Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 105 of 433
Found at i:32200480 original size:14 final size:14
Alignment explanation
Indices: 32200461--32200487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32200451 TTTTTAATTA
32200461 TTTTTTAAAAAATG
1 TTTTTTAAAAAATG
32200475 TTTTTTAAAAAAT
1 TTTTTTAAAAAAT
32200488 ATTGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
TTTTTTAAAAAATG
Found at i:32211546 original size:46 final size:47
Alignment explanation
Indices: 32211438--32211659 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 47
32211428 TTATTTGTGT
* * * * *
32211438 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGAGATGA
* * *
32211486 GTGCTATTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATG-A
* * * *
32211533 -AGCCAGTGTAAGA-CATGTCTAGGACATGCGT-TGGCTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCT-CGAGATGA
* * * * * *
32211578 TAGTCAGCGTAAGACCATGTCTGGGACATGGCTTC-GACTTGAGAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGAGATGA
* * *
32211624 TGAGCTAGTGTAAGACCATGTATAGGACATGACATC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATG-CATC
32211660 GGCACCTTAC
Statistics
Matches: 140, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.03
46 59 0.42
47 59 0.42
48 18 0.13
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGA
Found at i:32211622 original size:47 final size:48
Alignment explanation
Indices: 32211441--32211662 Score: 176
Period size: 47 Copynumber: 4.7 Consensus size: 48
32211431 TTTGTGTGAG
* *
32211441 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG--AGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGTAAGT
* *
32211488 GCTATTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTAAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGAGATGTAAGT
* * * *
32211535 CCAGTGTAAGA-CATGTCTAGGACAT-GCGTTGGCTACGAGATG-ATAGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGTA-AGT
* * * * * *
32211582 C-AGCGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATGAG-
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGTAAGT
* * *
32211628 CTAGTGTAAGACCATGTATAGGACATGACATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
32211663 ACCTTACCCC
Statistics
Matches: 140, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
45 4 0.03
46 54 0.39
47 64 0.46
48 18 0.13
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGTAAGT
Found at i:32213297 original size:12 final size:12
Alignment explanation
Indices: 32213280--32213304 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32213270 CTGTGTGTTC
32213280 TTTATTTTATTT
1 TTTATTTTATTT
32213292 TTTATTTTATTT
1 TTTATTTTATTT
32213304 T
1 T
32213305 ATTTTCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:32217463 original size:16 final size:18
Alignment explanation
Indices: 32217428--32217465 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32217418 ATCCTTATTT
*
32217428 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
32217446 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
32217462 AAAT
1 AAAT
32217466 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:32217721 original size:5 final size:5
Alignment explanation
Indices: 32217711--32217738 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32217701 ATGTGTGTTC
32217711 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
32217739 CTCATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:32219714 original size:26 final size:26
Alignment explanation
Indices: 32219644--32219722 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
32219634 TTTTCTCATC
* * *
32219644 ACAATTTCACCATCAATAAAATTTTG
1 ACAATTTGACCCTCAGTAAAATTTTG
* *
32219670 ACAATTTTACCCTCGGTAAAATTTTG
1 ACAATTTGACCCTCAGTAAAATTTTG
*
32219696 A-AGATTTGACCC-CTAGTAAAACTTTG
1 ACA-ATTTGACCCTC-AGTAAAATTTTG
32219722 A
1 A
32219723 GAAAATTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 42 0.95
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (26 bp):
ACAATTTGACCCTCAGTAAAATTTTG
Found at i:32219865 original size:42 final size:42
Alignment explanation
Indices: 32219794--32219943 Score: 129
Period size: 42 Copynumber: 3.6 Consensus size: 42
32219784 TTTTTGGGTT
* * * *
32219794 ACCAAAGTGTCACAAAGAGCTAGCTTGAGCCCATAGGGATTG
1 ACCAAAGTGTCACAAAGAACTTGCATGAGCCCATAGGGACTG
* * ** *
32219836 ACTAAAGTGTCACAAAAAACTTGCATGAGCCTGTAGAGACTG
1 ACCAAAGTGTCACAAAGAACTTGCATGAGCCCATAGGGACTG
* * * * * *
32219878 ACCAGAGGGTCACCAAGGACTTGCCTGAGCCCATAGGGACTA
1 ACCAAAGTGTCACAAAGAACTTGCATGAGCCCATAGGGACTG
* * * *
32219920 ACGAAAGTCTCCCAAAGACCTTGC
1 ACCAAAGTGTCACAAAGAACTTGC
32219944 CTAAGCCATG
Statistics
Matches: 80, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (42 bp):
ACCAAAGTGTCACAAAGAACTTGCATGAGCCCATAGGGACTG
Found at i:32224690 original size:46 final size:45
Alignment explanation
Indices: 32224551--32224710 Score: 182
Period size: 46 Copynumber: 3.5 Consensus size: 45
32224541 CGATGCCATA
* *
32224551 TCCCAGATATGGTCTTACACTGGCTCTCACA-CATCAATGCCAATGCATG
1 TCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TCGA-GCCAATGCATG
* * *
32224600 TCCCAGACATGTTTTACACTAGC--ACATCTCGTAGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCG-AGCCAATGCATG
32224644 TCCCAGACATGTCTTACACTGGCTTACATCTCGAGCCCAATGCATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCGAG-CCAATGCATG
*
32224690 TCCCAGACATATCTTACACTG
1 TCCCAGACATGTCTTACACTG
32224711 ACTCACATAA
Statistics
Matches: 97, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
44 36 0.37
45 4 0.04
46 37 0.38
48 11 0.11
49 9 0.09
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTGGCTTACATCTCGAGCCAATGCATG
Found at i:32224693 original size:90 final size:94
Alignment explanation
Indices: 32224539--32224709 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 94
32224529 ACATATCGGT
*
32224539 GCCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCC
* *
32224604 AGACATGTTTTACACTAGCACATCTCGTA
66 AGACATATCTTACACTAGCACATCTCGTA
* *
32224633 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC-TCGA-GCCCAATGCATGTC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACA-CATCAATG-CCAATGCATGTC
32224692 CCAGACATATCTTACACT
64 CCAGACATATCTTACACT
32224710 GACTCACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
89 1 0.01
90 34 0.49
91 2 0.03
92 14 0.20
93 12 0.17
94 7 0.10
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (94 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCACACATCAATGCCAATGCATGTCCC
AGACATATCTTACACTAGCACATCTCGTA
Found at i:32226997 original size:24 final size:24
Alignment explanation
Indices: 32226965--32227013 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
32226955 TATCATCGGC
32226965 TCAAAGCCTGATAACTAGTCGCTT
1 TCAAAGCCTGATAACTAGTCGCTT
*
32226989 TCAAAGCCTGATAACTAGTTGCTT
1 TCAAAGCCTGATAACTAGTCGCTT
32227013 T
1 T
32227014 ATTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (24 bp):
TCAAAGCCTGATAACTAGTCGCTT
Found at i:32229676 original size:19 final size:19
Alignment explanation
Indices: 32229652--32229689 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32229642 ACCATTGTCA
32229652 CCCACCATAATCAAATTTG
1 CCCACCATAATCAAATTTG
*
32229671 CCCACCATAATTAAATTTG
1 CCCACCATAATCAAATTTG
32229690 TTACTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CCCACCATAATCAAATTTG
Found at i:32231113 original size:12 final size:12
Alignment explanation
Indices: 32231096--32231121 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32231086 TTGCATACAA
32231096 CCTATCACACGG
1 CCTATCACACGG
32231108 CCTATCACACGG
1 CCTATCACACGG
32231120 CC
1 CC
32231122 ATATGGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (12 bp):
CCTATCACACGG
Found at i:32232243 original size:19 final size:20
Alignment explanation
Indices: 32232219--32232256 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32232209 AAAGGATGAG
32232219 AAAT-AAAAGTTTAGGGGGA
1 AAATAAAAAGTTTAGGGGGA
*
32232238 AAATAAAAAGTTTTGGGGG
1 AAATAAAAAGTTTAGGGGG
32232257 TTTTGGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.24
Consensus pattern (20 bp):
AAATAAAAAGTTTAGGGGGA
Found at i:32234399 original size:102 final size:102
Alignment explanation
Indices: 32234223--32234425 Score: 352
Period size: 102 Copynumber: 2.0 Consensus size: 102
32234213 ACATGTTCAC
* * * *
32234223 ATAGTTCAAACAATGTGAATATGACAATACCTTGTACATGAGAAATTCTTCCACCGTAACAATCA
1 ATAGTTCAAACAATGTGAATATGACAATACCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
*
32234288 AAGGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
66 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
*
32234325 ATAGTTCAAACAATGTGAATATGACAATGCCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
1 ATAGTTCAAACAATGTGAATATGACAATACCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
32234390 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCA
66 AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCA
32234426 GAAAGGTTTT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (102 bp):
ATAGTTCAAACAATGTGAATATGACAATACCTTGGACATGAGAAATTCTTCCACAGCAACAATAA
AAAGCAAAGGGTCTGTTGAACTATAATTCACTTCCAT
Found at i:32235064 original size:34 final size:34
Alignment explanation
Indices: 32235017--32235099 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
