Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 49 of 185
Found at i:13837190 original size:5 final size:5
Alignment explanation
Indices: 13837182--13837215 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
13837172 TTAGATTAGG
13837182 TTTCT TTTCT TTTCT TTTCCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTT-CT TTTCT TTTCT TTT
13837216 TTTCTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:13837204 original size:16 final size:16
Alignment explanation
Indices: 13837185--13837215 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13837175 GATTAGGTTT
13837185 CTTTTCTTTTCTTTTC
1 CTTTTCTTTTCTTTTC
13837201 CTTTTCTTTTCTTTT
1 CTTTTCTTTTCTTTT
13837216 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTCTTTTCTTTTC
Found at i:13837269 original size:24 final size:24
Alignment explanation
Indices: 13837223--13837269 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13837213 TTTTTTCTTA
* * *
13837223 TTTTTAGATTAGGTTTTCCTTTTC
1 TTTTTAGAATAGATTTTACTTTTC
*
13837247 TTTTTAGAATAGATTTTATTTTT
1 TTTTTAGAATAGATTTTACTTTT
13837270 TGTTGTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (24 bp):
TTTTTAGAATAGATTTTACTTTTC
Found at i:13838152 original size:7 final size:7
Alignment explanation
Indices: 13838124--13838155 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
13838114 AAAGAGAAAG
13838124 TTAAAAGT
1 TTAAAA-T
13838132 TTAAAAT
1 TTAAAAT
13838139 TTAAAAT
1 TTAAAAT
13838146 TTAAAAT
1 TTAAAAT
13838153 TTA
1 TTA
13838156 TGGACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (7 bp):
TTAAAAT
Found at i:13842253 original size:48 final size:48
Alignment explanation
Indices: 13842197--13842290 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
13842187 GTGGTTTTGA
13842197 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAAAG
1 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAAAG
13842245 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAA
1 ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAA
13842291 GGGTTTTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.21
Consensus pattern (48 bp):
ATCGACGCTGTGAGTGTGCGAACTCGTGGTTACACAAGCGAGGTAAAG
Found at i:13844690 original size:57 final size:57
Alignment explanation
Indices: 13844606--13844715 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
13844596 AGAAATGGTG
* * *
13844606 AAATGGATAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCAAAAATGAACATGA
1 AAATGGAGAAATA-GAAACATTCGGAAATGAATATGGTTTTCTCAAAAATGAACATGA
* *
13844664 AAATGGAGAAAT-GAAATCATTCGGAAATGAATGTGGTTTTCTCCAAAATGAA
1 AAATGGAGAAATAGAAA-CATTCGGAAATGAATATGGTTTTCTCAAAAATGAA
13844716 AAGGACTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.09
57 31 0.67
58 11 0.24
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (57 bp):
AAATGGAGAAATAGAAACATTCGGAAATGAATATGGTTTTCTCAAAAATGAACATGA
Found at i:13848837 original size:22 final size:22
Alignment explanation
Indices: 13848809--13848857 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
13848799 TTAATCTGAA
*
13848809 TATGTATGTATATGAAATGGTT
1 TATGTATGTATATGAAATGGTC
13848831 TATGTATGTATATGAAATGGTC
1 TATGTATGTATATGAAATGGTC
13848853 TATGT
1 TATGT
13848858 TATTAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (22 bp):
TATGTATGTATATGAAATGGTC
Found at i:13850682 original size:23 final size:25
Alignment explanation
Indices: 13850656--13850703 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
13850646 ACTATAAATA
* *
13850656 CTCATTTAAC-AATTAAA-ATTTCT
1 CTCATATAACTAATCAAACATTTCT
13850679 CTCATATAACTAATCAAACATTTCT
1 CTCATATAACTAATCAAACATTTCT
13850704 TAGAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (25 bp):
CTCATATAACTAATCAAACATTTCT
Found at i:13850934 original size:23 final size:23
Alignment explanation
Indices: 13850908--13851029 Score: 165
Period size: 23 Copynumber: 5.3 Consensus size: 23
13850898 ATAAGTGACA
13850908 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
** *
13850931 CACTGATATGTAGTTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
13850954 CACTGAAATGTAGCCGAAGCGAC
1 CACTGATATGTAGCCGAAGCTAC
*
13850977 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
13851000 CACTGA-ATTGTAGCCGAAGCTGC
1 CACTGATA-TGTAGCCGAAGCTAC
13851023 CACTGAT
1 CACTGAT
13851030 CAATAACACT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
22 1 0.01
23 83 0.99
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:13850979 original size:46 final size:46
Alignment explanation
Indices: 13850908--13851029 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
13850898 ATAAGTGACA
* * **
13850908 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGTTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
13850954 CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
*
13851000 CACTGAATTGTAGCCGAAGCTG-CCACTGAT
1 CACTGAAATGTAGCCGAAGC-GACCACTGAT
13851030 CAATAACACT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 69 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCGACCACTGATATGTAGCCGTAGCTAC
Found at i:13857647 original size:33 final size:33
Alignment explanation
Indices: 13857605--13857670 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
13857595 CTAAAGTCAA
13857605 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
1 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
13857638 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
1 AACAGGGGACTTTAAAAACCATTCTGACCCTAT
13857671 CTCACTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (33 bp):
AACAGGGGACTTTAAAAACCATTCTGACCCTAT
Found at i:13864271 original size:29 final size:30
Alignment explanation
Indices: 13864217--13864295 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
13864207 TTTGAACCAT
* * *
13864217 AATTAAAGTTTAATGTGTATAATTG-CATCA
1 AATTAAAG-TTCATGTATACAATTGACATCA
*
13864247 AATTAAAGTTCATGTATACAATTGCACATTA
1 AATTAAAGTTCATGTATACAATTG-ACATCA
* *
13864278 AACTAAAATTCATGTATA
1 AATTAAAGTTCATGTATA
13864296 ATTTTGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.32
30 8 0.20
31 20 0.49
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
AATTAAAGTTCATGTATACAATTGACATCA
Found at i:13866546 original size:57 final size:57
Alignment explanation
Indices: 13866440--13866547 Score: 153
Period size: 57 Copynumber: 1.9 Consensus size: 57
13866430 CAAATGGGAA
* * *
13866440 AACGTAGGTTCAAACATTGGAGACAATATTGTTGAGAGGGGCAGCCACGAAGCGCAG
1 AACGTAGGTTCAAACATTGAAGACAATATTGTTGAGAGGAGCAACCACGAAGCGCAG
* * * *
13866497 AACGTAGGTTCGAACCTTGAATACAATATTGTTGAGAGGAGCAATCACGAA
1 AACGTAGGTTCAAACATTGAAGACAATATTGTTGAGAGGAGCAACCACGAA
13866548 CCCCTAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (57 bp):
AACGTAGGTTCAAACATTGAAGACAATATTGTTGAGAGGAGCAACCACGAAGCGCAG
Found at i:13867389 original size:28 final size:28
Alignment explanation
Indices: 13867357--13867412 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13867347 TAGTCCAAAT
13867357 TTGGAGATAACTAAATTCAGACCTACAA
1 TTGGAGATAACTAAATTCAGACCTACAA
13867385 TTGGAGATAACTAAATTCAGACCTACAA
1 TTGGAGATAACTAAATTCAGACCTACAA
13867413 GGAAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
TTGGAGATAACTAAATTCAGACCTACAA
Found at i:13867772 original size:9 final size:9
Alignment explanation
Indices: 13867760--13867840 Score: 63
Period size: 9 Copynumber: 8.3 Consensus size: 9
13867750 AAATTTTAAT
13867760 AAAATTATA
1 AAAATTATA
*
13867769 AAAATAATTA
1 AAAATTA-TA
13867779 AAAATTATAAA
1 AAAATTAT--A
13867790 AATAATTATA
1 AA-AATTATA
**
13867800 AAAACAATA
1 AAAATTATA
*
13867809 AAAATTTGTA
1 AAAA-TTATA
*
13867819 AAATTTTATA
1 AAA-ATTATA
13867829 AAAATTATA
1 AAAATTATA
13867838 AAA
1 AAA
13867841 TGCATCAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
9 24 0.43
10 23 0.41
11 3 0.05
12 6 0.11
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:13867784 original size:19 final size:20
Alignment explanation
Indices: 13867758--13867841 Score: 86
Period size: 19 Copynumber: 4.3 Consensus size: 20
13867748 ATAAATTTTA
13867758 ATAAAATTATAAAAATAATT
1 ATAAAATTATAAAAATAATT
13867778 A-AAAATTATAAAAATAATT
1 ATAAAATTATAAAAATAATT
**
13867797 ATAAAAACAATAAAAAT--TT
1 AT-AAAATTATAAAAATAATT
* * *
13867816 GTAAAATTTTATAAA-AATT
1 ATAAAATTATAAAAATAATT
13867835 ATAAAAT
1 ATAAAAT
13867842 GCATCAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 9 0.17
19 30 0.58
20 1 0.02
21 12 0.23
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
ATAAAATTATAAAAATAATT
Found at i:13867820 original size:10 final size:10
Alignment explanation
Indices: 13867750--13867840 Score: 57
Period size: 10 Copynumber: 9.2 Consensus size: 10
13867740 AAAAGTTTAT
13867750 AAATTT-TAA
1 AAATTTATAA
*
13867759 TAAAATTATAA
1 -AAATTTATAA
*
13867770 AAA-TAATTAA
1 AAATTTA-TAA
13867780 AAA-TTATAA
1 AAATTTATAA
13867789 AAATAATTATAA
1 AAAT--TTATAA
**
13867801 AAA-CAATAA
1 AAATTTATAA
*
13867810 AAATTTGTAA
1 AAATTTATAA
*
13867820 AATTTTATAA
1 AAATTTATAA
13867830 AAA-TTATAA
1 AAATTTATAA
13867839 AA
