Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 256 of 325
Found at i:83466749 original size:10 final size:10
Alignment explanation
Indices: 83466722--83466792 Score: 81
Period size: 10 Copynumber: 6.9 Consensus size: 10
83466712 TTAAATTCTA
83466722 AAAGATAAAT
1 AAAGATAAAT
83466732 ACAA-ATAAAT
1 A-AAGATAAAT
*
83466742 AAAGATAATT
1 AAAGATAAAT
83466752 AAAGATAAAT
1 AAAGATAAAT
83466762 AAAGATAAAAGT
1 AAAGAT-AAA-T
* *
83466774 TAGGATAAAT
1 AAAGATAAAT
83466784 AAAGATAAA
1 AAAGATAAA
83466793 AGCTAAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
9 2 0.04
10 36 0.71
11 8 0.16
12 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:83470439 original size:94 final size:94
Alignment explanation
Indices: 83470274--83470465 Score: 305
Period size: 94 Copynumber: 2.1 Consensus size: 94
83470264 CCAACATGTT
* *
83470274 AACA-CCATATTACACATGATCTTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATTAACC
1 AACACCCATATTACACATGATATTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
83470338 CTTCAAAAACACGAAGATTACATCTTGCC
66 CTTCAAAAACACGAAGATTACATCTTGCC
* * *
83470367 AACACCCATATTACACATGATATTTTCCTATAAATACTTTCAAGAATGATGAAGATGGATCGAGC
1 AACACCCATATTACACATGATATTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
* * *
83470432 CTTCAAAAGCACTACGATTACATCTTGCC
66 CTTCAAAAACACGAAGATTACATCTTGCC
83470461 AACAC
1 AACAC
83470466 TCTTTTAGCC
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 4 0.04
94 86 0.96
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (94 bp):
AACACCCATATTACACATGATATTTTCCTATAAATACCTTCAAGAATGATGAAGATGGATCAACC
CTTCAAAAACACGAAGATTACATCTTGCC
Found at i:83472163 original size:108 final size:108
Alignment explanation
Indices: 83471989--83472204 Score: 342
Period size: 108 Copynumber: 2.0 Consensus size: 108
83471979 TATTAGCATC
*
83471989 TGGCCAAAGCAACCTTCCACAAAGATCACCTTGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
1 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
*
83472054 CCATCAACAACCAAGGACTAGTTTAGAACTCCAAACCTGACAT
66 CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
* **
83472097 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGTCAAGGA
1 TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
* * * * *
83472162 CCATTAGCAGCCTATGACCAGTTTAGAACTCCAAACCTGACAT
66 CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
83472205 AACACCAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (108 bp):
TGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATAAGCAACCAAGGA
CCATCAACAACCAAGGACCAGTTTAGAACTCCAAACCTGACAT
Found at i:83476524 original size:21 final size:21
Alignment explanation
Indices: 83476500--83476542 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
83476490 TATCATATTA
83476500 ATGCTTTCCTATTTTTTAAGG
1 ATGCTTTCCTATTTTTTAAGG
83476521 ATGCTTTCCTATTTTTTAAGG
1 ATGCTTTCCTATTTTTTAAGG
83476542 A
1 A
83476543 GAAGATGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (21 bp):
ATGCTTTCCTATTTTTTAAGG
Found at i:83479169 original size:6 final size:6
Alignment explanation
Indices: 83479158--83479190 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
83479148 GATATGAAAT
83479158 AAAAAC AAAAAC AAAAAC AAAAA- AAAAA- AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
83479191 AAAGGTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:83482895 original size:15 final size:16
Alignment explanation
Indices: 83482870--83482902 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
83482860 AGAATATATA
83482870 TTTATATTATTTTAAT
1 TTTATATTATTTTAAT
*
83482886 TTTATA-TATTTTTAT
1 TTTATATTATTTTAAT
83482901 TT
1 TT
83482903 ATTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATATTATTTTAAT
Found at i:83482896 original size:24 final size:25
Alignment explanation
Indices: 83482864--83482919 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
83482854 AAAACTAGAA
*
83482864 TATATATTTATA-TTATTTTAA-TTT
1 TATATATTTATATTTA-TTAAATTTT
*
83482888 TATATATTTTTATTTATTAAATTTT
1 TATATATTTATATTTATTAAATTTT
83482913 TATATAT
1 TATATAT
83482920 AACTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TATATATTTATATTTATTAAATTTT
Found at i:83486497 original size:16 final size:16
Alignment explanation
Indices: 83486476--83486506 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83486466 TTCACTATTA
*
83486476 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
83486492 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
83486507 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:83493645 original size:13 final size:13
Alignment explanation
Indices: 83493629--83493658 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
83493619 AAATTAACAA
83493629 AAAATATTAAATT
1 AAAATATTAAATT
83493642 AAAATATTAAATT
1 AAAATATTAAATT
83493655 AAAA
1 AAAA
83493659 ACATGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATATTAAATT
Found at i:83494162 original size:115 final size:114
Alignment explanation
Indices: 83493934--83494275 Score: 487
Period size: 115 Copynumber: 3.0 Consensus size: 114
83493924 TTTTAAATAC
* * * *
83493934 AATAACTAAAACTATTAAAATTTTGCTTTAAGTAACATTTATACCTTCTCTC---T-T-TATTGA
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTTATATATATTGA
* *
83493994 AATTGAATAAAATTGTTTTTGTCACTTCCAATTGAATTGGTGTCCAGTT
66 AATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
83494043 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTTTATATATATTG
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTC-TTATATATATTG
* * *
83494108 AAATTGAATAAAATTGTTTTTGTTATTTCCAACTGAATTGATGTCTAGTT
65 AAATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
*
83494158 AATAACTAAAAATTTTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTCTATATATATTG
1 AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCT-TATATATATTG
* ** * * *
83494223 AAATTAAATAAGGTTATTTTTGTCATTTTCAACTTAATTGGTGTCCAGTT
65 AAATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
83494273 AAT
1 AAT
83494276 TCAATTATAG
Statistics
Matches: 207, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
109 48 0.23
113 1 0.00
114 2 0.01
115 156 0.75
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (114 bp):
AATAACTAAAAATATTAAAATTTTACTTTAAATAATATTTATACCTTCTCTCTTATATATATTGA
AATTGAATAAAATTGTTTTTGTCATTTCCAACTGAATTGGTGTCCAGTT
Found at i:83494673 original size:20 final size:20
Alignment explanation
Indices: 83494648--83494704 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
83494638 ATTTCTAATA
**
83494648 TTTTTTTTGTTTTTTTCTTT
1 TTTTTTTTAATTTTTTCTTT
83494668 TTTTTTTTAATTTTTTCTAATT
1 TTTTTTTTAATTTTTTCT--TT
*
83494690 TTCTTTTTGAATTTT
1 TT-TTTTTTAATTTT
83494705 GAAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.52
22 4 0.13
23 11 0.35
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.81
Consensus pattern (20 bp):
TTTTTTTTAATTTTTTCTTT
Found at i:83494704 original size:22 final size:21
Alignment explanation
Indices: 83494639--83494704 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
83494629 AAAGTTTATA
**
83494639 TTTCTAATATTTTTTTTGTTTT
1 TTTCTAAT-TTTTTTTTGAATT
*
83494661 TTTCT--TTTTTTTTTTAATTT
1 TTTCTAATTTTTTTTTGAA-TT
83494681 TTTCTAATTTTCTTTTTGAATT
1 TTTCTAATTTT-TTTTTGAATT
83494703 TT
1 TT
83494705 GAAAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 8 0.22
20 8 0.22
22 13 0.36
23 7 0.19
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTCTAATTTTTTTTTGAATT
Found at i:83495108 original size:23 final size:23
Alignment explanation
Indices: 83495082--83495132 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
83495072 TGATTTTTAA
* *
83495082 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
*
83495105 ATTTAGGATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
83495128 ATTTA
1 ATTTA
83495133 ATAAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:83495109 original size:13 final size:13
Alignment explanation
Indices: 83495091--83495132 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
83495081 AATTTTGAAT
83495091 TATTTAGTGATAA
1 TATTTAGTGATAA
83495104 TATTTAG-GAT--
1 TATTTAGTGATAA
*
83495114 TATTTAATGATAA
1 TATTTAGTGATAA
83495127 TATTTA
1 TATTTA
83495133 ATAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:83503967 original size:21 final size:21
Alignment explanation
Indices: 83503943--83503982 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
83503933 GACTAAATAA
* *
83503943 AAAACATTTGAAAATTTTAGG
1 AAAACAGTTGAAAAATTTAGG
*
83503964 AAAAGAGTTGAAAAATTTA
1 AAAACAGTTGAAAAATTTA
83503983 AACTGTAGGG
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:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAACAGTTGAAAAATTTAGG
Found at i:83504485 original size:18 final size:19
Alignment explanation
Indices: 83504453--83504488 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
83504443 TATATATATG
83504453 TACTATAATAATTAAGTAA
1 TACTATAATAATTAAGTAA
*
83504472 TACT-TAATATTTAAGTA
1 TACTATAATAATTAAGTA
83504489 CTATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (19 bp):
TACTATAATAATTAAGTAA
Found at i:83504620 original size:12 final size:14
Alignment explanation
Indices: 83504591--83504627 Score: 60
Period size: 12 Copynumber: 2.8 Consensus size: 14
83504581 AAAACAGGGG
83504591 AGAAAAAGAGAGAA
1 AGAAAAAGAGAGAA
83504605 AGAAAAAGA-A-AA
1 AGAAAAAGAGAGAA
83504617 AGAAAAAGAGA
1 AGAAAAAGAGA
83504628 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAGAGAA
Found at i:83504622 original size:5 final size:6
