Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 303 of 313
Found at i:93122678 original size:40 final size:40
Alignment explanation
Indices: 93122632--93122708 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
93122622 ACACACCATG
*
93122632 TGGGGATAAAATCGACCCATCCAGCCCTACAAACCAAGTA
1 TGGGGATAAAATCAACCCATCCAGCCCTACAAACCAAGTA
* *
93122672 TGGGGATAAAATCAACCCATCCAGTCCTACACACCAA
1 TGGGGATAAAATCAACCCATCCAGCCCTACAAACCAA
93122709 ATGGTACTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.31, G:0.16, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAGCCCTACAAACCAAGTA
Found at i:93132574 original size:20 final size:21
Alignment explanation
Indices: 93132528--93132574 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
93132518 CACATTTGGT
**
93132528 TGACTCCTTTACTGGAACTCC
1 TGACTCCTTTACTGGAACAAC
*
93132549 T-TCTCCTTTACTGGAA-AAC
1 TGACTCCTTTACTGGAACAAC
93132568 TGACTCC
1 TGACTCC
93132575 ACTGTAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.86
21 1 0.05
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (21 bp):
TGACTCCTTTACTGGAACAAC
Found at i:93134017 original size:3 final size:3
Alignment explanation
Indices: 93134009--93134042 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
93133999 GTATTGAATA
*
93134009 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
93134043 GACAGGGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93134222 original size:45 final size:45
Alignment explanation
Indices: 93134158--93134249 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
93134148 GAGGAAAGGG
93134158 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
1 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
93134203 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
1 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
93134248 AT
1 AT
93134250 TCTTTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (45 bp):
ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
Found at i:93134772 original size:96 final size:96
Alignment explanation
Indices: 93134655--93134842 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
93134645 AATTTTAGGG
* * ** * *
93134655 TTTTAAGGAAAAAATTTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACTAATTTT
1 TTTTAAGGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-TAA-ATT
* * *
93134720 AAAAAATTAGATTATGA-TTTAGTGTTTATGGT
64 AAAAAAATAGATTAGGATTTTAGGGTTTATGGT
*
93134752 TTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTAA
1 TTTTAAGGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTAA
93134816 AAAAATAGATTAGGATTTTAGGGTTTA
66 AAAAATAGATTAGGATTTTAGGGTTTA
93134843 GGGTATTAGG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 17 0.21
95 13 0.16
96 36 0.45
97 14 0.17
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (96 bp):
TTTTAAGGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTAA
AAAAATAGATTAGGATTTTAGGGTTTATGGT
Found at i:93135154 original size:126 final size:126
Alignment explanation
Indices: 93134938--93135475 Score: 810
Period size: 126 Copynumber: 4.3 Consensus size: 126
93134928 AAAAGCTTCT
* *
93134938 ACGTGGACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
93135002 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * **
93135063 ACGTAGACGCTCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGTTCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
93135128 CTAGTGTAAAAAACGCTTCAAGCAGGATGCATTATCAACAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
93135189 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
93135254 ATAGTGGT-AAAAATGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
93135315 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
93135380 ATAGTGTCAAAAACGCTTCAAGCAGAATGCATTTTCAGTAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
93135441 ATGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
93135476 TAACTTGGGC
Statistics
Matches: 372, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
125 30 0.08
126 340 0.91
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:93138745 original size:116 final size:116
Alignment explanation
Indices: 93138492--93138873 Score: 658
Period size: 116 Copynumber: 3.3 Consensus size: 116
93138482 TTTATATTTT
* * *
93138492 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * * * *
93138557 AAAA-ATAAAATTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
*
93138607 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
93138672 AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
66 AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
93138723 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
93138788 AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
66 AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
*
93138839 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
93138874 TGTATAAATA
Statistics
Matches: 254, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
115 65 0.26
116 189 0.74
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
Found at i:93139899 original size:7 final size:7
Alignment explanation
Indices: 93139887--93139912 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
93139877 TTAAATAAAA
93139887 AAATACT
1 AAATACT
93139894 AAATACT
1 AAATACT
93139901 AAATACT
1 AAATACT
93139908 AAATA
1 AAATA
93139913 TGAATCCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATACT
Found at i:93141090 original size:22 final size:22
Alignment explanation
Indices: 93141078--93141127 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
93141068 TAACGAGAGT
93141078 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
93141100 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
93141120 TTTGAGAG
1 TTTGAGAG
93141128 AATGTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:93141101 original size:11 final size:11
Alignment explanation
Indices: 93141078--93141129 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
93141068 TAACGAGAGT
*
93141078 TTTGAGAGGAA
1 TTTGAGAGAAA
*
93141089 TTTAAGAGAAA
1 TTTGAGAGAAA
93141100 TTTGAGAG--A
1 TTTGAGAGAAA
93141109 TTTGAGAGAAA
1 TTTGAGAGAAA
93141120 TTTGAGAGAA
1 TTTGAGAGAA
93141130 TGTTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:93141135 original size:11 final size:10
Alignment explanation
Indices: 93141078--93141135 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
93141068 TAACGAGAGT
93141078 TTTGAGAGGAA
1 TTTGAGA-GAA
*
93141089 TTTAAGAGAAA
1 TTTGAGAG-AA
93141100 TTTGAGAG-A
1 TTTGAGAGAA
93141109 TTTGAGAGAAA
1 TTTGAGAG-AA
93141120 TTTGAGAGAA
1 TTTGAGAGAA
93141130 TGTTGA
1 T-TTGA
93141136 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 9 0.22
10 4 0.10
11 28 0.68
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:93141141 original size:31 final size:31
Alignment explanation
Indices: 93141078--93141141 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
93141068 TAACGAGAGT
* *
93141078 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
93141109 TTTGAGAGAAATTTGAGAG-AATGTTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
93141140 TT
1 TT
93141142 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:93142954 original size:44 final size:44
Alignment explanation
Indices: 93142891--93142979 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
93142881 CAAACACCGG
93142891 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
93142935 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
93142979 A
1 A
93142980 TTTTCTGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (44 bp):
AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
Found at i:93145107 original size:46 final size:44
Alignment explanation
Indices: 93145024--93145136 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 44
93145014 GAAGAGTGCT
*
93145024 AGTGTAAGACGTGTCTGGGACACGCATCGGCCTCGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGACGT--ACC
* * * **
93145070 AGTGTAAGACATGTCTGGGATATGCATCGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCT-CGAGACGTACC
93145114 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
93145137 TGGCTTCAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 10 0.17
45 14 0.24
46 34 0.59
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGACGTACC
Found at i:93146319 original size:21 final size:21
Alignment explanation
Indices: 93146289--93146345 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
93146279 AGATGGTCAT
93146289 ACGGGTGTGTTGCCCTTCCAC
1 ACGGGTGTGTTGCCCTTCCAC
* *
93146310 ACGGGCGTGTTGCCCTTCTAC
1 ACGGGTGTGTTGCCCTTCCAC
*
93146331 ATGGGTGTG-TGCCCT
1 ACGGGTGTGTTGCCCT
93146346 ATTTTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.09, C:0.30, G:0.32, T:0.30
Consensus pattern (21 bp):
ACGGGTGTGTTGCCCTTCCAC
Found at i:93156039 original size:21 final size:21
