Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 41 of 316
Found at i:11846707 original size:31 final size:31
Alignment explanation
Indices: 11846669--11846748 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 31
11846659 TTTTTTAGCC
11846669 TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
1 TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
*
11846700 TTTAGCGGCTCTTCTAAGCGCCCCTAAAACT
1 TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
*
11846731 TTTAGCGGTGCTTTCTAA
1 TTTAGCGGCGC-TTCTAA
11846749 AACGCCCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.87
32 6 0.13
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (31 bp):
TTTAGCGGCGCTTCTAAGCGCCCCTAAAACT
Found at i:11846921 original size:87 final size:86
Alignment explanation
Indices: 11846817--11847056 Score: 374
Period size: 87 Copynumber: 2.8 Consensus size: 86
11846807 AAAAACGCCA
* *
11846817 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
*
11846882 GCGTTTGTGGTAAAAAGGGCCG
66 GCGTTTGTGG-AAAAAGAGCCG
* * *
11846904 CTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAGCTAAAAGTCACGGCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
*
11846969 GCGTTTGTGGGAAAAGAGCCG
66 GCGTTTGTGGAAAAAGAGCCG
* * *
11846990 CTAAAAGTCATGGC-TTTAGCGGCATTTTTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGCG
1 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
11847054 GCG
66 GCG
11847057 CTTTTTCTAC
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
85 48 0.34
86 22 0.16
87 70 0.50
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (86 bp):
CTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCG
GCGTTTGTGGAAAAAGAGCCG
Found at i:11846968 original size:130 final size:128
Alignment explanation
Indices: 11846817--11847056 Score: 381
Period size: 130 Copynumber: 1.9 Consensus size: 128
11846807 AAAAACGCCA
*
11846817 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGCTTTTAGCG
1 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGC-TTTAGCG
* * * *
11846882 GCGTTTGTGGTAAAAAGGGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAG
65 GCATTTGTGG-AAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAG
*
11846947 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
1 CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
* * *
11847012 CATTTTTGGGAAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
66 CATTTGTGGAAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCG
11847057 CTTTTTCTAC
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 31 0.31
129 15 0.15
130 55 0.54
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (128 bp):
CTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAAGTCATGGCTTTAGCGG
CATTTGTGGAAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCACAG
Found at i:11847075 original size:43 final size:43
Alignment explanation
Indices: 11846807--11847056 Score: 358
Period size: 43 Copynumber: 5.8 Consensus size: 43
11846797 ATTTATTGAA
* * *
11846807 AAAAACGCCACTAAAAGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
*
11846850 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGTA
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGG-G
* *
11846894 AAAAGGGCCGCTAAAGGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
11846937 AAAAGCACAGCTAAAAGTCACGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* * *
11846980 AAAAGAGCCGCTAAAAGTCATGGC-TTTAGCGGCATTTTTGGG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
* *
11847022 AAAAGCGCCGCTAAAAGTCACGTCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCG
11847057 CTTTTTCTAC
Statistics
Matches: 183, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 37 0.20
43 106 0.58
44 40 0.22
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:11847207 original size:32 final size:31
Alignment explanation
Indices: 11847130--11847209 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
11847120 CTTCCTGCAT
* * *
11847130 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * * *
11847161 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
11847192 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
11847210 ATTAATTCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:11847965 original size:46 final size:46
Alignment explanation
Indices: 11847912--11848006 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
11847902 TGATGAATTG
11847912 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
1 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
* *
11847958 AATTAAACAATTATCATTAAAGATTATAAATATTTAGAATAGATCA
1 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
11848004 AAT
1 AAT
11848007 ATTATTAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (46 bp):
AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
Found at i:11853153 original size:9 final size:9
Alignment explanation
Indices: 11853141--11853199 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
11853131 TCCGTAAGTT
*
11853141 GTTATGTAC
1 GTTATGTAA
*
11853150 GTTATGTGA
1 GTTATGTAA
11853159 GTTATGTAA
1 GTTATGTAA
*
11853168 ATTATGTAA
1 GTTATGTAA
*
11853177 GTTATGTGA
1 GTTATGTAA
11853186 GTTATGTAA
1 GTTATGTAA
11853195 GTTAT
1 GTTAT
11853200 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:11853173 original size:27 final size:27
Alignment explanation
Indices: 11853142--11853199 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
11853132 CCGTAAGTTG
*
11853142 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
11853169 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
11853196 TTAT
1 TTAT
11853200 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:11853621 original size:240 final size:240
Alignment explanation
Indices: 11853198--11853869 Score: 1299
Period size: 240 Copynumber: 2.8 Consensus size: 240
11853188 TATGTAAGTT
11853198 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
11853263 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
11853328 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
11853393 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
11853438 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
11853503 CGATATAAGGCAACCCGCCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
11853568 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
*
11853633 TCTATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
*
11853678 ATTTTTTAAGATTCATCATACGTGGCGTTGTTGCACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
11853743 CGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
*
11853808 GTTGGAGAGAGGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
11853870 ATTAATTCAT
Statistics
Matches: 426, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
240 426 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (240 bp):
ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAG
GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
Found at i:11853936 original size:33 final size:33
Alignment explanation
Indices: 11853894--11853960 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
11853884 ATTCATACTT
*
11853894 AAGAACATACGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
*
11853927 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
11853960 A
1 A
11853961 TCCAAAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAGTAGCAAAGAG
Found at i:11857237 original size:40 final size:40
Alignment explanation
Indices: 11857115--11857224 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 40
11857105 TAAATTACTT
* *
11857115 TTTTGCGGCATTTTTATCATAAATGCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
*
11857155 TTTTGCGGCGTTTTTAT-ATAAACTCCGCTATTGCTTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
11857194 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
11857225 ATGTTTGACT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
39 37 0.57
40 28 0.43
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
Found at i:11857263 original size:22 final size:20
Alignment explanation
Indices: 11857236--11857292 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
11857226 TGTTTGACTT
11857236 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
11857257 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
