Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 267 of 325
Found at i:87195716 original size:94 final size:94
Alignment explanation
Indices: 87195593--87195790 Score: 281
Period size: 94 Copynumber: 2.1 Consensus size: 94
87195583 CAGACAGGTT
*
87195593 TTACACTAGCCTATATATCGCGAGGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATA
1 TTACACTAGCCTAAATATCGCGAGGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCAT-
* * *
87195658 TCAATGTC-GATGCATGTCCCAAACATGTC
65 GCAATGGCTAATGCATGTCCCAAACATGTC
* * * *
87195687 TTACACTGGCTTAAATATCTCGAGGTCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATG
1 TTACACTAGCCTAAATATCGCGAGGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATG
** *
87195752 CTGTGGCTAATGCATGTCCCAGACATGTC
66 CAATGGCTAATGCATGTCCCAAACATGTC
87195781 TTACACTAGC
1 TTACACTAGC
87195791 AGACAATCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 4 0.04
94 87 0.96
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (94 bp):
TTACACTAGCCTAAATATCGCGAGGTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATG
CAATGGCTAATGCATGTCCCAAACATGTC
Found at i:87208826 original size:46 final size:46
Alignment explanation
Indices: 87208719--87208939 Score: 177
Period size: 46 Copynumber: 4.8 Consensus size: 46
87208709 GTATATTTGT
* * * *
87208719 GCCGATGACATGTCCTAGACATAGTCTTACACTAACATA--TCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCT-GAAG
*
87208765 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTGAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTGAAG
* * *
87208811 GCCGATGCATATCCCAGACATGTCTTACACTAG--TACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA--CGTCTGAAG
* * * * * *
87208857 GCCAACGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATG-TG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACGT-CTGAAG
*
87208905 GCTGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
87208940 CACACAAGTG
Statistics
Matches: 142, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 16 0.11
45 15 0.11
46 65 0.46
47 27 0.19
48 17 0.12
49 1 0.01
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTGAAG
Found at i:87214436 original size:20 final size:20
Alignment explanation
Indices: 87214411--87214472 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
87214401 CGATTGAGAG
87214411 GTGTTGTGACCAACTCCCAT
1 GTGTTGTGACCAACTCCCAT
*
87214431 GTGTTGTTGACTAA-----A-
1 GTGTTG-TGACCAACTCCCAT
87214446 GTGTTGTGACCAACTCCCAT
1 GTGTTGTGACCAACTCCCAT
87214466 GTGTTGT
1 GTGTTGT
87214473 TGACTAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 1 0.03
19 1 0.03
20 13 0.39
21 6 0.18
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
GTGTTGTGACCAACTCCCAT
Found at i:87214457 original size:35 final size:35
Alignment explanation
Indices: 87214411--87214482 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
87214401 CGATTGAGAG
87214411 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
1 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
87214446 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
1 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
87214481 GT
1 GT
87214483 TGACAACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (35 bp):
GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
Found at i:87216316 original size:21 final size:21
Alignment explanation
Indices: 87216290--87216332 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
87216280 GGTTCGCTGT
*
87216290 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
87216311 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
87216332 A
1 A
87216333 ATAGAGGTGT
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:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:87216332 original size:16 final size:16
Alignment explanation
Indices: 87216313--87216345 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
87216303 TGTATTGGAT
*
87216313 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
87216329 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
87216345 T
1 T
87216346 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:87216390 original size:45 final size:44
Alignment explanation
Indices: 87216324--87216418 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
87216314 GGATTAGAGG
* *
87216324 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
87216369 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
87216413 TGTAAT
1 TGTAAT
87216419 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:87216601 original size:18 final size:17
Alignment explanation
Indices: 87216580--87216614 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87216570 TTATTATTTA
*
87216580 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87216598 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87216615 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87216727 original size:144 final size:147
Alignment explanation
Indices: 87216499--87216770 Score: 460
Period size: 144 Copynumber: 1.9 Consensus size: 147
87216489 ATGATTATTG
87216499 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAACCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAACCATATTTAA
* *
87216564 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
87216629 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
* *
87216648 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAACCATATTTAAAC
*
87216710 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
87216771 ATATTCTTAT
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
144 89 0.75
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAACCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:87216745 original size:18 final size:17
Alignment explanation
Indices: 87216724--87216758 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87216714 TTATTATTAA
*
87216724 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
87216742 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
87216759 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:87220282 original size:30 final size:30
Alignment explanation
Indices: 87220248--87220317 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
87220238 ACCCAGACTA
* *
87220248 ATAACACCCAGTTGAAGAAGGTCCAAACTG
1 ATAACACCCAATTGAAGAAGGTCAAAACTG
87220278 ATAACACCCAATTGAAGAAGGTCAAAACTG
1 ATAACACCCAATTGAAGAAGGTCAAAACTG
87220308 ATCAA-ACCCA
1 AT-AACACCCA
87220318 TATGAACTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (30 bp):
ATAACACCCAATTGAAGAAGGTCAAAACTG
Found at i:87231202 original size:15 final size:16
Alignment explanation
Indices: 87231182--87231217 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
87231172 CTACACAAAA
87231182 TAAAACCCTAAACC-T
1 TAAAACCCTAAACCTT
*
87231197 TAAAACTCTAAACCTT
1 TAAAACCCTAAACCTT
87231213 TAAAA
1 TAAAA
87231218 AAGTTCAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAACCCTAAACCTT
Found at i:87240083 original size:49 final size:49
Alignment explanation
Indices: 87240026--87240124 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
87240016 AATACTAAAC
87240026 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
1 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
*
87240075 ATGCTAAGAGTACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
1 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
87240124 A
1 A
87240125 CAACCATGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (49 bp):
ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
Found at i:87240454 original size:15 final size:15
Alignment explanation
Indices: 87240430--87240465 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
87240420 ACACAATATA
* *
87240430 TAAATGTTAAAATTT
1 TAAATTTTAAAACTT
87240445 TAAATTTTAAAACTT
1 TAAATTTTAAAACTT
87240460 TAAATT
1 TAAATT
87240466 ATTATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTTTAAAACTT
Found at i:87250619 original size:41 final size:41
Alignment explanation
Indices: 87250574--87250683 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 41
87250564 TGTCAAGTCT
*
87250574 TGAGCCTAGCAGGCTTCATGCCAGTGCATTAAATCAGGCCA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
* * * * * *
87250615 TGAGCTTAGCAAGCTTCGA-GCCGGTGAATTGAATCAGGTCT
1 TGAGCCTAGCAGGCTTC-ATGCCAGTGAATTAAATCAGGCCA
* *
87250656 TGAGCCTAGAAGGCTTCATGCCGGTGAA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAA
87250684 CTATATCAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
Found at i:87262064 original size:15 final size:16
Alignment explanation
Indices: 87262038--87262068 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
87262028 CCCCTAGACT
87262038 TTTCCACTTTTCAAGC
1 TTTCCACTTTTCAAGC
87262054 TTTCC-CTTTTCAAGC
1 TTTCCACTTTTCAAGC
87262069 ACTAAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTCCACTTTTCAAGC
Found at i:87267435 original size:48 final size:48
Alignment explanation
Indices: 87267364--87267456 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
87267354 AAGACATTTG
87267364 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
1 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
*
87267412 GTTGATATGTGTGCTAGTGTAAGACTATGTTTGGGACATGGCATC
1 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATC
87267457 GGCCATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (48 bp):
GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCAGC
Found at i:87267479 original size:48 final size:48
Alignment explanation
Indices: 87267379--87267481 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
87267369 TATGTGTGCT
** *** *
87267379 AGTGTAAGACTATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCT
