51 final size:52
Alignment explanation
Indices: 32560523--32560636 Score: 121
Period size: 51 Copynumber: 2.2 Consensus size: 52
32560513 TTTAAATTTC
*
32560523 AAAA-TATTAAAAAAATATTTTTTATAACTTTTATACTTTTTAAATAATTTTA
1 AAAATTATTAAAAAAATATATTTTATAACTTTTATACTTTTTAAAT-ATTTTA
** * *
32560575 ATGATT-TTAAAAAAATA-ATTTTAT-ACTTTTTTTATTTTTTAAAT-TTTTA
1 AAAATTATTAAAAAAATATATTTTATAAC-TTTTATACTTTTTAAATATTTTA
32560624 AAAATTAATTAAA
1 AAAATT-ATTAAA
32560637 TGTTGACGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
49 9 0.18
50 2 0.04
51 26 0.51
52 13 0.25
53 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.52
Consensus pattern (52 bp):
AAAATTATTAAAAAAATATATTTTATAACTTTTATACTTTTTAAATATTTTA
Found at i:32561026 original size:16 final size:16
Alignment explanation
Indices: 32561007--32561045 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32560997 TTTTAATAAA
32561007 ATTAAAACCAATTGTT
1 ATTAAAACCAATTGTT
**
32561023 ATTAAAATTAATTGTT
1 ATTAAAACCAATTGTT
*
32561039 AGTAAAA
1 ATTAAAA
32561046 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTAAAACCAATTGTT
Found at i:32561028 original size:22 final size:22
Alignment explanation
Indices: 32560979--32561033 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
32560969 CCCGTTTTTA
** * *
32560979 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACCAATTGTT
*
32561001 AATAAAATTAAAACCAATTGTT
1 ATTAAAATTAAAACCAATTGTT
32561023 ATTAAAATTAA
1 ATTAAAATTAA
32561034 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAAATTAAAACCAATTGTT
Found at i:32561046 original size:16 final size:16
Alignment explanation
Indices: 32561016--32561048 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32561006 AATTAAAACC
*
32561016 AATTGTTATTAAAATT
1 AATTGTTAGTAAAATT
32561032 AATTGTTAGTAAAATT
1 AATTGTTAGTAAAATT
32561048 A
1 A
32561049 TCAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AATTGTTAGTAAAATT
Found at i:32561127 original size:59 final size:59
Alignment explanation
Indices: 32561059--32561228 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
32561049 TCAAATTATT
*
32561059 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
32561118 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
32561177 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
32561229 ACAAACTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:32561335 original size:22 final size:24
Alignment explanation
Indices: 32561295--32561338 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
32561285 AAATAAACTT
32561295 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
32561319 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
32561339 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:32563207 original size:19 final size:19
Alignment explanation
Indices: 32563164--32563221 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
32563154 CACCAATTTT
*
32563164 GTTAATTATGATTAAAGTT-A
1 GTTAATTATAATT-AA-TTAA
32563184 GTTAATTATAATTAATTAA
1 GTTAATTATAATTAATTAA
32563203 GTTAATTA-AGATTAATTAA
1 GTTAATTATA-ATTAATTAA
32563222 TTATTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 3 0.09
19 20 0.57
20 12 0.34
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (19 bp):
GTTAATTATAATTAATTAA
Found at i:32580546 original size:17 final size:17
Alignment explanation
Indices: 32580426--32580542 Score: 90
Period size: 17 Copynumber: 6.8 Consensus size: 17
32580416 GCACATCTCT
32580426 GAGCTCACCCAAAGATGC
1 GAGCTCA-CCAAAGATGC
* *
32580444 GAGCTCACTAAAAAATGC
1 GAGCTCAC-CAAAGATGC
* * * *
32580462 AAGCTCAACAAAGCTGT
1 GAGCTCACCAAAGATGC
* * *
32580479 GAGCTTACCAAAAATGT
1 GAGCTCACCAAAGATGC
** *
32580496 GAGCTCACCAAATCTAC
1 GAGCTCACCAAAGATGC
* *
32580513 GAGCTCATCAAAGTTGC
1 GAGCTCACCAAAGATGC
32580530 GAGCTCACCAAAG
1 GAGCTCACCAAAG
32580543 TTGCAAAGTC
Statistics
Matches: 75, Mismatches: 23, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
17 55 0.73
18 20 0.27
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (17 bp):
GAGCTCACCAAAGATGC
Found at i:32580554 original size:17 final size:17
Alignment explanation
Indices: 32580514--32580548 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32580504 CAAATCTACG
* *
32580514 AGCTCATCAAAGTTGCG
1 AGCTCACCAAAGTTGCA
32580531 AGCTCACCAAAGTTGCA
1 AGCTCACCAAAGTTGCA
32580548 A
1 A
32580549 AGTCACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (17 bp):
AGCTCACCAAAGTTGCA
Found at i:32581948 original size:39 final size:39
Alignment explanation
Indices: 32581892--32581968 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
32581882 GCTCACAACC
* * *
32581892 AGATGTGAAGACCAGTTCGTTGCCCCATGCGAACCCTCT
1 AGATGCGAAGACCAGTTCGCTACCCCATGCGAACCCTCT
*
32581931 AGATGCGAAGACTAGTTCGCTACCCCATGCGAACCCTC
1 AGATGCGAAGACCAGTTCGCTACCCCATGCGAACCCTC
32581969 CAACAAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (39 bp):
AGATGCGAAGACCAGTTCGCTACCCCATGCGAACCCTCT
Found at i:32586599 original size:13 final size:14
Alignment explanation
Indices: 32586581--32586617 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
32586571 TTCCCAAAGA
32586581 TATGGTTTAGGA-T
1 TATGGTTTAGGATT
*
32586594 TATGGTTTATGATT
1 TATGGTTTAGGATT
32586608 TATGGTTTAG
1 TATGGTTTAG
32586618 ACTTTAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TATGGTTTAGGATT
Found at i:32586612 original size:14 final size:13
Alignment explanation
Indices: 32586581--32586629 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
32586571 TTCCCAAAGA
32586581 TATGGTTTAGGA-T
1 TATGGTTTA-GATT
32586594 TATGGTTTATGATT
1 TATGGTTTA-GATT
32586608 TATGGTTTAGACTT
1 TATGGTTTAGA-TT
*
32586622 TAAGGTTT
1 TATGGTTT
32586630 GGCCAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (13 bp):
TATGGTTTAGATT
Found at i:32586829 original size:14 final size:14
Alignment explanation
Indices: 32586793--32586830 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
32586783 TAATTGATGG
32586793 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
*
32586807 GTTTGGGGTTTA-A
1 GTTTAGGGTTTATA
32586820 GATTTAGGGTT
1 G-TTTAGGGTT
32586831 AAGGCTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:32587229 original size:21 final size:20
Alignment explanation
Indices: 32587189--32587226 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32587179 AATATATTGA
*
32587189 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
32587209 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
32587227 ATGCATTACT
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:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:32593334 original size:21 final size:21
Alignment explanation