Alignment explanation
Indices: 93156015--93156059 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
93156005 TTTTCATTTG
93156015 ATAGTATTTTAA-AATTTATAA
1 ATAGT-TTTTAAGAATTTATAA
*
93156036 ATAGTTTTTAAGAGTTTATAA
1 ATAGTTTTTAAGAATTTATAA
93156057 ATA
1 ATA
93156060 AAATATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
ATAGTTTTTAAGAATTTATAA
Found at i:93156122 original size:21 final size:21
Alignment explanation
Indices: 93156084--93156124 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
93156074 ATTATGGTTA
93156084 AAAAATATTTAATGTATTTATT
1 AAAAATATTTAA-GTATTTATT
93156106 AAAAATATTTTAA-TATTTA
1 AAAAATA-TTTAAGTATTTA
93156125 AAAGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAAATATTTAAGTATTTATT
Found at i:93166540 original size:21 final size:21
Alignment explanation
Indices: 93166516--93166571 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
93166506 TGGCTACCTC
93166516 ACACACCCGTGTGGCTAAGGA
1 ACACACCCGTGTGGCTAAGGA
* *
93166537 ACACGA-CCGTGTGTCTAAGGC
1 ACAC-ACCCGTGTGGCTAAGGA
* *
93166558 ACACGCCTGTGTGG
1 ACACACCCGTGTGG
93166572 AAATCGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.18
Consensus pattern (21 bp):
ACACACCCGTGTGGCTAAGGA
Found at i:93182938 original size:33 final size:33
Alignment explanation
Indices: 93182901--93183068 Score: 161
Period size: 33 Copynumber: 5.3 Consensus size: 33
93182891 ATCAAATGTC
**
93182901 AAAAGGAAAGGTATACTTTGTGTGTACCACATG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
** * *
93182934 AAAAGGCTATGTATACTTAGTGTGTA-C-TCTT-
1 AAAAGGAAAGGTATACTTTGTGTGTACCAT-TTG
**
93182965 --AA--AAAGGTGGACTTTGTGTGTACCATTTG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
* * *
93182994 AAAAGGGAAGGTATACTCTGTGTGTACCATTTC
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
* *
93183027 AAAAGGAAAGGTATACTTTGTTTATACCATTTG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
93183060 AAAAGGAAA
1 AAAAGGAAA
93183069 TGTACACCTC
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
27 14 0.13
28 3 0.03
29 3 0.03
31 2 0.02
32 2 0.02
33 81 0.77
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (33 bp):
AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
Found at i:93187365 original size:19 final size:20
Alignment explanation
Indices: 93187336--93187373 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
93187326 AAAATAAGGA
93187336 ATTCAAAAACAATGAATAAT
1 ATTCAAAAACAATGAATAAT
93187356 ATTC-AAAACAATGAATAA
1 ATTCAAAAACAATGAATAA
93187374 AGAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
ATTCAAAAACAATGAATAAT
Found at i:93187859 original size:17 final size:16
Alignment explanation
Indices: 93187833--93187867 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
93187823 TAAAATAATT
93187833 AAATAATAAATAATAA
1 AAATAATAAATAATAA
93187849 AAATAAATAAATAATAA
1 AAAT-AATAAATAATAA
93187866 AA
1 AA
93187868 TCTAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATAAATAATAA
Found at i:93187866 original size:7 final size:7
Alignment explanation
Indices: 93187825--93187858 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
93187815 AAACAATTTA
93187825 AAATAATT
1 AAATAA-T
93187833 AAATAAT
1 AAATAAT
93187840 AAATAAT
1 AAATAAT
93187847 AAA-AAT
1 AAATAAT
93187853 AAATAA
1 AAATAA
93187859 ATAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:93189594 original size:40 final size:40
Alignment explanation
Indices: 93189550--93189641 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
93189540 GTTGTGTGTG
* * * *
93189550 AGACACGACCGTATGGTCGATGGAGGCATGGTCGTGCGCA
1 AGACACGACCGTATAGTCAATGAAAGCATGGTCGTGCGCA
* * *
93189590 AGACAC-AGCCGTGTAGTCAATGAAAGCATGGTTGTGTGCA
1 AGACACGA-CCGTATAGTCAATGAAAGCATGGTCGTGCGCA
*
93189630 AGACATGACCGT
1 AGACACGACCGT
93189642 GTGATGGCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.02
40 40 0.95
41 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.20
Consensus pattern (40 bp):
AGACACGACCGTATAGTCAATGAAAGCATGGTCGTGCGCA
Found at i:93189642 original size:40 final size:39
Alignment explanation
Indices: 93189538--93189643 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 39
93189528 TCCATGTGGT
** * * * * *
93189538 TGGTTGTGTGTGAGACACGACCGTATGGTCGATGGAGGCA
1 TGGTTGTGTGCAAGACA-GACCGTGTAGTCAATGAAAGCA
* * *
93189578 TGGTCGTGCGCAAGACACAGCCGTGTAGTCAATGAAAGCA
1 TGGTTGTGTGCAAGACAGA-CCGTGTAGTCAATGAAAGCA
93189618 TGGTTGTGTGCAAGACATGACCGTGT
1 TGGTTGTGTGCAAGACA-GACCGTGT
93189644 GATGGCGTGA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
39 1 0.02
40 49 0.96
41 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (39 bp):
TGGTTGTGTGCAAGACAGACCGTGTAGTCAATGAAAGCA
Found at i:93189768 original size:17 final size:17
Alignment explanation
Indices: 93189743--93189808 Score: 105
Period size: 17 Copynumber: 3.8 Consensus size: 17
93189733 AGGTTAATCT
* *
93189743 GGGCGTGTGGCCTACAC
1 GGGCTTGTGGCCCACAC
93189760 GGGCTTGTGGCCCACAC
1 GGGCTTGTGGCCCACAC
93189777 GGGCTTGTGGCCCACAC
1 GGGCTTGTGGCCCACAC
93189794 GGGCTTGTGAGCCCA
1 GGGCTTGTG-GCCCA
93189809 TGTTTTTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
17 41 0.89
18 5 0.11
ACGTcount: A:0.12, C:0.32, G:0.38, T:0.18
Consensus pattern (17 bp):
GGGCTTGTGGCCCACAC
Found at i:93191008 original size:21 final size:22
Alignment explanation
Indices: 93190978--93191040 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
93190968 CGATCCTGTA
93190978 AGTAT-TTCTGAAACT-TAGAT
1 AGTATATTCTGAAACTGTAGAT
93190998 AGTATATTCTGAAAACATTGTAGAT
1 AGTATATTCTG-AAAC--TGTAGAT
*
93191023 AGTACATTC-GAAACTGTA
1 AGTATATTCTGAAACTGTA
93191041 CTGAAATAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 5 0.14
21 9 0.24
22 4 0.11
23 4 0.11
24 2 0.05
25 13 0.35
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (22 bp):
AGTATATTCTGAAACTGTAGAT
Found at i:93191151 original size:17 final size:18
Alignment explanation
Indices: 93191129--93191164 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
93191119 ATACTAGTAC
93191129 TAATGT-ATAAAATTTTA
1 TAATGTAATAAAATTTTA
93191146 TAATGTAGATAAAATTTTA
1 TAATGTA-ATAAAATTTTA
93191165 AAATTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TAATGTAATAAAATTTTA
Found at i:93195605 original size:55 final size:54
Alignment explanation
Indices: 93195510--93195659 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
93195500 CTACTTTGTT
* ** * *
93195510 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
93195564 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
93195619 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
93195660 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:93195622 original size:27 final size:27
Alignment explanation
Indices: 93195482--93195659 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
93195472 TAAATTGTAC
93195482 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
93195509 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
93195535 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
93195563 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
93195591 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
93195618 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
93195645 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93195660 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:93195623 original size:82 final size:81
Alignment explanation
Indices: 93195483--93195638 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
93195473 AAATTGTACA
* * * *
93195483 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
93195548 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
93195564 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
93195627 TGTGCGAGTTGA
63 TGTGCGAATTGA
93195639 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:93203575 original size:27 final size:27
Alignment explanation
Indices: 93203544--93203721 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
93203534 TAAATTGTAC
93203544 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
93203571 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
93203597 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
93203625 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
93203653 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
93203680 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
93203707 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93203722 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:93203658 original size:82 final size:81
Alignment explanation
Indices: 93203545--93203700 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
93203535 AAATTGTACA
* *
93203545 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
93203609 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
93203626 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