1 AGTGTAAGACTATGTCTGGGACATGGCATCAGCCATGATATGAAAGCC
* *
87267427 AGTGTAAGACTATGTTTGGGACATGGCATCGGCCAT-ATTATGAAAGCC
1 AGTGTAAGACTATGTCTGGGACATGGCATCAGCCATGA-TATGAAAGCC
87267475 AGTGTAA
1 AGTGTAA
87267482 CAGCCCGACT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (48 bp):
AGTGTAAGACTATGTCTGGGACATGGCATCAGCCATGATATGAAAGCC
Found at i:87274836 original size:36 final size:36
Alignment explanation
Indices: 87274791--87274861 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
87274781 AAATTTCTAA
*
87274791 TTTTCAGCATTTACATCCATGACCCATTTTTCATAT
1 TTTTCAGCATATACATCCATGACCCATTTTTCATAT
*
87274827 TTTTCAGCATATACATTCATGACCCATTTTTCATA
1 TTTTCAGCATATACATCCATGACCCATTTTTCATA
87274862 CTTTGATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.44
Consensus pattern (36 bp):
TTTTCAGCATATACATCCATGACCCATTTTTCATAT
Found at i:87281163 original size:23 final size:24
Alignment explanation
Indices: 87281112--87281215 Score: 95
Period size: 24 Copynumber: 4.2 Consensus size: 24
87281102 TTTCTGATAT
*
87281112 TTTGTTTCTCCTACTTTTCGATTCC
1 TTTGTTTCT-TTACTTTTCGATTCC
*
87281137 TTTGTTTCTTTACTTTTC-CTTCC
1 TTTGTTTCTTTACTTTTCGATTCC
* * * *
87281160 TTTGTTCTCCCCTCATCCTTTC-CTTCC
1 TTTGTT-T--CTTTA-CTTTTCGATTCC
87281187 TTTGTTTCTTTACTTTTCGATTCC
1 TTTGTTTCTTTACTTTTCGATTCC
87281211 TTTGT
1 TTTGT
87281216 GCATTGTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
23 15 0.23
24 21 0.32
25 9 0.14
26 4 0.06
27 16 0.25
ACGTcount: A:0.06, C:0.29, G:0.07, T:0.59
Consensus pattern (24 bp):
TTTGTTTCTTTACTTTTCGATTCC
Found at i:87288808 original size:30 final size:30
Alignment explanation
Indices: 87288760--87288819 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87288750 ATTCCCGACC
87288760 TAGGGGAAAAAGTATAATTATGCAAAAGTT
1 TAGGGGAAAAAGTATAATTATGCAAAAGTT
* * *
87288790 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTATAATTATGCAAAAGTT
87288820 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTATAATTATGCAAAAGTT
Found at i:87292836 original size:21 final size:22
Alignment explanation
Indices: 87292784--87292836 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
87292774 AAATAAAGTC
*
87292784 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
87292805 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
87292827 CATGTATCAT
1 CATGTATCAT
87292837 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:87296890 original size:42 final size:41
Alignment explanation
Indices: 87296843--87296928 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 41
87296833 TGCTAAACAA
* *
87296843 AAACCCATAAGGGCTGAACGGAAGCACATAAA-AGCTGAATAG
1 AAACCCATAAGGGCTAAACAGAAGCACA-AAAGAGCTGAAT-G
* * *
87296885 AAACCCATCAGGGTTAAACAGAAGCTCAAAAGAGCTGAATG
1 AAACCCATAAGGGCTAAACAGAAGCACAAAAGAGCTGAATG
87296926 AAA
1 AAA
87296929 ACTCATGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 7 0.18
42 31 0.82
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.13
Consensus pattern (41 bp):
AAACCCATAAGGGCTAAACAGAAGCACAAAAGAGCTGAATG
Found at i:87297579 original size:34 final size:34
Alignment explanation
Indices: 87297498--87297593 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
87297488 TTTCAGTTAG
* * *
87297498 GGGCCTTAGCCCCTCTTTCAGTAGCAGTAACAGTTT
1 GGGCCTTAGCCCAT-TTT-AGTATCAGTAACAGTCT
* * **
87297534 GGGTCTGAGCCCATTTTAGTATCAGTGGCAGTCT
1 GGGCCTTAGCCCATTTTAGTATCAGTAACAGTCT
*
87297568 GGGCCTTAGCCCATTTCAGTAT-AGTA
1 GGGCCTTAGCCCATTTTAGTATCAGTA
87297594 TGCAAACACA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 3 0.06
34 32 0.65
35 3 0.06
36 11 0.22
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTTAGTATCAGTAACAGTCT
Found at i:87299950 original size:61 final size:61
Alignment explanation
Indices: 87299885--87300023 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 61
87299875 ATCAGTGTTA
* * *
87299885 ACTGGGCCTTAGCCCATATCAATATTAATCTAGGTCATAGCCC-CTTACAATATC-AGAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAA-ATCGAGA-TAT
* * * *
87299946 ACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAATCGAGATAT
87300006 ACTGGGCCTT-GCCCATAT
1 ACTGGGCCTTAGCCCATAT
87300024 TAACATAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
60 50 0.74
61 18 0.26
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (61 bp):
ACTGGGCCTTAGCCCATATCAATATCAATCTAGGCCATAGCCCTATTACAAATCGAGATAT
Found at i:87301479 original size:14 final size:14
Alignment explanation
Indices: 87301454--87301496 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
87301444 GCTATAGAGG
*
87301454 AGAA-AAGAAAAACA
1 AGAAGAAGAAAAA-T
87301468 AGAAGAAGAAAAAT
1 AGAAGAAGAAAAAT
87301482 AGAAGAAGAGAAAAT
1 AGAAGAAGA-AAAAT
87301497 GAAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (14 bp):
AGAAGAAGAAAAAT
Found at i:87302966 original size:13 final size:13
Alignment explanation
Indices: 87302948--87302972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87302938 ATTCGAGTCC
87302948 AAAAAATATTTTA
1 AAAAAATATTTTA
87302961 AAAAAATATTTT
1 AAAAAATATTTT
87302973 CTGTGTTTAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTA
Found at i:87304404 original size:56 final size:56
Alignment explanation
Indices: 87304299--87304503 Score: 285
Period size: 56 Copynumber: 3.8 Consensus size: 56
87304289 ATGTATATGA
* *
87304299 GGCATTGATATGT-ATTCCGCTATATGTGTGC--G--AGACCACGTTTTATATGTT
1 GGCATTGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
* * * *
87304350 GGAATTGATATGTGACTCCGATATATGTGTGCAAGTAAGATCATGTTTTATATGTT
1 GGCATTGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
* *
87304406 GGCATTGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATTGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
* *
87304462 GGCATCGATACGTGACTCCGATATATGTGTGCGAGTAAGACC
1 GGCATTGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
87304504 CTGTCTGGGA
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
51 12 0.09
52 16 0.12
54 1 0.01
56 106 0.79
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (56 bp):
GGCATTGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
Found at i:87304529 original size:112 final size:112
Alignment explanation
Indices: 87304331--87304532 Score: 269
Period size: 112 Copynumber: 1.8 Consensus size: 112
87304321 TATGTGTGCG
* * * *
87304331 AGACCACGTTTTATATGTTGGAATTGATATGTGACTCCGATATATGTGTGCAAGTAAGATCATGT
1 AGACCACGTTTTATACGTTGGAATCGATACGTGACTCCGATATATGTGTGCAAGTAAGACCATGT
* * * ** *
87304396 TTTATATGTTGGCATTGATATGTGACTCTGATATATGTGTGCGAGTA
66 CTGAGACATTGACATTGATATGTGACTCTGATATATGTGTGCGAGTA
* * *
87304443 AGACCACGTTTTATACGTTGGCATCGATACGTGACTCCGATATATGTGTGCGAGTAAGACCCTGT
1 AGACCACGTTTTATACGTTGGAATCGATACGTGACTCCGATATATGTGTGCAAGTAAGACCATGT
* *
87304508 CTGGGACATTGACATTTATATGTGA
66 CTGAGACATTGACATTGATATGTGA
87304533 TTACATGTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
112 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (112 bp):
AGACCACGTTTTATACGTTGGAATCGATACGTGACTCCGATATATGTGTGCAAGTAAGACCATGT
CTGAGACATTGACATTGATATGTGACTCTGATATATGTGTGCGAGTA
Found at i:87309412 original size:34 final size:33
Alignment explanation
Indices: 87309374--87309437 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
87309364 TAGCAGTAAC
* * *
87309374 AGTCTGGGTCTGAGCCCATTTCAGTATCAGTGGT
1 AGTCTGGGCCTCAGCCCATCTCAGTA-CAGTGGT
87309408 AGTCTGGGCCTCAGCCCATCTCAGTACAGT
1 AGTCTGGGCCTCAGCCCATCTCAGTACAGT
87309438 AAGCAGACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.28
Consensus pattern (33 bp):
AGTCTGGGCCTCAGCCCATCTCAGTACAGTGGT
Found at i:87314272 original size:32 final size:32
Alignment explanation
Indices: 87314231--87314293 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
87314221 TTTAATGAAG
87314231 GTTAGTAAATGATCGATTTGCCACAGAATCTT
1 GTTAGTAAATGATCGATTTGCCACAGAATCTT
87314263 GTTAGTAAATGATCGATTTGCCACAGAATCT
1 GTTAGTAAATGATCGATTTGCCACAGAATCT
87314294 CCATAACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (32 bp):
GTTAGTAAATGATCGATTTGCCACAGAATCTT
Found at i:87318994 original size:25 final size:25
Alignment explanation
Indices: 87318916--87318996 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
87318906 AAGCTCTTCC
* * *
87318916 GAGCTGAATAACGCTAAGCTCATACA
1 GAGCTGAGTATCGATAAGCTCATA-A
* *
87318942 -AGCTAAGTATCGATAAGCTCATAC
1 GAGCTGAGTATCGATAAGCTCATAA
*
87318966 GAGCTGAGTATCGGTAAGCTCATAA
1 GAGCTGAGTATCGATAAGCTCATAA
87318991 GAGCTG
1 GAGCTG
87318997 GAGTCGGTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCTGAGTATCGATAAGCTCATAA
Found at i:87321169 original size:42 final size:42
Alignment explanation
Indices: 87321084--87321169 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
87321074 TATATAGTCA
* * *
87321084 AAGCTATCTCGATCTCGCACACTAAGTGCAAATATATATCCG
1 AAGCTATCTCGATCTCACACACTAAGTGCAAATAAATAGCCG
* * **
87321126 AAGCTATCTCGATTTCACACACTGAGTGCCCATAAATAGCCG
1 AAGCTATCTCGATCTCACACACTAAGTGCAAATAAATAGCCG
87321168 AA
1 AA
87321170 TTGTTGTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
AAGCTATCTCGATCTCACACACTAAGTGCAAATAAATAGCCG
Found at i:87329825 original size:18 final size:18
Alignment explanation
Indices: 87329780--87329831 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
87329770 TTATTTGGGG
* *
87329780 TTTGAATTTGATTTTAGTA
1 TTTG-ATTTTATTTTAGGA
*
87329799 TTTTATTTTATTTTAGGA
1 TTTGATTTTATTTTAGGA
*
87329817 TTTGATTTTTTTTTA
1 TTTGATTTTATTTTA
87329832 AAGTCAGTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (18 bp):
TTTGATTTTATTTTAGGA
Found at i:87334012 original size:36 final size:36
Alignment explanation
Indices: 87333965--87334036 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