Alignment explanation
Indices: 83504591--83504625 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
83504581 AAAACAGGGG
83504591 AGAAAA AGAGAGAA AGAAAA AGAAAA AGAAAA AGA
1 AGAAAA AGA-A-AA AGAAAA AGAAAA AGAAAA AGA
83504626 GAAATTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:83505277 original size:5 final size:5
Alignment explanation
Indices: 83505264--83505306 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
83505254 GAGTATTGGT
*
83505264 ATTGA ATTGT ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
83505307 ATGAGTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (5 bp):
ATTGA
Found at i:83506359 original size:26 final size:27
Alignment explanation
Indices: 83506319--83506381 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
83506309 ATGAAAAATC
*
83506319 AAAAAAGT-AGAAAAAAATCCAAACA-A
1 AAAAAAATAAGAAAAAAAT-CAAACAGA
83506345 AAAAAAATAAGAAAAAAATCAAACAGA
1 AAAAAAATAAGAAAAAAATCAAACAGA
*
83506372 AATAAAATAA
1 AAAAAAATAA
83506382 TAAATTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.76, C:0.08, G:0.06, T:0.10
Consensus pattern (27 bp):
AAAAAAATAAGAAAAAAATCAAACAGA
Found at i:83509997 original size:21 final size:21
Alignment explanation
Indices: 83509973--83510013 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83509963 CTCATGCGCG
*
83509973 TGTCCCTTGACCACATGGGCA
1 TGTCCCTTGACCACACGGGCA
*
83509994 TGTCCCTTGATCACACGGGC
1 TGTCCCTTGACCACACGGGC
83510014 GTGTGTGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTCCCTTGACCACACGGGCA
Found at i:83511259 original size:21 final size:21
Alignment explanation
Indices: 83511222--83511280 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
83511212 ATATGCCAAT
83511222 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
83511241 AGAAGCTCTTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
83511262 AGAAGCTCGTAAGAGCTGA
1 AGAAGCTCGTAAGAGCTGA
83511281 TCCACCCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.22
20 2 0.06
21 26 0.72
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:83516372 original size:18 final size:18
Alignment explanation
Indices: 83516349--83516631 Score: 117
Period size: 18 Copynumber: 15.3 Consensus size: 18
83516339 GAATAATTAT
83516349 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
83516367 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
83516385 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
* *
83516403 TTATTCAGTATCGATTAATTGATCGG
1 TTATTCAGTA---A--CA--G-TCAG
* *
83516429 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
83516447 TTATTCAGTAA-AATTAG
1 TTATTCAGTAACAGTCAG
* * * *
83516464 ATATTCGGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
83516483 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
83516500 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
83516519 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * *
83516537 TTATTCAATAATATTCAG
1 TTATTCAGTAACAGTCAG
*
83516555 TTATTTAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
83516573 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
83516591 TTA-TCCGATAACAGTCAA
1 TTATTCAG-TAACAGTCAG
* *
83516609 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
83516627 TTATT
1 TTATT
83516632 TTATACCTTT
Statistics
Matches: 192, Mismatches: 55, Indels: 36
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.09
18 140 0.73
19 20 0.10
21 2 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:83516391 original size:36 final size:36
Alignment explanation
Indices: 83516349--83516631 Score: 144
Period size: 36 Copynumber: 7.6 Consensus size: 36
83516339 GAATAATTAT
* *
83516349 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * *
83516385 TTATTCAATAATAACCAGTTATTCAGTATCGATTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
83516421 TTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATTAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * * *
83516465 -TATTCGGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
83516500 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
83516537 TTATTCAATAATATTCAGTTATTTAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
83516574 -TATCCAGTAACAGTCAATTA-TCCGATAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAG-TAACAATCAA
*
83516609 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
83516632 TTATACCTTT
Statistics
Matches: 180, Mismatches: 49, Indels: 35
0.68 0.19 0.13
Matches are distributed among these distances:
35 11 0.06
36 124 0.69
37 18 0.10
42 2 0.01
43 6 0.03
44 19 0.11
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:83516848 original size:45 final size:45
Alignment explanation
Indices: 83516799--83516993 Score: 273
Period size: 45 Copynumber: 4.3 Consensus size: 45
83516789 ATCCGGAATA
* * * * **
83516799 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTACTAAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
83516844 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
83516889 GTAACGGTAACAATAACAATATTTGACACACACAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
83516934 GTAACGGTAACAGTAACAATATTCGACACATAAAGTGCCGAATCG
1 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
83516979 GTAACAGTAGCAGTA
1 GTAACGGTAACAGTA
83516994 GCGTTAACAG
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:83517426 original size:15 final size:16
Alignment explanation
Indices: 83517389--83517449 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
83517379 CAATACACAT
83517389 TTCAATT-AA-TCATAA
1 TTCAATTCAATTCA-AA
* * *
83517404 TTCCATTCCATTC-CA
1 TTCAATTCAATTCAAA
83517419 TTCAATTCAATTCAAA
1 TTCAATTCAATTCAAA
83517435 TTCAATTCAAATTCA
1 TTCAATTC-AATTCA
83517450 CTTTTCCACT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 18 0.50
16 10 0.28
17 8 0.22
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.39
Consensus pattern (16 bp):
TTCAATTCAATTCAAA
Found at i:83517432 original size:5 final size:5
Alignment explanation
Indices: 83517402--83517449 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
83517392 AATTAATCAT
* * *
83517402 AATTC CATTC CATTC CATTC AATTC AATTC AAATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC -AATTC AATTC -AATTC A
83517450 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 29 0.74
6 10 0.26
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:83517438 original size:11 final size:11
Alignment explanation
Indices: 83517413--83517449 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
83517403 ATTCCATTCC
*
83517413 ATTCCATTC-A
1 ATTCAATTCAA
83517423 ATTCAATTCAA
1 ATTCAATTCAA
83517434 ATTCAATTCAA
1 ATTCAATTCAA
83517445 ATTCA
1 ATTCA
83517450 CTTTTCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAATTCAA
Found at i:83518844 original size:9 final size:9
Alignment explanation
Indices: 83518826--83518860 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
83518816 TTTCTTTTTC
*
83518826 ATTTCTTTT
1 ATTTCATTT
83518835 ATTTCATTT
1 ATTTCATTT
83518844 ATTTC-TTT
1 ATTTCATTT
83518852 ATTTCATTT
1 ATTTCATTT
83518861 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:83518852 original size:17 final size:18
Alignment explanation
Indices: 83518826--83518872 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
83518816 TTTCTTTTTC
83518826 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
83518844 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
83518861 CTTTATTTTATT
1 ATTTCTTTTATT
83518873 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:83518862 original size:13 final size:13
Alignment explanation
Indices: 83518826--83518868 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
83518816 TTTCTTTTTC
* *
83518826 ATTTCTTTTATTT
1 ATTTCATTTCTTT
83518839 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
83518852 ATTTCATTTCTTT
1 ATTTCATTTCTTT
83518865 ATTT
1 ATTT
83518869 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:83526255 original size:17 final size:18
Alignment explanation
Indices: 83526233--83526267 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
83526223 TTTTAGATGA
*
83526233 AAAAAATTATAA-AATTT
1 AAAAAATAATAATAATTT
83526250 AAAAAATAATAATAATTT
1 AAAAAATAATAATAATTT
83526268 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAATAATAATAATTT
Found at i:83532903 original size:16 final size:16
Alignment explanation
Indices: 83532882--83532934 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
83532872 GTTTAGTTCA
83532882 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
* *
83532898 CTGTAATTGAATAAAG
1 CTGTAATAGAATAGAG
*
83532914 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
83532930 CTGTA
1 CTGTA
83532935 GTCAGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:83533177 original size:58 final size:58
Alignment explanation
Indices: 83533115--83533238 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
83533105 TTTTAATAAG
* *
83533115 ATTATTATTAAAAATAATTTAATAAAAACAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAACAATAAATAATTTAACAAAATTCTTAACATA
* * * * *
83533173 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAACAATAAATAATTTAACAAAATTCTTAACATA
83533231 ATTATTAT
1 ATTATTAT
83533239 ATGAATTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 21 0.36
58 37 0.64
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAACAATAAATAATTTAACAAAATTCTTAACATA
Found at i:83535762 original size:41 final size:42
Alignment explanation
