Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 109 of 199
Found at i:36312743 original size:32 final size:32
Alignment explanation
Indices: 36312706--36312782 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
36312696 ATGCATGTGT
* * **
36312706 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
36312738 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
36312770 GTAACTTTTCATA
1 GTAACTTTTCATA
36312783 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:36318041 original size:25 final size:25
Alignment explanation
Indices: 36318013--36318068 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
36318003 ATTAGAAAGA
* *
36318013 AATTTCAATTAATCAACCTAGAGTT
1 AATTGCAATTAATCAACATAGAGTT
**
36318038 AATTGCTCTTAATCAACATAGAGTT
1 AATTGCAATTAATCAACATAGAGTT
*
36318063 AGTTGC
1 AATTGC
36318069 TCTTACTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (25 bp):
AATTGCAATTAATCAACATAGAGTT
Found at i:36318069 original size:25 final size:25
Alignment explanation
Indices: 36318021--36318073 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
36318011 GAAATTTCAA
*
36318021 TTAATCAACCTAGAGTTAATTGCTC
1 TTAATCAACATAGAGTTAATTGCTC
*
36318046 TTAATCAACATAGAGTTAGTTGCTC
1 TTAATCAACATAGAGTTAATTGCTC
36318071 TTA
1 TTA
36318074 CTCTCGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (25 bp):
TTAATCAACATAGAGTTAATTGCTC
Found at i:36318988 original size:73 final size:72
Alignment explanation
Indices: 36318845--36319016 Score: 245
Period size: 73 Copynumber: 2.4 Consensus size: 72
36318835 AAAATAAGTA
*
36318845 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTTT
36318910 CGGGGAT
66 CGGGGAT
* * * * ***
36318917 TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGGCCAATGACGCTGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTT
36318982 TCGGGGAT
65 TCGGGGAT
* *
36318990 TTAGCGGTGTTTTTAAGAACGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
36319017 TAACATTCAG
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 25 0.28
73 63 0.72
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (72 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCCCGAGCTTT
CGGGGAT
Found at i:36319065 original size:114 final size:114
Alignment explanation
Indices: 36318916--36319453 Score: 788
Period size: 114 Copynumber: 4.7 Consensus size: 114
36318906 CTTTCGGGGA
* * * * *
36318916 TTTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGGCCAATGACGCTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* * * ***
36318981 TTCGGGGATTTAGCGGTGTTTTTAAGAACGCGCCGCTAACATTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTCAGGGC
*
36319030 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGACGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* * *
36319095 TTCGGGGATTTAGCGGCGTTTTAAAGAAATTGCCGCTAATGCTCAAGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTCAGGGC
* *
36319144 GTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
*
36319209 TTCGGGGATTTAGCGGTGTTTTTAAGAAAGTGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTCAGGGC
* * * *
36319258 TTTAGCGGCGTTTTTGGGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTATTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* * *
36319323 TTCGGGGATTTAGCGGCGCTTTTAAGAAAGAGCCGCTAATGTTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTCAGGGC
* * ** *
36319372 TTTAGCAGCGTTTTTGAGAAAGCGCCGCAAATAATTCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* *
36319437 TTTGGGGATTTAACGGC
66 TTCGGGGATTTAGCGGC
36319454 CAAAAATGCT
Statistics
Matches: 383, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 383 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTCAGGGC
Found at i:36320229 original size:28 final size:27
Alignment explanation
Indices: 36320128--36320232 Score: 79
Period size: 28 Copynumber: 3.8 Consensus size: 27
36320118 TTAGACGTGC
* *
36320128 TAGGGGTTAAAAGTTAGGGATTATGAAT
1 TAGGGGTTAAGAGTTAGGGATTA-GATT
* *
36320156 TAGGGATTATG-GTTTAAGGG-TTGAGATT
1 TAGGGGTTAAGAG-TT-AGGGATT-AGATT
* * * *
36320184 TAAGGTTTAGGGGTTAGGGATTAGATGT
1 TAGGGGTTAAGAGTTAGGGATTAGAT-T
36320212 TAGGGGTTAAGAGTTAGGGAT
1 TAGGGGTTAAGAGTTAGGGAT
36320233 ATAAGGTTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
27 9 0.15
28 45 0.75
29 6 0.10
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (27 bp):
TAGGGGTTAAGAGTTAGGGATTAGATT
Found at i:36320976 original size:97 final size:92
Alignment explanation
Indices: 36320850--36321041 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 92
36320840 AATTTTTAGC
*
36320850 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATT-TTGCGGCGTTCTTATGAAAAACG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAAT-AAA-AA-ATTATT--GG-GTTCTTAT-AAAAACA
* *
36320914 CCGCAAATAATAAATCAATTAATAAAAACA-AAA
59 CCGCAAAAAATAAATCAATTAATAAAAAAATAAA
* * * *
36320947 ATAGCAAAGCGGCGTCATTTTGTTCAAAATAAAAAATTATTTGTTTTTTATAAAAACACCGCAAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATAAAAAATTATTGGGTTCTTATAAAAACACCGCAAA
*
36321012 AAATAAATCAATTTATAAAAAAATAAA
66 AAATAAATCAATTAATAAAAAAATAAA
36321039 ATA
1 ATA
36321042 AAAAACTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
91 33 0.39
92 12 0.14
93 1 0.01
94 3 0.04
95 4 0.05
96 3 0.04
97 29 0.34
