Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 221 of 240
Found at i:66702514 original size:118 final size:118
Alignment explanation
Indices: 66702363--66702671 Score: 438
Period size: 118 Copynumber: 2.5 Consensus size: 118
66702353 TCATAATATA
* *
66702363 TAACTTATATAATACACTACTTACATAACTTTCATAATACACTACTTACATAACTTACATAATAC
1 TAACTTACATAATACACAACTTACATAACTTTCATAATACACTACTTACATAACTTACATAATAC
*
66702428 ATAACTTACATAACTTAAATAACTTACATAATACATAGCCTACATAACTTACG
66 ATAACTTACATAACTTAAATAACTTACATAAAACATAGCCTACATAACTTACG
* *
66702481 TAACTTACATAATACACAACTTATATAACTTTCATAATACACTACTTACATAACTTGCATAATAC
1 TAACTTACATAATACACAACTTACATAACTTTCATAATACACTACTTACATAACTTACATAATAC
* *
66702546 ATAGCTTACATAACTTAAATAACTTACATAAAATATAGCCTACATAACTTACG
66 ATAACTTACATAACTTAAATAACTTACATAAAACATAGCCTACATAACTTACG
* * *
66702599 TAACTTACATAAAACATAGCCCACATAACTTACGTAACTTACATAATACACAACTTACATAACTT
1 TAACTTACAT---A-ATA---CAC--AACTTACATAACTTTCATAATACACTACTTACATAACTT
*
66702664 AAATAATA
57 ACATAATA
66702672 TTATACACAA
Statistics
Matches: 169, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
118 121 0.72
121 1 0.01
122 3 0.02
125 3 0.02
127 41 0.24
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (118 bp):
TAACTTACATAATACACAACTTACATAACTTTCATAATACACTACTTACATAACTTACATAATAC
ATAACTTACATAACTTAAATAACTTACATAAAACATAGCCTACATAACTTACG
Found at i:66702584 original size:34 final size:34
Alignment explanation
Indices: 66702524--66702669 Score: 175
Period size: 34 Copynumber: 4.3 Consensus size: 34
66702514 ATAATACACT
* * *
66702524 ACTTACATAACTTGCATAATACATAGCTTACATA
1 ACTTACATAACTTACATAAAACATAGCCTACATA
* *
66702558 ACTTAAATAACTTACATAAAATATAGCCTACATA
1 ACTTACATAACTTACATAAAACATAGCCTACATA
* *
66702592 ACTTACGTAACTTACATAAAACATAGCCCACATA
1 ACTTACATAACTTACATAAAACATAGCCTACATA
* * * * *
66702626 ACTTACGTAACTTACATAATACACAACTTACATA
1 ACTTACATAACTTACATAAAACATAGCCTACATA
*
66702660 ACTTAAATAA
1 ACTTACATAA
66702670 TATTATACAC
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 96 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (34 bp):
ACTTACATAACTTACATAAAACATAGCCTACATA
Found at i:66702678 original size:21 final size:23
Alignment explanation
Indices: 66702654--66702710 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
66702644 ATACACAACT
66702654 TACATAACTTAAATAAT-ATTA-
1 TACATAACTTAAATAATAATTAC
* *
66702675 TACACAACTTACATAATACATTAC
1 TACATAACTTAAATAATA-ATTAC
66702699 TTACATAACTTA
1 -TACATAACTTA
66702711 CGTAACTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 15 0.52
23 4 0.14
25 10 0.34
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (23 bp):
TACATAACTTAAATAATAATTAC
Found at i:66711346 original size:9 final size:9
Alignment explanation
Indices: 66711332--66711368 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
66711322 TATAATTTGA
66711332 TATTCGAAT
1 TATTCGAAT
66711341 TATTCGAAT
1 TATTCGAAT
*
66711350 TATTCGAGT
1 TATTCGAAT
66711359 TATTCGAAT
1 TATTCGAAT
66711368 T
1 T
66711369 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:66716284 original size:12 final size:13
Alignment explanation
Indices: 66716257--66716281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66716247 ATTATTTGTA
66716257 AATTTTAAAAATT
1 AATTTTAAAAATT
66716270 AATTTTAAAAAT
1 AATTTTAAAAAT
66716282 AATGACTAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTAAAAATT
Found at i:66717534 original size:51 final size:51
Alignment explanation
Indices: 66717435--66717567 Score: 140
Period size: 51 Copynumber: 2.6 Consensus size: 51
66717425 CCATCAAATC
* * * *
66717435 TCTAAGAATATAATATCATATCTTCTAACATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
66717486 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
66717537 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
66717568 CATGTTTCCA
Statistics
Matches: 63, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:66720416 original size:27 final size:26
Alignment explanation
Indices: 66720373--66720430 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
66720363 AGTTTTATAA
* * * *
66720373 ATTCTAGTTTTCTAATTGATTAACCC
1 ATTCTAGCTTTCCAATTAATCAACCC
66720399 ATTCTATGCTTTCCAATTAATCAACCC
1 ATTCTA-GCTTTCCAATTAATCAACCC
66720426 -TTCTA
1 ATTCTA
66720431 ACAAGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.43
Consensus pattern (26 bp):
ATTCTAGCTTTCCAATTAATCAACCC
Found at i:66721420 original size:17 final size:17
Alignment explanation
Indices: 66721400--66721435 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
66721390 TTAAAATATT
66721400 TTTTTTATAA-ATGTTTA
1 TTTTTTA-AATATGTTTA
66721417 TTTTTTAAATATGTTTA
1 TTTTTTAAATATGTTTA
66721434 TT
1 TT
66721436 ATATTATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTTAAATATGTTTA
Found at i:66723136 original size:32 final size:32
Alignment explanation
Indices: 66723095--66723159 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
66723085 GATAGGGAAC
66723095 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
1 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
66723127 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
1 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
66723159 A
1 A
66723160 CCAACTGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.15
Consensus pattern (32 bp):
AAGCATGACCCTCGAAACCTCTTCGCAACCAA
Found at i:66725402 original size:2 final size:2
Alignment explanation
Indices: 66725390--66725460 Score: 56
Period size: 2 Copynumber: 36.5 Consensus size: 2
66725380 ATTCATGAAA
* * * * *
66725390 AT AT A- AT AT AT AT AT AT AT GT AG AT AT GT AG AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
66725431 A- AA AT AT AA AT AT AT AT AT CT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66725461 CACGTGTACA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (2 bp):
AT
Found at i:66725623 original size:18 final size:18
Alignment explanation
Indices: 66725602--66725646 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
66725592 GCAATAATGG
* *
66725602 TAATAGTAATATTAAAAA
1 TAATAATAATAGTAAAAA
*
66725620 TAATAATAATGGTAAAAA
1 TAATAATAATAGTAAAAA
*
66725638 TAATGATAA
1 TAATAATAA
66725647 CACCATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
TAATAATAATAGTAAAAA
Found at i:66727674 original size:51 final size:51
Alignment explanation
Indices: 66727611--66727829 Score: 233
Period size: 51 Copynumber: 4.3 Consensus size: 51
66727601 CAATTCGTTG
* * *
66727611 CCTTCAGCTTTAATATGCTT-CGCTGCAATGCCAGGGAAACAAGATTCACTA
1 CCTTCAGCTTTAATCT-ATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
* * * * * * *
66727662 CCTTTAGCTTTAATCTATTCCACTGTAATGCCAAGGAGATAGGATTCACCA
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
**
66727713 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTTGCTA
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
* * * * * * * * *
66727764 CCTTTAGCTTTAATCTGTTCCATTGCAAAGCCAAGGAGATAGGATTCACTG
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
66727815 CCTTCAGCTTTAATC
1 CCTTCAGCTTTAATC
66727830 CGCTATACTT
Statistics
Matches: 136, Mismatches: 31, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
50 2 0.01
51 134 0.99
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (51 bp):
CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
Found at i:66727765 original size:102 final size:102
Alignment explanation
Indices: 66727611--66727829 Score: 323
Period size: 102 Copynumber: 2.1 Consensus size: 102
66727601 CAATTCGTTG
* * *
66727611 CCTTCAGCTTTAATATGCTTCGCTGCAATGCCAGGGAAACAAGATTCACTACCTTTAGCTTTAAT
1 CCTTCAGCTTTAATCTGATTCACTGCAATGCCAGGGAAACAAGATTCACTACCTTTAGCTTTAAT
* *
66727676 CTATTCCACTGTAATGCCAAGGAGATAGGATTCACCA
66 CTATTCCACTGCAAAGCCAAGGAGATAGGATTCACCA
**
66727713 CCTTCAGCTTTAATCT-ATTCCACTGCAATGCCAGGGAAACAAGATTTGCTACCTTTAGCTTTAA
1 CCTTCAGCTTTAATCTGATT-CACTGCAATGCCAGGGAAACAAGATTCACTACCTTTAGCTTTAA
* * **
66727777 TCTGTTCCATTGCAAAGCCAAGGAGATAGGATTCACTG
65 TCTATTCCACTGCAAAGCCAAGGAGATAGGATTCACCA
66727815 CCTTCAGCTTTAATC
1 CCTTCAGCTTTAATC
66727830 CGCTATACTT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 2 0.02
102 103 0.98
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (102 bp):
CCTTCAGCTTTAATCTGATTCACTGCAATGCCAGGGAAACAAGATTCACTACCTTTAGCTTTAAT
CTATTCCACTGCAAAGCCAAGGAGATAGGATTCACCA
Found at i:66727900 original size:51 final size:51
Alignment explanation
Indices: 66727841--66727941 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
66727831 GCTATACTTC
*
66727841 AGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTT
1 AGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTT
* *
66727892 AGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTACCTT
1 AGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTT
66727942 CAGTCTGCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (51 bp):
AGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTT
Found at i:66727933 original size:123 final size:123
Alignment explanation
Indices: 66727714--66727944 Score: 399
Period size: 123 Copynumber: 1.9 Consensus size: 123
66727704 GATTCACCAC
*
66727714 CTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTTGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * *
66727779 TGTTCCATTGCAAAGCCAAGGAGATAGGATTCACTGCCTTCAGCTTTAATCCGCTATA
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCACTACCTTCAGCTTTAATCCGCTATA
66727837 CTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* *
66727902 TGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTACCTTCAG
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCACTACCTTCAG
66727945 TCTGCTCCAC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 101 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (123 bp):
CTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
TGTTCCACTGCAAAGCCAAGGAAATAAGATTCACTACCTTCAGCTTTAATCCGCTATA
Found at i:66745175 original size:24 final size:24
Alignment explanation
Indices: 66745143--66745192 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
66745133 ATTCCTAGTA
*
66745143 GTCTGTATGTACAGATATATGTGT
1 GTCTATATGTACAGATATATGTGT
* *
66745167 GTCTATATGTGCAGATATGTGTGT
1 GTCTATATGTACAGATATATGTGT
66745191 GT
1 GT
66745193 GTTTGCTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.28, T:0.42
Consensus pattern (24 bp):
GTCTATATGTACAGATATATGTGT
Found at i:66747368 original size:22 final size:22
Alignment explanation
Indices: 66747340--66747395 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 22
66747330 ATTGACAGGT
66747340 ATAATTAAATTTTTGGGTTGTC
1 ATAATTAAATTTTTGGGTTGTC
*
66747362 ATAATTAAAATATTTTTGGTTTGTC
1 ATAATT--AA-ATTTTTGGGTTGTC
66747387 ATAATTAAA
1 ATAATTAAA
66747396 ATAGGTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.23
23 2 0.07
24 2 0.07
25 19 0.63
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (22 bp):
ATAATTAAATTTTTGGGTTGTC
Found at i:66747385 original size:25 final size:25
Alignment explanation
Indices: 66747348--66747398 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
66747338 GTATAATTAA
66747348 ATTTTTGGGTTGTCATAATTAAAAT
1 ATTTTTGGGTTGTCATAATTAAAAT
*
66747373 ATTTTTGGTTTGTCATAATTAAAAT
1 ATTTTTGGGTTGTCATAATTAAAAT
66747398 A
1 A
66747399 GGTAAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (25 bp):
ATTTTTGGGTTGTCATAATTAAAAT
Found at i:66749645 original size:39 final size:39
Alignment explanation
Indices: 66749591--66749672 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
66749581 GTTTGATAAC
66749591 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
1 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
*
66749630 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATTAA
1 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
66749669 ATTT
1 ATTT
66749673 TAGTAGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (39 bp):
ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