93203691 TGCGAGTTGA
65 TGCGAATTGA
93203701 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:93203712 original size:82 final size:81
Alignment explanation
Indices: 93203541--93203721 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
93203531 GATTAAATTG
* *
93203541 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
93203606 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
93203622 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
93203686 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
93203704 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
93203722 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:93211222 original size:13 final size:13
Alignment explanation
Indices: 93211181--93211223 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
93211171 TCAAGCATAA
93211181 TATTTATGTATCTG
1 TATTT-TGTATCTG
* * *
93211195 TATATTATATTTG
1 TATTTTGTATCTG
93211208 TATTTTGTATCTG
1 TATTTTGTATCTG
93211221 TAT
1 TAT
93211224 ATGGAGTGGG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (13 bp):
TATTTTGTATCTG
Found at i:93212715 original size:25 final size:26
Alignment explanation
Indices: 93212664--93212715 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
93212654 ATTATAAAAT
* ** *
93212664 AATTATAAAAATATTTTTTTGTGATA
1 AATTATAAAAATATCTTTTAATAATA
93212690 AATTATAAAAATA-CTTTTAATAATA
1 AATTATAAAAATATCTTTTAATAATA
93212715 A
1 A
93212716 TTAGATCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTATAAAAATATCTTTTAATAATA
Found at i:93213800 original size:32 final size:33
Alignment explanation
Indices: 93213746--93213812 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
93213736 TGATATATAA
93213746 AATATTTTTAAAAAAATAAATATAATAATAAAT
1 AATATTTTTAAAAAAATAAATATAATAATAAAT
* * * * *
93213779 AATA-TTTTAAATAATTTAATATAATGATATAT
1 AATATTTTTAAAAAAATAAATATAATAATAAAT
93213811 AA
1 AA
93213813 AATATAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
AATATTTTTAAAAAAATAAATATAATAATAAAT
Found at i:93221032 original size:30 final size:30
Alignment explanation
Indices: 93220988--93221056 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
93220978 AATTTGTCAC
*
93220988 TATACTTT-ATTTTAATTGATATTTATAAT
1 TATATTTTAATTTTAATTGATATTTATAAT
93221017 TATATTTTAATTTTAATTGATATTTATAAT
1 TATATTTTAATTTTAATTGATATTTATAAT
93221047 TATATTTTAA
1 TATATTTTAA
93221057 GAATATAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TATATTTTAATTTTAATTGATATTTATAAT
Found at i:93225654 original size:20 final size:19
Alignment explanation
Indices: 93225618--93225668 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
93225608 AAAGGATTTT
*
93225618 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
93225637 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
93225657 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
93225669 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:93228595 original size:13 final size:13
Alignment explanation
Indices: 93228577--93228601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93228567 AGTTTATTTC
93228577 GATTAATATTTAT
1 GATTAATATTTAT
93228590 GATTAATATTTA
1 GATTAATATTTA
93228602 GATGCATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
GATTAATATTTAT
Found at i:93232641 original size:21 final size:19
Alignment explanation
Indices: 93232609--93232662 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
93232599 ACATTTGTCC
93232609 CTTGTAATATATATTAGAA
1 CTTGTAATATATATTAGAA
*
93232628 CTTGTAATATATATTAGAT
1 CTTGTAATATATATTAGAA
93232647 CTTGTAATATATATTA
1 CTTGTAATATATATTA
93232663 AGATTCTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (19 bp):
CTTGTAATATATATTAGAA
Found at i:93232965 original size:14 final size:14
Alignment explanation
Indices: 93232946--93232976 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93232936 GGTGTCTAGT
93232946 TTTGGGGTTTAGAG
1 TTTGGGGTTTAGAG
*
93232960 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGAG
93232974 TTT
1 TTT
93232977 AGTGTTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (14 bp):
TTTGGGGTTTAGAG
Found at i:93232969 original size:7 final size:7
Alignment explanation
Indices: 93232950--93233004 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
93232940 TCTAGTTTTG
93232950 GGGTTTA
1 GGGTTTA
* *
93232957 GAGTTTG
1 GGGTTTA
93232964 GGGTTTA
1 GGGTTTA
93232971 GGGTTTA
1 GGGTTTA
*
93232978 GTGTTT-
1 GGGTTTA
93232984 GTGGTTTA
1 G-GGTTTA
93232992 GGGTTTA
1 GGGTTTA
*
93232999 GCGTTT
1 GGGTTT
93233005 TAAGGCTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 1 0.03
7 37 0.95
8 1 0.03
ACGTcount: A:0.11, C:0.02, G:0.40, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:93232974 original size:21 final size:21
Alignment explanation
Indices: 93232950--93233004 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
93232940 TCTAGTTTTG
93232950 GGGTTTAGAGTTTGGGGTTTA
1 GGGTTTAGAGTTTGGGGTTTA
* *
93232971 GGGTTTAGTGTTTGTGGTTTA
1 GGGTTTAGAGTTTGGGGTTTA
*
93232992 GGGTTTAGCGTTT
1 GGGTTTAGAGTTT
93233005 TAAGGCTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.02, G:0.40, T:0.47
Consensus pattern (21 bp):
GGGTTTAGAGTTTGGGGTTTA
Found at i:93233067 original size:15 final size:15
Alignment explanation
Indices: 93233047--93233078 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
93233037 TTTAATTTAA
93233047 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
93233062 AAGATAAATATATAT
1 AAGATAAATATAAAT
93233077 AA
1 AA
93233079 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:93234279 original size:37 final size:37
Alignment explanation
Indices: 93234238--93234402 Score: 240
Period size: 37 Copynumber: 4.5 Consensus size: 37
93234228 TCCCCCAAAT
* * * *
93234238 CCTTCACCTCGTGGATCGCAACCCATCCCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
93234275 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
93234312 CCTTTGCCCCGTGCATCGCAACTCATCTCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
93234349 CCTTCGCCCCGTGCATCACAACCCATCTCCTCCATTG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
93234386 CCTTCGCCTCGTACATC
1 CCTTCGCCCCGTGCATC
93234403 TACTGTATAG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 116 1.00
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.24
Consensus pattern (37 bp):
CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
Found at i:93234813 original size:28 final size:28
Alignment explanation
Indices: 93234773--93234829 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
93234763 AGTAAGTTTT
93234773 TTACTTAAGTACTTTTACATTTATGTTC
1 TTACTTAAGTACTTTTACATTTATGTTC
93234801 TTACTTAAGTACTTTTACATTTATGTTC
1 TTACTTAAGTACTTTTACATTTATGTTC
93234829 T
1 T
93234830 GTGTATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
TTACTTAAGTACTTTTACATTTATGTTC
Found at i:93236777 original size:9 final size:9
Alignment explanation
Indices: 93236765--93236932 Score: 82
Period size: 9 Copynumber: 19.1 Consensus size: 9
93236755 TATATCATAT
93236765 CATAACTTA
1 CATAACTTA
93236774 CATAACTTA
1 CATAACTTA
* *
93236783 TATACCTTA
1 CATAACTTA
93236792 CATAA--TA
1 CATAACTTA
*
93236799 CATAA-ATA
1 CATAACTTA
* * *
93236807 TATATCATAA
1 CATAAC-TTA
*
93236817 AATAACTTA
1 CATAACTTA
*
93236826 CAAAACTTA
1 CATAACTTA
93236835 CATAA--TA
1 CATAACTTA
*
93236842 CATAA-ATA
1 CATAACTTA
* ** *
93236850 TATCTCATA
1 CATAACTTA
93236859 TCATAACTTA
1 -CATAACTTA
93236869 CATAACTTA
1 CATAACTTA
*
93236878 CATAAATGT-
1 CATAACT-TA
* *
93236887 -ATATCATA
1 CATAACTTA
93236895 TCATAACTTA
1 -CATAACTTA
93236905 CATAACTTA
1 CATAACTTA
*
93236914 CAAAACTTA
1 CATAACTTA
*
93236923 CTTAACTTA
1 CATAACTTA
93236932 C
1 C
93236933 GTAATACATA
Statistics
Matches: 119, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
7 15 0.13
8 12 0.10
9 75 0.63
10 17 0.14
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:93236807 original size:52 final size:49
Alignment explanation
Indices: 93236745--93236877 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 49
93236735 TATAATAACT
93236745 TACATAAATATATATCATATCATAACTTACATAACTTATATACCTTACATAA
1 TACATAAATATATATCATATCATAACTTACATAACTTA-A-A-CTTACATAA
**
93236797 TACATAAATATATATCATAAAATAACTTAC---A---AAACTTACATAA
1 TACATAAATATATATCATATCATAACTTACATAACTTAAACTTACATAA
*
93236840 TACATAAATATATCTCATATCATAACTTACATAACTTA
1 TACATAAATATATATCATATCATAACTTACATAACTTA
93236878 CATAAATGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
43 36 0.51
44 1 0.01
45 1 0.01
46 2 0.03
49 2 0.03
52 28 0.40
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (49 bp):
TACATAAATATATATCATATCATAACTTACATAACTTAAACTTACATAA
Found at i:93236811 original size:79 final size:79
Alignment explanation
Indices: 93236722--93236915 Score: 218
Period size: 79 Copynumber: 2.5 Consensus size: 79
93236712 ATCTTAATGT
* * * *