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (92 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATAAAAAATTATTGGGTTCTTATAAAAACACCGCAAA
AAATAAATCAATTAATAAAAAAATAAA
Found at i:36321175 original size:106 final size:107
Alignment explanation
Indices: 36320947--36321300 Score: 473
Period size: 106 Copynumber: 3.3 Consensus size: 107
36320937 AAAAACAAAA
* * *** **
36320947 ATAGCAAAGCGGCGTCATTTTGTTCAAAAT-AAAAAATTATTTGTTTTTTATAAAAACACCGCAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGA-CAGTTTTTTATAAAAACACCGCAA
36321011 AAAATAAATCAATTTATAAAAAAATAAAATAAAAAA-CTTTTAGC
65 AAAATAAATCAATTTAT-AAAAAATAAAATAAAAAATC-TTTAGC
* *
36321055 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAGCGAC-GTTTTTTATAAAAACGCCGCAAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGACAGTTTTTTATAAAAACACCGCAAA
*
36321119 AAATAAATCAATATATAAAAAATAAAATAAAAAATCTTTAGC
66 AAATAAATCAATTTATAAAAAATAAAATAAAAAATCTTTAGC
* * * *
36321161 AGAGCAAAACGGCGTCATTTTGTTCAAAATGACATAGCGGCATTTTTTTATAAAAACACCGC-AA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGACAGTTTTTTATAAAAACACCGCAAA
* * * *
36321225 AAATAAATCAATTTATAAAAAACAAAATAAAAAATTTTTCGA
66 AAATAAATCAATTTATAAAAAATAAAATAAAAAATCTTTAGC
* *
36321267 ATAGAAAAATGGCGTCATTTTGTTCAAAATGAAA
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
36321301 ATTTTATTAC
Statistics
Matches: 219, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
106 130 0.59
107 56 0.26
108 28 0.13
109 5 0.02
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.28
Consensus pattern (107 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGACAGTTTTTTATAAAAACACCGCAAA
AAATAAATCAATTTATAAAAAATAAAATAAAAAATCTTTAGC
Found at i:36323709 original size:13 final size:13
Alignment explanation
Indices: 36323679--36323778 Score: 60
Period size: 13 Copynumber: 7.6 Consensus size: 13
36323669 ACTTTAGTGT
* *
36323679 ATTACTTGAATAT
1 ATTACTTAAATAA
*
36323692 TTTACTTAAATAA
1 ATTACTTAAATAA
*
36323705 ATTACTTAAATAC
1 ATTACTTAAATAA
*
36323718 ATTACTT-ACTAAA
1 ATTACTTAAAT-AA
** **
36323731 ATTGGGTTAAATTT
1 ATT-ACTTAAATAA
36323745 ATTACTTAAA-AA
1 ATTACTTAAATAA
* *
36323757 TGTTACTTAAATAC
1 -ATTACTTAAATAA
36323771 ATTACTTA
1 ATTACTTA
36323779 CTAAAATTTA
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
12 2 0.03
13 53 0.84
14 6 0.10
15 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (13 bp):
ATTACTTAAATAA
Found at i:36323732 original size:26 final size:26
Alignment explanation
Indices: 36323703--36323786 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
36323693 TTACTTAAAT
36323703 AAATTACTTAAATACATTACTTACTA
1 AAATTACTTAAATACATTACTTACTA
** **
36323729 AAATTGGGTTAAATTTATTACTTA--A
1 AAATT-ACTTAAATACATTACTTACTA
36323754 AAATGTTACTTAAATACATTACTTACTA
1 AAA--TTACTTAAATACATTACTTACTA
36323782 AAATT
1 AAATT
36323787 TAAGTATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
25 4 0.09
26 21 0.47
27 16 0.36
28 4 0.09
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (26 bp):
AAATTACTTAAATACATTACTTACTA
Found at i:36323859 original size:18 final size:19
Alignment explanation
Indices: 36323818--36323861 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36323808 AAATAACTTA
36323818 TTAAAATATATTGAATTAC
1 TTAAAATATATTGAATTAC
*
36323837 TTAAATATATATT-ATTTAC
1 TTAAA-ATATATTGAATTAC
36323856 -TAAAAT
1 TTAAAAT
36323862 TGGGTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 4 0.17
19 10 0.43
20 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAAAATATATTGAATTAC
Found at i:36325780 original size:22 final size:22
Alignment explanation
Indices: 36325737--36325780 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36325727 TTGTGGCGCT
**
36325737 AAAAAGCGCCGCTAAATGCCTA
1 AAAAAGCGCCGCTAAAAACCTA
36325759 AAAAAGCGCCGCTAAAAACCTA
1 AAAAAGCGCCGCTAAAAACCTA
36325781 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAACCTA
Found at i:36326736 original size:21 final size:20
Alignment explanation
Indices: 36326710--36326752 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
36326700 TTGAACCCTG
*
36326710 AACCTCAAACCCTAAATCCCA
1 AACCTCAAACCATAAA-CCCA
36326731 AACCTCAAACCATAAACCCA
1 AACCTCAAACCATAAACCCA
36326751 AA
1 AA
36326753 TCTTGAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (20 bp):
AACCTCAAACCATAAACCCA
Found at i:36326839 original size:21 final size:20
Alignment explanation
Indices: 36326800--36326844 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
36326790 TTAATTTAGT
36326800 GTTTGGGGTTTAAGTTTAAG
1 GTTTGGGGTTTAAGTTTAAG
*
36326820 GTTTGGGGTTTAGGGTTTAAG
1 GTTTGGGGTTTA-AGTTTAAG
36326841 GTTT
1 GTTT
36326845 AGGATTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (20 bp):
GTTTGGGGTTTAAGTTTAAG
Found at i:36326843 original size:14 final size:14
Alignment explanation
Indices: 36326800--36326847 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
36326790 TTAATTTAGT
*
36326800 GTTTGGGGTTTAA-
1 GTTTAGGGTTTAAG
* **
36326813 GTTTAAGGTTTGGG
1 GTTTAGGGTTTAAG
36326827 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
36326841 GTTTAGG
1 GTTTAGG
36326848 ATTCAAGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:36327362 original size:3 final size:3
Alignment explanation
Indices: 36327354--36327413 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