32235007 TGTCTATATG
* **
32235017 TTTAAATCTATTGTTATGTTGAAATATTA-TTTCT
1 TTTAAATCAATTGTTACATTGAAATATTACTTT-T
* *
32235051 TTTAAATCGATTGTTACATTGGAATATTACTTTT
1 TTTAAATCAATTGTTACATTGAAATATTACTTTT
32235085 TTTAAATCAATTGTT
1 TTTAAATCAATTGTT
32235100 TATATGTCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 40 0.93
35 3 0.07
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (34 bp):
TTTAAATCAATTGTTACATTGAAATATTACTTTT
Found at i:32235177 original size:55 final size:55
Alignment explanation
Indices: 32235050--32235177 Score: 157
Period size: 55 Copynumber: 2.3 Consensus size: 55
32235040 ATATTATTTC
* * *
32235050 TTTTAAATCGATTGTTACATTGGAATATTACTTTTTTTAAATCAATTGTTTATAT
1 TTTTAAATCGATTGTTATATTAGAATACTACTTTTTTTAAATCAATTGTTTATAT
* * ** ** * *
32235105 GTCTAAATTAATTGTTATATTAGAATACTGTTTTTTTTGAATCGATTGTTTATAT
1 TTTTAAATCGATTGTTATATTAGAATACTACTTTTTTTAAATCAATTGTTTATAT
32235160 TTTTAAATCGATTGTTAT
1 TTTTAAATCGATTGTTAT
32235178 GTAGCATATT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (55 bp):
TTTTAAATCGATTGTTATATTAGAATACTACTTTTTTTAAATCAATTGTTTATAT
Found at i:32242337 original size:48 final size:48
Alignment explanation
Indices: 32242253--32242345 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
32242243 GCTCATGTGG
* * *
32242253 GTTCATTTTTCTACAAAGGAAGTGTAGTACAGAGACTAGAAGATGTAA
1 GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATGTAA
*
32242301 GTTCCTTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATG
1 GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATG
32242346 GAAGCATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (48 bp):
GTTCATTTTTCTACAAAGGAAGTGCAGCACAAAGACTAGAAGATGTAA
Found at i:32248311 original size:16 final size:16
Alignment explanation
Indices: 32248292--32248322 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32248282 CTTCTTCACT
32248292 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
32248308 TACTTACTTACTTAA
1 TACTCACTTACTTAA
32248323 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:32248328 original size:20 final size:20
Alignment explanation
Indices: 32248289--32248328 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32248279 AAACTTCTTC
* *
32248289 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
32248309 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
32248329 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:32248704 original size:55 final size:53
Alignment explanation
Indices: 32248514--32248768 Score: 245
Period size: 53 Copynumber: 4.8 Consensus size: 53
32248504 ACACGGGTAC
* * * * *
32248514 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
32248563 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
32248616 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
32248671 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
32248724 CCTTACCAATTCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
32248769 AACCCTAATG
Statistics
Matches: 174, Mismatches: 22, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 41 0.24
55 41 0.24
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:32248705 original size:108 final size:109
Alignment explanation
Indices: 32248561--32248760 Score: 323
Period size: 108 Copynumber: 1.8 Consensus size: 109
32248551 ATCCTTTTGA
* *
32248561 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
32248624 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
32248669 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
32248734 TCCATGCCTTGGCATGGTCTTACATGG
66 GCCATGCCTTGGCATGGTCTTACATGG
32248761 TATCCTTGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 34 0.40
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:32248767 original size:54 final size:53
Alignment explanation
Indices: 32248514--32248768 Score: 256
Period size: 54 Copynumber: 4.8 Consensus size: 53
32248504 ACACGGGTAC
* * *
32248514 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATT-CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
32248563 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATT-CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
32248616 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * *
32248671 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
32248724 CCTTACCAATTCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTG
32248769 AACCCTAATG
Statistics
Matches: 172, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 42 0.24
54 44 0.26
55 40 0.23
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:32256194 original size:53 final size:53
Alignment explanation
Indices: 32256065--32256317 Score: 270
Period size: 53 Copynumber: 4.8 Consensus size: 53
32256055 ACGCAGGTAT
* ** * *
32256065 CTTACCATTGCCATGAATTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* *
32256114 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * *
32256167 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AA
* * *
32256222 CTTATCAATGCCATGTCTTGACATGGTCTTACATGAT-TCCTTGCCTTA-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
*
32256273 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
32256318 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
49 37 0.21
50 1 0.01
51 2 0.01
52 10 0.06
53 72 0.42
54 16 0.09
55 35 0.20
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:32256256 original size:108 final size:108
Alignment explanation
Indices: 32256112--32256310 Score: 330
Period size: 108 Copynumber: 1.8 Consensus size: 108
32256102 ATCCTTTTGA
* *
32256112 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTCACCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGAT-TCCTTGCCTTA-GAACCTCACCAAT
32256175 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
32256220 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTCCTTGCCTTAGAACCTTACCAATTG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATTCCTTGCCTTAGAACCTCACCAATTG
32256285 CCATGCCTTGGCATGGTCTTACATGG
66 CCATGCCTTGGCATGGTCTTACATGG
32256311 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
106 3 0.04
107 18 0.21
108 64 0.75
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (108 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATTCCTTGCCTTAGAACCTCACCAATTG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:32258877 original size:29 final size:30
Alignment explanation
Indices: 32258844--32258908 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
32258834 ATGAAATTTC
* *
32258844 AAATTAGGGGGTTAAATTGAGAAA-AATAA
1 AAATTAGGGGGTAAAAGTGAGAAATAATAA
* * *
32258873 AAATTATGTGGTAAAAGTGTGAAATAATAA
1 AAATTAGGGGGTAAAAGTGAGAAATAATAA
32258903 AAATTA
1 AAATTA
32258909 TCGGCTGCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (30 bp):
AAATTAGGGGGTAAAAGTGAGAAATAATAA
Found at i:32261230 original size:26 final size:26
Alignment explanation
Indices: 32261184--32261236 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
32261174 TCAAACATGC
*
32261184 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
32261210 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
32261236 A
1 A
32261237 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:32262792 original size:32 final size:32
Alignment explanation
Indices: 32262720--32262816 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
32262710 AGACATGAAG
* *
32262720 TGCCCATCATCCACTAACTATTAAAAAGGCTAA
1 TGCCCATCATCCATTAACTATT-AAAATGCTAA
*
32262753 TGTCCATCATCCATTAACTATTAAAATGCTAA
1 TGCCCATCATCCATTAACTATTAAAATGCTAA
32262785 TGCCCATCATCCATTAACTATTAAAATGCTAA
1 TGCCCATCATCCATTAACTATTAAAATGCTAA
32262817 AATGCATACA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 40 0.67
33 20 0.33
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (32 bp):
TGCCCATCATCCATTAACTATTAAAATGCTAA
Found at i:32263726 original size:43 final size:42
Alignment explanation
Indices: 32263651--32263757 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
32263641 TTTGAATGTC
** * * * *
32263651 CACACGGCCTGTGACATGGGCGTGTCTTTTGGCCTTGTGAGA
1 CACACGGCCTGCCACACGGGCATGTCTCTTGGCCATGTGAGA
*
32263693 CACACGGCCTAGCCACAGGGGCATGTCTCTTGGCCATGTGAGA
1 CACACGGCCT-GCCACACGGGCATGTCTCTTGGCCATGTGAGA
32263736 CACACGGCCTGGCCACACGGGC
1 CACACGGCCT-GCCACACGGGC
32263758 TTGTGTCCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 10 0.18
43 46 0.82
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.20
Consensus pattern (42 bp):
CACACGGCCTGCCACACGGGCATGTCTCTTGGCCATGTGAGA
Found at i:32266011 original size:49 final size:48
Alignment explanation
Indices: 32265850--32266011 Score: 131
Period size: 49 Copynumber: 3.4 Consensus size: 48
32265840 TATACAAGCT
* * * *
32265850 AGTGTAAGACCTATCTAGGACATGGCATCAG-CTTG-T-TGTG-TGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGATATATGAAGTC
* * *
32265894 AGTGTAAGACC-AGCCTGGGACATGGCATCTA-CAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTA-TCTGGGACATGGCATC-AGC-CTCGATATATGA-AGTC
* * * *
32265943 AGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGATATCTGAAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGATATATG-AAGTC
32265992 AGTGTAAGACCTATCTGGGA
1 AGTGTAAGACCTATCTGGGA
32266012 TGTGGCATTG
Statistics
Matches: 90, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.01
44 25 0.28
45 2 0.02