87333955 AATTCAGTTA
87333965 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
1 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
87334001 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
1 GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
87334037 TTTTGAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (36 bp):
GGCTTGAAATAAGGATTAAATTGCGTGAATTTCATT
Found at i:87338776 original size:45 final size:46
Alignment explanation
Indices: 87338680--87338852 Score: 173
Period size: 45 Copynumber: 3.9 Consensus size: 46
87338670 TTTTCTCATA
* * *
87338680 TCACCGGCATT-TTGCCTGCTAGGA-TCG--AGGCCCGATTA-TCATT
1 TCACCGGCATTATAGCCTGCTA-GACTCGAAAGGCCCGAATAGT-ATC
*
87338723 TCATCGGCATTATAGCCTGCTAGACTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGACTCGAAAGGCCCGAATAGTATC
* * *
87338768 TCACCGGCATTATAGCCTGCTAGGC-CCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGACTCGAAAGGCCCGAATAGTATC
* * * *
87338813 TCACCAGTATAATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGACTCGAAAGGCCCGAATA
87338853 TAATACCAGC
Statistics
Matches: 112, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
43 12 0.11
44 16 0.14
45 81 0.72
46 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (46 bp):
TCACCGGCATTATAGCCTGCTAGACTCGAAAGGCCCGAATAGTATC
Found at i:87338893 original size:38 final size:38
Alignment explanation
Indices: 87338845--87339015 Score: 234
Period size: 38 Copynumber: 4.5 Consensus size: 38
87338835 GGCTCAAAGG
* * *
87338845 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
87338883 CCCGGATATAATACCAGCACGAAGACTGTGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
87338921 CCCGGATATATTACCAGCATGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
87338959 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
87338997 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
87339016 TATAGCATGC
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 116 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:87339034 original size:76 final size:76
Alignment explanation
Indices: 87338875--87339042 Score: 216
Period size: 76 Copynumber: 2.2 Consensus size: 76
87338865 TAGGCCTGCG
* *
87338875 GGATTTAACCCGGATATAATACCAGCACGAAGACTGTGGGAATTAACCCGGATATATTACCAGCA
1 GGATTTAACCCGGATATAATACCAGCACGAAGACTGCGAGAATTAACCCGGATATATTACCAGCA
*
87338940 TGAAGCCTGCA
66 TGAAGCATGCA
* * *
87338951 GGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAATT-CCAGC
1 GGATTTAACCCGGATATAATACCAGCACGAAGACTGCGAGAATTAACCCGGATAT-ATTACCAGC
87339015 AT-ATAGCATGC-
65 ATGA-AGCATGCA
* *
87339026 GGTCTTTAAGCCGGATA
1 GG-ATTTAACCCGGATA
87339043 CAAATATCAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
75 3 0.04
76 75 0.93
77 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (76 bp):
GGATTTAACCCGGATATAATACCAGCACGAAGACTGCGAGAATTAACCCGGATATATTACCAGCA
TGAAGCATGCA
Found at i:87339420 original size:43 final size:43
Alignment explanation
Indices: 87339312--87339446 Score: 155
Period size: 43 Copynumber: 3.1 Consensus size: 43
87339302 ACATAACATT
**
87339312 TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCTCAAATAA
1 TCATTTCACCGGCATTATAGCCTACTAGGCTCAAA-GC-CCGAT-A
* * *
87339358 T-ATTTCACTGGCATCATAGCCTACTAAGCTCAAAGCCCGATA
1 TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGATA
* * *
87339400 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCG-ATA
87339444 TCA
1 TCA
87339447 CATTTCGATA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.46
44 8 0.11
45 30 0.39
46 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGATA
Found at i:87340711 original size:39 final size:39
Alignment explanation
Indices: 87340657--87340735 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
87340647 TAAACACTTA
*
87340657 AGAACTTACCTTGAACGTTGCCAAATGATTACAACAGCT
1 AGAACTTACCTTGAACGTTGCCAAACGATTACAACAGCT
* *
87340696 AGAACTTACCTTGAACGTTGCCGAACGATTACAACGGCT
1 AGAACTTACCTTGAACGTTGCCAAACGATTACAACAGCT
87340735 A
1 A
87340736 TTCAATTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (39 bp):
AGAACTTACCTTGAACGTTGCCAAACGATTACAACAGCT
Found at i:87353662 original size:275 final size:275
Alignment explanation
Indices: 87353171--87353736 Score: 1105
Period size: 275 Copynumber: 2.1 Consensus size: 275
87353161 ACTAACTTGC
*
87353171 TAACTTGCTTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
1 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
87353236 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATAAACTTACTAAGCATTAA
66 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATAAACTTACTAAGCATTAA
87353301 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
131 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
87353366 GTCAGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
196 GTCAGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
87353431 ATGGCATGTATAGAT
261 ATGGCATGTATAGAT
87353446 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
1 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
*
87353511 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
66 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATAAACTTACTAAGCATTAA
87353576 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
131 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
*
87353641 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
196 GTCAGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
87353706 ATGGCATGTATAGAT
261 ATGGCATGTATAGAT
87353721 TAACTTGCCTAATTGA
1 TAACTTGCCTAATTGA
87353737 TGACTTGTAA
Statistics
Matches: 288, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 288 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (275 bp):
TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATAAACTTACTAAGCATTAA
CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
GTCAGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
ATGGCATGTATAGAT
Found at i:87359089 original size:48 final size:48
Alignment explanation
Indices: 87358874--87359239 Score: 242
Period size: 48 Copynumber: 7.7 Consensus size: 48
87358864 TAGGGTATAA
* * * *
87358874 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACG
* * * * * *
87358923 T--CGATGCTATGTCCCAAACATGGTCTTACACTGAC-TATCAAAATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATA-CG
* * ** * * *
87358969 AGGCTGACACCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TATACG
* *
87359020 TGCCGATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
*
87359068 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATC--T-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
* * * *
87359113 TAGCTGATG-CATGTCCCAGACAT-GTCTTACACT-A-GC-TCTCATTTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-A-TAC-G
* * * * *
87359160 TACCGATGCCATATCCCAGACATGGTCTTACACTGGCTC-TC-ATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACG
*
87359207 TGGCCGATG-CATGTCCCATACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
87359240 AGCACACAAA
Statistics
Matches: 249, Mismatches: 46, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
43 1 0.00
44 10 0.04
45 18 0.07
46 28 0.11
47 59 0.24
48 63 0.25
49 29 0.12
50 33 0.13
51 3 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
Found at i:87359213 original size:140 final size:144
Alignment explanation
Indices: 87358876--87359239 Score: 408
Period size: 140 Copynumber: 2.5 Consensus size: 144
87358866 GGGTATAATG
* * *
87358876 CCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATCCATCAAGT--CGATGCTATGTCCCA
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTC-T-CAT-AAGTGCCGATGCCATGTCCCA
*
87358939 AACATGGTCTTACACTGACTATCAAAATTGAGGCTGACACCATGTCCCAGACATGGTCTTACACT
63 AACATGGTCTTACACTGACTATCAAAATCGAGGCTGACACCATGTCCCAGACATGGTCTTACACT
** *
87359004 AGCTCTCACATATCCGTG
128 AGCTCT-ACATATCAATA
* * * *
87359022 CCGATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCGATGCCATGTCCTAG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGAC-TCTC-ATAAGTGCCGATGCCATGTCCCAA
** **
87359087 ACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCTGA-TGCATGTCCCAGACAT-GTCTTACACT
64 ACATGGTCTTACACTGACTATCAAAATCG-AGGCTGACACCATGTCCCAGACATGGTCTTACACT
*
87359146 AGCTCT-CATTTCAATA
128 AGCTCTACATATCAATA
* *
87359162 CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-CATGTCCCAT
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCTCATAA-GT-GCCGATGCCATGTCCCAA
87359226 ACAT-GTCTTACACT
64 ACATGGTCTTACACT
87359240 AGCACACAAA
Statistics
Matches: 190, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
138 13 0.07
139 17 0.09
140 47 0.25
142 16 0.08
143 14 0.07
144 8 0.04
145 6 0.03
146 37 0.19
147 32 0.17
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (144 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGACTCTCATAAGTGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTGACTATCAAAATCGAGGCTGACACCATGTCCCAGACATGGTCTTACACTAGC
TCTACATATCAATA
Found at i:87359240 original size:94 final size:93
Alignment explanation
Indices: 87358978--87359244 Score: 267
Period size: 92 Copynumber: 2.8 Consensus size: 93
87358968 GAGGCTGACA
* * *
87358978 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATATCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGCCGATG-CATGTCCCAGACAT
* *
87359043 GGTCTTACACT-GACACCTCTATACGTGCCGATG
62 -GTCTTACACTAG-CACCTCTATACATACCGATG
* * * * *
87359076 CCATGTCCTAGACATGGTCTTACACTGACACATC-T--CGTAGCTGATGCATGTCCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGT-GCCGATGCATGTCCCAGACATGT
* *
87359138 CTTACACTAGC-TCTC-ATTTCAATACCGATG
64 CTTACACTAGCACCTCTA-TAC-ATACCGATG
* *
87359168 CCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCATACATGTC
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCCGATGCATGTCCCAGACATGTC
87359233 TTACACTAGCAC
65 TTACACTAGCAC
87359245 ACAAATAACC
Statistics
Matches: 139, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
90 1 0.01
91 7 0.05
92 46 0.33
93 16 0.12
94 40 0.29
98 27 0.19
99 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (93 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCGATGCATGTCCCAGACATGTCT
TACACTAGCACCTCTATACATACCGATG
Found at i:87367207 original size:21 final size:21
Alignment explanation
Indices: 87367181--87367225 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
87367171 TTGTTAGCTA
*
87367181 ATATATGCTAAATT-TTGATTT
1 ATATATGC-AAATTGTTGAATT
*
87367202 ATATATTCAAATTGTTGAATT
1 ATATATGCAAATTGTTGAATT
87367223 ATA
1 ATA
87367226 ATCTTAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (21 bp):
ATATATGCAAATTGTTGAATT
Found at i:87383784 original size:14 final size:14
Alignment explanation
Indices: 87383767--87383806 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
87383757 ATTTTATTTA
87383767 ATATTAATATAATT
1 ATATTAATATAATT
*
87383781 ATATTATTA-ATATT
1 ATATTAATATA-ATT
87383795 ATATTAATATAA
1 ATATTAATATAA
87383807 AATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTAATATAATT
Found at i:87389056 original size:29 final size:30
Alignment explanation
Indices: 87389021--87389078 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
87389011 TCTGGTTTAA
*
87389021 TGTGTAATTATATATATG-AATTTTGATTT
1 TGTGTAATTATATATATGAAAATTTGATTT
*
87389050 TGTGTAATTTTATATATGAAAATTTGATT
1 TGTGTAATTATATATATGAAAATTTGATT
87389079 GGATCTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGTAATTATATATATGAAAATTTGATTT
Found at i:87396921 original size:28 final size:28
Alignment explanation
Indices: 87396890--87396949 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
87396880 AGAAAAGTGA
*
87396890 AAAAAT-TTATAAAATTATTAAAAATTAC
1 AAAAATATTATAAAAATA-TAAAAATTAC
* *
87396918 AAAAATATTTTAAAAATATATAAATTAC
1 AAAAATATTATAAAAATATAAAAATTAC
87396946 AAAA
1 AAAA
87396950 GCTAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATATTATAAAAATATAAAAATTAC
Found at i:87396942 original size:19 final size:20
Alignment explanation
Indices: 87396890--87396942 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
87396880 AGAAAAGTGA
*
87396890 AAAAATTTATAAA-ATTATT
1 AAAAATATATAAATATTATT
* *
87396909 AAAAATTACAAAAATATT-TT
1 AAAAA-TATATAAATATTATT
87396929 AAAAATATATAAAT
1 AAAAATATATAAAT
87396943 TACAAAAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 12 0.44
20 12 0.44
21 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATATATAAATATTATT
Found at i:87408722 original size:72 final size:72
Alignment explanation
Indices: 87408605--87408748 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
87408595 CAGTTGAAAC
* *
87408605 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTTAGTTACGGTCATACGAC
1 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACGATCATACGAC
87408670 CCTGTTT
66 CCTGTTT
* *
87408677 ACATTCATGAGCATATCGACTTAGTCTTATAAATTTCTGTTCATACTCAGTTACGATCATACGAC
1 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACGATCATACGAC
87408742 CCTGTTT
66 CCTGTTT
87408749 CAATTCTAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (72 bp):
ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACGATCATACGAC
CCTGTTT
Found at i:87416036 original size:20 final size:20
Alignment explanation
Indices: 87416011--87416055 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
87416001 TGTAAGTCCA
* *
87416011 TAATATTACTTTTCATAACT
1 TAATATCACATTTCATAACT
*
87416031 TAATATCACATTTCATAATT
1 TAATATCACATTTCATAACT
87416051 TAATA
1 TAATA
87416056 ACACTTCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATATCACATTTCATAACT
Found at i:87417161 original size:17 final size:18
Alignment explanation
Indices: 87417139--87417181 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
87417129 TATTAATTAC
*
87417139 TAATTTTATCACT-TATT
1 TAATTTTATCACTGTACT
* *
87417156 TAATTTAATCATTGTACT
1 TAATTTTATCACTGTACT
87417174 TAATTTTA
1 TAATTTTA
87417182 AACATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATTTTATCACTGTACT
Found at i:87426737 original size:18 final size:19
Alignment explanation
Indices: 87426714--87426753 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
87426704 AATTTGAAAC
87426714 AAAATA-GAAAATTTTGGA
1 AAAATATGAAAATTTTGGA
87426732 AAAATATGAAAATTTTGGA
1 AAAATATGAAAATTTTGGA
87426751 AAA
1 AAA
87426754 TAGGGGTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (19 bp):
AAAATATGAAAATTTTGGA
Found at i:87429816 original size:27 final size:27
Alignment explanation
Indices: 87429781--87429867 Score: 156
Period size: 27 Copynumber: 3.2 Consensus size: 27
87429771 ATAAATAGCC
*
87429781 TCATCAAACACTTCTTAAAGGAAAAATT
1 TCAT-AAACACTTCTTAAAGGACAAATT
87429809 TCATAAACACTTCTTAAAGGACAAATT
1 TCATAAACACTTCTTAAAGGACAAATT
87429836 TCATAAACACTTCTTAAAGGACAAATT
1 TCATAAACACTTCTTAAAGGACAAATT
87429863 TCATA
1 TCATA
87429868 CTCTATAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
27 54 0.93
28 4 0.07
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (27 bp):
TCATAAACACTTCTTAAAGGACAAATT
Found at i:87439764 original size:17 final size:18
Alignment explanation
Indices: 87439739--87439775 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
87439729 GTTTTATTGA
*
87439739 TTTCATTGTTTGTTTATT
1 TTTCATTGTTTATTTATT
87439757 TTTC-TTGTTTATTTATT
1 TTTCATTGTTTATTTATT
87439774 TT
1 TT
87439776 CGTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTCATTGTTTATTTATT
Found at i:87441606 original size:21 final size:22
Alignment explanation
Indices: 87441560--87441613 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
87441550 TTTCAGGCTC
**
87441560 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
87441582 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
*
87441603 ACACGTCCGTG
1 ACACGCCCGTG
87441614 CTGTAGGCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:87451133 original size:24 final size:24
Alignment explanation
Indices: 87451106--87451174 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
87451096 TTGTCAGGAG
87451106 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
87451130 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
87451154 AGGATTTAGGAGTAGATAAGG
1 AGGATTTAGGAGTTGATAAGG
87451175 AAGGAAATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:87451188 original size:48 final size:49
Alignment explanation
Indices: 87451106--87451199 Score: 122
Period size: 48 Copynumber: 1.9 Consensus size: 49
87451096 TTGTCAGGAG
* * *
87451106 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGTAGATAAGGGATAGGATCTAGGAGCTGATCAAGGGAT
87451154 AGGATTTAGGAGTAGATAA-GGA-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGTAGATAAGGGATAGG--ATCTAGGAGCTGATCAAGG
87451200 AACAAGAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 3 0.08
47 3 0.08
48 30 0.75
49 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (49 bp):
AGGATTTAGGAGTAGATAAGGGATAGGATCTAGGAGCTGATCAAGGGAT
Found at i:87454083 original size:24 final size:24
Alignment explanation
Indices: 87454051--87454119 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
87454041 CTGTCAGGAG
87454051 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
87454075 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
87454099 AGGATTTAGGAGAAGATAAGG
1 AGGATTTAGGAGTTGATAAGG
87454120 AGGGAAATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:87455580 original size:27 final size:26
Alignment explanation
Indices: 87455540--87455651 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
87455530 AGGAAGCGTC
*
87455540 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
87455567 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
* *
87455594 CTGGTGGTTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
87455622 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
87455648 CTGG
1 CTGG
87455652 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.11
27 48 0.67
28 15 0.21
29 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:87455644 original size:54 final size:54
Alignment explanation
Indices: 87455540--87455651 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
87455530 AGGAAGCGTC
*
87455540 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * * *
87455594 CTGGTGGTTTTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
87455648 CTGG
1 CTGG
87455652 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:87459837 original size:32 final size:34
Alignment explanation
Indices: 87459801--87459865 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
87459791 TAACAGTGGT
*
87459801 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
87459833 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
87459866 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:87461725 original size:26 final size:26
Alignment explanation
Indices: 87461689--87461772 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
87461679 CATGAAATTC
87461689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
87461715 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
87461741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87461767 TTATCA
1 TTATCA
87461773 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87462231 original size:85 final size:85
Alignment explanation
Indices: 87462088--87462258 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
87462078 CAGGATTCCC
87462088 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