Indices: 32593310--32593349 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32593300 ACTTAAAGCT
32593310 GAGGCAGAAGCGAGGGAAGTG
1 GAGGCAGAAGCGAGGGAAGTG
* *
32593331 GAGGCTGCAGCGAGGGAAG
1 GAGGCAGAAGCGAGGGAAG
32593350 CAGAGCAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.53, T:0.05
Consensus pattern (21 bp):
GAGGCAGAAGCGAGGGAAGTG
Found at i:32593358 original size:5 final size:5
Alignment explanation
Indices: 32593348--32593373 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32593338 CAGCGAGGGA
32593348 AGCAG AGCAG AGCAG AGCAG AGCAG A
1 AGCAG AGCAG AGCAG AGCAG AGCAG A
32593374 AAGTAGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.38, T:0.00
Consensus pattern (5 bp):
AGCAG
Found at i:32593830 original size:86 final size:86
Alignment explanation
Indices: 32593681--32593894 Score: 277
Period size: 86 Copynumber: 2.5 Consensus size: 86
32593671 GTGGCATTTT
* * * * * *
32593681 TGGAAAAAGCACCTCTAAAGAACATGACATTTAGCGGCGTTTTTGAGATAAGCGCCGCCAAAGAA
1 TGGAATAAGCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGAGATAAGCGCCGCCAAAGAA
32593746 CATGACCTTTAGCGGCGTTTG
66 CATGACCTTTAGCGGCGTTTG
* * * * *
32593767 TGGAATAAGCGCCGCTAAAGAGCATGACCTTTAGTGGCGTTTGTGGGATAAGTGCTGCTAAAGAA
1 TGGAATAAGCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGAGATAAGCGCCGCCAAAGAA
*
32593832 CATGAGCTTTAGCGGCGTTTG
66 CATGACCTTTAGCGGCGTTTG
* * *
32593853 TGGAATAAGCGCCGCTAAAG-GTTATGACCTTTAACGGTGTTT
1 TGGAATAAGCGCCGCTAAAGAG-CATGACCTTTAGCGGCGTTT
32593895 ATTTTTATAA
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 110 0.99
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (86 bp):
TGGAATAAGCGCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGAGATAAGCGCCGCCAAAGAA
CATGACCTTTAGCGGCGTTTG
Found at i:32593885 original size:43 final size:43
Alignment explanation
Indices: 32593681--32593872 Score: 260
Period size: 43 Copynumber: 4.5 Consensus size: 43
32593671 GTGGCATTTT
* * * *
32593681 TGGAAAAAGCACCTCTAAAGAACATGACATTTAGCGGCGTTT-
1 TGGAATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTG
* *
32593723 TTGAGATAAGCGCCGCCAAAGAACATGACCTTTAGCGGCGTTTG
1 TGGA-ATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTG
* *
32593767 TGGAATAAGCGCCGCTAAAGAGCATGACCTTTAGTGGCGTTTG
1 TGGAATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTG
* * * *
32593810 TGGGATAAGTGCTGCTAAAGAACATGAGCTTTAGCGGCGTTTG
1 TGGAATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTG
32593853 TGGAATAAGCGCCGCTAAAG
1 TGGAATAAGCGCCGCTAAAG
32593873 GTTATGACCT
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 3 0.02
43 123 0.95
44 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
TGGAATAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTG
Found at i:32597213 original size:17 final size:17
Alignment explanation
Indices: 32597179--32597221 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
32597169 ATGTGCGAGG
* *
32597179 TCACCAAAGATGCTAGC
1 TCACCAAATATGCAAGC
*
32597196 TCACCAAATCTGCAAGC
1 TCACCAAATATGCAAGC
*
32597213 TCATCAAAT
1 TCACCAAAT
32597222 GTTTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (17 bp):
TCACCAAATATGCAAGC
Found at i:32599181 original size:57 final size:61
Alignment explanation
Indices: 32599106--32599252 Score: 180
Period size: 57 Copynumber: 2.5 Consensus size: 61
32599096 ACCCTAATTC
* * * *
32599106 GGATTACCCGTCCAGGCTAAATCCATTTTC-CACATATTCTTCAGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCATTTTCACACATATTCTTCAGGAGGGATATATCGATA
* *
32599164 -GATCACCCGTCCGGGCTAGATCTA-TTTCACACATATTCTTCGGGAGGGATATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCATTTTCACACATATTCTTCAGGAGGGATATATC--GATA
32599225 GGATCACCCGTCCGGGCTAGAT-CATTTT
1 GGATCACCCGTCCGGGCTAGATCCATTTT
32599253 TACCGTCAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
56 4 0.05
57 44 0.59
60 1 0.01
61 2 0.03
62 24 0.32
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (61 bp):
GGATCACCCGTCCGGGCTAGATCCATTTTCACACATATTCTTCAGGAGGGATATATCGATA
Found at i:32604930 original size:21 final size:22
Alignment explanation
Indices: 32604900--32604941 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
32604890 CACTTCACAA
*
32604900 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
32604922 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
32604942 AAATTCTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:32606112 original size:24 final size:24
Alignment explanation
Indices: 32606085--32606130 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
32606075 ATTAACATCA
32606085 CTTAATCTTTTAAGCTAAATATCT
1 CTTAATCTTTTAAGCTAAATATCT
32606109 CTTAATCTTTTAAGCTAAATAT
1 CTTAATCTTTTAAGCTAAATAT
32606131 GCTATCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (24 bp):
CTTAATCTTTTAAGCTAAATATCT
Found at i:32609197 original size:2 final size:2
Alignment explanation
Indices: 32609190--32609219 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32609180 TATTGTTTTG
32609190 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
32609220 TTAAAAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32612240 original size:88 final size:89
Alignment explanation
Indices: 32612088--32612253 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 89
32612078 TTCTTTAAAT
* * * *
32612088 ATCAAAAAGACCCTTAAATTTTTTCAAAAAAAGAAATTAAGCCCTTGCATTTTTTTACATTCAAT
1 ATCAAAAAGACCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTGCATTTTTTTACACTCAAT
32612153 TGAGTACTTGAACTTTTAAAAAGC
66 TGAGTACTTGAACTTTTAAAAAGC
* * * * *
32612177 ATCAAAAAGGCCCTCAAACTTTTTC-ACAAAAGCAATTAATCCCCTG-ATTTTTTTTCCACTCAA
1 ATCAAAAAGACCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTGCA-TTTTTTTACACTCAA
*
32612240 TTGGGTACTTGAAC
65 TTGAGTACTTGAAC
32612254 CACCCATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
87 1 0.02
88 43 0.65
89 22 0.33
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (89 bp):
ATCAAAAAGACCCTCAAACTTTTTCAAAAAAAGAAATTAAGCCCCTGCATTTTTTTACACTCAAT
TGAGTACTTGAACTTTTAAAAAGC
Found at i:32612550 original size:20 final size:20
Alignment explanation
Indices: 32612494--32612553 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
32612484 TTTTATAAAG
*
32612494 TCGTAAGAAAATTATAAAAAA
1 TCGTAAAAAAATTAT-AAAAA
** *
32612515 T-GTAATGAAA-TATAAAAT
1 TCGTAAAAAAATTATAAAAA
32612533 TCGTAAAAAAATTATAAAAA
1 TCGTAAAAAAATTATAAAAA
32612553 T
1 T
32612554 TTATTGTACT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.16
19 10 0.32
20 15 0.48
21 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (20 bp):
TCGTAAAAAAATTATAAAAA
Found at i:32612760 original size:10 final size:10
Alignment explanation
Indices: 32612741--32612792 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