46 2 0.02
47 2 0.02
48 1 0.01
49 56 0.62
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTATCTGGGACATGGCATCAGCCTCGATATATGAAGTC
Found at i:32273993 original size:80 final size:80
Alignment explanation
Indices: 32273901--32274060 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
32273891 TAGCTCTCAA
32273901 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
1 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
32273966 TTGTACAGTCATAGT
66 TTGTACAGTCATAGT
*
32273981 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAGGGTGATACTCAA
1 GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
*
32274046 TTGTGCAGTCATAGT
66 TTGTACAGTCATAGT
32274061 CTTTCAACAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (80 bp):
GTCGGACATTGCCTTTCTACTTAAGGCATCAACCACTATATTAGCTTTTCCAAGGTGATACTCAA
TTGTACAGTCATAGT
Found at i:32278910 original size:46 final size:46
Alignment explanation
Indices: 32278840--32279011 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
32278830 TGTAACCCGC
*
32278840 CCATAAGTGAACTCGGACTCAACTCAATGAGTTTGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGGCATTCACAT
* *
32278886 CCATAAGTGAACTCGGACTTAACTCAACGAGCTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGG--G-C-A-TTCACAT
* * * * *
32278936 CTC-T---CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTTGGGCATTCACAT
32278979 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
32279012 CGGATGCCCA
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 57 0.55
47 24 0.23
48 1 0.01
49 1 0.01
50 7 0.07
51 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGGCATTCACAT
Found at i:32278965 original size:93 final size:93
Alignment explanation
Indices: 32278848--32279019 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
32278838 GCCCATAAGT
* * * *
32278848 GAACTCGGACTCAACTCAATGAGTTTGGGCATTCACATCCATAAGTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
32278913 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* *
32278941 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
32279006 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
32279020 CAAATATCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:32288663 original size:30 final size:29
Alignment explanation
Indices: 32288569--32288670 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
32288559 TATAGTGAAT
* * *
32288569 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
32288598 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
32288626 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
32288656 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
32288671 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:32291753 original size:50 final size:51
Alignment explanation
Indices: 32291699--32291875 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 51
32291689 ATCTGGTATG
32291699 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGATACA
* * **** * * *
32291749 CATAGTAGCCTACACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AAACCATCTGATACA
* * * *
32291800 CATAGTAGCCTGCACTTAGTACTACACATGTGGCCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AAACCATCTGATACA
* *
32291852 CATAGTAGCTTGCACATAGTACTA
1 CATAGTAGCCTGCACTTAGTACTA
32291876 AACATGTTTT
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 1 0.01
50 32 0.32
51 37 0.37
52 29 0.29
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGATACA
Found at i:32296666 original size:22 final size:22
Alignment explanation
Indices: 32296638--32296681 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32296628 TTTAATTACT
*
32296638 TAGCCATTTAGTCATGCCCGAC
1 TAGCCATTTAGCCATGCCCGAC
32296660 TAGCCATTTAGCCATGCCCGAC
1 TAGCCATTTAGCCATGCCCGAC
32296682 CTACAAGCTT
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:0.34, G:0.18, T:0.25
Consensus pattern (22 bp):
TAGCCATTTAGCCATGCCCGAC
Found at i:32300061 original size:40 final size:39
Alignment explanation
Indices: 32300006--32300085 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 39
32299996 CTAGTAGGAG
*
32300006 TCTATGAAGAATTTGGCTAGCATGAAATTAAAAAAGAAAT
1 TCTATGAAAAATTTGGCTAGCATGAAATT-AAAAAGAAAT
*
32300046 TCTATGAAAAATTTGGCTAGCATGAAATTAGAAAGAAAT
1 TCTATGAAAAATTTGGCTAGCATGAAATTAAAAAGAAAT
32300085 T
1 T
32300086 GTGTAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 10 0.26
40 28 0.74
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (39 bp):
TCTATGAAAAATTTGGCTAGCATGAAATTAAAAAGAAAT
Found at i:32300545 original size:43 final size:44
Alignment explanation
Indices: 32300494--32300660 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 44
32300484 GATTACCGAG
*
32300494 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** *
32300538 -TGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * *
32300580 ATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
32300623 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
32300661 TGTACAAGCT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 7 0.07
43 97 0.93
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:32303702 original size:41 final size:39
Alignment explanation
Indices: 32303657--32303789 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 39
32303647 ATAATCTTGT
32303657 ACACTAAGTGCCTTTCATAGCCGAAGCTATCTC-AGTCTCGC
1 ACACTAAGTGCCTTT-ATAGCCGAAGCTATCTCGA-T-TCGC
*
32303698 ACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGATTCGC
1 ACACTAAGTGCC-TTTATAGCCGAAGCTATCT-CGATTCGC
* * *
32303738 ACACTAAGTGCTTTATATAGCCAAAGCTATCTCGATACGC
1 ACACTAAGTGCCTT-TATAGCCGAAGCTATCTCGATTCGC
32303778 ACACTAAGTGCC
1 ACACTAAGTGCC
32303790 AAACATAATT
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.01
40 48 0.59
41 29 0.36
42 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (39 bp):
ACACTAAGTGCCTTTATAGCCGAAGCTATCTCGATTCGC
Found at i:32313757 original size:40 final size:40
Alignment explanation
Indices: 32313702--32313900 Score: 355
Period size: 40 Copynumber: 5.0 Consensus size: 40
32313692 AAGTTCAGTA
32313702 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32313742 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32313782 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
32313822 TGTTATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * *
32313862 TGATGTATCCGGGCTAAGCCCCGAAG-GCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32313901 GACAAAATCC
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 13 0.08
40 141 0.92
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:32314182 original size:25 final size:25
Alignment explanation
Indices: 32314143--32314191 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32314133 TGTGTAATAA
32314143 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
32314168 CGAATGAAT-TGAGGCACTGTGTGT
1 CGAATGAATAT-AGGCACTATGTGT
32314192 ACGGATTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:32314490 original size:2 final size:2
Alignment explanation
Indices: 32314483--32314509 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32314473 ATGTTACGGC
32314483 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32314510 GAATGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32319738 original size:40 final size:40
Alignment explanation
Indices: 32319683--32319880 Score: 346
Period size: 40 Copynumber: 5.0 Consensus size: 40
32319673 AAGTTCAGTA
32319683 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32319723 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32319763 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
32319803 TGTTATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * *
32319843 TGATGTATCCGGGCTAAGCCCCGAAG-GCATTCGT-CTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32319881 GACAAAATCC
Statistics
Matches: 153, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 4 0.03
39 8 0.05
40 141 0.92
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:32320162 original size:25 final size:25
Alignment explanation
Indices: 32320123--32320171 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32320113 TGTGTAATAA
32320123 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
32320148 CGAATGAAT-TGAGGCACTGTGTGT
1 CGAATGAATAT-AGGCACTATGTGT
32320172 ACGGATTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:32320471 original size:2 final size:2
Alignment explanation
Indices: 32320464--32320490 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32320454 TGTTACGGCT
32320464 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32320491 GAATGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32325724 original size:40 final size:40
Alignment explanation
Indices: 32325669--32325867 Score: 355
Period size: 40 Copynumber: 5.0 Consensus size: 40
32325659 AAGTTCAGTA
32325669 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32325709 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32325749 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
*
32325789 TGTTATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
* * *
32325829 TGATGTATCCGGGCTAAGCCCCGAAG-GCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
32325868 GACAAAATCC
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 13 0.08
40 141 0.92