1 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
87462153 TGAGAAGAAAAGAAACCATT
66 TGAGAAGAAAAGAAACCATT
87462173 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
1 GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
87462238 TGAGAAGAAAAGAAACCATT
66 TGAGAAGAAAAGAAACCATT
87462258 G
1 G
87462259 TTGAAGTTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (85 bp):
GAAAATTGGGGCGTTACAAAACAAAACATAAAATATCATGCATGTTCATCTTTTATGGCAGAATG
TGAGAAGAAAAGAAACCATT
Found at i:87467058 original size:70 final size:70
Alignment explanation
Indices: 87466945--87467081 Score: 238
Period size: 70 Copynumber: 2.0 Consensus size: 70
87466935 CGAATTTTAC
*
87466945 TCAAATTTAAAACTTTCAAACTTCCTATTACCGCCCCTAATATGAACCTACGACGCCTAAAAACA
1 TCAAATTTAAAACTTTCAAACTTCCTATTACCGCCCCTAATATGAACCTACGACGCCCAAAAACA
87467010 CAAGT
66 CAAGT
* * *
87467015 TCAAATTTAAAACTTTCAAACTTCCTCTTACCGCCCCTAATATGAGCCTACGATGCCCAAAAACA
1 TCAAATTTAAAACTTTCAAACTTCCTATTACCGCCCCTAATATGAACCTACGACGCCCAAAAACA
87467080 CA
66 CA
87467082 CTTTGAAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (70 bp):
TCAAATTTAAAACTTTCAAACTTCCTATTACCGCCCCTAATATGAACCTACGACGCCCAAAAACA
CAAGT
Found at i:87476688 original size:48 final size:47
Alignment explanation
Indices: 87476570--87476994 Score: 393
Period size: 48 Copynumber: 8.8 Consensus size: 47
87476560 TAAGATGCCA
* * * * *
87476570 ATGCCATGTCCTAGACATGATCTTACACTGGCTCTCATATATTG-GTGCCA
1 ATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATA--GAG-GCCG
* * * *
87476620 ATGCCATGTACCAAAAATGGTCTTACACTAGCCCACATGTCGAGGCCG
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* ** * * *
87476668 ATGCCATGTCCTAGACATGGTCTTACACTAGCTGTCATGTAAATGCCG
1 ATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * *
87476716 ATACCATTTTCCAAACATGCTCTTACACTAGCTCACATATTGAGGCCG
1 ATGCCA-TGTCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * * *
87476764 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCTG
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * *
87476812 ATTCCATGTTCCTAACATGGTCTTACACTGGCTCACATATTGAGGCCG
1 ATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * * * **
87476860 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATTCCG
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
* * *
87476908 ATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGGCCG
1 ATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
*
87476956 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 ATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATA
87476995 ACACTAGTAT
Statistics
Matches: 299, Mismatches: 67, Indels: 20
0.77 0.17 0.05
Matches are distributed among these distances:
47 6 0.02
48 254 0.85
49 7 0.02
50 30 0.10
51 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATAGAGGCCG
Found at i:87476762 original size:96 final size:96
Alignment explanation
Indices: 87476570--87476994 Score: 589
Period size: 96 Copynumber: 4.4 Consensus size: 96
87476560 TAAGATGCCA
* * * ** * *
87476570 ATGCCATGTCCTAGACATGATCTTACACTGGCTCTCATATATTGGTGCCAATGCCATGTACCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTCCAAA
* * *
87476635 AATGGTCTTACACTAGCCCACATGTCGAGGCCG
64 CATGGTCTTACACTAGCTCACATATCGAGGCCG
* * * * *
87476668 ATGCCATGTCCTAGACATGGTCTTACACTAGCTGTCATGTAAATGCCGATACCATTTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
* *
87476733 TGCTCTTACACTAGCTCACATATTGAGGCCG
66 TGGTCTTACACTAGCTCACATATCGAGGCCG
* * *
87476764 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCTGATTCCATGTTCCTAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
* *
87476829 TGGTCTTACACTGGCTCACATATTGAGGCCG
66 TGGTCTTACACTAGCTCACATATCGAGGCCG
* *
87476860 ATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATTCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
* *
87476925 TGGTCTTACATTGGCTCACATATCGAGGCCG
66 TGGTCTTACACTAGCTCACATATCGAGGCCG
*
87476956 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
87476995 ACACTAGTAT
Statistics
Matches: 294, Mismatches: 33, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 257 0.87
98 37 0.13
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAACA
TGGTCTTACACTAGCTCACATATCGAGGCCG
Found at i:87476830 original size:144 final size:143
Alignment explanation
Indices: 87476573--87476994 Score: 434
Period size: 144 Copynumber: 2.9 Consensus size: 143
87476563 GATGCCAATG
* * * * * *
87476573 CCATGTCCTAGACATGATCTTACACTGGCTCTCATATATTG-GTGCCAATGCCATGTACCAAAAA
1 CCATGTCCCAAACATG-TCTTACACTAG--CTCACATATTGAG-GCCGATGCCATGTACCAAACA
* *
87476637 TGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCT
62 TGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTA-ACATGGTCTTACACTAGCT
* * *
87476701 GTCATGTAAATGCCGATA
126 CTCATATAAAGGCCGATA
* * * *
87476719 CCATTTTCCAAACATGCTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAAACATG-TCTTACACTAGCTCACATATTGAGGCCGATGCCATGTACCAAACATGG
* ** * * * * *
87476784 TCTTACACTAGCTCTCATATAAATGCTGATTCCATGTTCCTAACATGGTCTTACACTGGCTCACA
65 TCTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCTCA
** *
87476849 TATTGAGGCCGATG
130 TATAAAGGCCGATA
* * ** ** *
87476863 CCATGTCCCAGACATAGTCTTACACTAGCTCTCATATAAATTCCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAAACAT-GTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTACCAAACATGG
* * * *
87476928 TCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA
65 TCTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCTCA
87476993 TA
130 TA
87476995 ACACTAGTAT
Statistics
Matches: 224, Mismatches: 49, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
144 195 0.87
145 7 0.03
146 22 0.10
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (143 bp):
CCATGTCCCAAACATGTCTTACACTAGCTCACATATTGAGGCCGATGCCATGTACCAAACATGGT
CTTACACTAGCTCACATATCGAGGCCGATGCCATGTTCCTAACATGGTCTTACACTAGCTCTCAT
ATAAAGGCCGATA
Found at i:87483849 original size:51 final size:51
Alignment explanation
Indices: 87483785--87483897 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
87483775 CTACCTTATA
* * * * *
87483785 ACATGTAAT-ACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTT
1 ACATGT-ATCACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCT
*
87483836 ACATGTATCACATCCATTATGAACTCGAACCACTCAACGAGCTCAGATGCT
1 ACATGTATCACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCT
*
87483887 ACATATATCAC
1 ACATGTATCAC
87483898 GAACTTGGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.04
51 52 0.96
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (51 bp):
ACATGTATCACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCT
Found at i:87483945 original size:43 final size:42
Alignment explanation
Indices: 87483854--87483968 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 42
87483844 CACATCCATT
* * *
87483854 ATGAACTCGAACCACTCAACGAGCTCAGATGCTACATATATC
1 ATGAACTCGGACCACTCAACAAGCTCGGATGCTACATATATC
* * * *
87483896 ACGAACTTGGACCACTCAACAAGTTCGGATGGTCACATATATC
1 ATGAACTCGGACCACTCAACAAGCTCGGATGCT-ACATATATC
87483939 ATGAACTCGGACCACTCAACAAGCTCGGAT
1 ATGAACTCGGACCACTCAACAAGCTCGGAT
87483969 TTCTTAATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (42 bp):
ATGAACTCGGACCACTCAACAAGCTCGGATGCTACATATATC
Found at i:87490688 original size:15 final size:15
Alignment explanation
Indices: 87490670--87490698 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
87490660 GTGTCATACA
87490670 CGGCCTAGTCACACC
1 CGGCCTAGTCACACC
87490685 CGGCCTAGTCACAC
1 CGGCCTAGTCACAC
87490699 GCCCGTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.14
Consensus pattern (15 bp):
CGGCCTAGTCACACC
Found at i:87494551 original size:43 final size:43
Alignment explanation
Indices: 87494485--87494657 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
87494475 AGCTCGTACA
* * *
87494485 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATCAAATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* *
87494528 ATGCCACTGTCCCAGACAGGGTCTTACATG-AAGTCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCAAATATCG
* * *
87494570 ATGCTAATGTCCCAGACATGGTCTTAAATGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATC-AAATATCG
* * *
87494614 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
87494657 A
1 A
87494658 AATCCTATGT
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 30 0.28
43 45 0.42
44 33 0.31
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:87494629 original size:44 final size:43
Alignment explanation
Indices: 87494485--87494641 Score: 185
Period size: 42 Copynumber: 3.7 Consensus size: 43
87494475 AGCTCGTACA
* * * *
87494485 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATC-AAATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA-ATCG
* * *
87494528 ATGCCACTGTCCCAGACAGGGTCTTACATG-AA-GTCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAAT-CG
* *
87494570 ATGCTAATGTCCCAGACATGGTCTTAAATGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATCTCAAATCG
87494614 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
87494642 CGAAATCACA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.33
43 26 0.27
44 30 0.32
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAATCG
Found at i:87495895 original size:19 final size:20
Alignment explanation
Indices: 87495851--87495898 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
87495841 CTCCTCCACT
* *
87495851 TCTTCTTTTTCATTTTTTTC
1 TCTTCTTCTTCATTTGTTTC
*
87495871 TTTTCTTCTTC-TTTGTTTC
1 TCTTCTTCTTCATTTGTTTC
87495890 TCTTCTTCT
1 TCTTCTTCT
87495899 CTATTCTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (20 bp):
TCTTCTTCTTCATTTGTTTC
Found at i:87500142 original size:22 final size:20