Found at i:66749946 original size:26 final size:26
Alignment explanation
Indices: 66749917--66749966 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
66749907 GTTCCTAGTA
*
66749917 GTCTGTATGTGCAGATATATGTGTGT
1 GTCTATATGTGCAGATATATGTGTGT
*
66749943 GTCTATATGTGCAGATATGTGTGT
1 GTCTATATGTGCAGATATATGTGT
66749967 TTGCTGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.42
Consensus pattern (26 bp):
GTCTATATGTGCAGATATATGTGTGT
Found at i:66753758 original size:21 final size:21
Alignment explanation
Indices: 66753732--66753772 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
66753722 AGACGAGCAA
*
66753732 TACTCCATAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
66753753 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
66753773 TTGAGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:66760898 original size:21 final size:22
Alignment explanation
Indices: 66760850--66760898 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
66760840 TTTAATCCAA
**
66760850 TTCTATTTAGTTGAGTTTTCAC
1 TTCTATTTAGTTGAGTACTCAC
*
66760872 TT-TATTTAGTTGAG-ACTCAT
1 TTCTATTTAGTTGAGTACTCAC
66760892 TTCTATT
1 TTCTATT
66760899 GGTTTAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (22 bp):
TTCTATTTAGTTGAGTACTCAC
Found at i:66762044 original size:22 final size:22
Alignment explanation
Indices: 66762016--66762071 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 22
66762006 ATTGACAGGT
66762016 ATAATTAAATTTTTGGGTTGTC
1 ATAATTAAATTTTTGGGTTGTC
*
66762038 ATAATTAAAATATTTTTGGTTTGTC
1 ATAATT--AA-ATTTTTGGGTTGTC
66762063 ATAATTAAA
1 ATAATTAAA
66762072 ATAGGTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.23
23 2 0.07
24 2 0.07
25 19 0.63
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (22 bp):
ATAATTAAATTTTTGGGTTGTC
Found at i:66762061 original size:25 final size:25
Alignment explanation
Indices: 66762024--66762074 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
66762014 GTATAATTAA
66762024 ATTTTTGGGTTGTCATAATTAAAAT
1 ATTTTTGGGTTGTCATAATTAAAAT
*
66762049 ATTTTTGGTTTGTCATAATTAAAAT
1 ATTTTTGGGTTGTCATAATTAAAAT
66762074 A
1 A
66762075 GGTAAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (25 bp):
ATTTTTGGGTTGTCATAATTAAAAT
Found at i:66767239 original size:17 final size:17
Alignment explanation
Indices: 66767217--66767264 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
66767207 TCAGATTTTG
66767217 ATACCCATATCTTTCTA
1 ATACCCATATCTTTCTA
* *
66767234 ATACCCATATCTTTTTT
1 ATACCCATATCTTTCTA
*
66767251 ATACTCATATCTTT
1 ATACCCATATCTTT
66767265 GACTTTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (17 bp):
ATACCCATATCTTTCTA
Found at i:66772596 original size:10 final size:10
Alignment explanation
Indices: 66772581--66772610 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
66772571 TTTGCTAGGA
66772581 AAATATTTAC
1 AAATATTTAC
66772591 AAATATTTAC
1 AAATATTTAC
66772601 AAATATTTAC
1 AAATATTTAC
66772611 TGATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATATTTAC
Found at i:66773155 original size:295 final size:295
Alignment explanation
Indices: 66772612--66773191 Score: 1011
Period size: 295 Copynumber: 2.0 Consensus size: 295
66772602 AATATTTACT
*
66772612 GATTTAATTATACGTTTCAGGTGAAATTCCTCTTGTTATTGGAAACTTGACTTCTCTCCAATTTC
1 GATTTAATTATACGTTTCAGGTGAAATTCCTCTTGTTATTGGAAACTTGACTTCTCTCCAATATC
* * *
66772677 TTTATCTTTACAATAACAATTTGACAAGTATAATTTCATGTTTCTTTTATTCTCTATTTTGTTAT
66 TTGATCTTGACAATAACAAATTGACAAGTATAATTTCATGTTTCTTTTATTCTCTATTTTGTTAT
*
66772742 TAAATTTATGCAATATTTTTAAGTAATTAAAAATTAGTATAATCTATTTGAATTGCCAAAAGTTT
131 TAAATTTATGCAATATTTTTAAGTAAATAAAAATTAGTATAATCTATTTGAATTGCCAAAAGTTT
*
66772807 AGGTATGTTTAGGTATTTATTGGAACTCCACATCCTAAGTTACCATTTACCTTATGGCAGAAATT
196 AGGTATGTTTAGGTATTTATTGGAACTCCACATCCTAAGTTACCATCTACCTTATGGCAGAAATT
**
66772872 AGCTTATTTGTCCCTTGTGATCCATAATTTTGACC
261 AGCTTATCCGTCCCTTGTGATCCATAATTTTGACC
66772907 GATTTAATTATACGTTTCAGGTGAAATTCCTCTTGTTATTGGAAACTTGACTTCTCTCCAATATC
1 GATTTAATTATACGTTTCAGGTGAAATTCCTCTTGTTATTGGAAACTTGACTTCTCTCCAATATC
* * *
66772972 TTGATCTTGGCAATAACAAATTGACAGGTATAATTTCATGTTTCTTTTATTCTCT-TTTTTTTAA
66 TTGATCTTGACAATAACAAATTGACAAGTATAATTTCATGTTTCTTTTATTCTCTATTTTGTT-A
66773036 TTAAATTTATGCAAT-TTTTTAAGTAAATAAAAATTAGTATAATCTATTTGAATTGCCAAAAGTT
130 TTAAATTTATGCAATATTTTTAAGTAAATAAAAATTAGTATAATCTATTTGAATTGCCAAAAGTT
*
66773100 TAGGTATGTTTAGGTGTTTATTGGAACTCCACATCCTAAGTTCACCATCTACCTTATGGCAGAAA
195 TAGGTATGTTTAGGTATTTATTGGAACTCCACATCCTAAGTT-ACCATCTACCTTATGGCAGAAA
*
66773165 TTAGCTTATCCGTCCCTTTTGATCCAT
259 TTAGCTTATCCGTCCCTTGTGATCCAT
66773192 CACATTTCTT
Statistics
Matches: 270, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
294 95 0.35
295 175 0.65
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (295 bp):
GATTTAATTATACGTTTCAGGTGAAATTCCTCTTGTTATTGGAAACTTGACTTCTCTCCAATATC
TTGATCTTGACAATAACAAATTGACAAGTATAATTTCATGTTTCTTTTATTCTCTATTTTGTTAT
TAAATTTATGCAATATTTTTAAGTAAATAAAAATTAGTATAATCTATTTGAATTGCCAAAAGTTT
AGGTATGTTTAGGTATTTATTGGAACTCCACATCCTAAGTTACCATCTACCTTATGGCAGAAATT
AGCTTATCCGTCCCTTGTGATCCATAATTTTGACC
Found at i:66781088 original size:30 final size:30
Alignment explanation
Indices: 66781054--66781110 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
66781044 CTTCTGTTTA
* * *
66781054 AAAATTATATTTTGACCCCTAAATTTTCTC
1 AAAATTACACTTTGACCCCAAAATTTTCTC
*
66781084 AAAATTACACTTTGGCCCCAAAATTTT
1 AAAATTACACTTTGACCCCAAAATTTT
66781111 TGCTGCAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTACACTTTGACCCCAAAATTTTCTC
Found at i:66781451 original size:4 final size:4
Alignment explanation
Indices: 66781442--66781513 Score: 75
Period size: 4 Copynumber: 19.5 Consensus size: 4
66781432 GAGAAGAGAA
*
66781442 AAAG AAAG AAAG AAAA AAAG -AAG AAAG AAAG AAAG -AAG AAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* *
66781487 AAAG -AAG AAA- AGAG GAAG -AAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
66781514 GAAGAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
3 17 0.30
4 40 0.70
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:66781465 original size:3 final size:3
Alignment explanation
Indices: 66781428--66781519 Score: 55
Period size: 3 Copynumber: 29.0 Consensus size: 3
66781418 GGGGTTGAAC
* * *
66781428 GAA GGA GAA G-A GAA AAA GAAA GAAA GAA -AA AAA GAA GAAA GAAA GAAA
1 GAA GAA GAA GAA GAA GAA G-AA G-AA GAA GAA GAA GAA G-AA G-AA G-AA
*
66781476 GAA GAAA GAA GAAA GAA GAA -AA GAG GAA GAA GAAA GAA GAA GAA
1 GAA G-AA GAA G-AA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
66781520 AAATGAACAG
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
2 6 0.08
3 41 0.55
4 27 0.36
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:66781470 original size:7 final size:7
Alignment explanation
Indices: 66781433--66781516 Score: 91
Period size: 7 Copynumber: 11.6 Consensus size: 7
66781423 TGAACGAAGG
66781433 AGAAGAGA
1 AGAA-AGA
66781441 A-AAAGAA
1 AGAAAG-A
66781448 AGAAAGAA
1 AGAAAG-A
*
66781456 AAAAAGA
1 AGAAAGA
66781463 AGAAAGAA
1 AGAAAG-A
66781471 AGAAAGA
1 AGAAAGA
66781478 AGAAAGA
1 AGAAAGA
66781485 AGAAAGA
1 AGAAAGA
66781492 AGAAA-A
1 AGAAAGA
*
66781498 GAGGAAGA
1 -AGAAAGA
66781506 AGAAAGA
1 AGAAAGA
66781513 AGAA
1 AGAA
66781517 GAAAAATGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
6 3 0.04
7 44 0.66
8 20 0.30
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AGAAAGA
Found at i:66781498 original size:15 final size:15
Alignment explanation
Indices: 66781441--66781516 Score: 79
Period size: 15 Copynumber: 5.1 Consensus size: 15
66781431 GGAGAAGAGA
*
66781441 AAAAGAAAGAAAGAAA
1 AAAAG-AAGAAAGAAG
66781457 AAAAGAAGAAAGAA-
1 AAAAGAAGAAAGAAG
66781471 AGAAAGAAGAAAGAAG
1 A-AAAGAAGAAAGAAG
66781487 -AAAGAAG-AA-AAG
1 AAAAGAAGAAAGAAG
*
66781499 AGGAAGAAGAAAGAAG
1 A-AAAGAAGAAAGAAG
66781515 AA
1 AA
66781517 GAAAAATGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 14 0.27
15 24 0.46
16 9 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAAGAAG
Found at i:66781810 original size:13 final size:12
Alignment explanation
Indices: 66781790--66781832 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
66781780 GGCCAAAAAG
66781790 AAAAAGAAGAGA
1 AAAAAGAAGAGA
66781802 AAGAAAGAA-A-A
1 AA-AAAGAAGAGA
66781813 AAAAAGAAGAAGA
1 AAAAAGAAG-AGA
66781826 AAAAAGA
1 AAAAAGA
66781833 GAAAAGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 4 0.15
13 14 0.52
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAGA
Found at i:66781817 original size:23 final size:23
Alignment explanation
Indices: 66781785--66781837 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
66781775 CAACAGGCCA
66781785 AAAAGAAAAAGAAG-AGAAAGAAAG
1 AAAA-AAAAAGAAGAAGAAA-AAAG
66781809 AAAAAAAAAGAAGAAGAAAAAAG
1 AAAAAAAAAGAAGAAGAAAAAAG
*
66781832 AGAAAA
1 AAAAAA
66781838 GGTTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAGAAGAAGAAAAAAG
Found at i:66781838 original size:20 final size:18
Alignment explanation
Indices: 66781784--66781837 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 18
66781774 CCAACAGGCC
66781784 AAAAAGAAAAAGAAGAGA
1 AAAAAGAAAAAGAAGAGA
*
66781802 AAGAAAGAAAAA-AAAAG-
1 AA-AAAGAAAAAGAAGAGA
*
66781819 AAGAAG-AAAA-AAGAGA
1 AAAAAGAAAAAGAAGAGA
66781835 AAA
1 AAA
66781838 GGTTTCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 8 0.27
16 5 0.17
17 2 0.07
18 6 0.20
19 9 0.30
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAAGAGA
Found at i:66781974 original size:14 final size:15
Alignment explanation
Indices: 66781925--66781979 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 15
66781915 TTTAATACTC
*
66781925 ATATTTTTATATTATT
1 ATATTTTTGTATT-TT
*
66781941 AGTACTTTATGTATTTT
1 A-TA-TTTTTGTATTTT
66781958 ATATTTTTGTA-TTT
1 ATATTTTTGTATTTT
66781972 ATATTTTT
1 ATATTTTT
66781980 AATTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.32
15 7 0.21
16 3 0.09
17 5 0.15
18 8 0.24
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.67
Consensus pattern (15 bp):
ATATTTTTGTATTTT
Found at i:66782162 original size:20 final size:20
Alignment explanation
Indices: 66782139--66782180 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
66782129 AAAAATATTC
*
66782139 AAAAAATTTCGTGT-TTTCA
1 AAAAAAATTCGTGTGTTTCA
*
66782158 AAAAAAATTCTTGTGTTTCA
1 AAAAAAATTCGTGTGTTTCA
66782178 AAA
1 AAA
66782181 TTTTTATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAAATTCGTGTGTTTCA
Found at i:66782182 original size:16 final size:17
Alignment explanation
Indices: 66782161--66782199 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
66782151 GTTTTCAAAA
*
66782161 AAAATTCTTGTGT-TTC
1 AAAATTCTTATGTCTTC
*
66782177 AAAATTTTTATGTCTTC
1 AAAATTCTTATGTCTTC
66782194 AAAATT
1 AAAATT
66782200 TTTTTTCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (17 bp):
AAAATTCTTATGTCTTC
Found at i:66782194 original size:17 final size:16
Alignment explanation
Indices: 66782161--66782202 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
66782151 GTTTTCAAAA
* *
66782161 AAAATTCTTGTGTTTC
1 AAAATTTTTATGTTTC
66782177 AAAATTTTTATGTCTTC
1 AAAATTTTTATGT-TTC
66782194 AAAATTTTT
1 AAAATTTTT
66782203 TTTCTCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (16 bp):
AAAATTTTTATGTTTC
Found at i:66782414 original size:17 final size:16
Alignment explanation
Indices: 66782380--66782680 Score: 169
Period size: 18 Copynumber: 17.2 Consensus size: 16
66782370 CTCAACATGT
*
66782380 TTTCAAAAATTCCGGTG
1 TTTCAAAAATTTC-GTG
66782397 TTTCAAAAATTTACGTG
1 TTTCAAAAATTT-CGTG
*
66782414 TTTTC--AAATTCTAGTG
1 -TTTCAAAAATT-TCGTG
*
66782430 ATTCAAAAAGTTTTCGTG
1 TTTCAAAAA--TTTCGTG
66782448 TTTTCTAAAAATTT-GTG
1 -TTTC-AAAAATTTCGTG
*
66782465 TTTCAAAAATTTTCGCG
1 TTTCAAAAA-TTTCGTG
* * *
66782482 TTTTCAAATATTTTCATAT
1 -TTTCAAA-AATTTCGT-G
66782501 TTTCAAAAATTTTCGTG
1 TTTCAAAAA-TTTCGTG