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
Found at i:32326149 original size:25 final size:25
Alignment explanation
Indices: 32326110--32326158 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32326100 TGTGTAATAA
32326110 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
*
32326135 CGAATGAAT-TGAGGCACTGTGTGT
1 CGAATGAATAT-AGGCACTATGTGT
32326159 ACGGATTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:32331823 original size:27 final size:27
Alignment explanation
Indices: 32331792--32331933 Score: 162
Period size: 27 Copynumber: 5.3 Consensus size: 27
32331782 TTAGTTTACC
* *
32331792 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
32331819 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
32331846 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
32331873 AAATTACAGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
32331900 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
32331927 AAATTAC
1 AAATTAC
32331934 CCAATTATCA
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
26 4 0.04
27 88 0.91
28 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:32331929 original size:81 final size:81
Alignment explanation
Indices: 32331792--32331942 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
32331782 TTAGTTTACC
* *
32331792 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
32331857 ATATCCTCGATTTGTA
66 ATATCCTCGATTTGTA
** * * *
32331873 AAATTACAGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACCCA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCCA
*
32331937 ATTATC
65 AATATC
32331943 ATTTTACCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 58 0.95
82 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATATCCTCGATTTGTA
Found at i:32331974 original size:27 final size:27
Alignment explanation
Indices: 32331943--32332197 Score: 357
Period size: 27 Copynumber: 9.4 Consensus size: 27
32331933 CCCAATTATC
*
32331943 ATTTTACCTTCGATTTATAGAATTACT
1 ATTTTACCCTCGATTTATAGAATTACT
* * *
32331970 ATTTTTACCCTCGATTTACAAAATTACC
1 A-TTTTACCCTCGATTTATAGAATTACT
* *
32331998 GTTTTACCCTCAATTTATAGAATTACT
1 ATTTTACCCTCGATTTATAGAATTACT
* *
32332025 ATTTTACCCTCGATTTACAGAATTACC
1 ATTTTACCCTCGATTTATAGAATTACT
32332052 ATTTTACCCTCGATTTATAGAATTACT
1 ATTTTACCCTCGATTTATAGAATTACT
32332079 ATTTTACCCTCGATTTATAGAATTACT
1 ATTTTACCCTCGATTTATAGAATTACT
* *
32332106 GTTTTACCCTCAATTTATAGAATTACT
1 ATTTTACCCTCGATTTATAGAATTACT
* *
32332133 ATTTTACCCTCGATTTACAGAATTACC
1 ATTTTACCCTCGATTTATAGAATTACT
* * * *
32332160 GTCTTACCCTCGATTTACAGAATTACC
1 ATTTTACCCTCGATTTATAGAATTACT
32332187 ATTTTACCCTC
1 ATTTTACCCTC
32332198 AATGTAAAAA
Statistics
Matches: 202, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 180 0.89
28 22 0.11
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTCGATTTATAGAATTACT
Found at i:32332211 original size:54 final size:54
Alignment explanation
Indices: 32331944--32332197 Score: 409
Period size: 54 Copynumber: 4.7 Consensus size: 54
32331934 CCAATTATCA
* *
32331944 TTTTACCTTCGATTTATAGAATTACTATTTTTACCCTCGATTTACAAAATTACCG
1 TTTTACCCTCGATTTATAGAATTACTA-TTTTACCCTCGATTTACAGAATTACCG
* *
32331999 TTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCG
* *
32332053 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTG
1 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCG
*
32332107 TTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCG
1 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCG
* * *
32332161 TCTTACCCTCGATTTACAGAATTACCATTTTACCCTC
1 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTC
32332198 AATGTAAAAA
Statistics
Matches: 184, Mismatches: 15, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
54 159 0.86
55 25 0.14
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (54 bp):
TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCG
Found at i:32332222 original size:54 final size:54
Alignment explanation
Indices: 32331946--32332254 Score: 296
Period size: 54 Copynumber: 5.7 Consensus size: 54
32331936 AATTATCATT
* * * * *
32331946 TTACCTTCGATTTATAGAATTACTATTTTTACCCTCGATTTACAA-AATTACCGTT
1 TTACCCTCGATTTACAGAATTACCA-TTTTACCCTCGATTTA-AAGAATTACTGTA
* * * * ** *
32332001 TTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCATT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAGAATTACTGTA
* * * *
32332055 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAGAATTACTGTA
* * * * * *
32332109 TTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTC
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAGAATTACTGTA
* * * * *
32332163 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTATTGAA
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAGAATTACTGTA
* * * * * *
32332217 ATACCCTTGGTTTACAAAATTACCAATATACCCTCGAT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGAT
32332255 CAATAAAATT
Statistics
Matches: 223, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 199 0.89
55 23 0.10
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (54 bp):
TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAGAATTACTGTA
Found at i:32332247 original size:27 final size:27
Alignment explanation
Indices: 32332215--32332333 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
32332205 AAAATTATTG
*
32332215 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* * * **
32332242 ATATACCCTCGATCAATAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* *
32332269 AAATACCATTGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTATAAAATTACCA
* * ** *
32332296 AAATACCCCTGCTTTATGTAATTACCG
1 AAATACCCTTGGTTTATAAAATTACCA
32332323 AAATACCCTTG
1 AAATACCCTTG
32332334 TAGGGTAGAA
Statistics
Matches: 71, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGGTTTATAAAATTACCA
Found at i:32332249 original size:81 final size:81
Alignment explanation
Indices: 32331975--32332254 Score: 240
Period size: 81 Copynumber: 3.5 Consensus size: 81
32331965 TTACTATTTT
* ** * * * * *
32331975 TACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATCATACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
* * * **
32332040 TACAGAATTACCATTT
66 TAAAAAATTACTATAA
* * * ** * ** *
32332056 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACCATCATACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
* * **
32332121 TATAGAATTACTATTT
66 TAAAAAATTACTATAA
* * *
32332137 TACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
1 TACCCTCGATTTACAAAATTACCATCATACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
*
32332202 TAAAAAATTATTGA-AA
66 TAAAAAATTACT-ATAA
* *
32332218 TACCCTTGGTTTACAAAATTACCAAT-ATACCCTCGAT
1 TACCCTCGATTTACAAAATTACC-ATCATACCCTCGAT
32332255 CAATAAAATT
Statistics
Matches: 170, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 168 0.99
82 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATCATACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
TAAAAAATTACTATAA
Found at i:32332263 original size:54 final size:54
Alignment explanation
Indices: 32332164--32332303 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 54
32332154 ATTACCGTCT
* * * * * * ***
32332164 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTATTGAAA
1 TACCCTTGGTTTACAAAATTACCAATATACCCTCAATGCAAAAAATTACCAAAA
*
32332218 TACCCTTGGTTTACAAAATTACCAATATACCCTCGAT-CAATAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAATATACCCTCAATGCAA-AAAATTACCAAAA
* ** *
32332272 TACCATTGGTTTGTAAAATTACCAAAATACCC
1 TACCCTTGGTTTACAAAATTACCAATATACCC
32332304 CTGCTTTATG
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 2 0.03
54 69 0.97
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAATATACCCTCAATGCAAAAAATTACCAAAA
Found at i:32332506 original size:27 final size:27
Alignment explanation
Indices: 32332315--32332509 Score: 293
Period size: 27 Copynumber: 7.3 Consensus size: 27
32332305 TGCTTTATGT
32332315 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
32332342 AA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
32332368 AATAACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
32332395 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
32332422 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
32332449 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
32332476 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
32332503 AATTACC
1 AATTACC
32332510 ATTTTTCCCC
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 25 0.17
27 125 0.83
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:32332949 original size:31 final size:31
Alignment explanation
Indices: 32332911--32332981 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
32332901 TTGCATTCAC
32332911 ATTCTGATTTTGATTCTATTACCTGATACCG
1 ATTCTGATTTTGATTCTATTACCTGATACCG
* *
32332942 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACCG
32332973 ATTCTGATT
1 ATTCTGATT
32332982 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACCG
Found at i:32332955 original size:6 final size:6
Alignment explanation
Indices: 32332911--32333014 Score: 70
Period size: 6 Copynumber: 16.8 Consensus size: 6
32332901 TTGCATTCAC
* * * *
32332911 ATTCTG ATTTTG ATTCT- ATTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
32332960 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
