Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 147 of 170
Found at i:44087471 original size:25 final size:25
Alignment explanation
Indices: 44087415--44087476 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
44087405 TGTTTTGTTT
*
44087415 ATTATTTAATAAATATAATACTTTA
1 ATTATATAATAAATATAATACTTTA
* *
44087440 ATAATATAATATAATATAATA-TTTT
1 ATTATATAATA-AATATAATACTTTA
*
44087465 CTTATATAATAA
1 ATTATATAATAA
44087477 GTAATTACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.68
26 9 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATATAATAAATATAATACTTTA
Found at i:44087617 original size:14 final size:14
Alignment explanation
Indices: 44087573--44087623 Score: 66
Period size: 14 Copynumber: 3.4 Consensus size: 14
44087563 ATTTTATAAT
44087573 ATAATAATAATTATA
1 ATAATAATAATT-TA
*
44087588 ATAATTTAACAATTTA
1 ATAA--TAATAATTTA
44087604 ATAATAATAATTTA
1 ATAATAATAATTTA
44087618 ATAATA
1 ATAATA
44087624 TTTTTTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 6 0.19
17 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATAATTTA
Found at i:44089921 original size:20 final size:21
Alignment explanation
Indices: 44089882--44089925 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
44089872 TCCTTTTGCA
44089882 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* *
44089903 TTTGGTCCA-TTTCTTTAATC
1 TTTGCTCCAGTTTCTCTAATC
44089923 TTT
1 TTT
44089926 CGACGAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.14, C:0.23, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:44092447 original size:20 final size:23
Alignment explanation
Indices: 44092422--44092466 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
44092412 ATACACGGGA
44092422 AATTTT-AAATAA-A-ATAAAAT
1 AATTTTAAAATAACACATAAAAT
44092442 AATTTTAAAATAACACATAAAAT
1 AATTTTAAAATAACACATAAAAT
44092465 AA
1 AA
44092467 ATTACTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 1 0.05
23 9 0.41
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AATTTTAAAATAACACATAAAAT
Found at i:44092720 original size:208 final size:208
Alignment explanation
Indices: 44092482--44092900 Score: 802
Period size: 208 Copynumber: 2.0 Consensus size: 208
44092472 TTAAACTAAA
44092482 TGGTATATAAAAATACATGAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGAT
1 TGGTATATAAAAATACATGAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGAT
44092547 AACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAAA
66 AACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAAA
44092612 CTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAAA
131 CTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAAA
*
44092677 CGCGTGAATAACG
196 CACGTGAATAACG
44092690 TGGTATATAAAAATACATGAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGAT
1 TGGTATATAAAAATACATGAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGAT
44092755 AACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAAA
66 AACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAAA
* * *
44092820 CTGAATTTAAAACAAAGTTAGAAAGACAAAACGAAAATAAAACAGAGTTTAGGGGCAAAATGAAA
131 CTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAAA
44092885 CACGTGAATAACG
196 CACGTGAATAACG
44092898 TGG
1 TGG
44092901 GGGACTAGTT
Statistics
Matches: 207, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 207 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (208 bp):
TGGTATATAAAAATACATGAAAAAAAAAGTATTGAGTTTTTAGAATTCTATAAAAATTACAGGAT
AACAAATAGCTAAATAAATTAATAAATAAAGCTTAAACAATTTAATTGAGTAAATAGGGATTAAA
CTGAATTTAAAACAAAGTCAAAAAGACAAAACGAAAATAAAACAGAGTTTAGGCGCAAAATGAAA
CACGTGAATAACG
Found at i:44093441 original size:13 final size:13
Alignment explanation
Indices: 44093425--44093465 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
44093415 ACCAAAACCG
*
44093425 AAAAGAAAACTGA
1 AAAAGAAAACGGA
*
44093438 AAAAGAAAAAAGGA
1 AAAAG-AAAACGGA
44093452 AAAAGAAAACGGA
1 AAAAGAAAACGGA
44093465 A
1 A
44093466 GAAGCAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAAGAAAACGGA
Found at i:44101652 original size:21 final size:21
Alignment explanation
Indices: 44101626--44101668 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
44101616 CAACGTGGCA
44101626 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
44101647 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
44101668 A
1 A
44101669 TCCTATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:44105425 original size:58 final size:58
Alignment explanation
Indices: 44105363--44105495 Score: 169
Period size: 58 Copynumber: 2.3 Consensus size: 58
44105353 GAGCTCTTGG
* * * * **
44105363 CGGAGGTGAGACATATCTTCTATATTTGGGCCCCTCCAG-GAACCCTTTGGGCTCTCAA
1 CGGAGGTGAGGCATATCTTCTACATTCGAGCCCCTCC-GCGAACCCTTTAAGCTCTCAA
* *
44105421 CGGAGGTGAGGCGTATCTTCTACATTCGAGCCCCTCCGCGAACCCTTTAAGCTTTCAA
1 CGGAGGTGAGGCATATCTTCTACATTCGAGCCCCTCCGCGAACCCTTTAAGCTCTCAA
*
44105479 TGGAGGTGAGGCATATC
1 CGGAGGTGAGGCATATC
44105496 ATCTTCATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 1 0.02
58 63 0.98
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.26
Consensus pattern (58 bp):
CGGAGGTGAGGCATATCTTCTACATTCGAGCCCCTCCGCGAACCCTTTAAGCTCTCAA
Found at i:44108132 original size:24 final size:25
Alignment explanation
Indices: 44108104--44108152 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
44108094 TAACAAGTAA
*
44108104 CTCCGAAGAGCTAT-TATCAGGAAG
1 CTCCGAAGAGCCATATATCAGGAAG
* *
44108128 CTCCGGATAGCCATATATCAGGAAG
1 CTCCGAAGAGCCATATATCAGGAAG
44108153 TTCAAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (25 bp):
CTCCGAAGAGCCATATATCAGGAAG
Found at i:44108301 original size:64 final size:64
Alignment explanation
Indices: 44108197--44108316 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 64
44108187 CCTTATATCG
* * * * * *
44108197 GGACGCTCATAAAGAGTTTCGGTATGTCCACAATATATGCAAGATCAATACCGATCATATAACA
1 GGACGCTCACAAAGAGCTACAGTATGTCCACAACACATGCAAGATCAATACCGATCATATAACA
* * * *
44108261 GGACGCTCACAAAGAGCTACAGTATGTTCTCAACACATGCAGGATCAATATCGATC
1 GGACGCTCACAAAGAGCTACAGTATGTCCACAACACATGCAAGATCAATACCGATC
44108317 GGGATGCTCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 46 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (64 bp):
GGACGCTCACAAAGAGCTACAGTATGTCCACAACACATGCAAGATCAATACCGATCATATAACA
Found at i:44113755 original size:13 final size:13
Alignment explanation
Indices: 44113735--44113782 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
44113725 CTCAAATTTT
44113735 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
44113748 TGAAAAGCACTTC
1 TCAAAAGCACTTC
*
44113761 TCAGAAGCACTTC
1 TCAAAAGCACTTC
44113774 TCAAAAGCA
1 TCAAAAGCA
44113783 ATGAAGAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:44119731 original size:39 final size:39
Alignment explanation
Indices: 44119688--44119765 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
44119678 CTAACTCATA
44119688 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
1 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
44119727 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
1 AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
44119766 TAACATAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (39 bp):
AATGAGTAAGTCTATCAACATCATATATCTGTTCATGCC
Found at i:44120535 original size:16 final size:16
Alignment explanation
Indices: 44120514--44120555 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
44120504 TCAATATCCA
44120514 ATTATCATATTCACAC
1 ATTATCATATTCACAC
* *
44120530 ATTATCACATTTACAC
1 ATTATCATATTCACAC
44120546 A-TAT-ATATTC
1 ATTATCATATTC
44120556 TTTTCAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.18
15 3 0.14
16 15 0.68
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATCATATTCACAC
Found at i:44123295 original size:10 final size:10
Alignment explanation
Indices: 44123249--44123299 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
44123239 ACCTTTATTA
*
44123249 TTATTTTTTA
1 TTATTTTTTC
44123259 TTATTTTTTC
1 TTATTTTTTC
* *
44123269 -CATCTTTCTC
1 TTAT-TTTTTC
44123279 TTATTTTTTC
1 TTATTTTTTC
*
44123289 TTCTTTTTTC
1 TTATTTTTTC
44123299 T
1 T
44123300 AGATTCATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTTTTTC
Found at i:44125749 original size:14 final size:14
Alignment explanation
Indices: 44125730--44125769 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44125720 TTGATTGCCA
44125730 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
44125744 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
44125758 GGAAAATGTTTT
1 GTAAAATGTTTT
44125770 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:44125778 original size:20 final size:20
Alignment explanation
Indices: 44125753--44125792 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44125743 CGTAAAATGA
*
44125753 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
44125773 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
44125793 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:44125782 original size:34 final size:35
Alignment explanation
Indices: 44125738--44125804 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44125728 CAGTAAAATG
*
44125738 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
44125772 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
44125805 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:44125808 original size:14 final size:15
Alignment explanation
Indices: 44125732--44125808 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
44125722 GATTGCCAGT
* *
44125732 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
44125746 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
44125760 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
44125780 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
44125795 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
44125809 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:44141012 original size:31 final size:31
Alignment explanation
Indices: 44140938--44141013 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
44140928 GGTATTGTCG
*
44140938 TTAAAAACTATTTTCATTTGAGGCAATACCA
1 TTAAAAACTGTTTTCATTTGAGGCAATACCA
** * * * **
44140969 TTAAAATTTGTTTTCATTTTAGGTAGTTTCA
1 TTAAAAACTGTTTTCATTTGAGGCAATACCA
44141000 TTAAAAACTGTTTT
1 TTAAAAACTGTTTT
44141014 TGTAATAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (31 bp):
TTAAAAACTGTTTTCATTTGAGGCAATACCA
Found at i:44143655 original size:14 final size:14
Alignment explanation
Indices: 44143636--44143663 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44143626 TAGTAAATTA
44143636 TTAAAAATATATAT
1 TTAAAAATATATAT
44143650 TTAAAAATATATAT
1 TTAAAAATATATAT
44143664 CAATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATATATAT
Found at i:44154188 original size:16 final size:16