*
66782518 TTTTCAACAATTCTCGTG
1 -TTTCAAAAATT-TCGTG
*
66782536 TTTCACAAATTTCAGTG
1 TTTCAAAAATTTC-GTG
* *
66782553 TTTTAAAAAAATTTGCACT-
1 -TTT-CAAAAATTT-C-GTG
**
66782572 TTAAAAAAAATTTCTTGTG
1 TT-TCAAAAATTTC--GTG
66782591 TTTCAAAAATTGTCGTG
1 TTTCAAAAATT-TCGTG
66782608 TTTCAAAAATCTTCGTG
1 TTTCAAAAAT-TTCGTG
*
66782625 TTTCCAAAAATTTTCGGG
1 TTT-CAAAAA-TTTCGTG
66782643 TTTTCAAAAATTCTCGTG
1 -TTTCAAAAATT-TCGTG
*
66782661 ATTCAAAAATTTTCGTG
1 TTTCAAAAA-TTTCGTG
66782678 TTT
1 TTT
66782681 TTTTAAAAAA
Statistics
Matches: 225, Mismatches: 28, Indels: 62
0.71 0.09 0.20
Matches are distributed among these distances:
15 8 0.04
16 17 0.08
17 77 0.34
18 94 0.42
19 21 0.09
20 8 0.04
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTCAAAAATTTCGTG
Found at i:66782416 original size:35 final size:34
Alignment explanation
Indices: 66782377--66782680 Score: 190
Period size: 36 Copynumber: 8.6 Consensus size: 34
66782367 AAACTCAACA
*
66782377 TGTTTTCAAAAATTCCGGTGTTTCAAAAATTTACG
1 TGTTTTCAAAAATTCC-GTGTTTCAAAAATTTTCG
* *
66782412 TGTTTTC--AAATTCTAGTGATTCAAAAAGTTTTCG
1 TGTTTTCAAAAATTC-CGTGTTTCAAAAA-TTTTCG
*
66782446 TGTTTTCTAAAAATT-TGTGTTTCAAAAATTTTCG
1 TGTTTTC-AAAAATTCCGTGTTTCAAAAATTTTCG
* * * * *
66782480 CGTTTTCAAATATTTTCATATTTTCAAAAATTTTCG
1 TGTTTTCAAA-AATTCCGT-GTTTCAAAAATTTTCG
* *
66782516 TGTTTTCAACAATTCTCGTGTTTCACAAA-TTTCAG
1 TGTTTTCAAAAATTC-CGTGTTTCAAAAATTTTC-G
* ** * *
66782551 TGTTTTAAAAAAATTTGCAC-T-TTAAAAAAAATTTCT
1 TGTTTT-CAAAAA-TT-C-CGTGTTTCAAAAATTTTCG
* *
66782587 TGTGTTTCAAAAATTGTCGTGTTTCAAAAATCTTCG
1 TGT-TTTCAAAAATT-CCGTGTTTCAAAAATTTTCG
* * * *
66782623 TGTTTCCAAAAATTTTCGGGTTTTCAAAAATTCTCG
1 TGTTTTCAAAAA-TTCCGTG-TTTCAAAAATTTTCG
* *
66782659 TG-ATTCAAAAATTTTCGTGTTT
1 TGTTTTCAAAAA-TTCCGTGTTT
66782681 TTTTAAAAAA
Statistics
Matches: 212, Mismatches: 38, Indels: 39
0.73 0.13 0.13
Matches are distributed among these distances:
33 20 0.09
34 35 0.17
35 67 0.32
36 73 0.34
37 15 0.07
38 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (34 bp):
TGTTTTCAAAAATTCCGTGTTTCAAAAATTTTCG
Found at i:66782676 original size:53 final size:53
Alignment explanation
Indices: 66782377--66782681 Score: 225
Period size: 53 Copynumber: 5.8 Consensus size: 53
66782367 AAACTCAACA
* * *
66782377 TGTTTTCAAAAATTC-CGGTGTTTCAAAAATTTACGTGTTTTC--AAATTCTAG
1 TGTTTTCAAAAATTCTC-GTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCG
* *
66782428 TG-ATTCAAAAAGTTTTCGTGTTTTCTAAAAA-TTT-GTG-TTTCAAAAATTTTCG
1 TGTTTTCAAAAA-TTCTCGTG-TTTC-AAAAATTTTCGTGTTTTCAAAAATTTTCG
* * * * * * *
66782480 CGTTTTCAAATATTTTCATATTTTCAAAAATTTTCGTGTTTTCAACAATTCTCG
1 TGTTTTCAAAAATTCTCGT-GTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCG
* * * ** ** * *
66782534 TG-TTTCACAAATT-TCAGTGTTTTAAAAAAATTT-GCACTTTAAAAAAAATTTCT
1 TGTTTTCAAAAATTCTC-GTG-TTTCAAAAATTTTCG-TGTTTTCAAAAATTTTCG
* * *
66782587 TGTGTTTCAAAAATTGTCGTGTTTCAAAAATCTTCGTGTTTCCAAAAATTTTCG
1 TGT-TTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCG
* *
66782641 GGTTTTCAAAAATTCTCGTGATTCAAAAATTTTCGTGTTTT
1 TGTTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT
66782682 TTTAAAAAAA
Statistics
Matches: 194, Mismatches: 42, Indels: 34
0.72 0.16 0.13
Matches are distributed among these distances:
50 12 0.06
51 15 0.08
52 31 0.16
53 82 0.42
54 38 0.20
55 14 0.07
56 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (53 bp):
TGTTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCG
Found at i:66782681 original size:35 final size:35
Alignment explanation
Indices: 66782431--66782681 Score: 158
Period size: 35 Copynumber: 7.1 Consensus size: 35
66782421 ATTCTAGTGA
*
66782431 TTCAAAAAGTTTTCGTGTTTTCTAAAAA-TTT-GTG-T
1 TTCAAAAA-TTCTCGTG-TTTC-AAAAATTTTCGTGTT
* * * * *
66782466 TTCAAAAATTTTCGCGTTTTCAAATATTTTCATATT
1 TTCAAAAATTCTCGTG-TTTCAAAAATTTTCGTGTT
* * *
66782502 TTCAAAAATTTTCGTGTTTTCAACAATTCTCGTG-T
1 TTCAAAAATTCTCGTG-TTTCAAAAATTTTCGTGTT
* * * *
66782537 TTCACAAATT-TCAGTGTTTTAAAAAAATTTGCACT-TT
1 TTCAAAAATTCTC-GTG-TTT-CAAAAATTTTC-GTGTT
*** * *
66782574 AAAAAAAATTTCTTGTGTTTCAAAAATTGTCGTG-T
1 TTCAAAAA-TTCTCGTGTTTCAAAAATTTTCGTGTT
*
66782609 TTCAAAAA-TCTTCGTGTTTCCAAAAATTTTCGGGTT
1 TTCAAAAATTC-TCGTGTTT-CAAAAATTTTCGTGTT
*
66782645 TTCAAAAATTCTCGTGATTCAAAAATTTTCGTGTT
1 TTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTT
66782680 TT
1 TT
66782682 TTTAAAAAAA
Statistics
Matches: 169, Mismatches: 33, Indels: 28
0.73 0.14 0.12
Matches are distributed among these distances:
33 6 0.04
34 24 0.14
35 62 0.37
36 60 0.36
37 11 0.07
38 5 0.03
39 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (35 bp):
TTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTT
Found at i:66791456 original size:160 final size:158
Alignment explanation
Indices: 66791099--66791919 Score: 916
Period size: 160 Copynumber: 5.2 Consensus size: 158
66791089 TTTCAAGAAA
***** *
66791099 TATTTTTCAATTTCTGTTTTTTTTTTAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
** * *
66791164 GTCATGCCGAGGTATTTCTTTTAAATTTCTATTTTTT-C--AAAAGTCAACTCATATTACGAGAG
66 CACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATCAACTCATATTGCGAGAG
*
66791226 GTGAGTTGAGCCTC-GGACACATG-TCGAGG
131 GTGAGTTGAGCCTCGGGTCAC--GCT-GAGG
* * * * *
66791255 TATTTCTTTTAAATTTCTATTTTTCCAAAAAAATTAACTCATATTACGAGAGGTGAGTTGAGCCT
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
66791320 CGGACACATGTCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATTAACTCATATTGCG
63 CGG-CACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATCAACTCATATTGCG
66791385 AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
127 AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
66791417 TATTTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
* *
66791482 GGTCACATGTCGAGGTATTTCATTTAAATTTCTA-TTTTT--AAAAAAATCAACTCATATTGCGA
64 GG-CACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATCAACTCATATTGCGA
*
66791544 GAGGTGAGTTGAGCCTTGGGTCACACGCTGAGG
128 GAGGTGAGTTGAGCCTCGGGT--CACGCTGAGG
* * **
66791577 TATTTTTTAATTTCTGCTTTTCAAAAAAAATCAACTCATATTAAGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
* * * *
66791642 GCACATGCTGAGGTA--T-TTTTCAATTTTTGTTTTTTCC-AAAAAATCAACTCATATTGCGAGA
65 GCACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATCAACTCATATTGCGAGA
*
66791703 GGTGAGTTGAGTCTCGGGTCACGCTGAGG
130 GGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * * * * * *
66791732 TATTTTTCAATTTATGCTTTTC--AAATAATCAACTCATATTGTGAAAGGTGAGTTGAGCATTAG
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CTCG
* * * * * * *
66791795 GCTCATACCGAGGTATTT-TTTAAAATTTCTGTTCTTTCAAAAAAAATCAACTCATATTGCTAGA
65 GCACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATCAACTCATATTGCGAGA
* ** * **
66791859 GGTGAGTTCAGCCTCAAGTCACACGTCGATA
130 GGTGAGTTGAGCCTCGGGTCACGC-T-GAGG
* * *
66791890 TATTTTTCAATTTATGTGTCTCAAAAAAAA
1 TATTTTTCAATTTCTGTTTTTCAAAAAAAA
66791920 AGGATCGCAT
Statistics
Matches: 575, Mismatches: 66, Indels: 44
0.84 0.10 0.06
Matches are distributed among these distances:
153 45 0.08
154 1 0.00
155 56 0.10
156 50 0.09
157 42 0.07
158 76 0.13
159 111 0.19
160 113 0.20
161 33 0.06
162 7 0.01
163 36 0.06
164 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (158 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
CACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCGGGTCACGCTGAGG
Found at i:66791500 original size:80 final size:77
Alignment explanation
Indices: 66791125--66791918 Score: 779
Period size: 78 Copynumber: 10.1 Consensus size: 77
66791115 TTTTTTTTTT
*
66791125 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCTTTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CGAGGTA--T-TTTTAA
*
66791188 ATTTCTATTTTTTC--A
62 ATTTCT-GTTTTTCAAA
* * *
66791203 AAAGTCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGACACATGTCGAGGTATTTCTTTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CGAGGTA--T-TTTTAA
*
66791267 ATTTCTATTTTTCCAAA
62 ATTTCTGTTTTT-CAAA
* * *
66791284 AAAATTAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGACACATGTCGAGGTATTTCTTTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CGAGGTA--T-TTTTAA
*
66791348 ATTTCTATTTTTTCCAAA
62 ATTTCT-GTTTTT-CAAA
* *
66791366 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC-GAGGTATTTTTAAATT
66791429 TCTGTTTTTCAAAAA
65 TCTGTTTTTC--AAA
66791444 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTCATTTAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CGAGGTA-TT--TTTAA
*
66791509 ATTTCTATTTTT-AAA
62 ATTTCTGTTTTTCAAA
* * *
66791524 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGGTATTTTTTAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC-GAGGTATTTTTAAATT
*
66791589 TCTGCTTTTCAAAA
65 TCTGTTTTTC-AAA
** *
66791603 AAAATCAACTCATATTAAGAGAGGTGAGTTGAGCCTCGGG-CACATGCTGAGGTATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC-GAGGTATTTTTAAATT
* *
66791667 TTTGTTTTTTCCAA
65 TCTG-TTTTTCAAA
* *
66791681 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCAC--GCTGAGGTATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC-GAGGTATTTTTAAATT
* *
66791744 TATGCTTTTC-AA
65 TCTGTTTTTCAAA
* * * * ** * *
66791756 ATAATCAACTCATATTGTGAAAGGTGAGTTGAGCATTAGG-CTCATACCGAGGTATTTTTTAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT-GCGAGGTA-TTTTT-AAA
66791820 TTTCTGTTCTTTCAAAA
63 TTTCTGTT-TTTC-AAA
* * ** * ** *
66791837 AAAATCAACTCATATTGCTAGAGGTGAGTTCAGCCTCAAGTCACACGTCGATATATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-CGAGGTATTTTTAAATT
* * *
66791902 TATGTGTCTCAAA
65 TCTGTTTTTCAAA
66791915 AAAA
1 AAAA
66791919 AAGGATCGCA
Statistics
Matches: 622, Mismatches: 63, Indels: 62
0.83 0.08 0.08
Matches are distributed among these distances:
74 2 0.00
75 35 0.06
76 12 0.02
77 49 0.08
78 175 0.28
79 87 0.14
80 70 0.11
81 118 0.19
82 54 0.09
83 20 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCGAGGTATTTTTAAATTT
CTGTTTTTCAAA
Found at i:66791685 original size:237 final size:237
Alignment explanation
Indices: 66791125--66791873 Score: 902
Period size: 241 Copynumber: 3.2 Consensus size: 237
66791115 TTTTTTTTTT
* * * *
66791125 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-TCATGCCGAGGTATTTCTTTTAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTA--T-TTTTCAA
* * * *
66791189 TTTCTATTTTTT-C-AAAAGTCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGACACATGTC
63 TTTCTGTTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC
* *
66791251 GAGGTATTTCTTTTAAATTTCTATTTTTCCAAAAAAATTAACTCATATTACGAGAGGTGAGTTGA
128 GAGGTATTTC-TTTAAATTTCTATTTTT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
66791316 GCC-TCGGACACATG-TCGAGGTATTTCTTTTAAATTTCTATTTTTTCCAAA
190 GCCTTGGGTCACACGCT-GAGGTA-TT-TTTTAAATTTCT-GTTTTTCAAAA
*
66791366 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTATTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACATGCTGAGGTATTTTTCAATT
*
66791429 TCTG-TTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC
65 TCTGTTTTTTC--CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC
66791493 GAGGTATTTCATTTAAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
128 GAGGTATTTC-TTTAAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
66791558 CTTGGGTCACACGCTGAGGTATTTTTT-AATTTCTGCTTTTCAAAA
192 CTTGGGTCACACGCTGAGGTATTTTTTAAATTTCTGTTTTTCAAAA
**
66791603 AAAATCAACTCATATTAAGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTTCAATTT
* *
66791668 TTGTTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCAC--G-CTGA
66 CTGTTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTC-GA
* * ** * * * * *
66791730 GGTA-TT-TTTCAATTTATGCTTTTCAAATAATCAACTCATATTGTGAAAGGTGAGTTGAGCATT
130 GGTATTTCTTTAAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
* *
66791793 AGGCTCATAC-C-GAGGTATTTTTTAAAATTTCTGTTCTTTCAAAA
195 -GGGTCACACGCTGAGGTATTTTTT-AAATTTCTGTT-TTTCAAAA
* *