32612731 TTTGATGCAA
32612741 TTTATAATTT
1 TTTATAATTT
*
32612751 TTTATGA-TT
1 TTTATAATTT
**
32612760 TTTATAAAAT
1 TTTATAATTT
* *
32612770 TTTAAAATAT
1 TTTATAATTT
32612780 TTTATAATTT
1 TTTATAATTT
32612790 TTT
1 TTT
32612793 TTACGATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATAATTT
Found at i:32612763 original size:19 final size:20
Alignment explanation
Indices: 32612741--32612792 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
32612731 TTTGATGCAA
**
32612741 TTTATAATTTTTTATGAT-T
1 TTTATAATTTTTTAAAATAT
**
32612760 TTTATAAAATTTTAAAATAT
1 TTTATAATTTTTTAAAATAT
32612780 TTTATAATTTTTT
1 TTTATAATTTTTT
32612793 TTACGATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTATAATTTTTTAAAATAT
Found at i:32612807 original size:28 final size:29
Alignment explanation
Indices: 32612775--32612881 Score: 92
Period size: 29 Copynumber: 3.7 Consensus size: 29
32612765 AAAATTTTAA
32612775 AATATTTTATAATTTTTTTTACGATT-TT
1 AATATTTTATAATTTTTTTTACGATTATT
***
32612803 AATATTTTA-AATATTTTTTTATTTTTATT
1 AATATTTTATAAT-TTTTTTTACGATTATT
* * * **
32612832 AAAATTTAATAATTTTTTTAACTTTTATT
1 AATATTTTATAATTTTTTTTACGATTATT
* *
32612861 ATTTTTTTATATATTTTTTTT
1 AATATTTTATA-ATTTTTTTT
32612882 GTCACATGTT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.05
28 19 0.30
29 30 0.48
30 11 0.17
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (29 bp):
AATATTTTATAATTTTTTTTACGATTATT
Found at i:32612833 original size:29 final size:29
Alignment explanation
Indices: 32612775--32612880 Score: 94
Period size: 28 Copynumber: 3.7 Consensus size: 29
32612765 AAAATTTTAA
**
32612775 AATATTTTATAAT-TTTTTTTACGATT-TT
1 AATATTTTA-AATATTTTTTTACTTTTATT
*
32612803 AATATTTTAAATATTTTTTTATTTTTATT
1 AATATTTTAAATATTTTTTTACTTTTATT
*
32612832 AA-AATTT-AATAATTTTTTTAACTTTTATT
1 AATATTTTAAAT-ATTTTTTT-ACTTTTATT
* * *
32612861 ATTTTTTTATATATTTTTTT
1 AATATTTTAAATATTTTTTT
32612881 TGTCACATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 6 0.10
28 31 0.49
29 13 0.21
30 11 0.17
31 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (29 bp):
AATATTTTAAATATTTTTTTACTTTTATT
Found at i:32612847 original size:37 final size:39
Alignment explanation
Indices: 32612767--32612847 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 39
32612757 ATTTTTATAA
* * *
32612767 AATTTTAAAATATTTTATAATTTTTTTTACGATTTTAAT
1 AATTTTAAAATATTTTATAATTTTTATTACAAATTTAAT
* *
32612806 -ATTTT-AAATATTTTTTTATTTTTATTA-AAATTTAAT
1 AATTTTAAAATATTTTATAATTTTTATTACAAATTTAAT
32612842 AATTTT
1 AATTTT
32612848 TTTAACTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 7 0.19
37 24 0.67
38 5 0.14
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (39 bp):
AATTTTAAAATATTTTATAATTTTTATTACAAATTTAAT
Found at i:32613181 original size:87 final size:85
Alignment explanation
Indices: 32613048--32613227 Score: 218
Period size: 87 Copynumber: 2.1 Consensus size: 85
32613038 AGGAGCTTAA
* ** * * * *
32613048 TTTTTTTTTTAAATTTATGGCCTTTTTAATTTATTTTAAAAGTTCAAGTACTCAATTGAGTGCAA
1 TTTTTTTTTTAAATTTAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTACAA
*
32613113 AAAAAAAAGG-CTTAATTGC
66 AAAAAAAAGGACTTAATTAC
* *
32613132 TTCTTTTTTTTAAAGTTTGAGGGGCTTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGTA
1 TT-TTTTTTTTAAA-TTT-AGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTA
*
32613197 TAAAAAAAAAAGGAACTTAATTAC
63 CAAAAAAAAAAGG-ACTTAATTAC
32613221 TTTTTTT
1 TTTTTTT
32613228 GAAAAGTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
84 2 0.03
85 11 0.14
86 3 0.04
87 49 0.61
88 5 0.06
89 10 0.12
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (85 bp):
TTTTTTTTTTAAATTTAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTACAA
AAAAAAAAGGACTTAATTAC
Found at i:32615234 original size:25 final size:25
Alignment explanation
Indices: 32615205--32615264 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
32615195 ACTACCCTTA
32615205 GTAAAATTTTGATGATTTTACCCCG
1 GTAAAATTTTGATGATTTTACCCCG
* * *
32615230 GTAAATTTTTTGATGATTTTGCCCTG
1 GTAAA-ATTTTGATGATTTTACCCCG
32615256 GTAAAATTT
1 GTAAAATTT
32615265 CGAGAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (25 bp):
GTAAAATTTTGATGATTTTACCCCG
Found at i:32617718 original size:26 final size:26
Alignment explanation
Indices: 32617661--32617720 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
32617651 ATATAACAAG
* *
32617661 TTTAGATATCAAATCGGATAAAAAAA
1 TTTAAATATCAAATAGGATAAAAAAA
32617687 TCTTAAATATCAAATTAGGA-AAAAAAA
1 T-TTAAATATCAAA-TAGGATAAAAAAA
32617714 TTTAAAT
1 TTTAAAT
32617721 TTAAGTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.23
27 19 0.63
28 4 0.13
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.30
Consensus pattern (26 bp):
TTTAAATATCAAATAGGATAAAAAAA
Found at i:32622688 original size:18 final size:17
Alignment explanation
Indices: 32622654--32622692 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
32622644 GTAAATTTTC
*
32622654 TTTTTTTTTCTTCTGAT
1 TTTTTTTTTCTTATGAT
*
32622671 TTTTTTATTTGTTATGAT
1 TTTTTT-TTTCTTATGAT
32622689 TTTT
1 TTTT
32622693 CTTAATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTCTTATGAT
Found at i:32624146 original size:24 final size:24
Alignment explanation
Indices: 32624112--32624157 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
32624102 TATATGAAAT
* *
32624112 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
32624136 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
32624158 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:32624347 original size:11 final size:11
Alignment explanation
Indices: 32624326--32624357 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
32624316 AATTAAACAC
32624326 TAAAAATATTTT
1 TAAAAA-ATTTT
32624338 TAAAAAATTTT
1 TAAAAAATTTT
32624349 TAAAAAATT
1 TAAAAAATT
32624358 CAGCTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAAAAATTTT
Found at i:32628389 original size:3 final size:3
Alignment explanation
Indices: 32628381--32628446 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
32628371 CTATACTAAA
32628381 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32628429 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
32628447 AATGTAATAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32632144 original size:26 final size:27
Alignment explanation
Indices: 32632108--32632169 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
32632098 GGCCCGGCCC
* * * *
32632108 ATTTTTAAAAT-AAACATTAAAAAATT
1 ATTTTAAAAATAAAAAAATAAAAAAAT
32632134 ATTTTAAAAATAAAAAAATAAAAAAAT
1 ATTTTAAAAATAAAAAAATAAAAAAAT
32632161 ATTTTAAAA
1 ATTTTAAAA
32632170 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAAATAAAAAAAT
Found at i:32632200 original size:14 final size:14
Alignment explanation
Indices: 32632177--32632210 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32632167 AAAGTATTTT
* *
32632177 AAAATTAAAATTAA
1 AAAATAAAAATAAA
32632191 AAAATAAAAATAAA
1 AAAATAAAAATAAA
32632205 AAAATA
1 AAAATA
32632211 TATTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:32632565 original size:30 final size:30
Alignment explanation
Indices: 32632516--32632580 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
32632506 TCGTCAAGAA
* * *
32632516 ATTTAAAATTTTATTTGTTT-TCGTTTGTTT
1 ATTTAAAATTATATGTGTTTAT-ATTTGTTT
*
32632546 ATTTAAAATTATGTGTGTTTATATTTGTTT
1 ATTTAAAATTATATGTGTTTATATTTGTTT
32632576 ATTTA
1 ATTTA
32632581 CGATACACGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.63
Consensus pattern (30 bp):
ATTTAAAATTATATGTGTTTATATTTGTTT
Found at i:32632820 original size:23 final size:23
Alignment explanation
Indices: 32632787--32632836 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
32632777 ACTTATCAAA
*
32632787 TTCTCTGTCTTTTGACAC-ACTTT
1 TTCTCTATCTTTTGACACGA-TTT
32632810 TTCTCTATCTTTTGACACGATTT
1 TTCTCTATCTTTTGACACGATTT
32632833 TTCT
1 TTCT
32632837 TCTAGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.14, C:0.24, G:0.08, T:0.54
Consensus pattern (23 bp):
TTCTCTATCTTTTGACACGATTT
Found at i:32633930 original size:15 final size:15
Alignment explanation
Indices: 32633910--32633943 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
32633900 AGGAAGTGAG
32633910 TAGTCCAATAACGCA
1 TAGTCCAATAACGCA
32633925 TAGTCCAATAACGCA
1 TAGTCCAATAACGCA
32633940 TAGT
1 TAGT
32633944 GATGGACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (15 bp):
TAGTCCAATAACGCA
Found at i:32638289 original size:15 final size:16
Alignment explanation
Indices: 32638269--32638310 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
32638259 GGCCTGTTGC
32638269 TTTTTTGGTTTT-CTA
1 TTTTTTGGTTTTCCTA
*
32638284 TTTTTT-GTTTTCCTG
1 TTTTTTGGTTTTCCTA
*
32638299 TTATTTGGTTTT
1 TTTTTTGGTTTT
32638311 TCCTTTCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.05, C:0.07, G:0.14, T:0.74
Consensus pattern (16 bp):
TTTTTTGGTTTTCCTA
Found at i:32638870 original size:14 final size:14
Alignment explanation
Indices: 32638853--32638880 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32638843 CTCACATTTC
32638853 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
32638867 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
32638881 GATTTCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:32638871 original size:19 final size:18
Alignment explanation
Indices: 32638833--32638877 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
32638823 TACGGTACGC
32638833 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
32638850 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
32638869 TTCTTTTCT
1 TTCTTTTCT
32638878 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:32640698 original size:29 final size:29
Alignment explanation
Indices: 32640637--32640699 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
32640627 ATCTATGTTT
**
32640637 AGATAATTATACATAGAATGTATAAGTTT
1 AGATAATTATACATAGAATGTATAAGTAA
* *
32640666 AGATTATTATACATAGAATGTCCTAA-TAA
1 AGATAATTATACATAGAATGT-ATAAGTAA
32640695 AGATA
1 AGATA
32640700 TCAAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (29 bp):
AGATAATTATACATAGAATGTATAAGTAA
Found at i:32642073 original size:16 final size:16
Alignment explanation
Indices: 32642041--32642086 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
32642031 AATAATTATT
*
32642041 TTAAATTA--TATAAG
1 TTAAATTATTTATATG
32642055 TTAAATTATTTATATG
1 TTAAATTATTTATATG
*
32642071 TTAATTTATCTTATAT
1 TTAAATTAT-TTATAT
32642087 ATCATTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 8 0.30
16 13 0.48
17 6 0.22
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (16 bp):
TTAAATTATTTATATG
Found at i:32642450 original size:15 final size:15
Alignment explanation
Indices: 32642415--32642456 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32642405 TTAAGAATTT
*
32642415 TATTAAATTAT-ATA
1 TATTTAATTATAATA
32642429 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
32642443 TATTTAATAATAAT
1 TATTTAATTATAAT
32642457 TATGTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:32642704 original size:16 final size:16
Alignment explanation
Indices: 32642679--32642732 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
32642669 TTGATTTGCT
32642679 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
32642695 ATTACTCCTCTATTAC
1 ATTACACCTCTATTCC
*
32642711 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
32642727 AATACA
1 ATTACA
32642733 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:32653843 original size:57 final size:56
Alignment explanation
Indices: 32653733--32653845 Score: 140
Period size: 56 Copynumber: 2.0 Consensus size: 56
32653723 TTTAGGTCAT
* *
32653733 TTTCATTGTGGAGGAAACCACATTCATTTCCAAATGATTCGATTTCTCCATTTTCA
1 TTTCATTGTGGAGAAAACCAAATTCATTTCCAAATGATTCGATTTCTCCATTTTCA
* * *
32653789 TTTCATTTTGGAGAAAACCATAATT-ATTTCCAAAT-ATTTTCTATTTCTCTATTTTCA
1 TTTCATTGTGGAGAAAACCA-AATTCATTTCCAAATGA--TTCGATTTCTCCATTTTCA
32653846 CCATTTCTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
55 1 0.02
56 28 0.57
57 20 0.41
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (56 bp):
TTTCATTGTGGAGAAAACCAAATTCATTTCCAAATGATTCGATTTCTCCATTTTCA
Found at i:32653862 original size:10 final size:10
Alignment explanation
Indices: 32653847--32653871 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32653837 CTATTTTCAC
32653847 CATTTCTGTT
1 CATTTCTGTT
32653857 CATTTCTGTT
1 CATTTCTGTT
32653867 CATTT
1 CATTT
32653872 GATTCAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.60
Consensus pattern (10 bp):
CATTTCTGTT
Found at i:32663860 original size:41 final size:41
Alignment explanation
Indices: 32663801--32664078 Score: 333
Period size: 41 Copynumber: 6.8 Consensus size: 41
32663791 TGAGCTTTCG
* * *
32663801 GGGCTTTAGCGGCATTTTTGGGGAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* *
32663842 GGGCTTTAGCAGCGTTTTTGGGGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * *
32663883 GGTCTTTAGCGGCGTTTTTTGGAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * ** * *
32663924 GGGATTTAGCGACGTTTCTATGAAAGGGCCGCTAATGCTCT
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
** *
32663965 GGGCTTTAGCGGCGTTTTTGGGAAAGTACCGCTAATGGTCA
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * *
32664006 -GGCTTTTAGCGGCATTTTTGGGAAAGCGCTGCTAATGCTCG
1 GGGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