32333010 ATTCT
1 ATTCT
32333015 AGTTTTGATA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
5 6 0.08
6 58 0.77
7 7 0.09
8 4 0.05
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:32332973 original size:25 final size:25
Alignment explanation
Indices: 32332914--32333009 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 25
32332904 CATTCACATT
* *
32332914 CTGATTTTGATTCT-ATTACCTGATAC
1 CTGATTCTGATTCTGATT--CTGTTAC
*
32332940 C-GATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
* *
32332964 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
32332989 CTAATTCTGATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
32333010 ATTCTAGTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.12
25 49 0.82
26 4 0.07
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:32338019 original size:30 final size:30
Alignment explanation
Indices: 32337964--32338094 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
32337954 ATAGTGAATC
*
32337964 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
32337993 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
32338023 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
32338051 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
32338081 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32338095 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:32338074 original size:58 final size:58
Alignment explanation
Indices: 32337963--32338094 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
32337953 TATAGTGAAT
* * * * *
32337963 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
32338022 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
32338080 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
32338095 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:32341563 original size:27 final size:27
Alignment explanation
Indices: 32341532--32341674 Score: 157
Period size: 27 Copynumber: 5.3 Consensus size: 27
32341522 TTAGTTTACC
* *
32341532 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
32341559 AAATTAC-CAAAGTACTCC-CGATTTATA
1 AAATTACTGAAA-TAC-CCTCGATTTGTA
** *
32341586 AAATTACCAAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
32341613 AAATTACAGAAATACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTA
32341640 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
32341667 AAATTACT
1 AAATTACT
32341675 CAATTATCGT
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
26 6 0.06
27 85 0.88
28 6 0.06
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:32341714 original size:27 final size:27
Alignment explanation
Indices: 32341684--32341883 Score: 265
Period size: 27 Copynumber: 7.4 Consensus size: 27
32341674 TCAATTATCG
* *
32341684 TTTTACCTTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
**
32341711 TTTTTACCCTCGATTTACAGAATTACCG
1 -TTTTACCCTCGATTTACAGAATTACTA
*
32341739 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
*
32341766 TTTTACCCTCGATTTACAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTA
*
32341793 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
* **
32341820 TTTTACCCTCGATTTACAAAATTACCG
1 TTTTACCCTCGATTTACAGAATTACTA
** * *
32341847 CCTTACCCTCGATTTAAAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACTA
32341874 TTTTACCCTC
1 TTTTACCCTC
32341884 AATGTAAAAA
Statistics
Matches: 150, Mismatches: 22, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
27 127 0.85
28 23 0.15
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTA
Found at i:32341796 original size:54 final size:54
Alignment explanation
Indices: 32341676--32341883 Score: 335
Period size: 54 Copynumber: 3.8 Consensus size: 54
32341666 AAAATTACTC
* *
32341676 AATTATCGTTTTACCTTCGATTTATAGAATTACTATTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTA-TTTTACCCTCGATTTACAG
32341731 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
* *
32341785 AATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
** * *
32341839 AATTACCGCCTTACCCTCGATTTAAAGAATTACCATTTTACCCTC
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTC
32341884 AATGTAAAAA
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
54 111 0.77
55 33 0.23
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
Found at i:32341897 original size:81 final size:81
Alignment explanation
Indices: 32341686--32341924 Score: 262
Period size: 81 Copynumber: 2.9 Consensus size: 81
32341676 AATTATCGTT
* * * **
32341686 TTACCTTCGATTTATAGAATTACTATTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA
1 TTACCCTCGATTTAAAGAATTACTA-TTTTACCCTCGATTTAAAGAATTACTATTTTACCCTCGA
* * * **
32341751 TTTATAGAATTACTATT
65 TTTACAAAATTACCACC
* * *
32341768 TTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGAT
1 TTACCCTCGATTTAAAGAATTACTATTTTACCCTCGATTTAAAGAATTACTATTTTACCCTCGAT
*
32341833 TTACAAAATTACCGCC
66 TTACAAAATTACCACC
* * * * *** * *
32341849 TTACCCTCGATTTAAAGAATTACCATTTTACCCTCAATGTAAAAAATTACTAAAATACCCTTGGT
1 TTACCCTCGATTTAAAGAATTACTATTTTACCCTCGATTTAAAGAATTACTATTTTACCCTCGAT
32341914 TTACAAAATTA
66 TTACAAAATTA
32341925 ACAAAATACC
Statistics
Matches: 133, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
81 111 0.83
82 22 0.17
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
TTACCCTCGATTTAAAGAATTACTATTTTACCCTCGATTTAAAGAATTACTATTTTACCCTCGAT
TTACAAAATTACCACC
Found at i:32341907 original size:27 final size:25
Alignment explanation
Indices: 32341850--32341961 Score: 71
Period size: 27 Copynumber: 4.2 Consensus size: 25
32341840 ATTACCGCCT
* ***
32341850 TACCCTCGATTTAAAGAATTACCATTT
1 TACCCTCGA-TTAAAAAATTA-CAAAA
*
32341877 TACCCTCAATGTAAAAAATTACTAAAA
1 TACCCTCGAT-TAAAAAATTAC-AAAA
* * *
32341904 TACCCTTGGTTTACAAAATTAACAAAA
1 TACCC-TCGATTAAAAAATT-ACAAAA
*
32341931 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTAA-AAAATTA-CAAAA
32341958 TACC
1 TACC
32341962 ATTGGTTTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
26 7 0.11
27 55 0.83
28 4 0.06
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (25 bp):
TACCCTCGATTAAAAAATTACAAAA
Found at i:32341908 original size:54 final size:54
Alignment explanation
Indices: 32341686--32341909 Score: 277
Period size: 54 Copynumber: 4.1 Consensus size: 54
32341676 AATTATCGTT
* * * **
32341686 TTACCTTCGATTTATAGAATTACTATTTTTACCCTCGATTTACAGAATTACCGTT
1 TTACCCTCGATTTATAGAATTACTA-TTTTACCCTCGATTTACAAAATTACTGAA
* **
32341741 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTGTT
1 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGAA
* **
32341795 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCGCC
1 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGAA
* * * * * *
32341849 TTACCCTCGATTTAAAGAATTACCATTTTACCCTCAATGTAAAAAATTACTAAA
1 TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGAA
*
32341903 ATACCCT
1 TTACCCT
32341910 TGGTTTACAA
Statistics
Matches: 153, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 129 0.84
55 24 0.16
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGAA
Found at i:32341924 original size:54 final size:54
Alignment explanation
Indices: 32341877--32341989 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
32341867 ATTACCATTT
* * * *
32341877 TACCCTCAATGTAA-AAAATTACTAAAATACCCTTGGTTTACAAAATTAACAAAA
1 TACCCTCAAT-CAATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* **
32341931 TACCCTCGATCAATAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATCAATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
32341985 TACCC
1 TACCC
32341990 CTGCTTTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (54 bp):
TACCCTCAATCAATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
Found at i:32341974 original size:27 final size:27
Alignment explanation
Indices: 32341891--32342015 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
32341881 CTCAATGTAA
* *
32341891 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTAT
* * * **
32341918 AAAATTAACAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCCTTGGTTTAT
* *
32341945 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAT
* *
32341972 AAAATTACCAAAATACCCCTGCTTTAT
1 AAAATTACCAAAATACCCTTGGTTTAT
** *
32341999 GTAATTACCGAAATACC
1 AAAATTACCAAAATACC
32342016 ATTGTAGGGT
Statistics
Matches: 77, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTAT
Found at i:32342074 original size:27 final size:27
Alignment explanation
Indices: 32342004--32342191 Score: 220
Period size: 27 Copynumber: 7.0 Consensus size: 27
32341994 TTTATGTAAT
**
32342004 TACCGAAATACCATTGTAGGGTAG-AA
1 TACCGAAATACCCCTGTAGGGTAGAAA
32342030 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * * ** *
32342057 AACTGGAATACCCCTGTAAAGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
32342084 TACCGAAATACCCCTTTAGGGTAG-AA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
32342110 TGACCGAAATACCCTTGTAGGGTAGAAA
1 T-ACCGAAATACCCCTGTAGGGTAGAAA
*
32342138 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
32342165 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
32342191 T
1 T
32342192 TACCATTTTT
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 27 0.20
27 106 0.78
28 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:32342152 original size:81 final size:81