1 AA
13867841 TGCATCAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.36
10 29 0.45
11 3 0.05
12 9 0.14
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATTTATAA
Found at i:13867821 original size:31 final size:30
Alignment explanation
Indices: 13867750--13867821 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
13867740 AAAAGTTTAT
* *
13867750 AAATTTTAATAAAATTATAAAAATAATTAA
1 AAATTTTAAAAAAATTATAAAAACAATTAA
*
13867780 AAATTATAAAAATAATTATAAAAACAA-TAA
1 AAATTTTAAAAA-AATTATAAAAACAATTAA
13867810 AAATTTGTAAAA
1 AAATTT-TAAAA
13867822 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (30 bp):
AAATTTTAAAAAAATTATAAAAACAATTAA
Found at i:13868041 original size:8 final size:8
Alignment explanation
Indices: 13868020--13868137 Score: 94
Period size: 8 Copynumber: 13.5 Consensus size: 8
13868010 TTTTTTCGAA
13868020 TTTTATAAT
1 TTTTAT-AT
*
13868029 ATTTTCTAT
1 -TTTTATAT
*
13868038 TTTTATAC
1 TTTTATAT
13868046 TTTTATAT
1 TTTTATAT
13868054 TTTTATATT
1 TTTTATA-T
13868063 TTTTATAT
1 TTTTATAT
13868071 TTTTATAT
1 TTTTATAT
13868079 TTTTATTAAT
1 TTTTA-T-AT
*
13868089 ATTTAATATT
1 -TTTTATA-T
13868099 TTTTATAACT
1 TTTTAT-A-T
*
13868109 TTTATTTAT
1 TTT-TATAT
13868118 TTTTAT-T
1 TTTTATAT
13868125 TTTTATCAT
1 TTTTAT-AT
13868134 TTTT
1 TTTT
13868138 TTGCCACATG
Statistics
Matches: 90, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
7 7 0.08
8 36 0.40
9 26 0.29
10 15 0.17
11 6 0.07
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:13868057 original size:17 final size:17
Alignment explanation
Indices: 13868020--13868138 Score: 100
Period size: 17 Copynumber: 6.8 Consensus size: 17
13868010 TTTTTTCGAA
* *
13868020 TTTTATAATATTTTCTAT
1 TTTTAT-ATTTTTTATAT
*
13868038 TTTTATA-CTTTTATAT
1 TTTTATATTTTTTATAT
13868054 TTTTATATTTTTTATAT
1 TTTTATATTTTTTATAT
13868071 TTTTATA-TTTTTATTAAT
1 TTTTATATTTTTTA-T-AT
* *
13868089 ATTTAATATTTTTTATAAC
1 -TTTTATATTTTTTAT-AT
*
13868108 TTTTATTTATTTTTAT-T
1 TTTTATAT-TTTTTATAT
13868125 TTTTATCATTTTTT
1 TTTTAT-ATTTTTT
13868139 TGCCACATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
16 20 0.24
17 28 0.33
18 15 0.18
19 16 0.19
20 6 0.07
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTTTATAT
Found at i:13868136 original size:36 final size:32
Alignment explanation
Indices: 13868020--13868138 Score: 112
Period size: 33 Copynumber: 3.4 Consensus size: 32
13868010 TTTTTTCGAA
* * *
13868020 TTTTATAATATTTTCTATTTTTATACTTTTATAT
1 TTTTAT-ATTTTTTATATTTTTATATTTTTAT-T
13868054 TTTTATATTTTTTATATTTTTATATTTTTATT
1 TTTTATATTTTTTATATTTTTATATTTTTATT
*
13868086 AATATTTAATATTTTTTATAACTTTTATTTATTTTTATT
1 --T-TTT-ATATTTTTTAT-A-TTTT-TATATTTTTATT
13868125 TTTTATCATTTTTT
1 TTTTAT-ATTTTTT
13868139 TGCCACATGT
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
32 1 0.01
33 22 0.30
34 7 0.10
35 5 0.07
36 21 0.29
37 2 0.03
38 4 0.05
39 11 0.15
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (32 bp):
TTTTATATTTTTTATATTTTTATATTTTTATT
Found at i:13868357 original size:91 final size:91
Alignment explanation
Indices: 13868249--13868415 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
13868239 GGGCCTTTTT
* * * *
13868249 ATTTTGACAGTTCAAGTA-TCCAATTGAGTGCA-AAAAAAAACGCAAGGGTTTAATTGTTTGTTT
1 ATTTTGAAAGTTCAAGTACT-CAATTGAGTGCAGAAAAAAAA-ACAAGGGCTTAATTATTTGTTT
*
13868312 TGAAAAAGTTTGAGGGTCTTTTTCATGC
64 TGAAAAAATTTGAGGGTCTTTTTCATGC
* * *
13868340 ATTTTGAAAGTTTAAGTACTCAATTGAGTGTAGAAAAAAAAACAAGGGCTTAATTATTTTTTTTG
1 ATTTTGAAAGTTCAAGTACTCAATTGAGTGCAGAAAAAAAAACAAGGGCTTAATTATTTGTTTTG
13868405 AAAAAATTTGA
66 AAAAAATTTGA
13868416 AGACTTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 57 0.86
92 9 0.14
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (91 bp):
ATTTTGAAAGTTCAAGTACTCAATTGAGTGCAGAAAAAAAAACAAGGGCTTAATTATTTGTTTTG
AAAAAATTTGAGGGTCTTTTTCATGC
Found at i:13869467 original size:22 final size:24
Alignment explanation
Indices: 13869441--13869484 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
13869431 ATTTTATTCA
13869441 ACTTTAATTT-TTAT-TCAAAAAC
1 ACTTTAATTTGTTATATCAAAAAC
13869463 ACTTTAATTTGTTATATCAAAA
1 ACTTTAATTTGTTATATCAAAA
13869485 CTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (24 bp):
ACTTTAATTTGTTATATCAAAAAC
Found at i:13870087 original size:26 final size:25
Alignment explanation
Indices: 13870023--13870088 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
13870013 AGATGAATTG
* * *
13870023 ATTTAAATTTTTTATTTCTTATTACA
1 ATTT-AATTTTTTATTGCTTATAAAA
*
13870049 ATTTATTATTTTTATTGCTTATAAAA
1 ATTTAAT-TTTTTATTGCTTATAAAA
13870075 ATTTAATTCTTTTA
1 ATTTAATT-TTTTA
13870089 CAATTAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 30 0.91
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTAATTTTTTATTGCTTATAAAA
Found at i:13873605 original size:30 final size:29
Alignment explanation
Indices: 13873571--13873636 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 29
13873561 AATAAACACC
13873571 AAAAATTTATTTTAAAAATAAAAAAAATAA
1 AAAAATTTATTTTAAAAAT-AAAAAAATAA
*
13873601 AAAAATGTATTTTAAAAATAAAAAAATAA
1 AAAAATTTATTTTAAAAATAAAAAAATAA
13873630 AAAAATT
1 AAAAATT
13873637 AATTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAATTTATTTTAAAAATAAAAAAATAA
Found at i:13875867 original size:25 final size:25
Alignment explanation
Indices: 13875838--13875887 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13875828 AACAAAGATT
13875838 AATTTCTTGTCGGCTATGTGTTTGC
1 AATTTCTTGTCGGCTATGTGTTTGC
13875863 AATTTCTTGTCGGCTATGTGTTTGC
1 AATTTCTTGTCGGCTATGTGTTTGC
13875888 TCTTCTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.48
Consensus pattern (25 bp):
AATTTCTTGTCGGCTATGTGTTTGC
Found at i:13876389 original size:29 final size:27
Alignment explanation
Indices: 13876356--13876447 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 27
13876346 TTTAAAAATA
13876356 ATTATATTAAGAATGTTATTAAATTATAT
1 ATTATATTAA-AAT-TTATTAAATTATAT
* * *
13876385 ATTATTTTATTAAATTATATTTAATAATA-
1 ATTATATTA--AAATT-TATTAAATTATAT
*
13876414 ATTATGTTAAAATATTATTAAATTATAT
1 ATTATATTAAAAT-TTATTAAATTATAT
13876442 AATTAT
1 -ATTAT
13876448 TTTTATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 14 0.27
28 1 0.02
29 22 0.43
30 13 0.25
31 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTATATTAAAATTTATTAAATTATAT
Found at i:13876394 original size:59 final size:58
Alignment explanation
Indices: 13876319--13876493 Score: 187
Period size: 59 Copynumber: 3.0 Consensus size: 58
13876309 TTTAATATTA
* * *
13876319 TATATTATGATTTTTATTAATTCATATTTTAAAAATAATTATATTAAGAATGTTATTAAAT
1 TATATAATTATTTTTATTAATT-ATA-TTTAAAAATAATTATATTAA-AATATTATTAAAT
* *
13876380 TATAT-ATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATTATTAAAT
1 TATATAATTATTTTTATT-AATTATATTTAAAAATAATTATATTAAAATATTATTAAAT
* ** *
13876437 TATATAATTATTTTTATTAAACTATATTTAGTAATAATCT-TATTAAAAT-TTAATAAA
1 TATATAATTATTTTTATT-AATTATATTTAAAAATAAT-TATATTAAAATATTATTAAA
13876494 AATAACAATA
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
57 17 0.17
58 29 0.28
59 43 0.42
60 8 0.08
61 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (58 bp):
TATATAATTATTTTTATTAATTATATTTAAAAATAATTATATTAAAATATTATTAAAT
Found at i:13876674 original size:16 final size:16
Alignment explanation
Indices: 13876653--13876703 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
13876643 TGAATTATTG
*
13876653 ATTGCAGTTCTATTCC
1 ATTGCAGCTCTATTCC
*
13876669 ATTGCAGCTATATTCC
1 ATTGCAGCTCTATTCC
* *
13876685 ATTACAGCCCTATTCC
1 ATTGCAGCTCTATTCC
13876701 ATT
1 ATT
13876704 CACCCCAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTGCAGCTCTATTCC
Found at i:13877090 original size:23 final size:24
Alignment explanation
Indices: 13877039--13877096 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
13877029 ATTTTCATCA
13877039 TATTATTAAATTTACATTTAAAAT
1 TATTATTAAATTTACATTTAAAAT
* *
13877063 AATTA-TAATATTTA-ATTTAGAAT
1 TATTATTAA-ATTTACATTTAAAAT
13877086 TATTAGTTAAA
1 TATTA-TTAAA
13877097 AATTACGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 15 0.54
24 10 0.36
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
TATTATTAAATTTACATTTAAAAT
Found at i:13877151 original size:23 final size:23
Alignment explanation
Indices: 13877117--13877171 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 23
13877107 AATAAAAGTG
13877117 ATAATTATACATTTAAAAATAATT
1 ATAATT-TACATTTAAAAATAATT
13877141 ATAATTTACATTTAAAAATAATT
1 ATAATTTACATTTAAAAATAATT
13877164 ATAATTTA
1 ATAATTTA
13877172 ATAAAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAATTTACATTTAAAAATAATT
Found at i:13877180 original size:23 final size:23
Alignment explanation
Indices: 13877117--13877180 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
13877107 AATAAAAGTG
**
13877117 ATAATTATACATTTAAAAATAATT
1 ATAATT-TACATAAAAAAATAATT
**
13877141 ATAATTTACATTTAAAAATAATT
1 ATAATTTACATAAAAAAATAATT
13877164 ATAATTTA-ATAAAAAAA
1 ATAATTTACATAAAAAAA