Indices: 83535717--83535802 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
83535707 TAATAAACAT
83535717 AATTA-AATAAGTTAAAATAAATAATATATAAAAA-AATTTAA
1 AATTACAATAAGTTAAAATAAAT-ATATATAAAAATAATTTAA
* *
83535758 AATTACATTAAGTTAAAATAAATGTATATAAAAATAATTTAA
1 AATTACAATAAGTTAAAATAAATATATATAAAAATAATTTAA
83535800 AAT
1 AAT
83535803 GAATGGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
41 15 0.37
42 26 0.63
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (42 bp):
AATTACAATAAGTTAAAATAAATATATATAAAAATAATTTAA
Found at i:83539196 original size:35 final size:35
Alignment explanation
Indices: 83539150--83539217 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
83539140 GAAGAGAAAC
83539150 GAATGTGTTTTTGTGGATTTGATAAATTGATGAGT
1 GAATGTGTTTTTGTGGATTTGATAAATTGATGAGT
*
83539185 GAATGTGTTTTTGTGGATTTGATTAATTGATGA
1 GAATGTGTTTTTGTGGATTTGATAAATTGATGA
83539218 CTGACGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (35 bp):
GAATGTGTTTTTGTGGATTTGATAAATTGATGAGT
Found at i:83543173 original size:55 final size:55
Alignment explanation
Indices: 83543107--83543211 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
83543097 CCCATGCTCA
*
83543107 ATTATGATATGTGCATAATGAAACTAGTAAGCATGATTATATACATGCATACCCT
1 ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCATACCCT
* * *
83543162 ATTATGATATGTGTATAATGAAACTAGTGAGCATGACTATGTACATGCAT
1 ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCAT
83543212 GCTCAATGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (55 bp):
ATTATGATATGTGCATAATGAAACTAGTAAGCATGACTATATACATGCATACCCT
Found at i:83553392 original size:29 final size:28
Alignment explanation
Indices: 83553340--83553414 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
83553330 AAAAAATTAT
* *
83553340 AAACTTTTAAAATATT-ATTAAATATATAA
1 AAACATTTAAAA-ATTAATAAAATA-ATAA
83553369 AAA-ATTTAAAAAGTTAATAAAATAATAA
1 AAACATTTAAAAA-TTAATAAAATAATAA
83553397 AAACGATTTAAAAATTAA
1 AAAC-ATTTAAAAATTAA
83553415 GCCCATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 1 0.03
28 16 0.40
29 14 0.35
30 9 0.22
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AAACATTTAAAAATTAATAAAATAATAA
Found at i:83553615 original size:18 final size:19
Alignment explanation
Indices: 83553594--83553636 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
83553584 TTTTAGGATA
83553594 TTTAAAAAATAAA-AATAT
1 TTTAAAAAATAAATAATAT
* *
83553612 TTTATAAAATAAATATTAT
1 TTTAAAAAATAAATAATAT
83553631 TTTAAA
1 TTTAAA
83553637 TTTTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAAAAAATAAATAATAT
Found at i:83553739 original size:20 final size:21
Alignment explanation
Indices: 83553716--83553755 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83553706 TTTATTGATT
*
83553716 TTTAAT-TTTTTTTAAATTTA
1 TTTAATATTTTTATAAATTTA
83553736 TTTAATATTTTTATAAATTT
1 TTTAATATTTTTATAAATTT
83553756 TAATAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAATATTTTTATAAATTTA
Found at i:83553752 original size:21 final size:20
Alignment explanation
Indices: 83553716--83553777 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
83553706 TTTATTGATT
*
83553716 TTTAATTTTTTTTAAATTTA
1 TTTAATTTTTTATAAATTTA
83553736 TTTAATATTTTTATAAATTT-
1 TTTAAT-TTTTTATAAATTTA
* * *
83553756 TAATAATGTTTTAGAAATTTA
1 T-TTAATTTTTTATAAATTTA
83553777 T
1 T
83553778 AATTCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTAATTTTTTATAAATTTA
Found at i:83555785 original size:25 final size:27
Alignment explanation
Indices: 83555744--83555803 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
83555734 AAAGAAAAGT
**
83555744 ATTAT-AAAATCATTTTTGGA-TAAAA
1 ATTATAAAAATCATTTTTAAATTAAAA
*
83555769 ATTATAAAAATGA-TTTTAAATTTAAAA
1 ATTATAAAAATCATTTTTAAA-TTAAAA
83555796 ATTATAAA
1 ATTATAAA
83555804 TAAAAACCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.34
26 6 0.21
27 13 0.45
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (27 bp):
ATTATAAAAATCATTTTTAAATTAAAA
Found at i:83557100 original size:19 final size:19
Alignment explanation
Indices: 83557072--83557112 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
83557062 ATAAAATAAT
*
83557072 TTTATTTATTTATTTTATA
1 TTTATGTATTTATTTTATA
*
83557091 TTTATGTATTTGTTTTATA
1 TTTATGTATTTATTTTATA
83557110 TTT
1 TTT
83557113 CACTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTATGTATTTATTTTATA
Found at i:83557648 original size:15 final size:16
Alignment explanation
Indices: 83557627--83557663 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
83557617 TTTAACTTAA
83557627 ATATTTATTAATA-TAT
1 ATATTTA-TAATAGTAT
83557643 -TATTTATAATAGTAT
1 ATATTTATAATAGTAT
83557658 ATATTT
1 ATATTT
83557664 TAAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.26
15 9 0.47
16 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTTATAATAGTAT
Found at i:83561118 original size:16 final size:16
Alignment explanation
Indices: 83561085--83561118 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
83561075 GGGGATTGTT
* *
83561085 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
83561101 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
83561117 AA
1 AA
83561119 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:83563943 original size:21 final size:21
Alignment explanation
Indices: 83563917--83563957 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83563907 AGACGAGCAA
* *
83563917 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
83563938 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
83563958 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:83565896 original size:16 final size:16
Alignment explanation
Indices: 83565863--83565896 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
83565853 GGAGATTGTT
* *
83565863 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
83565879 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
83565895 AA
1 AA
83565897 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:83566845 original size:7 final size:7
Alignment explanation
Indices: 83566833--83566857 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
83566823 GGAGGCGAGC
83566833 GAGGTAT
1 GAGGTAT
83566840 GAGGTAT
1 GAGGTAT
83566847 GAGGTAT
1 GAGGTAT
83566854 GAGG
1 GAGG
83566858 CATAAGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (7 bp):
GAGGTAT
Found at i:83579149 original size:36 final size:37
Alignment explanation
Indices: 83579080--83579149 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
83579070 AAATTTAGAT
* *
83579080 ATATCATTATATTAAATTATTTAAATATTATTTACAA
1 ATATCATTATAGTAAATTATTTAAATATCATTTACAA
*
83579117 ATATTATTATAGTAAA-TATTTAAATATCATTTA
1 ATATCATTATAGTAAATTATTTAAATATCATTTA
83579150 TTATTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (37 bp):
ATATCATTATAGTAAATTATTTAAATATCATTTACAA
Found at i:83580196 original size:3 final size:3
Alignment explanation
Indices: 83580188--83580278 Score: 77
Period size: 3 Copynumber: 32.0 Consensus size: 3
83580178 CCTGGGCAGT
* *
83580188 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
* * * *
83580230 AGA AGA AGA AAA AGA AGA AGA A-A GGA AGA A-A AGG AGA AGA AGA ATA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
83580276 AGA
1 AGA
83580279 GAAAATGGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
2 10 0.14
3 59 0.86
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:83580247 original size:37 final size:37
Alignment explanation
Indices: 83580191--83580273 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
83580181 GGGCAGTAGA
*
83580191 AGAAGAAG-AGAAAAAGAAGAA-TAAGAGAAGAAACA-G
1 AGAAGAAGAAGAAAAAGAAGAAGAAAG-GAAGAAA-AGG
83580227 AGAAGAAGAAGAAAAAGAAGAAGAAAGGAAGAAAAGG
1 AGAAGAAGAAGAAAAAGAAGAAGAAAGGAAGAAAAGG
83580264 AGAAGAAGAA
1 AGAAGAAGAA
83580274 TAAGAGAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 9 0.21
37 31 0.72
38 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (37 bp):
AGAAGAAGAAGAAAAAGAAGAAGAAAGGAAGAAAAGG
Found at i:83580413 original size:16 final size:16
Alignment explanation
Indices: 83580392--83580422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83580382 AACATTATGA
*
83580392 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
83580408 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
83580423 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:83583239 original size:21 final size:21
Alignment explanation
Indices: 83583213--83583253 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83583203 AGACGAGCAA
* *
83583213 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
83583234 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
83583254 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:83586926 original size:21 final size:21
Alignment explanation
Indices: 83586885--83586927 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
83586875 CAACGTGGCA
*
83586885 AGTTAACTGGCCACATTAGCT
1 AGTTAACTGGCCACATCAGCT
*
83586906 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
83586927 A
1 A
83586928 TCCCGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:83593009 original size:5 final size:5
Alignment explanation
Indices: 83592999--83593033 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
83592989 AATAATTAAG
83592999 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
83593034 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:83593772 original size:45 final size:45