Alignment explanation
Indices: 44154156--44154193 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44154146 TTTAGTTCTG
* *
44154156 TTCTTTTTTTTCTTTC
1 TTCTTTTTTTGCATTC
44154172 TTCTTTTTTTGCATTC
1 TTCTTTTTTTGCATTC
44154188 TT-TTTT
1 TTCTTTT
44154194 GTTCTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTTGCATTC
Found at i:44160048 original size:125 final size:127
Alignment explanation
Indices: 44159735--44160088 Score: 536
Period size: 125 Copynumber: 2.8 Consensus size: 127
44159725 TAATTTCGAG
* ** * *
44159735 TTGACATTTCAGATAAAATAATATAAAATCGCTTCTAGTAGGATGGTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
44159800 AAATTACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAAAAAATTATTTTT
66 AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAAAAAATTATTTTT
* * *
44159862 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCGGGATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
44159927 AAATTGCGACCTCGT-CAGCGCGCTTTTGCTACAGTAGGTCA-TGTAAG-AAATAATT-TTTTT
66 AAATTGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACAG-AAGAAAAAAATTATTTTT
44159987 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
44160052 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
44160089 CATGTTTGGG
Statistics
Matches: 205, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
125 99 0.48
126 10 0.05
127 96 0.47
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (127 bp):
TTGACATTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAAAAAATTATTTTT
Found at i:44162451 original size:116 final size:116
Alignment explanation
Indices: 44162247--44162473 Score: 373
Period size: 116 Copynumber: 2.0 Consensus size: 116
44162237 TGATAAATTG
* * *
44162247 TATTAAGTCAAAAAATTGTCTTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATATAAAATTATTAATTGT
* * *
44162312 TAGTACCAGTCAAAATATTTTTCCAAATCTGACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
* *
44162363 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATATAAAATTATTAATTGT
*
44162428 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTTAATGT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGT
44162474 TACAGTTTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 102 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATAATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:44162498 original size:23 final size:23
Alignment explanation
Indices: 44162478--44162813 Score: 251
Period size: 23 Copynumber: 14.1 Consensus size: 23
44162468 TAATGTTACA
44162478 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
* *
44162501 GTTTTTTATTGAATTAGGCTAGGGTTAGG
1 GTTTTTAATT-AA--A--TTA-GGTTAGG
44162530 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
44162553 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
44162576 GTTTTTAAGTT-AA--GGGTTTAGG
1 GTTTTTAA-TTAAATTAGG-TTAGG
* * *
44162598 GTTTTAAATT-AA--GGGTTTAAG
1 GTTTTTAATTAAATTAGG-TTAGG
*
44162619 ATTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
44162642 GTTTTTAATTAAATTAGGTTAGGCTAGG
1 GTTTTTAATTAAATTAGG-T----TAGG
*
44162670 GTTTTTAATCAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
* * *
44162693 GTTTTTAAGTT-AA-GAGTTTAGA
1 GTTTTTAA-TTAAATTAGGTTAGG
* *
44162715 GTTTTTAATTGAATTAGGTTAGA
1 GTTTTTAATTAAATTAGGTTAGG
**
44162738 GTTAGGGTTT--TTAGGTTAGGGTTTAGG
1 GTT----TTTAATTAAATTA-GG-TTAGG
* *
44162765 ATTTTTAATTAAATTAGGTTAGA
1 GTTTTTAATTAAATTAGGTTAGG
*
44162788 GTTTTTAATTAAATTAGGTTATG
1 GTTTTTAATTAAATTAGGTTAGG
44162811 GTT
1 GTT
44162814 AGGGTTTTAG
Statistics
Matches: 256, Mismatches: 30, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
21 24 0.09
22 30 0.12
23 124 0.48
24 12 0.05
25 11 0.04
26 4 0.02
27 10 0.04
28 25 0.10
29 16 0.06
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (23 bp):
GTTTTTAATTAAATTAGGTTAGG
Found at i:44162531 original size:29 final size:29
Alignment explanation
Indices: 44162494--44162578 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
44162484 AATTAAATTA
* *
44162494 GGTTAGGGTTTTTTATTGAATTAGGCTAG
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
44162523 GGTTAGGGTTTTTAATTAAA-T----TA-
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
*
44162546 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGCTAG
44162575 GGTT
1 GGTT
44162579 TTTAAGTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
23 20 0.42
24 3 0.06
28 3 0.06
29 22 0.46
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGCTAG
Found at i:44162602 original size:21 final size:22
Alignment explanation
Indices: 44162571--44162630 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
44162561 TTAAATTAGG
*
44162571 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGT
44162593 TTAGGG-TTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGT
* *
44162614 TTAAGATTTTT-AATTAA
1 TTAGGGTTTTTAAATTAA
44162631 ATTAGGTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 24 0.71
22 10 0.29
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGT
Found at i:44162642 original size:141 final size:142
Alignment explanation
Indices: 44162479--44162821 Score: 437
Period size: 146 Copynumber: 2.4 Consensus size: 142
44162469 AATGTTACAG
* * * *
44162479 TTTTTAATTAAATTAGGTTAGGGTTTTTTATTGAATTAGGCTAGGGTTAGGGTTTTTAATTAAAT
1 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATCAAAT
* * *
44162544 TAGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTT-A-AGG-G-TTTAGGG-TTTT
65 TAGGTTAGGGTTTTTAAGTT-AA-GAGGTTAGAGTTTTTAA-TTAATAGGTGAGTTAGGGTTTTT
44162603 AAATTAAGGGTTTAAGA
127 AAATT-AGGGTTTAAGA
*
44162620 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGCTAGGGTTTTTAATCAAATT
1 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATCAAATT
*
44162685 AGGTTAGGGTTTTTAAGTTAAGAGTTTAGAGTTTTTAATTGAATTAGGTTAGAGTTAGGGTTTTT
66 AGGTTAGGGTTTTTAAGTTAAGAGGTTAGAGTTTTTAATT-AA-TAGG-T-GAGTTAGGGTTTTT
** *
44162750 AGGTTAGGGTTTAGGA
127 AAATTAGGGTTTAAGA
*
44162766 TTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAGGTTATGGTTAGGGTTTT
1 TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTT
44162822 AGAGTACACG
Statistics
Matches: 177, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
138 2 0.01
139 14 0.08
140 39 0.22
141 42 0.24
142 3 0.02
145 1 0.01
146 58 0.33
147 18 0.10
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (142 bp):
TTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATCAAATT
AGGTTAGGGTTTTTAAGTTAAGAGGTTAGAGTTTTTAATTAATAGGTGAGTTAGGGTTTTTAAAT
TAGGGTTTAAGA
Found at i:44162663 original size:28 final size:28
Alignment explanation
Indices: 44162632--44162692 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
44162622 TTTAATTAAA
* *
44162632 TTAGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGCTAGGGTTTTTAATCAAATTAGG
44162660 TTAGGCTAGGGTTTTTAATCAAATTAGG
1 TTAGGCTAGGGTTTTTAATCAAATTAGG
44162688 TTAGG
1 TTAGG
44162693 GTTTTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (28 bp):
TTAGGCTAGGGTTTTTAATCAAATTAGG
Found at i:44162705 original size:28 final size:27
Alignment explanation
Indices: 44162623--44162705 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
44162613 TTTAAGATTT
44162623 TTAATTAAATTAGGTTAGGGTTTTTAA
1 TTAATTAAATTAGGTTAGGGTTTTTAA
** *
44162650 TTAAATTAGGTTAGGCTAGGG--TTT--
1 TT-AATTAAATTAGGTTAGGGTTTTTAA
*
44162674 TTAATCAAATTAGGTTAGGGTTTTTAA
1 TTAATTAAATTAGGTTAGGGTTTTTAA
44162701 GTTAA
1 -TTAA
44162706 GAGTTTAGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
23 14 0.33
24 2 0.05
25 3 0.07
26 3 0.07
27 2 0.05
28 19 0.44
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (27 bp):
TTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:44162719 original size:73 final size:73
Alignment explanation
Indices: 44162599--44162821 Score: 258
Period size: 73 Copynumber: 3.0 Consensus size: 73
44162589 GGGTTTAGGG
* * *
44162599 TTTTAAATTAAGGGTTTAAGATTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 TTTTAAATT-AGGGTTTAGGATTTTTAATTAAATGAGGTTAGAGTTTTTAATTAAATTAGGTTAG
*
44162664 GCTAGGGTT
65 GTTAGGGTT
* * *
44162673 TTTAATCAAATTA-GG-TTAGGGTTTTTAAGTT-AA-GAGTTTAGAGTTTTTAATTGAATTAGGT
1 TTT--T-AAATTAGGGTTTAGGATTTTTAA-TTAAATGAGGTTAGAGTTTTTAATTAAATTAGGT
44162734 TAGAGTTAGGG-T
62 TAG-GTTAGGGTT
** *
44162746 TTTTAGGTTAGGGTTTAGGATTTTTAATTAAATTAGGTTAGAGTTTTTAATTAAATTAGGTTATG
1 TTTTAAATTAGGGTTTAGGATTTTTAATTAAATGAGGTTAGAGTTTTTAATTAAATTAGGTTA-G
44162811 GTTAGGGTT
65 GTTAGGGTT
44162820 TT
1 TT
44162822 AGAGTACACG
Statistics
Matches: 125, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
70 4 0.03
71 5 0.04
72 14 0.11
73 65 0.52
74 26 0.21
75 4 0.03
76 2 0.02
77 5 0.04
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (73 bp):
TTTTAAATTAGGGTTTAGGATTTTTAATTAAATGAGGTTAGAGTTTTTAATTAAATTAGGTTAGG
TTAGGGTT
Found at i:44162753 original size:20 final size:21
Alignment explanation
Indices: 44162728--44162771 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44162718 TTTAATTGAA
*
44162728 TTAGGTTAGAG-TTAGGGTTT
1 TTAGGTTAGAGTTTAGGATTT
*
44162748 TTAGGTTAGGGTTTAGGATTT
1 TTAGGTTAGAGTTTAGGATTT
44162769 TTA
1 TTA
44162772 ATTAAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (21 bp):
TTAGGTTAGAGTTTAGGATTT
Found at i:44162757 original size:14 final size:15
Alignment explanation
Indices: 44162733--44162761 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44162723 TTGAATTAGG
44162733 TTAGAGTTAGGGTTT
1 TTAGAGTTAGGGTTT
44162748 TTAG-GTTAGGGTTT
1 TTAGAGTTAGGGTTT
44162762 AGGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (15 bp):
TTAGAGTTAGGGTTT
Found at i:44162772 original size:50 final size:51
Alignment explanation
Indices: 44162683--44162790 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 51
44162673 TTTAATCAAA
*
44162683 TTAG-GTTAGGGTTTTTAAGTTAAGAGTTTAGAGTTTTTAATTGAATTAGG
1 TTAGAGTTAGGGTTTTTAAGTTAAGAGTTTAGAGTTTTTAATTAAATTAGG
* *
44162733 TTAGAGTTAGGGTTTTTAGGTT-AGGGTTTAG-GATTTTTAATTAAATTAGG
1 TTAGAGTTAGGGTTTTTAAGTTAAGAGTTTAGAG-TTTTTAATTAAATTAGG
44162783 TTAGAGTT
1 TTAGAGTT
44162791 TTTAATTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
49 1 0.02
50 36 0.68
51 16 0.30
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (51 bp):
TTAGAGTTAGGGTTTTTAAGTTAAGAGTTTAGAGTTTTTAATTAAATTAGG
Found at i:44163305 original size:7 final size:7
Alignment explanation
Indices: 44163295--44163326 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
44163285 ATACATACAT
44163295 AATACTA
1 AATACTA
44163302 AATACTA
1 AATACTA
44163309 AATACTA
1 AATACTA
44163316 AATACTA
1 AATACTA
44163323 AATA
1 AATA
44163327 TCAATCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:44164536 original size:51 final size:51
Alignment explanation
Indices: 44164467--44164587 Score: 190
Period size: 51 Copynumber: 2.4 Consensus size: 51
44164457 TATTTTAAAA
* * *