36327344 GGTGAAAATG
36327354 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36327402 AAT AAT AAT AAT
1 AAT AAT AAT AAT
36327414 GGATTTGATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36327588 original size:98 final size:97
Alignment explanation
Indices: 36327464--36327657 Score: 343
Period size: 98 Copynumber: 2.0 Consensus size: 97
36327454 AAAAGCTTGA
36327464 GAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACAT
1 GAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACAT
*
36327529 AAGGTGTATTAACAACTATGGCTCAATATAGC
66 AACGTGTATTAACAACTATGGCTCAATATAGC
* * *
36327561 GAACTTGGTCTATTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATTAGCTAGTAAGCA
1 GAACTTGGTCT-CTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACA
36327626 TAACGTGTATTAACAACTATGGCTCAATATAG
65 TAACGTGTATTAACAACTATGGCTCAATATAG
36327658 AAACATAGTT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 11 0.12
98 81 0.88
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (97 bp):
GAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAACAT
AACGTGTATTAACAACTATGGCTCAATATAGC
Found at i:36330046 original size:18 final size:18
Alignment explanation
Indices: 36330023--36330058 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36330013 TAGATTATGG
36330023 TATGTGGGTAAAAATTTT
1 TATGTGGGTAAAAATTTT
*
36330041 TATGTGGGTAAAAGTTTT
1 TATGTGGGTAAAAATTTT
36330059 ACGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (18 bp):
TATGTGGGTAAAAATTTT
Found at i:36330058 original size:17 final size:18
Alignment explanation
Indices: 36330023--36330059 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
36330013 TAGATTATGG
*
36330023 TATGTGGGTAAAAATTTT
1 TATGTGGGTAAAAAGTTT
36330041 TATGTGGGT-AAAAGTTT
1 TATGTGGGTAAAAAGTTT
36330058 TA
1 TA
36330060 CGTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (18 bp):
TATGTGGGTAAAAAGTTT
Found at i:36331532 original size:41 final size:41
Alignment explanation
Indices: 36331475--36331704 Score: 327
Period size: 41 Copynumber: 5.6 Consensus size: 41
36331465 AATTGTTTCT
* *
36331475 TGAATTGCACATACGTGTCCCTGTTTATACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
36331516 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
36331557 TGAATTACACATACGTG-CCCTTTTTGTACTTTGATACCGC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
36331597 TGAATTGCACATACGTTCCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
36331638 TGAATTTCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
36331679 TGAATTGCACATACGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCCTGTTT
36331705 ACACTCTGGT
Statistics
Matches: 169, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 35 0.21
41 134 0.79
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:36331606 original size:81 final size:82
Alignment explanation
Indices: 36331475--36331700 Score: 321
Period size: 81 Copynumber: 2.8 Consensus size: 82
36331465 AATTGTTTCT
* * * * *
36331475 TGAATTGCACATACGTGTCCCTGTTTATACTTCGGTACCCCTGAATTGCACATACGTGCCCCTAT
1 TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTGAATTGCACATACGTGCCCCTAT
36331540 TTGTACTTCGATACCCC
66 TTGTACTTCGATACCCC
* * *
36331557 TGAATTACACATACGTG-CCCTTTTTGTACTTTGATACCGCTGAATTGCACATACGTTCCCCTAT
1 TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTGAATTGCACATACGTGCCCCTAT
* *
36331621 TTGTACTTTGGTACCCC
66 TTGTACTTCGATACCCC
* *
36331638 TGAATTTCACATACGTGCCCCTGTTTGTAC-TTCAGTACCCCTGAATTGCACATACGTGCCCCT
1 TGAATTACACATACGTGCCCCTGTTTGTACTTTGA-TACCCCTGAATTGCACATACGTGCCCCT
36331701 GTTTACACTC
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
81 75 0.59
82 53 0.41
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (82 bp):
TGAATTACACATACGTGCCCCTGTTTGTACTTTGATACCCCTGAATTGCACATACGTGCCCCTAT
TTGTACTTCGATACCCC
Found at i:36331658 original size:21 final size:21
Alignment explanation
Indices: 36331634--36331701 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
36331624 TACTTTGGTA
36331634 CCCCTGAATTTCACATACGTG
1 CCCCTGAATTTCACATACGTG
* * *
36331655 CCCCTG--TTTGTAC-TTCAGTA
1 CCCCTGAATTT-CACATAC-GTG
*
36331675 CCCCTGAATTGCACATACGTG
1 CCCCTGAATTTCACATACGTG
36331696 CCCCTG
1 CCCCTG
36331702 TTTACACTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
21 16 0.46
22 4 0.11
ACGTcount: A:0.19, C:0.35, G:0.16, T:0.29
Consensus pattern (21 bp):
CCCCTGAATTTCACATACGTG
Found at i:36331692 original size:122 final size:122
Alignment explanation
Indices: 36331475--36331698 Score: 362
Period size: 122 Copynumber: 1.8 Consensus size: 122
36331465 AATTGTTTCT
*
36331475 TGAATTGCACATACGTGTCCCTGTTTATACTTCGGTACCCCTGAATTGCACATACGTGCCCCTAT
1 TGAATTGCACATACGTGTCCCTATTTATACTTCGGTACCCCTGAATTGCACATACGTGCCCCTAT
36331540 TTGTACTTCGATACCCCTGAATTACACATACGTGCCCTTTTTGTACTTTGATACCGC
66 TTGTACTTCGATACCCCTGAATTACACATACGTGCCCTTTTTGTACTTTGATACCGC
* * * *
36331597 TGAATTGCACATACGT-TCCCCTATTTGTACTTTGGTACCCCTGAATTTCACATACGTGCCCCTG
1 TGAATTGCACATACGTGT-CCCTATTTATACTTCGGTACCCCTGAATTGCACATACGTGCCCCTA
*
36331661 TTTGTACTTC-AGTACCCCTGAATTGCACATACGTGCCC
65 TTTGTACTTCGA-TACCCCTGAATTACACATACGTGCCC
36331699 CTGTTTACAC
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
121 2 0.02
122 92 0.98
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (122 bp):