13877181 GTATGGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.18
23 25 0.66
24 6 0.16
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAATTTACATAAAAAAATAATT
Found at i:13883331 original size:6 final size:6
Alignment explanation
Indices: 13883322--13883361 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
13883312 AAAAAAGAAA
* * *
13883322 AAAATC AAAATC AAAATA AAAAAC AAAATC AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
13883362 AAGGAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (6 bp):
AAAATC
Found at i:13883362 original size:18 final size:19
Alignment explanation
Indices: 13883320--13883355 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13883310 AGAAAAAAGA
13883320 AAAAAATCAAAATCAAAAT
1 AAAAAATCAAAATCAAAAT
13883339 AAAAAA-CAAAATCAAAA
1 AAAAAATCAAAATCAAAA
13883356 ACAAAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAATCAAAATCAAAAT
Found at i:13883382 original size:29 final size:28
Alignment explanation
Indices: 13883346--13883412 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
13883336 AATAAAAAAC
13883346 AAAATCAAAAACAAAAAAGGAA-AAAA-GA
1 AAAATCAAAAAC-AAAAA-GAAGAAAAGGA
**
13883374 AAATATCAAAGTCAAAAAGAAGAAAAGGA
1 AAA-ATCAAAAACAAAAAGAAGAAAAGGA
13883403 AAAATCAAAA
1 AAAATCAAAA
13883413 TTAAAGTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
28 18 0.55
29 12 0.36
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (28 bp):
AAAATCAAAAACAAAAAGAAGAAAAGGA
Found at i:13883461 original size:6 final size:6
Alignment explanation
Indices: 13883421--13883445 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13883411 AATTAAAGTC
13883421 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
13883446 GAGAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:13884353 original size:21 final size:21
Alignment explanation
Indices: 13884324--13884365 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13884314 AAAGAATAAA
13884324 AAAAGGAAAAA-TGAAAAAATG
1 AAAAGGAAAAAGT-AAAAAATG
*
13884345 AAAATGAAAAAGTAAAAAATG
1 AAAAGGAAAAAGTAAAAAATG
13884366 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAGGAAAAAGTAAAAAATG
Found at i:13884362 original size:14 final size:14
Alignment explanation
Indices: 13884323--13884362 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13884313 AAAAGAATAA
*
13884323 AAAAAGGAAAAATG
1 AAAAAGTAAAAATG
* *
13884337 AAAAAATGAAAATG
1 AAAAAGTAAAAATG
13884351 AAAAAGTAAAAA
1 AAAAAGTAAAAA
13884363 ATGGAGAGGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAAAGTAAAAATG
Found at i:13885926 original size:88 final size:88
Alignment explanation
Indices: 13885601--13886263 Score: 838
Period size: 88 Copynumber: 7.6 Consensus size: 88
13885591 AACAGATTAG
* * * *
13885601 TGAAGATAGCAAATATTGTCTTCCTACGATGACAGCGAAGCAGATCGAAGATTCCAGCCTTG-CT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
13885665 CCATCAGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * * *
13885688 TGAAGATAGCAG-TCTTGCCTTCCTGCGATGATATCGAAGCAGATCGGAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* * *
13885752 CCCTCGATTGCAGTAGAGTAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* *
13885775 TGAAGATAGCAGATCTTGCC-TCCTACGATGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
*
13885839 CTCTCGGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * * *
13885862 TGAAGATAGTAGATCTTGCCTTCCTACAATGACAGCGAAGCAGATCGGAGTTACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
13885927 CCCTCAGTTACAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
*
13885950 TGAAGATAGCAGATCTTGCCTTCCTGCGATGACAGCGAAGCAGATC-AGAGATACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGA-AGATACCAGCCTTGCC
*
13886014 TCCCTCGGTAGCAGTGGAGCAGGT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * * * * * **
13886038 TAAAAATAACAGATCTTGCCTTCCTGC-ATAGACAGCGAAGCAAATCAAAGACCCCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTACGAT-GACAGCGAAGCAGATCGAAGATACCAGCCTTGCC
* *
13886102 TCCATCGGTTGCAGTGGAGTAGGT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * * * * * *
13886126 TAAAGATAGCAGATCTTGCCTTTCTGC-ATTGACAGCGAAGCAGATCGAAGACAACAACCTTGTC
1 TGAAGATAGCAGATCTTGCCTTCCTACGA-TGACAGCGAAGCAGATCGAAGATACCAGCCTTGCC
13886190 TCCCTCGGTTGCAGTGGAGCA-GT
65 TCCCTCGGTTGCAGTGGAGCAGGT
* * **
13886213 TGAAGATAGAAGATCTTGCTTTCCTAC-ATGACAATGAAGCAGATCGAAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGAT
13886264 TATAAGTCCT
Statistics
Matches: 501, Mismatches: 68, Indels: 15
0.86 0.12 0.03
Matches are distributed among these distances:
86 62 0.12
87 146 0.29
88 291 0.58
89 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTACGATGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
CCCTCGGTTGCAGTGGAGCAGGT
Found at i:13886012 original size:44 final size:44
Alignment explanation
Indices: 13885620--13886020 Score: 208
Period size: 44 Copynumber: 9.2 Consensus size: 44
13885610 CAAATATTGT
*
13885620 CTTCCTACGATGACAGCGAAGCAGATC-GAAGATTCCAGCCTTG-
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * * *
13885663 C-TCCATCAGTTG-CAGTGGAGCAGGT-TGAAGATAGCAGTCTTGC
1 CTTCC-TC-GATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * *
13885706 CTTCCTGCGATGATATCGAAGCAGATC-GGAGATACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * * *
13885750 CTCCCTCGATTG-CAG-TAGAGTAGGT-TGAAGATAGCAGATCTTGC
1 CTTCCTCGA-TGACAGCGA-AGCAGATCTGAAGATACCAG-CCTTGC
* *
13885794 C-TCCTACGATGACAGTGAAGTAGATC-GAAGATACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * ** *
13885837 C-TCTCTCGGTTG-CAGTGGAGCAGGT-TGAAGATAGTAGATCTTGC
1 CTTC-CTC-GATGACAGCGAAGCAGATCTGAAGATACCAG-CCTTGC
* * *
13885881 CTTCCTACAATGACAGCGAAGCAGATC-GGAGTTACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
* * * * * * *
13885925 CTCCCTC-AGTTACAGTGGAGCAGGT-TGAAGATAGCAGATCTTGC
1 CTTCCTCGA-TGACAGCGAAGCAGATCTGAAGATACCAG-CCTTGC
*
13885969 CTTCCTGCGATGACAGCGAAGCAGATCAG-AGATACCAGCCTTGC
1 CTTCCT-CGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
*
13886013 CTCCCTCG
1 CTTCCTCG
13886021 GTAGCAGTGG
Statistics
Matches: 263, Mismatches: 65, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
42 29 0.11
43 84 0.32
44 106 0.40
45 42 0.16
46 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (44 bp):
CTTCCTCGATGACAGCGAAGCAGATCTGAAGATACCAGCCTTGC
Found at i:13886056 original size:44 final size:44
Alignment explanation
Indices: 13885745--13886146 Score: 140
Period size: 44 Copynumber: 9.2 Consensus size: 44
13885735 AGATACCAGC
* * * * *
13885745 CTTGCCTCCCTCGATTGCAGTAGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * ** * *
13885789 CTTGCCT-CCTACGAT-GACAGTGAAGTAGATCGAAGATACCAG-C
1 CTTGCCTCCCT-CGATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* * * * **
13885832 CTTGCCTCTCTCGGTTGCAGTGGAGCAGGTTGAAGATAGTAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * * * *** * * *
13885876 CTTGCCTTCCTACAAT-GACAGCGAAGCAGATCGGAGTTACCAG-C
1 CTTGCCTCCCT-CGATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* * *
13885920 CTTGCCTCCCTCAGTTA-CAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTC-GATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * * * * * *
13885964 CTTGCCTTCCTGCGAT-GACAGCGAAGCAGATCAGAGATACCAG-C
1 CTTGCCTCCCT-CGATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* *
13886008 CTTGCCTCCCTCGGTAGCAGTGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
* * * ** * *** *
13886052 CTTGCCTTCCT-GCATAGACAGCGAAGCAAATCAAAGACCCCAG-C
1 CTTGCCTCCCTCG-ATAG-CAGTGGAGCAGGTTAAAGATAACAGAT
* * * * *
13886096 CTTGCCTCCATCGGTTGCAGTGGAGTAGGTTAAAGATAGCAGAT
1 CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
13886140 CTTGCCT
1 CTTGCCT
13886147 TTCTGCATTG
Statistics
Matches: 254, Mismatches: 85, Indels: 38
0.67 0.23 0.10
Matches are distributed among these distances:
43 90 0.35
44 109 0.43
45 55 0.22
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
CTTGCCTCCCTCGATAGCAGTGGAGCAGGTTAAAGATAACAGAT
Found at i:13886402 original size:40 final size:40
Alignment explanation
Indices: 13886356--13886445 Score: 180
Period size: 40 Copynumber: 2.2 Consensus size: 40
13886346 GAATACGGCA
13886356 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
1 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
13886396 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
1 AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
13886436 AATCCTATCT
1 AATCCTATCT
13886446 CCCTGAGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (40 bp):
AATCCTATCTTCAAGTATAATGAAGCAGATTGAATCCGAT
Found at i:13886504 original size:44 final size:45
Alignment explanation
Indices: 13886436--13886632 Score: 134
Period size: 44 Copynumber: 4.2 Consensus size: 45
13886426 TGAATCCGAT
*
13886436 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
* * * * * *
13886480 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CGGATTAAAAT-AA---AGA
* * ** *
13886534 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAGA
*