11857278 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
11857293 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:11857675 original size:14 final size:14
Alignment explanation
Indices: 11857652--11857702 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11857642 ATAACCCTTA
*
11857652 AACCCATAACCCAT
1 AACCCCTAACCCAT
11857666 AACCCCTAACCCAT
1 AACCCCTAACCCAT
* *
11857680 ACCCCCTAACCCCT
1 AACCCCTAACCCAT
*
11857694 AACACCTAA
1 AACCCCTAA
11857703 ACCTTAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCCTAACCCAT
Found at i:11857678 original size:21 final size:21
Alignment explanation
Indices: 11857641--11857696 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
11857631 AATCATACAA
*
11857641 CATAACCCTTAAACCCATAACC
1 CATAACCCCT-AACCCATAACC
*
11857663 CATAACCCCTAACCCATACCC
1 CATAACCCCTAACCCATAACC
*
11857684 CCTAACCCCTAAC
1 CATAACCCCTAAC
11857697 ACCTAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (21 bp):
CATAACCCCTAACCCATAACC
Found at i:11857714 original size:21 final size:21
Alignment explanation
Indices: 11857652--11857732 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 21
11857642 ATAACCCTTA
* * *
11857652 AACCCATAACCCATAACCCCT
1 AACCCTTAAACCATAAACCCT
* ** * *
11857673 AACCCATACCCCCTAACCCCT
1 AACCCTTAAACCATAAACCCT
* * *
11857694 AACACCTAAACCTTAAACCCT
1 AACCCTTAAACCATAAACCCT
*
11857715 AGCCCTTAAACCATAAAC
1 AACCCTTAAACCATAAAC
11857733 TATAAACCAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.38, C:0.44, G:0.01, T:0.16
Consensus pattern (21 bp):
AACCCTTAAACCATAAACCCT
Found at i:11857715 original size:14 final size:14
Alignment explanation
Indices: 11857700--11857781 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
11857690 CCCTAACACC
*
11857700 TAAACCTTAAACCC
1 TAAACCTTAAACCA
**
11857714 TAGCCCTTAAACCA
1 TAAACCTTAAACCA
11857728 TAAA-CTATAAACCA
1 TAAACCT-TAAACCA
* *
11857742 TAATCCATAAACCTA
1 TAAACCTTAAACC-A
* * *
11857757 TAATCCATAATCCA
1 TAAACCTTAAACCA
*
11857771 TGAACCTTAAA
1 TAAACCTTAAA
11857782 ATAGTAACTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
13 2 0.04
14 37 0.70
15 14 0.26
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:11857731 original size:7 final size:7
Alignment explanation
Indices: 11857721--11857781 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
11857711 CCCTAGCCCT
11857721 TAAACCA
1 TAAACCA
*
11857728 TAAACTA
1 TAAACCA
11857735 TAAACCA
1 TAAACCA
*
11857742 TAATCCA
1 TAAACCA
11857749 TAAACCTA
1 TAAACC-A
*
11857757 TAATCCA
1 TAAACCA
*
11857764 TAATCCA
1 TAAACCA
* *
11857771 TGAACCT
1 TAAACCA
11857778 TAAA
1 TAAA
11857782 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:11857761 original size:15 final size:14
Alignment explanation
Indices: 11857721--11857771 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
11857711 CCCTAGCCCT
* *
11857721 TAAACCATAAACTA
1 TAAACCATAATCCA
11857735 TAAACCATAATCCA
1 TAAACCATAATCCA
11857749 TAAACCTATAATCCA
1 TAAACC-ATAATCCA
*
11857764 TAATCCAT
1 TAAACCAT
11857772 GAACCTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:11857764 original size:22 final size:22
Alignment explanation
Indices: 11857725--11857781 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
11857715 AGCCCTTAAA
11857725 CCATAAA-CTATAAACCATAAT
1 CCATAAACCTATAAACCATAAT
*
11857746 CCATAAACCTATAATCCATAAT
1 CCATAAACCTATAAACCATAAT
*
11857768 CCATGAACCT-TAAA
1 CCATAAACCTATAAA
11857782 ATAGTAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (22 bp):
CCATAAACCTATAAACCATAAT
Found at i:11858091 original size:24 final size:24
Alignment explanation
Indices: 11858063--11858112 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
11858053 ACCAAAATAA
* *
11858063 AAATTAATTTTTATATAGAGTTTT
1 AAATTAATTTTTATATAAACTTTT
11858087 AAATTAATTTTTATATAAACTTTT
1 AAATTAATTTTTATATAAACTTTT
11858111 AA
1 AA
11858113 TAAATATACG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTAATTTTTATATAAACTTTT
Found at i:11858762 original size:80 final size:80
Alignment explanation
Indices: 11858673--11858826 Score: 308
Period size: 80 Copynumber: 1.9 Consensus size: 80
11858663 TAGGGGTTAT
11858673 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
1 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
11858738 ACCAAAAGCAAAAAA
66 ACCAAAAGCAAAAAA
11858753 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
1 AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
11858818 ACCAAAAGC
66 ACCAAAAGC
11858827 GCCGCTATTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (80 bp):
AAAGTAGTGCTTATGATTTTTTGGGTTTAAGATTTTAAGAGTTATATGATTTTTAGCGGCGTTTT
ACCAAAAGCAAAAAA
Found at i:11858870 original size:40 final size:42
Alignment explanation
Indices: 11858797--11858887 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 42
11858787 TTAAGAGTTA
11858797 TATGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCT-
1 TATG-TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
***
11858839 TA-GTTTTTAGCGGCGTTTTTGGTAAAA-CGCCGCTATTGCTC
1 TATGTTTTTAGCGGCG-TTTTACCAAAAGCGCCGCTATTGCTC
11858880 TATGTTTT
1 TATGTTTT
11858888 ACAATTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 25 0.58
41 11 0.26
42 7 0.16
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (42 bp):
TATGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
Found at i:11864306 original size:21 final size:21
Alignment explanation
Indices: 11864277--11864327 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11864267 GTAACTATAT
*
11864277 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
11864298 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTATTTTGTTA
11864319 TAGTCAGTT
1 TAGTCAGTT
11864328 GCTAATCTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
TAGTCAGTTAGTATTTTGTTA
Found at i:11864338 original size:21 final size:21
Alignment explanation
Indices: 11864277--11864341 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
11864267 GTAACTATAT
* * *
11864277 TAGTTAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
* *
11864298 TAGTCAGTTAGTATTTTGTTA
1 TAGTCAGTTAGTAATCTGTTA
11864319 TAGTCAGTT-GCTAATCTGTTA
1 TAGTCAGTTAG-TAATCTGTTA
11864340 TA
1 TA
11864342 AAGCATACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (21 bp):
TAGTCAGTTAGTAATCTGTTA
Found at i:11868851 original size:13 final size:13
Alignment explanation
Indices: 11868833--11868859 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11868823 ACAAATCACA
11868833 AGAATTAATGCAC
1 AGAATTAATGCAC
11868846 AGAATTAATGCAC
1 AGAATTAATGCAC
11868859 A
1 A
11868860 AGCTAACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGAATTAATGCAC
Found at i:11870688 original size:17 final size:18
Alignment explanation
Indices: 11870668--11870701 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11870658 GTTTGAGTTT
11870668 TATTTACTTT-TTTTTAA
1 TATTTACTTTATTTTTAA
*
11870685 TATTTGCTTTATTTTTA
1 TATTTACTTTATTTTTA
11870702 TTTTTTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTACTTTATTTTTAA
Found at i:11875412 original size:8 final size:8
Alignment explanation
Indices: 11875388--11875417 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
11875378 TCCTGTTCTT
11875388 TTTCTTTA
1 TTTCTTTA
11875396 TTT-TTTA
1 TTTCTTTA
11875403 TTTCTTTA
1 TTTCTTTA
11875411 TTTCTTT
1 TTTCTTT
11875418 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTCTTTA
Found at i:11882780 original size:16 final size:16
Alignment explanation
Indices: 11882727--11882792 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 16
11882717 ATCTCTTTTA
11882727 TATTTTATTATATACTT
1 TATTTTATTAT-TACTT
11882744 TATTTTATTATTACTTCACTT
1 TA--TT-TTATTA-TT-ACTT
11882765 TATTTTATTATTACTT
1 TATTTTATTATTACTT
*
11882781 TATATTA-TATTA
1 TATTTTATTATTA
11882793 ATTTCTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 5 0.12
16 10 0.23
17 4 0.09
18 6 0.14
19 4 0.09
20 7 0.16
21 7 0.16
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTATTATTACTT
Found at i:11882788 original size:21 final size:21
Alignment explanation
Indices: 11882740--11882780 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
11882730 TTTATTATAT
11882740 ACTTTATTTTATTATTACTTC
1 ACTTTATTTTATTATTACTTC
11882761 ACTTTATTTTATTATTACTT
1 ACTTTATTTTATTATTACTT
11882781 TATATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
ACTTTATTTTATTATTACTTC