Alignment explanation
Indices: 32342001--32342187 Score: 263
Period size: 81 Copynumber: 2.3 Consensus size: 81
32341991 TGCTTTATGT
* *
32342001 AATTACCGAAATA-CCATTGTAGGGTAGAATACCGAAATACCCCTGTAGGGTAGAAAAACTGGAA
1 AATTACCGAAATACCCATTGTAGGGTAGAATACCGAAATACCCCTGTAGGGTAGAAAAACCGAAA
32342065 TACCCCTGTAAAGTAG
66 TACCCCTGTAAAGTAG
* * *
32342081 AATTACCGAAATACCCCTT-TAGGGTAGAATGACCGAAATACCCTTGTAGGGTAGAAATACCGAA
1 AATTACCGAAATACCCATTGTAGGGTAGAAT-ACCGAAATACCCCTGTAGGGTAGAAAAACCGAA
**
32342145 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAAAGTAG
* *
32342162 AATTACCGAGATACCC-TTGTGGGGTA
1 AATTACCGAAATACCCATTGTAGGGTA
32342188 AAATTACCAT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 26 0.27
81 69 0.73
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (81 bp):
AATTACCGAAATACCCATTGTAGGGTAGAATACCGAAATACCCCTGTAGGGTAGAAAAACCGAAA
TACCCCTGTAAAGTAG
Found at i:32342178 original size:54 final size:54
Alignment explanation
Indices: 32342001--32342191 Score: 251
Period size: 54 Copynumber: 3.6 Consensus size: 54
32341991 TGCTTTATGT
*
32342001 AATTACCGAAATACCATTGTAGGGTAG-AATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
** * * * ** * *
32342054 AAAAACTGGAATACCCCTGTAAAGTAGAATTACCGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
32342108 AATGACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
32342162 AATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAAAT
32342192 TACCATTTTT
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
53 23 0.20
54 92 0.80
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:32342635 original size:31 final size:31
Alignment explanation
Indices: 32342597--32342667 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
32342587 TTGCATTCAC
32342597 ATTCTGATTTTGATTCTATTACCTGATACCG
1 ATTCTGATTTTGATTCTATTACCTGATACCG
* *
32342628 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACCG
32342659 ATTCTGATT
1 ATTCTGATT
32342668 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACCG
Found at i:32342641 original size:6 final size:6
Alignment explanation
Indices: 32342597--32342709 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
32342587 TTGCATTCAC
* * * *
32342597 ATTCTG ATTTTG ATTCT- ATTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
32342646 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
32342696 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
32342710 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 7 0.09
6 61 0.76
7 8 0.10
8 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:32342659 original size:25 final size:25
Alignment explanation
Indices: 32342600--32342695 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
32342590 CATTCACATT
* *
32342600 CTGATTTTGATTCT-ATTACCTGATAC
1 CTGATTCTGATTCTGATT--CTGTTAC
*
32342626 C-GATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
* *
32342650 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTTAC
* *
32342675 CTAATTTTGATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
32342696 ATTCTAGTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 7 0.12
25 48 0.81
26 4 0.07
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:32348687 original size:26 final size:26
Alignment explanation
Indices: 32348658--32348767 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
32348648 TGGTACAAAT
32348658 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
32348684 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
32348710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
32348736 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
32348762 TGATAA
1 TGATAA
32348768 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:32350425 original size:27 final size:27
Alignment explanation
Indices: 32350387--32350508 Score: 165
Period size: 27 Copynumber: 4.5 Consensus size: 27
32350377 AAGCGTTCTA
*
32350387 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
32350414 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
32350441 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
32350468 GTGGCTCTGCCACGATTATCTGTATCT-
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* *
32350495 GTGACTCTGTCACA
1 GTGGCTCTGCCACA
32350509 TTATCTATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 81 0.96
28 3 0.04
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:32353733 original size:30 final size:30
Alignment explanation
Indices: 32353694--32353750 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
32353684 TTTTATAAGT
32353694 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
32353724 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
32353751 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:32353937 original size:13 final size:13
Alignment explanation
Indices: 32353921--32353945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32353911 TTTAAACCAA
32353921 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
32353934 ACTTTTCAAAAG
1 ACTTTTCAAAAG
32353946 CATTGCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:32364136 original size:3 final size:3
Alignment explanation
Indices: 32364128--32364158 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
32364118 ATGTACCTTT
32364128 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
32364159 AGGAACATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:32372512 original size:16 final size:15
Alignment explanation
Indices: 32372491--32372555 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
32372481 ACCCTAGAAG
32372491 AAAAACCTTAAACCCT
1 AAAAA-CTTAAACCCT
*
32372507 AAAAACTTAAAACCTT
1 AAAAACTT-AAACCCT
32372523 AAAAACTCTAAACCC-
1 AAAAACT-TAAACCCT
*
32372538 -AAACCTT-AACCCT
1 AAAAACTTAAACCCT
32372551 AAAAA
1 AAAAA
32372556 AACCAACCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 1 0.02
14 8 0.20
15 3 0.07
16 23 0.56
17 1 0.02
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAACTTAAACCCT
Found at i:32372694 original size:35 final size:31
Alignment explanation
Indices: 32372621--32372683 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
32372611 TTGCCTAGTT
*
32372621 AGAAGAAATCATGTAAGCGCGCTTTTAACTA
1 AGAAGAAATCATGCAAGCGCGCTTTTAACTA
32372652 AGAAGAAATCATGCAAGCGCGCTTTTAACTA
1 AGAAGAAATCATGCAAGCGCGCTTTTAACTA
32372683 A
1 A
32372684 CTTGGCAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (31 bp):
AGAAGAAATCATGCAAGCGCGCTTTTAACTA
Found at i:32373882 original size:18 final size:19
Alignment explanation
Indices: 32373848--32373889 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
32373838 TTACAAAAAG
*
32373848 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTAT
*
32373867 AAAATTCAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
32373885 AAAAA
1 AAAAA
32373890 ATAAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:32373940 original size:10 final size:10
Alignment explanation
Indices: 32373903--32373963 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
32373893 AAAATTATAT
32373903 AATTTT-AAA
1 AATTTTAAAA
*
32373912 AATTCTAAAGA
1 AATTTTAAA-A
32373923 ATATTTTAAAA
1 A-ATTTTAAAA
*
32373934 AATTTTAAAT
1 AATTTTAAAA
**
32373944 TTTTTTAAAA
1 AATTTTAAAA
*
32373954 AATTCTAAAA
1 AATTTTAAAA
32373964 TAATAATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
9 5 0.12
10 24 0.60
11 4 0.10
12 7 0.17
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:32375329 original size:19 final size:19
Alignment explanation
Indices: 32375305--32375348 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
32375295 ATATGGCAGC
32375305 ATTTTAAATTAATATGTGA
1 ATTTTAAATTAATATGTGA
*
32375324 ATTTTAAATTAATTTGTGA
1 ATTTTAAATTAATATGTGA
32375343 AGTTTT
1 A-TTTT
32375349 TTTATTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (19 bp):
ATTTTAAATTAATATGTGA
Found at i:32384813 original size:34 final size:34
Alignment explanation
Indices: 32384775--32384839 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
32384765 AGAACAACAT
* *
32384775 AGTAGCAATCAATATGCTTATAACAGTTCAATAC
1 AGTAGCAATCAATATGCTTAAAACAATTCAATAC
*
32384809 AGTAGCAATTAATATGCTTAAAACAATTCAA
1 AGTAGCAATCAATATGCTTAAAACAATTCAA
32384840 CTCAATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (34 bp):
AGTAGCAATCAATATGCTTAAAACAATTCAATAC
Found at i:32384849 original size:34 final size:34
Alignment explanation
Indices: 32384777--32384850 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
32384767 AACAACATAG
* * *
32384777 TAGCAATCAATATGCTTATAACAGTTCAATACAG
1 TAGCAATCAATATGCTTAAAACAATTCAATACAA
*
32384811 TAGCAATTAATATGCTTAAAACAATTCAACT-CAA
1 TAGCAATCAATATGCTTAAAACAATTCAA-TACAA
32384845 TAGCAA
1 TAGCAA
32384851 AAGTCATGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (34 bp):
TAGCAATCAATATGCTTAAAACAATTCAATACAA
Found at i:32387828 original size:26 final size:25
Alignment explanation
Indices: 32387798--32387890 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 25
32387788 GAACTCACCA
32387798 CAGCTCGTATGAGCTTACTGATTTAT
1 CAGCTCGTATGAGCTTACTGATTT-T
* * *
32387824 CAGCTCGAAAGAGGTTACT-ATTTT
1 CAGCTCGTATGAGCTTACTGATTTT
* *
32387848 CAGCTCAT-TGGAGCTTACCG--TTT
1 CAGCTCGTAT-GAGCTTACTGATTTT
*
32387871 CAACTCGTATGAGCTTACTG
1 CAGCTCGTATGAGCTTACTG
