Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 119 of 126
Found at i:36772120 original size:13 final size:13
Alignment explanation
Indices: 36772102--36772126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36772092 TAAGCCACCT
36772102 CACACGGGCATGA
1 CACACGGGCATGA
36772115 CACACGGGCATG
1 CACACGGGCATG
36772127 TCCCTATCGA
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:0.28, C:0.32, G:0.32, T:0.08
Consensus pattern (13 bp):
CACACGGGCATGA
Found at i:36774870 original size:49 final size:49
Alignment explanation
Indices: 36774788--36774969 Score: 274
Period size: 49 Copynumber: 3.7 Consensus size: 49
36774778 TGAGGTCACG
* *
36774788 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
* * * * *
36774837 TGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TT-GGTCGCA
*
36774888 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
36774937 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
36774970 TAGATAGCTT
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 72 0.62
50 4 0.03
51 41 0.35
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTGGTCGCA
Found at i:36774956 original size:100 final size:100
Alignment explanation
Indices: 36774783--36774969 Score: 356
Period size: 100 Copynumber: 1.9 Consensus size: 100
36774773 TATTGTGAGG
36774783 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
36774848 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* *
36774883 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
36774948 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
36774970 TAGATAGCTT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:36778200 original size:47 final size:47
Alignment explanation
Indices: 36778122--36779278 Score: 2197
Period size: 47 Copynumber: 24.6 Consensus size: 47
36778112 CCCTTCGGGA
* * * *
36778122 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36778169 CCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778216 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778263 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778310 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778357 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778404 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778451 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778498 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778545 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778592 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778639 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778686 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778733 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778780 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778827 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778874 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778921 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36778968 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36779015 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36779062 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36779109 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36779156 CTTATCACATATATATACACTTTCACATTCATGACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36779205 CTTATCACATATATACACTTTCGCATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36779252 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
36779279 TATTCAAATA
Statistics
Matches: 1091, Mismatches: 17, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
47 1047 0.96
49 44 0.04
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:36779227 original size:25 final size:25
Alignment explanation
Indices: 36779199--36779273 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
36779189 ACATTGGCCA
36779199 TTCGGCCTTATCACATATATACACT
1 TTCGGCCTTATCACATATATACACT
* ** *
36779224 TTC-GCATTCATCACAT-T-GGC-CA
1 TTCGGCCTT-ATCACATATATACACT
*
36779246 TTAGGCCTTATCACATATATACACT
1 TTCGGCCTTATCACATATATACACT
36779271 TTC
1 TTC
36779274 ACATTTATTC
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
22 10 0.29
23 6 0.17
24 6 0.17
25 13 0.37
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (25 bp):
TTCGGCCTTATCACATATATACACT
Found at i:36783456 original size:40 final size:40
Alignment explanation
Indices: 36783305--36783456 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
36783295 CCAGCATGAT
* * * *
36783305 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
36783345 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
36783385 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
36783425 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
36783457 CTCAATTCTC
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:36790658 original size:40 final size:40
Alignment explanation
Indices: 36790621--36790845 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
36790611 GCTACTCGTT
* *
36790621 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
36790661 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
36790701 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
36790741 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
36790780 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
36790821 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36790846 CATCATTCAA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 118 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36790805 original size:119 final size:120
Alignment explanation
Indices: 36790621--36790845 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
36790611 GCTACTCGTT
*
36790621 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
36790686 ATTTAGTAAC-TCGCACAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
36790741 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
36790803 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
36790846 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36796186 original size:12 final size:12
Alignment explanation
Indices: 36796171--36796195 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36796161 GATCCTTATG
36796171 AAGAAAGTGATC
1 AAGAAAGTGATC
36796183 AAGAAAGTGATC
1 AAGAAAGTGATC
36796195 A
1 A
36796196 TTCATCTGCC
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:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGAAAGTGATC
Found at i:36806432 original size:15 final size:15
Alignment explanation
Indices: 36806412--36806442 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36806402 GTAGGATGGG
36806412 GGATTGGGTTGAGGA
1 GGATTGGGTTGAGGA
*
36806427 GGATTGGGTTGGGGA
1 GGATTGGGTTGAGGA
36806442 G
1 G
36806443 AGGAAGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.26
Consensus pattern (15 bp):
GGATTGGGTTGAGGA
Found at i:36812784 original size:18 final size:18
Alignment explanation
Indices: 36812761--36812797 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36812751 AATATTTACA
36812761 AATAATATATGGTGTAAC
1 AATAATATATGGTGTAAC
36812779 AATAATATATGGTGTAAC
1 AATAATATATGGTGTAAC
36812797 A
1 A
36812798 GTGGTTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (18 bp):
AATAATATATGGTGTAAC
Found at i:36814948 original size:20 final size:20
Alignment explanation
Indices: 36814872--36814947 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
36814862 AAGCTTATGC
36814872 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
36814892 TAAGTAAAT-GAAGTAGAAAG
1 TAAGTAAATGGAA-TGGAAAG
* *
36814912 TAAGTAAATAGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
36814932 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
36814948 TTCATCATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:36817282 original size:16 final size:16
Alignment explanation
Indices: 36817261--36817292 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36817251 TTTAAATCCC
36817261 TAATCCAAAAATCAAT
1 TAATCCAAAAATCAAT
36817277 TAATCCAAAAATCAAT
1 TAATCCAAAAATCAAT
36817293 CAGTAGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
TAATCCAAAAATCAAT
Found at i:36819118 original size:43 final size:45
Alignment explanation
Indices: 36819013--36819119 Score: 128
Period size: 43 Copynumber: 2.4 Consensus size: 45
36819003 AAGAATTGGT
36819013 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
1 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
* * * * * **
36819058 TCTTCAACCTATTCCACTGCTA-ATCAAGGAGATATGA-TTACTG
1 GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
*
36819101 GCTTCAATGTACTCCACTG
1 GCTTCAATCTACTCCACTG
36819120 TAACCACAGG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 19 0.37
44 14 0.27
45 18 0.35
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (45 bp):
GCTTCAATCTACTCCACTGCAATATCAAGGAGATAGGACTTACAA
Found at i:36819278 original size:132 final size:132
Alignment explanation
Indices: 36819094--36819818 Score: 1225
Period size: 132 Copynumber: 5.5 Consensus size: 132
36819084 AGGAGATATG
* * *
36819094 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCAATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
36819159 CCACTACTGCATAGGGAGATAAGATCTGAAATCTTCAGTCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
36819224 GA
131 GA
36819226 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
36819291 CCACTACTGCTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGTCCAGGGAAATA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
36819356 GA
131 GA
*
36819358 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
36819423 CCACTACTGCTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGTCCAGGGAAATA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
36819488 GA
131 GA
* * * *
36819490 ATTACTGGCTTCAATGTACTCCACTATAACCACAAGGACGTAAAATTCGTCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * * *
36819555 CCACTACTGGTTAGGGAGATAAGATATGAAATCTTCAATCTATTCCACTGTTGTTCAGAGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