Found at i:11887968 original size:21 final size:21
Alignment explanation
Indices: 11887942--11887982 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11887932 ATCTGCTCAA
* *
11887942 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11887963 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11887983 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11891764 original size:21 final size:22
Alignment explanation
Indices: 11891720--11891773 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11891710 TCACAAAAAT
*
11891720 AATTTGAAAATGACCCCATAAA
1 AATTTGAAAAGGACCCCATAAA
*
11891742 AATTTGAAAAGGA-TCCATCAAA
1 AATTTGAAAAGGACCCCAT-AAA
*
11891764 ATTTTGAAAA
1 AATTTGAAAA
11891774 AAAGAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (22 bp):
AATTTGAAAAGGACCCCATAAA
Found at i:11892067 original size:17 final size:19
Alignment explanation
Indices: 11892036--11892070 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11892026 AAGACTTAGT
11892036 TTTTTTTATTGAATGATTC
1 TTTTTTTATTGAATGATTC
11892055 TTTTTTT-TT-AATGATT
1 TTTTTTTATTGAATGATT
11892071 TTGAGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTTTTTATTGAATGATTC
Found at i:11893401 original size:14 final size:14
Alignment explanation
Indices: 11893382--11893420 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
11893372 CTGAAATGAC
11893382 ATGTTCCAAAAATT
1 ATGTTCCAAAAATT
11893396 ATGTTCCAAAAATT
1 ATGTTCCAAAAATT
*
11893410 ATGTACCAAAA
1 ATGTTCCAAAA
11893421 TGGTACATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (14 bp):
ATGTTCCAAAAATT
Found at i:11893833 original size:27 final size:27
Alignment explanation
Indices: 11893769--11893853 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
11893759 GGGGGAAAAA
*
11893769 ACCACTGGTGCCACCTATCAGATAGGC
1 ACCACTGGTGCCGCCTATCAGATAGGC
** * *
11893796 ACCACCAGTGCTGCCTATCAGATAGGG
1 ACCACTGGTGCCGCCTATCAGATAGGC
** *
11893823 GTCACTGGTGCCGCCTAT-GGTATAGGC
1 ACCACTGGTGCCGCCTATCAG-ATAGGC
11893850 ACCA
1 ACCA
11893854 TACCCCTATA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.20
Consensus pattern (27 bp):
ACCACTGGTGCCGCCTATCAGATAGGC
Found at i:11897150 original size:16 final size:16
Alignment explanation
Indices: 11897117--11897150 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11897107 TGTATGTGTT
* *
11897117 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11897133 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11897149 AA
1 AA
11897151 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11900996 original size:40 final size:40
Alignment explanation
Indices: 11900924--11901098 Score: 244
Period size: 40 Copynumber: 4.4 Consensus size: 40
11900914 CGGATGTAAC
* *
11900924 AACCAGCACGAATGCCTTC-GAGACTTAACCCGGTAATAAT
1 AACCCGCACGAATGCCTTCGGA-ACTTAACCCGGTTATAAT
* * * *
11900964 AACTCGCATGAATGCCTTCGGAATTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
* *
11901004 AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
* *
11901044 AACCCGCACGAATGCCTTCGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
11901084 AACCCGCACGAATGC
1 AACCCGCACGAATGC
11901099 TGTGCACATA
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 120 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGAACTTAACCCGGTTATAAT
Found at i:11901036 original size:80 final size:80
Alignment explanation
Indices: 11900900--11901098 Score: 272
Period size: 80 Copynumber: 2.5 Consensus size: 80
11900890 CTTAAATACT
* * * * *
11900900 TTCGGAATTTGGCTCGGATGTAACAACCAGCACGAATGCCTTCGAGACTTAACCCGGTAATAATA
1 TTCGGAATTTAGCTCGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACCCGGTAATAATA
* *
11900965 ACTCGCATGAATGCC
66 ACCCGCACGAATGCC
* * * *
11900980 TTCGGAATTTAGCCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAATA
1 TTCGGAATTTAGCTCGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACCCGGTAATAATA
11901045 ACCCGCACGAATGCC
66 ACCCGCACGAATGCC
* * *
11901060 TTCGGGACTTAACTCGGTTATAATAACCCGCACGAATGC
1 TTCGGAATTTAGCTCGGTTATAATAACCCGCACGAATGC
11901099 TGTGCACATA
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 104 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
TTCGGAATTTAGCTCGGTTATAATAACCCGCACGAATGCCTTCGAGACTTAACCCGGTAATAATA
ACCCGCACGAATGCC
Found at i:11903508 original size:21 final size:21
Alignment explanation
Indices: 11903482--11903522 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11903472 AGACGAGCGA
* *
11903482 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11903503 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11903523 TTGAGCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11905464 original size:16 final size:16
Alignment explanation
Indices: 11905431--11905464 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11905421 GGAGATTGTT
* *
11905431 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11905447 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11905463 AA
1 AA
11905465 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11919569 original size:18 final size:18
Alignment explanation
Indices: 11919526--11919575 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
11919516 TCATATTGAT
*
11919526 TTAAAATATT-ATATATA
1 TTAAAATATTAATATTTA
*
11919543 -T-ATATATTAATATTTA
1 TTAAAATATTAATATTTA
*
11919559 TTAAAATATTAAAATTT
1 TTAAAATATTAATATTT
11919576 TTTGTACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 1 0.04
18 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAATATTAATATTTA
Found at i:11922934 original size:42 final size:42
Alignment explanation
Indices: 11922874--11922983 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
11922864 CGTTTTCTCA
** * * *
11922874 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTATTACACATATTCACAT-ATCG
*
11922916 ATGCCATAGCCCAGCTATGGTATTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTATTACACATATTCACATATCG
*
11922958 ATGCCATAGCCCAGCTATGGTTTTAC
1 ATGCCATAGCCCAGCTATGGTATTAC
11922984 GCGAATCACA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTATTACACATATTCACATATCG
Found at i:11923140 original size:31 final size:32
Alignment explanation
Indices: 11923097--11923214 Score: 163
Period size: 31 Copynumber: 3.8 Consensus size: 32
11923087 CTTGTCACTT
*
11923097 GTAGCC-GAAGCTACCACTATTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
* *
11923128 GTAGCCAG-AGCTACCATTTTTCACTAATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
*
11923159 GTAGCC-GGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
*
11923190 GTAG-CAGAAGCTACTACTTTTCACT
1 GTAGCCAGAAGCTACCACTTTTCACT
11923215 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
30 2 0.03
31 74 0.96
32 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (32 bp):
GTAGCCAGAAGCTACCACTTTTCACTGATCAG
Found at i:11923194 original size:62 final size:62
Alignment explanation
Indices: 11923097--11923214 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 62
11923087 CTTGTCACTT
*
11923097 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCCAG-AGCTACCATTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAG-CAGAAGCTACCACTTTTCACTAATCAG
* * *
11923159 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCAGAAGCTACTACTTTTCACT
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACT
11923215 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
61 3 0.06
62 48 0.94
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAGGTAGCAGAAGCTACCACTTTTCACTAATCAG
Found at i:11923294 original size:50 final size:49
Alignment explanation
Indices: 11923190--11923366 Score: 228
Period size: 50 Copynumber: 3.5 Consensus size: 49
11923180 CACTGATCAG
* * * * *
11923190 GTAGCAGAAGCTACTACTTTTCACTTGTCATTTGTCCCTGATCAGATAGGT
1 GTAGCCGAAGCTTC-ACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
11923241 GTAGCCGAAGCTGTCACTTATCACTTTCACTTGTCATTGATCAGATAACT
1 GTAGCCGAAGCT-TCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
11923291 GTAGCCGAAGCTACTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTTC-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
11923341 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCT-TCACTTATCACTT
11923367 GTTGCCATGG
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 86 0.78
51 22 0.20
52 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (49 bp):
GTAGCCGAAGCTTCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:11925714 original size:13 final size:12
Alignment explanation
Indices: 11925688--11925738 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 12
11925678 ATAGAAGATA
11925688 TTATTTTATTTTAT
1 TTATTTTA--TTAT
11925702 TTAGTTTTATTAT
1 TTA-TTTTATTAT
11925715 TTA-TTT-TTAT
1 TTATTTTATTAT
11925725 TTATTTTATTAT
1 TTATTTTATTAT
11925737 TT
1 TT
11925739 TAGGATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.21
11 6 0.18
12 6 0.18
13 7 0.21
14 3 0.09
15 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:11925715 original size:23 final size:23
Alignment explanation
Indices: 11925686--11925740 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
11925676 AAATAGAAGA
11925686 TATTATTTTA-TTTTATTTAGTTT
1 TATTATTTTATTTTTATTTA-TTT
11925709 TATTA-TTTATTTTTATTTATTT
1 TATTATTTTATTTTTATTTATTT
11925731 TATTATTTTA
1 TATTATTTTA
11925741 GGATTAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (23 bp):
TATTATTTTATTTTTATTTATTT
Found at i:11927099 original size:17 final size:17
Alignment explanation
Indices: 11927074--11927107 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11927064 GTACTTGTGT
11927074 AAAACATTAAAATAATA
1 AAAACATTAAAATAATA
*
11927091 AAAATATTAAAATAATA
1 AAAACATTAAAATAATA
11927108 CTTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACATTAAAATAATA
Found at i:11938604 original size:5 final size:5
Alignment explanation
Indices: 11938590--11938624 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
11938580 TTAGTTTGCC
*
11938590 TTATT CTATT TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
11938625 CTTCTATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:11939685 original size:18 final size:19
Alignment explanation
Indices: 11939662--11939697 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11939652 ATAGACTCGT
*
11939662 AATTAAAA-AATTGAAAAA
1 AATTAAAAGAATTCAAAAA
11939680 AATTAAAAGAATTCAAAA
1 AATTAAAAGAATTCAAAA
11939698 TAATAGACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (19 bp):
AATTAAAAGAATTCAAAAA
Found at i:11939711 original size:48 final size:47
Alignment explanation
Indices: 11939638--11939732 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
11939628 AAAGCATTCT
*
11939638 AAGAATTCAAAATAATAGACTCGTAATTAAAAAATTGAAAAAAATTAA
1 AAGAATTCAAAATAATAGACCCGTAATT-AAAAATTGAAAAAAATTAA
11939686 AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
1 AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
11939733 CTTCGGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 19 0.41
48 27 0.59
ACGTcount: A:0.60, C:0.07, G:0.08, T:0.24
Consensus pattern (47 bp):
AAGAATTCAAAATAATAGACCCGTAATTAAAAATTGAAAAAAATTAA
Found at i:11940235 original size:18 final size:18
Alignment explanation
Indices: 11940204--11940238 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11940194 TTTAAAAAAT
11940204 AAAATTAAAGTATTTTAA
1 AAAATTAAAGTATTTTAA
11940222 AAAATATAAA-TATTTTA
1 AAAAT-TAAAGTATTTTA
11940239 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATTAAAGTATTTTAA
Found at i:11944443 original size:21 final size:21
Alignment explanation
Indices: 11944417--11944457 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11944407 ATCTGCTCAA
* *
11944417 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11944438 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11944458 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11947941 original size:19 final size:19
Alignment explanation
Indices: 11947901--11947947 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
11947891 CAATCATAAA
* *
11947901 AATTGATTTAAACTTGTGT
1 AATTTATTTAAAATTGTGT
11947920 AATTTATTTAAAATT-TGAT
1 AATTTATTTAAAATTGTG-T
*
11947939 AATGTATTT
1 AATTTATTT
11947948 TTTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTTATTTAAAATTGTGT
Found at i:11952126 original size:10 final size:10
Alignment explanation
Indices: 11952094--11952152 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
11952084 TTAAATTCTA
11952094 AAAGATAAAT
1 AAAGATAAAT
*
11952104 ACAA-TTAAAT
1 A-AAGATAAAT
*
11952114 AAAGATAATT
1 AAAGATAAAT
11952124 AAAGATAAAT
1 AAAGATAAAT
11952134 -AAGAATAAAT
1 AAAG-ATAAAT
11952144 AAAGATAAA
1 AAAGATAAA
11952153 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 5 0.12
10 31 0.76
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:11952128 original size:30 final size:30
Alignment explanation
Indices: 11952094--11952151 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11952084 TTAAATTCTA
*
11952094 AAAGATAAATACA-ATTAAATAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
11952124 AAAGATAAATAAGAATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
11952152 AAGCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:11964142 original size:46 final size:46
Alignment explanation
Indices: 11963913--11964175 Score: 336
Period size: 46 Copynumber: 5.7 Consensus size: 46
11963903 GTGTGCTCTC
** * *
11963913 TGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGACAAC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
11963958 TAGATATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAACC
1 T-GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
11964005 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
11964051 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11964097 TGACA-GAAAATGAATAAGACCATCGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11964143 TGACA-GAAAAT-AAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAA-TAAGACCATGGTTGAAAGA
11964176 CACTGTGGCA
Statistics
Matches: 203, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
45 4 0.02
46 198 0.98
47 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:11964492 original size:16 final size:17
Alignment explanation
Indices: 11964471--11964502 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11964461 ATGATGGTGC
11964471 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
11964487 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
11964503 GTACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:11967967 original size:14 final size:14
Alignment explanation
Indices: 11967948--11967976 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11967938 TTAATGTCAA
11967948 AAAATTTGGTTTCG
1 AAAATTTGGTTTCG
11967962 AAAATTTGGTTTCG
1 AAAATTTGGTTTCG
11967976 A
1 A
11967977 GGAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (14 bp):
AAAATTTGGTTTCG
Found at i:11969607 original size:26 final size:26
Alignment explanation
Indices: 11969577--11969642 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
11969567 TTTAAACCAA
* *
11969577 ATTTTTTAAAAGCACTTCTTAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGT
* *
11969603 ATTTTTCCACAGCACTTCTCAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGT
*
11969629 ACTTTTCAAAAGCA
1 ATTTTTCAAAAGCA
11969643 TTGCCAAACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (26 bp):
ATTTTTCAAAAGCACTTCTCAAAAGT
Found at i:11980215 original size:11 final size:12
Alignment explanation
Indices: 11980194--11980231 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
11980184 TTTGAAACAT
11980194 TATATAAAATAA
1 TATATAAAATAA
11980206 TATA-AAAATAA
1 TATATAAAATAA
*
11980217 TATTTAATAATAA
1 TATATAA-AATAA
11980230 TA
1 TA
11980232 AAAGTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 6 0.26
13 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TATATAAAATAA
Found at i:11982587 original size:55 final size:55
Alignment explanation
Indices: 11982521--11982631 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
11982511 ATTTTTAAGA
11982521 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
1 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
11982576 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
1 ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
11982631 A
1 A
11982632 CTTTAAAATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (55 bp):
ATTAAGATTAAATTGATAGAATGTATAAAAGTTAAATGTTAGATTTATTGAACTT
Found at i:11985312 original size:60 final size:60
Alignment explanation
Indices: 11985233--11985357 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
11985223 TTTTCTTTTA
* * * * *
11985233 AATTTTTAGAATTAGAACTAAATTAACATATTTTGTAAATGTTGAA-ACTTAAATTTATTG