Alignment explanation
Indices: 83593668--83593774 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
83593658 CGACTACTGT
* *
83593668 TACTGTTACCATTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGTCGAA
* *
83593713 TATTGTTACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAA
*
83593758 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
83593775 ATACTGCTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.02
45 54 0.98
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGTCGAA
Found at i:83593780 original size:18 final size:18
Alignment explanation
Indices: 83593757--83593799 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
83593747 TGTGTGTTGA
* *
83593757 ATACTGTTACTGTTACTG
1 ATACTGCTACCGTTACTG
83593775 ATACTGCTACCGTTACTG
1 ATACTGCTACCGTTACTG
83593793 ATTACTG
1 A-TACTG
83593800 ATTAGGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (18 bp):
ATACTGCTACCGTTACTG
Found at i:83594542 original size:15 final size:16
Alignment explanation
Indices: 83594524--83594564 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
83594514 GTCGAAATTT
83594524 ATAAAAAATA-AATAA
1 ATAAAAAATAGAATAA
83594539 ATAAATAAAATAGAATAA
1 AT-AA-AAAATAGAATAA
83594557 A-AAAAAAT
1 ATAAAAAAT
83594565 TTGGAGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 6 0.26
18 6 0.26
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
ATAAAAAATAGAATAA
Found at i:83599879 original size:5 final size:5
Alignment explanation
Indices: 83599869--83599896 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
83599859 TTAAGTATAT
83599869 TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
83599897 AAAAGAAACA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:83600545 original size:12 final size:12
Alignment explanation
Indices: 83600528--83600552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83600518 GCCGACTACT
83600528 GTTACTGTTACC
1 GTTACTGTTACC
83600540 GTTACTGTTACC
1 GTTACTGTTACC
83600552 G
1 G
83600553 ATTCGTCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:83600583 original size:45 final size:45
Alignment explanation
Indices: 83600530--83600636 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
83600520 CGACTACTGT
* *
83600530 TACTGTTACCGTTACTGTTACCGATTC-GTCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTCTGTGTCGAA
* * *
83600575 TATTGTTACCATTACTGTTACAGATTCAGCACTTTCTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTCGAA
*
83600620 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
83600637 ATACTGCTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTCTGTGTCGAA
Found at i:83602361 original size:13 final size:13
Alignment explanation
Indices: 83602329--83602374 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
83602319 AAATTTTAAA
83602329 ATAA-TAATAATT
1 ATAATTAATAATT
83602341 AATAATTAATAATT
1 -ATAATTAATAATT
*
83602355 ATCATT-ATAAATT
1 ATAATTAAT-AATT
83602368 ATAATTA
1 ATAATTA
83602375 CAATATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:83605104 original size:15 final size:15
Alignment explanation
Indices: 83605084--83605113 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83605074 CAATTTGGGC
*
83605084 CGTGTGGGCTACATG
1 CGTGTGGGCCACATG
83605099 CGTGTGGGCCACATG
1 CGTGTGGGCCACATG
83605114 GGCATGTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.40, T:0.23
Consensus pattern (15 bp):
CGTGTGGGCCACATG
Found at i:83611880 original size:97 final size:97
Alignment explanation
Indices: 83611710--83611985 Score: 329
Period size: 97 Copynumber: 2.9 Consensus size: 97
83611700 GCATCTTGTT
* * * *
83611710 GCTTCAATCCACTCCACTGCAACTTCAGGGAACTAAGATTTGCTATCTTCAGTCTGCTCATACTG
1 GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
*
83611775 CAATTTCAGGGAGATAAGACTCGCAACTTTTA
66 CAACTTCAGGGAGATAAGACTCGCAACTTTTA
* * * ** * *
83611807 GCTTCAAGCTGCTCCACTGTAACTTTAGGGAAATAAGATCCGCTATCTTTAGTCTGCTCCTACTT
1 GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
* * * * *
83611872 TAACTTCAGAGAGACAGGGCTCGCAACTTTTA
66 CAACTTCAGGGAGATAAGACTCGCAACTTTTA
* * * * * *
83611904 GCTTCAAGCTACTTCACTACAACCTCAGGGAAATGAGATTTGCTATCTTCAGTCTACT-CTGCTG
1 GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
*
83611968 CAACTTTAGGGAGATAAG
66 CAACTTCAGGGAGATAAG
83611986 GCTGGTGGCT
Statistics
Matches: 144, Mismatches: 35, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
96 17 0.12
97 127 0.88
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (97 bp):
GCTTCAAGCTACTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCTACTG
CAACTTCAGGGAGATAAGACTCGCAACTTTTA
Found at i:83613350 original size:27 final size:27
Alignment explanation
Indices: 83613309--83613362 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
83613299 TGTCTTGTGA
* *
83613309 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
83613336 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
83613363 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:83613764 original size:50 final size:49
Alignment explanation
Indices: 83613616--83613852 Score: 253
Period size: 50 Copynumber: 4.8 Consensus size: 49
83613606 TGAGGTTACC
* *
83613616 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
* * * * * * *
83613665 TGTGTAGTACTAAGTGCA-ACTAATATGCGTACTC-GACAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATAA-TT-GGTCACA
** *
83613715 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACA
* * * *
83613765 TGTATAGTACTAAATGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
* * *
83613814 TGTGTAGTACTAAGTGCAGGTTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATA
83613853 GCCTTGTCTA
Statistics
Matches: 152, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
48 13 0.09
49 59 0.39
50 69 0.45
51 11 0.07
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACA
Found at i:83613818 original size:99 final size:99
Alignment explanation
Indices: 83613616--83613852 Score: 273
Period size: 99 Copynumber: 2.4 Consensus size: 99
83613606 TGAGGTTACC
* * *
83613616 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTATAGTACTAAATG
* *
83613681 CAACTAATATGCGTACTCGACAACTTCGATCACG
66 CAACTAATACGCGTACTCGACAACTTCGATCACA
* ** *
83613715 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTATAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTATAGTACTAAAT
* * * * * *
83613780 GCAGGCTACTACGTGTA-TCGGATAA-TT-GGTCGCA
65 GCA-ACTAATACGCGTACTC-GACAACTTCGATCACA
* *
83613814 TGTGTAGTACTAAGTGCAGGTTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
83613853 GCCTTGTCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
99 78 0.67
100 25 0.22
101 13 0.11
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTATAGTACTAAATG
CAACTAATACGCGTACTCGACAACTTCGATCACA
Found at i:83615816 original size:89 final size:89
Alignment explanation
Indices: 83615587--83615872 Score: 276
Period size: 89 Copynumber: 3.2 Consensus size: 89
83615577 TGCTCTACTG
* *
83615587 CAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
* *
83615652 TGCCATATTTTAGCTACTCCATTTT
66 TG-CATATTTTAGCTACTCCATCTA
* ** * * ** *
83615677 CAACTTCAAGGAGATAAGGTCT--TCAACTTCAATCTGCTCCACTGTTACTTCAGGAAGATGAGA
1 CAACTTCAGGGAGATAAGG-CTAGT-GGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGA
* *
83615740 TTTG-TTGTCTTTAGTCTACTCC-TCTA
64 TTTGCATAT-TTTAG-CTACTCCATCTA
* * *
83615766 CAACTTCAGGGAGATAAGGCTAGTGGCTTTAATTTGCTTCGCTGCAACTTCAGGAAGATAAGATT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
* * * *
83615831 CGCCATATTTGATCTACTCCA-CTG
66 TG-CATATTTTAGCTACTCCATCTA
* *
83615855 CAAATTCAAGGAGATAAG
1 CAACTTCAGGGAGATAAG
83615873 ATCTTCAACT
Statistics
Matches: 155, Mismatches: 32, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
88 4 0.03
89 84 0.54
90 63 0.41
91 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (89 bp):
CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
TGCATATTTTAGCTACTCCATCTA
Found at i:83615838 original size:179 final size:178
Alignment explanation
Indices: 83615587--83615919 Score: 504
Period size: 179 Copynumber: 1.9 Consensus size: 178
83615577 TGCTCTACTG
*
83615587 CAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATT
1 CAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
* * * * * *
83615652 TGCCATATTTTAGCTACTCCATTTTCAACTTCAAGGAGATAAGGTCTTCAACTTCAATCTGCTCC
66 CGCCATATTTGAGCTACTCCA-CTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCC
* *
83615717 ACTGTTACTTCAGGAAGATGAGATTTGTTGTCTTTAGTCTACTCCTCTA
130 ACTGCTACTTCAGGAAGATAAGATTTGTTGTCTTTAGTCTACTCCTCTA
* * * *
83615766 CAACTTCAGGGAGATAAGGCTAGTGGCTTTAATTTGCTTCGCTGCAACTTCAGGAAGATAAGATT
1 CAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
* * *
83615831 CGCCATATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGTTCCT
66 CGCCATATTTGAGCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCA
*
83615896 TTGCTACTTCAGGAAGATAAGATT
131 CTGCTACTTCAGGAAGATAAGATT
83615920 GGTGGCTTAA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
178 59 0.43
179 78 0.57
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (178 bp):
CAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTGCTTCGCTGAAACTTCAGGAAGATAAGATT
CGCCATATTTGAGCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGCTCCA
CTGCTACTTCAGGAAGATAAGATTTGTTGTCTTTAGTCTACTCCTCTA
Found at i:83615905 original size:89 final size:85
Alignment explanation
Indices: 83615613--83615919 Score: 247
Period size: 89 Copynumber: 3.4 Consensus size: 85
83615603 AGACTAGTGG