36819620 GA
131 GA
*
36819622 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * *
36819687 CCACAACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGAGAAGTA
66 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
36819752 GA
131 GA
* * *
36819754 ATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATTCGTCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
36819819 TCGCTGTCAA
Statistics
Matches: 562, Mismatches: 31, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 562 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
GA
Found at i:36819483 original size:44 final size:45
Alignment explanation
Indices: 36819124--36819483 Score: 144
Period size: 44 Copynumber: 8.2 Consensus size: 45
36819114 CCACTGTAAC
* * * * *
36819124 CACAGGGAGGTAAAATCTGCCA-TCTTCAATCTGCTCCACTACTG-
1 CACAGGGAGATAAGATCTG-AAGTCTTCAATCTACTCCACTATTGT
* * * * *
36819168 CATAGGGAGATAAGATCTGAAATCTTCAGTCTATTCCACTGTTGT
1 CACAGGGAGATAAGATCTGAAGTCTTCAATCTACTCCACTATTGT
* ***
36819213 C-CAGGGA-AGT-AGAATTACTG--G-CTTCAATGTACTCCACTATAAC
1 CACAGGGAGA-TAAG-A-T-CTGAAGTCTTCAATCTACTCCACTATTGT
* * * * * * *
36819256 CACAGGGAGGTAAAATCCGCCA-TCTTCGATCTGCTCCACTACTG-
1 CACAGGGAGATAAGATCTG-AAGTCTTCAATCTACTCCACTATTGT
** * *
36819300 CTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGT
1 CACAGGGAGATAAGATCTGAAGTCTTCAATCTACTCCACTATTGT
* * ***
36819345 C-CAGGGAAAT-AGAATTACTG--G-CTTCAATGTACTCCACTATAAC
1 CACAGGGAGATAAG-A-T-CTGAAGTCTTCAATCTACTCCACTATTGT
* * * * * *
36819388 CACAGGGAGGTAAAATCCGCCA-TCTTCGATCTACTCCACTACTG-
1 CACAGGGAGATAAGATCTG-AAGTCTTCAATCTACTCCACTATTGT
** * *
36819432 CTTAGGGAGATAAGATCTGAAGTCTTCAATCTATTCCACTGTTGT
1 CACAGGGAGATAAGATCTGAAGTCTTCAATCTACTCCACTATTGT
36819477 C-CAGGGA
1 CACAGGGA
36819484 AATAGAATTA
Statistics
Matches: 224, Mismatches: 66, Indels: 52
0.65 0.19 0.15
Matches are distributed among these distances:
42 4 0.02
43 43 0.19
44 133 0.59
45 38 0.17
46 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
CACAGGGAGATAAGATCTGAAGTCTTCAATCTACTCCACTATTGT
Found at i:36826695 original size:22 final size:21
Alignment explanation
Indices: 36826660--36826755 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
36826650 AAAGGGTATC
* *
36826660 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
36826681 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
36826704 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
36826723 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
36826742 TGCATATCATATCT
1 TACAAATCATATCT
36826756 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:36826703 original size:23 final size:22
Alignment explanation
Indices: 36826660--36826717 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
36826650 AAAGGGTATC
* *
36826660 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
36826681 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
36826704 TGCATATCATATCT
1 TACAAATCATATCT
36826718 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:36826720 original size:19 final size:19
Alignment explanation
Indices: 36826696--36826768 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
36826686 AATCATATCT
36826696 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
36826715 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
36826734 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
36826753 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
36826769 CCTAAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:36827045 original size:23 final size:24
Alignment explanation
Indices: 36827005--36827061 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
36826995 CAATAATATT
*
36827005 ATTAATAAATTAATATCAATAGAAAC
1 ATTAA-AAATTAATATCAATA-AAAA
36827031 ATTAAAAATT-A-ATCAATAAAAA
1 ATTAAAAATTAATATCAATAAAAA
*
36827053 ACTAAAAAT
1 ATTAAAAAT
36827062 GAAACCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.38
23 7 0.24
24 1 0.03
25 5 0.17
26 5 0.17
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
ATTAAAAATTAATATCAATAAAAA
Found at i:36827749 original size:13 final size:13
Alignment explanation
Indices: 36827731--36827763 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
36827721 GAGGCCTGTG
36827731 CATTATGGGTAAT
1 CATTATGGGTAAT
36827744 CATTATGGGTAAT
1 CATTATGGGTAAT
36827757 CATTATG
1 CATTATG
36827764 CAAAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (13 bp):
CATTATGGGTAAT
Found at i:36835866 original size:33 final size:33
Alignment explanation
Indices: 36835820--36835975 Score: 90
Period size: 33 Copynumber: 4.6 Consensus size: 33
36835810 CATATAAAGG
**
36835820 GGTTGCTGTGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
36835853 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGC
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T----GGT
*
36835896 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
** * *
36835923 GGTTGCTGTGTGTTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
36835956 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
36835976 ACCGCATCTG
Statistics
Matches: 95, Mismatches: 12, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
27 19 0.20
28 2 0.02
31 2 0.02
32 2 0.02
33 36 0.38
34 4 0.04
35 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 22 0.23
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:36835939 original size:27 final size:28
Alignment explanation
Indices: 36835891--36835944 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
36835881 TTAAATGTGA
36835891 AAGGCGGTTGCTAAGTGCTGATTCCCCC
1 AAGGCGGTTGCTAAGTGCTGATTCCCCC
** *
36835919 AAGG-GGTTGCTGTGTGTTGATTCCCC
1 AAGGCGGTTGCTAAGTGCTGATTCCCC
36835945 TATTCATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.15, C:0.24, G:0.31, T:0.30
Consensus pattern (28 bp):
AAGGCGGTTGCTAAGTGCTGATTCCCCC
Found at i:36836052 original size:102 final size:103
Alignment explanation
Indices: 36835816--36836081 Score: 417
Period size: 102 Copynumber: 2.6 Consensus size: 103
36835806 ATTGCATATA
* *
36835816 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
36835881 TTAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
* * *
36835919 AAGGGGTTGCTGTGTGTTGATTCCCCTATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* *
36835984 TGAAATGTG-AAGGGGGTTGCTAAGTGTTGATTCCCCC
66 TGAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
** * *
36836021 AAGGGGTTGCTGTGTGCTGATTTTCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
36836082 ATAACGGTTA
Statistics
Matches: 148, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 80 0.54
103 68 0.46
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (103 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTGAAAGGCGGTTGCTAAGTGCTGATTCCCCC
Found at i:36843041 original size:17 final size:17
Alignment explanation
Indices: 36842989--36843041 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
36842979 ATTTTTCCGG
*
36842989 ACTCGAATTTATTATAA
1 ACTCAAATTTATTATAA
* *
36843006 ACTCAAGCTTT-CT-TAA
1 ACTCAA-ATTTATTATAA
36843022 ACTCAAATTTATTATAA
1 ACTCAAATTTATTATAA
36843039 ACT
1 ACT
36843042 TGGGTTATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 12 0.43
18 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (17 bp):
ACTCAAATTTATTATAA
Found at i:36859746 original size:12 final size:12
Alignment explanation
Indices: 36859729--36859753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36859719 GCTTCAATAG
36859729 ATGATGATGATA
1 ATGATGATGATA
36859741 ATGATGATGATA
1 ATGATGATGATA
36859753 A
1 A
36859754 AGCCGATGCC
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:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGATGATGATA
Found at i:36865222 original size:17 final size:17
Alignment explanation
Indices: 36865174--36865222 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
36865164 TTAACCCAAA
*
36865174 ATAAATTGAATATAAATT
1 ATAAATT-AATATATATT
36865192 A-AAATTAAT-TATATT
1 ATAAATTAATATATATT
*
36865207 ATAAATTAATACATAT
1 ATAAATTAATATATAT
36865223 AATTTTAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
17 9 0.33
18 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
ATAAATTAATATATATT
Found at i:36865287 original size:59 final size:59
Alignment explanation
Indices: 36865220--36865338 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
36865210 AATTAATACA
* *
36865220 TATAATTTTAGACTGTTTTAGGCTAAAATTTAGTTCACCTCGATACTTCAAATTGCTTC
1 TATAATTTTAGACCGTCTTAGGCTAAAATTTAGTTCACCTCGATACTTCAAATTGCTTC
* * *
36865279 TATAATTTTGGACCGTCTTAGGCTGAAATTTAGTTCGCCTCGATACTTCAAATTGCTTC
1 TATAATTTTAGACCGTCTTAGGCTAAAATTTAGTTCACCTCGATACTTCAAATTGCTTC
36865338 T
1 T
36865339 TGATTTTGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.41
Consensus pattern (59 bp):
TATAATTTTAGACCGTCTTAGGCTAAAATTTAGTTCACCTCGATACTTCAAATTGCTTC
Found at i:36868287 original size:85 final size:85
Alignment explanation
Indices: 36868138--36868377 Score: 311
Period size: 85 Copynumber: 2.8 Consensus size: 85
36868128 ATCCGTTACT
* * * *
36868138 CGGTGGATTCAGCACTTAGCAAGCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
**
36868202 CCCTTTCACGGTAAAAAATA
66 CCCTTTCACAATAAAAAATA
* * * *
36868222 TGGTGGATTCAACACTTAGCAACCACCTTTATATTCAGTAATACAGGGAATCAGCACATATCAAC
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
* *
36868287 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATAAAAAATA
* * * * * *
36868307 CGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAATCAGCACTTAGCAAT
1 CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
36868372 CCCTTT
66 CCCTTT
36868378 TTATTCAATG
Statistics
Matches: 133, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 24 0.18
85 109 0.82
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (85 bp):
CGGTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAAC
CCCTTTCACAATAAAAAATA
Found at i:36868315 original size:43 final size:43
Alignment explanation
Indices: 36868176--36868336 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 43