1 AATTTATAGAATTAGAACTAAAATAACAAATTTTGTAAATATTAAAGAC-TAAATTTATTG
* *
11985293 AATTTATAGAATTCA-AACTAAAATAATAAATTTTGTAAATATTAAAGACTAAATTTGTTG
1 AATTTATAGAATT-AGAACTAAAATAACAAATTTTGTAAATATTAAAGACTAAATTTATTG
11985353 AATTT
1 AATTT
11985358 TTTTATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 53 0.95
61 3 0.05
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (60 bp):
AATTTATAGAATTAGAACTAAAATAACAAATTTTGTAAATATTAAAGACTAAATTTATTG
Found at i:11986079 original size:14 final size:15
Alignment explanation
Indices: 11986060--11986089 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11986050 GACCCATAAA
11986060 CCTTGAA-CCCAAAC
1 CCTTGAAGCCCAAAC
11986074 CCTTGAAGCCCAAAC
1 CCTTGAAGCCCAAAC
11986089 C
1 C
11986090 TGAACCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.43, G:0.10, T:0.13
Consensus pattern (15 bp):
CCTTGAAGCCCAAAC
Found at i:11986093 original size:13 final size:13
Alignment explanation
Indices: 11986057--11986095 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
11986047 TCCGACCCAT
11986057 AAACCTTGAACCC
1 AAACCTTGAACCC
11986070 AAACCCTTGAAGCCC
1 AAA-CCTTGAA-CCC
11986085 AAACC-TGAACC
1 AAACCTTGAACC
11986096 TTGAACCCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 7 0.29
14 9 0.38
15 6 0.25
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (13 bp):
AAACCTTGAACCC
Found at i:11986109 original size:20 final size:20
Alignment explanation
Indices: 11986064--11986143 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
11986054 CATAAACCTT
* *
11986064 GAACCCAAACCCTTGAAGCCC
1 GAACCTAAA-CCTTGAACCCC
* *
11986085 AAACCTGAACCTTGAACCCC
1 GAACCTAAACCTTGAACCCC
* * * *
11986105 GAACCCTCAACCTTAAATCTC
1 GAA-CCTAAACCTTGAACCCC
*
11986126 GAACCCAAACCTTGAACC
1 GAACCTAAACCTTGAACC
11986144 ACAAGTTCGG
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
20 23 0.51
21 22 0.49
ACGTcount: A:0.35, C:0.40, G:0.10, T:0.15
Consensus pattern (20 bp):
GAACCTAAACCTTGAACCCC
Found at i:11987509 original size:25 final size:23
Alignment explanation
Indices: 11987464--11987513 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
11987454 CAAGAAGACA
11987464 AAAAACAATAGCAAACAACAAAG
1 AAAAACAATAGCAAACAACAAAG
11987487 AAAAACAATGAAG-AAACAGACAAAG
1 AAAAACAAT--AGCAAACA-ACAAAG
11987512 AA
1 AA
11987514 TAGAAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 9 0.38
24 5 0.21
25 10 0.42
ACGTcount: A:0.70, C:0.14, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAACAATAGCAAACAACAAAG
Found at i:11988472 original size:25 final size:25
Alignment explanation
Indices: 11988426--11988528 Score: 89
Period size: 25 Copynumber: 4.0 Consensus size: 25
11988416 ACGTCTTATG
* **
11988426 TATTTTAAATTATTATAAATTTTAAA
1 TATTTTACA-TATTATTTATTTTAAA
*
11988452 TATTTTACATATTATTTATTTTAAC
1 TATTTTACATATTATTTATTTTAAA
* * * *
11988477 TACTATACATATCACTTATTTTGAAA
1 TATTTTACATATTATTTATTTT-AAA
**
11988503 TATTTTTACACGTTATTTATTTTAAA
1 TA-TTTTACATATTATTTATTTTAAA
11988529 CCATTATATA
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 31 0.52
26 15 0.25
27 14 0.23
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (25 bp):
TATTTTACATATTATTTATTTTAAA
Found at i:12003429 original size:46 final size:47
Alignment explanation
Indices: 12003282--12003540 Score: 191
Period size: 46 Copynumber: 5.6 Consensus size: 47
12003272 TTATTTGTGT
** *
12003282 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCC-ACATTATG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGA-GATGTA-A
* *** * *
12003328 GCCAGTGTAAGACCATATCTGGGGTGTGGCATCGGCATTGAAATG-AGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGATGTA-A
* * *
12003376 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTAA
* * *
12003422 GCCAGTGTGAGA-CATGTTTGGGACATGCATTGG-CTATGAGATGT--
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGATGTAA
* * *
12003466 GTCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACTTGATGCATGT--
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGA-G-ATGTAA
*
12003513 GCCAATGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGACCATGTCTGGGACATG
12003541 GAATCGGCAT
Statistics
Matches: 174, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.06
45 19 0.11
46 69 0.40
47 50 0.29
48 25 0.14
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTAA
Found at i:12006311 original size:18 final size:19
Alignment explanation
Indices: 12006282--12006321 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
12006272 AAGTTTTGTT
*
12006282 TTTATCTTTATTTTATTTA
1 TTTATCTTTATTTTACTTA
12006301 TTTAT-TTTATTTTACTTA
1 TTTATCTTTATTTTACTTA
12006319 TTT
1 TTT
12006322 TTATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATCTTTATTTTACTTA
Found at i:12006366 original size:45 final size:47
Alignment explanation
Indices: 12006316--12006421 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 47
12006306 TTTATTTTAC
*
12006316 TTATTTTTATTAT-TA-ATTTTAAAAAATTTAAA-ATGAATATTTGAAA
1 TTATTTTTATAATATATATTTTAAAAAATTTAAATAT-AAT-TTTGAAA
* *
12006362 -TA-TTTTATAATATATATTTTTAAAATTTTAAATATAATTTTGAAA
1 TTATTTTTATAATATATATTTTAAAAAATTTAAATATAATTTTGAAA
12006407 TTATTTTT-TAA-ATAT
1 TTATTTTTATAATATAT
12006422 TAAATATATA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
44 8 0.15
45 15 0.29
46 23 0.44
47 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (47 bp):
TTATTTTTATAATATATATTTTAAAAAATTTAAATATAATTTTGAAA
Found at i:12006412 original size:23 final size:22
Alignment explanation
Indices: 12006329--12006413 Score: 77
Period size: 23 Copynumber: 3.8 Consensus size: 22
12006319 TTTTTATTAT
* *
12006329 TAATTTT-AAAAAATTTAAA-A
1 TAATTTTGAAATATTTTAAATA
12006349 TGAATATTTGAAATATTTTATAATA
1 T-AAT-TTTGAAATATTTTA-AATA
*
12006374 TATATTTTTAAA-ATTTTAAATA
1 TA-ATTTTGAAATATTTTAAATA
12006396 TAATTTTGAAATTATTTT
1 TAATTTTGAAA-TATTTT
12006414 TTAAATATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
20 1 0.02
21 11 0.21
22 9 0.17
23 19 0.36
24 9 0.17
25 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TAATTTTGAAATATTTTAAATA
Found at i:12006443 original size:23 final size:22
Alignment explanation
Indices: 12006408--12006451 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12006398 ATTTTGAAAT
* *
12006408 TATTTTTTAAATATTAAATATA
1 TATTTTTAAAATATAAAATATA
12006430 TATTTTTAATAATATAAAATAT
1 TATTTTTAA-AATATAAAATAT
12006452 TTAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTTTAAAATATAAAATATA
Found at i:12006451 original size:21 final size:21
Alignment explanation
Indices: 12006404--12006451 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
12006394 TATAATTTTG
*
12006404 AAAT-TATTTTTTAAATATTA
1 AAATATATTTTTAAAATATTA
12006424 AATATATATTTTTAATAATA-TA
1 AA-ATATATTTTTAA-AATATTA
12006446 AAATAT
1 AAATAT
12006452 TTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 6 0.25
22 12 0.50
23 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATATTTTTAAAATATTA
Found at i:12006542 original size:21 final size:21
Alignment explanation
Indices: 12006503--12006543 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12006493 GTTTATAATA
*
12006503 TTTTAAATATTATTTAATTAG
1 TTTTAAATATTATTAAATTAG
12006524 TTTTATAATATT-TTAAATTA
1 TTTTA-AATATTATTAAATTA
12006544 TGATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTAG
Found at i:12006869 original size:16 final size:17
Alignment explanation
Indices: 12006849--12006897 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
12006839 AAAAAAGATT
*
12006849 TATTTGTTAAAAAATGA
1 TATTTATTAAAAAATGA
*
12006866 -ATTTATTTAAAAAT-A
1 TATTTATTAAAAAATGA
*
12006881 TATATATTAAAAAATGA
1 TATTTATTAAAAAATGA
12006898 GATTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TATTTATTAAAAAATGA
Found at i:12007385 original size:20 final size:20
Alignment explanation
Indices: 12007362--12007426 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
12007352 ATAATTTTTT
12007362 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * * *
12007382 AATTTATATTTCA-ATTTTTT
1 AATTT-TAGTACACATTTATA
*
12007402 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
12007422 AATTT
1 AATTT
12007427 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 5 0.15
20 24 0.71
21 5 0.15
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:12012112 original size:18 final size:18