13886578 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
*
13886622 GATCTTATCTC
1 AATCTTATCTC
13886633 TCTAAAGTTA
Statistics
Matches: 114, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
43 4 0.04
44 63 0.55
45 3 0.03
46 1 0.01
47 2 0.02
49 10 0.09
50 4 0.04
51 2 0.02
52 1 0.01
53 3 0.03
54 20 0.18
55 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (45 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
Found at i:13886600 original size:98 final size:97
Alignment explanation
Indices: 13886421--13886602 Score: 217
Period size: 98 Copynumber: 1.9 Consensus size: 97
13886411 TATAATGAAG
* * * * *
13886421 CAGATTGAATCCGATAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCGATAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
13886486 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
13886519 CAGATTGAAGCCAGA-AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATC
1 CAGATTGAAGCC-GATAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATC
13886582 CTATCTCCCTG-AGATTACAGT
63 CTATCTCCCTGAAG-TTACAGT
13886603 GGAGCGGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
97 4 0.06
98 62 0.87
99 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCGATAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:13886768 original size:50 final size:49
Alignment explanation
Indices: 13886709--13886974 Score: 210
Period size: 50 Copynumber: 5.3 Consensus size: 49
13886699 AAGAATTACA
* *
13886709 GCGAATCTTACTTCGCTGGTAATGCAGTGGAACAGATTAAAGCCACATCG
1 GCGAATCTTACTTC-CTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
* * * * ** * *
13886759 GTGAATCTTACTTCCACGACATTGCAGTTAAAAAGATTAAAGCCACAGCA
1 GCGAATCTTACTTCC-TGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
* * * *
13886809 GCAAATCTTACCTTCCTGGCGATGTAGTGGAACAGATTAAAGCCACATCG
1 GCGAATCTTA-CTTCCTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
* * * * * **
13886859 GTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCAC-TGCG
1 GCGAATCTTACTT-CCTGGCAATGCAGTGGAAAAGATTAAAGCCACAT-CG
*** * * * * *
13886909 GCGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTGAAGCTACAACA
1 GCGAATCTTACTT-CCTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
13886959 GCGAATCTTACTTCCT
1 GCGAATCTTACTTCCT
13886975 CGACATCACA
Statistics
Matches: 165, Mismatches: 46, Indels: 11
0.74 0.21 0.05
Matches are distributed among these distances:
49 8 0.05
50 152 0.92
51 5 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (49 bp):
GCGAATCTTACTTCCTGGCAATGCAGTGGAAAAGATTAAAGCCACATCG
Found at i:13886885 original size:100 final size:99
Alignment explanation
Indices: 13886707--13886999 Score: 381
Period size: 100 Copynumber: 2.9 Consensus size: 99
13886697 CGAAGAATTA
*
13886707 CAGCGAATCTTACTTCGCTGGTAATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
1 CAGCGAATCTTACTTC-CTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
13886772 CCACGACATTGCAGTTAAAAAGATTAAAGCCACAG
65 CCACGACATTGCAGTTAAAAAGATTAAAGCCACAG
* * * *
13886807 CAGCAAATCTTACCTTCCTGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTT
1 CAGCGAATCTTA-CTTCCTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
* *
13886872 CCCCGACATTGCAGTTAAAAAGATTAAAGCCACTG
65 CCACGACATTGCAGTTAAAAAGATTAAAGCCACAG
* * * * * * * *
13886907 CGGCGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTGAAGCTACAACAGCGAATCTTACTT
1 CAGCGAATCTTACTT-CCTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTT
* ** *
13886972 CCTCGACATCACAGTT-AAACGATTAAAG
65 CCACGACATTGCAGTTAAAAAGATTAAAG
13887000 TTACGAGTCA
Statistics
Matches: 168, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
99 14 0.08
100 150 0.89
101 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (99 bp):
CAGCGAATCTTACTTCCTGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTACTTC
CACGACATTGCAGTTAAAAAGATTAAAGCCACAG
Found at i:13890206 original size:44 final size:44
Alignment explanation
Indices: 13890102--13890315 Score: 241
Period size: 44 Copynumber: 4.6 Consensus size: 44
13890092 TACGTATGAT
* *
13890102 CACTTATCACTTGTCCCTGATCAGACAAGTGTAGCT-AAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
13890145 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CAC-T-T-A----TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
13890196 CACTTATCACTTGTCACTGATTAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
13890240 CACTTATCACTTGCTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CAC-T-T-A--T-C-ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
13890291 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
13890316 AATATTCAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
43 3 0.02
44 56 0.38
45 3 0.02
46 3 0.02
47 1 0.01
48 2 0.01
49 3 0.02
50 31 0.21
51 45 0.31
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13890251 original size:51 final size:51
Alignment explanation
Indices: 13890100--13890308 Score: 258
Period size: 51 Copynumber: 4.3 Consensus size: 51
13890090 CTTACGTATG
* * *
13890100 ATCACTTATCACTTGTCCCTGATCAGACAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
*
13890150 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC--T-AC--
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
* *
13890196 --CACTTATCACTTGTCACTGATTAGATAAGTGTAGCTGAAGCTATCACTT
1 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
*
13890245 ATCACTT-GCTACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-CTACTT
1 ATCACTTATC-ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATC-ACTT
*
13890296 ATCACTTGTCACT
1 ATCACTTATCACT
13890309 GATCAGAAAT
Statistics
Matches: 137, Mismatches: 11, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
44 38 0.28
46 1 0.01
47 2 0.01
48 2 0.01
50 37 0.27
51 56 0.41
52 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTT
Found at i:13890265 original size:95 final size:94
Alignment explanation
Indices: 13890102--13890315 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 94
13890092 TACGTATGAT
*
13890102 CACTTATCACTTGTCCCTGATCAGACAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTC
1 CACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTC
13890167 ACTGATCAGATAAGTGTAGCTAAAGCTAC
66 ACTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
13890196 CACTTATCACTTGTCACTGATTAGATAAGTGTAGCTGAAGCTATCACTTATCACTTG-CTACTTG
1 CACTTATCACTTGTCACTGATCAGACAAGTGTAGCT-AAGCTACCACTTATCACTTGTC-ACTTG
13890260 TCACTGATCAGATAAGTGTAGCTAAAGCTAC
64 TCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
13890291 TACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
13890316 AATATTCAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
94 34 0.30
95 78 0.70
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (94 bp):
CACTTATCACTTGTCACTGATCAGACAAGTGTAGCTAAGCTACCACTTATCACTTGTCACTTGTC
ACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13891874 original size:22 final size:22
Alignment explanation
Indices: 13891847--13891916 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
13891837 TTAACTTGAT
13891847 TTTCTCTCTCCTCCAGCTTCTA
1 TTTCTCTCTCCTCCAGCTTCTA
** * *
13891869 TTTCTCGAAT-CT--AACTT-GA
1 TTTCTC-TCTCCTCCAGCTTCTA
13891888 TTTTCTCTCTCCTCCAGCTTCTA
1 -TTTCTCTCTCCTCCAGCTTCTA
13891911 TTTCTC
1 TTTCTC
13891917 GAATCTAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
22 18 0.53
23 2 0.06
ACGTcount: A:0.13, C:0.34, G:0.06, T:0.47
Consensus pattern (22 bp):
TTTCTCTCTCCTCCAGCTTCTA
Found at i:13891885 original size:42 final size:42
Alignment explanation
Indices: 13891838--13891935 Score: 187
Period size: 42 Copynumber: 2.3 Consensus size: 42
13891828 TTTCAATCTT
13891838 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
1 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
13891880 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
1 TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
*
13891922 TAACTTGATATTCT
1 TAACTTGATTTTCT
13891936 AACTCTCCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.18, C:0.29, G:0.07, T:0.46
Consensus pattern (42 bp):
TAACTTGATTTTCTCTCTCCTCCAGCTTCTATTTCTCGAATC
Found at i:13894464 original size:30 final size:30
Alignment explanation
Indices: 13894418--13894511 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
13894408 TTTTATTATG
*
13894418 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13894449 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
13894479 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13894509 CCA
1 CCA
13894512 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13894473 original size:15 final size:15
Alignment explanation
Indices: 13894428--13894505 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
13894418 CCAATATCTC
13894428 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13894443 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13894458 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13894473 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13894488 GATACCCATATCTTT