** * * * *
83615613 CTTCAATCTGCTTCGCTGAAACTTCAGGAATATAAGATTTGCCATATTTTAGCTACTCCATTTTC
1 CTTCAATCTG-TTC-CTGCTACTTCAGGAAGATAAGATTTGCCATA-TTTATCTACTCCA-CTAC
83615678 AACTTCAAGGAGATAAGGTCTTCAA
62 AACTTCAAGGAGATAA-GTCTTCAA
* * * *** * *
83615703 CTTCAATCTGCTCCACTGTTACTTCAGGAAGATGAGATTTGTTGTCTTTAGTCTACTCCTCTACA
1 CTTCAATCTG-TTC-CTGCTACTTCAGGAAGATAAGATTTGCCATATTTA-TCTACTCCACTACA
* * **
83615768 ACTTCAGGGAGATAAGGCTAGT-GG
63 ACTTCAAGGAGATAAGTCT--TCAA
* * * * *
83615792 CTTTAATTTGCTTCGCTGCAACTTCAGGAAGATAAGATTCGCCATATTTGATCTACTCCACTGCA
1 CTTCAATCTG-TTC-CTGCTACTTCAGGAAGATAAGATTTGCCATATTT-ATCTACTCCACTACA
*
83615857 AATTCAAGGAGATAAGATCTTCAA
63 ACTTCAAGGAGATAAG-TCTTCAA
83615881 CTTCAATCTGTTCCTTTGCTACTTCAGGAAGATAAGATT
1 CTTCAATCTGTTCC--TGCTACTTCAGGAAGATAAGATT
83615920 GGTGGCTTAA
Statistics
Matches: 169, Mismatches: 40, Indels: 17
0.75 0.18 0.08
Matches are distributed among these distances:
87 1 0.01
88 7 0.04
89 114 0.67
90 47 0.28
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (85 bp):
CTTCAATCTGTTCCTGCTACTTCAGGAAGATAAGATTTGCCATATTTATCTACTCCACTACAACT
TCAAGGAGATAAGTCTTCAA
Found at i:83616114 original size:261 final size:262
Alignment explanation
Indices: 83615771--83616267 Score: 608
Period size: 261 Copynumber: 1.9 Consensus size: 262
83615761 CTCTACAACT
* * * * * *
83615771 TCAGGGAGATAAGGCTAGTGGCTTTAATTTGCTTCGCTGCAACTTCAGGAAGATAAGATTCGCCA
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACAACCTCAGGAAGATAAGATTCACCA
* * * **
83615836 TATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAA-CTTCAAT-CTGTTCCTTTG
66 TATTTGATCTACTCCACTGC-AACTCAAGGAGATAAGATCTGCAACCTTC-ATCCTGCTCCACTG
* * * * *
83615899 CTACTTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTC-CCTA-CTCGGGAAGATAAGATTC-
129 CTACTT-AGGAAGACAAGACTAGTGGCTTAAATCTGCTTCAACTACCTCAGGAAGATAAGATTCA
* * *
83615961 GCAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCAT
193 CCA-TCTTCGATCTACTCCACTACTACTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCAT
83616026 TGTTGC
257 TGTTGC
* * * * *
83616032 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGTATGATAAGATTCACCG
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACAACCTCAGGAAGATAAGATTCACCA
* * **
83616097 TCTTTGATCTGCTCCACTGCTGCTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
66 TATTTGATCTACTCCACTGCAACTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
* * * *
83616162 GCTTAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCATACTACCTCAGGAAGATATGATTCACC
131 ACTTAGGAAGACAAGACTAGTGGCTTAAATCTGCTTCA-ACTACCTCAGGAAGATAAGATTCACC
* *
83616227 ATCTTCGATCTACTTCACTACTACTTAGGGAGATAAGATCT
195 ATCTTCGATCTACTCCACTACTACTTAGGGAGATAAAATCT
83616268 TTGAATTCAC
Statistics
Matches: 196, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
260 50 0.26
261 89 0.45
262 3 0.02
263 52 0.27
264 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (262 bp):
TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACAACCTCAGGAAGATAAGATTCACCA
TATTTGATCTACTCCACTGCAACTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
ACTTAGGAAGACAAGACTAGTGGCTTAAATCTGCTTCAACTACCTCAGGAAGATAAGATTCACCA
TCTTCGATCTACTCCACTACTACTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCATTGTT
GC
Found at i:83616146 original size:132 final size:130
Alignment explanation
Indices: 83615771--83616267 Score: 471
Period size: 132 Copynumber: 3.8 Consensus size: 130
83615761 CTCTACAACT
* * * * * *
83615771 TCAGGGAGATAAGGCTAGTGGCTTTAATTTGCTTCGCTGCAACTTCAGGAAGATAAGATTCGCCA
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTC-CTACTACCTCAGGAAGATAAGATTCACCA
* * * * * * * * *
83615836 TATTTGATCTACTCCACTGCAAATTCAAGGAGATAAGATCTTCAACTTCAATCTGTTCCTTTGCT
65 TCTTCGATCTACTCCACTAC-TACTCAAGGAGATAAGATCTACAACTTCAACCTGCTCCATTGCT
*
83615901 AC
129 GC
* ** * * *
83615903 TTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTCC--CTA-CTCGGGAAGATAAGATTC-GCA
1 -TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCA
* * * * * * * *
83615964 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAGCCTGCTCCATTGT
65 -TCTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCTACAA-CTTCAACCTGCTCCATTGC
83616029 TGC
128 TGC
* * * *
83616032 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCTGTATGATAAGATTCACCG
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTT-CCTACTACCTCAGGAAGATAAGATTCACCA
* * * * * * *
83616097 TCTTTGATCTGCTCCACTGCTGCTCAAGGAGATAAGATCTGCAACCTTCATCCTGCTCCACTGCT
65 TCTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCTACAA-CTTCAACCTGCTCCATTGCT
83616162 GC
129 GC
* * * *
83616164 TTAGGGAGACAAGGCTAGTGGCTTAAATCTGCTTCATACTACCTCAGGAAGATATGATTCACCAT
1 TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCAT
* * *
83616229 CTTCGATCTACTTCACTACTACTTAGGGAGATAAGATCT
66 CTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCT
83616268 TTGAATTCAC
Statistics
Matches: 294, Mismatches: 63, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
128 48 0.16
129 50 0.17
130 2 0.01
131 60 0.20
132 104 0.35
133 30 0.10
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (130 bp):
TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCAT
CTTCGATCTACTCCACTACTACTCAAGGAGATAAGATCTACAACTTCAACCTGCTCCATTGCTGC
Found at i:83623154 original size:52 final size:53
Alignment explanation
Indices: 83623065--83623193 Score: 156
Period size: 53 Copynumber: 2.5 Consensus size: 53
83623055 GTACCATATC
83623065 AGACCATAGCTGGGCTATGGCATCAGTGCATTATGAT-ATGTA-CTCCCGTATA
1 AGACCATAGCTGGGCTATGGCATCAGTGCATTATGATAATGTACCT-CCGTATA
* * * *
83623117 AGACCATGGCTGGGCTATGGCATCAGTAGGA-TGTGATAATGTGCCTCCGTATA
1 AGACCATAGCTGGGCTATGGCATCAGT-GCATTATGATAATGTACCTCCGTATA
** *
83623170 AGACCATATTTGGGATATGGCATC
1 AGACCATAGCTGGGCTATGGCATC
83623194 GGTATGATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
52 31 0.47
53 33 0.50
54 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (53 bp):
AGACCATAGCTGGGCTATGGCATCAGTGCATTATGATAATGTACCTCCGTATA
Found at i:83624635 original size:38 final size:38
Alignment explanation
Indices: 83624584--83624728 Score: 157
Period size: 38 Copynumber: 3.8 Consensus size: 38
83624574 AAAGGCCCGA
*
83624584 ATATAATACCAGCACTAGGCCTACGGGATTTAACCCAG
1 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCAG
* *
83624622 ATATAACACCAGCA-TGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACT-AGGCCTGCGGGATTTAACCCAG
* * * *
83624660 ATATATTACCAGCACGAGGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCAG
* * * * * *
83624698 TTATATTACTAGCACAAAGCTTGCGGGATTT
1 ATATAATACCAGCACTAGGCCTGCGGGATTT
83624729 TAAGCCCGGA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 89 0.99
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACTAGGCCTGCGGGATTTAACCCAG
Found at i:83624723 original size:76 final size:76
Alignment explanation
Indices: 83624584--83624728 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 76
83624574 AAAGGCCCGA
* **
83624584 ATATAATACCAGCACTAGGCCTACGGGATTTAACCCAGATATAACACCAGCATGAAGCCTGCGGG
1 ATATAATACCAGCACGAGGCCTACGGGATTTAACCCAGATATAACACCAGCACAAAGCCTGCGGG
83624649 ATTTAACCCAG
66 ATTTAACCCAG
* ** * * ** * *
83624660 ATATATTACCAGCACGAGGCCTGTGGGATTTAACCCGGTTATATTACTAGCACAAAGCTTGCGGG
1 ATATAATACCAGCACGAGGCCTACGGGATTTAACCCAGATATAACACCAGCACAAAGCCTGCGGG
83624725 ATTT
66 ATTT
83624729 TAAGCCCGGA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 57 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (76 bp):
ATATAATACCAGCACGAGGCCTACGGGATTTAACCCAGATATAACACCAGCACAAAGCCTGCGGG
ATTTAACCCAG
Found at i:83630237 original size:45 final size:43
Alignment explanation
Indices: 83630117--83630245 Score: 145
Period size: 46 Copynumber: 3.0 Consensus size: 43
83630107 CTTTTATTCA
* * * *
83630117 TTCACCGGCAT-TTCGCCTACTAGGCTC-AAGGCCCGATATCAT
1 TTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGA-ATAAT
*
83630159 TTCACCGGCATTATAGCCTGCTAGGCTCAAAAGGCCCGAATAAT
1 TTCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATAAT
* *
83630203 GTCTCACTGGCATAATAGCCTGCTAGGCTCAAAGGCCCTAATA
1 -T-TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
83630246 TAATACCAGC
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 13 0.17
44 4 0.05
45 22 0.29
46 25 0.33
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
TTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAAT
Found at i:83630294 original size:38 final size:38
Alignment explanation
Indices: 83630243--83630400 Score: 190
Period size: 38 Copynumber: 4.1 Consensus size: 38
83630233 AAAGGCCCTA
* * *
83630243 ATATAATACCAGCACTAGGCCTACGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
83630281 ATATAATACCAGCATGAAGCTTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * * *
83630319 ATATATTATCTGCACGAAGCTTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
83630357 TTATATTACCAGCACGAAGCCTGCGGGATTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGG
83630397 ATAT
1 ATAT
83630401 CATATTTCGA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 90 0.88
39 5 0.05
40 7 0.07
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:83633169 original size:17 final size:18
Alignment explanation
Indices: 83633147--83633183 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83633137 CAAATCCTCC
*
83633147 TATTTTG-CTCTACAAAT
1 TATTTTGCCACTACAAAT
83633164 TATTTTGCCACTACAAAT
1 TATTTTGCCACTACAAAT
83633182 TA
1 TA
83633184 GCCTATAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (18 bp):
TATTTTGCCACTACAAAT