93236722 TAAATATATATCATATAATAACTTACATAAA-TATATATCATATCATAACTTACATAACTTAT-A
1 TAAATATATATCATATAATAACTTACATAAACT-TACATAATA-CATAA-ATACATAACATATCA
*
93236785 TACCTTACATAA-TACA
63 TAACTTACATAACTACA
* * **
93236801 TAAATATATATCATAAAATAACTTACA-AAACTTACATAATACATAAATATATCTCATATCATAA
1 TAAATATATATCATATAATAACTTACATAAACTTACATAATACATAAATACATAACATATCATAA
93236865 CTTACATAACTTACA
66 CTTACATAAC-TACA
* *
93236880 TAAATGTATATCATATCATAACTTACAT-AACTTACA
1 TAAATATATATCATATAATAACTTACATAAACTTACA
93236916 AAACTTACTT
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
76 8 0.08
77 17 0.17
78 10 0.10
79 63 0.64
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (79 bp):
TAAATATATATCATATAATAACTTACATAAACTTACATAATACATAAATACATAACATATCATAA
CTTACATAACTACA
Found at i:93236838 original size:36 final size:36
Alignment explanation
Indices: 93236788--93236915 Score: 143
Period size: 36 Copynumber: 3.4 Consensus size: 36
93236778 ACTTATATAC
**
93236788 CTTACATAA--TACATAAATATATATCATAAAATAA
1 CTTACATAACTTACATAAATATATATCATATCATAA
*
93236822 CTTACAAAACTTACATAATACATAAATATATCTCATATCATAA
1 CTTACATAACTTACAT-A-A-AT--ATATA--TCATATCATAA
*
93236865 CTTACATAACTTACATAAATGTATATCATATCATAA
1 CTTACATAACTTACATAAATATATATCATATCATAA
93236901 CTTACATAACTTACA
1 CTTACATAACTTACA
93236916 AAACTTACTT
Statistics
Matches: 80, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
34 8 0.10
36 31 0.39
37 1 0.01
38 5 0.06
39 2 0.03
40 2 0.03
41 6 0.08
42 1 0.01
43 24 0.30
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (36 bp):
CTTACATAACTTACATAAATATATATCATATCATAA
Found at i:93242046 original size:13 final size:14
Alignment explanation
Indices: 93242030--93242058 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93242020 TTTTAAATAT
93242030 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
93242043 TTATAATGGTTTAA
1 TTATAATGGTTTAA
93242057 TT
1 TT
93242059 TGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:93242872 original size:43 final size:42
Alignment explanation
Indices: 93242807--93242938 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
93242797 AATATATATT
* * *
93242807 TTTAGCGGCGTTTAAGATAAAAGTGCCGCTAAAATTCACGTTC
1 TTTAGCGGCGTTTATGA-AAAAGCGCCGCTAAAAGTCACGTTC
* * * * *
93242850 TTTAGCGGCGTTTGTGCAAAAAGCGCAGCTAAAGGTCACATTT
1 TTTAGCGGCGTTTATG-AAAAAGCGCCGCTAAAAGTCACGTTC
* * *
93242893 TTTAGCGGTGTTTTTTTAAAAA-CGCCGCTAAAAGTCACGTTC
1 TTTAGCGGCG-TTTATGAAAAAGCGCCGCTAAAAGTCACGTTC
93242935 TTTA
1 TTTA
93242939 ATATATATTT
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
42 20 0.28
43 47 0.65
44 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTATGAAAAAGCGCCGCTAAAAGTCACGTTC
Found at i:93243114 original size:35 final size:35
Alignment explanation
Indices: 93243075--93243158 Score: 143
Period size: 34 Copynumber: 2.4 Consensus size: 35
93243065 GTTACGTTCT
*
93243075 TTAGCGGTGTTTTTTTACATAAATGCCATAAAATG
1 TTAGCGGTGTTTTTTTACATAAACGCCATAAAATG
93243110 TTAGCGGTG-TTTTTTACATAAACGCCATAAAATG
1 TTAGCGGTGTTTTTTTACATAAACGCCATAAAATG
*
93243144 TTAGCGGTATTTTTT
1 TTAGCGGTGTTTTTT
93243159 GCGGCGCTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 32 0.70
35 14 0.30
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (35 bp):
TTAGCGGTGTTTTTTTACATAAACGCCATAAAATG
Found at i:93249562 original size:5 final size:5
Alignment explanation
Indices: 93249549--93249583 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
93249539 TAGAAAGATA
* *
93249549 TTATT TTGTT TTGTT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
93249584 AATTTAGGTT
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:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:93251540 original size:113 final size:113
Alignment explanation
Indices: 93251342--93251561 Score: 359
Period size: 113 Copynumber: 1.9 Consensus size: 113
93251332 ATATTGTGGG
* * * *
93251342 AATTCGTCAAAAAGACACTGAATCACTTTACGATTACTGGGAGCGATGCAAAAAGTTGTGCGCAA
1 AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTATGCGCAA
93251407 GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
66 GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
** *
93251455 AATTCGTCAAAAAGATGCTGAATCACTCTACGGTTACTGGGAGCAATACAAAAAGTTATGCGCAA
1 AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTATGCGCAA
* *
93251520 GCTGCCCATAACATGGACTGATTGAACAGTCACTCTTGCAGT
66 GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGT
93251562 TTTTACTCCC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 98 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (113 bp):
AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTATGCGCAA
GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
Found at i:93258048 original size:27 final size:25
Alignment explanation
Indices: 93257977--93258048 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 25
93257967 CTTACCCTAA
93257977 ACCCAAATACCAAACTACCCATCCATC
1 ACCC-AATACCAAAC-ACCCATCCATC
* * * *
93258004 AGCACAATACCCACCACCCAATCCACTT
1 A-CCCAATACCAAACACCC-ATCCA-TC
93258032 ACCCAATACCAAACACC
1 ACCCAATACCAAACACC
93258049 TAACCTAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.11
27 27 0.77
28 4 0.11
ACGTcount: A:0.40, C:0.46, G:0.01, T:0.12
Consensus pattern (25 bp):
ACCCAATACCAAACACCCATCCATC
Found at i:93258114 original size:13 final size:13
Alignment explanation
Indices: 93258096--93258120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93258086 ACATAATATA
93258096 CCAACACCCAAAC
1 CCAACACCCAAAC
93258109 CCAACACCCAAA
1 CCAACACCCAAA
93258121 ACAAGCCCAA
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:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (13 bp):
CCAACACCCAAAC
Found at i:93261482 original size:5 final size:5
Alignment explanation
Indices: 93261466--93261508 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
93261456 TAGGAAGATA
*
93261466 TTATT TTGTT TTATT TTATT TTATTAT TTATT ATTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTATT -TTATT TTATT
93261509 AATTTAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 22 0.67
6 7 0.21
7 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:93261502 original size:18 final size:18
Alignment explanation
Indices: 93261475--93261514 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
93261465 ATTATTTTGT
93261475 TTTATTTTATTTTATT-A
1 TTTATTTTATTTTATTAA
93261492 TTTATTATTATTTTATTAA
1 TTTATT-TTATTTTATTAA
93261511 TTTA
1 TTTA
93261515 GGTTAAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTTTATTAA
Found at i:93266868 original size:23 final size:23
Alignment explanation
Indices: 93266841--93266888 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
93266831 CTTCAAATAT
93266841 TTGACTTAAGTGAGAAATAAACA
1 TTGACTTAAGTGAGAAATAAACA
93266864 TTGACTTAAGTGAGAAATAAACA
1 TTGACTTAAGTGAGAAATAAACA
93266887 TT
1 TT
93266889 CTACTGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (23 bp):
TTGACTTAAGTGAGAAATAAACA
Found at i:93273055 original size:38 final size:37
Alignment explanation
Indices: 93272978--93273056 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
93272968 TAAAAATATA
* * *
93272978 TTTTGGTCAAAAAAAACTTTTGAGCAAAAATTAATTT
1 TTTTGGTCAAAAAAAACTTTTAAGCAAAAATAAAATT
* *
93273015 TTTTTGTCAAAAAAAACTTTTAAGTAAAAACTAAAATT
1 TTTTGGTCAAAAAAAACTTTTAAGCAAAAA-TAAAATT
93273053 TTTT
1 TTTT
93273057 ACTTTTGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 27 0.75
38 9 0.25
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (37 bp):
TTTTGGTCAAAAAAAACTTTTAAGCAAAAATAAAATT
Found at i:93273169 original size:17 final size:18
Alignment explanation
Indices: 93273147--93273185 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
93273137 CTTATTTAGT
93273147 AATA-TTTTTA-CCTCAAA
1 AATATTTTTTATCC-CAAA
93273164 AATATTTTTTATCCCAAA
1 AATATTTTTTATCCCAAA
93273182 AATA
1 AATA
93273186 AGAAGGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTTTTTATCCCAAA
Found at i:93275971 original size:24 final size:25
Alignment explanation
Indices: 93275944--93275999 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
93275934 TTTTATAGTA
*
93275944 TCATATATTATG-ATTTGAGTAAAT
1 TCATATATTAAGAATTTGAGTAAAT
* *
93275968 TCAT-TATTAAGAATTTTATTAAAT
1 TCATATATTAAGAATTTGAGTAAAT
93275992 T-ATATATT
1 TCATATATT
93276000 TTAATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (25 bp):
TCATATATTAAGAATTTGAGTAAAT
Found at i:93276008 original size:18 final size:17
Alignment explanation
Indices: 93275980--93276014 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93275970 ATTATTAAGA
*
93275980 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
93275997 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
93276015 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:93276056 original size:59 final size:58
Alignment explanation
Indices: 93275993--93276178 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 58