36868166 TAAATTCAGT
** *
36868176 GATACGGGGAATCAACACATAGCAACC-CCTTTCACGGTAAAA
1 GATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAA
* * * * * * *
36868218 AATATGGTGGATTCAACACTTAGCAACCACCTTT-ATATTCAGTA
1 GATACGG-GGAATCAACACATAGCAACCACCTTTCACAATCA-AA
* * *
36868262 -ATACAGGGAATCAGCACATATCAACC-CCTTTCACAATCAAA
1 GATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAA
* *
36868303 GATACGGTGGAATCAGCACTTAGCAACCACCTTT
1 GATACGG-GGAATCAACACATAGCAACCACCTTT
36868337 AAAGTCAATA
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
41 6 0.07
42 31 0.34
43 43 0.47
44 11 0.12
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
GATACGGGGAATCAACACATAGCAACCACCTTTCACAATCAAA
Found at i:36868364 original size:42 final size:41
Alignment explanation
Indices: 36868146--36868370 Score: 152
Period size: 42 Copynumber: 5.3 Consensus size: 41
36868136 CTCGGTGGAT
* * * *
36868146 TCAGCACTTAGCAAGCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAA-TCAATAATACAGGGAA
* * ** * * ** *
36868187 TCAACACATAGCAACC-CCTTTCACGGTAAAAAATATGGTGGAT
1 TCAGCACTTAGCAACCACCTTT-A-AATCAATAATACAG-GGAA
* * *
36868230 TCAACACTTAGCAACCACCTTTATATTCAGTAATACAGGGAA
1 TCAGCACTTAGCAACCACCTTTA-AATCAATAATACAGGGAA
* * *
36868272 TCAGCACATATCAACC-CCTTTCACAATCAA-AGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-A-AATCAATA-ATACAG-GGAA
*
36868315 TCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAA-TCAATAATACAGGGAA
36868357 TCAGCACTTAGCAA
1 TCAGCACTTAGCAA
36868371 TCCCTTTTTA
Statistics
Matches: 141, Mismatches: 32, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 21 0.15
42 54 0.38
43 53 0.38
44 11 0.08
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
TCAGCACTTAGCAACCACCTTTAAATCAATAATACAGGGAA
Found at i:36875877 original size:54 final size:54
Alignment explanation
Indices: 36875807--36875916 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
36875797 CTAACCTAAG
*
36875807 TATGCTCAAAATTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
1 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
*
36875861 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGCAACTTTTAAGAGT
1 TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
36875915 TA
1 TA
36875917 ATCACAATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (54 bp):
TATGCTCAAAAGTAAATTAAACATATAATAATTAAATATGAAACTTTTAAGAGT
Found at i:36881496 original size:27 final size:27
Alignment explanation
Indices: 36881450--36881602 Score: 155
Period size: 27 Copynumber: 5.7 Consensus size: 27
36881440 ACATGCTAGA
*** *
36881450 AAAAGGAAGCCTTCACGGTGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
36881477 AAGAGGAAGCCTTTGTGGTGATCTATA
1 AAAAGGAAGCCTTTGTGGCGATCTATG
** *
36881504 AAAAGGAAGCCTTCATAGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* * *
36881531 -AAAGGAAATCCTTTGTGGCAATTTATG
1 AAAAGG-AAGCCTTTGTGGCGATCTATG
* *
36881558 AAAAAGAAGCCTTCGTGGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
36881585 AAAAGGAAGCCTTTGTGG
1 AAAAGGAAGCCTTTGTGG
36881603 AAATTGATGA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
26 5 0.05
27 91 0.91
28 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:36881531 original size:54 final size:54
Alignment explanation
Indices: 36881448--36881602 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 54
36881438 GAACATGCTA
* * **
36881448 GAAAAAGGAAGCCTTCACGGTGATCTATGAAGAGGAAGCCTTTGTGGTGATCTAT
1 GAAAAAGGAAGCCTTCATGGCGATCTATGAA-AGGAAGCCTTTGTGGCAATCTAT
* * *
36881503 -AAAAAGGAAGCCTTCATAGCGATCTATGAAAGGAAATCCTTTGTGGCAATTTAT
1 GAAAAAGGAAGCCTTCATGGCGATCTATGAAAGG-AAGCCTTTGTGGCAATCTAT
*
36881557 GAAAAA-GAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGG
1 GAAAAAGGAAGCCTTCATGGCGATCTATG-AAAGGAAGCCTTTGTGG
36881603 AAATTGATGA
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
53 3 0.03
54 74 0.85
55 10 0.11
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (54 bp):
GAAAAAGGAAGCCTTCATGGCGATCTATGAAAGGAAGCCTTTGTGGCAATCTAT
Found at i:36881612 original size:27 final size:26
Alignment explanation
Indices: 36881473--36881632 Score: 106
Period size: 27 Copynumber: 5.9 Consensus size: 26
36881463 CACGGTGATC
* **
36881473 TATGAAGAGGAAGCCTTTGTGGTGAT
1 TATGAAAAGGAAGCCTTTGTGGCAAT
* ** * *
36881499 CTATAAAAAGGAAGCCTTCATAGCGAT
1 -TATGAAAAGGAAGCCTTTGTGGCAAT
*
36881526 CTATG-AAAGGAAATCCTTTGTGGCAATT
1 -TATGAAAAGG-AAGCCTTTGTGGCAA-T
* * *
36881554 TATGAAAAAGAAGCCTTCGTGGCGAT
1 TATGAAAAGGAAGCCTTTGTGGCAAT
*
36881580 CTATGAAAAGGAAGCCTTTGTGGAAAT
1 -TATGAAAAGGAAGCCTTTGTGGCAAT
* * *
36881607 TGATGATAAAGAAATCCTATGTGGCA
1 T-ATGA-AAAGGAAGCCTTTGTGGCA
36881633 CTCTCTAAAA
Statistics
Matches: 103, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.07
27 76 0.74
28 20 0.19
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (26 bp):
TATGAAAAGGAAGCCTTTGTGGCAAT
Found at i:36881643 original size:81 final size:81
Alignment explanation
Indices: 36881470--36881632 Score: 184
Period size: 81 Copynumber: 2.0 Consensus size: 81
36881460 CTTCACGGTG
* * * * ** *
36881470 ATCTATGAAGAGGAAGCCTTTGTGGTGATCTATAAAAAGGAAGCCTTCATAGCGATCTATGAAAG
1 ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCTATGAAAA
*
36881535 GAAATCCTTTGTGGCA
66 GAAATCCTATGTGGCA
* * ** *
36881551 ATTTATGAAAAAGAAGCCTTCGTGGCGATCTATGAAAAGGAAGCCTTTGTGGAAAT-TGATGATA
1 ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCT-ATGA-A
36881615 AAGAAATCCTATGTGGCA
64 AAGAAATCCTATGTGGCA
36881633 CTCTCTAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 49 0.73
82 17 0.25
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (81 bp):
ATCTATGAAAAAGAAGCCTTCGTGGCGATCTATAAAAAGGAAGCCTTCATAGAAATCTATGAAAA
GAAATCCTATGTGGCA
Found at i:36897936 original size:79 final size:79
Alignment explanation
Indices: 36897838--36897995 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
36897828 AAAAAATGAG
*
36897838 GTATCGAGACCTCGAAGATTTTAAACCGAGCCATAAATATTTTTGGAAATATTTATAGAGTGTCA
1 GTATCGAGACCTCGAAGATTTTAAACCGAGCCATAAATATTTTTAGAAATATTTATAGAGTGTCA
36897903 TTGAGTTGGTATTA
66 TTGAGTTGGTATTA
* *
36897917 GTATCGAGACCTCGAAGATTTTCAACCGAGCCATAAATATTTTTATAAATATTTATAGAGTGTCA
1 GTATCGAGACCTCGAAGATTTTAAACCGAGCCATAAATATTTTTAGAAATATTTATAGAGTGTCA
36897982 TTGAGTTGGTATTA
66 TTGAGTTGGTATTA
36897996 AAGTTTCGTT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (79 bp):
GTATCGAGACCTCGAAGATTTTAAACCGAGCCATAAATATTTTTAGAAATATTTATAGAGTGTCA
TTGAGTTGGTATTA
Found at i:36899093 original size:37 final size:37
Alignment explanation
Indices: 36899052--36899186 Score: 225
Period size: 37 Copynumber: 3.6 Consensus size: 37
36899042 AGTACTTCTA
36899052 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
*
36899089 ATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
*
36899126 ATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTG
1 ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
** *
36899163 ATCAAGTGATAAAGTGATAAGTGG
1 ATCAAGAAACAAAGTGATAAGTGG
36899187 TAGCTTCAGC
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 93 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (37 bp):
ATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTG
Found at i:36899258 original size:45 final size:46
Alignment explanation
Indices: 36899149--36899272 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
36899139 GTGATAAGTG
* *
36899149 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
36899195 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
36899240 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
36899273 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:36901235 original size:35 final size:33
Alignment explanation
Indices: 36901080--36901271 Score: 106
Period size: 33 Copynumber: 5.7 Consensus size: 33
36901070 AATTGACAGA
* * * *
36901080 TAAGACCATGGTTGGACCATGGCAATGTTTATATG
1 TAAGACCATAGTTGGGCTATGGC-AT-TTTATAAG
*
36901115 TAACACCATAGTTGGGCTATGGCATTTTAATGAA-
1 TAAGACCATAGTTGGGCTATGGCATTTT-AT-AAG
** * * **
36901149 -AAGACCATAACTGGGTTATGGCACTTTGA-ACC
1 TAAGACCATAGTTGGGCTATGGCA-TTTTATAAG
* * *
36901181 TGAGACCA-GGTTGGACTATGGCAGTATTTATAAG
1 TAAGACCATAGTTGGGCTATGGCA-T-TTTATAAG
* *
36901215 TAAGACCATAGTTGGGCTATGGCATTCTGATGA-
1 TAAGACCATAGTTGGGCTATGGCATT-TTATAAG
** *
36901248 TAAGACCATAACTGGGTTATGGCA
1 TAAGACCATAGTTGGGCTATGGCA
36901272 CTACGAATGT
Statistics
Matches: 119, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
31 1 0.01
32 11 0.09
33 54 0.45
34 20 0.17
35 33 0.28
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGGCATTTTATAAG
Found at i:36901257 original size:33 final size:33
Alignment explanation
Indices: 36901119--36901273 Score: 107
Period size: 33 Copynumber: 4.7 Consensus size: 33
36901109 TATATGTAAC
* * *
36901119 ACCATAGTTGGGCTATGGCATTTTAATGAAAAG
1 ACCATAGTTGGGCTATGGCACTTTGATGATAAG
** * *** *
36901152 ACCATAACTGGGTTATGGCACTTTGAACCTGAG
1 ACCATAGTTGGGCTATGGCACTTTGATGATAAG
* * * * *
36901185 ACCA-GGTTGGACTATGGCAGTATTTATAAGTAAG
1 ACCATAGTTGGGCTATGGCACT-TTGATGA-TAAG
36901219 ACCATAGTTGGGCTATGGCA-TTCTGATGATAAG
1 ACCATAGTTGGGCTATGGCACTT-TGATGATAAG
** *
36901252 ACCATAACTGGGTTATGGCACT
1 ACCATAGTTGGGCTATGGCACT
36901274 ACGAATGTAA
Statistics
Matches: 89, Mismatches: 28, Indels: 9
0.71 0.22 0.07
Matches are distributed among these distances:
32 11 0.12
33 52 0.58
34 13 0.15
35 13 0.15
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (33 bp):
ACCATAGTTGGGCTATGGCACTTTGATGATAAG
Found at i:36901262 original size:100 final size:101
Alignment explanation
Indices: 36901082--36901273 Score: 305
Period size: 100 Copynumber: 1.9 Consensus size: 101
36901072 TTGACAGATA
* * *
36901082 AGACCATGGTTGGACCATGGCAATGTTTATATGTAACACCATAGTTGGGCTATGGCATTTTAATG
1 AGACCATGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
36901147 AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
66 AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
* * * *
36901183 AGACCA-GGTTGGACTATGGCAGTATTTATAAGTAAGACCATAGTTGGGCTATGGCATTCTGATG