TGAATTGCACATACGTGTCCCTATTTATACTTCGGTACCCCTGAATTGCACATACGTGCCCCTAT
TTGTACTTCGATACCCCTGAATTACACATACGTGCCCTTTTTGTACTTTGATACCGC
Found at i:36339275 original size:11 final size:12
Alignment explanation
Indices: 36339259--36339287 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36339249 TTCTTAATGG
36339259 TGAATG-ATATT
1 TGAATGAATATT
36339270 TGAATGAATATT
1 TGAATGAATATT
36339282 TGAATG
1 TGAATG
36339288 TTCTTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:36343511 original size:3 final size:3
Alignment explanation
Indices: 36343496--36343555 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
36343486 ACACAAGAAC
* * * * * *
36343496 TAA TAA AAA TAA TAA TAC TAA TAA TTA TAG TAA CAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
36343544 CAA TAA TAA TAA
1 TAA TAA TAA TAA
36343556 AAAATAGTTA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:36345534 original size:219 final size:219
Alignment explanation
Indices: 36345140--36345594 Score: 689
Period size: 219 Copynumber: 2.1 Consensus size: 219
36345130 ACTGCACCAC
* * ** *
36345140 CAGGGAAATAAGATCTGTAATTCTTTTGTCTATTCCACTGTAATATCAGGGAGATAAGACCTGAT
1 CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATATCAGGGAGATAAGACCTAAT
* ** *
36345205 GCGATCTACTCTACTGTATCTTCAAAGAGATAAGATCCTTTATTTTAATCCGTTTCACTGTAATC
66 GCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC
* * *
36345270 TCAGGGAAATAGGATTACTGGCTTTAATCTTCTTCGTTGTAATCTCAGGGAGATAAGATTCACCA
131 TCAGGGAAATAGGATTACTGGCTTCAATCTTCTTCGCTATAATCTCAGGGAGATAAGATTCACCA
*
36345335 TTTTCAAT-TAGCTCCACTATTGCT
196 TCTTCAATCT-GCTCCACTATTGCT
* * * *
36345359 TAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCGCTGTAATCTCAGGGAGATGAGACCTAAT
1 CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATATCAGGGAGATAAGACCTAAT
* *
36345424 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTATTCCACTCCACTGTAATC
66 GCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC
36345489 TCAGGGAAATAGGATTACTGGCTTCAAT-TTGCTTCGCTATAATCTCAGGGAGATAAGATTCACC
131 TCAGGGAAATAGGATTACTGGCTTCAATCTT-CTTCGCTATAATCTCAGGGAGATAAGATTCACC
*
36345553 ATCTTCGATCTGCTCCACTATTGCT
195 ATCTTCAATCTGCTCCACTATTGCT
*
36345578 CAGGGAGACAAGATCTG
1 CAGGGAGATAAGATCTG
36345595 TTATATTCAC
Statistics
Matches: 212, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
218 2 0.01
219 209 0.99
220 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (219 bp):
CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATATCAGGGAGATAAGACCTAAT
GCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC
TCAGGGAAATAGGATTACTGGCTTCAATCTTCTTCGCTATAATCTCAGGGAGATAAGATTCACCA
TCTTCAATCTGCTCCACTATTGCT
Found at i:36365277 original size:21 final size:23
Alignment explanation
Indices: 36365232--36365278 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
36365222 TCACCTGCAA
* *
36365232 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
36365255 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
36365276 TAA
1 TAA
36365279 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:36370648 original size:16 final size:16
Alignment explanation
Indices: 36370610--36370671 Score: 79
Period size: 16 Copynumber: 3.7 Consensus size: 16
36370600 AACTAGCTTC
*
36370610 TTTTTTTTTCACGAAAAAA
1 TTTTTTTTTCACG---AAT
36370629 TTTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAT
*
36370645 TTTTTTTTTCACAAAT
1 TTTTTTTTTCACGAAT
36370661 TTTTTTTTTCA
1 TTTTTTTTTCA
36370672 ACTTAATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
16 28 0.68
19 13 0.32
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTTTTTTCACGAAT
Found at i:36371752 original size:23 final size:23
Alignment explanation
Indices: 36371725--36371784 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
36371715 TCACCTGCAA
36371725 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATGAGTTTAT
36371748 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATGAGTTTAT
36371771 TAAACACATTAAAA
1 TAAACACATTAAAA
36371785 CACTTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATGAGTTTAT
Found at i:36379716 original size:82 final size:80
Alignment explanation
Indices: 36379571--36379850 Score: 328
Period size: 82 Copynumber: 3.4 Consensus size: 80
36379561 AATTTTTAAA
* * * *
36379571 CCTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCG-ATCTTTAGCGGCGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTTC-TAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
36379635 GCGCCACTAATGTTCTGG
64 GCGCCACTAAT-TTCTGG
* * * *
36379653 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCATTATTGTCTGAG
1 CCTTTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
36379718 CGCCACTAATTCTCTGT
65 CGCCACTAATT-TCTGG
* * * * * *
36379735 TCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGTTCGTGTTTTTAGTGACGTTTTTATCTGAGC
1 CCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAGC
*
36379800 GCCACTAATACTCTGG
66 GCCACTAAT-TTCTGG
*
36379816 CCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTT-T-TCTAAGCGCCGCTAAT
36379851 AGTAACAAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
81 70 0.42
82 83 0.49
83 15 0.09
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (80 bp):
CCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAGC
GCCACTAATTTCTGG
Found at i:36379822 original size:41 final size:41
Alignment explanation
Indices: 36379572--36379851 Score: 210
Period size: 41 Copynumber: 6.8 Consensus size: 41
36379562 ATTTTTAAAC
* * * * *
36379572 CTTTAGCGGCGTTTTTA-CTTTAGCGCCGCTAATTCTCCGAT
1 CTTTAGCGGCGTTTTTATC-TAAGCGCCACTAATACTCTGGT
* ** *
36379613 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCTGGT
* * * *
36379654 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCTG-GT
* * * * * * * *
36379695 CATTAGTGGCATTATTGTCTGAGCGCCACTAATTCTCTGTT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCTGGT
* *
36379736 CTTTAGCGGCGTTTTT-TCTAAGCGCCGCTAA-AGT-TCGTGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCT-G-GT
* * * * *
36379776 TTTTAGTGACGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCTGGT
* *
36379817 CTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATA
1 CTTTAGCGGCGTTTT-TATCTAAGCGCCACTAATA
36379852 GTAACAAAAA
Statistics
Matches: 187, Mismatches: 43, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
38 1 0.01
39 2 0.01
40 28 0.15
41 134 0.72
42 21 0.11
43 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCACTAATACTCTGGT
Found at i:36384775 original size:13 final size:15
Alignment explanation
Indices: 36384742--36384782 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
36384732 AATAATTTAA
36384742 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
36384758 ATAACTTACAT-T-C
1 ATAACTTACATATAC
36384771 ATAACTTACATA
1 ATAACTTACATA
36384783 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:36384889 original size:25 final size:22
Alignment explanation
Indices: 36384861--36384914 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
36384851 ATACATAAAT
36384861 TACATAACTTAATTAATTAATATTA
1 TACATAACTT-A--AATTAATATTA
*
36384886 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
36384908 TACATAA
1 TACATAA
36384915 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
24 1 0.04
25 10 0.36
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:36384904 original size:22 final size:22
Alignment explanation
Indices: 36384871--36384921 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
36384861 TACATAACTT
36384871 AATTA-ATTAATATTATACATA
1 AATTACATTAATATTATACATA
*
36384892 ACTTACATTAATATTATACATA
1 AATTACATTAATATTATACATA
36384914 AATTACAT
1 AATTACAT
36384922 AACTTAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTACATTAATATTATACATA
Found at i:36384908 original size:56 final size:56
Alignment explanation
Indices: 36384846--36384955 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
36384836 GGGTGATGTG
36384846 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
*
36384902 ATATTATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACAT
1 ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACAT
36384956 AACATTTTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (56 bp):
ATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTACATTA
Found at i:36384995 original size:9 final size:9
Alignment explanation
Indices: 36384981--36385111 Score: 70
Period size: 9 Copynumber: 15.9 Consensus size: 9
36384971 TGCATAATAA
36384981 ATAACTTAC
1 ATAACTTAC
36384990 ATAACTTAC
1 ATAACTTAC
36384999 ATAA--TAC
1 ATAACTTAC
*
36385006 ATAACTTAT
1 ATAACTTAC
* *
36385015 ATGACTTAT
1 ATAACTTAC
36385024 ATAACTTAC
1 ATAACTTAC
*
36385033 AT-A---GC
1 ATAACTTAC
* *
36385038 ATAATTTTC
1 ATAACTTAC
36385047 ATAA--TAC
1 ATAACTTAC
*
36385054 ACAACTTAC
1 ATAACTTAC
** *
36385063 ATAGTTTTC
1 ATAACTTAC
*
36385072 ATAA--TAA
1 ATAACTTAC
36385079 ATAACTTAC
1 ATAACTTAC
36385088 ATAA--TAC
1 ATAACTTAC
36385095 ATAACTTAC
1 ATAACTTAC
*
36385104 ATAGCTTA
1 ATAACTTA
36385112 ATTATACTTA
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 24 0.26
8 1 0.01
9 64 0.69
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:36385002 original size:25 final size:25
Alignment explanation
Indices: 36384973--36385098 Score: 91
Period size: 25 Copynumber: 5.2 Consensus size: 25
36384963 TAACAATTTG
36384973 CATAATAAATAACTTACATAACTTA
1 CATAATAAATAACTTACATAACTTA
* * *
36384998 CATAATACATAACTTATATGACTT-
1 CATAATAAATAACTTACATAACTTA
* * * * *
36385022 -AT-ATAACTTACATAGCATAATTTT
1 CATAATAAATAACTTA-CATAACTTA
* * ** *
36385046 CATAATACACAACTTACATAGTTTT
1 CATAATAAATAACTTACATAACTTA
36385071 CATAATAAATAACTTACATAA--TA
1 CATAATAAATAACTTACATAACTTA
36385094 CATAA
1 CATAA
36385099 CTTACATAGC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.10
23 13 0.17
25 49 0.64
26 7 0.09
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (25 bp):
CATAATAAATAACTTACATAACTTA
Found at i:36385006 original size:16 final size:16
Alignment explanation
Indices: 36384987--36385106 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
36384977 ATAAATAACT
36384987 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
36385003 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
*
36385021 TATATAACTTACAT-A
1 TACATAACTTACATAA
* * *
36385036 -GCATAATTTTCATAA
1 TACATAACTTACATAA
* *
36385051 TACACAACTTACATAG
1 TACATAACTTACATAA
36385067 T---T---TT-CATAA
1 TACATAACTTACATAA
*
36385076 TAAATAACTTACATAA
1 TACATAACTTACATAA
36385092 TACATAACTTACATA
1 TACATAACTTACATA