93275983 TTATTAAATT
93275993 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTAT-TTTTATAGTATC
* * ** * *
93276052 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-TTATTA-A--AT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTCA-AATTATTTTTATAGTAT
*
93276112 T
58 C
*
93276113 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAATTTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTAT-TTTTATAGTATC
93276172 ATATATT
1 ATATATT
93276179 ATGATTTGAG
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 8 0.08
56 5 0.05
57 4 0.04
59 17 0.17
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 8 0.08
66 15 0.15
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATTTTTATAGTATC
Found at i:93276061 original size:106 final size:104
Alignment explanation
Indices: 93275876--93276205 Score: 399
Period size: 106 Copynumber: 3.0 Consensus size: 104
93275866 GCAGTGAGTG
* * ** *
93275876 TTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTATTAAAAATTTTCTTTTATA
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
93275941 GTATCATATATTATGATTTGAGTAAATTCATTATTAAGAAT
66 GTATCATATATTATGATTTGAGTAAATTCA-TA-TAAGAAT
93275982 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
1 TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
93276047 GTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
66 GTATCATATATTATGATTTGAGTAAATTCATATAAG-A-AT
* * * *
93276088 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
1 T--TTATT-A-AA--TTA-TATATT-T-TA-ATTAA--AATATAT-TTA-ATATTAATTATTTCA
* *
93276153 ATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
52 AATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
93276206 ATTGATTATT
Statistics
Matches: 197, Mismatches: 11, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
104 4 0.02
105 3 0.02
106 93 0.47
108 5 0.03
109 1 0.01
110 2 0.01
112 3 0.02
113 5 0.03
114 1 0.01
115 2 0.01
116 4 0.02
118 8 0.04
119 3 0.02
120 63 0.32
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (104 bp):
TTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATA
GTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
Found at i:93276087 original size:66 final size:65
Alignment explanation
Indices: 93276017--93276215 Score: 206
Period size: 66 Copynumber: 3.2 Consensus size: 65
93276007 AAATATATTT
93276017 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTCAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
93276082 G
65 G
* * * * * *
93276083 AATATTAATTA-TTAAGAATT-TTATTA-A--AT--TATA-TAT--TTTAATTAAAAT-ATAT-T
1 AATATTAATTATTTCA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
*
93276136 T
65 G
*
93276137 AATATTAATTATTTCAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTCAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
93276202 G
65 G
*
93276203 AATATTGATTATT
1 AATATTAATTATT
93276216 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
54 14 0.14
55 8 0.08
56 13 0.13
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 13 0.13
65 8 0.08
66 27 0.26
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (65 bp):
AATATTAATTATTTCAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:93276104 original size:120 final size:120
Alignment explanation
Indices: 93275970--93276268 Score: 562
Period size: 120 Copynumber: 2.5 Consensus size: 120
93275960 GAGTAAATTC
93275970 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAA
*
93276035 TTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTA
66 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTA
*
93276090 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAT
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAA
*
93276155 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTG
66 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTA
*
93276210 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
93276269 GTTTAAATAT
Statistics
Matches: 175, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 175 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAA
TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTA
Found at i:93276128 original size:18 final size:17
Alignment explanation
Indices: 93276100--93276134 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93276090 ATTATTAAGA
*
93276100 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
93276117 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
93276135 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:93276237 original size:61 final size:61
Alignment explanation
Indices: 93276052--93276239 Score: 194
Period size: 61 Copynumber: 3.1 Consensus size: 61
93276042 TTATAGTATC
93276052 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * ** * *
93276113 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTCAATTTATATTTTA-TAGTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA--GA-ATTTTATTA-AA
*
93276170 TC
60 TT
*
93276172 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
93276233 ATATATT
1 ATATATT
93276240 TTAATTAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
54 11 0.11
55 6 0.06
56 3 0.03
57 3 0.03
58 3 0.03
59 16 0.16
60 8 0.08
61 23 0.23
62 3 0.03
63 3 0.03
64 3 0.03
65 6 0.06
66 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:93276248 original size:18 final size:17
Alignment explanation
Indices: 93276220--93276254 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93276210 ATTATTAAGA
*
93276220 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
93276237 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
93276255 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:93276484 original size:44 final size:45
Alignment explanation
Indices: 93276419--93276509 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
93276409 ACCTCTATTC
* * *
93276419 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
93276463 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
93276508 CA
1 CA
93276510 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:93276524 original size:17 final size:16
Alignment explanation
Indices: 93276490--93276542 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
93276480 GATTAGCTAT
93276490 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
93276506 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
93276523 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
93276539 TACA
1 TACA
93276543 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:93276808 original size:69 final size:67
Alignment explanation
Indices: 93276762--93276900 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 67
93276752 CTTTTTTATA
93276762 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGAATCATTTAATAA
1 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTT--AGAATCATTTAATAA
93276827 ATAT
64 ATAT
*
93276831 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
1 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTT--AGAATCATTTAATAA
93276896 ATAT
64 ATAT
93276900 A
1 A
93276901 TTTATTATAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (67 bp):
AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTAGAATCATTTAATAAAT
AT
Found at i:93280236 original size:30 final size:30
Alignment explanation
Indices: 93280200--93280259 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
93280190 TTAGGGATGG
93280200 AAAAACAGGTTAAAAACAGGCAAACTAGAT
1 AAAAACAGGTTAAAAACAGGCAAACTAGAT
93280230 AAAAACAGGTTAAAAACAGGCAAACTAGAT
1 AAAAACAGGTTAAAAACAGGCAAACTAGAT
93280260 TTCTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (30 bp):
AAAAACAGGTTAAAAACAGGCAAACTAGAT
Found at i:93282174 original size:21 final size:20
Alignment explanation
Indices: 93282150--93282207 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
93282140 ATGAATTCAT
93282150 AAATCATAAATTCCAAAGCTA
1 AAATC-TAAATTCCAAAGCTA
* * *
93282171 AAATTTTAAAATCCAAATCTA
1 AAA-TCTAAATTCCAAAGCTA
*
93282192 AATTCTAAATTCCAAA
1 AAATCTAAATTCCAAA
93282208 TTCCAAACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 11 0.37
21 18 0.60
22 1 0.03
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATCTAAATTCCAAAGCTA
Found at i:93282200 original size:20 final size:21
Alignment explanation
Indices: 93282156--93282208 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
93282146 TCATAAATCA
* *
93282156 TAAATTCCAAAGCTAAAATTT
1 TAAATTCCAAATCTAAAATTC
*
93282177 TAAAATCCAAATCT-AAATTC
1 TAAATTCCAAATCTAAAATTC
93282197 TAAATTCCAAAT
1 TAAATTCCAAAT
93282209 TCCAAACACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAATTCCAAATCTAAAATTC
Found at i:93282600 original size:53 final size:53
Alignment explanation
Indices: 93282536--93282641 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
93282526 AAAGCACAAT
*
93282536 ATATGAATGATACTCATGAGTGTGAGACGCTAATCGTCAATAACATAAACATA