Found at i:83647023 original size:56 final size:57
Alignment explanation
Indices: 83646972--83647102 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
83646962 TTTTAATAAG
* *
83646972 ATTATTATTAAATATAATTTAATAATA-AATAAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATCATATTTTAACATA
* * * * *
83647028 ATTTTTATTAAAAATAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATCATATT-TTAACATA
*
83647086 AATATTA-TAAAAATAAT
1 ATTATTATTAAAAATAAT
83647103 ATATAACCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 24 0.38
57 28 0.44
58 12 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATCATATTTTAACATA
Found at i:83654678 original size:40 final size:40
Alignment explanation
Indices: 83654600--83654728 Score: 159
Period size: 41 Copynumber: 3.2 Consensus size: 40
83654590 TGACAATGCT
* * *
83654600 ACTAAAAACTGAGCAATAGCGGCAGTTTTTGTTAAAACGCC
1 ACTAAAAACAGAGCATTAGCGGC-GTTTTTGGTAAAACGCC
*
83654641 ACTAAAAACAGAGCATTAGTGGCGTTTTTGGTAAAACGCC
1 ACTAAAAACAGAGCATTAGCGGCGTTTTTGGTAAAACGCC
* * * * *
83654681 GCTAAAGACCAGAGCATTGGCGGTGCTTTTGGTAAAACGCC
1 ACTAAA-AACAGAGCATTAGCGGCGTTTTTGGTAAAACGCC
83654722 ACTAAAA
1 ACTAAAA
83654729 GTCATGTAAC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
40 22 0.29
41 54 0.71
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTAAAAACAGAGCATTAGCGGCGTTTTTGGTAAAACGCC
Found at i:83655366 original size:24 final size:24
Alignment explanation
Indices: 83655339--83655387 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
83655329 CATATATTTA
*
83655339 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
83655363 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
83655387 T
1 T
83655388 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:83656240 original size:14 final size:13
Alignment explanation
Indices: 83656191--83656242 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
83656181 TTAATTTTTT
83656191 TATTTATAAAAACCA
1 TATTTATAAAAA--A
83656206 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
83656218 TAGTAATAAAAAA
1 TATTTATAAAAAA
83656231 TATTTTATAAAA
1 TA-TTTATAAAA
83656243 TTACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:83660830 original size:19 final size:19
Alignment explanation
Indices: 83660807--83660853 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
83660797 ATTTAATCTA
*
83660807 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
83660825 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
83660845 ATTTTTATT
1 ATTTTTATT
83660854 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:83660963 original size:21 final size:22
Alignment explanation
Indices: 83660933--83660973 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
83660923 TTGATAATGA
*
83660933 ATTTTAATTTTTTTATATTTTT
1 ATTTTAATTTTTTTAAATTTTT
83660955 ATTTT-ATTTTTTTAAATTT
1 ATTTTAATTTTTTTAAATTT
83660974 CATGACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTAATTTTTTTAAATTTTT
Found at i:83661998 original size:27 final size:26
Alignment explanation
Indices: 83661968--83662057 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 26
83661958 ATTGTTGTAG
83661968 AGCCACCAGATCAGATAATCGTGGCAT
1 AGCCACCAGATCAGATAAT-GTGGCAT
* *
83661995 AGCCACCAGAACAGATATATGTGGCAG
1 AGCCACCAGATCAGATA-ATGTGGCAT
*
83662022 AGCAACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGATCAGATAA-TGTGGCAT
83662049 AGCCACCAG
1 AGCCACCAG
83662058 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.95
28 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
AGCCACCAGATCAGATAATGTGGCAT
Found at i:83662024 original size:54 final size:54
Alignment explanation
Indices: 83661944--83662057 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
83661934 GTGACGAAGT
* * *
83661944 CACCAGATACAAATATTGTTGTAGAGCCACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATACAAATATTGTGGCAGAGCAACCAGATCAGATAATCGTGGCATAGC
* *
83661998 CACCAGA-ACAGATATATGTGGCAGAGCAACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATACAAATAT-TGTGGCAGAGCAACCAGATCAGATAATCGTGGCATAGC
83662052 CACCAG
1 CACCAG
83662058 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 7 0.13
54 47 0.87
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (54 bp):
CACCAGATACAAATATTGTGGCAGAGCAACCAGATCAGATAATCGTGGCATAGC
Found at i:83663692 original size:26 final size:26
Alignment explanation
Indices: 83663661--83663768 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
83663651 TGAAATGCCC
*
83663661 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
83663687 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
83663713 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
83663739 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83663765 ATCA
1 ATCA
83663769 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83669006 original size:27 final size:27
Alignment explanation
Indices: 83668958--83669286 Score: 176
Period size: 27 Copynumber: 11.9 Consensus size: 27
83668948 GCGAGGCTGC
* *
83668958 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
83668985 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
83669011 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
83669038 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
83669065 TAGATATATGTGGCAGAGCAACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
83669092 CGGATAATTGTGGCATAGCCACTAGGACGCTTC
1 CAGAT-ATTGTGGCAGAGCCACCA-GA----TA
** * * ** **
83669125 CTCCATAATATAACCCATGTCC-CCATGCA-A
1 C-AGATATTGTGGCAGA-G-CCACCA-G-ATA
* * *
83669155 CAAATATTATGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
83669181 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
83669208 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
83669235 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
83669262 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
83669287 GACGCTTCCT
Statistics
Matches: 232, Mismatches: 44, Indels: 52
0.71 0.13 0.16
Matches are distributed among these distances:
26 19 0.08
27 174 0.75
28 15 0.06
29 7 0.03
30 1 0.00
32 1 0.00
33 6 0.03
34 6 0.03
35 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:83669051 original size:54 final size:54
Alignment explanation
Indices: 83668976--83669286 Score: 290
Period size: 54 Copynumber: 5.6 Consensus size: 54
83668966 GTGACGAAGT
*
83668976 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
* * *
83669030 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
* * * * * * * * *
83669084 AACCAGATCGGATAATTGTGGCATAGCCACTAGGAC-GCTTCCTCCATAAT-ATA-ACC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAG-AT-AT--AT-GTGGTAGAGC
* * * * * * *
83669140 CATGTCCCCATGCAACAAAT-ATTATGGTAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CA-----CCA-G-ATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
83669200 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
83669254 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
83669287 GACGCTTCCT
Statistics
Matches: 201, Mismatches: 39, Indels: 34
0.73 0.14 0.12
Matches are distributed among these distances:
53 11 0.05
54 144 0.72
55 4 0.02
56 3 0.01
57 3 0.01
58 2 0.01
59 3 0.01
60 4 0.02
61 4 0.02
62 18 0.09
63 5 0.02
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGTAGAGC
Found at i:83669280 original size:170 final size:170
Alignment explanation
Indices: 83668988--83669331 Score: 589
Period size: 170 Copynumber: 2.0 Consensus size: 170
83668978 CCAGATACAG
* *
83668988 ATATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATCGTGGCA
1 ATATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCA
* * *
83669053 TAGCCACCAGAATAGATATATGTGGCAGAGCAACCAGATCGGATAATTGTGGCATAGCCACTAGG
66 TAGCCACCAGAACAGATATATGTGGCAGAGCAACCAGATCAGATAATTGTGGCATAGCCACCAGG
83669118 ACGCTTCCTCCATAATATAACCCATGTCCCCATGCAACAA
131 ACGCTTCCTCCATAATATAACCCATGTCCCCATGCAACAA
* * *
83669158 ATATTATGGTAGAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCA
1 ATATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCA
* *
83669223 TAGCCACCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
66 TAGCCACCAGAACAGATATATGTGGCAGAGCAACCAGATCAGATAATTGTGGCATAGCCACCAGG
*
83669288 ACGCTTCCTCCATAATATAACCCATGTCCCCATGCAACAG
131 ACGCTTCCTCCATAATATAACCCATGTCCCCATGCAACAA
83669328 ATAT
1 ATAT
83669332 ATAATCATGG
Statistics
Matches: 163, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 163 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (170 bp):
ATATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCA
TAGCCACCAGAACAGATATATGTGGCAGAGCAACCAGATCAGATAATTGTGGCATAGCCACCAGG
ACGCTTCCTCCATAATATAACCCATGTCCCCATGCAACAA
Found at i:83670925 original size:26 final size:26
Alignment explanation
Indices: 83670894--83671001 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
83670884 TGAAATGCCC
*
83670894 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
83670920 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
83670946 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
83670972 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83670998 ATCA
1 ATCA
83671002 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83673763 original size:6 final size:6
Alignment explanation
Indices: 83673733--83673801 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
83673723 AAGAAACATT
* * *
83673733 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
83673783 A-CAGA ATTAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