44164467 AAGGCAATTGAGAGGAAATTGAAATTAAATATGGATGTGAGAGAATTTTTG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATGTGAGAGAATTTTGG
*
44164518 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATGTGAGAGAATTTTGG
*
44164569 AAAGAAATTGAGA-GAAATT
1 AAGGAAATTGAGAGGAAATT
44164588 TGGAAGGAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 6 0.09
51 59 0.91
ACGTcount: A:0.45, C:0.01, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATGTGAGAGAATTTTGG
Found at i:44164579 original size:22 final size:22
Alignment explanation
Indices: 44164554--44164609 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
44164544 AAATATAGAT
*
44164554 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAAATTTGGAAAGAAA
*
44164576 TTGAGAGAAATTTGGAAGGAAA
1 TTGAGAGAAATTTGGAAAGAAA
44164598 TTGAGAGGAAAT
1 TTGAGA-GAAAT
44164610 ATGAGAGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (22 bp):
TTGAGAGAAATTTGGAAAGAAA
Found at i:44165319 original size:30 final size:29
Alignment explanation
Indices: 44165283--44165347 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
44165273 TAATTCCAGC
* *
44165283 CTTTTTACTTTACTTATATTAAAATTTAAT
1 CTTTTTACTTTAATT-TAGTAAAATTTAAT
* *
44165313 CTTTTTATTTTAATTTAGTATAATTTAAT
1 CTTTTTACTTTAATTTAGTAAAATTTAAT
*
44165342 TTTTTT
1 CTTTTT
44165348 TCAATGTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (29 bp):
CTTTTTACTTTAATTTAGTAAAATTTAAT
Found at i:44166821 original size:16 final size:16
Alignment explanation
Indices: 44166800--44166852 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
44166790 TTGGTTGGCT
44166800 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
44166816 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
44166832 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
44166848 GTAAT
1 GTAAT
44166853 AGATAATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:44166921 original size:44 final size:45
Alignment explanation
Indices: 44166832--44166921 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
44166822 GAATAGATGC
* *
44166832 GTAATGGAATAGAGGCGTAATAGATAATCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCATAATAGATAATCTTGTGTTTGGTTGAAT
* * * *
44166877 GTAATTGAATAGAGGTATAAT-GGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCATAATAGATAATCTTGTGTTTGGTTGAAT
44166921 G
1 G
44166922 AAATAGAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 21 0.54
45 18 0.46
ACGTcount: A:0.29, C:0.03, G:0.28, T:0.40
Consensus pattern (45 bp):
GTAATGGAATAGAGGCATAATAGATAATCTTGTGTTTGGTTGAAT
Found at i:44167067 original size:18 final size:18
Alignment explanation
Indices: 44167038--44167098 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
44167028 GCTTATTAAT
44167038 ATAAATAATATATAATTTA
1 ATAAA-AATATATAATTTA
*
44167057 ATAAAAATATATAAATTA
1 ATAAAAATATATAATTTA
44167075 AT-AAAATATATGAATTTA
1 ATAAAAATATAT-AATTTA
*
44167093 CTAAAA
1 ATAAAA
44167099 TCATAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 9 0.24
18 20 0.54
19 8 0.22
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAAATATATAATTTA
Found at i:44167126 original size:22 final size:23
Alignment explanation
Indices: 44167094--44167137 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
44167084 ATGAATTTAC
*
44167094 TAAAATCATAATATATAATACTA
1 TAAAATCATAATATAAAATACTA
*
44167117 TAAAAT-ATAATTTAAAATACT
1 TAAAATCATAATATAAAATACT
44167138 TATTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAATCATAATATAAAATACTA
Found at i:44170920 original size:14 final size:14
Alignment explanation
Indices: 44170901--44170930 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44170891 AAATTCTATA
44170901 TTTCGTGTATTAAT
1 TTTCGTGTATTAAT
44170915 TTTCGTGTATTAAT
1 TTTCGTGTATTAAT
44170929 TT
1 TT
44170931 AGTATGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TTTCGTGTATTAAT
Found at i:44171156 original size:90 final size:90
Alignment explanation
Indices: 44171043--44171368 Score: 483
Period size: 90 Copynumber: 3.6 Consensus size: 90
44171033 TTGTATCTGC
* *
44171043 AAATTTAATTTAGTCTGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
44171108 TCTGTTTGTAGTTTGTTGGGTGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
** * * * * * *
44171133 AAATTTAATTTAGTATGTGTTATATATAGTTTGAATTTAAAATTTTCGTGCACTAATGTTATCTA
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
* *
44171198 TCAGTTTGTAGTTTGTTGGATGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
*
44171223 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCATGTATTAATTTTATCCA
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
44171288 TCTGTTTGTAGTTTGTTGGGTGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
* * * * *
44171313 AAATTTAATTTAGTGCGTATTATAT-TTGTTTGAATTTTATATTTTTGTGTATTAAT
1 AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
44171369 ATTCTAGAAT
Statistics
Matches: 209, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
89 26 0.12
90 183 0.88
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (90 bp):
AAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTATCCA
TCTGTTTGTAGTTTGTTGGGTGTTT
Found at i:44174523 original size:25 final size:25
Alignment explanation
Indices: 44174444--44174510 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
44174434 GTAGTTTTGA
* **
44174444 AGAGCCAT-TAATCAGGAAGCTCCGG
1 AGAGCCATAT-ATCGGGAAGCTCTAG
*
44174469 ATAGCCATATATCGGGAAGCTCTAG
1 AGAGCCATATATCGGGAAGCTCTAG
44174494 AGAGCCATATATCGGGA
1 AGAGCCATATATCGGGA
44174511 CACTCATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
AGAGCCATATATCGGGAAGCTCTAG
Found at i:44174611 original size:25 final size:25
Alignment explanation
Indices: 44174598--44174645 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44174588 GGAAGTTTGC
*
44174598 AAGAACCAGATAACGGTAAGCTCTT
1 AAGAACCAGATAACGGGAAGCTCTT
*
44174623 AAGAACCATATAACGGGAAGCTC
1 AAGAACCAGATAACGGGAAGCTC
44174646 GAGAGGGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
AAGAACCAGATAACGGGAAGCTCTT
Found at i:44175727 original size:17 final size:17
Alignment explanation
Indices: 44175698--44175730 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44175688 GACTTCAAAT
44175698 TTTGAATACTATAGCTA
1 TTTGAATACTATAGCTA
44175715 TTTG-ATACTTATAGCT
1 TTTGAATAC-TATAGCT
44175731 CTAGAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTGAATACTATAGCTA
Found at i:44176935 original size:5 final size:5
Alignment explanation
Indices: 44176927--44177160 Score: 59
Period size: 5 Copynumber: 43.4 Consensus size: 5
44176917 CAAATTTTTT
44176927 TTTCA TTTCA TTTCTA CTTTCA TTTCTA CTTTCA TTTCA TTTACA TTTTCA
1 TTTCA TTTCA TTTC-A -TTTCA TTTC-A -TTTCA TTTCA TTT-CA -TTTCA
* * * * * * *
44176978 TTTCA CTTAA ATT-A TTT-T TTTCA TTTAAA TTTAA TTT-T TTCTCA TTTCAA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTTCA TTTCA TT-TCA TTTC-A
* * *
44177028 TTT-T TTTCA TTTCA GTTTTTA TTTTCA TTTCAA TTTGTAA TTT-A TTTTCA
1 TTTCA TTTCA TTTCA --TTTCA -TTTCA TTTC-A -TT-TCA TTTCA -TTTCA
* * * * *
44177078 TTTAAA CTTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTACAAA TTACA
1 TTT-CA -TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTC--A TTTCA
*
44177126 TTTCA TTTCA TATTCA TTTAACA TTTTA TTTCA TT
1 TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
44177161 AATTTTTTTT
Statistics
Matches: 177, Mismatches: 23, Indels: 58
0.69 0.09 0.22
Matches are distributed among these distances:
3 3 0.02
4 12 0.07
5 93 0.53
6 37 0.21
7 31 0.18
8 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.01, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:44176949 original size:12 final size:12
Alignment explanation
Indices: 44176932--44176964 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
44176922 TTTTTTTTCA
44176932 TTTCATTTCTAC
1 TTTCATTTCTAC
44176944 TTTCATTTCTAC
1 TTTCATTTCTAC
44176956 TTTCATTTC
1 TTTCATTTC
44176965 ATTTACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTCATTTCTAC
Found at i:44176949 original size:17 final size:15
Alignment explanation
Indices: 44176927--44177160 Score: 59
Period size: 17 Copynumber: 14.5 Consensus size: 15
44176917 CAAATTTTTT
44176927 TTTCATTTCATTTCTA
1 TTTCATTTCATTTC-A
44176943 CTTTCATTTCTACTTTCA
1 -TTTCATTTC-A-TTTCA
44176961 TTTCATTTACATTTTCA
1 TTTCATTT-CA-TTTCA
* * *
44176978 TTTCACTTAAATT-A
1 TTTCATTTCATTTCA
* *
44176992 TTT-TTTTCATTTAAA
1 TTTCATTTCATTT-CA
* *
44177007 TTTAATTT-TTTCTCA
1 TTTCATTTCATT-TCA
*
44177022 TTTCAATTT-TTTTCA
1 TTTC-ATTTCATTTCA
*
44177037 TTTCAGTTTTTATTTTCA
1 TTTCA--TTTCA-TTTCA
*
44177055 TTTCAATTTGTAATTT-A
1 TTTC-A-TT-TCATTTCA
*
44177072 TTTTCATTTAAACTTTCA
1 -TTTCATTT-CA-TTTCA
* *
44177090 TTCCATTTCATAATCA
1 TTTCATTTCAT-TTCA
*
44177106 --TCATTTCATTACAAA
1 TTTCATTTCATTTC--A
*
44177121 TTACATTTCATTTCA
1 TTTCATTTCATTTCA
*
44177136 TATTCATTTAACATTTTA
1 T-TTCATTT--CATTTCA
44177154 TTTCATT
1 TTTCATT
44177161 AATTTTTTTT
Statistics
Matches: 167, Mismatches: 24, Indels: 52
0.69 0.10 0.21
Matches are distributed among these distances:
13 6 0.04
14 13 0.08
15 24 0.14
16 29 0.17
17 58 0.35
18 30 0.18
19 7 0.04
ACGTcount: A:0.26, C:0.16, G:0.01, T:0.58
Consensus pattern (15 bp):
TTTCATTTCATTTCA
Found at i:44176961 original size:29 final size:28
Alignment explanation
Indices: 44176927--44176985 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
44176917 CAAATTTTTT
44176927 TTTCATTTCATTT-CTACTTTCATTTCTAC
1 TTTCATTTCATTTAC-ACTTTCATTTC-AC
*
44176956 TTTCATTTCATTTACATTTTCATTTCAC
1 TTTCATTTCATTTACACTTTCATTTCAC
44176984 TT
1 TT
44176986 AAATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 4 0.14
29 23 0.82
30 1 0.04
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTCATTTCATTTACACTTTCATTTCAC
Found at i:44177005 original size:18 final size:18
Alignment explanation
Indices: 44176978--44177034 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
44176968 TACATTTTCA
*
44176978 TTTCACTTAAATTATTTT
1 TTTCATTTAAATTATTTT
44176996 TTTCATTTAAATTTAATTTT
1 TTTCATTTAAA-TT-ATTTT
*
44177016 TTCTCATTTCAATT-TTTT
1 TT-TCATTTAAATTATTTT
44177034 T
1 T
44177035 CATTTCAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 15 0.44
19 2 0.06
20 9 0.26
21 8 0.24
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCATTTAAATTATTTT
Found at i:44177013 original size:23 final size:21
Alignment explanation
Indices: 44176972--44177030 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
44176962 TTCATTTACA
* *
44176972 TTTTCATTTCACTTAAATTATTT
1 TTTTCATTTCAATTTAA-T-TTT
*
44176995 TTTTCATTTAAATTTAATTTT
1 TTTTCATTTCAATTTAATTTT
*
44177016 TTCTCATTTCAATTT
1 TTTTCATTTCAATTT
44177031 TTTTCATTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 16 0.52
22 1 0.03
23 14 0.45
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTCATTTCAATTTAATTTT
Found at i:44177181 original size:17 final size:16