1 GATACCCATATCTTT
13894503 GAT
1 GAT
13894506 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13898803 original size:3 final size:3
Alignment explanation
Indices: 13898795--13898820 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13898785 AAAGAAAGAA
13898795 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13898821 AGGCAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13902470 original size:31 final size:32
Alignment explanation
Indices: 13902435--13902499 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13902425 CTTAGATAAT
13902435 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13902466 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13902498 TT
1 TT
13902500 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:13903071 original size:18 final size:19
Alignment explanation
Indices: 13903043--13903137 Score: 84
Period size: 18 Copynumber: 4.7 Consensus size: 19
13903033 TTCTTTAAAT
13903043 AAAAGCAAAAAAAAGCAAA
1 AAAAGCAAAAAAAAGCAAA
13903062 AAAAGC-AAAAAAAGCAAA
1 AAAAGCAAAAAAAAGCAAA
* *
13903080 AAAGCGCAAAAAGAGAGAGTAAA
1 AAA-AGCAAAAA-A-A-AGCAAA
** *
13903103 AAGCGCAAAAAAAAAACAAAA
1 AAAAGC-AAAAAAAAGC-AAA
13903124 AAAAGCAAAAAAAA
1 AAAAGCAAAAAAAA
13903138 AAGCGCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
18 15 0.24
19 8 0.13
20 13 0.21
21 9 0.15
22 5 0.08
23 12 0.19
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.01
Consensus pattern (19 bp):
AAAAGCAAAAAAAAGCAAA
Found at i:13903084 original size:8 final size:9
Alignment explanation
Indices: 13903043--13903082 Score: 71
Period size: 9 Copynumber: 4.3 Consensus size: 9
13903033 TTCTTTAAAT
13903043 AAAAGCAAAA
1 AAAAGC-AAA
13903053 AAAAGCAAA
1 AAAAGCAAA
13903062 AAAAGCAAA
1 AAAAGCAAA
13903071 AAAAGCAAA
1 AAAAGCAAA
13903080 AAA
1 AAA
13903083 GCGCAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGCAAA
Found at i:13903184 original size:10 final size:10
Alignment explanation
Indices: 13903043--13903137 Score: 79
Period size: 10 Copynumber: 9.4 Consensus size: 10
13903033 TTCTTTAAAT
13903043 AAAAGCAAAA
1 AAAAGCAAAA
13903053 AAAAGC-AAA
1 AAAAGCAAAA
13903062 AAAAGC-AAA
1 AAAAGCAAAA
13903071 AAAAGCAAAA
1 AAAAGCAAAA
**
13903081 AAGCGCAAAA
1 AAAAGCAAAA
*
13903091 AGAGAGAG-TAAA
1 A-A-A-AGCAAAA
**
13903103 AAGCGCAAAAA
1 AAAAGC-AAAA
*
13903114 AAAAACAAAA
1 AAAAGCAAAA
13903124 AAAAGCAAAA
1 AAAAGCAAAA
13903134 AAAA
1 AAAA
13903138 AAGCGCAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
9 19 0.28
10 35 0.52
11 8 0.12
12 4 0.06
13 1 0.01
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:13903184 original size:58 final size:57
Alignment explanation
Indices: 13903047--13903199 Score: 202
Period size: 58 Copynumber: 2.6 Consensus size: 57
13903037 TTAAATAAAA
*
13903047 GCAAAAAAAAGCAAAAAAAGCAA-AAAAAGCAAAAAAGCGCAAAAAGAGAGAGTAAAAAGC
1 GCAAAAAAAAGCAAAAAAA--AAGCAAAA--AAAAAAGCGCAAAAAGAGAGAGTAAAAAGC
*
13903107 GCAAAAAAAA-AACAAAAAAAAGCAAAAAAAAAAGCGCAAAAAAGAGAGAGTAAAAAGC
1 GCAAAAAAAAGCA-AAAAAAAAGCAAAAAAAAAAGCGC-AAAAAGAGAGAGTAAAAAGC
*
13903165 GCAAAAAAAAGCAAAAAAAAAGCGCAAAAAAAAAG
1 GCAAAAAAAAGCAAAAAAAAAGC-AAAAAAAAAAG
13903200 TTGCCTACCT
Statistics
Matches: 84, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
57 10 0.12
58 42 0.50
59 16 0.19
60 16 0.19
ACGTcount: A:0.71, C:0.11, G:0.16, T:0.01
Consensus pattern (57 bp):
GCAAAAAAAAGCAAAAAAAAAGCAAAAAAAAAAGCGCAAAAAGAGAGAGTAAAAAGC
Found at i:13903197 original size:23 final size:23
Alignment explanation
Indices: 13903107--13903197 Score: 107
Period size: 23 Copynumber: 4.0 Consensus size: 23
13903097 AGTAAAAAGC
*
13903107 GCAAAAAAAAA--ACAAAAAAAA
1 GCAAAAAAAAAGCGCAAAAAAAA
*
13903128 GCAAAAAAAAAAGCGCAAAAAAGA
1 GC-AAAAAAAAAGCGCAAAAAAAA
**
13903152 G-AGAGTAAAAAGCGCAAAAAAAA
1 GCA-AAAAAAAAGCGCAAAAAAAA
13903175 GCAAAAAAAAAGCGCAAAAAAAA
1 GCAAAAAAAAAGCGCAAAAAAAA
13903198 AGTTGCCTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.03
22 10 0.17
23 36 0.62
24 10 0.17
ACGTcount: A:0.74, C:0.11, G:0.14, T:0.01
Consensus pattern (23 bp):
GCAAAAAAAAAGCGCAAAAAAAA
Found at i:13907763 original size:31 final size:32
Alignment explanation
Indices: 13907727--13907791 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13907717 CTTAGATAAT
13907727 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13907758 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
13907790 TT
1 TT
13907792 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:13910001 original size:21 final size:21
Alignment explanation
Indices: 13909977--13910027 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
13909967 TCATCTTCAG
* * *
13909977 CAACTTCTTTTTCTTCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
*
13909998 CAACTTCCTCTTCTGCAGCAG
1 CAACTTCCTCTTCTGCAGCAA
13910019 CAACTTCCT
1 CAACTTCCT
13910028 TCTTAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAA
Found at i:13920382 original size:14 final size:14
Alignment explanation
Indices: 13920358--13920390 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13920348 GCAAGTAAAA
13920358 AAAAAAGCTATTTT
1 AAAAAAGCTATTTT
13920372 AGAAAAA-CTATTTT
1 A-AAAAAGCTATTTT
13920386 AAAAA
1 AAAAA
13920391 GCAGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (14 bp):
AAAAAAGCTATTTT
Found at i:13924330 original size:30 final size:31
Alignment explanation
Indices: 13924294--13924353 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
13924284 AAACCTTTTA
*
13924294 TTTTCCCCCAAAATTTTTATTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTATTCCCTTCCCAC
*
13924324 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTATTCCCTTCCCA
13924354 TCTCACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTATTCCCTTCCCAC
Found at i:13925109 original size:5 final size:5
Alignment explanation
Indices: 13925099--13925126 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13925089 GAAAATTTTT
13925099 GATTC GATTC GATTC GATTC GATTC GAT
1 GATTC GATTC GATTC GATTC GATTC GAT
13925127 CGAATACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (5 bp):
GATTC
Found at i:13940338 original size:25 final size:25
Alignment explanation
Indices: 13940310--13940379 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
13940300 GAGTTTAGCG
13940310 TGCTCTCTGATTATTAGCACATCAA
1 TGCTCTCTGATTATTAGCACATCAA
* *
13940335 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACATCAA
* *
13940360 TACTCTCTGATTAATAGCAC
1 TGCTCTCTGATTATTAGCAC
13940380 GCTCTTTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACATCAA
Found at i:13940389 original size:19 final size:19
Alignment explanation
Indices: 13940362--13940399 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13940352 CACGTCAGTA
13940362 CTCTCTGATTAATAGCACG
1 CTCTCTGATTAATAGCACG
* *
13940381 CTCTTTGATTACTAGCACG
1 CTCTCTGATTAATAGCACG
13940400 TTAGTGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (19 bp):
CTCTCTGATTAATAGCACG
Found at i:13940444 original size:22 final size:22
Alignment explanation
Indices: 13940393--13940479 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 22
13940383 CTTTGATTAC
* *
13940393 TAGCACGTTAGTGCTCTCCAATTTT
1 TAGCACATTAGTGCTCTCC---GTT
*
13940418 TAGCACATTGGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCCGTT
* * *
13940440 TAGCACATTTGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCCGTT
*
13940462 TAGCACTTTAGTGCTCTC
1 TAGCACATTAGTGCTCTC
13940480 TATTTAATAG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 37 0.69
25 17 0.31
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCCGTT
Found at i:13954288 original size:30 final size:30
Alignment explanation
Indices: 13954252--13954312 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13954242 AACAAGGGCA
13954252 AACTTCCTAATTCTTAAACCAAAAAACTCT
1 AACTTCCTAATTCTTAAACCAAAAAACTCT
*
13954282 AACTTCCTAATTCTTAAACCAACAAACTCT
1 AACTTCCTAATTCTTAAACCAAAAAACTCT
13954312 A
1 A
13954313 TCATAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.30
Consensus pattern (30 bp):
AACTTCCTAATTCTTAAACCAAAAAACTCT
Found at i:13968008 original size:24 final size:25
Alignment explanation
Indices: 13967981--13968036 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
13967971 GGTTTAGAAG
13967981 CAGGAGCAGAGG-GAGGTCGTGGAA
1 CAGGAGCAGAGGAGAGGTCGTGGAA
* *
13968005 CAGGAG-TGGGGAGAGGTCGTGGAA
1 CAGGAGCAGAGGAGAGGTCGTGGAA
13968029 CAGGAGCA
1 CAGGAGCA
13968037 TCCCTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.29, C:0.12, G:0.50, T:0.09
Consensus pattern (25 bp):
CAGGAGCAGAGGAGAGGTCGTGGAA
Found at i:13971742 original size:7 final size:7
Alignment explanation
Indices: 13971727--13971776 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
13971717 GAAACAAAAC
*
13971727 GAGATAA
1 GAGAGAA
13971734 GAGAGAA
1 GAGAGAA
13971741 GAGAGAA
1 GAGAGAA
13971748 GAGAGAA
1 GAGAGAA
13971755 GAGAGAA
1 GAGAGAA
*
13971762 GAAAGAA
1 GAGAGAA
13971769 GAGA-AA
1 GAGAGAA
13971775 GA
1 GA