1 ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
* *
93282589 ATATGAATGATACTCCTGAGTGTGAGACACTGATCGTCAATAACATAAACATA
1 ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
93282642 TCAACAGTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (53 bp):
ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
Found at i:93282905 original size:99 final size:99
Alignment explanation
Indices: 93282783--93282980 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 99
93282773 GTCACTATTG
* * *
93282783 ATATATTTGAAGTTTCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTATGACAAAACA
1 ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
93282848 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
66 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
*
93282882 ATATATCTGAAGTATCCACAATGTGCTAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
1 ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
93282947 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
66 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
93282981 TGAACAAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (99 bp):
ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
Found at i:93284204 original size:19 final size:19
Alignment explanation
Indices: 93284175--93284211 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
93284165 AAATATTTTT
93284175 TAAAAAAATT-ATAAAAAA
1 TAAAAAAATTAATAAAAAA
93284193 TAAAAAATATTAATAAAAA
1 TAAAAAA-ATTAATAAAAA
93284212 CTATGTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAAAATTAATAAAAAA
Found at i:93296137 original size:33 final size:33
Alignment explanation
Indices: 93296095--93296157 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
93296085 TTTAATGATC
* *
93296095 CATTTCAA-TTCAATTTCATTTTCATATCATTCT
1 CATTTCAATTTC-ATTTCATGTTCAAATCATTCT
93296128 CATTTCAATTTCATTTCATGTTCAAATCAT
1 CATTTCAATTTCATTTCATGTTCAAATCAT
93296158 ATATTGCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.49
Consensus pattern (33 bp):
CATTTCAATTTCATTTCATGTTCAAATCATTCT
Found at i:93296151 original size:6 final size:5
Alignment explanation
Indices: 93296095--93296151 Score: 51
Period size: 6 Copynumber: 10.4 Consensus size: 5
93296085 TTTAATGATC
* *
93296095 CATTT CAATT CAATTT CATTTT CATAT CATTCT CATTT CAATTT CATTT
1 CATTT CATTT C-ATTT CA-TTT CATTT CATT-T CATTT C-ATTT CATTT
93296144 CATGTT CA
1 CAT-TT CA
93296152 AATCATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 20 0.47
6 23 0.53
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (5 bp):
CATTT
Found at i:93296366 original size:5 final size:5
Alignment explanation
Indices: 93296356--93296408 Score: 88
Period size: 5 Copynumber: 10.4 Consensus size: 5
93296346 AAAACTCATA
*
93296356 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAC AAAAT AAAAT AAATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
93296407 AA
1 AA
93296409 CTAGTCTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 41 0.91
6 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:93297191 original size:18 final size:17
Alignment explanation
Indices: 93297163--93297207 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 17
93297153 TATACTAGTA
*
93297163 ATTAATAAAATATTATT
1 ATTATTAAAATATTATT
93297180 ACTTATTAAAATATTATT
1 A-TTATTAAAATATTATT
93297198 ATTATTAAAA
1 ATTATTAAAA
93297208 ATATCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATTAAAATATTATT
Found at i:93297211 original size:18 final size:18
Alignment explanation
Indices: 93297168--93297207 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
93297158 TAGTAATTAA
93297168 TAAAATATTATTACTTAT
1 TAAAATATTATTACTTAT
93297186 TAAAATATTATTA-TTAT
1 TAAAATATTATTACTTAT
93297203 TAAAA
1 TAAAA
93297208 ATATCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATATTATTACTTAT
Found at i:93303209 original size:19 final size:19
Alignment explanation
Indices: 93303178--93303230 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
93303168 AAATGAGAAT
*
93303178 CAAAATTAGAATCAGGTGA
1 CAAAATCAGAATCAGGTGA
* *
93303197 TACAATCAGAATCAGGTGA
1 CAAAATCAGAATCAGGTGA
93303216 CAAAATCAGAATCAG
1 CAAAATCAGAATCAG
93303231 TATCAGGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
CAAAATCAGAATCAGGTGA
Found at i:93303228 original size:25 final size:25
Alignment explanation
Indices: 93303200--93303258 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
93303190 CAGGTGATAC
*
93303200 AATCAGAATCAGGTGACAAAATCAG
1 AATCAGAATCAGGTAACAAAATCAG
* *
93303225 AATCAGTATCAGGTAACAGAATCAG
1 AATCAGAATCAGGTAACAAAATCAG
93303250 AATCAGAAT
1 AATCAGAAT
93303259 GTGAATACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGGTAACAAAATCAG
Found at i:93303413 original size:27 final size:26
Alignment explanation
Indices: 93303376--93303431 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
93303366 AACATGGCTG
*
93303376 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGACAGAGCCA
*
93303402 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGACAGAGCCA
93303429 CCA
1 CCA
93303432 AAATAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CCAGAACAAATATTGTGACAGAGCCA
Found at i:93304136 original size:27 final size:27
Alignment explanation
Indices: 93304106--93304496 Score: 367
Period size: 27 Copynumber: 15.0 Consensus size: 27
93304096 GGGGCAAAAT
* * *
93304106 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
93304133 GGTAATTCTACCTTATAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304160 GGT-A---TACCTTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
93304183 GGTAATTCTATCCTATAGGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
93304210 AGTAATTCTACCCTATAAGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304237 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304264 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304291 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
93304318 GGTAATTCTACCCTAC-A-GG----T-
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
93304338 --TAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304363 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304390 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
93304417 AGTATTTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
93304444 GGTATTTCTACCCTACCGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
93304471 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
93304497 TAATAATTTT
Statistics
Matches: 309, Mismatches: 42, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.04
20 2 0.01
21 1 0.00
23 20 0.06
24 2 0.01
25 2 0.01
26 2 0.01
27 268 0.87
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:93304178 original size:23 final size:23
Alignment explanation
Indices: 93304141--93304186 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
93304131 TCGGTAATTC
93304141 TACCTTATAAAGGTATTTCGGTA
1 TACCTTATAAAGGTATTTCGGTA
93304164 TACCTTA-AAAGGGTATTTCGGTA
1 TACCTTATAAA-GGTATTTCGGTA
93304187 ATTCTATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (23 bp):
TACCTTATAAAGGTATTTCGGTA
Found at i:93304246 original size:54 final size:54
Alignment explanation
Indices: 93304107--93304496 Score: 410
Period size: 54 Copynumber: 7.5 Consensus size: 54
93304097 GGGCAAAATG
* * * * * * * *
93304107 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTATAAAGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * * * * * *
93304161 GT-A---TACCTTAAAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * *
93304211 GTAATTCTACCCTATAAGTGTATTTCGGTATTTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * *
93304265 GTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * *
93304319 GTAATTCTACCCTAC-A-GG---TT---AATTT-TACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* *
93304364 GTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * **
93304418 GTATTTCTACCCTACAATGGTATTTCGGTATTTCTACCCTACCGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
*
93304472 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
93304497 TAATAATTTT
Statistics
Matches: 282, Mismatches: 41, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
45 31 0.11
46 5 0.02
47 2 0.01
49 2 0.01
50 41 0.15
51 1 0.00
52 2 0.01
53 6 0.02
54 192 0.68
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
Found at i:93304368 original size:126 final size:126
Alignment explanation
Indices: 93304212--93304459 Score: 433
Period size: 126 Copynumber: 2.0 Consensus size: 126
93304202 GGTATCTCAG
* * *
93304212 TAATTCTACCCTATAAGTGTATTTCGGTATTTCTACCTTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
93304277 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGT
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGT
* *
93304338 TAATTTTACCCTATAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