Alignment explanation
Indices: 87500106--87500166 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
87500096 ATTCTGTTTG
*
87500106 TTTTGTTTCTATTTATTTTA
1 TTTTATTTCTATTTATTTTA
*
87500126 TGCTTTATTTCTTTTTATTTTA
1 T--TTTATTTCTATTTATTTTA
*
87500148 TTTTATTTATATTATATTT
1 TTTTATTTCTATT-TATTT
87500167 AATTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 18 0.53
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTTCTATTTATTTTA
Found at i:87500676 original size:20 final size:19
Alignment explanation
Indices: 87500649--87500690 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
87500639 ATATAAAACC
87500649 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
87500668 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
87500688 ATA
1 ATA
87500691 TATATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:87506228 original size:51 final size:49
Alignment explanation
Indices: 87506110--87506240 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 49
87506100 TATTGTGAGG
* ** * *
87506110 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTTGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGA
* * * *
87506159 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAA-T-TGA
87506210 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
87506241 GTACTAAGTG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 37 0.54
50 1 0.01
51 30 0.44
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGA
Found at i:87506267 original size:23 final size:20
Alignment explanation
Indices: 87506219--87506256 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
87506209 ATCACGTGTG
87506219 TAGTACTAAGTGCAGGCTAC
1 TAGTACTAAGTGCAGGCTAC
87506239 TAGTACTAAGTGCAGGCT
1 TAGTACTAAGTGCAGGCT
87506257 GCTATGCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (20 bp):
TAGTACTAAGTGCAGGCTAC
Found at i:87506402 original size:58 final size:58
Alignment explanation
Indices: 87506340--87506458 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
87506330 TATTCTGATG
87506340 AGTTCAACGGGAAATCGATTAAATGAAAATACATGTGAAAGTGATTATCTGATGAACA
1 AGTTCAACGGGAAATCGATTAAATGAAAATACATGTGAAAGTGATTATCTGATGAACA
87506398 AGTTCAACGGGAAATCGATTAAATGAAAATACATGTGAAAGTGATTATCTGATGAACA
1 AGTTCAACGGGAAATCGATTAAATGAAAATACATGTGAAAGTGATTATCTGATGAACA
87506456 AGT
1 AGT
87506459 GCAAGTATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (58 bp):
AGTTCAACGGGAAATCGATTAAATGAAAATACATGTGAAAGTGATTATCTGATGAACA
Found at i:87506443 original size:26 final size:26
Alignment explanation
Indices: 87506356--87506444 Score: 72
Period size: 26 Copynumber: 3.2 Consensus size: 26
87506346 ACGGGAAATC
87506356 GATTAAATGAAAATACATGTGAAAGT
1 GATTAAATGAAAATACATGTGAAAGT
* * * *
87506382 GATTATCTGATGAACAAGTTCAACGGGAAA-T
1 GATTA---AATGAA-AA-TAC-ATGTGAAAGT
87506413 CGATTAAATGAAAATACATGTGAAAGT
1 -GATTAAATGAAAATACATGTGAAAGT
87506440 GATTA
1 GATTA
87506445 TCTGATGAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
26 16 0.34
27 3 0.06
28 2 0.04
29 10 0.21
30 2 0.04
31 3 0.06
32 11 0.23
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (26 bp):
GATTAAATGAAAATACATGTGAAAGT
Found at i:87506452 original size:29 final size:29
Alignment explanation
Indices: 87506362--87506453 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
87506352 AATCGATTAA
87506362 ATGAAAATACATGTGAAAGTGATTATCTG
1 ATGAAAATACATGTGAAAGTGATTATCTG
* * * *
87506391 ATGAACAAGTTCAACGGGAAA-TCGATTA---A
1 ATGAA-AA-TAC-ATGTGAAAGT-GATTATCTG
87506420 ATGAAAATACATGTGAAAGTGATTATCTG
1 ATGAAAATACATGTGAAAGTGATTATCTG
87506449 ATGAA
1 ATGAA
87506454 CAAGTGCAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
26 11 0.23
27 3 0.06
28 2 0.04
29 15 0.32
30 2 0.04
31 3 0.06
32 11 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (29 bp):
ATGAAAATACATGTGAAAGTGATTATCTG
Found at i:87517869 original size:35 final size:35
Alignment explanation
Indices: 87517794--87517920 Score: 123
Period size: 35 Copynumber: 3.6 Consensus size: 35
87517784 GTATATCGAC
* * * *
87517794 AATCCAACCAAAACACACTAGATTCTCATAAGAG-T
1 AATCCATCCTAAACACACCA-ATGCTCATAAGAGCT
*
87517829 CAATCCATCCTAAACACACGAATGCTCATAAGAGCT
1 -AATCCATCCTAAACACACCAATGCTCATAAGAGCT
* *
87517865 AATCCCT-TTGAAACACACCAATGCTCATAAGAGCT
1 AATCCATCCT-AAACACACCAATGCTCATAAGAGCT
* **
87517900 AATCCAGCAGAAACACACCAA
1 AATCCATCCTAAACACACCAA
87517921 AACAAAGAGT
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
34 1 0.01
35 58 0.75
36 18 0.23
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (35 bp):
AATCCATCCTAAACACACCAATGCTCATAAGAGCT
Found at i:87519345 original size:59 final size:59
Alignment explanation
Indices: 87519253--87519371 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
87519243 ATACGTCATA
87519253 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
1 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
*
87519312 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAATGATCAGATTTGTACCG
1 TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
87519371 T
1 T
87519372 CTCAGCATTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (59 bp):
TTTGGCTGTAATTCAATCTCGCTATGAGGAATCGTATGTGAAGGATCAGATTTGTACCG
Found at i:87528412 original size:35 final size:35
Alignment explanation
Indices: 87528351--87528533 Score: 222
Period size: 35 Copynumber: 5.2 Consensus size: 35
87528341 TCCAACCAAG
* * * *
87528351 ACACCAGATGCTCATAATAGCCAATCCATCCTAAAC
1 ACACCA-ATGCTCATAAGAGCTAATCCCTCCGAAAC
* *
87528387 ACACCAATGCTCGTAAGGGCTAATCCCTCCGAAAC
1 ACACCAATGCTCATAAGAGCTAATCCCTCCGAAAC
* *
87528422 ACACCAATGATCATAAGAGCTAATCCCTCCAAAAC
1 ACACCAATGCTCATAAGAGCTAATCCCTCCGAAAC
* **
87528457 ACACCAATGCTCATAAAAGCTAATCCCTCTAAAAC
1 ACACCAATGCTCATAAGAGCTAATCCCTCCGAAAC
* * **
87528492 ACACCAATGCTCATAAGATCTAGTCCAACCGAAAC
1 ACACCAATGCTCATAAGAGCTAATCCCTCCGAAAC
87528527 ACACCAA
1 ACACCAA
87528534 AACAAAGAGT
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
35 121 0.95
36 6 0.05
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (35 bp):
ACACCAATGCTCATAAGAGCTAATCCCTCCGAAAC
Found at i:87529306 original size:30 final size:30
Alignment explanation
Indices: 87529270--87529335 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
87529260 GCTACAAGGG
*
87529270 ACACACAACCGTGTCGCCTGGCCGTGTGTC
1 ACACACAACCATGTCGCCTGGCCGTGTGTC
* * *
87529300 ACACACAACTATGTCGCTTGGCTGTGTGTC
1 ACACACAACCATGTCGCCTGGCCGTGTGTC
87529330 ACACAC
1 ACACAC
87529336 GGCTGAGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.33, G:0.23, T:0.23
Consensus pattern (30 bp):
ACACACAACCATGTCGCCTGGCCGTGTGTC
Found at i:87536290 original size:18 final size:17
Alignment explanation
Indices: 87536257--87536295 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
87536247 TTGTATAAAT
87536257 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
87536275 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
87536292 TGTG
1 TGTG
87536296 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:87536548 original size:23 final size:23
Alignment explanation
Indices: 87536521--87536618 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
87536511 AGTGTTATTG
87536521 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
87536544 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
87536567 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
87536589 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
87536612 ATCAGTG
1 ATCAGTG
87536619 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:87536587 original size:45 final size:45
Alignment explanation
Indices: 87536523--87536611 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
87536513 TGTTATTGAT
* *
87536523 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
87536568 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
87536612 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:87543186 original size:18 final size:17
Alignment explanation
Indices: 87543153--87543191 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
87543143 TTGTATAAAT
87543153 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
87543171 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
87543188 TGTG
1 TGTG
87543192 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:87543444 original size:23 final size:23
Alignment explanation
Indices: 87543417--87543514 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
87543407 AGTGTTATTG
87543417 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
87543440 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
87543463 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
87543485 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
87543508 ATCAGTG
1 ATCAGTG
87543515 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:87543483 original size:45 final size:45
Alignment explanation
Indices: 87543419--87543507 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
87543409 TGTTATTGAT
* *
87543419 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
87543464 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
87543508 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:87548503 original size:9 final size:9
Alignment explanation
Indices: 87548489--87548517 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
87548479 CAATTTTCAG
87548489 TCCAACTAA
1 TCCAACTAA
87548498 TCCAACTAA
1 TCCAACTAA
87548507 TCCAACTAA
1 TCCAACTAA
87548516 TC
1 TC
87548518 AATCCATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (9 bp):
TCCAACTAA
Found at i:87550370 original size:21 final size:21
Alignment explanation