66791837 AAAATCAACTCATATTGCTAGAGGTGAGTTCAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
66791874 AAGTCACACG
Statistics
Matches: 450, Mismatches: 41, Indels: 41
0.85 0.08 0.08
Matches are distributed among these distances:
231 12 0.03
232 49 0.11
233 16 0.04
234 44 0.10
235 7 0.02
236 3 0.01
237 95 0.21
238 40 0.09
239 11 0.02
240 38 0.08
241 96 0.21
242 38 0.08
243 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (237 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTTCAATTT
CTGTTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAG
GTATTTCTTTAAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
GGTCACACGCTGAGGTATTTTTTAAATTTCTGTTTTTCAAAA
Found at i:66792211 original size:29 final size:29
Alignment explanation
Indices: 66792098--66792223 Score: 108
Period size: 29 Copynumber: 4.3 Consensus size: 29
66792088 GTTTTTTAAA
* * *
66792098 AAATTACATTTCGTCCCTTAAATTTTTTG
1 AAATTACATTTTGACCCCTAAATTTTTTG
* *
66792127 AAATTGCATATTGACCCCTAAATTTTCTTG
1 AAATTACATTTTGACCCCTAAATTTT-TTG
** * * ** *
66792157 AAATTATGTTTTAACCACTAGGTTTTTTT
1 AAATTACATTTTGACCCCTAAATTTTTTG
* *
66792186 AAATTATATTTTGACCCCTAAATTTTCTTA
1 AAATTACATTTTGACCCCTAAATTTT-TTG
66792216 AAATTACA
1 AAATTACA
66792224 CATTGGCCCT
Statistics
Matches: 74, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
29 44 0.59
30 30 0.41
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAATTTTTTG
Found at i:66792578 original size:4 final size:4
Alignment explanation
Indices: 66792571--66792657 Score: 62
Period size: 4 Copynumber: 22.8 Consensus size: 4
66792561 GAGAAGAGAA
* *
66792571 AAAG AAAG AAA- AAAA AGAAG AAAG AAAG AAA- AAAT AAAG -AAG AAAG
1 AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* *
66792617 AAAG AAAA AAAGGG GAAG -AAG AAAG -AAG -AAG AAA- AAAG AAA
1 AAAG AAAG AAA--G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
66792658 AAGAAAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
3 21 0.30
4 43 0.62
5 3 0.04
6 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:66792583 original size:11 final size:11
Alignment explanation
Indices: 66792564--66792626 Score: 76
Period size: 11 Copynumber: 5.8 Consensus size: 11
66792554 AATGAAGGAG
66792564 AAGAGAAAAAGA
1 AAGA-AAAAAGA
66792576 AAG-AAAAA-A
1 AAGAAAAAAGA
*
66792585 AAGAAGAAAGA
1 AAGAAAAAAGA
*
66792596 AAGAAAAAATA
1 AAGAAAAAAGA
*
66792607 AAGAAGAAAGA
1 AAGAAAAAAGA
66792618 AAGAAAAAA
1 AAGAAAAAA
66792627 AGGGGAAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
9 4 0.09
10 9 0.21
11 27 0.63
12 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:66792604 original size:22 final size:22
Alignment explanation
Indices: 66792567--66792663 Score: 105
Period size: 22 Copynumber: 4.5 Consensus size: 22
66792557 GAAGGAGAAG
66792567 AGAA-AAAGAAAGAAA--AAAA
1 AGAAGAAAGAAAGAAAAAAAAA
*
66792586 AGAAGAAAGAAAGAAAAAATAA
1 AGAAGAAAGAAAGAAAAAAAAA
**
66792608 AGAAGAAAGAAAGAAAAAAAGG
1 AGAAGAAAGAAAGAAAAAAAAA
*
66792630 GGAAG-AAGAAAGAAGAAGAAAAA
1 AGAAGAAAGAAAGAA-AA-AAAAA
66792653 AGAA-AAAGAAA
1 AGAAGAAAGAAA
66792664 ATTATTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.06
20 11 0.17
21 9 0.14
22 28 0.44
23 12 0.19
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (22 bp):
AGAAGAAAGAAAGAAAAAAAAA
Found at i:66792940 original size:11 final size:9
Alignment explanation
Indices: 66792923--66792973 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
66792913 AGAAAGACGA
66792923 AAAAAAACAG
1 AAAAAAA-AG
66792933 AGAAAAAAA-
1 A-AAAAAAAG
*
66792942 AGAAAAAAG
1 AAAAAAAAG
66792951 AAAAAAGAAG
1 AAAAAA-AAG
*
66792961 AAAAAAGAG
1 AAAAAAAAG
66792970 AAAA
1 AAAA
66792974 GGGTTCAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 6 0.17
9 12 0.34
10 11 0.31
11 6 0.17
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:66792941 original size:16 final size:16
Alignment explanation
Indices: 66792899--66792973 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 16
66792889 CCAACAGGCC
66792899 AAAAAAAGAAAAAGAGA
1 AAAAAAAGAAAAA-AGA
66792916 AAGACGAAAA-AAAACAGAGA
1 AA-A--AAAAGAAAA-A-AGA
66792936 AAAAAAAGAAAAAAGA
1 AAAAAAAGAAAAAAGA
66792952 AAAAAGAAGAAAAAAGA
1 AAAAA-AAGAAAAAAGA
66792969 GAAAA
1 -AAAA
66792974 GGGTTCAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.16
17 18 0.35
18 9 0.18
19 5 0.10
20 11 0.22
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAGA
Found at i:66792965 original size:37 final size:35
Alignment explanation
Indices: 66792899--66792973 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
66792889 CCAACAGGCC
* *
66792899 AAAAAAAGAAAAAGAGAAAGACGAAAAAAAACAGAGA
1 AAAAAAAGAAAAAGAGAAAAAAG-AAAAAAA-AGAGA
66792936 AAAAAAAGAAAAA-AGAAAAAAGAAGAAAAAAGAGA
1 AAAAAAAGAAAAAGAGAAAAAAGAA-AAAAAAGAGA
66792971 AAA
1 AAA
66792974 GGGTTCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 10 0.29
36 12 0.34
37 13 0.37
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (35 bp):
AAAAAAAGAAAAAGAGAAAAAAGAAAAAAAAGAGA
Found at i:66792974 original size:17 final size:17
Alignment explanation
Indices: 66792907--66792974 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
66792897 CCAAAAAAAG
*
66792907 AAAAAGAGAAAGACGAAAA
1 AAAAAGAGAAA-A-GAAGA
*
66792926 AAAACAGAGAAAAAAAAGA
1 AAAA-AGAG-AAAAGAAGA
*
66792945 AAAAAGAAAAAAGAAGA
1 AAAAAGAGAAAAGAAGA
66792962 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
66792975 GGTTCAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
17 20 0.48
18 3 0.07
19 11 0.26
20 5 0.12
21 3 0.07
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAGAAGA
Found at i:66793308 original size:19 final size:20
Alignment explanation
Indices: 66793286--66793331 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
66793276 ATAAAAAAAA
*
66793286 TTCAAAAAAAAATCGTGT-T
1 TTCAAAAAAAAATCCTGTGT
*
66793305 TTCAAAAAAAATTCCTGTGT
1 TTCAAAAAAAAATCCTGTGT
66793325 TTCAAAA
1 TTCAAAA
66793332 TTTTTGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (20 bp):
TTCAAAAAAAAATCCTGTGT
Found at i:66793535 original size:18 final size:18
Alignment explanation
Indices: 66793512--66793568 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
66793502 ATTTGTGTAA
66793512 AAAAATCCACATGTTTTC
1 AAAAATCCACATGTTTTC
*
66793530 AAAAATTCC-GATG-TTTC
1 AAAAA-TCCACATGTTTTC
** *
66793547 AAAAATTTACGTGTTTTC
1 AAAAATCCACATGTTTTC
66793565 AAAA
1 AAAA
66793569 TTCTAGTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 1 0.03
17 11 0.35
18 16 0.52
19 3 0.10
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAAATCCACATGTTTTC
Found at i:66793622 original size:18 final size:17
Alignment explanation
Indices: 66793526--66793828 Score: 213
Period size: 18 Copynumber: 17.2 Consensus size: 17
66793516 ATCCACATGT
*
66793526 TTTCAAAAA-TTCCGATG
1 TTTCAAAAATTTTCG-TG
*
66793543 TTTCAAAAATTTACGTG
1 TTTCAAAAATTTTCGTG
* *
66793560 TTTTC-AAAATTCTAGTG
1 -TTTCAAAAATTTTCGTG
*
66793577 ATTCAAAAAGTTTTCGTG
1 TTTCAAAAA-TTTTCGTG
*
66793595 TTTTCTAAAAATTTTTGTG
1 -TTTC-AAAAATTTTCGTG
66793614 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
66793631 TTTTCAAAAATTTTCATAT
1 -TTTCAAAAATTTTCGT-G
66793650 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* * *
66793667 TTTTCAACAATTCTCGTA
1 -TTTCAAAAATTTTCGTG
*
66793685 TTTCACAAA-TTTCAGTG
1 TTTCAAAAATTTTC-GTG
* *
66793702 TTTTAAAAAAGTTTGCGCT-
1 -TTTCAAAAA-TTTTCG-TG
**
66793721 TTAAAAAAAATTCTT-GTG
1 TT-TCAAAAATT-TTCGTG
*
66793739 TTTCAAAAATTGTCGTG
1 TTTCAAAAATTTTCGTG
* *
66793756 TTTCAAAAATCTTCATG
1 TTTCAAAAATTTTCGTG
*
66793773 TTTCCAAAAATTTTCGGG
1 TTT-CAAAAATTTTCGTG
66793791 TTTTCAAAAATTCTT-GTG
1 -TTTCAAAAATT-TTCGTG
* *
66793809 ATTCAAAAAATTTCGTG
1 TTTCAAAAATTTTCGTG
66793826 TTT
1 TTT
66793829 TTTTTTAAAA
Statistics
Matches: 225, Mismatches: 39, Indels: 44
0.73 0.13 0.14
Matches are distributed among these distances:
16 9 0.04
17 87 0.39
18 97 0.43
19 23 0.10
20 9 0.04
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:66793634 original size:36 final size:35
Alignment explanation
Indices: 66793523--66793828 Score: 255
Period size: 35 Copynumber: 8.7 Consensus size: 35
66793513 AAAATCCACA
* *
66793523 TGTTTTCAAAAA-TTCCGATGTTTCAAAAATTTACG
1 TGTTTTCAAAAATTTTCG-TGTTTCAAAAATTTTCG
* * *
66793558 TGTTTTC-AAAATTCTAGTGATTCAAAAAGTTTTCG
1 TGTTTTCAAAAATTTTCGTGTTTCAAAAA-TTTTCG
*
66793593 TGTTTTCTAAAAATTTTTGTGTTTCAAAAATTTTCG
1 TGTTTTC-AAAAATTTTCGTGTTTCAAAAATTTTCG
* *
66793629 TGTTTTCAAAAATTTTCATATTTTCAAAAATTTTCG
1 TGTTTTCAAAAATTTTCGT-GTTTCAAAAATTTTCG
* * * *
66793665 TGTTTTCAACAATTCTCGTATTTCACAAA-TTTCAG
1 TGTTTTCAAAAATTTTCGTGTTTCAAAAATTTTC-G
* * * * ** *
66793700 TGTTTTAAAAAAGTTTGCG-CTTTAAAAAAAATTCT
1 TGTTTTCAAAAA-TTTTCGTGTTTCAAAAATTTTCG
* * *
66793735 TGTGTTTCAAAAATTGTCGTGTTTCAAAAATCTTCA
1 TGT-TTTCAAAAATTTTCGTGTTTCAAAAATTTTCG
* *
66793771 TGTTTCCAAAAATTTTCGGGTTTTCAAAAATTCTT-G
1 TGTTTTCAAAAATTTTCGTG-TTTCAAAAATT-TTCG
* *
66793807 TG-ATTCAAAAAATTTCGTGTTT
1 TGTTTTCAAAAATTTTCGTGTTT
66793829 TTTTTTAAAA
Statistics
Matches: 217, Mismatches: 42, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
34 21 0.10
35 91 0.42
36 85 0.39
37 20 0.09
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (35 bp):
TGTTTTCAAAAATTTTCGTGTTTCAAAAATTTTCG
Found at i:66793689 original size:71 final size:70
Alignment explanation
Indices: 66793523--66793828 Score: 245
Period size: 71 Copynumber: 4.3 Consensus size: 70
66793513 AAAATCCACA
* *
66793523 TGTTTTCAAAAATTC-CGATGTTTCAAAAATTTACGTGTTTTC-AAAA--TTCTAGTGATTCAAA
1 TGTTTTCAAAAATTCTCG-TGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCTA-T-TTTCAAA
66793584 AAGTTTTCG
63 AA-TTTTCG
* *
66793593 TGTTTTCTAAAAATTTTTGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCATATTTTCAAAA
1 TGTTTTC-AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTC-TATTTTCAAAA
66793658 ATTTTCG
64 ATTTTCG
* * * * * ** **
66793665 TGTTTTCAACAATTCTCGTATTTCACAAA-TTTCAGTGTTTTAAAAAAGTTTGCGCTTTAAAAAA
1 TGTTTTCAAAAATTCTCGTGTTTCAAAAATTTTC-GTGTTTTCAAAAA-TTTTCTATTT-TCAAA
66793729 AATTCTT-G
63 AATT-TTCG
* * * * **
66793737 TG-TTTCAAAAATTGTCGTGTTTCAAAAATCTTCATGTTTCCAAAAATTTTCGGGTTTTCAAAAA
1 TGTTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTC-TATTTTCAAAAA
66793801 TTCTT-G
65 TT-TTCG
*
66793807 TG-ATTCAAAAAATT-TCGTGTTT
1 TGTTTTC-AAAAATTCTCGTGTTT
66793829 TTTTTTAAAA
Statistics
Matches: 195, Mismatches: 28, Indels: 26
0.78 0.11 0.10
Matches are distributed among these distances:
70 39 0.20
71 105 0.54
72 35 0.18
73 10 0.05
74 4 0.02
75 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (70 bp):
TGTTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTTTCTATTTTCAAAAAT
TTTCG
Found at i:66803268 original size:11 final size:10
Alignment explanation
Indices: 66803246--66803302 Score: 69
Period size: 11 Copynumber: 5.3 Consensus size: 10
66803236 AGATTCAATC
*
66803246 AAAAAAATAA
1 AAAAAAAGAA
66803256 AAAAACAAGAA
1 AAAAA-AAGAA
66803267 AAAAAAAGAA
1 AAAAAAAGAA
66803277 AAAGAAGAAGAA
1 AAA-AA-AAGAA
66803289 AAGAAAAAGAA
1 AA-AAAAAGAA
66803300 AAA
1 AAA
66803303 GGAAAGGCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 14 0.33
11 18 0.43
12 9 0.21
13 1 0.02
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:66803270 original size:19 final size:18
Alignment explanation
Indices: 66803246--66803296 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
66803236 AGATTCAATC
66803246 AAAAAAATAAAAAAACAAG
1 AAAAAAA-AAAAAAACAAG
*
66803265 AAAAAAAAAGAAAAAGAAG
1 AAAAAAAAA-AAAAACAAG
66803284 AAGAAAAGAAAAA
1 AA-AAAA-AAAAA
66803297 GAAAAAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 17 0.61
20 6 0.21
21 3 0.11
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAAAACAAG
Found at i:66803280 original size:6 final size:6
Alignment explanation
Indices: 66803248--66803303 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
66803238 ATTCAATCAA
* * *