* *
93304403 TACAAGGGTATTTCAGTATTTCTACCCTACAATGGTATTTCGGTATTTCTACCCTAC
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
93304460 CGGGGTATTT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 115 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (126 bp):
TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGT
Found at i:93304397 original size:153 final size:153
Alignment explanation
Indices: 93304185--93304489 Score: 493
Period size: 153 Copynumber: 2.0 Consensus size: 153
93304175 GGTATTTCGG
* * * * *
93304185 TAATTCTATCCTATAGGGGTATCTCAGTAATTCTACCCTATAAGTGTATTTCGGTATTTCTACCT
1 TAATTCTACCCTATAGGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
93304250 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTAT
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTAT
*
93304315 TTCGGTAATTCTACCCTACAGGT
131 TTCAGTAATTCTACCCTACAGGT
* * *
93304338 TAATTTTACCCTATAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAGGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
* * **
93304403 TACAAGGGTATTTCAGTATTTCTACCCTACAATGGTATTTCGGTATTTCTACCCTACCGGGGTAT
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTAT
93304468 TTCAGTAATTCTACCCTACAGG
131 TTCAGTAATTCTACCCTACAGG
93304490 GGTATTTTAA
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
153 139 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (153 bp):
TAATTCTACCCTATAGGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTAT
TTCAGTAATTCTACCCTACAGGT
Found at i:93304528 original size:81 final size:81
Alignment explanation
Indices: 93304364--93304528 Score: 172
Period size: 81 Copynumber: 2.0 Consensus size: 81
93304354 GGGTATTTCA
* * *
93304364 GTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACC
1 GTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATATTTCTACA
* * ***
93304429 CTACAATGGTATTTCG
66 ATACAAGGGTAAAACG
** * * *
93304445 GTATTTCTACCCTACCGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTAATAATTTTGTA
1 GTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAAT-A-TTTCTA
*
93304510 -AAT-CGAGGGTAAAACG
64 CAATACAAGGGTAAAACG
93304526 GTA
1 GTA
93304529 ATTTTATAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
81 61 0.90
82 2 0.03
83 5 0.07
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (81 bp):
GTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATATTTCTACA
ATACAAGGGTAAAACG
Found at i:93304611 original size:53 final size:53
Alignment explanation
Indices: 93304527--93304774 Score: 275
Period size: 53 Copynumber: 4.7 Consensus size: 53
93304517 GGTAAAACGG
* * * * *
93304527 TAATTTTATAAATTGGGGGTACTTTGGTAATTTTACAAGTCGA-GGTATTTCAGA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAA-TCGACGGTATTTC-GA
* * * * * * * * *
93304581 -AGTTCTATAAATCAAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATC-GACGGTATTTCGA
*
93304634 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACAGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGA
* *
93304687 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGATATTTCGG
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGA
* **
93304740 TAATTTTACAAATCGAGGATATTTGGGTAATTTTA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTA
93304775 TAAACCGGGG
Statistics
Matches: 164, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 124 0.76
54 39 0.24
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGA
Found at i:93304611 original size:80 final size:79
Alignment explanation
Indices: 93304543--93304831 Score: 257
Period size: 80 Copynumber: 3.6 Consensus size: 79
93304533 TATAAATTGG
* *
93304543 GGGTACTTTGGTAATTTTACAAGTCGA-GGTATTTCAG-AAGTTCTATAAATCAAGGGTATTTCA
1 GGGTACTTTGGTAATTTTACAA-TCGACGGTATTTCAGTAA-TT-TATAAATCGAGGGTATTTCG
* *
93304606 ATAATTTTGCAAACTGA
63 ATAATTTTACAAACCGA
* * * **
93304623 GGGTA-TTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTT-TACAATCGACAGTATTTCG
1 GGGTACTTT-GGTAATTTTAC-AATCGACGGTATTTCAGTAATTTATA-AATCGAGGGTATTTCG
*
93304686 ATAATTTTACAAATCGA
63 ATAATTTTACAAACCGA
* * * * * * * *
93304703 GGGTATTTTAGTAATTTTACAATCGACGATATTTCGGTAATTTTACAAATCGAGGATATTTGGGT
1 GGGTACTTTGGTAATTTTACAATCGACGGTATTTCAGTAA-TTTATAAATCGAGGGTATTTCGAT
*
93304768 AATTTTATAAACCG-
65 AATTTTACAAACCGA
**
93304782 GGGATACTTTGGTAATTTTACAA-CTGGGGGTATTTCAGTAATTTGATAAA
1 GGG-TACTTTGGTAATTTTACAATC-GACGGTATTTCAGTAATTT-ATAAA
93304832 CTAAAGTATT
Statistics
Matches: 168, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
79 28 0.17
80 121 0.72
81 17 0.10
82 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (79 bp):
GGGTACTTTGGTAATTTTACAATCGACGGTATTTCAGTAATTTATAAATCGAGGGTATTTCGATA
ATTTTACAAACCGA
Found at i:93304768 original size:27 final size:27
Alignment explanation
Indices: 93304524--93304804 Score: 209
Period size: 27 Copynumber: 10.5 Consensus size: 27
93304514 GAGGGTAAAA
* * * *
93304524 CGGTAATTTTATAAATTGGGGGTACTTT
1 CGGTAATTTTACAAATCGAGGATA-TTT
*
93304552 -GGTAATTTTACAAGTCGAGG-TATTT
1 CGGTAATTTTACAAATCGAGGATATTT
* * * * *
93304577 CAG-AAGTTCTATAAATCAAGGGTATTT
1 CGGTAA-TTTTACAAATCGAGGATATTT
** * *
93304604 CAATAATTTTGCAAA-CTGAGGGTATTT
1 CGGTAATTTTACAAATC-GAGGATATTT
* *
93304631 CGATAATTTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGATATTT
** *
93304658 TAGTAATTTTAC-AATCGA-CAGTATTT
1 CGGTAATTTTACAAATCGAGGA-TATTT
* *
93304684 CGATAATTTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGATATTT
** *
93304711 TAGTAATTTTAC-AATCGACGATATTT
1 CGGTAATTTTACAAATCGAGGATATTT
93304737 CGGTAATTTTACAAATCGAGGATATTT
1 CGGTAATTTTACAAATCGAGGATATTT
* * * *
93304764 GGGTAATTTTATAAACCGGGGATACTTT
1 CGGTAATTTTACAAATCGAGGATA-TTT
93304792 -GGTAATTTTACAA
1 CGGTAATTTTACAA
93304805 CTGGGGGTAT
Statistics
Matches: 203, Mismatches: 39, Indels: 23
0.77 0.15 0.09
Matches are distributed among these distances:
25 5 0.02
26 57 0.28
27 135 0.67
28 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGATATTT
Found at i:93306461 original size:17 final size:16
Alignment explanation
Indices: 93306440--93306501 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
93306430 TTCATGATCA
93306440 ATTTCAATTCAATTC-C
1 ATTTCAATTC-ATTCTC
*
93306456 ATTTTCATTTCATTCTC
1 A-TTTCAATTCATTCTC
93306473 ATTTCAATTTCATT-TC
1 ATTTCAA-TTCATTCTC
*
93306489 ATATTCAAATCAT
1 AT-TTCAATTCAT
93306502 ATATTGCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 18 0.46
17 21 0.54
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTCAATTCATTCTC
Found at i:93310167 original size:24 final size:25
Alignment explanation
Indices: 93310129--93310177 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
93310119 ACAATAAGTA
93310129 AATACAAAAAAAAGAAACTCTAATC
1 AATACAAAAAAAAGAAACTCTAATC
93310154 AATAC-AAAAAAAGAAACTCTAATC
1 AATACAAAAAAAAGAAACTCTAATC
93310178 TAAGGTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.63, C:0.16, G:0.04, T:0.16
Consensus pattern (25 bp):
AATACAAAAAAAAGAAACTCTAATC
Found at i:93312932 original size:16 final size:17
Alignment explanation
Indices: 93312901--93312938 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
93312891 TCACCTTTTT
93312901 TTCTATTTACTTTATTC
1 TTCTATTTACTTTATTC
*
93312918 TTCTATTTA-TTTATTT
1 TTCTATTTACTTTATTC
93312934 TTCTA
1 TTCTA
93312939 ATTCACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTATTTACTTTATTC
Found at i:93318606 original size:29 final size:30
Alignment explanation
Indices: 93318573--93318631 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
93318563 TATGCATGAA
93318573 ATTGCACA-AAA-TCAAAGTTCATGTATAAC
1 ATTGCACATAAACT-AAAGTTCATGTATAAC
93318602 ATTGCACATTAAACTAAAGTTCATGTATAA
1 ATTGCACA-TAAACTAAAGTTCATGTATAA
93318632 TTACGAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (30 bp):
ATTGCACATAAACTAAAGTTCATGTATAAC
Found at i:93319280 original size:18 final size:17
Alignment explanation
Indices: 93319251--93319333 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 17
93319241 TATCGTTAAT
93319251 ATTTTAAAATATAATATTA
1 ATTTT-AAATATAA-ATTA
*
93319270 ATTTTAAATAT--TTCTA
1 ATTTTAAATATAAAT-TA
*
93319286 AGTATTT-AATATTAATTA
1 A-T-TTTAAATATAAATTA
93319304 ATTATTAAATATAAATTA
1 ATT-TTAAATATAAATTA
*
93319322 TATTCTAAATAT
1 -ATTTTAAATAT
93319334 TTAACTATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
15 1 0.02
16 4 0.08
17 9 0.17
18 29 0.56
19 9 0.17
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTTTAAATATAAATTA
Found at i:93325227 original size:16 final size:15
Alignment explanation
Indices: 93325201--93325230 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93325191 ACTAGATCGG
93325201 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
93325216 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
93325231 TCGGCATTTC
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:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:93325953 original size:28 final size:27