**
32664047 GGGCTTTAGCGGCGTTTTTGATAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGC
32664079 AGCGTTTTTG
Statistics
Matches: 199, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 3 0.02
41 193 0.97
42 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
Found at i:32664748 original size:15 final size:15
Alignment explanation
Indices: 32664728--32664756 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32664718 AAATTTTAAG
32664728 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
32664743 GTTTAGGGATTATG
1 GTTTAGGGATTATG
32664757 GATTATGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:32664820 original size:8 final size:7
Alignment explanation
Indices: 32664789--32664825 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
32664779 TTTAAGATTC
32664789 AGGGGTT
1 AGGGGTT
32664796 AGGGGTT
1 AGGGGTT
*
32664803 AAGGGTT
1 AGGGGTT
32664810 AGGGGTCT
1 AGGGGT-T
32664818 AGGGGTT
1 AGGGGTT
32664825 A
1 A
32664826 AGGTTTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.19, C:0.03, G:0.51, T:0.27
Consensus pattern (7 bp):
AGGGGTT
Found at i:32669021 original size:43 final size:43
Alignment explanation
Indices: 32668960--32669245 Score: 362
Period size: 43 Copynumber: 6.6 Consensus size: 43
32668950 AATATATTTT
* *
32668960 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * *
32669003 TAAAGGTCTTATTCTTTAGCGGCGTTTGTCGA-AAAAGTGCTGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGC
* ** *
32669046 TAAAGGTCTTGTTTTTTTAGCGGCGTTTGTTGA-AAAATTGCTGC
1 TAAAGGTCTTG-TTCTTTAGCGGCGTTTG-TGAGAAAAGCGCCGC
*
32669090 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGC
* *
32669134 TAAAGGTCTTGTTCTCTAGCGGCGTTTGTG-GGAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * * *
32669176 TAAAGGTCTTGTTCTATAACGGCTTTTTTGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
32669219 TAAAGGTCTTGTTCTTTAGCGGCGTTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTT
32669246 ATTTCTAAAA
Statistics
Matches: 214, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
42 37 0.17
43 99 0.46
44 77 0.36
45 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:32669105 original size:87 final size:83
Alignment explanation
Indices: 32668960--32669245 Score: 347
Period size: 87 Copynumber: 3.3 Consensus size: 83
32668950 AATATATTTT
* *
32668960 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCTTATTCTTTAGCGG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGA-AAAAGC-T-GCTAAAGGTCTTGTTCTTTAGCGG
* * *
32669025 CGTTTGTCGAAAAAGTGCTGC
63 CGTTTGTGGAAAAAGCGCCGC
*
32669046 TAAAGGTCTTGTTTTTTTAGCGGCGTTTGTTGAAAAATTGCTGCTAAAGGTCTTGTTCTTTAGCG
1 TAAAGGTCTTG-TTCTTTAGCGGCGTTTG-TGAAAAA--GCTGCTAAAGGTCTTGTTCTTTAGCG
32669111 GCGTTTGTGGAAAAAAGCGCCGC
62 GCGTTTGTGG-AAAAAGCGCCGC
* ** * * *
32669134 TAAAGGTCTTGTTCTCTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCTTGTTCTATAACGGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT--GAAAAAGCTGCTAAAGGTCTTGTTCTTTAGCGGC
* * *
32669199 TTTTTTGGGAAAAGCGCCGC
64 GTTTGTGGAAAAAGCGCCGC
32669219 TAAAGGTCTTGTTCTTTAGCGGCGTTT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTT
32669246 ATTTCTAAAA
Statistics
Matches: 176, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
85 37 0.21
86 42 0.24
87 66 0.38
88 29 0.16
89 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (83 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAGCTGCTAAAGGTCTTGTTCTTTAGCGGCGT
TTGTGGAAAAAGCGCCGC
Found at i:32670860 original size:50 final size:50
Alignment explanation
Indices: 32670736--32671026 Score: 341
Period size: 50 Copynumber: 5.8 Consensus size: 50
32670726 CTATATAACA
* * * ** * * * *
32670736 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-T
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * **
32670785 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * ** * *
32670835 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
32670885 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * *
32670935 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
*
32670985 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32671027 TTACCCAAAT
Statistics
Matches: 208, Mismatches: 33, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
49 37 0.18
50 171 0.82
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:32675580 original size:12 final size:12
Alignment explanation
Indices: 32675563--32675588 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32675553 CACACGACCG
32675563 TGTGCTAGGCCA
1 TGTGCTAGGCCA
32675575 TGTGCTAGGCCA
1 TGTGCTAGGCCA
32675587 TG
1 TG
32675589 CAATTCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:32686530 original size:14 final size:15
Alignment explanation
Indices: 32686511--32686542 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
32686501 ATATATGAAT
32686511 AAATAAAAAA-ATTA
1 AAATAAAAAAGATTA
32686525 AAATAAAAAAGATTA
1 AAATAAAAAAGATTA
32686540 AAA
1 AAA
32686543 CATCTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATAAAAAAGATTA
Found at i:32687861 original size:100 final size:100
Alignment explanation
Indices: 32687574--32688575 Score: 1284
Period size: 100 Copynumber: 10.1 Consensus size: 100
32687564 TCTGCTCCAC
* * * *
32687574 TGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCATCGTCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
32687639 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * *
32687674 TGCAATGTCGGGGAAAG-AAGATTCGCTGTTGTA-ATTCAATCTATTCCACTACACCGCCTGGGA
1 TGCAATGTCGGGG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
* *
32687737 AGTAAGATTCGTCGTTGTGCCTTCAATCTTTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * *
32687773 TGCAATGTTGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCAACTGCACCGCCTGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* *
32687838 GTAACATTCGCCGTTGTGGCTTCAATCCTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
32687873 TGCAATGTCTGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* *
32687938 GTAAGATTCACTGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* ***
32687973 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCAATTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
*
32688038 GTAAGATTTGCCGTTGTGG-TCTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCT-TCAATCTTTTTAAT
* * * **
32688073 TGCAATGTCGGGGGAGCAAGATTCGTCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCAAGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
* * * * *
32688138 ATAAAATTCACTGTTGTGGCCTCAATC-TTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* *** * * *