66803248 AAAAAT AAAAA- AACAAG -AAAA- AAAAAG AAAAAG AAGAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
66803292 AAAAAG AAAAAG
1 AAAAAG AAAAAG
66803304 GAAAGGCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 15 0.36
6 27 0.64
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:66803308 original size:17 final size:17
Alignment explanation
Indices: 66803248--66803308 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
66803238 ATTCAATCAA
*
66803248 AAAAATAAAA-AAACAAG
1 AAAAAGAAAAGAAA-AAG
66803265 AAAAA-AAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
*
66803281 AAGAAGAAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
*
66803298 AAAAAGGAAAG
1 AAAAAGAAAAG
66803309 GCCAAAGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
16 11 0.28
17 28 0.72
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAG
Found at i:66804334 original size:24 final size:25
Alignment explanation
Indices: 66804281--66804340 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
66804271 ATGTCCCTAG
* *
66804281 AGATTACAATGGATTGAACTTTGAA
1 AGATTACAATGGATCGAACATTGAA
* *
66804306 A-ATTACAGTGGATCGGACATT-AA
1 AGATTACAATGGATCGAACATTGAA
66804329 AGATTACAATGG
1 AGATTACAATGG
66804341 GGGCAAGCCG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.10
24 25 0.86
25 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (25 bp):
AGATTACAATGGATCGAACATTGAA
Found at i:66804737 original size:45 final size:45
Alignment explanation
Indices: 66804624--66805311 Score: 906
Period size: 45 Copynumber: 15.3 Consensus size: 45
66804614 AAATAACAGA
** *
66804624 TCTTGTCTTCCTGTATTGGCAATGAAGTAGA-TCAAAGATAG-AGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGG
* * *
66804668 TCTTATCTTCCTGTATTGGTAGCGAAGTAGACTGAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
66804713 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCGAAGATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGG
* * *
66804758 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAACAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
*
66804803 TCTTGTCTTCCTGTATTGGCAGCGAAGAAGACTGAAGATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
66804848 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
* * *
66804893 TCTTGTCTTCCTATATTGGCAGTGAAGTAGA-TCAAAGATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGG
* *
66804938 TCTTGTCTTCCTATATTGGCAGCGAAGTAGACTGAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
* * * *
66804983 TCTTGTCTTACTATATTGGCAACGAAGTAGA-TCGAAGATAGCATG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGG
* * * * *
66805028 TCTTGTCTTCCTGTATTGTCAACGAAGTTGATTGAAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
* * *
66805073 TCTTGTCTTTCTGTATTGCCAGCGAAGTAGA-TCGAATATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGG
* * **
66805118 TCTTGTCTTCCTGTATTAGCAACG-AGTAGACTGAAGATAGCAAA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
*
66805162 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCAAAGATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACT-GAAGATAGCAGG
* * * *
66805207 TTTTGTCTTCCTATATTGGCAGCAAAGTAGACTAAAGATAGCAGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
* * **
66805252 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTGAAGATAACATA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
66805297 TCTTGTCTTCCTGTA
1 TCTTGTCTTCCTGTA
66805312 CTGAAGTGAA
Statistics
Matches: 572, Mismatches: 59, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
44 76 0.13
45 492 0.86
46 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (45 bp):
TCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGG
Found at i:66805518 original size:44 final size:41
Alignment explanation
Indices: 66805427--66805592 Score: 145
Period size: 44 Copynumber: 3.8 Consensus size: 41
66805417 ATATCAAACA
* *
66805427 TTATC-CCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTGCAAACC
1 TTATCTCCC-TGAAGTTGCAGTGGAGCAGATT-AAA--GCAAATC
* * *
66805471 TTATCTCGCTGAAGTTGCAGTGGAGTAGGTTAAAGACACCAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CA--AATC
* ** *
66805515 TTATCTCCCTGAAGTTACAGCAGAGCAGATTGAAGCTATTAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-A--AATC
*
66805559 CTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
66805593 ATAATGAATG
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 4 0.04
44 91 0.91
45 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAATC
Found at i:66805548 original size:88 final size:86
Alignment explanation
Indices: 66805427--66805592 Score: 192
Period size: 88 Copynumber: 1.9 Consensus size: 86
66805417 ATATCAAACA
* ** * *
66805427 TTATCCCCTTGAAGTTGCAGTGGAGCAGGTTGAA-ATTGCAAACCTTATCTCGCTGAAGTTGCAG
1 TTATCCCCTTGAAGTTACAGCAGAGCAGATTGAACATT--AAACC-TATCTCCCTGAAGTTGCAG
* *
66805491 TGGAGTAGGTTAAAGACACCAATC
63 TGGAGCAGATTAAAGACACCAATC
*
66805515 TTATCTCCC-TGAAGTTACAGCAGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGCAG
1 TTATC-CCCTTGAAGTTACAGCAGAGCAGATTGAA-C-ATTAAACCTATCTCCCTGAAGTTGCAG
66805579 TGGAGCAGATTAAA
63 TGGAGCAGATTAAA
66805593 ATAATGAATG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
88 56 0.85
89 7 0.11
91 3 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (86 bp):
TTATCCCCTTGAAGTTACAGCAGAGCAGATTGAACATTAAACCTATCTCCCTGAAGTTGCAGTGG
AGCAGATTAAAGACACCAATC
Found at i:66805866 original size:44 final size:44
Alignment explanation
Indices: 66805784--66805867 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
66805774 CAGATCATAT
**
66805784 CAAACCTTATCCCCCTTAAGTTGCAGTGGGGCAAGTTGAAATTG
1 CAAACCTTATCCCCCTTAAGTTGCAGTGGAACAAGTTGAAATTG
* *
66805828 CAAACCTTAT-CTCCTTAAAGTTGCAGTGGAACAGGTTGAA
1 CAAACCTTATCCCCCTT-AAGTTGCAGTGGAACAAGTTGAA
66805868 GATACAAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 5 0.14
44 30 0.86
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CAAACCTTATCCCCCTTAAGTTGCAGTGGAACAAGTTGAAATTG
Found at i:66805998 original size:43 final size:43
Alignment explanation
Indices: 66805943--66806043 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 43
66805933 AAGTTGCTGC
* *
66805943 GAAGAAGATTGAAGCTACAAGTCAG-ATCT-TTCTGAAGTGCAGT
1 GAAGTAGATTGAAGCTAAAAG-CAGTATCTCTT-TGAAGTGCAGT
* * *
66805986 GAAGTGGATTGAAGCTAAAAGCCGTATCTCTTTGATGTGCAGT
1 GAAGTAGATTGAAGCTAAAAGCAGTATCTCTTTGAAGTGCAGT
*
66806029 GGAGTAGATTGAAGC
1 GAAGTAGATTGAAGC
66806044 AACAGGACGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 2 0.04
43 45 0.92
44 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (43 bp):
GAAGTAGATTGAAGCTAAAAGCAGTATCTCTTTGAAGTGCAGT
Found at i:66806227 original size:12 final size:12
Alignment explanation
Indices: 66806210--66806239 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
66806200 TTTTGCCCTG
66806210 CCCAAAAACAAA
1 CCCAAAAACAAA
*
66806222 CCCAAAAACAAG
1 CCCAAAAACAAA
66806234 CCCAAA
1 CCCAAA
66806240 CAGCCCACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.37, G:0.03, T:0.00
Consensus pattern (12 bp):
CCCAAAAACAAA
Found at i:66807353 original size:15 final size:15
Alignment explanation
Indices: 66807316--66807365 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
66807306 TATTTTAATG
* **
66807316 TTATTATCATTGCCA
1 TTATTATTATTGTTA
66807331 TTATTATTATTGTTA
1 TTATTATTATTGTTA
66807346 TTATTATTATTAGTT-
1 TTATTATTATT-GTTA
66807361 TTATT
1 TTATT
66807366 TTAATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 28 0.90
16 3 0.10
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (15 bp):
TTATTATTATTGTTA
Found at i:66812440 original size:20 final size:20
Alignment explanation
Indices: 66812415--66812464 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66812405 TGGCTTAAAA
66812415 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66812435 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66812452 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66812465 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66817079 original size:20 final size:20
Alignment explanation
Indices: 66817054--66817103 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66817044 TGGCTTAAAA
66817054 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66817074 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66817091 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66817104 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66825435 original size:12 final size:12
Alignment explanation
Indices: 66825412--66825443 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
66825402 AAGTATAAAC
66825412 AATAAT-ATGAT
1 AATAATAATGAT
66825423 AATAATAATGAT
1 AATAATAATGAT
66825435 AATAATAAT
1 AATAATAAT
66825444 ATATTAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:66826729 original size:19 final size:19
Alignment explanation
Indices: 66826705--66826741 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
66826695 GGGCTAAAAA
66826705 TTGGGCCAT-TTGTATTTTT
1 TTGGGCC-TGTTGTATTTTT
66826724 TTGGGCCTGTTGTATTTT
1 TTGGGCCTGTTGTATTTT
66826742 ATGTTCTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.08, C:0.11, G:0.24, T:0.57
Consensus pattern (19 bp):
TTGGGCCTGTTGTATTTTT
Found at i:66827185 original size:124 final size:124
Alignment explanation
Indices: 66827023--66827520 Score: 618
Period size: 124 Copynumber: 4.0 Consensus size: 124
66827013 TTTTCGTCTG
* *
66827023 CTCCACTACTGCTTAGGGAGATAAGACTTGGTGCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
* *
66827088 A-CTTGGTTTCTTTCTTCTGCTTCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTA
66 ATC-TGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTA
*
66827147 CTCCACTACTGCTTAGGGAGATAAGGCTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * *
66827212 ATCTGGTTTCTTTCGTCTGCCCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGA
66 ATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCT-A
* ** *
66827272 -TCCACTACTGCTTAGGGAGATAGGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAG
1 CTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCACTACTGCTTAGGGAG
** * * ** *
66827335 ATAAGA-C---TTGATGT-GATCTGCTTCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCG
61 ATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C----TTGATGCG
*
66827395 -TCTG
120 ATCTA
*
66827399 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGAGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
66827464 ATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATC
66 ATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATC
66827521 CGCTCTACTG
Statistics
Matches: 316, Mismatches: 37, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
123 6 0.02
124 202 0.64
125 5 0.02
127 3 0.01
128 94 0.30
129 6 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (124 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
ATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTA
Found at i:66827573 original size:84 final size:84
Alignment explanation
Indices: 66827019--66827553 Score: 705
Period size: 84 Copynumber: 6.4 Consensus size: 84
66827009 GTTTTTTTCG
*
66827019 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGG-----TGCGATCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGGTTTCTTTCG-TCTGCTCCACTACTGCTTA
* * **
66827078 GGGAGATAAGACTTGGTTTCTTTCT
64 GGGAGATAAGACTT-G---ATGTGA
* ** * *
66827103 TCTGCTTCACTACTGCTTAGGGAGATAAGA-C----TTGATGCGATCTACTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAG
*
66827163 GGAGATAAGGCTTGATGTGA
65 GGAGATAAGACTTGATGTGA
* *
66827183 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCCCCACTACTTCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
66827248 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
* *
66827267 TCTGATCCACTACTGCTTAGGGAGATAGGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
66827332 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
* *
66827351 TCTGCTTCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