Alignment explanation
Indices: 44177138--44177188 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
44177128 TCATTTCATA
*
44177138 TTCATTTAACATTTTAT
1 TTCATTTAA-ATTTTTT
44177155 TTCA-TT-AATTTTTT
1 TTCATTTAAATTTTTT
44177169 TTCCATTTAAATTTATTT
1 TT-CATTTAAATTT-TTT
44177187 TT
1 TT
44177189 TCCTAATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 3 0.10
16 4 0.14
17 9 0.31
18 5 0.17
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (16 bp):
TTCATTTAAATTTTTT
Found at i:44177350 original size:21 final size:21
Alignment explanation
Indices: 44177308--44177350 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
44177298 TATCAGGGTC
*
44177308 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
44177329 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
44177350 A
1 A
44177351 AAAATAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:44177860 original size:113 final size:112
Alignment explanation
Indices: 44177704--44178247 Score: 424
Period size: 113 Copynumber: 4.8 Consensus size: 112
44177694 AAATATCAAG
*
44177704 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTGGC-ATTAGTGGCGCTTATGAACAAACGCCG
1 ACCAAAACGCAGCGTT-TGGTCTTGATGTATATT-GCAATTAGTGGCGCTTATGAA-AAACGCCG
* * *
44177768 GTAATGTACAGTATTAGCGGCGCTTAGCGGAAGCGCCGCAAAAGATGTTA
63 CTAATGTATAGTATTAGCGGCGCTTAGCGGAAGCGCCGCAAAAGATCTTA
* * *
44177818 ACCAAAACGCAGAGTTTAGTCTTGATGTATATTGCAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCGCTTAT-GA-AAAACGCCGC
* * ** * * * *
44177883 TAATGTATAGTATTAACGACGCAGAGCGTTAAACGCCGCAAGATATCTTA
64 TAATGTATAGTATTAGCGGCGCTTAGCG-GAAGCGCCGCAAAAGATCTTA
* * * ** * * *
44177933 ATCAAAACGCACCGTTTTGGTCTTGATGTATACTATAATTAGTGGCGTTTAAGGAAAACGCCAG-
1 ACCAAAACGCAGCG-TTTGGTCTTGATGTATATTGCAATTAGTGGCGCTTATGAAAAACGCC-GC
* * * * * * * *
44177997 TAA-GGATAGT-TATAGCAGCGTTTTGTGGTAAGCGCCTCCAAATATCTTA
64 TAATGTATAGTAT-TAGCGGCGCTTAGCGG-AAGCGCCGCAAAAGATCTTA
* *
44178046 ACCAAAACGCAGAGTTTGGTCTTGA-GGATTATTAG-AATTAGTGGCGCTTGATGAAAAACGCCG
1 ACCAAAACGCAGCGTTTGGTCTTGATGTA-TATT-GCAATTAGTGGCGCTT-ATGAAAAACGCCG
* * * *
44178109 CTAAAGTATA-TCATTAGCGGCG-TTTGTGTAACGCGCCGC-AAAGTATCTTA
63 CTAATGTATAGT-ATTAGCGGCGCTTAGCGGAA-GCGCCGCAAAAG-ATCTTA
* * * * * ** *
44178159 ACCAAAACACAGCGTTTAGTTCTTGATGTATACTGTAATTAGTGACGCACATGGGAAAACGCCGC
1 ACCAAAACGCAGCGTTT-GGTCTTGATGTATATTGCAATTAGTGGCGCTTAT-GAAAAACGCCGC
* *
44178224 TGCA-GCATAGTATTAGCGGCGCTT
64 T-AATGTATAGTATTAGCGGCGCTT
44178248 TTACCGAAAC
Statistics
Matches: 341, Mismatches: 65, Indels: 47
0.75 0.14 0.10
Matches are distributed among these distances:
111 2 0.01
112 36 0.11
113 121 0.35
114 115 0.34
115 36 0.11
116 31 0.09
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (112 bp):
ACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCGCTTATGAAAAACGCCGCTA
ATGTATAGTATTAGCGGCGCTTAGCGGAAGCGCCGCAAAAGATCTTA
Found at i:44178857 original size:81 final size:82
Alignment explanation
Indices: 44178761--44178912 Score: 191
Period size: 81 Copynumber: 1.9 Consensus size: 82
44178751 GGATTCGGTG
* * * * *
44178761 TCAGGTTAGGTTTTAGCGTTTAGATTAATTAGTGTGTTTTAATTT-T-TATAAAATATGGTTTAA
1 TCAGGTTAGGATTTAGCGTTTAGATTAATTAATATGTTTTAATTTATGTATAAAACAAGGTTT-A
44178824 GGGTTAGGGGTTAGGGAT
65 GGGTTAGGGGTTAGGGAT
* * * * *
44178842 TCAGGTTATGATTTAGGGTTTTGATTAATTAATATTTTTTAATTTATGTATTAAACAAGGTTTAG
1 TCAGGTTAGGATTTAGCGTTTAGATTAATTAATATGTTTTAATTTATGTATAAAACAAGGTTTAG
44178907 GGTTAG
66 GGTTAG
44178913 TACAAGTTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 38 0.64
82 9 0.15
83 12 0.20
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.46
Consensus pattern (82 bp):
TCAGGTTAGGATTTAGCGTTTAGATTAATTAATATGTTTTAATTTATGTATAAAACAAGGTTTAG
GGTTAGGGGTTAGGGAT
Found at i:44179305 original size:8 final size:7
Alignment explanation
Indices: 44179291--44179344 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
44179281 GACTTTTACT
44179291 GTTTGGG
1 GTTTGGG
44179298 GTTTTGGG
1 G-TTTGGG
*
44179306 GTTTGAG
1 GTTTGGG
44179313 GTTTGGG
1 GTTTGGG
**
44179320 GTTTATG
1 GTTTGGG
44179327 GTTTGGG
1 GTTTGGG
*
44179334 GGTTGGG
1 GTTTGGG
44179341 GTTT
1 GTTT
44179345 AGTTTTTGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.04, C:0.00, G:0.50, T:0.46
Consensus pattern (7 bp):
GTTTGGG
Found at i:44179319 original size:14 final size:14
Alignment explanation
Indices: 44179300--44179358 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
44179290 TGTTTGGGGT
44179300 TTTGGGGTTTGAGG
1 TTTGGGGTTTGAGG
44179314 TTTGGGGTTT-ATGG
1 TTTGGGGTTTGA-GG
* *
44179328 TTTGGGGGTTGGGG
1 TTTGGGGTTTGAGG
* **
44179342 TTTAGTTTTTGAGG
1 TTTGGGGTTTGAGG
44179356 TTT
1 TTT
44179359 AAGGATTACA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
13 1 0.03
14 35 0.97
ACGTcount: A:0.07, C:0.00, G:0.44, T:0.49
Consensus pattern (14 bp):
TTTGGGGTTTGAGG
Found at i:44179331 original size:21 final size:21
Alignment explanation
Indices: 44179291--44179358 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
44179281 GACTTTTACT
44179291 GTTTGGGGTTT-TGGGGTTTGAG
1 GTTTGGGGTTTAT--GGTTTGAG
*
44179313 GTTTGGGGTTTATGGTTTGGG
1 GTTTGGGGTTTATGGTTTGAG
* *
44179334 GGTTGGGGTTTA-GTTTTTGAG
1 GTTTGGGGTTTATG-GTTTGAG
44179355 GTTT
1 GTTT
44179359 AAGGATTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 26 0.67
22 11 0.28
23 1 0.03
ACGTcount: A:0.06, C:0.00, G:0.46, T:0.49
Consensus pattern (21 bp):
GTTTGGGGTTTATGGTTTGAG
Found at i:44181583 original size:10 final size:10
Alignment explanation
Indices: 44181568--44181604 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
44181558 GTTATGGGTA
44181568 AATTTTAAAT
1 AATTTTAAAT
44181578 AATTTTAAAT
1 AATTTTAAAT
**
44181588 AATTTTATTT
1 AATTTTAAAT
44181598 AATTTTA
1 AATTTTA
44181605 TAATTATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTAAAT
Found at i:44181817 original size:67 final size:67
Alignment explanation
Indices: 44181744--44181882 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
44181734 ATTAATTAAT
*
44181744 TGAATGTCAATGAATTATCAATTTTGGTTA-TCTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
44181808 TAA
65 TAA
44181811 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
44181876 AA
66 AA
44181878 TGAAT
1 TGAAT
44181883 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:44182061 original size:36 final size:33
Alignment explanation
Indices: 44181978--44182061 Score: 91
Period size: 36 Copynumber: 2.5 Consensus size: 33
44181968 TATTATATTT
* *
44181978 TTAAATATAT-TTTTACAATTTAATTTGACTTA
1 TTAAATATATATTTTAAAATTGAATTTGACTTA
44182010 TTAATATATATATTTTAAAATTGATATCTT-ACATTA
1 TTAA-ATATATATTTTAAAATTGA-AT-TTGAC-TTA
44182046 CTTAAATATATATTTT
1 -TTAAATATATATTTT
44182062 TAAGTATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
32 4 0.09
33 6 0.14
34 10 0.23
35 4 0.09
36 16 0.36
37 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.52
Consensus pattern (33 bp):
TTAAATATATATTTTAAAATTGAATTTGACTTA
Found at i:44182076 original size:34 final size:37
Alignment explanation
Indices: 44182010--44182083 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 37
44182000 ATTTGACTTA
* *
44182010 TTAATATATATATTTTAAAATTGATATCTTACATTAC
1 TTAATATATATATTTTAAAAGTGATATCTTACATGAC
* *
44182047 TTAA-ATATATATTTT-TAAGT-ATATTTTACATGAC
1 TTAATATATATATTTTAAAAGTGATATCTTACATGAC
44182081 TTA
1 TTA
44182084 TATTACTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 15 0.45
35 3 0.09
36 11 0.33
37 4 0.12
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (37 bp):
TTAATATATATATTTTAAAAGTGATATCTTACATGAC
Found at i:44182140 original size:13 final size:12
Alignment explanation
Indices: 44182114--44182162 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
44182104 TTTTTACTAA
*
44182114 AATTAACTTGAAT
1 AATT-ACTTAAAT
44182127 ATATTACTTAAAT
1 A-ATTACTTAAAT
44182140 AATTTACTTAAAT
1 AA-TTACTTAAAT
44182153 ACATTACTTA
1 A-ATTACTTA
44182163 CTAAAATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.03
13 27 0.84
14 4 0.12
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (12 bp):
AATTACTTAAAT
Found at i:44182431 original size:16 final size:16
Alignment explanation
Indices: 44182410--44182611 Score: 64
Period size: 16 Copynumber: 12.1 Consensus size: 16
44182400 ACACTTATAA
44182410 AACTTACATAATACAT
1 AACTTACATAATACAT
*
44182426 AACTTACAT-GT---T
1 AACTTACATAATACAT
44182438 AACTTACATAATACAT
1 AACTTACATAATACAT
* * *
44182454 GACTTATATAAAATTCTCAAAT
1 AACTTACAT--AA---T-ACAT
44182476 AAACTTACATAATACAT
1 -AACTTACATAATACAT
* *
44182493 TAGTTACATAATAACTTATAT
1 AACTTACATAAT-AC----AT
44182514 AAGCTTACATAATACA-
1 AA-CTTACATAATACAT
*
44182530 CA-TTAC-T--TACAT
1 AACTTACATAATACAT
* * *
44182542 AGCATACATAACTTACAC
1 AACTTACATAA--TACAT
*
44182560 AACTT-CAATAATACAA
1 AACTTAC-ATAATACAT
44182576 AACTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
44182594 AACCTACATAATACAT
1 AACTTACATAATACAT
44182610 AA
1 AA
44182612 TAACTTACAA
Statistics
Matches: 136, Mismatches: 22, Indels: 56
0.64 0.10 0.26
Matches are distributed among these distances:
11 4 0.03
12 10 0.07
13 5 0.04
14 5 0.04
15 1 0.01
16 48 0.35
17 8 0.06
18 28 0.21
21 8 0.06
22 12 0.09
23 7 0.05
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:44182558 original size:9 final size:9
Alignment explanation
Indices: 44182503--44182740 Score: 155
Period size: 9 Copynumber: 27.4 Consensus size: 9
44182493 TAGTTACATA
*
44182503 ATAACTTAT
1 ATAACTTAC
44182512 ATAAGCTTAC
1 ATAA-CTTAC
*
44182522 ATAA-TACAC
1 ATAACT-TAC
*
44182531 ATTACTTAC
1 ATAACTTAC
* *
44182540 ATAGCATAC
1 ATAACTTAC
44182549 ATAACTTAC
1 ATAACTTAC
*
44182558 ACAACTT-C
1 ATAACTTAC
44182566 AATAA--TAC
1 -ATAACTTAC
*
44182574 AAAACTTAC
1 ATAACTTAC
44182583 ATAACTTAC
1 ATAACTTAC
*
44182592 ATAACCTAC
1 ATAACTTAC
*
44182601 ATAATACATA-
1 AT-A-ACTTAC
44182611 ATAACTTAC
1 ATAACTTAC
44182620 --AACTTAC
1 ATAACTTAC
44182627 --AACTTAC
1 ATAACTTAC
*
44182634 ATAACATAC
1 ATAACTTAC
* **
44182643 ATTACTTTG
1 ATAACTTAC
44182652 ATAACTTAC
1 ATAACTTAC
44182661 ATAACTTAC
1 ATAACTTAC
44182670 AT-AC-TAC
1 ATAACTTAC
* *
44182677 ACAACTTAA
1 ATAACTTAC
*
44182686 ATAGCTTAC
1 ATAACTTAC
*
44182695 TTAA--TAC
1 ATAACTTAC
44182702 ATAACTTAC
1 ATAACTTAC
44182711 ATAACTT--
1 ATAACTTAC
*
44182718 ATACACGTAC
1 ATA-ACTTAC
44182728 ATAACTTAC
1 ATAACTTAC
44182737 ATAA
1 ATAA
44182741 TTGACTTAAT
Statistics
Matches: 176, Mismatches: 34, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
7 31 0.18
8 14 0.08
9 112 0.64
10 15 0.09
11 4 0.02
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:44188671 original size:42 final size:42
Alignment explanation
Indices: 44188621--44188864 Score: 400
Period size: 42 Copynumber: 5.8 Consensus size: 42
44188611 TGTATAAAAA
*
44188621 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