32688172 TGTAATGTCAAAGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGTACC-CTTAGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGGA
* *
32688236 AGTAAGATTCACCGTTGTGGCTTCAATTTTTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * * **
32688272 TGTAAT-ACTGGGGAAGCAAGATTCGCTGTCGTAGCTTCAATCTATTCTGCTGCACCGCCTGGGG
1 TGCAATGTC-GGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-GGG
* *
32688336 AAGTAAGATTCGACGTTGTGGCCTCAATC-TTTTAAT
64 AAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
** * * *
32688372 TG-ATATGTCGGGGAAGCGGGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTGGAA
1 TGCA-ATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGA
* *
32688436 AGTAAGATTCGCTGTTGTGGCCTCAATC-TTTTAAT
65 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
* * * * *
32688471 TGCAATGTCGGGGAAGCAAGAGTCGCCGTTGTAGCTTCAATCTTTTCCACTGCAGCGCCAGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
32688536 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
32688571 TGCAA
1 TGCAA
32688576 CTATGGTGTC
Statistics
Matches: 781, Mismatches: 108, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
98 4 0.01
99 283 0.36
100 460 0.59
101 34 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAA
GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:32688170 original size:299 final size:296
Alignment explanation
Indices: 32687574--32688575 Score: 1316
Period size: 299 Copynumber: 3.4 Consensus size: 296
32687564 TCTGCTCCAC
* * *
32687574 TGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTGCATCGTCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CGCCTGGGAA
*
32687639 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAAG-AAGATTCGCTGT
65 GTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGG-AAGCAAGATTCGCTGT
* * * * *
32687703 TGTA-ATTCAATCTATTCCACTACACCGCCTGGGAAGTAAGATTCGTCGTTGT-GCCTTCAATCT
129 TGTAGCTTCAATCTATTCCACTGCACCACTTGGGAAGTAAGATTCGACGTTGTGGCC-TCAATCT
* * * *
32687766 TTTTAATTGCAATGTTGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCAACTGCACCGC
193 TTTTAATTGCAATGTCGGGGAAGCAAGATTC-GCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * *
32687831 CTGAGAAGTAACATTCGCCGTTGTGGCTTCAATCCTTTTAAT
257 CTG-GAAATAAAATTCGCTGTTGTGGCCTCAAT-CTTTTAAT
* *
32687873 TGCAATGTCTGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC-GCCTGGGAA
* *
32687938 GTAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTT
65 GTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTT
* * * * * *
32688003 GTAGCTTCAATCTGTTCCACTGCATCAATTGGGAAGTAAGATTTGCCGTTGTGGTCTCAATCTTT
130 GTAGCTTCAATCTATTCCACTGCACCACTTGGGAAGTAAGATTCGACGTTGTGGCCTCAATCTTT
* *
32688068 TTAATTGCAATGTCGGGGGAGCAAGATTCGTCGTTGTAGCTTCAATTTGTTCCACTGCACCGCCA
195 TTAATTGCAATGTCGGGGAAGCAAGATTCG-CGTTGTAGCTTCAATCTGTTCCACTGCACCGCC-
* *
32688133 AGGAAATAAAATTCACTGTTGTGGCCTCAATCTTTTAAT
258 TGGAAATAAAATTCGCTGTTGTGGCCTCAATCTTTTAAT
* *** * *
32688172 TGTAATGTCAAAGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGTAC-CCTTAGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACGCC-T-GGGA
* * *
32688236 AGTAAGATTCACCGTTGTGGCTTCAATTTTTTTAATTGTAAT-ACTGGGGAAGCAAGATTCGCTG
64 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-GGGGAAGCAAGATTCGCTG
* ** * *
32688300 TCGTAGCTTCAATCTATTCTGCTGCACCGCCTGGGGAAGTAAGATTCGACGTTGTGGCCTCAATC
128 TTGTAGCTTCAATCTATTCCACTGCACC-ACTTGGGAAGTAAGATTCGACGTTGTGGCCTCAATC
**
32688365 -TTTTAATTG-ATATGTCGGGGAAGCGGGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACC
192 TTTTTAATTGCA-ATGTCGGGGAAGCAAGATTCGC-GTTGTAGCTTCAATCTGTTCCACTGCACC
* *
32688428 ACCTGGAAAGTAAGATTCGCTGTTGTGGCCTCAATCTTTTAAT
255 GCCTGGAAA-TAAAATTCGCTGTTGTGGCCTCAATCTTTTAAT
* * * *
32688471 TGCAATGTCGGGGAAGCAAGAGTCGCCGTTGTAGCTTCAATCTTTTCCACTGCAGCGCCAGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CGCCTGGGAA
*
32688536 GTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAA
65 GTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAA
32688576 CTATGGTGTC
Statistics
Matches: 614, Mismatches: 74, Indels: 30
0.86 0.10 0.04
Matches are distributed among these distances:
297 2 0.00
298 13 0.02
299 434 0.71
300 160 0.26
301 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (296 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACGCCTGGGAAG
TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
TAGCTTCAATCTATTCCACTGCACCACTTGGGAAGTAAGATTCGACGTTGTGGCCTCAATCTTTT
TAATTGCAATGTCGGGGAAGCAAGATTCGCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGG
AAATAAAATTCGCTGTTGTGGCCTCAATCTTTTAAT
Found at i:32688564 original size:50 final size:50
Alignment explanation
Indices: 32687558--32688576 Score: 604
Period size: 50 Copynumber: 20.4 Consensus size: 50
32687548 GGATTGGCTT
** * * * *
32687558 CTTCAATCTGCTCCACTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
32687608 CTTCAATCTATTCCACTGCATCGTCTGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * *
32687658 CTTCAATCTTTTTAATTGCAATGTCGGGGAAAG-AAGATTCGCTGTTGT-A
1 CTTCAATCTTTTCAACTGCAACGCCGGGG-AAGTAAGATTCGCCGTTGTGG
* * * * * * * *
32687707 ATTCAATCTATTCCACTACACCGCCTGGGAAGTAAGATTCGTCGTTGTGC
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * ** * * *
32687757 CTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAGATTCACCGTTGTAG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
32687807 CTTCAATCTATTCAACTGCACCGCCTGAGAAGTAACATTCGCCGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * *
32687857 CTTCAATCCTTTT-AATTGCAATGTCTGGGAAGCAAGATTCACCGTTGTAG
1 CTTCAAT-CTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
32687907 CTTCAATCTGTTCCACTGC-ACTGCCTGGGAAGTAAGATTCACTGTTGTGG
1 CTTCAATCTTTTCAACTGCAAC-GCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * *
32687957 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * **** *
32688007 CTTCAATCTGTTCCACTGCATCAATTGGGAAGTAAGATTTGCCGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * * *
32688057 -TCTCAATCTTTTTAATTGCAATGTCGGGGGAGCAAGATTCGTCGTTGTAG
1 CT-TCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * ** * * * *
32688107 CTTCAAT-TTGTTCCACTGCACCGCCAAGGAAATAAAATTCACTGTTGTGG
1 CTTCAATCTT-TTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * *** * * *
32688157 CCTCAATCTTTT-AATTGTAATGTCAAAGAAGCAAGATTCGCTGTTGTAG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
32688206 CTTCAATCTGTTCCACTG-TAC-CCTTAGGGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCC--GGGGAAGTAAGATTCGCCGTTGTGG
* * * * ** * * * * *
32688256 CTTCAATTTTTTTAATTGTAATACTGGGGAAGCAAGATTCGCTGTCGTAG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* ** * *
32688306 CTTCAATCTATTCTGCTGCACCGCCTGGGGAAGTAAGATTCGACGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCC-GGGGAAGTAAGATTCGCCGTTGTGG