83673802 GTGAATGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 3 0.06
6 42 0.84
7 4 0.08
8 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:83673959 original size:27 final size:26
Alignment explanation
Indices: 83673919--83674026 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
83673909 AGCATAACTG
* *
83673919 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
83673945 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAAAGCCA
*
83673972 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAAAGCCA
*
83673999 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAAAGCCA
83674026 C
1 C
83674027 TTAACAGAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 12 0.16
27 53 0.73
28 8 0.11
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:83674052 original size:54 final size:55
Alignment explanation
Indices: 83673919--83674052 Score: 134
Period size: 54 Copynumber: 2.5 Consensus size: 55
83673909 AGCATAACTG
* * * * *
83673919 CCAGAACAGATAT-TGT-GACAAAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATACGTGGACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCA
** *
83673972 CCAGAACAGATATTTGTGG-CATAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATACGTGGACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCA
**
83674026 -CTTAACAGA-ATACGTGGCACAAAGCCA
1 CCAGAACAGATATACGTGG-ACAAAGCCA
83674053 TCGATAACTG
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
52 6 0.09
53 20 0.30
54 40 0.60
55 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (55 bp):
CCAGAACAGATATACGTGGACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:83674213 original size:22 final size:22
Alignment explanation
Indices: 83674185--83674249 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
83674175 GTAAATACGT
* *
83674185 TTGGCACACATCCATAATCAGG
1 TTGGCACAGAGCCATAATCAGG
*
83674207 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAGAGCCATAAT-CAGG
83674229 TTGGCACAGAGCCATAATCAG
1 TTGGCACAGAGCCATAATCAG
83674250 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAGAGCCATAATCAGG
Found at i:83674655 original size:27 final size:27
Alignment explanation
Indices: 83674625--83674687 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
83674615 AGGGGCAAAA
83674625 TGGTAATTTTGCTAATCGAGGGTATTT
1 TGGTAATTTTGCTAATCGAGGGTATTT
* *
83674652 TGGTAATTTTTCTAATTGAGGGTATTT
1 TGGTAATTTTGCTAATCGAGGGTATTT
**
83674679 CAGTAATTT
1 TGGTAATTT
83674688 GGTAAACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.48
Consensus pattern (27 bp):
TGGTAATTTTGCTAATCGAGGGTATTT
Found at i:83676718 original size:25 final size:25
Alignment explanation
Indices: 83676684--83676744 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
83676674 AATCAAAATG
*
83676684 AGAATAAGAATCAAAATCAAGTGAC
1 AGAATCAGAATCAAAATCAAGTGAC
* * * *
83676709 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAAAATCAAGTGAC
*
83676734 AAAATCAGAAT
1 AGAATCAGAAT
83676745 TAGTATTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAAAATCAAGTGAC
Found at i:83676745 original size:25 final size:25
Alignment explanation
Indices: 83676704--83676775 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
83676694 TCAAAATCAA
83676704 GTGACAGAATCAGAATTAGAATTAG
1 GTGACAGAATCAGAATTAGAATTAG
* *
83676729 GTGACAAAATCAGAATTAGTATTAG
1 GTGACAGAATCAGAATTAGAATTAG
* * *
83676754 GTAACAGAATTAGAATCAGAAT
1 GTGACAGAATCAGAATTAGAAT
83676776 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (25 bp):
GTGACAGAATCAGAATTAGAATTAG
Found at i:83676931 original size:27 final size:26
Alignment explanation
Indices: 83676894--83677000 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 26
83676884 GTATGGCTGT
* *
83676894 CAGAACAGATATTGTGACAAAGTCAC
1 CAGAACAGATATTGTGGCAAAGCCAC
83676920 CAGATACAGATATTGTGGCAAAGCCAC
1 CAGA-ACAGATATTGTGGCAAAGCCAC
* *
83676947 CAGAACAGGTATTTGTGGCATAGCCAC
1 CAGAACAGATA-TTGTGGCAAAGCCAC
*
83676974 CAGAAACAGATAATGTGGCAAAGCCAC
1 CAG-AACAGATATTGTGGCAAAGCCAC
83677001 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.14
27 54 0.76
28 7 0.10
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAAAGCCAC
Found at i:83677026 original size:54 final size:55
Alignment explanation
Indices: 83676909--83677026 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 55
83676899 CAGATATTGT
* * * * **
83676909 GACAAAGTCACCAGATACAGATATTGTGGCAAAGCCACCAGAACAGGTATTTGTG
1 GACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGGAATACGTG
* **
83676964 G-CATAGCCACCAGAAACAGATAATGTGGCAAAGCCA-CTTAACA-GAATACGTG
1 GACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGGAATACGTG
83677016 GCACAAAGCCA
1 G-ACAAAGCCA
83677027 TCGATAACTG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
52 7 0.14
53 5 0.10
54 38 0.75
55 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (55 bp):
GACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGGAATACGTG
Found at i:83677195 original size:22 final size:22
Alignment explanation
Indices: 83677161--83677223 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
83677151 AAATACGTTA
83677161 GGCACACAA-CCATAATCAGGTT
1 GGCACA-AAGCCATAATCAGGTT
* *
83677183 GGCACAGAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
83677205 GGCACAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
83677224 AATAATTAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:83677628 original size:27 final size:27
Alignment explanation
Indices: 83677598--83677741 Score: 146
Period size: 27 Copynumber: 5.3 Consensus size: 27
83677588 GGGGCAAAAT
* *
83677598 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
83677625 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
83677652 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
83677679 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * * *
83677706 AATAATTCTACCCTATAATGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
83677733 GATAATTTT
1 GGTAATTTT
83677742 GTAAATCGAG
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 89 0.93
28 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:83677719 original size:54 final size:54
Alignment explanation
Indices: 83677600--83677741 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 54
83677590 GGCAAAATGG
* * * * * *
83677600 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAA
* *
83677654 TATTTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAA
* * *
83677708 TAATTCTACCCTATAATGGTATTTCGATAATTTT
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTTT
83677742 GTAAATCGAG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCAA
Found at i:83677755 original size:27 final size:27
Alignment explanation
Indices: 83677725--83678009 Score: 79
Period size: 27 Copynumber: 10.6 Consensus size: 27
83677715 ACCCTATAAT
*
83677725 GGTATTTCGATAATTTTGTAAATCGAG
1 GGTATTTCGATAATTTTATAAATCGAG
*** * * * *
83677752 GGTAAAAC-ATTAATTCTGTAAATTGGG
1 GGTATTTCGA-TAATTTTATAAATCGAG
* * *
83677779 GGTACTTT-GGTAATTTTACAAGTCGAG
1 GGTA-TTTCGATAATTTTATAAATCGAG
** *
83677806 GGTATTTC-AGTAATTTTATAGGTTGAG
1 GGTATTTCGA-TAATTTTATAAATCGAG
* * * *
83677833 GGTATTT-TAGTAATTTCACAAATCAAG
1 GGTATTTCGA-TAATTTTATAAATCGAG
* * * * *
83677860 GATATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGATAATTTTATAAATCGA-G
* * * *
83677887 GGTATTTTGGTAATTTTACAAA-CCAG
1 GGTATTTCGATAATTTTATAAATCGAG
* * *
83677913 AGGTATTTTGGTAATTTTGCT-AATCGAG
1 -GGTATTTCGATAATTTT-ATAAATCGAG
* * *
83677941 GGTATTTTGGTAATTTT-TCTAATCGAG
1 GGTATTTCGATAATTTTAT-AAATCGAG
* * *
83677968 GGTA-TTC-AGTAATTTTGTAAACCAAG
1 GGTATTTCGA-TAATTTTATAAATCGAG
83677994 GGTATTTC-AGTAATTT
1 GGTATTTCGA-TAATTT
83678010 GGTAAACTAA
Statistics
Matches: 201, Mismatches: 41, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
25 1 0.00
26 25 0.12
27 172 0.86
28 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCGATAATTTTATAAATCGAG
Found at i:83677820 original size:54 final size:53
Alignment explanation
Indices: 83677762--83677988 Score: 190
Period size: 54 Copynumber: 4.2 Consensus size: 53
83677752 GGTAAAACAT
* * *
83677762 TAATTCTGTAAATTGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTGTAAATTGAGGGTATTTTGGTAATTTTACAA-TCGAGGGTATTTCAG
* ** * * * * **
83677816 TAATTTTATAGGTTGAGGGTATTTTAGTAATTTCACAAATCAAGGATATTTTGG
1 TAATTTTGTAAATTGAGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTCAG
** * * * **
83677870 TAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGG
1 TAATTTTGTAAATTGA-GGGTATTTTGGTAATTTTACAATCGAG-GGTATTTCAG
* *
83677924 TAATTTTGCT-AATCGAGGGTATTTTGGTAATTTTTCTAATCGAGGGTA-TTCAG
1 TAATTTTG-TAAATTGAGGGTATTTTGGTAATTTTAC-AATCGAGGGTATTTCAG
83677977 TAATTTTGTAAA
1 TAATTTTGTAAA
83677989 CCAAGGGTAT
Statistics
Matches: 136, Mismatches: 30, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
52 1 0.01
53 19 0.14
54 108 0.79
55 8 0.06
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
TAATTTTGTAAATTGAGGGTATTTTGGTAATTTTACAATCGAGGGTATTTCAG
Found at i:83677869 original size:81 final size:80
Alignment explanation
Indices: 83677784--83678009 Score: 215
Period size: 81 Copynumber: 2.8 Consensus size: 80
83677774 TTGGGGGTAC
* ****
83677784 TTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTA-TAGGTTGAGGGTATTTTAGTAATT
1 TTTGGTAATTTTACAA-TCGAGGGTATTTCAGTAATTTTACAAACCAGA-GGTATTTTAGTAATT
83677848 TCACAAATCAAGGATAT
64 TCACAAATCAAGGATAT
* * ** *
83677865 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAATCGA-GGGTATTTCAGTAATTTTACAAACCAGAGGTATTTTAGTAATTT