32387891 TTCATCTAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
23 18 0.34
24 15 0.28
25 4 0.08
26 16 0.30
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTGATTTT
Found at i:32387884 original size:23 final size:23
Alignment explanation
Indices: 32387858--32387917 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
32387848 CAGCTCATTG
* * *
32387858 GAGCTTACCGTTTCAACTCGTAT
1 GAGCTTACCGTTTCAACTAGAAA
* *
32387881 GAGCTTACTG-TTCATCTAGAAA
1 GAGCTTACCGTTTCAACTAGAAA
32387903 GAGCTTACCGTTTCA
1 GAGCTTACCGTTTCA
32387918 GCTCAATAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAACTAGAAA
Found at i:32387928 original size:23 final size:23
Alignment explanation
Indices: 32387845--32387961 Score: 78
Period size: 23 Copynumber: 5.0 Consensus size: 23
32387835 AGGTTACTAT
* *
32387845 TTTCAGCTCATTGGAGCTTACCG
1 TTTCAGCTCAATAGAGCTTACCG
* * *
32387868 TTTCAACTC-GTATGAGCTTACTG
1 TTTCAGCTCAATA-GAGCTTACCG
* *
32387891 -TTCATCT-AGAAAGAGCTTACCG
1 TTTCAGCTCA-ATAGAGCTTACCG
*
32387913 TTTCAGCTCAATAGAGCTTACTG
1 TTTCAGCTCAATAGAGCTTACCG
**
32387936 TTTATCAGCTCAGGAGGAGCTTACCG
1 -TT-TCAGCTCAATA-GAGCTTACCG
32387962 ATCATGGCTC
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
22 16 0.22
23 35 0.49
24 3 0.04
25 9 0.12
26 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (23 bp):
TTTCAGCTCAATAGAGCTTACCG
Found at i:32390171 original size:19 final size:19
Alignment explanation
Indices: 32390147--32390185 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32390137 TAAGCTTTTA
32390147 ACTCAAATTACAAGTCCTT
1 ACTCAAATTACAAGTCCTT
32390166 ACTCAAATTACAAGTCCTT
1 ACTCAAATTACAAGTCCTT
32390185 A
1 A
32390186 GTTATTTTCT
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:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (19 bp):
ACTCAAATTACAAGTCCTT
Found at i:32393279 original size:50 final size:50
Alignment explanation
Indices: 32393215--32393334 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 50
32393205 ATGCCACACA
*
32393215 GCCTGGACACATGCCCGTGTGATTCCAAAACATAAACAGTAAGTTACATG
1 GCCTGGACACATGCCCGTGTGATTCCAAAACATAAAAAGTAAGTTACATG
* * *
32393265 GCCTAGACACATGCCCATGTGGTTCCAAAACATAAAAAGTAAGTTACATG
1 GCCTGGACACATGCCCGTGTGATTCCAAAACATAAAAAGTAAGTTACATG
* *
32393315 GCCTGGATATATGCCCGTGT
1 GCCTGGACACATGCCCGTGT
32393335 CCTTGCCCGT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (50 bp):
GCCTGGACACATGCCCGTGTGATTCCAAAACATAAAAAGTAAGTTACATG
Found at i:32393774 original size:105 final size:105
Alignment explanation
Indices: 32393537--32393776 Score: 329
Period size: 105 Copynumber: 2.3 Consensus size: 105
32393527 AGTATGGCCA
* * *
32393537 TACATGGCCTGGACACATGCCCGTGTGCCTTCCTCGTGTGGCCCCAAATTGATGAACAGTGAGTT
1 TACACGGCCTGGACACATGCCCGTGTGCCTTCCTCATGTGGCCCCAAATTGATGAACAATGAGTT
32393602 ACACAGCCAACCACACAGCCTAGCACACGGGCATATGGCT
66 ACACAGCCAACCACACAGCCTAGCACACGGGCATATGGCT
* * * * *
32393642 CACACGACCTGGACACAGGCCCATGTGCCTTCCTCATGTGGCCCTAAATTGATGAACAATGAGTT
1 TACACGGCCTGGACACATGCCCGTGTGCCTTCCTCATGTGGCCCCAAATTGATGAACAATGAGTT
* * * *
32393707 ACAC-GACCAACTACACAGCCTAGCACACGGGCGTGTGGTT
66 ACACAG-CCAACCACACAGCCTAGCACACGGGCATATGGCT
* * *
32393747 TACACGGCCTAGATACATGCTCGTGTGCCT
1 TACACGGCCTGGACACATGCCCGTGTGCCT
32393777 GGTCGTGTGG
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
104 1 0.01
105 114 0.99
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (105 bp):
TACACGGCCTGGACACATGCCCGTGTGCCTTCCTCATGTGGCCCCAAATTGATGAACAATGAGTT
ACACAGCCAACCACACAGCCTAGCACACGGGCATATGGCT
Found at i:32395535 original size:23 final size:23
Alignment explanation
Indices: 32395508--32395555 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
32395498 TTTTCCTCAA
32395508 ATAGTATAGGAAAAAATTTAATT
1 ATAGTATAGGAAAAAATTTAATT
*
32395531 ATAGTATAGGAAAAAATTTATTT
1 ATAGTATAGGAAAAAATTTAATT
32395554 AT
1 AT
32395556 CGAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (23 bp):
ATAGTATAGGAAAAAATTTAATT
Found at i:32395577 original size:23 final size:23
Alignment explanation
Indices: 32395546--32395596 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
32395536 ATAGGAAAAA
*
32395546 ATTTA-TTTATCGAAATAATATG
1 ATTTATTTTATCAAAATAATATG
32395568 ATTTATTTTATCAAAATAATATG
1 ATTTATTTTATCAAAATAATATG
*
32395591 AATTAT
1 ATTTAT
32395597 ATATGAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTTATTTTATCAAAATAATATG
Found at i:32396044 original size:6 final size:5
Alignment explanation
Indices: 32396020--32396059 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
32396010 AAAATCTGTG
* *
32396020 TTTTT TTTTA TTTTC TTTTA TTTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT
32396060 CACAAATTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:32396045 original size:16 final size:16
Alignment explanation
Indices: 32396020--32396059 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
32396010 AAAATCTGTG
*
32396020 TTTT-TTTTTATTTTC
1 TTTTATTTTTATTTTA
32396035 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
32396051 TTTTATTTT
1 TTTTATTTT
32396060 CACAAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:32399360 original size:19 final size:19
Alignment explanation
Indices: 32399336--32399374 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32399326 AAATAAAAGT
32399336 AAAATCCATATAGAACTAC
1 AAAATCCATATAGAACTAC
32399355 AAAATCCATATAGAACTAC
1 AAAATCCATATAGAACTAC
32399374 A
1 A
32399375 CTTCTTTTAT
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:0.21, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAATCCATATAGAACTAC
Found at i:32399732 original size:22 final size:21
Alignment explanation
Indices: 32399707--32399753 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
32399697 GTTATTATAA
*
32399707 ATTTCTAATTTTTTA-ATATTGT
1 ATTTCTAA-TCTTTAGA-ATTGT
*
32399729 ATTTTTAATCTTTAGAATTGT
1 ATTTCTAATCTTTAGAATTGT
32399750 ATTT
1 ATTT
32399754 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (21 bp):
ATTTCTAATCTTTAGAATTGT
Found at i:32399763 original size:21 final size:20
Alignment explanation
Indices: 32399714--32399767 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
32399704 TAAATTTCTA
32399714 ATTTTTTAATATTGTATTTTT
1 ATTTTTTAA-ATTGTATTTTT
* *
32399735 AATCTTTAGAATTGTATTTTT
1 ATTTTTTA-AATTGTATTTTT
*
32399756 TTTTTTTAAATT
1 ATTTTTTAAATT
32399768 TCATGATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.67
Consensus pattern (20 bp):
ATTTTTTAAATTGTATTTTT
Found at i:32400049 original size:2 final size:2
Alignment explanation
Indices: 32400036--32400078 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
32400026 TAACTATAGT
*
32400036 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32400078 T
1 T
32400079 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:32403710 original size:15 final size:14
Alignment explanation
Indices: 32403686--32403726 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
32403676 AGATTTTCGG
32403686 AAAAAGAATAAAAATT
1 AAAAA-AATAAAAA-T
32403702 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
*
32403716 AAAAAACTAAA
1 AAAAAAATAAA
32403727 TCAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:32404108 original size:51 final size:54
Alignment explanation
Indices: 32404012--32404117 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 54
32404002 TAAGACTAGG
*
32404012 ATAAAAAATAGCAAAATTTCTAAAAGTGGGACTTGAACCCAAGACCTCAAGCAC
1 ATAAAAAATAGCAAAATTTCTAAAAGTAGGACTTGAACCCAAGACCTCAAGCAC
* *
32404066 ATAAAAAATAGCAGAATTT-T-CAA-TAGGACTTGAACCCAAGACCTCAAGCAC
1 ATAAAAAATAGCAAAATTTCTAAAAGTAGGACTTGAACCCAAGACCTCAAGCAC
32404117 A
1 A
32404118 CCCAACATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 28 0.57
52 2 0.04
53 1 0.02
54 18 0.37
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.19
Consensus pattern (54 bp):
ATAAAAAATAGCAAAATTTCTAAAAGTAGGACTTGAACCCAAGACCTCAAGCAC
Found at i:32404591 original size:9 final size:10
Alignment explanation
Indices: 32404567--32404591 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32404557 ACCGATCATT
32404567 ATTTTTTCAC
1 ATTTTTTCAC
32404577 ATTTTTTCAC
1 ATTTTTTCAC
32404587 ATTTT
1 ATTTT
32404592 CGCTACACAC
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:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTCAC
Found at i:32405151 original size:17 final size:16
Alignment explanation
Indices: 32405129--32405170 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
32405119 ACTCCCTACT
32405129 ATCCCACTAACCAACAA
1 ATCCCACTAA-CAACAA
*
32405146 ATCCCACCAA-AACAA
1 ATCCCACTAACAACAA
32405161 A-CCCACTAAC
1 ATCCCACTAAC
32405171 TCTCATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
17 9 0.41
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.10
Consensus pattern (16 bp):
ATCCCACTAACAACAA
Found at i:32407369 original size:53 final size:53
Alignment explanation
Indices: 32407312--32407417 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
32407302 AAAAGATGAA
32407312 ACCGAAAAATAATATTGCTATTGAAATAATAAAAGAAAATCAGGATCCTAAGC
1 ACCGAAAAATAATATTGCTATTGAAATAATAAAAGAAAATCAGGATCCTAAGC
*
32407365 ACCGAAAAATAATATTGCTATTGAAATAATAAAAGAAAATCAGGATCTTAAGC
1 ACCGAAAAATAATATTGCTATTGAAATAATAAAAGAAAATCAGGATCCTAAGC
32407418 CTAAATCTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (53 bp):
ACCGAAAAATAATATTGCTATTGAAATAATAAAAGAAAATCAGGATCCTAAGC