66827416 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
*
66827435 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
66827500 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
* * * ** *
66827519 TCCGCTCTACTGCAACTTCAGAGAGATAAGATCTG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTG
66827554 TGATTTTAAT
Statistics
Matches: 410, Mismatches: 31, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
80 31 0.08
81 1 0.00
83 1 0.00
84 356 0.87
85 21 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (84 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
GAGATAAGACTTGATGTGA
Found at i:66827579 original size:44 final size:44
Alignment explanation
Indices: 66827518--66827688 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 44
66827508 ACTTGATGTG
* *
66827518 ATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTTA
* * * * *
66827562 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGATGTG
1 ATCCACTCTACTGCAACTTCAGAGAGATA--A-GATCTG--T-AAT-T--T-TA
* * *
66827616 ATCCACTCTACTGTAACTTTAGAGAGATAAGATCCT-TTATTTTA
1 ATCCACTCTACTGCAACTTCAGAGAGATAAGAT-CTGTAATTTTA
* *
66827660 ATCCACTCAACTGTAACTTCAGAGAGATA
1 ATCCACTCTACTGCAACTTCAGAGAGATA
66827689 GGATTACTAG
Statistics
Matches: 99, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
44 54 0.55
45 1 0.01
46 1 0.01
47 5 0.05
48 2 0.02
49 2 0.02
50 2 0.02
51 3 0.03
52 2 0.02
53 1 0.01
54 26 0.26
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTTA
Found at i:66827680 original size:98 final size:98
Alignment explanation
Indices: 66827511--66827707 Score: 290
Period size: 98 Copynumber: 2.0 Consensus size: 98
66827501 AGATAAGACT
* *
66827511 TGATGTGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGC
1 TGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCAACTGC
* *
66827576 AACTTCAGGGAGATAGGATTA-TCGGCTTCAATC
66 AACTTCAGAGAGATAGGATTACT-AGCTTCAATC
* * *
66827609 TGATGTGATCCACTCTACTGTAACTTTAGAGAGATAAGATCCT-TTATTTTAATCCACTCAACTG
1 TGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGAT-CTGTGATTTTAATCCACTCAACTG
*
66827673 TAACTTCAGAGAGATAGGATTACTAGCTTCAATC
65 CAACTTCAGAGAGATAGGATTACTAGCTTCAATC
66827707 T
1 T
66827708 ACTCCGCTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 86 0.97
99 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (98 bp):
TGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCAACTGC
AACTTCAGAGAGATAGGATTACTAGCTTCAATC
Found at i:66827905 original size:85 final size:83
Alignment explanation
Indices: 66827802--66828434 Score: 583
Period size: 85 Copynumber: 7.3 Consensus size: 83
66827792 CGGTCTACTT
66827802 CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
1 CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
66827867 TCATTTATTTTAATACGCTC
66 TC-TTTATTTTAAT-CGCTC
* * * * * * *
66827887 CACTGTAACTTCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAA-TCTCA-AGGAGAT
1 CACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACT-TCAGA-GAGAT
** *
66827950 AAGATCTTTGGCTTCAATCTGCTC
62 AAGATCTTT-ATTTTAATC-GCTC
*
66827974 CATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
1 CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
66828039 TCCTTTATTTTAATACGCTC
66 T-CTTTATTTTAAT-CGCTC
* * * * * * *
66828059 CACTGTAACTTCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAA-TCTCA-AGGAGAT
1 CACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTGCTGTAACT-TCAGA-GAGAT
** *
66828122 AAGATCTTTGGCTTCAATCTGCTC
62 AAGATCTTT-ATTTTAATC-GCTC
* *
66828146 CATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
66828211 TCCTTTATTTTAATCCGCTC
66 T-CTTTATTTTAAT-CGCTC
* * * * * * * * * *
66828231 CACTGTAATCTCAAGGAGATAGGATTACT-ATCTTCAATCTGCTCCGCTGTAACCTCAGGGAGAT
1 CACTGTAACCTCAGGGAGATAAGA--CCTGA--TGCGATCTACTCTGCTGTAACTTCAGAGAGAT
** ** *
66828295 AAGATCTGAAATTCTTCGGTCTACTC
62 AAGATCT-TTATT-TT-AATC-GCTC
* *
66828321 CACTTTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
*
66828386 TCCTTTATTTTAATCCACTC
66 T-CTTTATTTTAAT-CGCTC
* * *
66828406 CACTTTAATCTCAGGGAGATAAGATCTGA
1 CACTGTAACCTCAGGGAGATAAGACCTGA
66828435 AATTCTTCGG
Statistics
Matches: 438, Mismatches: 79, Indels: 62
0.76 0.14 0.11
Matches are distributed among these distances:
85 172 0.39
86 43 0.10
87 158 0.36
88 37 0.08
89 4 0.01
90 24 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (83 bp):
CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
TCTTTATTTTAATCGCTC
Found at i:66828006 original size:172 final size:172
Alignment explanation
Indices: 66827709--66828475 Score: 1010
Period size: 172 Copynumber: 4.4 Consensus size: 172
66827699 CTTCAATCTA
* * * * * * * * *
66827709 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGATCCACTGTAACCTTAGGGAG
1 CTCCACTGTAATCTCAGGGAGATAGGAT-ACTGTCTTCGATCTGCTCCGCTGTAACCTCAAGGAG
** * * *
66827774 ATAAGATCTGAAATT--CTTCGGTCTACTTCACTGTAACCTCAGGGAGATAAGACCTGATGCGAT
65 ATAAGATCT----TTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGAT
* *
66827837 CTACTCTGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAATACG
126 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATACG
*
66827884 CTCCACTGTAA-CTTCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAATCTCAAGGAG
1 CTCCACTGTAATC-TCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAACCTCAAGGAG
66827948 ATAAGATCTTTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTAC
65 ATAAGATCTTTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTAC
*
66828013 TCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATACG
130 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATACG
*
66828056 CTCCACTGTAA-CTTCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAATCTCAAGGAG
1 CTCCACTGTAATC-TCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAACCTCAAGGAG
66828120 ATAAGATCTTTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTAC
65 ATAAGATCTTTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTAC
*
66828185 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
130 TCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATACG
* * * *
66828228 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAACCTCAGGGAG
1 CTCCACTGTAATCTCAGGGAGATAGGA-TACTGTCTTCGATCTGCTCCGCTGTAACCTCAAGGAG
** *
66828293 ATAAGATCTGAAATT--CTTCGGTCTACTCCACTT-TAACCTCAGGGAGATAAGACCTGATGCGA
65 ATAAGATCT----TTGGCTTCAATCTGCTCCA-TTGTAACCTCAGGGAGATAAGACCTGATGCGA
* *
66828355 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCA
125 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATACG
* * * * * *
66828403 CTCCACTTTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 CTCCACTGTAATCTCAGGGAGATAGGATACTG----TCTTCGATCTGCTCCGCTGTAACCTCAAG
66828467 GAGATAAGA
62 GAGATAAGA
66828476 CCTGATGTGA
Statistics
Matches: 543, Mismatches: 35, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
170 2 0.00
172 283 0.52
173 45 0.08
174 39 0.07
175 136 0.25
176 2 0.00
177 36 0.07
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (172 bp):
CTCCACTGTAATCTCAGGGAGATAGGATACTGTCTTCGATCTGCTCCGCTGTAACCTCAAGGAGA
TAAGATCTTTGGCTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACT
CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATACG
Found at i:66828333 original size:46 final size:45
Alignment explanation
Indices: 66827704--66828518 Score: 337
Period size: 44 Copynumber: 18.8 Consensus size: 45
66827694 ACTAGCTTCA
* * ***** *
66827704 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
*
66827748 ATCTGA-TCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCG
1 ATCT-ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-TTCG
* * * *
66827794 GTCTACTTCACTGTAACCTCAGGGAGATAAGACCTG--A--TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
** * * ** *
66827835 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCAT-TTATTTT-A
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATC-TGAAATTTTCG
* * * *
66827879 ATAC-GCTCCACTGTAACTTCAGGGAGATAGGATACTG---TCTTCG
1 AT-CTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTCG
* * * * ***** *
66827922 ATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCT-TTGGCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
* * * *
66827966 ATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTG--A--TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
** * * ** *
66828007 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATTTT-A
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTCG
* * * *
66828051 ATAC-GCTCCACTGTAACTTCAGGGAGATAGGATACTG---TCTTCG
1 AT-CTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTCG
* * * * ***** *
66828094 ATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCT-TTGGCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
* * * *
66828138 ATCTGCTCCATTGTAACCTCAGGGAGATAAGACCTG--A--TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
* * * ** *
66828179 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTT-A
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTCG
** * * * * * *
66828223 ATCCGCTCCACTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTCA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTTTCG
* *
66828267 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-TTCG
* * * *
66828313 GTCTACTCCACTTTAACCTCAGGGAGATAAGACCTG--A--TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
* * * ** *
66828354 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTT-A
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTTTCG
* * *
66828398 ATCCACTCCACTTTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT-TTCG
* * *
66828444 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG--A-TGT-G
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
* * *
66828485 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGATC
66828519 CTTTACTTTC
Statistics
Matches: 585, Mismatches: 137, Indels: 101
0.71 0.17 0.12
Matches are distributed among these distances:
41 147 0.25
42 21 0.04
43 64 0.11
44 240 0.41
45 14 0.02
46 99 0.17
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTCG
Found at i:66828519 original size:131 final size:131
Alignment explanation
Indices: 66827704--66828603 Score: 611
Period size: 131 Copynumber: 6.9 Consensus size: 131
66827694 ACTAGCTTCA
* * *** *
66827704 ATCTACTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGATCCACTGTAACCT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTATTTCAATCTGCTCCACTGTAACCT
* * *
66827767 TAGGGAGATAAGATCTGAAATTCTTCGGTCTACTTCACTGTAACCTCAGGGAGATAAGACCTGAT
64 CAGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAT
*
66827832 GCG
129 GTG
** * * *
66827835 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAATAC-GCTCCACTGTAACTTC
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAAT-CTGCTCCACTGTAACCTC
* * * * * * *
66827899 AGGGAGATAGGATACTG----TCTTCGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCT-TT
65 AGGGAGATAAGAT-CTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAT
*
66827959 GGCTTCA
129 -G--T-G
* * * * * * * * ** *
66827966 ATCTGCTCCATTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGATCTACTCTGCTGTAACTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCTGCTCCACTGTAACCTCA
* ** * * * * *
66828028 GAGAGATAAGATCCT-TTATT-TT-AATAC-GCTCCACTGTAACTTCAGGGAGATAGGATACTG-
66 GGGAGATAAGAT-CTGAAATTCTTCGAT-CTACTCCACTGTAACCTCAGGGAGATAAGA-CCTGA
*
66828088 TCTTCG
128 T-GT-G
* * ** *
66828094 ATCTGCTCCGCTGTAA-TCTCA-AGGAGATAAGAT-CTTTGGCTTCAATCTGCTCCATTGTAACC
1 ATCTACTCCACTGTAACT-TCAGA-GAGATAAGATCCTTT-ATTTCAATCTGCTCCACTGTAACC
* * * * *
66828156 TCAGGGAGATAAGACCTG--A---TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
63 TCAGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-T
* * *
66828216 TATTTTA
126 GA-TGTG
** * * *
66828223 ATCCGCTCCACTGTAA-TCTCA-AGGAGATAGGAT--TACTATCTTCAATCTGCTCCGCTGTAAC