44188663 CGCCGCTAAAGAACATGTTCTTTAGCGTCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
44188705 CGCTGCTAAAGAACATGTTCTTTAGCGGCATTTTTTT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
44188746 CACCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
44188788 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
44188830 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
44188865 GTTTGTAAAC
Statistics
Matches: 189, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 37 0.20
42 152 0.80
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:44188768 original size:83 final size:84
Alignment explanation
Indices: 44188621--44188864 Score: 400
Period size: 83 Copynumber: 2.9 Consensus size: 84
44188611 TGTATAAAAA
*
44188621 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
*
44188686 AGCGTCGTTTTTTTCTAAG
66 AGCGGCGTTTTTTTCTAAG
* * * *
44188705 CGCTGCTAAAGAACATGTTCTTTAGCGGCATTTTTTT-TAAGCACCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* *
44188769 AGAGGCATTTTTTTCTAAG
66 AGCGGCGTTTTTTTCTAAG
*
44188788 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
44188853 AGCGGCGTTTTT
66 AGCGGCGTTTTT
44188865 GTTTGTAAAC
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
83 75 0.52
84 70 0.48
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
AGCGGCGTTTTTTTCTAAG
Found at i:44188845 original size:125 final size:125
Alignment explanation
Indices: 44188623--44188864 Score: 412
Period size: 125 Copynumber: 1.9 Consensus size: 125
44188613 TATAAAAACG
* * *
44188623 CCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAG
1 CCGCTAAAGAACATGATCTTTAGAGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
* * *
44188688 CGTCGTTTTTTTCTAAGCGCTGCTAAAGAACATGTTCTTTAGCGGCATTTTTTTTAAGCA
66 CGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTTAAGCA
*
44188748 CCGCTAAAGAACATGGTCTTTAGAGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
1 CCGCTAAAGAACATGATCTTTAGAGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
*
44188813 CGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
66 CGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTT
44188865 GTTTGTAAAC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (125 bp):
CCGCTAAAGAACATGATCTTTAGAGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAG
CGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTTAAGCA
Found at i:44188936 original size:22 final size:22
Alignment explanation
Indices: 44188905--44188949 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
44188895 TTTTGTTAGT
* *
44188905 GGCCTTAAAAAGCGCCGCTAAA
1 GGCCTAAAAAAACGCCGCTAAA
44188927 GGCCTAAAAAAACGCCGCTAAA
1 GGCCTAAAAAAACGCCGCTAAA
44188949 G
1 G
44188950 ACCTGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.22, T:0.11
Consensus pattern (22 bp):
GGCCTAAAAAAACGCCGCTAAA
Found at i:44189060 original size:21 final size:21
Alignment explanation
Indices: 44189019--44189159 Score: 97
Period size: 21 Copynumber: 6.2 Consensus size: 21
44189009 TCCATTTTCA
*
44189019 TTTCATTTAAA-TTATCTTTT
1 TTTCATTTAAATTTAACTTTT
44189039 TTTCATTTAAATTTAACTTTT
1 TTTCATTTAAATTTAACTTTT
*
44189060 TTCTCATTTCGTTTAAA-TTATCTTTT
1 TT-TCA-----TTTAAATTTAACTTTT
*
44189086 TTTCCATTTAAATTTAATTTTT
1 TTT-CATTTAAATTTAACTTTT
* *
44189108 TTCTCATTTCATTTAAATTATCTTTTT
1 TT-TCATTT-A---AATTTAAC-TTTT
*
44189135 TTTCATTTAAATTTAATTTTT
1 TTTCATTTAAATTTAACTTTT
44189156 TTTC
1 TTTC
44189160 TCATTTCATT
Statistics
Matches: 96, Mismatches: 10, Indels: 29
0.71 0.07 0.21
Matches are distributed among these distances:
20 11 0.11
21 24 0.25
22 22 0.23
23 2 0.02
25 2 0.02
26 23 0.24
27 12 0.12
ACGTcount: A:0.24, C:0.11, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTCATTTAAATTTAACTTTT
Found at i:44189077 original size:27 final size:26
Alignment explanation
Indices: 44189016--44189191 Score: 139
Period size: 26 Copynumber: 7.2 Consensus size: 26
44189006 ATTTCCATTT
*
44189016 TCATTTCATTTAAATTATCTTTTTT-
1 TCATTTCATTTAAATTAACTTTTTTC
*
44189041 TCATTT-A---AATTTAACTTTTTTC
1 TCATTTCATTTAAATTAACTTTTTTC
* *
44189063 TCATTTCGTTTAAATTATCTTTTTT-
1 TCATTTCATTTAAATTAACTTTTTTC
*
44189088 TC----CATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAA-TTAACTTTTTTC
* *
44189111 TCATTTCATTTAAATTATCTTTTTTT
1 TCATTTCATTTAAATTAACTTTTTTC
*
44189137 TCATTTAAATTT-AATT---TTTTTTC
1 TCATTT-CATTTAAATTAACTTTTTTC
*
44189160 TCATTTCATTTAAATTATCTTTCTTTC
1 TCATTTCATTTAAATTAACTTT-TTTC
44189187 -CATTT
1 TCATTT
44189192 TAATTTATGT
Statistics
Matches: 120, Mismatches: 14, Indels: 33
0.72 0.08 0.20
Matches are distributed among these distances:
21 19 0.16
22 19 0.16
23 18 0.15
24 1 0.01
25 8 0.07
26 39 0.32
27 16 0.13
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.62
Consensus pattern (26 bp):
TCATTTCATTTAAATTAACTTTTTTC
Found at i:44189094 original size:48 final size:48
Alignment explanation
Indices: 44189016--44189212 Score: 306
Period size: 48 Copynumber: 4.1 Consensus size: 48
44189006 ATTTCCATTT
*
44189016 TCATTTCATTTAAATTATCTTTTTTT-CATTTAAATTTAACTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
*
44189063 TCATTTCGTTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
*
44189111 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAATTTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA-TTTTTTTC
* * * *
44189160 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTATGTTTTTTTT
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTA-ATTTTTTTC
44189209 TCAT
1 TCAT
44189213 ATTAATTTTT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
47 25 0.18
48 58 0.42
49 55 0.40
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.63
Consensus pattern (48 bp):
TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
Found at i:44189135 original size:49 final size:47
Alignment explanation
Indices: 44189016--44189212 Score: 295
Period size: 49 Copynumber: 4.1 Consensus size: 47
44189006 ATTTCCATTT
*
44189016 TCATTTCATTTAAATTATCTTTTTTTCATTTAAATTTAACTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCATTTAAATTTAATTTTTTTC
*
44189063 TCATTTCGTTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTT-CATTTAAATTTAATTTTTTTC
44189111 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAATTTTTTTTC
1 TCATTTCATTTAAATTATC-TTTTTTTCATTTAAATTTAA-TTTTTTTC
* * * *
44189160 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTATGTTTTTTTT
1 TCATTTCATTTAAATTATCTTT-TTTTCATTTAAATTTA-ATTTTTTTC
44189209 TCAT
1 TCAT
44189213 ATTAATTTTT
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
47 25 0.18
48 54 0.39
49 59 0.43
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.63
Consensus pattern (47 bp):
TCATTTCATTTAAATTATCTTTTTTTCATTTAAATTTAATTTTTTTC
Found at i:44189296 original size:44 final size:44
Alignment explanation
Indices: 44189243--44189438 Score: 284
Period size: 44 Copynumber: 4.5 Consensus size: 44
44189233 AATTTATTTC
* * * *
44189243 ATTTAATGTGTTTTAAGTTAAATATGTAAGTCTGTTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
*
44189287 ATTTAATGTGTTTTAAAGTAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* * *
44189331 GTTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTTTA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* *
44189375 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* *
44189419 ATTTAACGTATTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
44189439 GGAACAAGAA
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 136 1.00
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
Found at i:44193296 original size:46 final size:44
Alignment explanation
Indices: 44193245--44193375 Score: 126
Period size: 45 Copynumber: 2.9 Consensus size: 44
44193235 TTTTGACATA
*
44193245 TAGTATTATTTAATATTTAAGCT-TAAC-ATTGTTTTAAATTTATCAT
1 TAGTATTATTTAATATTTAA--TAT-ACTATTATTTTAAA-TTATCAT
*
44193291 TAGTATTATTTTAATATTTAATATACTATTATTTTAAATTATTAT
1 TAGTATTA-TTTAATATTTAATATACTATTATTTTAAATTATCAT
* *
44193336 TAATATTATTTAA-ATTTATCATATA-TCAATATTTTAAATT
1 TAGTATTATTTAATATTTA--ATATACT-ATTATTTTAAATT
44193376 CATTATGTAC
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
43 5 0.07
44 6 0.08
45 33 0.44
46 19 0.25
47 12 0.16
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (44 bp):
TAGTATTATTTAATATTTAATATACTATTATTTTAAATTATCAT
Found at i:44193302 original size:23 final size:23
Alignment explanation
Indices: 44193276--44193375 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 23
44193266 CTTAACATTG
44193276 TTTTAAATTTATCAT-TAGTATTA
1 TTTTAAATTTATCATATA-TATTA
44193299 TTTTAATATTTA--ATATACTATTA
1 TTTTAA-ATTTATCATATA-TATTA
*
44193322 TTTTAAA-TTATTAT-TAATATTA
1 TTTTAAATTTATCATAT-ATATTA
*
44193344 -TTTAAATTTATCATATATCAATA
1 TTTTAAATTTATCATATAT-ATTA
44193367 TTTTAAATT
1 TTTTAAATT
44193376 CATTATGTAC
Statistics
Matches: 65, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
21 9 0.14
22 17 0.26
23 26 0.40
24 13 0.20
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTAAATTTATCATATATATTA
Found at i:44193354 original size:22 final size:23
Alignment explanation
Indices: 44193267--44193381 Score: 94
Period size: 23 Copynumber: 5.0 Consensus size: 23
44193257 ATATTTAAGC
* * *
44193267 TTAACATTGTTTTAAATTTATCA
1 TTAATATTATTTTAAATTTATTA
* *
44193290 TTAGTATTATTTTAATATTTAATA
1 TTAATATTATTTTAA-ATTTATTA
*
44193314 -TACTATTATTTTAAA-TTATTA
1 TTAATATTATTTTAAATTTATTA
*
44193335 TTAATATTA-TTTAAATTTATCA
1 TTAATATTATTTTAAATTTATTA
* *
44193357 -TATATCAATATTTTAAATTCATTA
1 TTA-AT-ATTATTTTAAATTTATTA
44193381 T
1 T
44193382 GTACTATTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.18
22 15 0.21
23 28 0.38
24 17 0.23
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
TTAATATTATTTTAAATTTATTA
Found at i:44193360 original size:45 final size:43
Alignment explanation
Indices: 44193276--44193395 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 43
44193266 CTTAACATTG
* * *
44193276 TTTTAAATTTATCATTAGTATTATTTTAATATTTAATATA-CTATTA
1 TTTTAAA-TTATTATTAATATTA-TTTAA-ATTTAATATATC-AATA
44193322 TTTTAAATTATTATTAATATTATTTAAATTTATCATATATCAATA
1 TTTTAAATTATTATTAATATTATTTAAATTTA--ATATATCAATA
*
44193367 TTTTAAATTCATTATGTACTATT-TTTAAA
1 TTTTAAATT-ATTAT-TAATATTATTTAAA
44193396 AAAAACTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 5 0.08
44 5 0.08
45 30 0.46
46 19 0.29
47 6 0.09
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (43 bp):
TTTTAAATTATTATTAATATTATTTAAATTTAATATATCAATA
Found at i:44193395 original size:22 final size:20
Alignment explanation
Indices: 44193322--44193395 Score: 58
Period size: 24 Copynumber: 3.4 Consensus size: 20
44193312 TATACTATTA
*
44193322 TTTTAAATTATTATTAATAT
1 TTTTAAATTATTATTACTAT
* *
44193342 TATTTAAATTTATCATATATCAAT
1 T-TTTAAA-TTATTAT-TA-CTAT
44193366 ATTTTAAATTCATTATGTACTAT
1 -TTTTAAATT-ATTAT-TACTAT