Alignment explanation
Indices: 12012089--12012129 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
12012079 TTTTGCCCTA
*
12012089 TTTTTTTTAAGGTTAGGG
1 TTTTTTTAAAGGTTAGGG
12012107 TTTTTTTAAAGGTTAGGG
1 TTTTTTTAAAGGTTAGGG
12012125 TTTTT
1 TTTTT
12012130 GGTGGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (18 bp):
TTTTTTTAAAGGTTAGGG
Found at i:12012435 original size:17 final size:17
Alignment explanation
Indices: 12012394--12012451 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
12012384 AAATTAGAGC
* *
12012394 TTAGTGGTTTAGGGTTTT
1 TTAGTGGTTTA-AGATTT
*
12012412 TTGGTGGTTTAAGATTT
1 TTAGTGGTTTAAGATTT
*
12012429 TTAGTGGTTTAAGGTTT
1 TTAGTGGTTTAAGATTT
12012446 TTAGTG
1 TTAGTG
12012452 TTTTTTAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
17 25 0.71
18 10 0.29
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (17 bp):
TTAGTGGTTTAAGATTT
Found at i:12012805 original size:126 final size:126
Alignment explanation
Indices: 12012584--12012898 Score: 499
Period size: 126 Copynumber: 2.5 Consensus size: 126
12012574 TAATTACGGA
* * * *
12012584 AAAAAGCTCCCACGTGGAC-ACTTTTTTGCTATAGTAGTATCTGATAAAATAATTTTAAGAAGAT
1 AAAAAGCTCCCACGTGGACGCCCTTTTT-CTACAGTAGTATCTGATAAAATAATTTTGAGAAGAT
12012648 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
65 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
12012710 AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGATG
1 AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGATG
* * *
12012775 TTTCTGAACAAATAGTGTCAAAAACGCTTCAATAAGGATGCACTTTCAGCAAAATTACGAG
66 TTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
* * * * *
12012836 AAAAAGCT-CTACATGGACGCTCTTTTGCTACAGTAGTATCTAATAAAATAATTTTGAGAAGAT
1 AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGAT
12012899 ATTTAAAAGT
Statistics
Matches: 176, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
125 50 0.28
126 120 0.68
127 6 0.03
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
AAAAAGCTCCCACGTGGACGCCCTTTTTCTACAGTAGTATCTGATAAAATAATTTTGAGAAGATG
TTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAAAATTACAAG
Found at i:12014692 original size:25 final size:25
Alignment explanation
Indices: 12014654--12014709 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
12014644 CCTCATTAAG
12014654 GAAAAGGACAGGCTTCTGGGAGATA
1 GAAAAGGACAGGCTTCTGGGAGATA
*
12014679 GAAAAGGACTGGCTTCTGGGAGATA
1 GAAAAGGACAGGCTTCTGGGAGATA
*
12014704 AAAAAG
1 GAAAAG
12014710 TACAAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.34, T:0.16
Consensus pattern (25 bp):
GAAAAGGACAGGCTTCTGGGAGATA
Found at i:12017105 original size:18 final size:18
Alignment explanation
Indices: 12017079--12017121 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12017069 GACTGGGAAA
* *
12017079 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
12017097 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
12017115 AGGATAC
1 AGGATAC
12017122 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:12017241 original size:30 final size:31
Alignment explanation
Indices: 12017176--12017241 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
12017166 TTGAAGTGTT
* ** * *
12017176 GGCCCAGGTGGTTGTGTGGGTGCTGTTGATT
1 GGCCCAGGTGATTGTGTGGGCACTGCTGATG
12017207 GGCCCA-GTGATTGTGTGGGCACTGCTGATG
1 GGCCCAGGTGATTGTGTGGGCACTGCTGATG
12017237 GGCCC
1 GGCCC
12017242 GTGTCGTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.09, C:0.20, G:0.42, T:0.29
Consensus pattern (31 bp):
GGCCCAGGTGATTGTGTGGGCACTGCTGATG
Found at i:12018838 original size:11 final size:11
Alignment explanation
Indices: 12018794--12018839 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
12018784 CTTTAACAAA
*
12018794 AATTGAGAGA-
1 AATTTAGAGAG
12018804 AATTT-GAGAG
1 AATTTAGAGAG
* *
12018814 AATTTGGAAAG
1 AATTTAGAGAG
12018825 AATTTAGAGAG
1 AATTTAGAGAG
12018836 AATT
1 AATT
12018840 GTTGTGAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (11 bp):
AATTTAGAGAG
Found at i:12019460 original size:17 final size:16
Alignment explanation
Indices: 12019435--12019504 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 16
12019425 ACATGTAGCA
12019435 AAAAATTATAAATAAAT
1 AAAAATTATAAA-AAAT
*
12019452 AAAAGTTATAAAAAAT
1 AAAAATTATAAAAAAT
12019468 ATTAAATATTAATAAAAATATT
1 A--AAA-ATT-ATAAAAA-A-T
*
12019490 AAAAAGTATAAAAAA
1 AAAAATTATAAAAAA
12019505 ATTTGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.11
17 12 0.27
18 10 0.23
19 4 0.09
20 10 0.23
21 1 0.02
22 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:12019503 original size:19 final size:19
Alignment explanation
Indices: 12019452--12019504 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
12019442 ATAAATAAAT
12019452 AAAAGTTATAAAAAATATTA
1 AAAAG-TATAAAAAATATTA
* *
12019472 AATATTA-ATAAAAATATTA
1 AAAAGTATA-AAAAATATTA
12019491 AAAAGTATAAAAAA
1 AAAAGTATAAAAAA
12019505 ATTTGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 22 0.81
20 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAGTATAAAAAATATTA
Found at i:12019594 original size:29 final size:29
Alignment explanation
Indices: 12019561--12019620 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
12019551 TTAACTATTA
*
12019561 ACTTAAGTCGTTGATCGTTAAAGTTAACG
1 ACTTAAGCCGTTGATCGTTAAAGTTAACG
12019590 ACTTAAGCCGTTGATCGTTAAAGTTAACG
1 ACTTAAGCCGTTGATCGTTAAAGTTAACG
12019619 AC
1 AC
12019621 CCTCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (29 bp):
ACTTAAGCCGTTGATCGTTAAAGTTAACG
Found at i:12019763 original size:10 final size:10
Alignment explanation
Indices: 12019744--12019927 Score: 66
Period size: 10 Copynumber: 18.9 Consensus size: 10
12019734 TTTTAATACA
12019744 ATAA-TTTTT
1 ATAATTTTTT
12019753 ATAATTTTTT
1 ATAATTTTTT
* *
12019763 AAGAATTTTGT
1 -ATAATTTTTT
*
12019774 AT--TTCTTT
1 ATAATTTTTT
*
12019782 A-CATTTTTT
1 ATAATTTTTT
*
12019791 ATAATTTTCT
1 ATAATTTTTT
****
12019801 -TACGGCTTT
1 ATAATTTTTT
**
12019810 ATAAAATTTT
1 ATAATTTTTT
12019820 ATATATTTTTT
1 ATA-ATTTTTT
*
12019831 AT-ATATTTCT
1 ATAAT-TTTTT
*
12019841 AT-ATATTTT
1 ATAATTTTTT
12019850 AT-ATATTTTT
1 ATAAT-TTTTT
*
12019860 ACAATTTTTT
1 ATAATTTTTT
12019870 ATAAATTTTTT
1 AT-AATTTTTT
12019881 ATAA--TTTT
1 ATAATTTTTT
*
12019889 ATATTTTTTT
1 ATAATTTTTT
* *
12019899 CTAA-ATTTT
1 ATAATTTTTT
*
12019908 AAATATTTTTT
1 ATA-ATTTTTT
*
12019919 ATAGTTTTT
1 ATAATTTTT
12019928 AAATTTTAAA
Statistics
Matches: 126, Mismatches: 34, Indels: 29
0.67 0.18 0.15
Matches are distributed among these distances:
8 12 0.10
9 28 0.22
10 53 0.42
11 33 0.26
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:12019832 original size:11 final size:10
Alignment explanation
Indices: 12019816--12019928 Score: 92
Period size: 10 Copynumber: 11.5 Consensus size: 10
12019806 CTTTATAAAA
12019816 TTTTATATATT
1 TTTTATATA-T
12019827 TTTTATATAT
1 TTTTATATAT
*
12019837 TTCTATATA-
1 TTTTATATAT
12019846 TTTTATATAT
1 TTTTATATAT
*
12019856 TTTTACA-ATT
1 TTTTATATA-T
*
12019866 TTTTATAAAT
1 TTTTATATAT
*
12019876 TTTT-TATAA
1 TTTTATATAT
*
12019885 TTTTATATTT
1 TTTTATATAT
* *
12019895 TTTTCTA-AA
1 TTTTATATAT
*
12019904 TTTTAAATAT
1 TTTTATATAT
12019914 TTTT-TATAGT
1 TTTTATATA-T
12019924 TTTTA
1 TTTTA
12019929 AATTTTAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
9 24 0.30
10 46 0.57
11 10 0.12
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:12019833 original size:9 final size:9
Alignment explanation
Indices: 12019815--12019934 Score: 78
Period size: 9 Copynumber: 12.6 Consensus size: 9
12019805 GCTTTATAAA
*
12019815 ATTTTATAT
1 ATTTTTTAT
12019824 ATTTTTTAT
1 ATTTTTTAT
*
12019833 ATATTTCTAT
1 AT-TTTTTAT
*
12019843 ATATTTTAT
1 ATTTTTTAT
*
12019852 ATATTTTTACA
1 AT-TTTTTA-T
12019863 ATTTTTTAT
1 ATTTTTTAT
12019872 AAATTTTTTAT
1 --ATTTTTTAT
*
12019883 AATTTTATAT
1 -ATTTTTTAT
* *
12019893 TTTTTTCTAA
1 ATTTTT-TAT
**
12019903 ATTTTAAAT
1 ATTTTTTAT
12019912 ATTTTTTAT
1 ATTTTTTAT
* *
12019921 AGTTTTTAA
1 ATTTTTTAT
12019930 ATTTT
1 ATTTT
12019935 AAAAATGTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
9 40 0.47
10 34 0.40
11 11 0.13
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:12019849 original size:19 final size:19
Alignment explanation
Indices: 12019815--12019926 Score: 93
Period size: 19 Copynumber: 5.8 Consensus size: 19