** * * *
83677930 TGCTAATCGAGGGTAT
65 CACAAATCAAGGATAT
* ** *
83677946 TTTGGTAATTTTTCTAATCGAGGGTA-TTCAGTAATTTTGTAAACCA-AGGGTATTTCAGTAATT
1 TTTGGTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTACAAACCAGA-GGTATTTTAGTAATT
83678009 T
64 T
83678010 GGTAAACTAA
Statistics
Matches: 117, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
79 1 0.01
80 32 0.27
81 77 0.66
82 7 0.06
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (80 bp):
TTTGGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAACCAGAGGTATTTTAGTAATTTC
ACAAATCAAGGATAT
Found at i:83677995 original size:26 final size:27
Alignment explanation
Indices: 83677966--83678016 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
83677956 TTTCTAATCG
*
83677966 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTGGTAAACCA
83677992 AGGGTATTTCAGTAATTTGGTAAAC
1 AGGGTATTTCAGTAATTTGGTAAAC
83678017 TAAAGTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTGGTAAACCA
Found at i:83678024 original size:26 final size:27
Alignment explanation
Indices: 83677972--83678025 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
83677962 ATCGAGGGTA
* *
83677972 TTCAGTAATTTTGTAAACCAAGGGTAT
1 TTCAGTAATTTGGTAAACCAAGAGTAT
*
83677999 TTCAGTAATTTGGTAAACTAA-AGTAT
1 TTCAGTAATTTGGTAAACCAAGAGTAT
83678025 T
1 T
83678026 CTAAACAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (27 bp):
TTCAGTAATTTGGTAAACCAAGAGTAT
Found at i:83686020 original size:24 final size:24
Alignment explanation
Indices: 83685959--83686021 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
83685949 ATATGTCATA
* *
83685959 AATTAATCCTTTGAATTTACCATC
1 AATTCATCCTTTGCATTTACCATC
* * *
83685983 AATTTATCCTTTGCATTTATCGTC
1 AATTCATCCTTTGCATTTACCATC
*
83686007 AATTCATTCTTTGCA
1 AATTCATCCTTTGCA
83686022 CAGAACGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (24 bp):
AATTCATCCTTTGCATTTACCATC
Found at i:83686462 original size:17 final size:17
Alignment explanation
Indices: 83686440--83686474 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83686430 GATAATTTAT
83686440 TTAAATATTCTAGGCTA
1 TTAAATATTCTAGGCTA
83686457 TTAAATATTCTAGGCTA
1 TTAAATATTCTAGGCTA
83686474 T
1 T
83686475 CATACAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
TTAAATATTCTAGGCTA
Found at i:83689818 original size:37 final size:37
Alignment explanation
Indices: 83689730--83689821 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
83689720 AGTACACAAG
* *
83689730 TAATCTAACCAA-AACACGCCAAACGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAACACTCATAAGAGC
* * *
83689766 TAATCCAATCGATAACATGCCAAACACTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAACACTCATAAGAGC
*
83689803 TAATGCAACCAATAACACG
1 TAATCCAACCAATAACACG
83689822 TCACAGCACT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 9 0.20
37 37 0.80
ACGTcount: A:0.45, C:0.28, G:0.11, T:0.16
Consensus pattern (37 bp):
TAATCCAACCAATAACACGCCAAACACTCATAAGAGC
Found at i:83692856 original size:46 final size:46
Alignment explanation
Indices: 83692783--83692955 Score: 269
Period size: 46 Copynumber: 3.8 Consensus size: 46
83692773 CACAATATAT
* * * *
83692783 ATATACATCTCATACATATCTCACATTAGCCATTCGACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTC
*
83692829 ATATCCATCTCATACACGTTTCGCATTAGCCATTC-AGCTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGA-CTTTACCTC
*
83692875 ATATCCATCTCATACACGTTTCGCATTAGCCATT-GACTTTACCTC
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTC
83692920 ATATCCATCTCATACACATTTCGCATTAGCCATTCG
1 ATATCCATCTCATACACATTTCGCATTAGCCATTCG
83692956 GCTTCGCCAC
Statistics
Matches: 118, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
45 43 0.36
46 75 0.64
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATCCATCTCATACACATTTCGCATTAGCCATTCGACTTTACCTC
Found at i:83692944 original size:91 final size:92
Alignment explanation
Indices: 83692783--83692959 Score: 284
Period size: 91 Copynumber: 1.9 Consensus size: 92
83692773 CACAATATAT
* *
83692783 ATATACATCTCATACATATCTCACATTAGCCATTCGACTTTACCTCATATCCATCTCATACACGT
1 ATATACATCTCATACACATCTCACATTAGCCATTCGACTTTACCTCATATCCATCTCATACACAT
83692848 TTCGCATTAGCCATTCAGCTTTACCTC
66 TTCGCATTAGCCATTCAGCTTTACCTC
* * * *
83692875 ATATCCATCTCATACACGTTTCGCATTAGCCATT-GACTTTACCTCATATCCATCTCATACACAT
1 ATATACATCTCATACACATCTCACATTAGCCATTCGACTTTACCTCATATCCATCTCATACACAT
*
83692939 TTCGCATTAGCCATTCGGCTT
66 TTCGCATTAGCCATTCAGCTT
83692960 CGCCACATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 49 0.63
92 29 0.37
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (92 bp):
ATATACATCTCATACACATCTCACATTAGCCATTCGACTTTACCTCATATCCATCTCATACACAT
TTCGCATTAGCCATTCAGCTTTACCTC
Found at i:83693078 original size:47 final size:47
Alignment explanation
Indices: 83692983--83693269 Score: 522
Period size: 47 Copynumber: 6.1 Consensus size: 47
83692973 CACTTCCACG
**
83692983 TTCATCACATTGGCCATTCTACCTTA-CACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83693029 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
83693076 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
83693123 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83693170 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83693217 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
83693264 TTCATC
1 TTCATC
83693270 TCATAAAATC
Statistics
Matches: 232, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
46 24 0.10
47 208 0.90
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:83699550 original size:7 final size:7
Alignment explanation
Indices: 83699538--83699565 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
83699528 AAATAGTATT
83699538 TAATATA
1 TAATATA
83699545 TAATATA
1 TAATATA
83699552 TAATATA
1 TAATATA
83699559 TAATATA
1 TAATATA
83699566 ATAACAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:83699960 original size:17 final size:17
Alignment explanation
Indices: 83699946--83700034 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 17
83699936 TAAATAAATG
83699946 TATAATATATGTAAAAA
1 TATAATATATGTAAAAA
* *
83699963 TATAATATATATATAAA
1 TATAATATATGTAAAAA
*
83699980 TAATAAT-TATG-AGAGAA
1 T-ATAATATATGTA-AAAA
*
83699997 T-TAATATATAATAAACAA
1 TATAATATAT-GTAAA-AA
* *
83700015 TTATAATACATATAAAAA
1 -TATAATATATGTAAAAA
83700033 TA
1 TA
83700035 ACACTTATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.07
16 4 0.07
17 25 0.45
18 10 0.18
19 6 0.11
20 7 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
TATAATATATGTAAAAA
Found at i:83699979 original size:36 final size:35
Alignment explanation
Indices: 83699915--83700034 Score: 104
Period size: 36 Copynumber: 3.4 Consensus size: 35
83699905 AATGAAAATT
* *
83699915 TATATGTAAAAATA-ATATGTATAAATAAATGTATAA
1 TATATGTAAAAATATA-ATATATATATAAAT-TATAA
*
83699951 TATATGTAAAAATATAATATATATATAAATAATAA
1 TATATGTAAAAATATAATATATATATAAATTATAA
* *
83699986 T-TATG-AGAGAAT-TAATATATAATAAACAATTATAA
1 TATATGTA-AAAATATAATATAT-ATATA-AATTATAA
* *
83700021 TACATATAAAAATA
1 TATATGTAAAAATA
83700035 ACACTTATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
33 9 0.13
34 12 0.18
35 13 0.19
36 32 0.47
37 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (35 bp):
TATATGTAAAAATATAATATATATATAAATTATAA
Found at i:83700106 original size:19 final size:19
Alignment explanation
Indices: 83700067--83700116 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
83700057 GAAGTAAAAT
* *
83700067 TAAAATAAA-ACA-AATAG
1 TAAAATAAATATAGAATAA
*
83700084 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
83700103 TAAAATAAATATAG
1 TAAAATAAATATAG
83700117 GACTAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 17 0.63
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:83702043 original size:119 final size:119
Alignment explanation
Indices: 83701778--83702221 Score: 627
Period size: 119 Copynumber: 3.7 Consensus size: 119
83701768 CTTGAGTCTG
* * * * **
83701778 TTTGAGAACATCTGAGAGTCAAATTTGCTATGTCCTTGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* ** * * *
83701843 CAAATCATCTTGGACCTTAATTTAGTATAAACCTCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
** * *
83701898 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTTAATTTGTTTCTTGTAAACATAAGAATAT
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * *
83701963 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAAGCTAGATCCGTTATA
66 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
* *
83702017 TTTGAGAACATCTAAAAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
83702082 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
* * * * *
83702136 TCTGAGAACGTCTGAGAGTCAAATCTGTTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
83702201 CAAATCATCTTGGATCTGCTT
66 CAAATCATCTTGGATCTGCTT
83702222 CAGTCTAATT
Statistics
Matches: 293, Mismatches: 31, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
119 217 0.74
120 76 0.26
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (119 bp):
TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGCTAGATCTGCTATA
Found at i:83714073 original size:7 final size:7
Alignment explanation
Indices: 83714061--83714088 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
83714051 AAATAGTATT
83714061 TAATATA
1 TAATATA
83714068 TAATATA
1 TAATATA
83714075 TAATATA
1 TAATATA
83714082 TAATATA
1 TAATATA
83714089 ACAAGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Done.