* * * * *** * *
32688357 CCTCAATCTTTT-AATTG-ATATGTCGGGGAAGCGGGATTCGCTGTTGTAG
1 CTTCAATCTTTTCAACTGCA-ACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * *
32688406 CTTCAATCTGTTCCACTGCACCACCTGGAAAGTAAGATTCGCTGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * *
32688456 CCTCAATCTTTT-AATTGCAATGTCGGGGAAGCAAGAGTCGCCGTTGTAG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* * * *
32688505 CTTCAATCTTTTCCACTGCAGCGCCAGAGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
* *
32688555 CTTCAATCTTTTTAATTGCAAC
1 CTTCAATCTTTTCAACTGCAAC
32688577 TATGGTGTCT
Statistics
Matches: 705, Mismatches: 243, Indels: 42
0.71 0.25 0.04
Matches are distributed among these distances:
48 4 0.01
49 142 0.20
50 515 0.73
51 43 0.06
52 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (50 bp):
CTTCAATCTTTTCAACTGCAACGCCGGGGAAGTAAGATTCGCCGTTGTGG
Found at i:32688653 original size:45 final size:45
Alignment explanation
Indices: 32688602--32688754 Score: 150
Period size: 45 Copynumber: 3.4 Consensus size: 45
32688592 CTACTTCACC
32688602 GTCAGTACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCT
1 GTCAGTACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCT
* * * * *
32688647 GTCAGTACAGGAAGACAAG-GCTGGTGTCTT-TGATCTGCTTCGCT
1 GTCAGTACAGGAAGACAAGATCTGCTATCTTCAG-TCTGCTCCGCT
* * * * * * *
32688691 G-CTAGCAGAGGAAGGCATGATCTACTATCTTCAGTCTACTCCACT
1 GTC-AGTACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCT
*
32688736 GTCAGTACAGGAAGGCAAG
1 GTCAGTACAGGAAGACAAG
32688755 GCTGGTGTCT
Statistics
Matches: 83, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
43 2 0.02
44 31 0.37
45 48 0.58
46 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (45 bp):
GTCAGTACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCT
Found at i:32688738 original size:89 final size:89
Alignment explanation
Indices: 32688609--32688812 Score: 302
Period size: 89 Copynumber: 2.3 Consensus size: 89
32688599 ACCGTCAGTA
* * * *
32688609 CAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGACAAGGCTGGTGT
1 CAGGAAGGCATGATCTGCTATCTTCAGTCTACTCCACTGTCAGTACAGGAAGACAAGGCTGGTGT
* *
32688674 CTTTGATCTGCTTCGCTGCTAGCAG
66 CTTCGATCTGCTTCGCTACTAG-AG
* *
32688699 -AGGAAGGCATGATCTACTATCTTCAGTCTACTCCACTGTCAGTACAGGAAGGCAAGGCTGGTGT
1 CAGGAAGGCATGATCTGCTATCTTCAGTCTACTCCACTGTCAGTACAGGAAGACAAGGCTGGTGT
*
32688763 CTTCGATCTGCTTCGCTACTAGTG
66 CTTCGATCTGCTTCGCTACTAGAG
*
32688787 CAGGAAGGCATTATCTGCTATCTTCA
1 CAGGAAGGCATGATCTGCTATCTTCA
32688813 CTGATCTGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 1 0.01
89 101 0.99
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (89 bp):
CAGGAAGGCATGATCTGCTATCTTCAGTCTACTCCACTGTCAGTACAGGAAGACAAGGCTGGTGT
CTTCGATCTGCTTCGCTACTAGAG
Found at i:32690037 original size:16 final size:16
Alignment explanation
Indices: 32690016--32690048 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32690006 CCTCTCCTTT
32690016 TCTTTTT-TTCTTCTTC
1 TCTTTTTATT-TTCTTC
32690032 TCTTTTTATTTTCTTC
1 TCTTTTTATTTTCTTC
32690048 T
1 T
32690049 TTCTTCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TCTTTTTATTTTCTTC
Found at i:32690054 original size:26 final size:27
Alignment explanation
Indices: 32690013--32690064 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
32690003 TGGCCTCTCC
*
32690013 TTTTCTTTTTTTCTTCTTCTCTTTTTA
1 TTTTCTTTCTTTCTTCTTCTCTTTTTA
*
32690040 TTTTC-TTCTTTCTTCTTCTTTTTTT
1 TTTTCTTTCTTTCTTCTTCTCTTTTT
32690065 TGATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTCTTTCTTTCTTCTTCTCTTTTTA
Found at i:32690062 original size:19 final size:19
Alignment explanation
Indices: 32690015--32690064 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
32690005 GCCTCTCCTT
32690015 TTCTTTTTTTCTTCTTCTC
1 TTCTTTTTTTCTTCTTCTC
32690034 TT-TTTATTTTCTTCTTTCTTC
1 TTCTTT-TTTTCTTC-TTC-TC
32690055 TTCTTTTTTT
1 TTCTTTTTTT
32690065 TGATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.11
19 10 0.37
20 3 0.11
21 8 0.30
22 3 0.11
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTTTTTCTTCTTCTC
Found at i:32695153 original size:3 final size:3
Alignment explanation
Indices: 32695138--32695201 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
32695128 AAAAGGTATT
* * ** * **
32695138 TAA TAA TAT TAA TAA TGA TGC TAA TAA TAA TAA TAA TAA TAG TTT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32695186 TAA TAA TATA TAA TAA
1 TAA TAA TA-A TAA TAA
32695202 ATTTATTAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:32695169 original size:24 final size:24
Alignment explanation
Indices: 32695138--32695201 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
32695128 AAAAGGTATT
32695138 TAATAATATTAATAAT-GATGCTAA
1 TAATAATATTAATAATAG-TGCTAA
* **
32695162 TAATAATAATAATAATAGTTTTAA
1 TAATAATATTAATAATAGTGCTAA
32695186 TAATAATATATAATAA
1 TAATAATAT-TAATAA
32695202 ATTTATTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 27 0.79
25 7 0.21
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (24 bp):
TAATAATATTAATAATAGTGCTAA
Found at i:32701606 original size:3 final size:3
Alignment explanation
Indices: 32701598--32701659 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
32701588 TTTTGAAGTT
32701598 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32701646 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
32701660 GCATAGCAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:32703660 original size:14 final size:16
Alignment explanation
Indices: 32703638--32703678 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
32703628 CGACACAAGC
32703638 AGAAAATTAAA-A-CA
1 AGAAAATTAAATAGCA
*
32703652 AGAAGATTAAATAGCA
1 AGAAAATTAAATAGCA
32703668 AGAAAATTAAA
1 AGAAAATTAAA
32703679 GATAAAGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 12 0.52
ACGTcount: A:0.66, C:0.05, G:0.12, T:0.17
Consensus pattern (16 bp):
AGAAAATTAAATAGCA
Found at i:32704682 original size:25 final size:25
Alignment explanation
Indices: 32704654--32704709 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
32704644 GGCCATTACA
* *
32704654 ACCGTTATTCAGCTTGGAGGAGCTT
1 ACCGTTATTCAGCTGGGAGAAGCTT
*
32704679 ACCGCTATTCAGCTGGGAGAAGCTT
1 ACCGTTATTCAGCTGGGAGAAGCTT
32704704 ACCGTT
1 ACCGTT
32704710 TACAGCTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (25 bp):
ACCGTTATTCAGCTGGGAGAAGCTT
Found at i:32713029 original size:10 final size:10
Alignment explanation
Indices: 32713014--32713041 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
32713004 ATAAGCCCGA
32713014 GCCCGGCCTG
1 GCCCGGCCTG
32713024 GCCCGGCCTG
1 GCCCGGCCTG
32713034 GCCCGGCC
1 GCCCGGCC
32713042 CATTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.54, G:0.39, T:0.07