36385107 GCTTAATTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 9 0.12
15 3 0.04
16 43 0.57
17 1 0.01
18 12 0.16
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:36390280 original size:13 final size:13
Alignment explanation
Indices: 36390258--36390291 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
36390248 TTTATTTTTC
36390258 AGGA-AAAATTAA
1 AGGATAAAATTAA
36390270 AGGATAAAATTAA
1 AGGATAAAATTAA
36390283 AGGATAAAA
1 AGGATAAAA
36390292 AGGCGGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (13 bp):
AGGATAAAATTAA
Found at i:36390654 original size:66 final size:65
Alignment explanation
Indices: 36390547--36390717 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
36390537 GAGCAAATTA
* * * * *
36390547 CACAACTTAAAGCGGAGGCAACATCGAAAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
36390611 G
65 G
* *
36390612 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
36390677 G
65 G
* ** * *
36390678 CACCAGCTTAAAGCAGATGTGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
36390718 CGGCAGCTAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:36390712 original size:21 final size:21
Alignment explanation
Indices: 36390688--36390759 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
36390678 CACCAGCTTA
* *
36390688 AAGCAGATGTGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
*
36390709 AAGCAGAGGCGGCAGCTAGAG
1 AAGCAGAGGCGGCAGCAAGAG
* * * ** *
36390730 AAGTACAGGCTGCAGTGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
36390751 AAGCAGAGG
1 AAGCAGAGG
36390760 ATAAAGCGAG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.35, C:0.15, G:0.42, T:0.08
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:36390770 original size:21 final size:21
Alignment explanation
Indices: 36390746--36390798 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
36390736 AGGCTGCAGT
36390746 GAGGGAAGCAGAGGATAAAGC
1 GAGGGAAGCAGAGGATAAAGC
* **
36390767 GAGGGAAGCAGAGGCTGTAGC
1 GAGGGAAGCAGAGGATAAAGC
36390788 GAGGGAAGCAG
1 GAGGGAAGCAG
36390799 GGCAGCGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.47, T:0.06
Consensus pattern (21 bp):
GAGGGAAGCAGAGGATAAAGC
Found at i:36391169 original size:43 final size:43
Alignment explanation
Indices: 36391103--36391453 Score: 251
Period size: 43 Copynumber: 8.1 Consensus size: 43
36391093 ATCTTCCAAA
* * * *
36391103 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
* * *
36391146 TTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
* * ** * * *
36391189 TTTAGCGGCATTTTTGGGGAAAGCGCCGCTAAAGCTTAGGTTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
* ** * **
36391232 TTTAGTGGCGTTTTGTGGTTGAAGCGCCGCTATAGATCACAGTC
1 TTTAGCGGCG-TTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
** * *
36391276 TATT-GCGGCGTTT-TAGGGGAAAGCGCCGCTAAAGATTAGGTTC
1 T-TTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGATCAGGGTC
* * * *
36391319 TTTAGTGGCGTTTGTGGTCAAAGCGCCGGTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
* ** * * ** *
36391362 TATT-GCGGCGTTTGAGAAAAAAACGCCGCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
* * * * * *
36391405 TATAGCGGCGCTTCTAGCACAAA-CGTCGCTAAAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGTA-AAAGCGCCGCTAAAGATCAGGGTC
36391448 TTTAGC
1 TTTAGC
36391454 AGCGCTTCCA
Statistics
Matches: 231, Mismatches: 69, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
42 4 0.02
43 190 0.82
44 35 0.15
45 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGTC
Found at i:36391396 original size:86 final size:86
Alignment explanation
Indices: 36391122--36391374 Score: 337
Period size: 87 Copynumber: 2.9 Consensus size: 86
36391112 GTTTTTGGTC
* * * * * * *
36391122 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCACGG
* *
36391187 TCT-TTAGCGGCATTTTTGGGG
66 TCTATT-GCGGCGTTTTAGGGG
* ** *
36391208 AAAGCGCCGCTAAAGCTTAGGTTCTTTAGTGGCGTTTTGTGGTTGAAGCGCCGCTATAGATCACA
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCG-TTTGTGGTAAAAGCGCCGCTATAGATCACG
36391273 GTCTATTGCGGCGTTTTAGGGG
65 GTCTATTGCGGCGTTTTAGGGG
* * *
36391295 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGGTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCACGG
36391360 TCTATTGCGGCGTTT
66 TCTATTGCGGCGTTT
36391375 GAGAAAAAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
86 71 0.49
87 73 0.50
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTATAGATCACGG
TCTATTGCGGCGTTTTAGGGG
Found at i:36391630 original size:22 final size:22
Alignment explanation
Indices: 36391596--36391638 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36391586 CTGCGGCGCT
* *
36391596 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
36391618 AAAAAGCGTCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
36391639 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:36393740 original size:29 final size:29
Alignment explanation
Indices: 36393694--36393766 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
36393684 AAGTTTAGTC
* * *
36393694 ATTTGAGCATTTTGTAAAAAGTTTGACCTTT
1 ATTTGAGCA-TTT-TAAAAAATTTAACATTT
*
36393725 ATTTGACCATTTTAAAAAATTTAACATTT
1 ATTTGAGCATTTTAAAAAATTTAACATTT
*
36393754 ATTTTAGCATTTT
1 ATTTGAGCATTTT
36393767 TTATAAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 25 0.69
30 3 0.08
31 8 0.22