1 ATCTACTCCACTGTAACT-TCAGA-GAGATAAGATCCT-TTAT-TTCAATCTGCTCCACTGTAAC
* *
66828284 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTTTAACCTCAGGGAGATAAGACCTG
62 CTCAGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
*
66828349 ATGCG
127 ATGTG
* * ** * *
66828354 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTTTAATCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCTGCTCCACTGTAACCTCA
*
66828419 GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGT
66 GGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGT
66828484 G
131 G
* * * * *
66828485 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTACTTTCAAT-TCGCCCCACTGCATCTT
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTCAATCT-GCTCCACTGTAACCT
* * * * **
66828549 CAGGGGGATAAGACTTTG--GTTCTTCGATCCACTCCACTGTAATATCAGGGAGATA
64 CAGGGAGATAAGA-TCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATA
66828604 GGATTTGTAA
Statistics
Matches: 607, Mismatches: 120, Indels: 84
0.75 0.15 0.10
Matches are distributed among these distances:
127 4 0.01
128 122 0.20
129 98 0.16
130 11 0.02
131 297 0.49
132 39 0.06
133 6 0.01
134 30 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCTGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGT
G
Found at i:66828811 original size:125 final size:125
Alignment explanation
Indices: 66828645--66828882 Score: 334
Period size: 125 Copynumber: 1.9 Consensus size: 125
66828635 GATTCGCCAT
* * *
66828645 TGTGGCTTTAATCTTTTTAACTACAATGTCGAAGAAACAAGATTCATCAATTTGGCTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTACAATGTAGAAGAAACAAGATTCACCAATGTGGCTTTAATCTG
* ** * *
66828710 TTCCACTGCATCGTTTGGG-GTGTAGGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGA
66 TTCCACTGCACCGCCTGGGAG-GTAAGATTCGCTGATGTAGCTTTAATCAAGATTCACCGA
* ** * * *
66828770 TGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTG
1 TGTGGCTTTAATCTTTTTAACTACAATGTAGAAGAAACAAGATTCACCAATGTGGCTTTAATCTG
66828835 TTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGATGTAGCTTTAATC
66 TTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGATGTAGCTTTAATC
66828883 TTTTTAATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
125 97 0.99
126 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (125 bp):
TGTGGCTTTAATCTTTTTAACTACAATGTAGAAGAAACAAGATTCACCAATGTGGCTTTAATCTG
TTCCACTGCACCGCCTGGGAGGTAAGATTCGCTGATGTAGCTTTAATCAAGATTCACCGA
Found at i:66828821 original size:50 final size:49
Alignment explanation
Indices: 66828757--66829032 Score: 220
Period size: 50 Copynumber: 5.6 Consensus size: 49
66828747 TAGCTTTAAT
*
66828757 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTA-GGGAGG
* * ** **
66828807 CAAGATTCACCGATGTGGTTTTAATCTGTTCCACTGCACCGCCT-GGGAGG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATG--TAGGGAGG
* * * *
66828857 TAAGATTCGCTGATGTAGCTTTAATCTTTTTAA-TCGCAATGTCAGGGAGG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACT-GCAATGT-AGGGAGG
* * *
66828907 CAAGATTCACC-ATTGTGGCTTTAATCTTTTT-ACTGCACTGCCT-GAGAGA
1 CAAGATTCACCGA-TGTGGCTTTAATCTTTTTAACTGCAATG--TAGGGAGG
* * * * * * * **
66828956 TAAGATTCGCTGGTGTAGCTTTAATCTTTTTAACCGCCATGTCAAAGAGG
1 CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGT-AGGGAGG
*
66829006 CAAGATTCACCGTTGTGGCTTTAATCT
1 CAAGATTCACCGATGTGGCTTTAATCT
66829033 ATTCCACTGC
Statistics
Matches: 174, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
48 2 0.01
49 37 0.21
50 133 0.76
51 1 0.01
52 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (49 bp):
CAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGAGG
Found at i:66828998 original size:99 final size:100
Alignment explanation
Indices: 66828758--66829049 Score: 383
Period size: 99 Copynumber: 2.9 Consensus size: 100
66828748 AGCTTTAATC
* * * * *
66828758 AAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAATGT-AGGGGAAGCAAGATTCACCGA-T
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAACCGCAATGTCA-GGGAGGCAAGATTCACC-ATT
* * * * *
66828821 GTGGTTTTAATCTGTTCCACTGCACCGCCTGGGAGGT
64 GTGGCTTTAATCTATTCCACTGCACTGCCTGAGAGAT
*
66828858 AAGATTCGCTGATGTAGCTTTAATCTTTTTAATCGCAATGTCAGGGAGGCAAGATTCACCATTGT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCATTGT
**
66828923 GGCTTTAATCT-TTTTACTGCACTGCCTGAGAGAT
66 GGCTTTAATCTATTCCACTGCACTGCCTGAGAGAT
* * ** *
66828957 AAGATTCGCTGGTGTAGCTTTAATCTTTTTAACCGCCATGTCAAAGAGGCAAGATTCACCGTTGT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCATTGT
66829022 GGCTTTAATCTATTCCACTGCACTGCCT
66 GGCTTTAATCTATTCCACTGCACTGCCT
66829050 AGGAAGTAAG
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
99 89 0.53
100 79 0.47
101 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
AAGATTCGCTGATGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAGGCAAGATTCACCATTGT
GGCTTTAATCTATTCCACTGCACTGCCTGAGAGAT
Found at i:66829175 original size:86 final size:87
Alignment explanation
Indices: 66829061--66829240 Score: 236
Period size: 86 Copynumber: 2.1 Consensus size: 87
66829051 GGAAGTAAGG
* * *
66829061 CTTTGTTTTTGATCAACTTCGCTATTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCA
1 CTTTGTTTTCGATCAACTTCGCTATTAACGCAGGAAGGCAAGATCTACTATCTTCAACCAGCTCA
66829125 ACTGCAACCAATGGAGGCAAAA
66 ACTGCAACCAATGGAGGCAAAA
** * * **
66829147 CTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGGAGGCAAGATCTACTATCTTCAACCAGCTGT
1 CTTTGTTTTCGATCAACTTCGCTATTAACGCAGGAAGGCAAGATCTACTATCTTCAACCAGCTCA
** **
66829212 ACTGCAACCGGTGGAGGCAAGG
66 ACTGCAACCAATGGAGGCAAAA
66829234 CTTTGTT
1 CTTTGTT
66829241 CGATTTTCAC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 43 0.54
87 37 0.46
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
CTTTGTTTTCGATCAACTTCGCTATTAACGCAGGAAGGCAAGATCTACTATCTTCAACCAGCTCA
ACTGCAACCAATGGAGGCAAAA
Found at i:66831031 original size:20 final size:20
Alignment explanation
Indices: 66831006--66831044 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
66830996 CGCCGCCAAC
*
66831006 GTCACGTCATCACCACCACG
1 GTCACGTCACCACCACCACG
66831026 GTCACGTCACCACCACCAC
1 GTCACGTCACCACCACCAC
66831045 TTGCGCCGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.49, G:0.13, T:0.13
Consensus pattern (20 bp):
GTCACGTCACCACCACCACG
Found at i:66831935 original size:3 final size:3
Alignment explanation
Indices: 66831918--66831995 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
66831908 TTAGCATTTT
* *
66831918 TTA TTA TTTA GTTA TTA TTA TTA TCA TTA TTA TCT- TTA CTA TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
66831965 TTA -TA TTTA TTA ATA CTA TTG TTA GTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
66831996 GTTTTCTTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 3 0.05
3 46 0.79
4 9 0.16
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:66832414 original size:15 final size:15
Alignment explanation
Indices: 66832396--66832444 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
66832386 CATACGTACC
66832396 TATATTTTATATTTT
1 TATATTTTATATTTT
**
66832411 TATATTTTATAATCCT
1 TATATTTTAT-ATTTT
66832427 TATA-TTTATATCTTT
1 TATATTTTATAT-TTT
66832442 TAT
1 TAT
66832445 TTATTTTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATTTTATATTTT
Found at i:66833248 original size:12 final size:13
Alignment explanation
Indices: 66833221--66833245 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66833211 ATTATTTGTA
66833221 AATTTTAAAAATT
1 AATTTTAAAAATT
66833234 AATTTTAAAAAT
1 AATTTTAAAAAT
66833246 AATGACTAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTAAAAATT
Found at i:66836666 original size:27 final size:26
Alignment explanation
Indices: 66836623--66836680 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
66836613 AGTTTTATAA
* * * *
66836623 ATTCTAGTTTTCTAATTGATTAACCC
1 ATTCTAGCTTTCCAATTAATCAACCC
66836649 ATTCTATGCTTTCCAATTAATCAACCC
1 ATTCTA-GCTTTCCAATTAATCAACCC
66836676 -TTCTA
1 ATTCTA
66836681 ACAAGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.43
Consensus pattern (26 bp):
ATTCTAGCTTTCCAATTAATCAACCC
Found at i:66837661 original size:17 final size:17
Alignment explanation
Indices: 66837641--66837676 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
66837631 TTAAAATATT
66837641 TTTTTTATAA-ATGTTTA
1 TTTTTTA-AATATGTTTA
66837658 TTTTTTAAATATGTTTA
1 TTTTTTAAATATGTTTA
66837675 TT
1 TT
66837677 ATATTATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTTAAATATGTTTA
Found at i:66839381 original size:32 final size:32
Alignment explanation
Indices: 66839340--66839404 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
66839330 GATAGGGAAC
66839340 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
1 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
66839372 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
1 AAGCATGACCCTCGAAACCTCTTCGCAACCAA
66839404 A
1 A
66839405 CCAACTGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.15
Consensus pattern (32 bp):
AAGCATGACCCTCGAAACCTCTTCGCAACCAA
Found at i:66841531 original size:20 final size:20
Alignment explanation
Indices: 66841506--66841555 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66841496 TGGCTTAAAA
66841506 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66841526 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66841543 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66841556 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66846170 original size:20 final size:20
Alignment explanation
Indices: 66846145--66846194 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66846135 TGGCTTAAAA
66846145 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66846165 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66846182 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66846195 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66846747 original size:41 final size:40
Alignment explanation
Indices: 66846696--66846803 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 40
66846686 ATATAAAAAT
*
66846696 TATAAAATATAAAAAATATATATAAG-TATGT-ATATGTA
1 TATAAAATATAAAATATATATATAAGATATGTAATATGTA
* *
66846734 TTCATGAAAATATAATATATATATATGTAGATATGTAGATATGTA
1 -T-AT-AAAATATAAAATATATATAT-AAGATATGTA-ATATGTA
66846779 TATAAAATATAAATATATATATATA
1 TATAAAATATAAA-ATATATATATA
66846804 TCTATATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
39 1 0.02
40 2 0.04
41 18 0.32
42 11 0.19
43 17 0.30
44 1 0.02
45 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (40 bp):
TATAAAATATAAAATATATATATAAGATATGTAATATGTA
Found at i:66846755 original size:2 final size:2
Alignment explanation
Indices: 66846743--66846815 Score: 60
Period size: 2 Copynumber: 37.5 Consensus size: 2
66846733 ATTCATGAAA
* * * * *
66846743 AT AT A- AT AT AT AT AT AT GT AG AT AT GT AG AT AT GT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
66846783 AA AT AT AA AT AT AT AT AT AT AT CT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66846816 CACGTGTACA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (2 bp):
AT
Found at i:66846788 original size:37 final size:39
Alignment explanation
Indices: 66846701--66846796 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 39
66846691 AAAATTATAA
* * *
66846701 AATATAAAAAATATATATAAGTATGTATATGTATTCATG
1 AATATAAAATATATATATATGTATGTATATGTAATCATG
* *
66846740 AAAATATAATATATATATATGTA-G-ATATGTAGAT-ATG
1 AATATAAAATATATATATATGTATGTATATGTA-ATCATG
* *
66846777 TATATAAAATATAAATATAT
1 AATATAAAATATATATATAT
66846797 ATATATATCT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 26 0.55
38 2 0.04
39 19 0.40
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (39 bp):
AATATAAAATATATATATATGTATGTATATGTAATCATG
Found at i:66847836 original size:5 final size:5
Alignment explanation
Indices: 66847826--66847854 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
66847816 CGAAGAGAAA
66847826 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