13971777 AAAAAGTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (7 bp):
GAGAGAA
Found at i:13978418 original size:15 final size:17
Alignment explanation
Indices: 13978383--13978421 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
13978373 ATAGCTTATT
13978383 AAAAAATGTAAAATGAA
1 AAAAAATGTAAAATGAA
*
13978400 AAAAAATG-AAAA-GAC
1 AAAAAATGTAAAATGAA
13978415 AAAAAAT
1 AAAAAAT
13978422 CATAACTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 8 0.38
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (17 bp):
AAAAAATGTAAAATGAA
Found at i:13980728 original size:25 final size:26
Alignment explanation
Indices: 13980699--13980769 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
13980689 TTTCTCACAC
*
13980699 CAATTTTATCTC-AATAAAAATTTGA
1 CAATTTTACCTCTAATAAAAATTTGA
* *
13980724 CAATTTTACCTCTAGTAAAATTTTGA
1 CAATTTTACCTCTAATAAAAATTTGA
* * *
13980750 CGATTTTACCCCTGATAAAA
1 CAATTTTACCTCTAATAAAA
13980770 TTTCAAGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 11 0.29
26 27 0.71
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (26 bp):
CAATTTTACCTCTAATAAAAATTTGA
Found at i:13984769 original size:16 final size:17
Alignment explanation
Indices: 13984728--13984770 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
13984718 TTGATTTCAG
13984728 ATTAACTATTTTAAAAAT
1 ATTAA-TATTTTAAAAAT
* *
13984746 AATAATATTTTAATAAT
1 ATTAATATTTTAAAAAT
13984763 -TTAATATT
1 ATTAATATT
13984771 AAATTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATATTTTAAAAAT
Found at i:13984828 original size:62 final size:58
Alignment explanation
Indices: 13984751--13984879 Score: 172
Period size: 62 Copynumber: 2.2 Consensus size: 58
13984741 AAAATAATAA
* *
13984751 TATTTTAAT-AATTTAATATTAAATTTAATTTAAT-TTTAATCTTGTAGATAAATATTCTAT
1 TATTTTAATAAATTTAATATTAAATTTAATCTAATATTT-ATC-T-T-GATAAATATTATAT
13984811 TATTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATAT
1 TATTTTAATAA-ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATAT
*
13984870 TAATTTAATA
1 TATTTTAATA
13984880 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
59 22 0.35
60 10 0.16
61 2 0.03
62 26 0.41
63 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (58 bp):
TATTTTAATAAATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATAT
Found at i:13992706 original size:18 final size:18
Alignment explanation
Indices: 13992679--13992713 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13992669 TTCATGAGGT
*
13992679 TGTGGTTGTGGTTGTGAC
1 TGTGGCTGTGGTTGTGAC
13992697 TGTGGCTGTGGTTGTGA
1 TGTGGCTGTGGTTGTGA
13992714 GGTTCTCACT
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:0.06, C:0.06, G:0.46, T:0.43
Consensus pattern (18 bp):
TGTGGCTGTGGTTGTGAC
Found at i:13995518 original size:3 final size:3
Alignment explanation
Indices: 13995506--13995541 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
13995496 TCAATTTTTT
13995506 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
13995542 AGAATGGCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13997872 original size:18 final size:18
Alignment explanation
Indices: 13997851--13997895 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
13997841 AATTCTTTTC
13997851 ATTTTTTTAATTTT-AAAT
1 ATTTTTTT-ATTTTAAAAT
*
13997869 ATTTTTATATTTTAAAAT
1 ATTTTTTTATTTTAAAAT
13997887 ATATTTTTT
1 AT-TTTTTT
13997896 TAAAATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 13 0.57
19 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTTATTTTAAAAT
Found at i:13998325 original size:22 final size:23
Alignment explanation
Indices: 13998300--13998345 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
13998290 TTTTATTTTT
13998300 AAAAAAATAAATTTTCAT-TAAA
1 AAAAAAATAAATTTTCATGTAAA
** *
13998322 AAAAGTATAAATTTTTATGTAAA
1 AAAAAAATAAATTTTCATGTAAA
13998345 A
1 A
13998346 TATGAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAAAATAAATTTTCATGTAAA
Found at i:14002929 original size:62 final size:61
Alignment explanation
Indices: 14002808--14002929 Score: 142
Period size: 62 Copynumber: 2.0 Consensus size: 61
14002798 TATATTTGTA
****
14002808 CAATCTATTTTTATATTATTTTATTTAACAAAATAAAAGTTGTTTTGAATATTTTAATAGT
1 CAATCTATTTTTATATTATTTTATTTAACAAAATAAAAGTTGTTTTGAATAAGGCAATAGT
*
14002869 CAAT-TATTTTTATATT-TTATCCTATTTAATAAAATAAAAGTTCG-TTTGAATAAGGCAATAG
1 CAATCTATTTTTATATTATT-T--TATTTAACAAAATAAAAGTT-GTTTTGAATAAGGCAATAG
14002930 AAATAATGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
61 4 0.08
62 32 0.62
63 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (61 bp):
CAATCTATTTTTATATTATTTTATTTAACAAAATAAAAGTTGTTTTGAATAAGGCAATAGT
Found at i:14005894 original size:14 final size:15
Alignment explanation
Indices: 14005875--14005903 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14005865 GCACTACAAG
14005875 ATTATTTT-TTTAAA
1 ATTATTTTATTTAAA
14005889 ATTATTTTATTTAAA
1 ATTATTTTATTTAAA
14005904 TATCTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTTATTTAAA
Found at i:14006289 original size:22 final size:22
Alignment explanation
Indices: 14006261--14006422 Score: 153
Period size: 22 Copynumber: 7.1 Consensus size: 22
14006251 CTCTCTGATA
*
14006261 TTTAGCACGTCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
*
14006283 TTTAGCACATCTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* *
14006305 ATATTTAGCACGTCAGTGCTCTCTA
1 ---TTTAGCACATCAGTGCTCTCTG
* **
14006330 TTTAGCAAATTTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
**
14006352 ATTATTAGCATGTCAGTGCTCTCTG
1 --T-TTAGCACATCAGTGCTCTCTG
*
14006377 TTTAGCACATCTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* * *
14006399 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
14006421 TT
1 TT
14006423 CATTAGTGTA
Statistics
Matches: 112, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
22 74 0.66
23 1 0.01
24 1 0.01
25 36 0.32
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (22 bp):
TTTAGCACATCAGTGCTCTCTG
Found at i:14006319 original size:47 final size:47
Alignment explanation
Indices: 14006250--14006422 Score: 255
Period size: 47 Copynumber: 3.7 Consensus size: 47
14006240 ACTCTAGCGC
14006250 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
* * *
14006297 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTATTTAGCAAATTTGT
1 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
*
14006344 GCTCTCTGAT-TATTAGCATGTCAGTGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATAT-TTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
* *
14006391 GCTCTCTG-TA--TAGCACTTTAGTGCTCTCTGTT
1 GCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTT
14006423 CATTAGTGTA
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
44 19 0.17
46 2 0.02
47 93 0.82
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.40
Consensus pattern (47 bp):
GCTCTCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
Found at i:14015275 original size:125 final size:126
Alignment explanation
Indices: 14014952--14015339 Score: 616
Period size: 126 Copynumber: 3.1 Consensus size: 126
14014942 GCCAAGCACG
* * * *
14014952 AACTACTGTAGAAAAAGAGTGTCCATGTTGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
14015017 TGCTTGAAGCGTTTTTGATACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGG
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
* * *
14015078 AACTACTGCAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAGTTTTGTTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
14015143 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAATTTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
* *
14015204 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
14015268 TGCTTGAAACGTTTTTGTCACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
*
14015329 AACTATTGTAG
1 AACTACTGTAG
14015340 GAGAAAAAAC
Statistics
Matches: 242, Mismatches: 20, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 95 0.39
126 147 0.61
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGA
Found at i:14015481 original size:34 final size:34
Alignment explanation
Indices: 14015437--14015561 Score: 128
Period size: 34 Copynumber: 3.6 Consensus size: 34
14015427 ATTATTTTCA
* *
14015437 AAAAATCCTAAACCTTAATTTAAATAATTTTCTT
1 AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
* *
14015471 AAAAACCCTAAACCCTAATTTAATTAATTTACTT
1 AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
* *
14015505 AAAAACCTTAAAACC-TAAATTAATTAA-TTTCTTT
1 AAAAACCCT-AAACCTTAATTTAATTAATTTTC-TT
** *
14015539 AAAAAATTCTAAACCTTGATTTA
1 -AAAAACCCTAAACCTTAATTTA
14015562 TTTTTTAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
33 3 0.04
34 56 0.75
35 16 0.21
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.38
Consensus pattern (34 bp):
AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
Found at i:14023450 original size:23 final size:23
Alignment explanation
Indices: 14023417--14023524 Score: 99
Period size: 23 Copynumber: 4.7 Consensus size: 23