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (29 bp):
ATTTGAGCATTTTAAAAAATTTAACATTT
Found at i:36398390 original size:27 final size:27
Alignment explanation
Indices: 36398360--36398411 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36398350 ATTTAAGGTA
36398360 TCAGCATGCAAATAGGGAAGAAATGGG
1 TCAGCATGCAAATAGGGAAGAAATGGG
*
36398387 TCAGCATGCGAATAGGGAAGAAATG
1 TCAGCATGCAAATAGGGAAGAAATG
36398412 TTGACCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.15
Consensus pattern (27 bp):
TCAGCATGCAAATAGGGAAGAAATGGG
Found at i:36404921 original size:34 final size:35
Alignment explanation
Indices: 36404883--36404949 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
36404873 TGTAAAATTT
*
36404883 TTTTCCGGAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
* *
36404917 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGGAAAATGATTTACTGGAAAATATTTT
36404950 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGGAAAATGATTTACTGGAAAATATTTTAC
Found at i:36404923 original size:20 final size:20
Alignment explanation
Indices: 36404898--36404937 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36404888 CGGAAAATGA
*
36404898 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
36404918 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
36404938 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:36404953 original size:14 final size:15
Alignment explanation
Indices: 36404883--36404953 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 15
36404873 TGTAAAATTT
*
36404883 TTTTCCGGAAAATGA
1 TTTTCTGGAAAATGA
36404898 -TTTCTGGAAAATGTTTTA
1 TTTTCTGGAAAATG----A
*
36404916 CTTTTCTGTAAAATGA
1 -TTTTCTGGAAAATGA
*
36404932 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATGA
36404946 TTTTCTGG
1 TTTTCTGG
36404954 TGTTTGATTG
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
14 20 0.44
15 11 0.24
16 1 0.02
18 1 0.02
20 12 0.27
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.44
Consensus pattern (15 bp):
TTTTCTGGAAAATGA
Found at i:36405049 original size:20 final size:20
Alignment explanation
Indices: 36405024--36405100 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
36405014 TCCGGAAAAG
36405024 TTGTTTTTACATATATTAAA
1 TTGTTTTTACATATATTAAA
*
36405044 TTGTTTTTACATATATATTAA
1 TTGTTTTTACATATAT-TAAA
** *
36405065 TAAATTTTT--ATATTTTAAA
1 T-TGTTTTTACATATATTAAA
36405084 TTGTTTTTACATATATT
1 TTGTTTTTACATATATT
36405101 GCAATGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 27 0.60
21 4 0.09
22 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTGTTTTTACATATATTAAA
Found at i:36405124 original size:40 final size:40
Alignment explanation
Indices: 36405034--36405124 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
36405024 TTGTTTTTAC
* *
36405034 ATATATTAAATTGTTTTTACATATATATTAATAAATTTTT
1 ATATAATAAATTGTTTTTACATATATATCAATAAATTTTT
** * *
36405074 ATATTTTAAATTGTTTTTACATATAT-TGCAATGATTTATTT
1 ATATAATAAATTGTTTTTACATATATAT-CAATAAATT-TTT
36405115 ATA-AATAAAT
1 ATATAATAAAT
36405125 AAATCAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.02
40 36 0.84
41 6 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (40 bp):
ATATAATAAATTGTTTTTACATATATATCAATAAATTTTT
Found at i:36405139 original size:18 final size:18
Alignment explanation
Indices: 36405116--36405151 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36405106 GATTTATTTA
36405116 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
36405134 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
36405152 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:36406042 original size:14 final size:14
Alignment explanation
Indices: 36406023--36406052 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36406013 TTAACACTAA
*
36406023 TCAAAATAAGTGCT
1 TCAAAATAAGTCCT
36406037 TCAAAATAAGTCCT
1 TCAAAATAAGTCCT
36406051 TC
1 TC
36406053 CATAAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (14 bp):
TCAAAATAAGTCCT
Found at i:36410342 original size:22 final size:23
Alignment explanation
Indices: 36410315--36410358 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
36410305 TTAGCGAACA
36410315 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATGAAATAAAC
* *
36410337 AAATATTTATATATGAAATAAA
1 AAATATATAAATATGAAATAAA
36410359 ATATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATGAAATAAAC
Found at i:36423607 original size:24 final size:24
Alignment explanation
Indices: 36423592--36423643 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36423582 AATCAAAATC
36423592 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
36423616 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
36423640 AAAT
1 AAAT
36423644 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:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:36426343 original size:79 final size:82
Alignment explanation
Indices: 36426232--36426416 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
36426222 GCTACTCGTT
* *
36426232 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36426295 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