Indices: 87550317--87550379 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
87550307 ATTTATTAAA
* *
87550317 ATTTATATTTTATTTTAAATAAT
1 ATTTATATTTTA--ATAAATTAT
* * *
87550340 AATTAAATTTTAGTAAATTAT
1 ATTTATATTTTAATAAATTAT
87550361 ATTTATA-TTTAATAAATTA
1 ATTTATATTTTAATAAATTA
87550380 AAATTAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
20 11 0.33
21 12 0.36
23 10 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTTATATTTTAATAAATTAT
Found at i:87551886 original size:130 final size:130
Alignment explanation
Indices: 87551651--87551908 Score: 401
Period size: 130 Copynumber: 2.0 Consensus size: 130
87551641 GTCACATCCT
* * *
87551651 AACATGCATGATACACCTCTGGCATAGTCCTTATGATTTAAACTGATCTGAATTTTCTTATAGTG
1 AACATGCATAATACACCTCTAGCATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
** *
87551716 TTGATAACAATGTTTGAAGGATCTAGAAAAGTGTCTGGTGAAGAAATTAAAAGTAATGTGCCCCC
66 TTGATAACAATGTTAAAAGGATCTAGAAAAGCGTCTGGTGAAGAAATTAAAAGTAATGTGCCCCC
* *
87551781 AACATGCATAATACGCCTCTAGTATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
1 AACATGCATAATACACCTCTAGCATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
* * *
87551846 TTGATAACAATGTTAAAAGGATCTAGAGAAGCGT-TCGGTGAAGAAATTGAAAGTCATGTGCCC
66 TTGATAACAATGTTAAAAGGATCTAGAAAAGCGTCT-GGTGAAGAAATTAAAAGTAATGTGCCC
87551909 AATGTCCTAG
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 1 0.01
130 115 0.99
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (130 bp):
AACATGCATAATACACCTCTAGCATAGTCCTTATGATTTAAACTAATCTGAATTTTCTTATAGTG
TTGATAACAATGTTAAAAGGATCTAGAAAAGCGTCTGGTGAAGAAATTAAAAGTAATGTGCCCCC
Found at i:87554539 original size:46 final size:46
Alignment explanation
Indices: 87554472--87554641 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
87554462 AACCCGCCCC
* *
87554472 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
87554518 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
87554566 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
87554611 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
87554642 AGATGCTCAA
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.55
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:87554585 original size:93 final size:93
Alignment explanation
Indices: 87554477--87554647 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87554467 GCCCCTAAGT
* * *
87554477 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
87554542 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
*
87554570 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87554635 CGAGTTCAGATGC
66 CGAGTTCAGATGC
87554648 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:87570346 original size:16 final size:15
Alignment explanation
Indices: 87570325--87570354 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
87570315 AAAATGTTTT
87570325 TTAATTTATAATTTAA
1 TTAATTT-TAATTTAA
87570341 TTAATTTTAATTTA
1 TTAATTTTAATTTA
87570355 TTCCCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTTAA
Found at i:87576807 original size:49 final size:49
Alignment explanation
Indices: 87576754--87576912 Score: 155
Period size: 49 Copynumber: 3.3 Consensus size: 49
87576744 GTGGAAGATT
*
87576754 TGTCTAGGACATGGCATCGACACCGATAGATGAAAGCCAGTGTAAGACC
1 TGTCTGGGACATGGCATCGACACCGATAGATGAAAGCCAGTGTAAGACC
* * * * * **
87576803 TGTCTGGGACACGACATCGGC-CTCGATATATAAAAGTTAGTGTAAGACC
1 TGTCTGGGACATGGCATCGACAC-CGATAGATGAAAGCCAGTGTAAGACC
* * **
87576852 TGTTTGGGACATGGCATCGA-ATTCGAT-G-TGCTAGCCAGTGTAAGACC
1 TGTCTGGGACATGGCATCGACA-CCGATAGATGAAAGCCAGTGTAAGACC
87576899 ATGTCTGGGACATG
1 -TGTCTGGGACATG
87576913 CGTCGGCATC
Statistics
Matches: 86, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
47 14 0.16
48 13 0.15
49 59 0.69
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TGTCTGGGACATGGCATCGACACCGATAGATGAAAGCCAGTGTAAGACC
Found at i:87579219 original size:75 final size:75
Alignment explanation
Indices: 87579090--87579229 Score: 226
Period size: 75 Copynumber: 1.9 Consensus size: 75
87579080 GAGTTACATC
*
87579090 CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTGTATTATTTCCAAAAAAATAT
1 CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
87579155 AGGATTATTA
66 AGGATTATTA
* * * * *
87579165 CCTTTTTAATAGAGAAGACAAATGCAAAGTTAGAAAAATGAATTATATTCTTTCCAAAAGAATAT
1 CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
87579230 TAATTTCTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (75 bp):
CCTTATTAATAGAGAAGACAAACGAAAAGTTAGAAAAATGAATTATATTATTTCCAAAAAAATAT
AGGATTATTA
Found at i:87579458 original size:138 final size:138
Alignment explanation
Indices: 87579205--87579492 Score: 395
Period size: 138 Copynumber: 2.1 Consensus size: 138
87579195 TAGAAAAATG
* *
87579205 AATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGACAAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTACATCTTTTATATGTTGACAAAAATTAATTAA
* * * *
87579270 TATAACTGTTTATATTAATAAATTTGGTAAAATTTATACAATTTATATTTTGTA-TGAATCAAAT
66 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAACATTTTGTACT-AATCAAAT
*
87579334 TCATATGTT
130 TCATATATT
* *
87579343 AATTATATTCTTTCTAAAAGAATATTAATTT-TAACATCTTTTATATGTTGACCAAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCT-ACATCTTTTATATGTTGACAAAAATTAATTA
* * * *
87579407 ATATAATTTTTTATATTTAT-AGTTTCAGTAAAATATATACAATTAACATTTTGTACTAATCAAA
65 ATATAACTGTTTATATTAATAAATTT-AGTAAAATATATACAATTAACATTTTGTACTAATCAAA
87579471 TTCATATATT
129 TTCATATATT
*
87579481 AATTTTA-TCTTT
1 AATTATATTCTTT
87579493 GTTATTTATT
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
137 10 0.08
138 122 0.92
139 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCTACATCTTTTATATGTTGACAAAAATTAATTAA
TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAACATTTTGTACTAATCAAATT
CATATATT
Found at i:87580811 original size:40 final size:39
Alignment explanation
Indices: 87580764--87580907 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 39
87580754 TGATGACAAA
* * *
87580764 TCGGTTATATAAGGCACTTAGTGTGCGATACGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGAT-TGACATAGCT
* * * *
87580804 TCAGTTATATATGGCAGTTAGTGTACGATTTGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGA-TTGACATAGCT
*
87580844 TCGGCTATATATGGCACTTAGTGTGCGACTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGA-TTGACATAGCT
* *
87580884 TCGGCTATGTACGGCACTTAGTGT
1 TCGGCTATATATGGCACTTAGTGT
87580908 ACGAGATATC
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 89 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (39 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTGACATAGCT
Found at i:87580860 original size:80 final size:80
Alignment explanation
Indices: 87580764--87580911 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 80
87580754 TGATGACAAA
* * * *
87580764 TCGGTTATATAAGGCACTTAGTGTGCGA-TACGACATAGCTTCAGTTATATATGGCAGTTAGTGT
1 TCGGCTATATAAGGCACTTAGTGTGCGACT-CGACATAGCTTCAGCTATATACGGCACTTAGTGT
87580828 ACGATTTGACATAGCT
65 ACGATTTGACATAGCT
* * * * *
87580844 TCGGCTATATATGGCACTTAGTGTGCGACTTGAGATAGCTTCGGCTATGTACGGCACTTAGTGTA
1 TCGGCTATATAAGGCACTTAGTGTGCGACTCGACATAGCTTCAGCTATATACGGCACTTAGTGTA
87580909 CGA
66 CGA
87580912 GATATCAAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 57 0.98
81 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (80 bp):
TCGGCTATATAAGGCACTTAGTGTGCGACTCGACATAGCTTCAGCTATATACGGCACTTAGTGTA
CGATTTGACATAGCT
Found at i:87596241 original size:24 final size:24
Alignment explanation
Indices: 87596192--87596241 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
87596182 AGAAAATGAT
* * *
87596192 AAATAAAGATAAAAAGAAATGCAA
1 AAATAAAAATAAAAAGAAACGAAA
87596216 AAATAAAAATAAAATA-AAACGAAA
1 AAATAAAAATAAAA-AGAAACGAAA
87596240 AA
1 AA
87596242 CAAATTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (24 bp):
AAATAAAAATAAAAAGAAACGAAA
Found at i:87603131 original size:25 final size:25
Alignment explanation
Indices: 87603102--87603151 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
87603092 TTCTTCGGAG
87603102 AATGAATCATTTATTTCAATGTCAT
1 AATGAATCATTTATTTCAATGTCAT
87603127 AATGAATCATTTATTTCAATGTCAT
1 AATGAATCATTTATTTCAATGTCAT
87603152 CTGGTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (25 bp):
AATGAATCATTTATTTCAATGTCAT
Found at i:87609546 original size:40 final size:39
Alignment explanation
Indices: 87609513--87609635 Score: 156
Period size: 40 Copynumber: 3.1 Consensus size: 39
87609503 AGTGTCGTAC
87609513 ATAGCCGAAGCTATCTCAAGTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAA-TCGCACACTAAGTGCCATAT
* * * *
87609553 ATAACCGAAGCTATGTCGAATCGTACACTAACTGCCATAT
1 ATAGCCGAAGCTATCTC-AATCGCACACTAAGTGCCATAT
** *
87609593 ATAGCCGAAGCTATGCTGTATCGCACACTAAGTGCCTTAT
1 ATAGCCGAAGCTAT-CTCAATCGCACACTAAGTGCCATAT
87609633 ATA
1 ATA
87609636 ACCAATTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 67 0.96
41 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (39 bp):
ATAGCCGAAGCTATCTCAATCGCACACTAAGTGCCATAT
Found at i:87611127 original size:138 final size:138
Alignment explanation
Indices: 87610921--87611200 Score: 391
Period size: 138 Copynumber: 2.0 Consensus size: 138
87610911 ACATAGATAA
* * *
87610921 AATTAATATATGAATTTGATTAGTACAAAATGTTAATTGTATATATTTTACCGAAACTATAAATA
1 AATTAACATATGAATTTGATTAGTACAAAATATAAATTGTATATATTTTACCGAAACTATAAATA
* * * *
87610986 TAAAAAATTATATTAATTAATTTCGGTCAACATATAGAAGATGTGGAAATTAATATTCTTTTAGA
66 TAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAGA
87611051 AAGAATAT
131 AAGAATAT
* ** *
87611059 AATTAACATATGAATTTGATTCA-TACAAAATATAAATTGTATATATTTTACTGAATTTATTAAT
1 AATTAACATATGAATTTGATT-AGTACAAAATATAAATTGTATATATTTTACCGAAACTATAAAT