1 AGACCATGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
*
36901247 ATAAGACCATAACTGGGTTATGGCACT
66 AAAAGACCATAACTGGGTTATGGCACT
36901274 ACGAATGTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 77 0.93
101 6 0.07
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (101 bp):
AGACCATGGTTGGACCATGGCAATATTTATAAGTAACACCATAGTTGGGCTATGGCATTCTAATG
AAAAGACCATAACTGGGTTATGGCACTTTGAACCTG
Found at i:36901285 original size:33 final size:32
Alignment explanation
Indices: 36901214--36901321 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 32
36901204 GTATTTATAA
** * *
36901214 GTAAGACCATAGTTGGGCTATGGCATTCTGAT
1 GTAAGACCATAACTGGGTTATGGCATACTGAT
36901246 GATAAGACCATAACTGGGTTATGGCACTAC-GAAT
1 G-TAAGACCATAACTGGGTTATGGCA-TACTG-AT
* * *
36901280 GTAAGACCATGACTGGGTCATGGCAATGCATG-T
1 GTAAGACCATAACTGGGTTATGGC-ATAC-TGAT
36901313 GTAAGACCA
1 GTAAGACCA
36901322 CAGTTGGACT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
32 1 0.02
33 55 0.87
34 6 0.10
35 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGTTATGGCATACTGAT
Found at i:36905425 original size:53 final size:54
Alignment explanation
Indices: 36905341--36905446 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 54
36905331 TTTAGATGTC
*
36905341 TTTTTGTCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
36905395 TTTTTGCCATGACATATTGAG-TTACACTTGATATAAACTTGAATTTATATGC
1 TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGC
36905447 CATGTTCATC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 31 0.61
54 20 0.39
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (54 bp):
TTTTTGCCATGACATATTGAGCTTACACTTGATATAAACTTGAATTTATATGCT
Found at i:36922556 original size:22 final size:22
Alignment explanation
Indices: 36922528--36922571 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36922518 GAAAGGTATA
36922528 TTAGGCTGCCCAACATGATCGG
1 TTAGGCTGCCCAACATGATCGG
*
36922550 TTAGGCTGCCCAACATTATCGG
1 TTAGGCTGCCCAACATGATCGG
36922572 AAGAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (22 bp):
TTAGGCTGCCCAACATGATCGG
Found at i:36931302 original size:15 final size:15
Alignment explanation
Indices: 36931282--36931314 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36931272 CTATAAAATA
36931282 TTAACTAAATATTAT
1 TTAACTAAATATTAT
*
36931297 TTAACTAAATATTGT
1 TTAACTAAATATTAT
36931312 TTA
1 TTA
36931315 CCAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
TTAACTAAATATTAT
Found at i:36933374 original size:16 final size:17
Alignment explanation
Indices: 36933353--36933386 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36933343 TTAAAATTAA
36933353 AATTTTATTA-TTTATT
1 AATTTTATTATTTTATT
*
36933369 AATTTTTTTATTTTATT
1 AATTTTATTATTTTATT
36933386 A
1 A
36933387 TTGTTGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTATTATTTTATT
Found at i:36933466 original size:16 final size:17
Alignment explanation
Indices: 36933440--36933473 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36933430 CCTTCAACAA
36933440 TAATAAAATAAAAAAAT
1 TAATAAAATAAAAAAAT
*
36933457 TAAT-AAATAATAAAAT
1 TAATAAAATAAAAAAAT
36933473 T
1 T
36933474 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATAAAATAAAAAAAT
Found at i:36940689 original size:20 final size:20
Alignment explanation
Indices: 36940664--36940702 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36940654 AGAGTTATTT
36940664 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
36940684 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
36940703 GAAGAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:36947895 original size:50 final size:50
Alignment explanation
Indices: 36947841--36947936 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
36947831 TGAGGTTATG
* * * *
36947841 AGAGGTCACACGTAAGACTATGTCTCGGACATAGCATTGGCACCGAGATC
1 AGAGGTCACACGTAAGACAATATCTAGGACATAGCATGGGCACCGAGATC
* * *
36947891 AGAGGTCCCCCGTAAGACAATATCTAGGACATGGCATGGGCACCGA
1 AGAGGTCACACGTAAGACAATATCTAGGACATAGCATGGGCACCGA
36947937 TATGAGAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (50 bp):
AGAGGTCACACGTAAGACAATATCTAGGACATAGCATGGGCACCGAGATC
Found at i:36948258 original size:20 final size:20
Alignment explanation
Indices: 36948233--36948281 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36948223 TGAGTTATTT
*
36948233 AAGTAAGCAAGTAATTAAAC
1 AAGTAAGCAAGTAACTAAAC
*
36948253 AAGTAAG-AGAGTAACTAAAG
1 AAGTAAGCA-AGTAACTAAAC
36948273 AAG-AAGCAA
1 AAGTAAGCAA
36948282 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAACTAAAC
Found at i:36954043 original size:40 final size:40
Alignment explanation
Indices: 36953958--36954197 Score: 200
Period size: 40 Copynumber: 6.0 Consensus size: 40
36953948 AATGTGTGAC
* * *
36953958 CAGGGGCACCAAAGTACAAACAGGGGCA--TAAATGTGCATT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGT-AA-GTGCAAT
* ** *
36953998 TAGGGGTACTGAAGTACAAACAAGGGCACGTAAGTGTAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* * *
36954038 CAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* * * * *
36954078 CAGGGGTACCAAAGTATAAACAAGGGCATGCACGTCCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* * * *
36954118 CAGGGG-GCCGAAGTAGAAAC-AGGGCAGGTAAGTGCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
* *** * * *
36954156 TAGGGGTTTTAAAATACAAACAGGGGCATGTAAGTGCAAT
1 CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
36954196 CA
1 CA
36954198 TTCAATAATT
Statistics
Matches: 158, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
38 19 0.12
39 19 0.12
40 117 0.74
41 2 0.01
42 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAAGGGCACGTAAGTGCAAT
Found at i:36954196 original size:78 final size:80
Alignment explanation
Indices: 36954012--36954197 Score: 187
Period size: 78 Copynumber: 2.4 Consensus size: 80
36954002 GGTACTGAAG
* *
36954012 TACAAACAAGGGCACGTAAGTGTAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
1 TACAAACAAGGGCATGTAAGTGCAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
*
36954077 TCAGGGGTACCAAAG
66 TCAGGGGTACCAAAA
* * * * * * * * * * *
36954092 TATAAACAAGGGCATGCACGTCCAATCAGGGG-GCCGAAGTAGAAAC-AGGGCAGGTAAGTGCAA
1 TACAAACAAGGGCATGTAAGTGCAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
* ***
36954155 TTAGGGGTTTTAAAA
66 TCAGGGGTACCAAAA
*
36954170 TACAAACAGGGGCATGTAAGTGCAATCA
1 TACAAACAAGGGCATGTAAGTGCAATCA
36954198 TTCAATAATT
Statistics
Matches: 83, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
78 47 0.57
79 10 0.12
80 26 0.31
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.16
Consensus pattern (80 bp):
TACAAACAAGGGCATGTAAGTGCAATCAGGGGTACCAAAGCACAAACAAGGGCACGTAACTGAAA
TCAGGGGTACCAAAA
Found at i:36965964 original size:19 final size:19
Alignment explanation
Indices: 36965940--36965978 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36965930 TGAAATCAGT
36965940 AGGAAAAATAAATTTATCG
1 AGGAAAAATAAATTTATCG
36965959 AGGAAAAATAAATTTATCG
1 AGGAAAAATAAATTTATCG
36965978 A
1 A
36965979 CTTTTACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
AGGAAAAATAAATTTATCG
Found at i:36971430 original size:182 final size:182
Alignment explanation
Indices: 36971040--36971407 Score: 637
Period size: 182 Copynumber: 2.0 Consensus size: 182
36971030 TTACGGCCGA
*
36971040 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATGGGGAAATTCGTCCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTCCAATAAA
36971105 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
* * * *
36971170 ACGATTTGTTATTGTAGGTTTACAATTTGCTGAAGCTACTCCATATAAAAAT
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
* *
36971222 ATCTGACATGTCACATGAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTTCAATAAA
1 ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTCCAATAAA
*
36971287 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAGGTTTTAAAAAACAAACCACACGGTAAA
66 AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
* * *
36971352 ACGGTTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATACAGAT
131 ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
36971404 ATCT
1 ATCT
36971408 TTAGGTTGAA
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 175 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (182 bp):
ATCTGACATGTCACATAAAAGTGTTTTACGAAACCAAAGTCTGATCGGGAAATTCGTCCAATAAA
AATCTAATTATTTCTTACTTATTAGCACCATTTGGTAAGTTTTAAAAAACAAACCACACGGTAAA
ACGATTTGTTATTGCAGGTTTAAAATTTACGGAAGCTACTCCATATAAAAAT
Found at i:36972213 original size:26 final size:28
Alignment explanation
Indices: 36972163--36972224 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
36972153 GGGGATTACA
*
36972163 GTAA-TTTACCCTTCAAGGGTATTTT-G
1 GTAATTTTACCCATCAAGGGTATTTTCG
*
36972189 GTAATTTTACCCATCGAGGGT-TTTTCG
1 GTAATTTTACCCATCAAGGGTATTTTCG
36972216 GTAATTTTA
1 GTAATTTTA
36972225 TCTAGTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (28 bp):
GTAATTTTACCCATCAAGGGTATTTTCG
Found at i:36972274 original size:27 final size:27
Alignment explanation
Indices: 36972178--36972274 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
36972168 TTACCCTTCA
* *
36972178 AGGGTATTTTGGTAATTTTACCCATCG
1 AGGGTATTTCGGTAATTTTACCCATTG
* * * * *
36972205 AGGGTTTTTCGGTAATTTTATCTAGTA
1 AGGGTATTTCGGTAATTTTACCCATTG
* **
36972232 AGTGTATTTCAATAATTTTACCCATTG
1 AGGGTATTTCGGTAATTTTACCCATTG
*
36972259 GGGGTATTTCGGTAAT
1 AGGGTATTTCGGTAAT
36972275 GTTAACGACA
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACCCATTG
Found at i:36986978 original size:27 final size:25
Alignment explanation
Indices: 36986939--36987007 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
36986929 TGTTCCGACC
*
36986939 CACAGCTCATGTGAGCAGACCCATTTT
1 CACAGCTCGTGTGAGCAGACCCA--TT
** **
36986966 CACAGCTCGTGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCAGACCCATT
36986991 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
36987008 TACATGTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.51
27 18 0.49
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGACCCATT
Found at i:36994178 original size:29 final size:29
Alignment explanation
Indices: 36994132--36994259 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
36994122 CCCTCAGATA
* * *
36994132 ATGAAAAAGGATAGCTTCGGTTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* * *
36994161 ATGAAAAGAGATAACTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
*
36994190 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
* *
36994219 ATAAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT
36994248 ATGAAAAGGGAT
1 ATGAAAAGGGAT
36994260 GGTGACGACC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAAT
Found at i:36994226 original size:58 final size:58
Alignment explanation
Indices: 36994132--36994259 Score: 193
Period size: 58 Copynumber: 2.2 Consensus size: 58
36994122 CCCTCAGATA
* * *
36994132 ATGAAAAAGGATAGCTTCGGTTATCGAATATGAAAAGAGATAACTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
* * * *
36994190 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
36994248 ATGAAAAGGGAT
1 ATGAAAAGGGAT
36994260 GGTGACGACC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATAAAAAGAGATAACTTCAACTATCGAAT
Found at i:36994279 original size:29 final size:29
Alignment explanation
Indices: 36994241--36994320 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
36994231 AGCTTCAGCT
*
36994241 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
**
36994270 ATC-AACTATGAAAAAAGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
*
36994299 ATCGAATATTAAAAGGGATGGT
1 ATCGAATATGAAAAGGGATGGT
36994321 TTCAACTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.02
29 40 0.93
30 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:36997216 original size:23 final size:22
Alignment explanation
Indices: 36997178--36997220 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
36997168 TTATTAATTC
36997178 TAATTATTCTAATTATTTTATT
1 TAATTATTCTAATTATTTTATT
*
36997200 TAATTAATTTTAATTATTTTA
1 TAATT-ATTCTAATTATTTTA
36997221 ATTATCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTATTCTAATTATTTTATT
Found at i:36997943 original size:7 final size:7
Alignment explanation
Indices: 36997931--36997981 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
36997921 ACAAAATTAA
*
36997931 AACTAAC
1 AACTAAG
36997938 AACTAAG
1 AACTAAG
36997945 AACTAAG
1 AACTAAG
36997952 AACT-A-
1 AACTAAG
*
36997957 AATTAA-
1 AACTAAG
*
36997963 AACTAAC
1 AACTAAG
36997970 AACTAAG
1 AACTAAG
36997977 AACTA
1 AACTA
36997982 GTCAAATTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 3 0.08
6 7 0.18
7 28 0.74
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.18
Consensus pattern (7 bp):
AACTAAG
Found at i:37001912 original size:27 final size:27
Alignment explanation
Indices: 37001838--37001913 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
37001828 ATATGGACAA
* * *
37001838 TCCGCCATCATTCTCGCGGGTGGTGAG
1 TCCGCCAACATTCTCGCGGATGGAGAG
* * * * * *
37001865 TTCGTCAACATTATTGAGGATGGAGGG
1 TCCGCCAACATTCTCGCGGATGGAGAG
37001892 TCCGCCAACATTCTCGCGGATG
1 TCCGCCAACATTCTCGCGGATG
37001914 AACAATCTAC
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.26
Consensus pattern (27 bp):
TCCGCCAACATTCTCGCGGATGGAGAG
Found at i:37008871 original size:21 final size:21
Alignment explanation
Indices: 37008845--37008887 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37008835 TCAGAAGAAA
*
37008845 GCCCACAGTATCCAGCTATTT
1 GCCCACACTATCCAGCTATTT
37008866 GCCCACACTATCCAGCTATTT
1 GCCCACACTATCCAGCTATTT
37008887 G
1 G
37008888 GTAGCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (21 bp):
GCCCACACTATCCAGCTATTT
Found at i:37025912 original size:25 final size:25
Alignment explanation
Indices: 37025874--37025924 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
37025864 TTGCTTTCCC
*
37025874 ACAGATTTGACTGAACATACATTGG
1 ACAGATTCGACTGAACATACATTGG
*
37025899 ACAGATTCGGCTGAACATACATTGG
1 ACAGATTCGACTGAACATACATTGG
37025924 A
1 A
37025925 GCCAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (25 bp):
ACAGATTCGACTGAACATACATTGG
Found at i:37030441 original size:25 final size:25
Alignment explanation
Indices: 37030405--37030453 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
37030395 GCTTTTCTAC
37030405 AGATTCGACTGAACATACATTGGAT
1 AGATTCGACTGAACATACATTGGAT
* *
37030430 AGATTCGGCTGAACTTACATTGGA
1 AGATTCGACTGAACATACATTGGA
37030454 GCCAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
AGATTCGACTGAACATACATTGGAT
Found at i:37031518 original size:37 final size:37
Alignment explanation
Indices: 37031468--37031542 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
37031458 TGTGTTGATC
37031468 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
1 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
37031505 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
1 TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
37031542 T
1 T
37031543 GACTTTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (37 bp):
TCACATTGGGCTTTTAAAGCTCGCCTCTTTTTAATTT
Found at i:37034427 original size:35 final size:35
Alignment explanation
Indices: 37034381--37034464 Score: 159
Period size: 35 Copynumber: 2.4 Consensus size: 35
37034371 ATAAGTATTT
37034381 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
*
37034416 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
37034451 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
37034465 TTTATTGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (35 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
Found at i:37036650 original size:27 final size:26
Alignment explanation
Indices: 37036547--37036671 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 26
37036537 AAAGGTCGAT
**
37036547 AAATGATCAAAATACCCTCGTAGGGTA
1 AAATGATC-AAATACCCTCAAAGGGTA
* * * *
37036574 GAATGACTTAAATACCCTTATAGGGTA
1 AAATGA-TCAAATACCCTCAAAGGGTA
*
37036601 AAATGATCGAATACCCTCAAAGGGTA
1 AAATGATCAAATACCCTCAAAGGGTA
* * *
37036627 AAATTATCAAAATACCC-CTGAAGGGGA
1 AAATGATC-AAATACCCTC-AAAGGGTA
*
37036654 AAATGACCGAAATACCCT
1 AAATGATC-AAATACCCT
37036672 ATGGGATTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
26 24 0.31
27 53 0.68
28 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (26 bp):
AAATGATCAAATACCCTCAAAGGGTA
Found at i:37037928 original size:10 final size:10
Alignment explanation
Indices: 37037915--37037939 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37037905 AAGTTTAGTT
37037915 TGTTTTAATG
1 TGTTTTAATG
37037925 TGTTTTAATG
1 TGTTTTAATG
37037935 TGTTT
1 TGTTT
37037940 GTTAATAAAT
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:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (10 bp):
TGTTTTAATG
Found at i:37037946 original size:74 final size:76
Alignment explanation
Indices: 37037823--37037972 Score: 223
Period size: 74 Copynumber: 2.0 Consensus size: 76
37037813 ATTAATTAAA
* *
37037823 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTCATGTGTTTGTTAATAAATGCTTGCAGGTGA
1 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
37037888 CTATTTAGTTG
66 CTATTTAGTTG
* * * * *
37037899 CTTATTAAGTTTAGT-T-TGTTTTAATGTGTTTTAATGTGTTTGTTAATAAATATTTGCAGGTGC
1 CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
37037962 CTATTTAGTTG
66 CTATTTAGTTG
37037973 GGATCAGTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 53 0.79
75 1 0.01
76 13 0.19
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (76 bp):
CTTATTAAGTCTAATATGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATACTTGCAGGTGA
CTATTTAGTTG
Found at i:37039982 original size:21 final size:18
Alignment explanation
Indices: 37039936--37039997 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
37039926 AAAGGAAGCG
*
37039936 AGAAAAAGAAAGTGAAAA
1 AGAAAAAGAGAGTGAAAA
37039954 AGAAAAAGAGAGTGAAAGA
1 AGAAAAAGAGAGTGAAA-A
*
37039973 ATGCAAAAAGAGATTGAAAA
1 A-G-AAAAAGAGAGTGAAAA
*
37039993 TGAAA
1 AGAAA
37039998 TAAAAAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 19 0.50
19 3 0.08
20 2 0.05
21 14 0.37
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.10
Consensus pattern (18 bp):
AGAAAAAGAGAGTGAAAA
Found at i:37041736 original size:19 final size:19
Alignment explanation
Indices: 37041712--37041769 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
37041702 AATAAATTTC
*
37041712 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
37041731 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
37041750 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
37041769 T
1 T
37041770 GCCGGAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:37041750 original size:9 final size:9
Alignment explanation
Indices: 37041717--37041769 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
37041707 ATTTCTCATC
37041717 TTAGTTAAT
1 TTAGTTAAT
* *
37041726 TGAGTTCAT
1 TTAGTTAAT
37041735 CTTAGTTAAT
1 -TTAGTTAAT
* *
37041745 TAAGTTCAT
1 TTAGTTAAT
37041754 CTTAGTTAAT
1 -TTAGTTAAT
37041764 TTAGTT
1 TTAGTT
37041770 GCCGGAATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (9 bp):
TTAGTTAAT
Found at i:37041885 original size:10 final size:10
Alignment explanation
Indices: 37041867--37041913 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
37041857 TAAGTCTAAT
37041867 ATGTGTTTAA
1 ATGTGTTTAA
*
37041877 ATGTATTT-A
1 ATGTGTTTAA
37041886 ATGTGTTTAA
1 ATGTGTTTAA
*
37041896 ATGTGTTTTA
1 ATGTGTTTAA
37041906 ATGTGTTT
1 ATGTGTTT
37041914 GCTAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (10 bp):
ATGTGTTTAA
Found at i:37041891 original size:19 final size:20
Alignment explanation
Indices: 37041867--37041913 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
37041857 TAAGTCTAAT
37041867 ATGTGTTTAAATGT-ATTTA
1 ATGTGTTTAAATGTGATTTA
*
37041886 ATGTGTTTAAATGTGTTTTA
1 ATGTGTTTAAATGTGATTTA
37041906 ATGTGTTT
1 ATGTGTTT
37041914 GCTAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (20 bp):
ATGTGTTTAAATGTGATTTA
Found at i:37041974 original size:74 final size:74
Alignment explanation