14023407 AATTTAAAGA
*
14023417 AAACACTTCAATTTCCAACATTT
1 AAACACTTCAATTTACAACATTT
* * * **
14023440 AAACACCTCAAATTGCAACACCT
1 AAACACTTCAATTTACAACATTT
*
14023463 AAACACTTCAATTTACAAGATTT
1 AAACACTTCAATTTACAACATTT
* * * * *
14023486 GAACACCTCCATTTACAATAATT
1 AAACACTTCAATTTACAACATTT
14023509 AAACACTTCAAATTTA
1 AAACACTTC-AATTTA
14023525 TAGCCTTTAA
Statistics
Matches: 65, Mismatches: 19, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
23 60 0.92
24 5 0.08
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.30
Consensus pattern (23 bp):
AAACACTTCAATTTACAACATTT
Found at i:14023512 original size:46 final size:46
Alignment explanation
Indices: 14023417--14023524 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
14023407 AATTTAAAGA
* * *
14023417 AAACACTTCAATTTCCAACATTTAAACACCTCAAATTGCAACACCT
1 AAACACTTCAATTTACAACATTTAAACACCTCAAATTACAACAACT
* * * * * *
14023463 AAACACTTCAATTTACAAGATTTGAACACCTCCATTTACAATAATT
1 AAACACTTCAATTTACAACATTTAAACACCTCAAATTACAACAACT
14023509 AAACACTTCAAATTTA
1 AAACACTTC-AATTTA
14023525 TAGCCTTTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
46 46 0.88
47 6 0.12
ACGTcount: A:0.43, C:0.25, G:0.03, T:0.30
Consensus pattern (46 bp):
AAACACTTCAATTTACAACATTTAAACACCTCAAATTACAACAACT
Found at i:14024568 original size:5 final size:5
Alignment explanation
Indices: 14024547--14024631 Score: 152
Period size: 5 Copynumber: 16.6 Consensus size: 5
14024537 GTTTGGATGG
14024547 GCGGTT GCGGTT GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT
1 GCGG-T GCGG-T GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT
14024599 GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT GCG
1 GCGGT GCGGT GCGGT GCGGT GCGGT GCGGT GCG
14024632 TTTAGCTTAC
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 69 0.87
6 10 0.13
ACGTcount: A:0.00, C:0.20, G:0.59, T:0.21
Consensus pattern (5 bp):
GCGGT
Found at i:14026999 original size:66 final size:66
Alignment explanation
Indices: 14026908--14027052 Score: 209
Period size: 66 Copynumber: 2.2 Consensus size: 66
14026898 GTCCGTGTGT
* * *
14026908 TAGGCTGTGTGAAAATTGGAGGGTATACTGACTTGTGCAACATGGCCAAGCCACACGCCCATATG
1 TAGGCCGTGTGAAAACTGGAGGGTATACTGACTTGTGCAACACGGCCAAGCCACACGCCCATATG
14026973 C
66 C
** ** *
14026974 TAGGCCGTGTGAAAACTGGAGGGTATACTGACTTGTGCCGCACGGCCAAGCCACACGCCTGTGTG
1 TAGGCCGTGTGAAAACTGGAGGGTATACTGACTTGTGCAACACGGCCAAGCCACACGCCCATATG
14027039 C
66 C
*
14027040 TAGGCCATGTGAA
1 TAGGCCGTGTGAA
14027053 GCTACTGACT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (66 bp):
TAGGCCGTGTGAAAACTGGAGGGTATACTGACTTGTGCAACACGGCCAAGCCACACGCCCATATG
C
Found at i:14028192 original size:25 final size:25
Alignment explanation
Indices: 14028129--14028218 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
14028119 GTACATGTAT
*
14028129 GCTCATACGAGC-G-ATAAACGGTAA
1 GCTCATCCGAGCTGAAT-AACGGTAA
*
14028153 GCTCCTCCGAGCTGAATAACGGTAA
1 GCTCATCCGAGCTGAATAACGGTAA
* * * **
14028178 GCTCATTCGATCTGAGTATTGGTAA
1 GCTCATCCGAGCTGAATAACGGTAA
**
14028203 GCTCATAAGAGCTGAA
1 GCTCATCCGAGCTGAA
14028219 ATTAGTAACC
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 10 0.19
25 40 0.77
26 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (25 bp):
GCTCATCCGAGCTGAATAACGGTAA
Found at i:14029901 original size:57 final size:56
Alignment explanation
Indices: 14029705--14029913 Score: 177
Period size: 55 Copynumber: 3.8 Consensus size: 56
14029695 AAAAAAATTA
* * * * *
14029705 GGGTGCTGGGACACTGTTGGTTGGCACTCCTTTATCTGA-T---AGAAAT-TTTTTA
1 GGGTGCTGGGACACTGATGGTCGACAC-CCTTTATCTGATTAAAAAAAATATTTTTG
* *
14029757 GGGTGCTGGGACACTGATAGTCGACACCCATTTTATCAGATTTAAAAAAAA-A--TTTG
1 GGGTGCTGGGACACTGATGGTCGACACCC--TTTATCTGA-TTAAAAAAAATATTTTTG
*
14029813 GGGTGCT-GCACACTGATGGTCGACACCCCCTTTATCTGATTAAAAAAAATATTTTTG
1 GGGTGCTGGGACACTGATGGTCGACA--CCCTTTATCTGATTAAAAAAAATATTTTTG
* * * *
14029870 GGGTGTTGGGATACTGATGGTTGACATCCCTTTATTTGA-TAAAA
1 GGGTGCTGGGACACTGATGGTCGACA-CCCTTTATCTGATTAAAA
14029914 TTTTTTTTGG
Statistics
Matches: 127, Mismatches: 16, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
51 2 0.02
52 23 0.18
53 8 0.06
54 10 0.08
55 26 0.20
56 15 0.12
57 24 0.19
58 19 0.15
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (56 bp):
GGGTGCTGGGACACTGATGGTCGACACCCTTTATCTGATTAAAAAAAATATTTTTG
Found at i:14029963 original size:53 final size:52
Alignment explanation
Indices: 14029900--14030002 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
14029890 TTGACATCCC
* * *
14029900 TTTATTTGATAAAATTTTTTTTGGGTGCTAGGACATTAATGTCCAACACCCCT
1 TTTATCTGAT-AAATTTTTTTTGGGTGCTAAGACATTAATGGCCAACACCCCT
* * *
14029953 TTTATCTGATAATTTTTTTTTGGGTGCTAAGACATTGATGGCCAGCACCC
1 TTTATCTGATAAATTTTTTTTGGGTGCTAAGACATTAATGGCCAACACCC
14030003 TAGTAGTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 35 0.80
53 9 0.20
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (52 bp):
TTTATCTGATAAATTTTTTTTGGGTGCTAAGACATTAATGGCCAACACCCCT
Found at i:14036612 original size:13 final size:13
Alignment explanation
Indices: 14036596--14036620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14036586 TTACCTTTTA
14036596 ATTTTCTTAGTTG
1 ATTTTCTTAGTTG
14036609 ATTTTCTTAGTT
1 ATTTTCTTAGTT
14036621 AAAATCTAGT
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:0.16, C:0.08, G:0.12, T:0.64
Consensus pattern (13 bp):
ATTTTCTTAGTTG
Found at i:14044685 original size:25 final size:26
Alignment explanation
Indices: 14044642--14044695 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
14044632 TTCTCCTAAA
14044642 TTTCAATTTTATATGATTATTTAAT-T
1 TTTCAATTTTATATGATTA-TTAATAT
14044668 TTTCAA-TTTAT-TGAATTATTAATAT
1 TTTCAATTTTATATG-ATTATTAATAT
14044693 TTT
1 TTT
14044696 ATGCAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.27
25 13 0.50
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATATGATTATTAATAT
Found at i:14045596 original size:3 final size:3
Alignment explanation
Indices: 14045588--14045637 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
14045578 TGAGGATCGC
*
14045588 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
14045636 GA
1 GA
14045638 TCCCACAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:14057617 original size:39 final size:40
Alignment explanation
Indices: 14057516--14057624 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 40
14057506 TTACAGAGTG
* *
14057516 AAATTTTGGAAAAC--ATTTTAAAAAAAATACAAACTGAT
1 AAATTTTTGAAAACAAATTTTAAAAAAAATACAAACCGAT
* * *
14057554 AAATTTTT-AAAA-AAGGTTTT-AAAAAAATACATACCGGT
1 AAATTTTTGAAAACAA-ATTTTAAAAAAAATACAAACCGAT
*
14057592 -GATTTTTGAAAACAAATTTTAAAAAAATATACA
1 AAATTTTTGAAAACAAATTTTAAAAAAA-ATACA
14057625 CTGACAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
37 10 0.18
38 30 0.53
39 12 0.21
40 5 0.09
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.31
Consensus pattern (40 bp):
AAATTTTTGAAAACAAATTTTAAAAAAAATACAAACCGAT
Found at i:14064569 original size:20 final size:20
Alignment explanation
Indices: 14064513--14064619 Score: 117
Period size: 20 Copynumber: 5.3 Consensus size: 20
14064503 GATGCATAAT
*
14064513 AGAGGCACCGAAGTGCAGAC
1 AGAGGCACCGAAGTGCAAAC
* * * *
14064533 AGGGGCA-TGAATATGCAATC
1 AGAGGCACCGAA-GTGCAAAC
14064553 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
*
14064573 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAC
* * *
14064593 AGAGACACCGAAGAGCAAAT
1 AGAGGCACCGAAGTGCAAAC
14064613 AGAGGCA
1 AGAGGCA
14064620 TTGAAGCACA
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
19 3 0.04
20 64 0.91
21 3 0.04
ACGTcount: A:0.41, C:0.21, G:0.30, T:0.07
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:14071965 original size:51 final size:52
Alignment explanation
Indices: 14071873--14071987 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
14071863 TTAGATATGG
*
14071873 TGAAAATGAAAAAATGGGAAACATTTGGAAATGATTATGGTTTTCTCCT-AAA
1 TGAAAATGAAAAAATGGGAAACATTTGGAAATGAATATGGTTTTCT-CTAAAA
* * * * * * *
14071925 TGAAAATGAATATAT-GGAATCATTTGTAAATTAATGTGGTTTTCTTTAAAA
1 TGAAAATGAAAAAATGGGAAACATTTGGAAATGAATATGGTTTTCTCTAAAA
14071976 TGAAAATGAAAA
1 TGAAAATGAAAA
14071988 TGAATTGGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
50 1 0.02
51 39 0.74
52 13 0.25
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.34
Consensus pattern (52 bp):
TGAAAATGAAAAAATGGGAAACATTTGGAAATGAATATGGTTTTCTCTAAAA
Found at i:14076407 original size:20 final size:20
Alignment explanation
Indices: 14076379--14076416 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14076369 TAGTTAACTT
*
14076379 TAATTTAATCATCATTAAAC
1 TAATCTAATCATCATTAAAC
14076399 TAATCTAATCATCATTAA
1 TAATCTAATCATCATTAA
14076417 GCCAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATCTAATCATCATTAAAC
Found at i:14076426 original size:20 final size:20
Alignment explanation
Indices: 14076384--14076426 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14076374 AACTTTAATT
* *
14076384 TAATCATCATTAAACTAATC