Consensus pattern (10 bp):
GCCCGGCCTG
Found at i:32713079 original size:26 final size:27
Alignment explanation
Indices: 32713043--32713104 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
32713033 GGCCCGGCCC
* * *
32713043 ATTTTTAAAAT-AAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
32713069 ATTTTAAAAATAAAAAATAAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
32713096 ATTTTAAAA
1 ATTTTAAAA
32713105 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAATT
Found at i:32717925 original size:36 final size:36
Alignment explanation
Indices: 32717843--32717969 Score: 103
Period size: 36 Copynumber: 3.5 Consensus size: 36
32717833 TGGTGCCGCG
* * * *
32717843 AACTGGGCTTTGTAGGAGGGTTTGAAAGGTACAACG
1 AACTGCGCTTCGTAGGAGGGTTTGAAAGGTATAACA
* * * *
32717879 GACTGGGCTTCGTAGGAGGGTTTGCAAGGTATATCA
1 AACTGCGCTTCGTAGGAGGGTTTGAAAGGTATAACA
* * * * * *
32717915 AATTGCGCTTCGTAAGAGGGTTCGTAAGGTATAGCG
1 AACTGCGCTTCGTAGGAGGGTTTGAAAGGTATAACA
*
32717951 AACTAGAG-TTCGTAGGAGG
1 AACT-GCGCTTCGTAGGAGG
32717970 CAGCGAACAT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
36 71 0.97
37 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (36 bp):
AACTGCGCTTCGTAGGAGGGTTTGAAAGGTATAACA
Found at i:32719285 original size:34 final size:34
Alignment explanation
Indices: 32719247--32719325 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
32719237 ACTTCACAGC
* * *
32719247 TTTGATGAGCTAGCACTATTGGTAAGCTCATACA
1 TTTGATGAGCTAGCAATATTGGTAAGCCCACACA
* * * *
32719281 TTTGATGAACTTGCAATCTTGGTGAGCCCACACA
1 TTTGATGAGCTAGCAATATTGGTAAGCCCACACA
32719315 TTTGATGAGCT
1 TTTGATGAGCT
32719326 CGAAATTTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (34 bp):
TTTGATGAGCTAGCAATATTGGTAAGCCCACACA
Found at i:32726269 original size:14 final size:15
Alignment explanation
Indices: 32726245--32726279 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
32726235 AGCCTCTCCA
32726245 TTTTCATTTTTCAAT
1 TTTTCATTTTTCAAT
*
32726260 TTTTCA-TTTTCATT
1 TTTTCATTTTTCAAT
32726274 TTTTCA
1 TTTTCA
32726280 CATCTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCATTTTTCAAT
Found at i:32726814 original size:16 final size:17
Alignment explanation
Indices: 32726783--32726815 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32726773 TTTTTTTTCC
*
32726783 TTTTTGTTTTTACTTTT
1 TTTTTGTTCTTACTTTT
32726800 TTTTTGTTCTT-CTTTT
1 TTTTTGTTCTTACTTTT
32726816 GTTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTGTTCTTACTTTT
Found at i:32731269 original size:6 final size:6
Alignment explanation
Indices: 32731258--32731289 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
32731248 AAAGCCTTTG
32731258 AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
32731290 AATGATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:32752553 original size:37 final size:36
Alignment explanation
Indices: 32752502--32752593 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
32752492 TTTCCAAAAA
*
32752502 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
32752538 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
32752575 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
32752594 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
36 13 0.27
37 18 0.38
38 4 0.08
39 12 0.25
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:32757190 original size:10 final size:10
Alignment explanation
Indices: 32757177--32757218 Score: 84
Period size: 10 Copynumber: 4.2 Consensus size: 10
32757167 ATCTACTCTA
32757177 TTCTGTTATG
1 TTCTGTTATG
32757187 TTCTGTTATG
1 TTCTGTTATG
32757197 TTCTGTTATG
1 TTCTGTTATG
32757207 TTCTGTTATG
1 TTCTGTTATG
32757217 TT
1 TT
32757219 TTGCTCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.62
Consensus pattern (10 bp):
TTCTGTTATG
Found at i:32757198 original size:15 final size:15
Alignment explanation
Indices: 32757177--32757233 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
32757167 ATCTACTCTA
*
32757177 TTCTGTTATGTTCTG
1 TTCTGTTATGTTATG
* *
32757192 TTATGTTCTGTTATG
1 TTCTGTTATGTTATG
*
32757207 TTCTGTTATGTTTTG
1 TTCTGTTATGTTATG
*
32757222 CTCTGTTATGTT
1 TTCTGTTATGTT
32757234 TTACTTTGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.09, C:0.11, G:0.19, T:0.61
Consensus pattern (15 bp):
TTCTGTTATGTTATG
Found at i:32757234 original size:15 final size:15
Alignment explanation
Indices: 32757178--32757255 Score: 66
Period size: 15 Copynumber: 5.2 Consensus size: 15
32757168 TCTACTCTAT
*
32757178 TCTGTTATGTTCTGT
1 TCTGTTATGTTCTGC
* * * *
32757193 TATGTTCTGTTATGT
1 TCTGTTATGTTCTGC
*
32757208 TCTGTTATGTTTTGC
1 TCTGTTATGTTCTGC
* *
32757223 TCTGTTATGTTTTAC
1 TCTGTTATGTTCTGC
* *
32757238 TTTGTTTTGTTCTGC
1 TCTGTTATGTTCTGC
32757253 TCT
1 TCT
32757256 ACTCTATTCT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.08, C:0.13, G:0.18, T:0.62
Consensus pattern (15 bp):
TCTGTTATGTTCTGC
Found at i:32757243 original size:25 final size:25
Alignment explanation
Indices: 32757198--32757251 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
32757188 TCTGTTATGT
*
32757198 TCTGTTATGTTCTGTTATGTTTTGC
1 TCTGTTATGTTCTCTTATGTTTTGC
* *
32757223 TCTGTTATGTTTTACTT-TGTTTTGT
1 TCTGTTATGTTCT-CTTATGTTTTGC
32757248 TCTG
1 TCTG
32757252 CTCTACTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.07, C:0.11, G:0.19, T:0.63
Consensus pattern (25 bp):
TCTGTTATGTTCTCTTATGTTTTGC
Found at i:32757293 original size:20 final size:20
Alignment explanation
Indices: 32757253--32757293 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32757243 TTTGTTCTGC
**
32757253 TCTACTCTATTCTATTTTGT
1 TCTACTCTATTCTATCCTGT
*
32757273 TCTACTCTATTCTGTCCTGT
1 TCTACTCTATTCTATCCTGT
32757293 T
1 T
32757294 ATGTTCTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.07, T:0.56
Consensus pattern (20 bp):
TCTACTCTATTCTATCCTGT
Found at i:32766731 original size:13 final size:13
Alignment explanation
Indices: 32766713--32766737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32766703 AATTTTTAAC
32766713 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
32766726 TTTTCAAAAGTA
1 TTTTCAAAAGTA
32766738 CTTCCGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAGTAT
Found at i:32768855 original size:17 final size:17
Alignment explanation
Indices: 32768833--32768866 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32768823 GCGCAAGCCA
*
32768833 TGGCGCGCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
32768850 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
32768867 ATTGGCTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.56, T:0.12
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Done.