12019805 GCTTTATAAA
*
12019815 ATTTTATATATTTTTTATAT
1 ATTTT-TATATATTTTATAT
*
12019835 ATTTCTATATATTTTATAT
1 ATTTTTATATATTTTATAT
* * *
12019854 ATTTTTACAATTTTTTATAA
1 ATTTTTA-TATATTTTATAT
12019874 ATTTTT-TATAATTTTATAT
1 ATTTTTATAT-ATTTTATAT
* * * *
12019893 TTTTTTCTAAATTTTAAAT
1 ATTTTTATATATTTTATAT
12019912 ATTTTT-TATAGTTTT
1 ATTTTTATATA-TTTT
12019927 TAAATTTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
18 5 0.07
19 48 0.65
20 21 0.28
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
ATTTTTATATATTTTATAT
Found at i:12019872 original size:29 final size:29
Alignment explanation
Indices: 12019807--12019917 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
12019797 TTCTTACGGC
*
12019807 TTTATAAAATTTTATATATTTTTTA-TATATT
1 TTTAT-AAATTTTATATA-TTTTTACAAT-TT
* *
12019838 TCTATATATTTTATATATTTTTACAATTT
1 TTTATAAATTTTATATATTTTTACAATTT
* * * *
12019867 TTTATAAATTTTTTATAATTTTATATTTT
1 TTTATAAATTTTATATATTTTTACAATTT
* *
12019896 TTTCTAAATTTTAAATATTTTT
1 TTTATAAATTTTATATATTTTT
12019918 TATAGTTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
29 49 0.74
30 13 0.20
31 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTATAAATTTTATATATTTTTACAATTT
Found at i:12021304 original size:30 final size:30
Alignment explanation
Indices: 12021258--12021381 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
12021248 TTTTATTATG
*
12021258 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
12021289 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12021319 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
** * *
12021349 TTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
12021379 CCA
1 CCA
12021382 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:12021313 original size:15 final size:15
Alignment explanation
Indices: 12021268--12021375 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
12021258 CCAATATCTC
12021268 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12021283 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12021298 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
12021313 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
12021328 GATACCCATATCTTT
1 GATACCCATATCTTT
**** *
12021343 GACTTTTTAT-TATTT
1 GA-TACCCATATCTTT
12021358 GATACCCATATCTTT
1 GATACCCATATCTTT
12021373 GAT
1 GAT
12021376 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:12023063 original size:21 final size:21
Alignment explanation
Indices: 12023033--12023074 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12023023 ATCAACTCAA
12023033 CTAAACCCCAATTCTTATTGT
1 CTAAACCCCAATTCTTATTGT
*
12023054 CTAAATCCCAATTCTTATTGT
1 CTAAACCCCAATTCTTATTGT
12023075 ATACATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (21 bp):
CTAAACCCCAATTCTTATTGT
Found at i:12026347 original size:19 final size:19
Alignment explanation
Indices: 12026294--12026353 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
12026284 AGAATAATAA
12026294 TAAAAATA-TTT-TTATTT
1 TAAAAATATTTTATTATTT
*
12026311 TATAAAATAAATTATATTATTT
1 TA-AAAAT--ATTTTATTATTT
*
12026333 TAAAAATATTTTATTGTTT
1 TAAAAATATTTTATTATTT
12026352 TA
1 TA
12026354 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 12 0.34
20 1 0.03
21 7 0.20
22 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TAAAAATATTTTATTATTT
Found at i:12031790 original size:22 final size:22
Alignment explanation
Indices: 12031762--12031807 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
12031752 ATCATTTTAG
12031762 TTAAAGCAGATTTAGTTGGACA
1 TTAAAGCAGATTTAGTTGGACA
*
12031784 TTAAAGCTGATTTAGTTGGACA
1 TTAAAGCAGATTTAGTTGGACA
12031806 TT
1 TT
12031808 TTCTTTCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (22 bp):
TTAAAGCAGATTTAGTTGGACA
Found at i:12038754 original size:72 final size:72
Alignment explanation
Indices: 12038664--12038809 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
12038654 GCCAGTAAGC
** * *
12038664 TTCAGATTCAAGTATTGTTGGTTGTTGGAAGAAAAATTACGGCCTTTAAAGCTCTCCTTTGCCAT
1 TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
12038729 CTCCTTA
66 CTCCTTA
12038736 TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
1 TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
12038801 CTCCTTA
66 CTCCTTA
12038808 TT
1 TT
12038810 TTTCTTCATC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (72 bp):
TTCAGATTCAAGTATTGTTGGTCATCGGAAGAAAAATTACAGCCTTTAAAGCTCTCCTTTGCCAT
CTCCTTA
Found at i:12040542 original size:42 final size:41
Alignment explanation
Indices: 12040466--12040544 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
12040456 GAATAGCTGC
* *
12040466 TTTTACTAATTTGTTACATATAAATTATTGAATTATTGACT
1 TTTTACTAATTCGTTACATATAAATTAGTGAATTATTGACT
**
12040507 TTTTACTAATTCCGTTTTATATAAATT-GTGAAATTATT
1 TTTTACTAATT-CGTTACATATAAATTAGTG-AATTATT
12040545 AATTTTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.52
Consensus pattern (41 bp):
TTTTACTAATTCGTTACATATAAATTAGTGAATTATTGACT
Found at i:12050581 original size:39 final size:39
Alignment explanation
Indices: 12050538--12050755 Score: 283
Period size: 39 Copynumber: 5.6 Consensus size: 39
12050528 GCTCTGGTGA
* *
12050538 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
12050577 GCTTCAGTTAGCTTTCGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
12050616 GCTTCAGTCAGCCTTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
12050655 GCTTCAGTTAGCGTCCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * **
12050694 GCTTTAGCTAAACTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
12050733 GCTTCAGCTAAACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
12050756 AGATCACGAA
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 159 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:12051070 original size:19 final size:19
Alignment explanation
Indices: 12051046--12051084 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12051036 AAAGAATGAT
12051046 ATGTATCATGATATGTAAA
1 ATGTATCATGATATGTAAA
12051065 ATGTATCATGATATGTAAA
1 ATGTATCATGATATGTAAA
12051084 A
1 A
12051085 ACGTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGTATCATGATATGTAAA
Found at i:12052292 original size:20 final size:20
Alignment explanation
Indices: 12052267--12052312 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
12052257 AAATTTACCT
**
12052267 AGTATCAATACCTTTAATCA
1 AGTATCAATAAATTTAATCA
*
12052287 AGTATCAATAAATTTCATCA
1 AGTATCAATAAATTTAATCA
12052307 AGTATC
1 AGTATC
12052313 GATGTAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (20 bp):
AGTATCAATAAATTTAATCA
Found at i:12054692 original size:25 final size:25
Alignment explanation
Indices: 12054662--12054712 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12054652 AACCCTTAAG
12054662 AGAAAACTCAAGAAAACTAAGGCGA
1 AGAAAACTCAAGAAAACTAAGGCGA
12054687 AGAAAACTCAAGAAAACTAAGGCGA
1 AGAAAACTCAAGAAAACTAAGGCGA
12054712 A
1 A
12054713 AACTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.16, G:0.20, T:0.08
Consensus pattern (25 bp):
AGAAAACTCAAGAAAACTAAGGCGA
Found at i:12057058 original size:16 final size:16
Alignment explanation
Indices: 12057037--12057069 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12057027 TAATGATATT
*
12057037 TTTTATTTTTAAATAA
1 TTTTATTTTAAAATAA
12057053 TTTTATTTTAAAATAA
1 TTTTATTTTAAAATAA
12057069 T
1 T
12057070 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAAATAA
Found at i:12060988 original size:46 final size:46
Alignment explanation
Indices: 12060915--12061191 Score: 353
Period size: 46 Copynumber: 6.0 Consensus size: 46
12060905 TGTGCTCTCA
* *
12060915 GATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAATC-T
1 GATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CAT
* * *
12060961 GATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACCT
1 GATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT
*
12061007 GATATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACGT
1 GATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAACAT
* *
12061053 GATATGCAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
1 GATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT
*** *
12061099 GACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
1 GATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT
* * * * *