1 TAATCATCATTAAACCAAAC
*
14076404 TAATCATCATTAAGCCAAAC
1 TAATCATCATTAAACCAAAC
14076424 TAA
1 TAA
14076427 GTGGATGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (20 bp):
TAATCATCATTAAACCAAAC
Found at i:14080867 original size:29 final size:28
Alignment explanation
Indices: 14080825--14080880 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
14080815 ACTTTCATTT
*
14080825 ATTTCACACTTTAACCCCTCAATTTGCAC
1 ATTTCACAATTTAACCCCT-AATTTGCAC
* *
14080854 ATTTCATAATTTAATCCCTAATTTGCA
1 ATTTCACAATTTAACCCCTAATTTGCA
14080881 TTTTTATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (28 bp):
ATTTCACAATTTAACCCCTAATTTGCAC
Found at i:14090032 original size:18 final size:19
Alignment explanation
Indices: 14089999--14090039 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
14089989 ATGTCACTAA
14089999 AATAATAACAAGATTA-AC
1 AATAATAACAAGATTATAC
14090017 AATAA-AACAAGTATTATAC
1 AATAATAACAAG-ATTATAC
14090036 AATA
1 AATA
14090040 TCCAAGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAATAACAAGATTATAC
Found at i:14090126 original size:22 final size:23
Alignment explanation
Indices: 14090096--14090139 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14090086 AGCAAATAGG
*
14090096 AAAAAAACAA-GAAAATAGCATT
1 AAAAAAACAACAAAAATAGCATT
*
14090118 AAAACAACAACAAAAATAGCAT
1 AAAAAAACAACAAAAATAGCAT
14090140 ATTTTTTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.68, C:0.14, G:0.07, T:0.11
Consensus pattern (23 bp):
AAAAAAACAACAAAAATAGCATT
Found at i:14093737 original size:28 final size:28
Alignment explanation
Indices: 14093706--14093763 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
14093696 ATTTTTAGGC
14093706 TTAATTTTTATTATATATTAACTCAATA
1 TTAATTTTTATTATATATTAACTCAATA
14093734 TTAATTTTTATTATATATTAACTCAATA
1 TTAATTTTTATTATATATTAACTCAATA
14093762 TT
1 TT
14093764 GTATTTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAATTTTTATTATATATTAACTCAATA
Found at i:14100049 original size:14 final size:14
Alignment explanation
Indices: 14100025--14100068 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
14100015 TTGTATGAAT
*
14100025 TTTAAGATTTAGGG
1 TTTAAGATTTAGGA
14100039 TTT-AGAGTTTAGGA
1 TTTAAGA-TTTAGGA
14100053 TTTAAGATTTAGGA
1 TTTAAGATTTAGGA
14100067 TT
1 TT
14100069 GTATAGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 21 0.78
15 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (14 bp):
TTTAAGATTTAGGA
Found at i:14100063 original size:21 final size:21
Alignment explanation
Indices: 14100025--14100064 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14100015 TTGTATGAAT
* *
14100025 TTTAAGATTTAGGGTTTAGAG
1 TTTAAGATTTAAGATTTAGAG
*
14100046 TTTAGGATTTAAGATTTAG
1 TTTAAGATTTAAGATTTAG
14100065 GATTGTATAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTAAGATTTAAGATTTAGAG
Found at i:14104229 original size:13 final size:15
Alignment explanation
Indices: 14104196--14104228 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14104186 TTTCATTTCT
14104196 TTTTTAAAATATTTA
1 TTTTTAAAATATTTA
*
14104211 TTTTTAATAT-TTTA
1 TTTTTAAAATATTTA
14104225 TTTT
1 TTTT
14104229 ATGTAATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAAAATATTTA
Found at i:14105136 original size:13 final size:13
Alignment explanation
Indices: 14105118--14105142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14105108 CATTCTTTCT
14105118 TCCCTCTAAACGA
1 TCCCTCTAAACGA
14105131 TCCCTCTAAACG
1 TCCCTCTAAACG
14105143 CTTCCTTCCC
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:0.28, C:0.40, G:0.08, T:0.24
Consensus pattern (13 bp):
TCCCTCTAAACGA
Found at i:14106243 original size:21 final size:21
Alignment explanation
Indices: 14106202--14106244 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14106192 AATAAAGTAG
**
14106202 ATTATATATATTTTTTATAGT
1 ATTATATATATGATTTATAGT
14106223 ATTATATATTATGATTT-TAGT
1 ATTATATA-TATGATTTATAGT
14106244 A
1 A
14106245 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATATGATTTATAGT
Found at i:14106295 original size:38 final size:36
Alignment explanation
Indices: 14106227--14106300 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
14106217 TATAGTATTA
*
14106227 TATATTATGATTTTAGTAAATTCATATAATAATAAT
1 TATATTAAGATTTTAGTAAATTCATATAATAATAAT
*
14106263 TATATTAAGAATTTTATTAAATT-ATATTTAATAATAAT
1 TATATTAAG-ATTTTAGTAAATTCATA--TAATAATAAT
14106301 GTTAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 11 0.33
37 12 0.36
38 10 0.30
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (36 bp):
TATATTAAGATTTTAGTAAATTCATATAATAATAAT
Found at i:14107406 original size:15 final size:17
Alignment explanation
Indices: 14107385--14107425 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
14107375 TAATCTTTTA
14107385 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
14107401 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
14107417 AAAATTATA
1 AAAATTATA
14107426 TTTTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:14107447 original size:22 final size:22
Alignment explanation
Indices: 14107391--14107447 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
14107381 TTTAAAAATT
*
14107391 ATAA-AAATATAAATTATTAAA
1 ATAATAAATATATATTATTAAA
* *
14107412 ATAATAAA-ATTATATTTTTAAT
1 ATAATAAATA-TATATTATTAAA
*
14107434 ATCATAAATATATA
1 ATAATAAATATATA
14107448 ATTTAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 5 0.17
22 23 0.79
23 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATAAATATATATTATTAAA
Found at i:14109986 original size:22 final size:22
Alignment explanation
Indices: 14109940--14109986 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
14109930 GTAATATAGA
* *
14109940 TTTAATAAATGCAGAAAAATCT
1 TTTAATAAATGAAAAAAAATCT
14109962 TTTAATAAATGAAAAGAAAAT-T
1 TTTAATAAATGAAAA-AAAATCT
14109984 TTT
1 TTT
14109987 GAACTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (22 bp):
TTTAATAAATGAAAAAAAATCT
Found at i:14112755 original size:12 final size:12
Alignment explanation
Indices: 14112738--14112771 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
14112728 ATTATATTTT
14112738 TAAAAAATTATA
1 TAAAAAATTATA
*
14112750 TAAAAAATAATA
1 TAAAAAATTATA
14112762 TAAAAAATTA
1 TAAAAAATTA
14112772 ATATGGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:14112767 original size:13 final size:12
Alignment explanation
Indices: 14112738--14112775 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
14112728 ATTATATTTT
*
14112738 TAAAAAATTATA
1 TAAAAAATAATA
14112750 TAAAAAATAATA
1 TAAAAAATAATA
14112762 TAAAAAATTAATA
1 TAAAAAA-TAATA
14112775 T
1 T
14112776 GGGCAGACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAAAATAATA
Found at i:14114145 original size:22 final size:22
Alignment explanation
Indices: 14114120--14114162 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14114110 ATGAACTTAA
14114120 TTAAA-TATAATTAACTATAAAC
1 TTAAATTATAATTAA-TATAAAC
*
14114142 TTAAATTTTAATTAATATAAA
1 TTAAATTATAATTAATATAAA
14114163 AATATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAATTATAATTAATATAAAC
Found at i:14114174 original size:24 final size:23
Alignment explanation
Indices: 14114118--14114174 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
14114108 AGATGAACTT
*
14114118 AATTAAA-TATAATTAACTATAA
1 AATTAAATTTTAATTAACTATAA
*
14114140 ACTTAAATTTTAATTAA-TATAAA
1 AATTAAATTTTAATTAACTAT-AA
14114163 AATATAAATTTT
1 AAT-TAAATTTT
14114175 TTTATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.31
23 12 0.41
24 8 0.28
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAAATTTTAATTAACTATAA
Found at i:14114712 original size:22 final size:22
Alignment explanation
Indices: 14114686--14114727 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14114676 TCACTCCCAA
* *
14114686 AATCAATCACCATTTTATTAAT
1 AATCAATAACCATTCTATTAAT
14114708 AATCAATAACCATTCTATTA
1 AATCAATAACCATTCTATTA
14114728 GATTTATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (22 bp):
AATCAATAACCATTCTATTAAT
Found at i:14117356 original size:27 final size:27
Alignment explanation
Indices: 14117318--14117393 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
14117308 TAGTATTGGC
14117318 GCCTATCTGGGAGGCGCCAATGGTAGT
1 GCCTATCTGGGAGGCGCCAATGGTAGT
*
14117345 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTAGT
* *
14117372 GTC-ATACTGAGAGGCGCCAATG
1 GCCTAT-CTGGGAGGCGCCAATG
14117394 CTGTGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.20, C:0.22, G:0.37, T:0.21
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTAGT
Found at i:14117503 original size:22 final size:23
Alignment explanation
Indices: 14117450--14117503 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
14117440 TATAGAAACG
*
14117450 GAAGAAATAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
14117474 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
14117495 GAAGAAAAA
1 GAAGAAAAA
14117504 AATTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Done.