44193389 TTTTAAA
1 TTTTAAA
44193396 AAAAACTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 6 0.14
22 13 0.31
23 7 0.17
24 14 0.33
25 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.54
Consensus pattern (20 bp):
TTTTAAATTATTATTACTAT
Found at i:44195120 original size:12 final size:12
Alignment explanation
Indices: 44195089--44195114 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44195079 TTCAACTAAT
44195089 AAAGCAAACAAA
1 AAAGCAAACAAA
44195101 AAAGCAAACAAA
1 AAAGCAAACAAA
44195113 AA
1 AA
44195115 CTCAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:44202666 original size:19 final size:20
Alignment explanation
Indices: 44202621--44202673 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
44202611 CATATACGAA
*
44202621 ATATAAATTTTAATTTAAAT
1 ATATAAATTATAATTTAAAT
* *
44202641 ATATAAATTATATTTTAAGT
1 ATATAAATTATAATTTAAAT
*
44202661 AT-TAAAATATAAT
1 ATATAAATTATAAT
44202674 AATTACAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATAAATTATAATTTAAAT
Found at i:44202946 original size:5 final size:5
Alignment explanation
Indices: 44202936--44202963 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44202926 TATATGACAT
44202936 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
44202964 TCATAAACAG
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:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:44203102 original size:31 final size:32
Alignment explanation
Indices: 44203064--44203130 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
44203054 CTTTAAATCC
44203064 ATACATTTGAATCAAAATCAAAATTT-TATGT
1 ATACATTTGAATCAAAATCAAAATTTATATGT
*
44203095 ATACATTTGAATTAAAATCAAAATTTAATATGT
1 ATACATTTGAATCAAAATCAAAATTT-ATATGT
44203128 ATA
1 ATA
44203131 ATTGCAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 25 0.76
33 8 0.24
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (32 bp):
ATACATTTGAATCAAAATCAAAATTTATATGT
Found at i:44206773 original size:15 final size:15
Alignment explanation
Indices: 44206747--44206802 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
44206737 AAGTTCAAAT
44206747 TTTTTAAA--TTTAA
1 TTTTTAAATTTTTAA
*
44206760 TTTTTATATTTTT-A
1 TTTTTAAATTTTTAA
*
44206774 TTTTTAAGAATTTTTAT
1 TTTTT-A-AATTTTTAA
44206791 TTTTTAAATTTT
1 TTTTTAAATTTT
44206803 AACAACTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.20
14 6 0.17
15 10 0.29
16 7 0.20
17 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTTAAATTTTTAA
Found at i:44206802 original size:24 final size:24
Alignment explanation
Indices: 44206758--44206804 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44206748 TTTTAAATTT
*
44206758 AATTTTTATATTTTTATTTTTAAG
1 AATTTTTATATTTTTAATTTTAAG
44206782 AATTTTTAT-TTTTTAAATTTTAA
1 AATTTTTATATTTTT-AATTTTAA
44206805 CAACTAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
AATTTTTATATTTTTAATTTTAAG
Found at i:44212200 original size:15 final size:15
Alignment explanation
Indices: 44212180--44212229 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
44212170 AATAATTAGT
44212180 AAAAATTATAAATTA
1 AAAAATTATAAATTA
44212195 AAAAA-T-T--ATTA
1 AAAAATTATAAATTA
*
44212206 AAAAAGTATAAATTA
1 AAAAATTATAAATTA
*
44212221 TAAAATTAT
1 AAAAATTAT
44212230 TAATACTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 9 0.31
12 1 0.03
13 2 0.07
14 1 0.03
15 16 0.55
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
AAAAATTATAAATTA
Found at i:44212216 original size:26 final size:26
Alignment explanation
Indices: 44212180--44212232 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
44212170 AATAATTAGT
*
44212180 AAAAATTATAAATTAAAAAATTATTA
1 AAAAAGTATAAATTAAAAAATTATTA
*
44212206 AAAAAGTATAAATTATAAAATTATTA
1 AAAAAGTATAAATTAAAAAATTATTA
44212232 A
1 A
44212233 TACTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAAAGTATAAATTAAAAAATTATTA
Found at i:44214484 original size:12 final size:13
Alignment explanation
Indices: 44214458--44214487 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
44214448 TGTGTGAACT
44214458 AATTAATTAATTA
1 AATTAATTAATTA
44214471 AATTAATT-ATTA
1 AATTAATTAATTA
44214483 AATTA
1 AATTA
44214488 GTACTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:44218716 original size:461 final size:461
Alignment explanation
Indices: 44217854--44218779 Score: 1816
Period size: 461 Copynumber: 2.0 Consensus size: 461
44217844 ACACTATTTT
*
44217854 GGACGATAACGAGTACAAATTGATTATGCAACCAATTAGTGAATTATTTGGGATTCCCTAGGTCA
1 GGACGATAACGAGTACAAATTGATTATGCAACCAACTAGTGAATTATTTGGGATTCCCTAGGTCA
44217919 ATGAGATATTTGAAGGCTTTAAGGAATCTCAAATCGAACCGCACGACTGAGATCATCAATATCAG
66 ATGAGATATTTGAAGGCTTTAAGGAATCTCAAATCGAACCGCACGACTGAGATCATCAATATCAG
44217984 TAGCATTCGGGCTACAATTTAATAGCACAGAGAAAGTCGCTCTTGTTGTGGTTAAACAATTTGTT
131 TAGCATTCGGGCTACAATTTAATAGCACAGAGAAAGTCGCTCTTGTTGTGGTTAAACAATTTGTT
44218049 TTTCAATTTGTAAGATAGAATGATGTTGGTTTTGAAAAAATTCGTTTAATTATGTTTTGTTTGTA
196 TTTCAATTTGTAAGATAGAATGATGTTGGTTTTGAAAAAATTCGTTTAATTATGTTTTGTTTGTA
44218114 AGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTTTTTTTTAGTATTGAGAAAGTTGTTC
261 AGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTTTTTTTTAGTATTGAGAAAGTTGTTC
44218179 ATGTTGTAAAATTATATATTGTAAGTTAAGTGAAACTATTTAGAATGTTTGAAATGTAATGTAAA
326 ATGTTGTAAAATTATATATTGTAAGTTAAGTGAAACTATTTAGAATGTTTGAAATGTAATGTAAA
44218244 TTAATAGTTATTTTGTGAAATATAATTTTTATGTAAATCATTTATGTAATCTGAAATCAAGAAAA
391 TTAATAGTTATTTTGTGAAATATAATTTTTATGTAAATCATTTATGTAATCTGAAATCAAGAAAA
44218309 TTAAAA
456 TTAAAA
*
44218315 GGACGATAACGAGTACAAATTGGTTATGCAACCAACTAGTGAATTATTTGGGATTCCCTAGGTCA
1 GGACGATAACGAGTACAAATTGATTATGCAACCAACTAGTGAATTATTTGGGATTCCCTAGGTCA
* *
44218380 ATGAGATATTTGAAGGTTTTAAGGAATCTCAAATCGAACCGCACGACTGAGATCATCAATATCGG
66 ATGAGATATTTGAAGGCTTTAAGGAATCTCAAATCGAACCGCACGACTGAGATCATCAATATCAG
44218445 TAGCATTCGGGCTACAATTTAATAGCACAGAGAAAGTCGCTCTTGTTGTGGTTAAACAATTTGTT
131 TAGCATTCGGGCTACAATTTAATAGCACAGAGAAAGTCGCTCTTGTTGTGGTTAAACAATTTGTT
44218510 TTTCAATTTGTAAGATAGAATGATGTTGGTTTTGAAAAAATTCGTTTAATTATGTTTTGTTTGTA
196 TTTCAATTTGTAAGATAGAATGATGTTGGTTTTGAAAAAATTCGTTTAATTATGTTTTGTTTGTA
44218575 AGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTTTTTTTTAGTATTGAGAAAGTTGTTC
261 AGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTTTTTTTTAGTATTGAGAAAGTTGTTC
44218640 ATGTTGTAAAATTATATATTGTAAGTTAAGTGAAACTATTTAGAATGTTTGAAATGTAATGTAAA
326 ATGTTGTAAAATTATATATTGTAAGTTAAGTGAAACTATTTAGAATGTTTGAAATGTAATGTAAA
44218705 TTAATAGTTATTTTGTGAAATATAATTTTTATGTAAATCATTTATGTAATCTGAAATCAAGAAAA
391 TTAATAGTTATTTTGTGAAATATAATTTTTATGTAAATCATTTATGTAATCTGAAATCAAGAAAA
44218770 TTAAAA
456 TTAAAA
44218776 GGAC
1 GGAC
44218780 ATTTTTAAAG
Statistics
Matches: 461, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
461 461 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (461 bp):
GGACGATAACGAGTACAAATTGATTATGCAACCAACTAGTGAATTATTTGGGATTCCCTAGGTCA
ATGAGATATTTGAAGGCTTTAAGGAATCTCAAATCGAACCGCACGACTGAGATCATCAATATCAG
TAGCATTCGGGCTACAATTTAATAGCACAGAGAAAGTCGCTCTTGTTGTGGTTAAACAATTTGTT
TTTCAATTTGTAAGATAGAATGATGTTGGTTTTGAAAAAATTCGTTTAATTATGTTTTGTTTGTA
AGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTTTTTTTTAGTATTGAGAAAGTTGTTC
ATGTTGTAAAATTATATATTGTAAGTTAAGTGAAACTATTTAGAATGTTTGAAATGTAATGTAAA
TTAATAGTTATTTTGTGAAATATAATTTTTATGTAAATCATTTATGTAATCTGAAATCAAGAAAA
TTAAAA
Found at i:44222219 original size:96 final size:100
Alignment explanation
Indices: 44222015--44222246 Score: 348
Period size: 96 Copynumber: 2.4 Consensus size: 100
44222005 AATAAAGTAA
*
44222015 TGGCGCTATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
1 TGGCGCCATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
***
44222080 AATAGATTTTTTTAAAAAGTCTTAAAATGAATTGG
66 AATAGATTTTAAAAAAAAGTCTTAAAATGAATTGG
* *
44222115 TGACGCCATTTAGAATGGCTCCACCAAATAAAATATTA-TTTTT-AAAAATTTTAAATAT-AAAA
1 TGGCGCCATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
44222177 AATAGA-TTTAAAAAAAAGTCTTAAAATGAATTGG
66 AATAGATTTTAAAAAAAAGTCTTAAAATGAATTGG
* *
44222211 TGGCGCCATTTAGAATAACTCTACCAAA-AAGAATAT
1 TGGCGCCATTTAGAATGACTCCACCAAATAA-AATAT
44222247 ACATTTAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
95 2 0.02
96 54 0.45
97 10 0.08
98 15 0.12
99 5 0.04
100 35 0.29
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (100 bp):
TGGCGCCATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
AATAGATTTTAAAAAAAAGTCTTAAAATGAATTGG
Found at i:44227497 original size:22 final size:22
Alignment explanation
Indices: 44227468--44227559 Score: 87
Period size: 22 Copynumber: 4.0 Consensus size: 22
44227458 TGCACTAATG
44227468 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* * * *
44227490 TACAGAGAGTACAGATGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
44227512 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
44227534 GTAATCAAAGAGCACT-AACGTGCTA
1 --AA-CAGAGAGCACTGAA-GTGCTA
44227559 A
1 A
44227560 TAATGAGAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
22 36 0.64
23 1 0.02
24 3 0.05
25 16 0.29
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:44227547 original size:25 final size:25
Alignment explanation
Indices: 44227514--44227595 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
44227504 ATGTGCTAAA
* *
44227514 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
44227539 CAAAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
* *
44227564 GAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
44227589 CAGAGAG
1 CAGAGAG
44227596 TGCGCTAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:44228562 original size:5 final size:5
Alignment explanation
Indices: 44228552--44228584 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
44228542 TTATTTCTTT
*
44228552 TATAA TATAA TATAG TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
44228585 TTATACTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:44235515 original size:24 final size:24
Alignment explanation
Indices: 44235487--44235538 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44235477 TTAGTAAATC
*
44235487 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44235511 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44235535 AAAT
1 AAAT
44235539 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44237483 original size:24 final size:24
Alignment explanation
Indices: 44237456--44237507 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44237446 TTAGTAAGTC
*
44237456 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44237480 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44237504 AAAT
1 AAAT
44237508 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44249414 original size:29 final size:29
Alignment explanation
Indices: 44249382--44249440 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
44249372 ACCAATAAAA
*