12061145 GACA-GAAAATGAGTAAGACCATCGTTGAAAGACACTATGGCATCAT
1 GATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT
12061191 G
1 G
12061192 TCAAAGATAA
Statistics
Matches: 209, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 206 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
GATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT
Found at i:12061493 original size:16 final size:17
Alignment explanation
Indices: 12061472--12061504 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12061462 ATGATGGAGC
12061472 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
12061488 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
12061505 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:12065047 original size:6 final size:6
Alignment explanation
Indices: 12065036--12065063 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
12065026 GTGACTTTTT
12065036 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
12065064 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:12065426 original size:34 final size:34
Alignment explanation
Indices: 12065388--12065457 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
12065378 TGGAGGGGTT
12065388 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
1 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
12065422 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
1 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
12065456 TG
1 TG
12065458 CAAGCATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.06, G:0.36, T:0.36
Consensus pattern (34 bp):
TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
Found at i:12070066 original size:25 final size:26
Alignment explanation
Indices: 12070038--12070091 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
12070028 CAATTAGTAT
*
12070038 AAAATATT-AATAATTCAATA-AATTG
1 AAAA-ATTAAATAATTAAATAGAATTG
12070063 AAAAATTAAATAATTAAATAGAATTG
1 AAAAATTAAATAATTAAATAGAATTG
12070089 AAA
1 AAA
12070092 TTTAGGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 15 0.58
26 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAGAATTG
Found at i:12070799 original size:16 final size:15
Alignment explanation
Indices: 12070774--12070807 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
12070764 AAAGTTGATA
*
12070774 ATAATTAATATACATT
1 ATAATAAATATA-ATT
12070790 ATAATAAATATAATT
1 ATAATAAATATAATT
12070805 ATA
1 ATA
12070808 TATTAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:12094086 original size:17 final size:17
Alignment explanation
Indices: 12094066--12094098 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12094056 ATTAAGAATG
12094066 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
12094083 TTATTAAATTATATTT
1 TTATTAAATTATATTT
12094099 AATACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:12094149 original size:58 final size:54
Alignment explanation
Indices: 12094043--12094173 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 54
12094033 TTAATTCATA
* *
12094043 TAATAATAATTATATTAAGAATGTTATTAAATTATATTTTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATTTTTTATTAAATTAT-TT
* *
12094098 TAATACTAATTATGTTAA-AATATGATTAAATTATTTATTATTTTTATTAAATTATTT
1 TAATAATAATTATATTAAGAATATGATTAAATTA--TA-T-TTTTTATTAAATTATTT
*
12094155 TCAATAGTAATCT-TATTAA
1 T-AATAATAAT-TATATTAA
12094174 AATTTAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
54 13 0.20
55 16 0.25
56 2 0.03
57 4 0.06
58 28 0.44
59 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (54 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATTTTTTATTAAATTATTT
Found at i:12096477 original size:21 final size:21
Alignment explanation
Indices: 12096451--12096504 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
12096441 ACAGCAGTGA
*
12096451 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
12096472 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
12096493 CGGTGAGATTAG
1 CGGTGAGATTAG
12096505 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:12100312 original size:15 final size:15
Alignment explanation
Indices: 12100292--12100327 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12100282 TCTTCTTTTT
* *
12100292 TTCTTCATCCTCTTC
1 TTCTTCATCATCGTC
12100307 TTCTTCATCATCGTC
1 TTCTTCATCATCGTC
12100322 TTCTTC
1 TTCTTC
12100328 TTCTCCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.36, G:0.03, T:0.53
Consensus pattern (15 bp):
TTCTTCATCATCGTC
Found at i:12100323 original size:18 final size:18
Alignment explanation
Indices: 12100296--12100330 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12100286 CTTTTTTTCT
12100296 TCATCCTCTTCTTCTTCA
1 TCATCCTCTTCTTCTTCA
*
12100314 TCATCGTCTTCTTCTTC
1 TCATCCTCTTCTTCTTC
12100331 TCCTTCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.37, G:0.03, T:0.51
Consensus pattern (18 bp):
TCATCCTCTTCTTCTTCA
Found at i:12103711 original size:22 final size:21
Alignment explanation
Indices: 12103693--12103730 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12103683 TGTTTTCATA
12103693 ATATTTT-TA-AATTTATTTC
1 ATATTTTGTATAATTTATTTC
12103712 ATATTTTGTATAATTTATT
1 ATATTTTGTATAATTTATT
12103731 ATATTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (21 bp):
ATATTTTGTATAATTTATTTC
Found at i:12110767 original size:3 final size:3
Alignment explanation
Indices: 12110755--12111044 Score: 218
Period size: 3 Copynumber: 96.3 Consensus size: 3
12110745 GTTATTTTTC
* * *
12110755 TAT T-T TAT TAT TAA AAT TAAT TAAT TTAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT
* * * * * * *
12110802 TTT TAC TAT TAC TAT TAT TTT CTAT TAT TAC TGT TAT TGT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
12110847 TAT TAT T-T ATAT TAT TGT TGT TAT TAT TAT TAT TCTT TAT T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* * * *
12110892 TAT TAT TAT TTT CTAT TAT TAT TAT TAC TAT TGT TAT TAT TGT CT-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
12110938 TAC TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
12110985 TAT T-T CTAT TAC TAT TAT CAT TAT CAT TAT TAT TAC TAT TAT T-T
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
12111029 TTT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
12111045 TCCTGTTTTT
Statistics
Matches: 226, Mismatches: 46, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
2 13 0.06
3 194 0.86
4 19 0.08
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:12112389 original size:20 final size:21
Alignment explanation
Indices: 12112364--12112405 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
12112354 CGAACAGAAC
*
12112364 AGGGAAAGAAAGAAA-GAAAA
1 AGGGAAAGAAAAAAAGGAAAA
12112384 AGGGAAAGAAAAAAAGGAAAA
1 AGGGAAAGAAAAAAAGGAAAA
12112405 A
1 A
12112406 TAGGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGGGAAAGAAAAAAAGGAAAA
Found at i:12117659 original size:20 final size:20
Alignment explanation
Indices: 12117616--12117659 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12117606 TTAATAATTT
12117616 TTTTAATATTTAAAATATAA
1 TTTTAATATTTAAAATATAA
*
12117636 -TTTATATATTTAAATTA-AA
1 TTTTA-ATATTTAAAATATAA
12117655 TTTTA
1 TTTTA
12117660 CAAACAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATATTTAAAATATAA
Found at i:12118110 original size:18 final size:18
Alignment explanation
Indices: 12118087--12118142 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
12118077 AAAAAAGAGA
12118087 AATTGAAATTGTCCTAGT
1 AATTGAAATTGTCCTAGT
** *
12118105 AATTG--A--GTAATGGT
1 AATTGAAATTGTCCTAGT
12118119 AATTGAAATTGTCCTAGT
1 AATTGAAATTGTCCTAGT
12118137 AATTGA
1 AATTGA
12118143 GTAATGGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 10 0.36
16 2 0.07
18 16 0.57
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (18 bp):
AATTGAAATTGTCCTAGT
Found at i:12118128 original size:32 final size:32
Alignment explanation
Indices: 12118087--12118150 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
12118077 AAAAAAGAGA
12118087 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
1 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
12118119 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
1 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
12118151 GTATTTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (32 bp):
AATTGAAATTGTCCTAGTAATTGAGTAATGGT
Done.