Alignment explanation
Indices: 93325921--93326022 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 27
93325911 ACTTGTTATA
*
93325921 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATATTGATAT
*
93325949 GGGCTAGGCCCAGTATACTTTGATATTG-TAAG
1 GGGCTAGGCCCAG---A--TTGATATTGAT-AT
*
93325981 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTGATATTGATAT
93326009 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
93326023 TTAACTTTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 7 0.11
28 27 0.44
29 2 0.03
30 2 0.03
31 1 0.02
32 15 0.25
33 7 0.11
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATATTGATAT
Found at i:93328667 original size:3 final size:3
Alignment explanation
Indices: 93328659--93328687 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
93328649 GGATGTTTTG
93328659 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
93328688 TAGTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:93330060 original size:30 final size:30
Alignment explanation
Indices: 93330024--93330083 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
93330014 ATGTGACAAC
93330024 TGCCAGGATACGTGGAAGCCACAATAAATT
1 TGCCAGGATACGTGGAAGCCACAATAAATT
93330054 TGCCAGGATACGTGGAAGCCACAATAAATT
1 TGCCAGGATACGTGGAAGCCACAATAAATT
93330084 CATCCTTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (30 bp):
TGCCAGGATACGTGGAAGCCACAATAAATT
Found at i:93333555 original size:27 final size:26
Alignment explanation
Indices: 93333520--93333631 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
93333510 AGCATGGCTG
* *
93333520 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
93333546 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
93333574 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
93333601 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
93333628 CCAG
1 CCAG
93333632 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:93333612 original size:54 final size:54
Alignment explanation
Indices: 93333520--93333631 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
93333510 AGCATGGCTG
* *
93333520 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
93333574 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
93333628 CCAG
1 CCAG
93333632 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:93335094 original size:24 final size:24
Alignment explanation
Indices: 93335062--93335135 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
93335052 ACACAGTTCA
*
93335062 CCCTAATCAGCTACTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
93335086 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
93335110 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
93335134 CC
1 CC
93335136 AGACAGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.23, C:0.41, G:0.05, T:0.31
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:93336184 original size:19 final size:17
Alignment explanation
Indices: 93336154--93336204 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
93336144 AAAGGAAGGT
93336154 TTTTACAAAGAGAGAATG
1 TTTT-CAAAGAGAGAATG
93336172 TTTTCAAAGAGAGAATG
1 TTTTCAAAGAGAGAATG
*
93336189 TTTTCAAAGGGAGAAT
1 TTTTCAAAGAGAGAAT
93336205 ACTGAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 28 0.88
18 4 0.12
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
TTTTCAAAGAGAGAATG
Found at i:93336216 original size:18 final size:18
Alignment explanation
Indices: 93336193--93336228 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
93336183 AGAATGTTTT
93336193 CAAAGGGAGAATACTGAA
1 CAAAGGGAGAATACTGAA
93336211 CAAAGGGAGAATACTGAA
1 CAAAGGGAGAATACTGAA
93336229 AGTAAGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.28, T:0.11
Consensus pattern (18 bp):
CAAAGGGAGAATACTGAA
Found at i:93336415 original size:8 final size:8
Alignment explanation
Indices: 93336402--93336428 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
93336392 TATTGTGGCT
93336402 TCCACGTA
1 TCCACGTA
93336410 TCCACGTA
1 TCCACGTA
93336418 TCCACGTA
1 TCCACGTA
93336426 TCC
1 TCC
93336429 TGGCATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.26
Consensus pattern (8 bp):
TCCACGTA
Found at i:93341411 original size:26 final size:26
Alignment explanation
Indices: 93341375--93341458 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
93341365 TGATACAAAT
93341375 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93341401 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93341427 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93341453 TGATAA
1 TGATAA
93341459 GAATTTAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:93345790 original size:40 final size:40
Alignment explanation
Indices: 93345768--93345906 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
93345758 CACTCGAATA
* *
93345768 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
93345808 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
93345848 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
93345888 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93345907 TTATCATCCA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 92 0.99
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93347112 original size:72 final size:72
Alignment explanation
Indices: 93346978--93347306 Score: 423
Period size: 72 Copynumber: 4.6 Consensus size: 72
93346968 TTTTATATAC
* * * * * *
93346978 AAAATCAAATATAAACAACTATTGATAAAGCTA-ATTTAGTATAAATAAGTGGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
93347042 ATATCCA
66 ATATCCA
* * *
93347049 AAAACCAAACATAAACAATTATTGATAAAACTAGATTAAGCATAAATAAGCAGACCATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
93347114 ATATCCA
66 ATATCCA
* * * * * * *
93347121 AAAATCAAACATAAACAACTGTTGATAAAATTAGATTGCA-CATAAACAAGTATAACTTAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATT-AAGCATAAATAAGTAGAACATAAATTC
93347185 AATATCCA
65 AATATCCA
* * *
93347193 AAAGCCAAACATAAACAACTGTTGATAAAACTAGATTACA-CCTAAATAAGTAGAACATAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTA-AGCATAAATAAGTAGAACATAAATTC
93347257 AATATCCA
65 AATATCCA
* *
93347265 AAAACCAAACATTAACAACTATTGATAAAACTAG-TTTAGCAT
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCAT
93347307 TGTTGTTTAG
Statistics
Matches: 222, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
70 1 0.00
71 33 0.15
72 187 0.84
73 1 0.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.25
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:93347746 original size:21 final size:19
Alignment explanation
Indices: 93347721--93347766 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
93347711 TTTCTTTTTT
93347721 TCATTTCCATAAATGTGAACA
1 TCATTT-CA-AAATGTGAACA
93347742 TCATTT-AAAATGTGAACA
1 TCATTTCAAAATGTGAACA
93347760 TCATTTC
1 TCATTTC
93347767 TCACATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 17 0.71
19 1 0.04
21 6 0.25
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCATTTCAAAATGTGAACA
Found at i:93347754 original size:18 final size:18
Alignment explanation
Indices: 93347731--93347765 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93347721 TCATTTCCAT
93347731 AAATGTGAACATCATTTA
1 AAATGTGAACATCATTTA
93347749 AAATGTGAACATCATTT
1 AAATGTGAACATCATTT
93347766 CTCACATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATGTGAACATCATTTA
Found at i:93349319 original size:30 final size:31
Alignment explanation
Indices: 93349285--93349348 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
93349275 ATTTATTTTA
*
93349285 TTGTTAATT-TTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTATTATTATTATTTTAGAA-GCAT
93349315 TTGTTAATTATTATTATTATTTTAGAAGCAT
1 TTGTTAATTATTATTATTATTTTAGAAGCAT
93349346 TTG
1 TTG
93349349 CTTGTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 9 0.29
31 20 0.65
32 2 0.06
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAGAAGCAT
Found at i:93350739 original size:22 final size:22
Alignment explanation
Indices: 93350687--93350740 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
93350677 ATTGAATCAA
* *
93350687 AGAAAGGAAAATAAGCTTTTGG
1 AGAAAAGAAAATAAGCTTTTGC
* *
93350709 AGAAGAGAAAATGAGCTTTTGC
1 AGAAAAGAAAATAAGCTTTTGC
*
93350731 ATAAAAGAAA
1 AGAAAAGAAA
93350741 GCAGTCGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.20
Consensus pattern (22 bp):
AGAAAAGAAAATAAGCTTTTGC
Found at i:93353880 original size:24 final size:24
Alignment explanation
Indices: 93353853--93353908 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
93353843 TAAAAGCAAC
*
93353853 ATAGAATACGTCGTAAAGGCGTTT
1 ATAGAATACGTCGTAAAGGCATTT
*
93353877 ATAGAATTCGTCGTAAAGGCATTT
1 ATAGAATACGTCGTAAAGGCATTT
93353901 ATAGAATA
1 ATAGAATA
93353909 TGTCAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAGAATACGTCGTAAAGGCATTT
Done.