44249382 GCCGTTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTCAAAATTTACCGAAATGG
* ** *
44249411 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGATTTTTTCAAAATTTACCGAAATGG
44249440 G
1 G
44249441 TCATTTTCCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (29 bp):
GCCGATTTTTTCAAAATTTACCGAAATGG
Found at i:44251257 original size:54 final size:54
Alignment explanation
Indices: 44251175--44251280 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
44251165 ACCAAACCCT
* *
44251175 TATATTACTCGTTTTGGTCCATCTATTGTGTTAAATATTGAGATTTAATGGATC
1 TATATTACTCATTTTGATCCATCTATTGTGTTAAATATTGAGATTTAATGGATC
* *
44251229 TATATTACTCATTTTGATCTATCTATTGTGTTAAATTTTGAGATTTAATGGA
1 TATATTACTCATTTTGATCCATCTATTGTGTTAAATATTGAGATTTAATGGA
44251281 GCAATTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (54 bp):
TATATTACTCATTTTGATCCATCTATTGTGTTAAATATTGAGATTTAATGGATC
Found at i:44251297 original size:128 final size:124
Alignment explanation
Indices: 44251071--44251351 Score: 402
Period size: 128 Copynumber: 2.2 Consensus size: 124
44251061 TTGATATATT
* *
44251071 TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGATTGATTTATCTATTTTGTTAAA
1 TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGATTGATCTATCTATTGTGTTAAA
* * **
44251136 ATTTGAGATTTAATGGAGCAATTAAATTAACCAAACCCTTATATTACTCGTTTTGGTCCATC
66 ATTTGAGATTTAATGGAGCAATTAAATCAACCAAACCC-CA-A-TACTCGTTTTCATCCATC
*
44251198 TATTGTGTTAAATATTGAGATTTAATGGATCTATATTACTC-ATTTTGATCTATCTATTGTGTTA
1 TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGA--TTGATCTATCTATTGTGTTA
* * *
44251262 AATTTTGAGATTTAATGGAGCAATTAAATCCACCAAACCCCAATACTCGTTTTCATCTATC
64 AAATTTGAGATTTAATGGAGCAATTAAATCAACCAAACCCCAATACTCGTTTTCATCCATC
* *
44251323 TATTGTGTTAAATTTTGAGATTTTATGGA
1 TATTGTGTTAAATATTGAGATTTAATGGA
44251352 GCGGTTAAAT
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
125 42 0.30
126 2 0.01
127 41 0.29
128 55 0.39
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (124 bp):
TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGATTGATCTATCTATTGTGTTAAA
ATTTGAGATTTAATGGAGCAATTAAATCAACCAAACCCCAATACTCGTTTTCATCCATC
Found at i:44251416 original size:76 final size:75
Alignment explanation
Indices: 44251231--44251497 Score: 407
Period size: 76 Copynumber: 3.6 Consensus size: 75
44251221 AATGGATCTA
* * * **
44251231 TATTACTCATTTTGATCTATCTATTGTGTTAAATTTTGAGATTTAATGGAGCAATTAAATCCACC
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
44251296 AAA-CC-CC-
66 AAACCCGCCG
*
44251303 -AATACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
44251367 AAACCCCGCCG
66 AAA-CCCGCCG
44251378 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
44251443 AAATCCCGCCG
66 AAA-CCCGCCG
* * *
44251454 TATTACTCGTTTTGATCTATCTAATGTGTTGAATTTTGAGATTT
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTT
44251498 AATTTTTAAA
Statistics
Matches: 179, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
71 61 0.34
73 2 0.01
74 2 0.01
76 114 0.64
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (75 bp):
TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
AAACCCGCCG
Found at i:44254815 original size:20 final size:19
Alignment explanation
Indices: 44254783--44254846 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
44254773 TCCCTCTAAA
44254783 AAAAAGATT-AAAATAATATT
1 AAAAA-ATTCAAAATAATA-T
* **
44254803 TAAAAATTCAAAATTTTAT
1 AAAAAATTCAAAATAATAT
**
44254822 AAAAAATTCAAAATTTTAT
1 AAAAAATTCAAAATAATAT
44254841 AAAAAA
1 AAAAAA
44254847 ATATTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 28 0.72
20 11 0.28
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAAATTCAAAATAATAT
Found at i:44254848 original size:20 final size:19
Alignment explanation
Indices: 44254804--44254846 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
44254794 AATAATATTT
44254804 AAAAATTCAAAATTTTATA
1 AAAAATTCAAAATTTTATA
44254823 AAAAATTCAAAATTTTATA
1 AAAAATTCAAAATTTTATA
44254842 AAAAA
1 AAAAA
44254847 ATATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATTTTATA
Found at i:44257571 original size:12 final size:12
Alignment explanation
Indices: 44257554--44257589 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
44257544 ATTTAAAACG
44257554 AAATAAAAGAAA
1 AAATAAAAGAAA
44257566 AAATAAAAGAAA
1 AAATAAAAGAAA
44257578 ATAA-AAAAGAAA
1 A-AATAAAAGAAA
44257590 TATATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 21 0.91
13 2 0.09
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAAAGAAA
Found at i:44258526 original size:44 final size:44
Alignment explanation
Indices: 44258443--44259239 Score: 703
Period size: 44 Copynumber: 18.0 Consensus size: 44
44258433 ATAAGACTTG
* * *
44258443 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGC
* *
44258488 TATCTTTGATCTACTTCACACCAATACATGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* ** * *** *
44258532 TTTCTCCGATCTACTTCGC-CATCAGTATGGGAAGACAAGATCTGG
1 TATCTTTGATCTACTTCACGC--CAGTACATGAAGACAAGATCTGC
* *
44258577 TATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATATGC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * * *** *
44258621 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGG
1 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGC
44258666 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * *** *
44258710 T-TTTTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGG
1 TATCTTT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGC
* *
44258755 TATCTTTGATCTACTTCAAGCCAGTACATGAAGATAAGATCTGC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * *
44258799 TTTCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTG-
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * *
44258842 T-TGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTG-
1 TAT-CTT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * *
44258886 TCATCTTTGATCTACTTCATGCCAATACATGAAGATAAGATCTGC
1 T-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * * *
44258931 TATATTTGATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTAC
1 TATCTTTGATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGC
* * * * *** *
44258976 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAC
1 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGC
* * * *
44259021 TTTCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * *
44259065 TTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-A
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * *
44259108 T-TGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTG-
1 TAT-CTT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * *
44259152 TCATCTTCGATCTACTTCATGCCAATA-ATGAAGATAAGATCTGC
1 T-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * ** * *
44259196 TATATTTGATCAACTTCGTTGCCAGTACAGGAAGATAAGATCTG
1 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTG
44259240 TTTCCTTTTC
Statistics
Matches: 617, Mismatches: 113, Indels: 44
0.80 0.15 0.06
Matches are distributed among these distances:
42 2 0.00
43 39 0.06
44 357 0.58
45 211 0.34
46 8 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
Found at i:44258571 original size:89 final size:89
Alignment explanation
Indices: 44258445--44259243 Score: 781
Period size: 89 Copynumber: 9.0 Consensus size: 89
44258435 AAGACTTGTA
* ** * ** *
44258445 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
44258510 AATACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
44258534 TCTCCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
* *
44258599 AGTACATGAAGATAAGATATGCTT
66 AGTACATGAAGACAAGATCTGCTT
*
44258623 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
44258688 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *
44258712 TTTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
44258777 AGTACATGAAGATAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
*** * *
44258801 TCTTCGATCTACTTCATGCCA--A-TACATGAAGACAAGATCTG-T-TGGTTCTGATCCACTTCA
1 TCTTCGATCTACTTC--GCCACCAGTATGGGAAGACAAGATCTGCTAT-CTT-TGATCTACTTCA
* * *
44258861 TGTCAGTACATGAAGACAAGATCTG-TCA
62 CGCCAGTACATGAAGACAAGATCTGCT-T
* *** * * * *
44258889 TCTTTGATCTACTTCATGCCA--A-TACATGAAGATAAGATCTGCTATATTTGATCAACTTCGCT
1 TCTTCGATCTACTTC--GCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-
* *
44258951 GCCAGTACAGGAAGACAAGATCTACTT
63 GCCAGTACATGAAGACAAGATCTGCTT
* * * *
44258978 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTTTCTTCGATCTACTTCATGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
*
44259043 AATACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *** * * * *
44259067 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCT-AT-TGGTTCTGATCCACTTCATG
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTAT-CTT-TGATCTACTTCACG
* *
44259129 TCAGTACATGAAGACAAGATCTG-TCA
64 CCAGTACATGAAGACAAGATCTGCT-T
* * * *
44259155 TCTTCGATCTACTTCATGCCA--A-TAAT--GAAGATAAGATCTGCTATATTTGATCAACTTCGT
1 TCTTCGATCTACTTC--GCCACCAGT-ATGGGAAGACAAGATCTGCTATCTTTGATCTACTTC-A
* * *
44259215 TGCCAGTACAGGAAGATAAGATCTG-TT
62 CGCCAGTACATGAAGACAAGATCTGCTT
44259242 TC
1 TC
44259244 CTTTTCAACC
Statistics
Matches: 606, Mismatches: 82, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
86 2 0.00
87 36 0.06
88 192 0.32
89 342 0.56
90 30 0.05
91 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:44259000 original size:266 final size:264
Alignment explanation
Indices: 44258445--44259238 Score: 1068
Period size: 266 Copynumber: 3.0 Consensus size: 264
44258435 AAGACTTGTA
** * **
44258445 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACA-C
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-AGC
* *
44258509 CAATACATGAAGACAAGATCTGCTTTCTCCGATCTACTTC-GCC-ATCAGTATGGGAAGACAAGA
65 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAGCCAAT-A-CAT--GAAGACAAGA
* * * * * * *
44258572 TCTGGTAT-CTT-TGATCTACTTCACGCCAGTACATGAAGATAAGATATG-CTTTCTTCGATCTA
126 TCT-GT-TGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTC-ATCTTCGATCTA
* * * * * *
44258634 CTTC--GCCACCAGT-ATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAC-GCCAGTACAT
188 CTTCATGCCA--A-TAAT--GAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTACAG
*
44258695 GAAGACAAGATCTGCTT
248 GAAGACAAGATCTACTT
* *
44258712 TTTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAAGCC
* *
44258777 AGTACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTG
66 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTG
*
44258842 TTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCTTTGATCTACTTCATG
130 TTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCTTCGATCTACTTCATG
44258907 CCAATACATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTACAGGAAGACAAGAT
195 CCAATA-ATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTACAGGAAGACAAGAT
44258972 CTACTT