Indices: 37041882--37042020 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 74
37041872 TTTAAATGTA
* *
37041882 TTTAATGTGTTTAAATGTGTTTTAATGTGTTTGCTAATAAATGCTTGCAGGTGACTATTTAGTTG
1 TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
37041947 CTTATCAAG
66 CTTATCAAG
* * *
37041956 TTTAGTGTGTTTAAATGTGTTTAAATGTGTTTGTTAATAAATATTTGCAGGTGACTATTTAGTTG
1 TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
37042021 GAATCAGTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (74 bp):
TTTAATGTGTTTAAATGTGTTTAAATGTGTTTGCTAATAAATACTTGCAGGTGACTATTTAGTTG
CTTATCAAG
Found at i:37041976 original size:10 final size:10
Alignment explanation
Indices: 37041961--37041987 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
37041951 TCAAGTTTAG
37041961 TGTGTTTAAA
1 TGTGTTTAAA
37041971 TGTGTTTAAA
1 TGTGTTTAAA
37041981 TGTGTTT
1 TGTGTTT
37041988 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:37050935 original size:13 final size:14
Alignment explanation
Indices: 37050910--37050938 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
37050900 GTTCAATAGT
37050910 AATCCACAAAATAA
1 AATCCACAAAATAA
37050924 AATCCA-AAAATAA
1 AATCCACAAAATAA
37050937 AA
1 AA
37050939 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (14 bp):
AATCCACAAAATAA
Found at i:37058807 original size:40 final size:41
Alignment explanation
Indices: 37058722--37058837 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 41
37058712 ATAATTAATT
*
37058722 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
* * * * *
37058763 ATACCCCTGAATTACACATATATGCCCC-GTTTGTACTTTG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
* *
37058803 ATACCCCTAAATTGCACATACATGCCCCTTTTTGT
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGT
37058838 GCATCGGTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 34 0.53
41 30 0.47
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (41 bp):
ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
Found at i:37059306 original size:20 final size:21
Alignment explanation
Indices: 37059283--37059322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37059273 GCCACATTCT
*
37059283 TTCAT-TTTTTTCTCATTTAC
1 TTCATCTTCTTTCTCATTTAC
*
37059303 TTCATCTTCTTTCTCTTTTA
1 TTCATCTTCTTTCTCATTTA
37059323 GTTGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCATCTTCTTTCTCATTTAC
Found at i:37066885 original size:35 final size:34
Alignment explanation
Indices: 37066839--37066942 Score: 136
Period size: 34 Copynumber: 3.0 Consensus size: 34
37066829 ATGGGAACAC
*
37066839 TCACGGAACGATAGACAGCCGCACGAAATGAGGAA
1 TCACGAAACGATAGAC-GCCGCACGAAATGAGGAA
* ** *
37066874 TCACGAAACGATAGACGCTGCATAAAATAAGGAA
1 TCACGAAACGATAGACGCCGCACGAAATGAGGAA
* *
37066908 TCACAAAACGATAGATGCCGCACGAAATGAGGAA
1 TCACGAAACGATAGACGCCGCACGAAATGAGGAA
37066942 T
1 T
37066943 TCAACGAATT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 43 0.74
35 15 0.26
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (34 bp):
TCACGAAACGATAGACGCCGCACGAAATGAGGAA
Found at i:37074517 original size:5 final size:5
Alignment explanation
Indices: 37074507--37074554 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
37074497 ATATATATAT
* * *
37074507 ATTCC ATTCC ATACC ATTCC ATTTC ATACC ATTCC ATTCC ATTCC ATT
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATT
37074555 TCATCAAGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:37074527 original size:15 final size:15
Alignment explanation
Indices: 37074507--37074554 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
37074497 ATATATATAT
37074507 ATTCCATTCCATACC
1 ATTCCATTCCATACC
*
37074522 ATTCCATTTCATACC
1 ATTCCATTCCATACC
*
37074537 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
37074552 ATT
1 ATT
37074555 TCATCAAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:37075493 original size:23 final size:23
Alignment explanation
Indices: 37075463--37075511 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
37075453 TATCATTCGA
37075463 TACACGTAGTAGCCTTCACATAG
1 TACACGTAGTAGCCTTCACATAG
37075486 TACACGTAGTAGCCTTCACATAG
1 TACACGTAGTAGCCTTCACATAG
37075509 TAC
1 TAC
37075512 TACACACGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (23 bp):
TACACGTAGTAGCCTTCACATAG
Found at i:37075802 original size:153 final size:149
Alignment explanation
Indices: 37075486--37075829 Score: 404
Period size: 153 Copynumber: 2.3 Consensus size: 149
37075476 CTTCACATAG
* * **
37075486 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTATGGTTCACGTAATAGCCT
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATATTTATAATTCACGTAATAGCCT
* * * * *
37075551 TCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACACAGTACTACA
65 TCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACACAGTACTACA
* * *
37075616 TATGTGACTAAAGCTTTTCGG
130 CATGTGACCAAA-CTTTTCGA
* * * *
37075637 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACGTAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAT-ATTTAT-AATTCACGTAATAGCC
* * *
37075702 TTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACATATTGTAGCCTTCACATAGTACT
64 TTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAGTAGCCTTCACACAGTACT
*
37075766 ACACATGTGACCATTA-TTTATCGA
127 ACACATGTGACCA-AACTTT-TCGA
* *
37075790 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
37075830 ACACTTTCAC
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
150 3 0.02
151 39 0.24
152 39 0.24
153 77 0.48
154 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (149 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATATTTATAATTCACGTAATAGCCTT
CACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTAGCCTTCACACAGTACTACAC
ATGTGACCAAACTTTTCGA
Found at i:37075828 original size:51 final size:51
Alignment explanation
Indices: 37075488--37075829 Score: 347
Period size: 51 Copynumber: 6.7 Consensus size: 51
37075478 TCACATAGTA
*
37075488 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATT-TTTAT-GGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTATCGGTT
* * *
37075538 CACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTATCGGTT
* * * * * *
37075588 CACGTAGTAGCCTTCACACAGTACTACATATGTGACTA-AAGCTTT-TCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA--TTTATCGGTT
* * * * **
37075639 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
* * * * *
37075690 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTATCGGTT
** * * *
37075741 CATATTGTAGCCTTCACATAGTACTACACATGTGACCATTATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
*
37075792 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
37075830 ACACTTTCAC
Statistics
Matches: 240, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.01
50 82 0.34
51 154 0.64
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
Found at i:37075828 original size:102 final size:102
Alignment explanation
Indices: 37075488--37075830 Score: 458
Period size: 102 Copynumber: 3.4 Consensus size: 102
37075478 TCACATAGTA
* * *** * * *
37075488 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTAT-GGTTCACGTAATAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
* * * *
37075552 CACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
66 CACATAGTACTACACATGTGA-CCATTATTTATCGATT
* * * *
37075588 CACGTAGTAGCCTTCACACAGTACTACATATGTGACTAAAGCTTTTCGGTACACATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
* * *
37075653 CACTTAGTACTACACATGTGACCATCATTTATCAATT
66 CACATAGTACTACACATGTGACCATTATTTATCGATT
* * *
37075690 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
37075755 CACATAGTACTACACATGTGACCATTATTTATCGATT
66 CACATAGTACTACACATGTGACCATTATTTATCGATT
37075792 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
37075831 CACTTTCACT
Statistics
Matches: 212, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 39 0.18
101 38 0.18
102 135 0.64
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
CACATAGTACTACACATGTGACCATTATTTATCGATT
Found at i:37080637 original size:40 final size:41
Alignment explanation
Indices: 37080579--37080743 Score: 174
Period size: 41 Copynumber: 4.1 Consensus size: 41
37080569 AAAATGCCGT
* * *
37080579 AAAAGGTAAAGTATTAGCGGCATTTTT-TCATAAACGCCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * * * *
37080619 AAAAAGTAACGCAATAGCGGCGTTTTTCTCGTAAACACCGT
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * *
37080660 AAAAGGTAAATCAATAGCGG-AGTTTTTCTCATAAACGCTGC
1 AAAAGGTAAAGCAATAGCGGCA-TTTTTCTCATAAACACCGC
* * *
37080701 TAAAGGCAAAGCAATAGCGGCATTTTT-ACATAAACACCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
37080741 AAA
1 AAA
37080744 TATTTTTTGC
Statistics
Matches: 99, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 34 0.34
41 64 0.65
42 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (41 bp):
AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
Found at i:37080727 original size:82 final size:81
Alignment explanation
Indices: 37080575--37080727 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 81
37080565 ATTGAAAATG
* * *
37080575 CCGTAAAAGGTAAAGTATTAGCGGCATTTTTTCATAAACGCCGCAAAAAGTAACGCAATAGCGGC
1 CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
*
37080640 GTTTTTCTCGTAAACA
66 ATTTTTCTCGTAAACA
* * *
37080656 CCGTAAAAGGTAAA-TCAATAGCGG-AGTTTTTCTCATAAACGCTGCTAAAGGCAAAGCAATAGC
1 CCGTAAAAGGTAAAGT-AATAGCGGCA-TTTTT-TCATAAACGCCGCAAAAAGCAAAGCAATAGC
37080719 GGCATTTTT
63 GGCATTTTT
37080728 ACATAAACAC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.03
81 26 0.42
82 34 0.55
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
ATTTTTCTCGTAAACA
Found at i:37080735 original size:81 final size:81
Alignment explanation
Indices: 37080575--37080739 Score: 201
Period size: 81 Copynumber: 2.0 Consensus size: 81
37080565 ATTGAAAATG
* * *
37080575 CCGTAAAAGGTAAAGTATTAGCGGCATTTTTTCATAAACGCCGCAAAAAGTAACGCAATAGCGGC
1 CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
* * *
37080640 GTTTTTCTCGTAAACA
66 ATTTTTCACATAAACA
* * *