66847855 GATCTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:66849029 original size:51 final size:51
Alignment explanation
Indices: 66848966--66849184 Score: 204
Period size: 51 Copynumber: 4.3 Consensus size: 51
66848956 CAATTCGTTG
* ** *
66848966 CCTTCAGCTTTAATATGCTCCGCTGCAATGCCAGGGAAACAAGATTCACTA
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
* * * * * * **
66849017 CCTTTAGCTTTAATCTATTCCACTGTAATGCCAAGGAGATAGGATTCACCG
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
* * **
66849068 CCTTCAGCTTTAATCTATTCCACTACAATGCCCGGGAAACAAGATTTGCTA
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
* * * * * * * * **
66849119 CCTTTAGCTTTAATCTGTTCCATTGCAAAGCCAAGGAGATAGGATTCACCG
1 CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
66849170 CCTTCAGCTTTAATC
1 CCTTCAGCTTTAATC
66849185 CGCTATACTT
Statistics
Matches: 129, Mismatches: 39, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 129 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (51 bp):
CCTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCACTA
Found at i:66849120 original size:102 final size:102
Alignment explanation
Indices: 66848940--66849184 Score: 337
Period size: 102 Copynumber: 2.4 Consensus size: 102
66848930 CTTTAGTCTT
** *** * * * *
66848940 TAATGCCAAGGAGATACAATTCGTTGCCTTCAGCTTTAATATGCTCCGCTGCAATGCCAGGGAAA
1 TAATGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATCTACTCCACTACAATGCCAGGGAAA
66849005 CAAGATTCACTACCTTTAGCTTTAATCTATTCCACTG
66 CAAGATTCACTACCTTTAGCTTTAATCTATTCCACTG
* *
66849042 TAATGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATCTATTCCACTACAATGCCCGGGAAA
1 TAATGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATCTACTCCACTACAATGCCAGGGAAA
** * *
66849107 CAAGATTTGCTACCTTTAGCTTTAATCTGTTCCATTG
66 CAAGATTCACTACCTTTAGCTTTAATCTATTCCACTG
* *
66849144 CAAAGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATC
1 TAATGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATC
66849185 CGCTATACTT
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 126 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (102 bp):
TAATGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATCTACTCCACTACAATGCCAGGGAAA
CAAGATTCACTACCTTTAGCTTTAATCTATTCCACTG
Found at i:66849263 original size:51 final size:51
Alignment explanation
Indices: 66849196--66849296 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
66849186 GCTATACTTC
*
66849196 AGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTT
1 AGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTT
* *
66849247 AGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTACCTT
1 AGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTT
66849297 CAGTCTGCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (51 bp):
AGCTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTACCTTT
Found at i:66849297 original size:123 final size:123
Alignment explanation
Indices: 66849069--66849299 Score: 372
Period size: 123 Copynumber: 1.9 Consensus size: 123
66849059 GATTCACCGC
* *
66849069 CTTCAGCTTTAATCTATTCCACTACAATGCCCGGGAAACAAGATTTGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * *
66849134 TGTTCCATTGCAAAGCCAAGGAGATAGGATTCACCGCCTTCAGCTTTAATCCGCTATA
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCACCACCTTCAGCTTTAATCCGCTATA
*
66849192 CTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * *
66849257 TGTTCCACTGCAAAGCCAGGGAAATAAGATTCGCTACCTTCAG
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCACCACCTTCAG
66849300 TCTGCTCCAC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 98 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (123 bp):
CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
TGTTCCACTGCAAAGCCAAGGAAATAAGATTCACCACCTTCAGCTTTAATCCGCTATA
Found at i:66859935 original size:27 final size:27
Alignment explanation
Indices: 66859898--66859955 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
66859888 AGTTTTATAA
* * *
66859898 ATTCT-TGCTTTCTAATTGATTAACCC
1 ATTCTATGCTTTCCAATTAATCAACCC
66859924 ATTCTATGCTTTCCAATTAATCAACCC
1 ATTCTATGCTTTCCAATTAATCAACCC
66859951 -TTCTA
1 ATTCTA
66859956 ACAAGTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.43
Consensus pattern (27 bp):
ATTCTATGCTTTCCAATTAATCAACCC
Found at i:66866970 original size:24 final size:24
Alignment explanation
Indices: 66866938--66866987 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
66866928 ATTCCTAGTA
*
66866938 GTCTGTATGTACAGATATATGTGT
1 GTCTATATGTACAGATATATGTGT
* *
66866962 GTCTATATGTGCAGATATGTGTGT
1 GTCTATATGTACAGATATATGTGT
66866986 GT
1 GT
66866988 GTTTGCTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.28, T:0.42
Consensus pattern (24 bp):
GTCTATATGTACAGATATATGTGT
Found at i:66869582 original size:39 final size:39
Alignment explanation
Indices: 66869528--66869609 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
66869518 GTTTGATAAC
66869528 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
1 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
*
66869567 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATTAA
1 ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
66869606 ATTT
1 ATTT
66869610 TAGTAGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (39 bp):
ATTTCTAAATTGCAATTATTAAGCTTGACACATAATGAA
Found at i:66869883 original size:26 final size:26
Alignment explanation
Indices: 66869854--66869903 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
66869844 GTTCCTAGTA
*
66869854 GTCTGTATGTGCAGATATATGTGTGT
1 GTCTATATGTGCAGATATATGTGTGT
*
66869880 GTCTATATGTGCAGATATGTGTGT
1 GTCTATATGTGCAGATATATGTGT
66869904 TTGCTGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.42
Consensus pattern (26 bp):
GTCTATATGTGCAGATATATGTGTGT
Found at i:66875513 original size:21 final size:22
Alignment explanation
Indices: 66875465--66875513 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
66875455 TTTAATCCAA
**
66875465 TTCTATTTAGTTGAGTTTTCAC
1 TTCTATTTAGTTGAGTACTCAC
*
66875487 TT-TATTTAGTTGAG-ACTCAT
1 TTCTATTTAGTTGAGTACTCAC
66875507 TTCTATT
1 TTCTATT
66875514 GGTTTAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (22 bp):
TTCTATTTAGTTGAGTACTCAC
Found at i:66877757 original size:15 final size:16
Alignment explanation
Indices: 66877737--66877766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66877727 ATACAGATGA
66877737 TTTGA-TTAAAATATT
1 TTTGATTTAAAATATT
66877752 TTTGATTTAAAATAT
1 TTTGATTTAAAATAT
66877767 GTACTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTGATTTAAAATATT
Found at i:66884387 original size:12 final size:12
Alignment explanation
Indices: 66884370--66884394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66884360 CATCTCTAAG
66884370 TATAAAATTTAT
1 TATAAAATTTAT
66884382 TATAAAATTTAT
1 TATAAAATTTAT
66884394 T
1 T
66884395 TTCATCTAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAAAATTTAT
Found at i:66885608 original size:30 final size:30
Alignment explanation
Indices: 66885574--66885632 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
66885564 ACCTTCTGTT
* * *
66885574 TCAAAATTATATTTTGACCCCTAAATTTTC
1 TCAAAATTACACTTTGACCCCAAAATTTTC
*
66885604 TCAAAATTACACTTTGGCCCCAAAATTTT
1 TCAAAATTACACTTTGACCCCAAAATTTT
66885633 TGCTGCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (30 bp):
TCAAAATTACACTTTGACCCCAAAATTTTC
Found at i:66885971 original size:4 final size:4
Alignment explanation
Indices: 66885962--66886005 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
66885952 GAGAAGAGAA
*
66885962 AAAG AAAG AAAG AAAA AAAG -AAG AAAG AAAG AAAG -AAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
66886006 GAAGAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:66885978 original size:15 final size:15
Alignment explanation
Indices: 66885955--66886005 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
66885945 AACGAAGGAG
66885955 AAGAGAAAAAGAAAGA
1 AAGA-AAAAAGAAAGA
66885971 AAGAAAAAA-AGAAGA
1 AAGAAAAAAGA-AAGA
66885986 AAGAAAGAAAG-AAGA
1 AAGAAA-AAAGAAAGA
66886001 AAGAA
1 AAGAA
66886006 GAAGAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.03
15 24 0.75
16 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAGAAAGA
Found at i:66885985 original size:11 final size:12
Alignment explanation
Indices: 66885961--66886014 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
66885951 GGAGAAGAGA
66885961 AAAAGAAAGAAAG
1 AAAA-AAAGAAAG
66885974 AAAAAAAG-AAG
1 AAAAAAAGAAAG
*
66885985 AAAGAAAGAAAG
1 AAAAAAAGAAAG
66885997 AAGAAAGAAG-AAG
1 AA-AAA-AAGAAAG
66886010 AAAAA
1 AAAAA
66886015 TGAACAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 10 0.28
12 12 0.33
13 11 0.31
14 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:66886327 original size:16 final size:16
Alignment explanation
Indices: 66886284--66886338 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
66886274 TTAATACTCG
* *
66886284 TATTTTTATATTATTA
1 TATTTTTGTATTTTTA
*
66886300 GTACTTTATGTATTTTTA
1 -TA-TTTTTGTATTTTTA
66886318 TATTTTTGTA--TTTA
1 TATTTTTGTATTTTTA
66886332 TATTTTT
1 TATTTTT
66886339 AATTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 11 0.33
16 7 0.21
17 4 0.12
18 11 0.33
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (16 bp):
TATTTTTGTATTTTTA
Found at i:66886521 original size:20 final size:20
Alignment explanation
Indices: 66886498--66886539 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
66886488 AAAAATATTC
*
66886498 AAAAAATTTCGTGT-TTTCA
1 AAAAAAATTCGTGTGTTTCA
*
66886517 AAAAAAATTCTTGTGTTTCA
1 AAAAAAATTCGTGTGTTTCA
66886537 AAA
1 AAA
66886540 TTTTTATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAAATTCGTGTGTTTCA
Found at i:66886541 original size:16 final size:17
Alignment explanation
Indices: 66886520--66886558 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
66886510 GTTTTCAAAA
*
66886520 AAAATTCTTGTGT-TTC
1 AAAATTCTTATGTCTTC
*
66886536 AAAATTTTTATGTCTTC
1 AAAATTCTTATGTCTTC
66886553 AAAATT
1 AAAATT
66886559 TTTTTTCTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (17 bp):
AAAATTCTTATGTCTTC
Found at i:66886553 original size:17 final size:16
Alignment explanation
Indices: 66886520--66886561 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
66886510 GTTTTCAAAA
* *
66886520 AAAATTCTTGTGTTTC
1 AAAATTTTTATGTTTC
66886536 AAAATTTTTATGTCTTC
1 AAAATTTTTATGT-TTC
66886553 AAAATTTTT
1 AAAATTTTT
66886562 TTTCTCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (16 bp):
AAAATTTTTATGTTTC
Found at i:66886773 original size:17 final size:17
Alignment explanation
Indices: 66886739--66887042 Score: 238
Period size: 18 Copynumber: 17.2 Consensus size: 17
66886729 CTCAACATGT
*
66886739 TTTCAAAAA-TTCCGGTG
1 TTTCAAAAATTTTC-GTG
*
66886756 TTTCAAAAATTTACGTG
1 TTTCAAAAATTTTCGTG
* *
66886773 TTTTC-AAAATTCTAGTG
1 -TTTCAAAAATTTTCGTG
*
66886790 ATTCAAAAAGTTTTCGTG
1 TTTCAAAAA-TTTTCGTG
*
66886808 TTTTCTAAAAATTTTTGTG
1 -TTTC-AAAAATTTTCGTG
*
66886827 TTTCAAAAATTTTCGCG
1 TTTCAAAAATTTTCGTG
* * *
66886844 TTTTCAAATATTTTCATAT
1 -TTTCAAAAATTTTCGT-G
66886863 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
66886880 TTTTCAACAATTCTCGTG
1 -TTTCAAAAATTTTCGTG
66886898 TTTCAAAAA-TTTCAGTG
1 TTTCAAAAATTTTC-GTG
* *
66886915 TTTTAAAAAATTTTGCACT-
1 -TTTCAAAAATTTT-C-GTG
** *
66886934 TTAAAAAAAATTTCTTGTG
1 TT-TCAAAAATTT-TCGTG
*
66886953 TTTCAAAAATTGTCGTG
1 TTTCAAAAATTTTCGTG
*
66886970 TTTCAAAAATCTTCGTG
1 TTTCAAAAATTTTCGTG
*
66886987 TTTCCAAAAATTTTCGGG
1 TTT-CAAAAATTTTCGTG
*
66887005 TTTTCAAAAATTCTCGTG
1 -TTTCAAAAATTTTCGTG
*
66887023 ATTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
66887040 TTT
1 TTT
66887043 TTTTAAAAAA
Statistics
Matches: 229, Mismatches: 40, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
16 6 0.03
17 86 0.38
18 101 0.44
19 27 0.12
20 9 0.04
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Done.