* * * ** *
87611123 ATAAACAGTTATATTAATTACTTTTTGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTGG
65 ATAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAG
87611188 AAAGAATAT
130 AAAGAATAT
87611197 AATT
1 AATT
87611201 CATTTTTCTA
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 123 0.99
139 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
AATTAACATATGAATTTGATTAGTACAAAATATAAATTGTATATATTTTACCGAAACTATAAATA
TAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGATATAGAAATTAATATTCTTTTAGA
AAGAATAT
Found at i:87611237 original size:75 final size:75
Alignment explanation
Indices: 87611158--87611312 Score: 197
Period size: 77 Copynumber: 2.0 Consensus size: 75
87611148 TGTCAAAATA
87611158 TAAAAGATATAGAAAT-TA-ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
1 TAAAAGATA-A-AAATCTATATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
*
87611221 TGCCTTTTCTAT
64 TGCCTTCTCTAT
* * * * *
87611233 TAAAAAGGTAATAATCCTATATCTTTTTTTGGAAATAATATAATTCATTTTTCTAACTTTTCATT
1 T-AAAAGATAAAAAT-CTATATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
*
87611298 TGTCTTCTCTAT
64 TGCCTTCTCTAT
87611310 TAA
1 TAA
87611313 TAAGGGATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
74 3 0.04
75 2 0.03
76 11 0.16
77 53 0.77
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.48
Consensus pattern (75 bp):
TAAAAGATAAAAATCTATATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATTTG
CCTTCTCTAT
Found at i:87613687 original size:92 final size:91
Alignment explanation
Indices: 87613571--87613786 Score: 222
Period size: 92 Copynumber: 2.4 Consensus size: 91
87613561 AATTTGATTC
** * * ** *
87613571 CATGTCCCAGACAAATCTTCCACTAACACACA-ACAA-GCTGATGCCATGTCCCAGAGAAGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCACACACACAATGCCAATG-CATGTCCCAGACAAGTCTT
*
87613634 ACATTAGCT-TGTATATCTCGAGGCCGATA
65 ACATTAGCTCT-TATA-AT-GAGGCCGATA
* * * *
87613663 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCAATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCACACA-CACAATGCCAATGCATGTCCCAGACAAGTCTT
* * * *
87613728 ACTTTGGCTCTTATAATGTGGCCGATG
65 ACATTAGCTCTTATAATGAGGCCGATA
87613755 CATGTCCCAGACATGTCTTACACTAGCACACA
1 CATGTCCCAGACATGTCTTACACTAGCACACA
87613787 TATCACTCAA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
92 64 0.63
93 1 0.01
94 31 0.30
95 6 0.06
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTAGCACACACACAATGCCAATGCATGTCCCAGACAAGTCTTA
CATTAGCTCTTATAATGAGGCCGATA
Found at i:87613690 original size:48 final size:47
Alignment explanation
Indices: 87613610--87613781 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 47
87613600 ACAACAAGCT
* * *
87613610 GATGCCATGTCCCAGAGAAGTCTTACATTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAGGCC
* * * * *
87613659 GATACATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCC
* ** * * *
87613705 AATGCATGTCCCAGACATGTCTTACTTTGGCTCTTATA-AT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATCTCGAGGCC
87613751 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
87613782 ACACATATCA
Statistics
Matches: 98, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
46 66 0.67
47 3 0.03
48 26 0.27
49 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAGGCC
Found at i:87620079 original size:118 final size:118
Alignment explanation
Indices: 87619946--87620184 Score: 469
Period size: 118 Copynumber: 2.0 Consensus size: 118
87619936 TATATATATA
*
87619946 TTTATCTTAAACCCTTTTTTATATTAAATTATTTTAATAATATTGTTTCATTCATTATTTTTCGT
1 TTTATCTTAAACCCTTTTTGATATTAAATTATTTTAATAATATTGTTTCATTCATTATTTTTCGT
87620011 ATATATTATTTATTTTATTCTGAATCTTTTTATAAATATAAAAATTGTTTTAT
66 ATATATTATTTATTTTATTCTGAATCTTTTTATAAATATAAAAATTGTTTTAT
87620064 TTTATCTTAAACCCTTTTTGATATTAAATTATTTTAATAATATTGTTTCATTCATTATTTTTCGT
1 TTTATCTTAAACCCTTTTTGATATTAAATTATTTTAATAATATTGTTTCATTCATTATTTTTCGT
87620129 ATATATTATTTATTTTATTCTGAATCTTTTTATAAATATAAAAATTGTTTTAT
66 ATATATTATTTATTTTATTCTGAATCTTTTTATAAATATAAAAATTGTTTTAT
87620182 TTT
1 TTT
87620185 TCTATATTAT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58
Consensus pattern (118 bp):
TTTATCTTAAACCCTTTTTGATATTAAATTATTTTAATAATATTGTTTCATTCATTATTTTTCGT
ATATATTATTTATTTTATTCTGAATCTTTTTATAAATATAAAAATTGTTTTAT
Found at i:87620382 original size:14 final size:14
Alignment explanation
Indices: 87620360--87620395 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
87620350 GTTTTGTTTC
87620360 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
87620375 ATTATTTTATTTAT
1 ATTATTTTATATAT
87620389 ATTATTT
1 ATTATTT
87620396 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:87620431 original size:23 final size:20
Alignment explanation
Indices: 87620415--87620462 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
87620405 TATATATAAA
87620415 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
87620435 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
87620452 TTTTATTATAT
1 TTTTATTATAT
87620463 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:87620440 original size:20 final size:18
Alignment explanation
Indices: 87620366--87620470 Score: 86
Period size: 18 Copynumber: 5.5 Consensus size: 18
87620356 TTTCATTACT
* *
87620366 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
87620384 TTTATATTATTTGTAACATTATA
1 TTTATA-TATTT-T---ATTATA
* *
87620407 TATATAAATTTTATTATA
1 TTTATATATTTTATTATA
87620425 TGTTATATATTTTTATTATA
1 T-TTATATA-TTTTATTATA
*
87620445 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
87620462 TTTTTATAT
1 TTTATATAT
87620471 GTAAAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.14
18 25 0.36
19 9 0.13
20 11 0.16
21 1 0.01
22 4 0.06
23 10 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:87620469 original size:25 final size:28
Alignment explanation
Indices: 87620417--87620470 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
87620407 TATATAAATT
*
87620417 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
87620445 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
87620470 T
1 T
87620471 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:87620480 original size:45 final size:51
Alignment explanation
Indices: 87620420--87620518 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 51
87620410 ATAAATTTTA
* *
87620420 TTATATGTTATATATTT-TT-ATTA-TATTAT-T-TATTT-TATTATATTT
1 TTATATGTAAAATATTTGTTAATTATTATTATATATATTTATATTATATTT
87620465 TTATATGTAAAATATTTGTTACATTATTATTATATATATTTCATATTATATTT
1 TTATATGTAAAATATTTGTTA-ATTATTATTATATATATTT-ATATTATATTT
87620518 T
1 T
87620519 ATTATATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
45 15 0.34
46 2 0.05
48 4 0.09
49 6 0.14
50 1 0.02
51 5 0.11
53 11 0.25
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (51 bp):
TTATATGTAAAATATTTGTTAATTATTATTATATATATTTATATTATATTT
Found at i:87620528 original size:9 final size:9
Alignment explanation
Indices: 87620416--87620530 Score: 62
Period size: 9 Copynumber: 12.7 Consensus size: 9
87620406 ATATATAAAT
87620416 TTTATTATA
1 TTTATTATA
*
87620425 TGTTATATATT
1 T-TTAT-TATA
87620436 TTTATTATA
1 TTTATTATA
87620445 -TTATT-TA
1 TTTATTATA
87620452 TTTTATTATA
1 -TTTATTATA
87620462 TTT-TTATA
1 TTTATTATA
* **
87620470 TGTAAAATA
1 TTTATTATA
* *
87620479 TTTGTTACA
1 TTTATTATA
87620488 -TTATTAT-
1 TTTATTATA
*
87620495 TATA-TATA
1 TTTATTATA
87620503 TTTCATATTATA
1 -TT--TATTATA
87620515 TTTTATTATA
1 -TTTATTATA
87620525 TTTATT
1 TTTATT
87620531 TAAGTTTTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
7 5 0.06
8 19 0.24
9 26 0.32
10 17 0.21
11 6 0.08
12 7 0.09
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTATTATA
Found at i:87620603 original size:18 final size:19
Alignment explanation
Indices: 87620577--87620612 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
87620567 ATCATGCATT
87620577 ATTAAATAT-TATATTTTA
1 ATTAAATATGTATATTTTA
*
87620595 ATTATATATGTATATTTT
1 ATTAAATATGTATATTTT
87620613 TTAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTAAATATGTATATTTTA
Found at i:87627165 original size:47 final size:47
Alignment explanation
Indices: 87627111--87627304 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
87627101 TTAGGATTTT
** * * *
87627111 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
87627158 ATGTGATGAATGTGATCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
87627205 ATGTGATGAATGTGAGCATGCATATGTGTGACAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
87627252 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
87627299 ATGTGA
1 ATGTGA
87627305 AATATGTATG
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:87627433 original size:98 final size:96
Alignment explanation
Indices: 87627275--87627458 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
87627265 GAACATGCAT
*
87627275 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
87627340 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
87627371 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
87627435 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
87627459 AGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:87627434 original size:50 final size:48
Alignment explanation
Indices: 87627274--87627458 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
87627264 TGAACATGCA
87627274 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
87627322 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
87627370 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
87627420 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
87627459 AGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Done.