Found at i:32411402 original size:40 final size:39
Alignment explanation
Indices: 32411237--32411420 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
32411227 AAATTGAATG
* * *
32411237 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
32411277 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
32411317 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
32411357 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
32411396 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
32411421 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:32411403 original size:80 final size:80
Alignment explanation
Indices: 32411281--32411429 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
32411271 GAAATTATAA
* * * *
32411281 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
32411346 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
32411361 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
32411425 GTGCG
65 GTGCG
32411430 GGTTACCAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:32413927 original size:35 final size:35
Alignment explanation
Indices: 32413884--32413953 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
32413874 AAGCAAAAGA
32413884 ATGATTATTCAATGGTGAAACTTACTTACCTGATG
1 ATGATTATTCAATGGTGAAACTTACTTACCTGATG
32413919 ATGATTATTCAATGGTGAAACTTACTTACCTGATG
1 ATGATTATTCAATGGTGAAACTTACTTACCTGATG
32413954 GAGGGAACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (35 bp):
ATGATTATTCAATGGTGAAACTTACTTACCTGATG
Found at i:32418579 original size:39 final size:39
Alignment explanation
Indices: 32418495--32418647 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
32418485 TATGGTAACC
** * *
32418495 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
32418535 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
32418574 CGCACAATTGCCTTCGGTCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
32418613 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
32418648 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:32418619 original size:78 final size:79
Alignment explanation
Indices: 32418476--32418646 Score: 263
Period size: 78 Copynumber: 2.2 Consensus size: 79
32418466 CCTCGGGACA
* **
32418476 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
32418541 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* ** * *
32418555 TAGCCCGGATATCATAACTCGCACAATTGCCTTC-GGTCTTAGCCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
32418619 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
32418633 TAGCCCGGATATCA
1 TAGCCCGGATATCA
32418647 CTCGAACATT
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 56 0.67
79 28 0.33
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
ATTGCCTTCGGGCT
Found at i:32425097 original size:89 final size:89
Alignment explanation
Indices: 32424929--32425097 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 89
32424919 TGTGTGTGTT
* * *
32424929 CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTGTTTTCTTACTGGTTATGAGCTTATACTT
1 CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTGTTTTCTTACTGGTTATGAACTCATACCT
** * * *
32424994 CTTGTTTATGTATGTATTATTTTC
66 CCGGCTCATATATGTATTATTTTC
* * * *
32425018 CTTGCAATTTTGTTACTTTGGGGGCAGGGTTGAA-TGTTTTTCTTACTGGTTATGAACTCATGCC
1 CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTG-TTTTCTTACTGGTTATGAACTCATACC
32425082 TCCGGCTCATATATGT
65 TCCGGCTCATATATGT
32425098 TTGTGGGTGT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 2 0.03
89 65 0.97
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (89 bp):
CTTGCAATTTTGTCACTTTGGGGGCAAGGTTAAATTGTTTTCTTACTGGTTATGAACTCATACCT
CCGGCTCATATATGTATTATTTTC
Found at i:32427756 original size:242 final size:243
Alignment explanation
Indices: 32427330--32427818 Score: 935
Period size: 242 Copynumber: 2.0 Consensus size: 243
32427320 TAGCTTCATT
32427330 AGTTGGCCAATGTGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
1 AGTTGGCCAATGTGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
32427395 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAGG
66 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAGG
32427460 GCCAGCAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
131 GCCAGCAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
*
32427525 AGACATGCTATCAATCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
196 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
*
32427573 AGTTGGCTAATGTGTA-TTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
1 AGTTGGCCAATGTGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
32427637 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAGG
66 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAGG
*
32427702 GCCAGCAAGGTGGGACTAACCCTAAGAAAAAGCAGCACGGTGAAAGGGAGGAAAGATCTTATTAA
131 GCCAGCAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
*
32427767 AGACATGCTATCAACCCAATGCCCCTTAAAAATTATTAGAGCTGCCAC
196 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
32427815 AGTT
1 AGTT
32427819 ATCATGTGAT
Statistics
Matches: 242, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
242 227 0.94
243 15 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (243 bp):
AGTTGGCCAATGTGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAGG
GCCAGCAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
Found at i:32428873 original size:30 final size:32
Alignment explanation
Indices: 32428837--32428905 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
32428827 GGTTTCATTT
* *
32428837 CAGTCACTCAAC-TT-TCAAAAAGTTACAAAA
1 CAGTCACTCAACGTTATAAAAAAGTGACAAAA
32428867 CAGTCAC-CAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTCAACGTTATAAAAAAGTGACAAAA
*
32428898 TAGTCACT
1 CAGTCACT
32428906 GATTAACGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 9 0.27
31 20 0.61
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (32 bp):
CAGTCACTCAACGTTATAAAAAAGTGACAAAA
Found at i:32429448 original size:18 final size:18
Alignment explanation
Indices: 32429425--32429495 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
32429415 AATTAGGGTT
*
32429425 ATTTCGGTTTCAATTTTA
1 ATTTCGATTTCAATTTTA
** *
32429443 ATTTCGATTTTGATTTTG
1 ATTTCGATTTCAATTTTA
* **
32429461 ATTTCGATTTCTATTTCG
1 ATTTCGATTTCAATTTTA
* *
32429479 ATTTTGATTACAATTTT
1 ATTTCGATTTCAATTTT
32429496 GAAACACTCA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCAATTTTA
Found at i:32429452 original size:6 final size:6
Alignment explanation
Indices: 32429443--32429487 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
32429433 TTCAATTTTA
* * * *
32429443 ATTTCG ATTTTG ATTTTG ATTTCG ATTTCT ATTTCG ATTTTG ATT
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATT
32429488 ACAATTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.18, C:0.09, G:0.13, T:0.60
Consensus pattern (6 bp):
ATTTCG
Found at i:32429463 original size:12 final size:12
Alignment explanation
Indices: 32429443--32429497 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
32429433 TTCAATTTTA
* *
32429443 ATTTCGATTTTG
1 ATTTTGATTTCG
32429455 ATTTTGATTTCG
1 ATTTTGATTTCG
32429467 ATTTCT-ATTTCG
1 ATTT-TGATTTCG
* *
32429479 ATTTTGATTACA
1 ATTTTGATTTCG
32429491 ATTTTGA
1 ATTTTGA
32429498 AACACTCACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 35 0.95
13 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:32429737 original size:48 final size:48
Alignment explanation
Indices: 32429683--32429855 Score: 310
Period size: 48 Copynumber: 3.6 Consensus size: 48
32429673 GCCATGTGCG
* * *
32429683 TGATGTTTATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAAC
1 TGATGTTTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAC
32429731 TGATGTTTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAC
1 TGATGTTTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAC
32429779 TGATGTTTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAC
1 TGATGTTTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAC
*
32429827 TGATGTTTATTGTGTATATCTGTCATTGT
1 TGATGTTTATTGTGTATATCTGCCATTGT
32429856 TTGTATCCAA
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (48 bp):
TGATGTTTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAAC
Found at i:32430190 original size:15 final size:15
Alignment explanation
Indices: 32430170--32430198 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32430160 GAAGAAAACA
32430170 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
32430185 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
32430199 AATGATGCAT
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:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:32431907 original size:40 final size:40
Alignment explanation
Indices: 32431852--32431959 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
32431842 GCTATTTTAG
* * *
32431852 TGAATGTTTTTTAATATGTATGCATTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
32431892 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
**
32431932 TGCCTATTTTTTAATATGCATGCAGTGA
1 TGAATATTTTTTAATATGCATGCAGTGA
32431960 GTATTTTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.48
Consensus pattern (40 bp):
TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
Done.