37080656 CCGTAAAAGGTAAA-TCAATAGCGG-AGTTTTTCTCATAAACGCTGCTAAAGGCAAAGCAATAGC
1 CCGTAAAAGGTAAAGT-AATAGCGGCA-TTTTT-TCATAAACGCCGCAAAAAGCAAAGCAATAGC
37080719 GGCATTTTT-ACATAAACA
63 GGCATTTTTCACATAAACA
37080737 CCG
1 CCG
37080740 CAAATATTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 2 0.03
81 36 0.50
82 34 0.47
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
CCGTAAAAGGTAAAGTAATAGCGGCATTTTTTCATAAACGCCGCAAAAAGCAAAGCAATAGCGGC
ATTTTTCACATAAACA
Found at i:37082223 original size:74 final size:74
Alignment explanation
Indices: 37082102--37082249 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
37082092 AAAAATCCCT
37082102 TGGTTTATATTTGAACTTTGTTAAAACTTGAAATGCTTCAAAAATTATTGATTTTACCTGTGAAT
1 TGGTTTATATTTGAACTTTGTTAAAACTTGAAATGCTTCAAAAATTATTGATTTTACCTGTGAAT
37082167 TTGACCTTC
66 TTGACCTTC
*
37082176 TGGTTTATATTTGAACTTTGTTAAAACTTGAAATGCTTCAAAAATTATTGGTTTTACCTGTGAAT
1 TGGTTTATATTTGAACTTTGTTAAAACTTGAAATGCTTCAAAAATTATTGATTTTACCTGTGAAT
37082241 TTGACCTTC
66 TTGACCTTC
37082250 ATTTGTTTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (74 bp):
TGGTTTATATTTGAACTTTGTTAAAACTTGAAATGCTTCAAAAATTATTGATTTTACCTGTGAAT
TTGACCTTC
Found at i:37083701 original size:29 final size:29
Alignment explanation
Indices: 37083664--37083722 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
37083654 GAATAGAAAC
* *
37083664 TATATTTTTTATTTTTAAAATACACCACA
1 TATAGTTTTTATTTTTAAAAAACACCACA
*
37083693 TATAGTTTTTATTTTTAAAAAACACTACA
1 TATAGTTTTTATTTTTAAAAAACACCACA
37083722 T
1 T
37083723 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAGTTTTTATTTTTAAAAAACACCACA
Found at i:37088872 original size:60 final size:60
Alignment explanation
Indices: 37088807--37088928 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
37088797 ATTTATTCAC
*
37088807 TTATTTACTTCAATTTTTTGTTGTATGATTATGTTTAAAAACTTTAAAGAAAATTATTTT
1 TTATTTACTTCAATTTTTTGTTGTATGAATATGTTTAAAAACTTTAAAGAAAATTATTTT
37088867 TTATTTACTTCAATTTTTTGTTGTATGAATATGTTTAAAAACTTTAAAGAAAATTATTTT
1 TTATTTACTTCAATTTTTTGTTGTATGAATATGTTTAAAAACTTTAAAGAAAATTATTTT
37088927 TT
1 TT
37088929 GAAAAATTAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (60 bp):
TTATTTACTTCAATTTTTTGTTGTATGAATATGTTTAAAAACTTTAAAGAAAATTATTTT
Found at i:37091431 original size:173 final size:173
Alignment explanation
Indices: 37091130--37091457 Score: 396
Period size: 173 Copynumber: 1.9 Consensus size: 173
37091120 ATCCGCTCCA
* * * * * *
37091130 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCATTGCAACTTTAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
37091195 ACTTGCCATCTTGAATCTGCCCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCT
66 ACTTACCAGCTTGAATCTGCCCCACTACAACTTCAGGAGGATAAGACTTGCATACTTAGTCTGCC
37091260 CCACTACAACTTCA-GAGAGATAAGATTTGATGCGATCTACTCT
131 CCACTACAACTTCAGGAG-GATAAGATTTGATGCGATCTACTCT
* *
37091303 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAGAGAGATAAGAT-TATAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
37091367 GA-TTATCGGCTTTAATCTGCTCCACTACAATTTCAGG-GAGATAAGACTTGCCAT-CTTCAGTC
65 GACTTACCAGCTTGAATCTGCCCCACTACAACTTCAGGAG-GATAAGACTTG-CATACTT-AGTC
*
37091429 TGCCCCACTGCAACTTCAGGAGGATAAGA
127 TGCCCCACTACAACTTCAGGAGGATAAGA
37091458 CTTGCTTACT
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
171 1 0.01
172 40 0.31
173 84 0.65
174 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
ACTTACCAGCTTGAATCTGCCCCACTACAACTTCAGGAGGATAAGACTTGCATACTTAGTCTGCC
CCACTACAACTTCAGGAGGATAAGATTTGATGCGATCTACTCT
Found at i:37091457 original size:217 final size:220
Alignment explanation
Indices: 37091071--37091591 Score: 879
Period size: 217 Copynumber: 2.4 Consensus size: 220
37091061 NNNNNNNNTA
*
37091071 GATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAA
1 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAA
* *
37091136 CTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCATTGCAACTTTAGGGAGATAAGACTTGC
66 CTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAGACTTGC
* *
37091201 CATCTTGAATCTGCCCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTA
131 CATCTTCAATCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTA
*
37091266 CAACTTCAGAGAGATAAGA-T-T-T
196 CAACTTCAGAGAGATAAGACTATGC
*
37091288 GATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAA
1 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAA
37091353 CTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTACAA-TTTCAGGGAGATAAGACTTG
66 CTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTACAACTTT-AGGGAGATAAGACTTG
*
37091417 CCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACT
130 CCATCTTCAATCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACT
* *
37091482 GCAACTTCAGGGAGATAAGACTAGATGC
195 ACAACTTCAGAGAGATAAGACT--ATGC
* *
37091510 GATGCGATTTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAA
1 GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAA
37091575 CTTCAGGGAGATAGGAT
66 CTTCAGGGAGATAGGAT
37091592 CTACAATCTT
Statistics
Matches: 285, Mismatches: 13, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
216 3 0.01
217 201 0.71
218 1 0.00
221 1 0.00
222 79 0.28
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (220 bp):
GATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATAAGACTTGC
CATCTTCAATCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTA
CAACTTCAGAGAGATAAGACTATGC
Found at i:37091593 original size:44 final size:44
Alignment explanation
Indices: 37091077--37091594 Score: 300
Period size: 44 Copynumber: 11.8 Consensus size: 44
37091067 NNTAGATGTG
* *
37091077 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTA
* * * *
37091120 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTA
* * * * *
37091164 ATCTGCTCCATTGCAACTTTAGGGAGATAAGA-CT-TGCCATCTTGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT-TTTA
* * * *
37091209 ATCTGCCCCATTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTA
* * * * * ***
37091253 GTCTGCTCCACTACAACTTCAGAGAGATAAGAT-T--TGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTA
* * *
37091294 ATCTACT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTA
* * * *
37091337 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTA
* * * * *
37091381 ATCTGCTCCACTACAATTTCAGGGAGATAAGA-CT-TGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT-TTTA
* * * *
37091426 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTA
* * ***
37091470 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA-A-G-GTTTTA
* * *
37091516 ATTTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTA
** *
37091559 ATCCACTCCACTGCAACTTCAGGGAGATAGGATCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTA
37091595 CAATCTTCAA
Statistics
Matches: 365, Mismatches: 80, Indels: 59
0.72 0.16 0.12
Matches are distributed among these distances:
40 23 0.06
41 6 0.02
42 4 0.01
43 26 0.07
44 204 0.56
45 92 0.25
46 8 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTA
Found at i:37091719 original size:44 final size:44
Alignment explanation
Indices: 37091671--37091856 Score: 119
Period size: 44 Copynumber: 4.2 Consensus size: 44
37091661 TATCTTGGAA
*
37091671 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
*** ** * * * * *
37091715 AGATAAGATTTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * *
37091759 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATC-CGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
37091803 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
37091847 AGATAAGATC
1 AGATAAGATC
37091857 TACAATCTTC
Statistics
Matches: 98, Mismatches: 36, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 80 0.82
45 4 0.04
46 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:37091735 original size:132 final size:132
Alignment explanation
Indices: 37091579--37091967 Score: 688
Period size: 132 Copynumber: 2.9 Consensus size: 132
37091569 CTGCAACTTC
* *
37091579 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGTTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
37091644 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
37091709 TT
131 TT
*
37091711 AGGGAGATAAGATTTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
37091776 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
37091841 TT
131 TT
* * *
37091843 AAGGAGATAAGATCTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* ** *
37091908 TTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACT
37091968 GTCAATGCAG
Statistics
Matches: 246, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 246 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:37093245 original size:12 final size:12
Alignment explanation
Indices: 37093230--37093278 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
37093220 TTTCTTTCAC
*
37093230 TTTTATTTTTTG
1 TTTTTTTTTTTG
*
37093242 TTTTGTTTTTTG
1 TTTTTTTTTTTG
37093254 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
37093267 TTTTTTTTTTTG
1 TTTTTTTTTTTG
37093279 AATCTGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 22 0.65
13 12 0.35
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:37093252 original size:7 final size:7
Alignment explanation
Indices: 37093230--37093277 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
37093220 TTTCTTTCAC
*
37093230 TTTTATT
1 TTTTGTT
37093237 TTTTG--
1 TTTTGTT
37093242 TTTTGTT
1 TTTTGTT
37093249 TTTTGTT
1 TTTTGTT
37093256 TTTTG-T
1 TTTTGTT
37093262 TTTTGTT
1 TTTTGTT
37093269 TTTT-TT
1 TTTTGTT
37093275 TTT
1 TTT
37093278 GAATCTGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.14
6 11 0.30
7 21 0.57
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:37093252 original size:19 final size:19
Alignment explanation
Indices: 37093230--37093277 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
37093220 TTTCTTTCAC
*
37093230 TTTTATTTTTTG-TTTTGT
1 TTTTTTTTTTTGTTTTTGT
37093248 TTTTTGTTTTTTGTTTTTGT
1 TTTTT-TTTTTTGTTTTTGT
37093268 TTTTTTTTTT
1 TTTTTTTTTT
37093278 GAATCTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 11 0.41