259 CTACTT
* * * * *
44258978 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTTTCTTCGATCTACTTCATGCC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAAGCC
*
44259043 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTA
66 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTG
44259108 TTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCTTCGATCTACTTCATG
130 TTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCTTCGATCTACTTCATG
* *
44259173 CCAATAATGAAGATAAGATCTGCTATATTTGATCAACTTCGTTGCCAGTACAGGAAGATAAGATC
195 CCAATAATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTACAGGAAGACAAGATC
44259238 T
260 T
44259239 GTTTCCTTTT
Statistics
Matches: 475, Mismatches: 40, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
264 1 0.00
265 92 0.19
266 275 0.58
267 95 0.20
268 6 0.01
269 4 0.01
270 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (264 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAAGCC
AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAGCCAATACATGAAGACAAGATCTGT
TGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCTTCGATCTACTTCATGC
CAATAATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTACAGGAAGACAAGATCT
ACTT
Found at i:44264316 original size:3 final size:3
Alignment explanation
Indices: 44264308--44264358 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
44264298 TGTTAAATGG
*
44264308 TTA TTA TTA CTGTA TTA TTA TTA GTA TTTA TTA TTA TTA TGT- TTA TTA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
44264356 TTA
1 TTA
44264359 CCATTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 1 0.02
3 33 0.80
4 5 0.12
5 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:44264354 original size:19 final size:15
Alignment explanation
Indices: 44264320--44264358 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
44264310 ATTATTACTG
44264320 TATTATTATTAGTATT
1 TATTATTATTAGTA-T
44264336 TATTATTATTATGT-T
1 TATTATTATTA-GTAT
44264351 TATTATTA
1 TATTATTA
44264359 CCATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TATTATTATTAGTAT
Found at i:44267560 original size:29 final size:30
Alignment explanation
Indices: 44267509--44267566 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
44267499 ATGTTGGTTG
*
44267509 TGATTTTGATTTTTGCTGTTAATGGTGTTC
1 TGATTTTGATTTTTGCTGTTAATGCTGTTC
44267539 TGATTTTGA-TTTTGCTGTTAATGCTGTT
1 TGATTTTGATTTTTGCTGTTAATGCTGTT
44267567 AATGGTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.14, C:0.07, G:0.22, T:0.57
Consensus pattern (30 bp):
TGATTTTGATTTTTGCTGTTAATGCTGTTC
Found at i:44267580 original size:29 final size:29
Alignment explanation
Indices: 44267509--44267581 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
44267499 ATGTTGGTTG
* * *
44267509 TGATTTTGATTTTTGCTGTTAATGGTGTTC
1 TGATTGTGA-TTTTGCTGTTAATGCTGTTA
*
44267539 TGATTTTGATTTTGCTGTTAATGCTGTTAA
1 TGATTGTGATTTTGCTGTTAATGCTGTT-A
* *
44267569 TGGTTGTGTTTTT
1 TGATTGTGATTTT
44267582 TATTTTTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.14, C:0.05, G:0.23, T:0.58
Consensus pattern (29 bp):
TGATTGTGATTTTGCTGTTAATGCTGTTA
Found at i:44267597 original size:37 final size:38
Alignment explanation
Indices: 44267522--44267603 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
44267512 TTTTGATTTT
44267522 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
* * *
44267560 TGCTGTTAAT-G-GTTGTGTTTTTTATTTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGA-TTTTGCTGTTAA
*
44267597 TGGTGTT
1 TGCTGTT
44267604 CTGTTAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 10 0.26
37 19 0.49
38 10 0.26
ACGTcount: A:0.13, C:0.06, G:0.24, T:0.56
Consensus pattern (38 bp):
TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
Found at i:44267877 original size:7 final size:7
Alignment explanation
Indices: 44267867--44267893 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44267857 TATTCCCTAC
44267867 TACCAAG
1 TACCAAG
44267874 TACCAAG
1 TACCAAG
44267881 TACCAAG
1 TACCAAG
44267888 TACCAA
1 TACCAA
44267894 CCTATTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.15
Consensus pattern (7 bp):
TACCAAG
Found at i:44268853 original size:13 final size:13
Alignment explanation
Indices: 44268835--44268943 Score: 128
Period size: 13 Copynumber: 8.2 Consensus size: 13
44268825 ATAAAATTTG
44268835 TAATATACTGTTT
1 TAATATACTGTTT
44268848 TAATATACTGTTT
1 TAATATACTGTTT
*
44268861 TAATATACTATTAT
1 TAATATACTGTT-T
* *
44268875 AAATATACTTTTT
1 TAATATACTGTTT
*
44268888 TAATATATTGTTT
1 TAATATACTGTTT
* *
44268901 TAATATACTATTA
1 TAATATACTGTTT
*
44268914 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
44268928 TAATATAATGTTT
1 TAATATACTGTTT
44268941 TAA
1 TAA
44268944 CTTTTAACTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
13 60 0.74
14 21 0.26
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:44268854 original size:27 final size:26
Alignment explanation
Indices: 44268824--44268943 Score: 105
Period size: 27 Copynumber: 4.5 Consensus size: 26
44268814 AATATACTGT
*
44268824 TATAAAATTTGTAATATACTGTTTTAA
1 TATAATATTT-TAATATACTGTTTTAA
* * * *
44268851 TATACTGTTTTAATATACTATTATAAA
1 TATAATATTTTAATATACTGTT-TTAA
* * *
44268878 TATACTTTTTTAATATATTGTTTTAA
1 TATAATATTTTAATATACTGTTTTAA
* * *
44268904 TATACTATTATAATTATATTGTTTTAA
1 TATAATATTTTAA-TATACTGTTTTAA
*
44268931 TATAATGTTTTAA
1 TATAATATTTTAA
44268944 CTTTTAACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 25 0.32
27 52 0.68
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (26 bp):
TATAATATTTTAATATACTGTTTTAA
Found at i:44268880 original size:40 final size:40
Alignment explanation
Indices: 44268836--44268943 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
44268826 TAAAATTTGT
*
44268836 AATATACTGTTTTAATATACTGTTTTAATATACTATTATA
1 AATATACTGTTTTAATATAATGTTTTAATATACTATTATA
* *
44268876 AATATACTTTTTTAATATATTGTTTTAATATACTATTATA
1 AATATACTGTTTTAATATAATGTTTTAATATACTATTATA
* *
44268916 ATTATATTGTTTTAATATAATGTTTTAA
1 AATATACTGTTTTAATATAATGTTTTAA
44268944 CTTTTAACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (40 bp):
AATATACTGTTTTAATATAATGTTTTAATATACTATTATA
Found at i:44269130 original size:13 final size:13
Alignment explanation
Indices: 44269112--44269242 Score: 126
Period size: 13 Copynumber: 10.2 Consensus size: 13
44269102 ATTTTTAATG
*
44269112 TAATATACTATTT
1 TAATATACTGTTT
44269125 TAATATACTGTTT
1 TAATATACTGTTT
*
44269138 TAA-A-A-T-TTA
1 TAATATACTGTTT
*
44269147 TAATATATTGTTT
1 TAATATACTGTTT
*
44269160 TAATATACTATTAT
1 TAATATACTGTT-T
* *
44269174 AAATATACTTTTT
1 TAATATACTGTTT
*
44269187 TAATATATTGTTT
1 TAATATACTGTTT
*
44269200 TAATATACTGTTA
1 TAATATACTGTTT
*
44269213 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
44269227 TAATATAATGTTT
1 TAATATACTGTTT
44269240 TAA
1 TAA
44269243 CTTTTAAATT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 2 0.02
13 64 0.66
14 22 0.23
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:44269202 original size:40 final size:40
Alignment explanation
Indices: 44269147--44269242 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
44269137 TTAAAATTTA
44269147 TAATATATTGTTTTAATATACTATTATAAATATACTT-TTT
1 TAATATATTGTTTTAATATACTATTATAAATATA-TTGTTT
* *
44269187 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTT
1 TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
*
44269227 TAATATAATGTTTTAA
1 TAATATATTGTTTTAA
44269243 CTTTTAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.04
40 50 0.96
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (40 bp):
TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
Found at i:44269228 original size:27 final size:27
Alignment explanation
Indices: 44269175--44269274 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
44269165 TACTATTATA
* *
44269175 AATATACTTTTTTAA-TATATTGTTTT
1 AATATACTGTTATAATTATATTGTTTT
44269201 AATATACTGTTATAATTATATTGTTTT
1 AATATACTGTTATAATTATATTGTTTT
* * * **
44269228 AATATAATGTTTTAACTTTTA-AATTTT
1 AATATACTGTTATAA-TTATATTGTTTT
*
44269255 AATATACTGTTATAAATATA
1 AATATACTGTTATAATTATA
44269275 CATTTAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 16 0.26
27 41 0.67
28 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (27 bp):
AATATACTGTTATAATTATATTGTTTT
Found at i:44269232 original size:299 final size:299
Alignment explanation
Indices: 44268694--44269298 Score: 1068
Period size: 299 Copynumber: 2.0 Consensus size: 299
44268684 TAACAAAATG
*
44268694 ATTAAATTTTAGTTTCTATACTTTATTTTTTAACATAAATTGGTGCTTATATTTTTATAATGTTA
1 ATTAAATTTTAGTTTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
*
44268759 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTGT
66 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
* * * *
44268824 TATAAAATTTGTAATATACTGTTTTAATATACTGTTTTAATATACTATTATAAATATACTTTTTT
131 TATAAAATCTGTAATAAAATGTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTT
*
44268889 AATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAACTT
196 AATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATT
*
44268954 TTAGTATACTGTTATAAATATACATTTAATTTGTAACAC
261 TTAATATACTGTTATAAATATACATTTAATTTGTAACAC
44268993 ATTAAATTTTAGTTTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
1 ATTAAATTTTAGTTTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
44269058 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
66 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
* * ** *
44269123 TTTAATATACTGTTTTAAAAT-TTATAATATATTGTTTTAATATACTATTATAAATATACTTTTT
131 TATAAAAT-CTGTAATAAAATGTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTT
*
44269187 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAAT
195 TAATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAAT
44269252 TTTAATATACTGTTATAAATATACATTTAATTTGTAACAC
260 TTTAATATACTGTTATAAATATACATTTAATTTGTAACAC
44269292 ATTAAAT
1 ATTAAAT
44269299 GTTGATGTCC
Statistics
Matches: 291, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
299 284 0.98
300 7 0.02
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (299 bp):
ATTAAATTTTAGTTTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
TATAAAATCTGTAATAAAATGTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTT
AATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATT
TTAATATACTGTTATAAATATACATTTAATTTGTAACAC
Found at i:44271733 original size:9 final size:9
Alignment explanation
Indices: 44271696--44271741 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
44271686 GGTTGCAAAA
44271696 AGGACGATG
1 AGGACGATG
*
44271705 ACGACGATG
1 AGGACGATG
*
44271714 ACGACGATG
1 AGGACGATG
44271723 AGGACGATG
1 AGGACGATG
*
44271732 AGGATGATG
1 AGGACGATG
44271741 A
1 A
44271742 TGTTTCTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.39, T:0.13
Consensus pattern (9 bp):
AGGACGATG
Done.