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTGTTTTTGT
Found at i:37097612 original size:29 final size:28
Alignment explanation
Indices: 37097576--37097653 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
37097566 TCATGAGATT
37097576 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
37097606 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
37097633 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
37097654 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:37097871 original size:174 final size:174
Alignment explanation
Indices: 37097606--37097933 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
37097596 AAATTGTACA
*
37097606 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
37097671 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37097736 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
37097780 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
37097845 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37097910 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
37097934 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37106224 original size:32 final size:32
Alignment explanation
Indices: 37106186--37106249 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
37106176 AAAACATTAA
*
37106186 TATAAACATAACATAATCAATTCCTATACATG
1 TATAAACATAACATAATCAATTCATATACATG
*
37106218 TATAAACATAGCATAATCAATTCATATACATG
1 TATAAACATAACATAATCAATTCATATACATG
37106250 CATATTGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (32 bp):
TATAAACATAACATAATCAATTCATATACATG
Found at i:37108358 original size:41 final size:41
Alignment explanation
Indices: 37108286--37108381 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
37108276 GGCTCTGTGC
**
37108286 CTAGCAGGCTTAATGCCAGTGATGTAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
** * *
37108327 CTAGCAGGCTTAATGCTGGTGAAATATTTCAGACTTTAGGT
1 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
*
37108368 CTAGTAGGCTTAAT
1 CTAGCAGGCTTAAT
37108382 ACCGGTGTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
Found at i:37118008 original size:41 final size:41
Alignment explanation
Indices: 37117944--37118054 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
37117934 TCCAAAGTGT
* * * * *
37117944 AAACAGGGGCACTTATGTGCAATTCAGGTGTATCGAAGTAC
1 AAACAGAGGCACATACGTACAATTCAGGGGTATCGAAGTAC
*
37117985 AAACA-AGGTCACATACGTACAATTCAGGGGTATGGAAGTAC
1 AAACAGAGG-CACATACGTACAATTCAGGGGTATCGAAGTAC
* * *
37118026 AAACAGAGGCACGTATGTGCAATTCAGGG
1 AAACAGAGGCACATACGTACAATTCAGGG
37118055 AATAATTAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.03
41 54 0.92
42 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (41 bp):
AAACAGAGGCACATACGTACAATTCAGGGGTATCGAAGTAC
Found at i:37121222 original size:18 final size:18
Alignment explanation
Indices: 37121199--37121233 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37121189 ACGATGTGCC
37121199 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
37121217 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
37121234 ATTGTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:37124156 original size:13 final size:13
Alignment explanation
Indices: 37124138--37124163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37124128 ATAGTTACTG
37124138 AAATTATTATAAT
1 AAATTATTATAAT
37124151 AAATTATTATAAT
1 AAATTATTATAAT
37124164 TAAGATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:37133735 original size:48 final size:48
Alignment explanation
Indices: 37133643--37133768 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
37133633 AAAACAGATT
* * * ** *
37133643 TCTCGGTGGCCTACACATAGTCCGTACCACCTTTGTGTAATAACAGAC
1 TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTCTACAATAACAGAA
* **
37133691 TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTCTACCTTAACAGAA
1 TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTCTACAATAACAGAA
* * *
37133739 TATTGGTGGCCTACACACAGTCCGTGCCAC
1 TCTCGGTGGCCTACACATAGTCCGTGCCAC
37133769 ATATGCGACC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (48 bp):
TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTCTACAATAACAGAA
Found at i:37137055 original size:22 final size:22
Alignment explanation
Indices: 37137030--37137121 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
37137020 AAATTCAATA
* *
37137030 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
37137052 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
37137074 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
37137096 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
37137118 TCAA
1 TCAA
37137122 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:37137137 original size:52 final size:51
Alignment explanation
Indices: 37137071--37137173 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
37137061 TTCAAAATTT
* * *
37137071 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
37137123 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
37137174 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:37137162 original size:21 final size:22
Alignment explanation
Indices: 37137123--37137164 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37137113 TTCTCTCAAA
37137123 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
37137145 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
37137165 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:37137270 original size:29 final size:30
Alignment explanation
Indices: 37137208--37137270 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
37137198 TAAATTTCAT
* *
37137208 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
37137238 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
37137267 TTTT
1 TTTT
37137271 CAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:37138060 original size:124 final size:125
Alignment explanation
Indices: 37137840--37138119 Score: 372
Period size: 124 Copynumber: 2.3 Consensus size: 125
37137830 CCACGAGGGC
* *
37137840 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGC
1 GCGATTTCACACTATTTCCTCAGAAAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGC
* * * * **
37137904 AAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
37137964 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTA-TTTCTCACATGACC-ACTGTAG
1 GCGATTTCACACTATTTCCTCAGAAAACGTCAAAAAAAATTACTTCCT-ACATGACCAACTGTAG
* * *
37138027 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
65 CAAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
37138088 GCGATTTCCCACTATTTCAC-CA-AAAACGTCAA
1 GCGATTTCACACTATTTC-CTCAGAAAACGTCAA
37138120 CTCGAAAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
123 10 0.07
124 100 0.73
125 27 0.20
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (125 bp):
GCGATTTCACACTATTTCCTCAGAAAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGC
AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:37139427 original size:30 final size:29
Alignment explanation
Indices: 37139376--37139521 Score: 93
Period size: 30 Copynumber: 4.9 Consensus size: 29
37139366 ACAAAAATAC
*
37139376 AAATTATATTTT-AGCCTCTAAACTTTTCAA
1 AAATTATATTTTGA-CCCCTAAA-TTTTCAA
*
37139406 AAATTATATTTTGACCCCTAAATTTTTCTA
1 AAATTATATTTTGACCCCTAAA-TTTTCAA
* **
37139436 AATTTGCAT-TTTTGACCCCTAATATTTT-GT
1 AAATT--ATATTTTGACCCCTAA-ATTTTCAA
** * *
37139466 AAATTATATTCAGGCCCCTAAAATTTTTAA
1 AAATTATATTTTGACCCCT-AAATTTTCAA
* * *
37139496 AAATTACATTTTG-GCCCTATATTTTC
1 AAATTATATTTTGACCCCTAAATTTTC
37139522 CTAAAATTGC
Statistics
Matches: 91, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
28 8 0.09
29 17 0.19
30 45 0.49
31 18 0.20
32 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (29 bp):
AAATTATATTTTGACCCCTAAATTTTCAA
Found at i:37139487 original size:90 final size:88
Alignment explanation
Indices: 37139376--37139552 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 88
37139366 ACAAAAATAC
* * * * * *
37139376 AAATTATATTTTAGCCTCTAAACTTTTCAAAAATTATATTTTGACCCCTAAATTTTTCTAAATTT
1 AAATTATATTTCAGCCCCTAAAATTTTCAAAAATTACATTTTG-CCCCTAAATTTTCCTAAAATT
*
37139441 GCATTTTTGACCCCTAATATTTTGT
65 GCATTTTT-ACCCCAAATATTTTGT
* * *
37139466 AAATTATA-TTCAGGCCCCTAAAATTTTTAAAAATTACATTTTGGCCCTATATTTTCCTAAAATT
1 AAATTATATTTCA-GCCCCTAAAATTTTCAAAAATTACATTTTGCCCCTAAATTTTCCTAAAATT
37139530 GCATTTTTACCCCAAATATTTTG
65 GCATTTTTACCCCAAATATTTTG
37139553 CGTCTTCTAC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
88 14 0.18
89 28 0.37
90 34 0.45
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (88 bp):
AAATTATATTTCAGCCCCTAAAATTTTCAAAAATTACATTTTGCCCCTAAATTTTCCTAAAATTG
CATTTTTACCCCAAATATTTTGT
Found at i:37140138 original size:19 final size:19
Alignment explanation
Indices: 37140108--37140181 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 19
37140098 AAGAAGTGAA
37140108 AAAAGAAAAAAAATAGCAAG
1 AAAAGAAAAAAAA-AGCAAG
*
37140128 AAAAGAAAAAAACAGCAAGG
1 AAAAGAAAAAAAAAGCAA-G
*
37140148 AAAAAAAGAAAAAAAAAGGAA-
1 ---AAAAGAAAAAAAAAGCAAG
37140169 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
37140182 TGGGAGAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 13 0.28
19 5 0.11
20 13 0.28
23 16 0.34
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.01
Consensus pattern (19 bp):
AAAAGAAAAAAAAAGCAAG
Found at i:37140291 original size:5 final size:4
Alignment explanation
Indices: 37140270--37140357 Score: 51
Period size: 4 Copynumber: 21.5 Consensus size: 4
37140260 CTGAACGGGG
*
37140270 AAGA AAGA AAGAA AAGA GAAGA AACA AAGA AGGAGA AA-A AAGA AAG-
1 AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA A--AGA AAGA AAGA AAGA
* *
37140316 AAG- AAGG AAG- AAGA AAGGGA AAGA AA-A AAGGA AAAA AAGA AA
1 AAGA AAGA AAGA AAGA AA--GA AAGA AAGA AA-GA AAGA AAGA AA
37140358 AAAATTAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
3 15 0.22
4 35 0.51
5 11 0.16
6 8 0.12
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Done.