36426312 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36426375 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36426392 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36426417 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:36426416 original size:40 final size:40
Alignment explanation
Indices: 36426213--36426416 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
36426203 CGGAATTTAA
** *
36426213 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36426253 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36426293 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36426332 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36426372 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36426412 CCGGA
1 CCGGA
36426417 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36427905 original size:56 final size:56
Alignment explanation
Indices: 36427843--36427958 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
36427833 TAGTTTATTG
36427843 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
*
36427899 CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
36427955 CCAT
1 CCAT
36427959 CACCTTTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
Found at i:36434490 original size:79 final size:82
Alignment explanation
Indices: 36434379--36434563 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
36434369 GCTACTCGTT
* *
36434379 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36434442 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
36434459 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36434522 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36434539 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36434564 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:36434563 original size:40 final size:40
Alignment explanation
Indices: 36434360--36434563 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
36434350 CGGAATTTAA
** *
36434360 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36434400 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36434440 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36434479 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36434519 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36434559 CCGGA
1 CCGGA
36434564 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36436055 original size:56 final size:56
Alignment explanation
Indices: 36435988--36436107 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
36435978 TATTAGTTTA
36435988 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
36436044 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
36436100 TTGCCCAT
1 TTGCCCAT
36436108 CACCCTTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:36439570 original size:24 final size:24
Alignment explanation
Indices: 36439555--36439606 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36439545 AATCAAAGTC
36439555 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
36439579 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
36439603 AAAT
1 AAAT
36439607 CCTCTAGAAA
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:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:36442181 original size:39 final size:39
Alignment explanation
Indices: 36442135--36442210 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
36442125 AAGAGAAAAT
*
36442135 AAATCAATTTTTGCAATATCATCTATCTTTTTATGAACC
1 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
36442174 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAA
1 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAA
36442211 GCATTGGGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (39 bp):
AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
Found at i:36443871 original size:38 final size:38
Alignment explanation
Indices: 36443820--36443901 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
36443810 CAAGGTCTTG
*
36443820 AGACATAAGGGTTAGTATCTCAAAAAATCTATGTCTCA
1 AGACATAAGGGTTAGTATCTCAAAAAATATATGTCTCA
* *
36443858 AGACATAAGGGTTAGTATTTCAAAAAATATATGTCTCG
1 AGACATAAGGGTTAGTATCTCAAAAAATATATGTCTCA
36443896 AGACAT
1 AGACAT
36443902 GGTCCAATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (38 bp):
AGACATAAGGGTTAGTATCTCAAAAAATATATGTCTCA
Found at i:36445579 original size:13 final size:13
Alignment explanation
Indices: 36445561--36445588 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36445551 ATAGAATAAG
36445561 GTTTTTAAATTTA
1 GTTTTTAAATTTA
36445574 GTTTTTAAATTTA
1 GTTTTTAAATTTA
36445587 GT
1 GT
36445589 GAATTTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (13 bp):
GTTTTTAAATTTA
Found at i:36450590 original size:20 final size:20
Alignment explanation
Indices: 36450566--36450629 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
36450556 ACAAATGTGA
*
36450566 AAATAGGGGCACCGTAGTGC
1 AAATAGGGGCACCGAAGTGC
* * * *
36450586 GAATAGGGACACTGAAGTGT
1 AAATAGGGGCACCGAAGTGC
*
36450606 AAACAGGGGCACCGAAGTGC
1 AAATAGGGGCACCGAAGTGC
36450626 AAAT
1 AAAT
36450630 CTCGTACAAG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (20 bp):
AAATAGGGGCACCGAAGTGC
Found at i:36450594 original size:40 final size:40
Alignment explanation
Indices: 36450536--36450625 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
36450526 TACAAAGAGT
* *
36450536 ACCGAAGTGC-AGACAGGGACAC-AAATGTGAAAATAGGGGC
1 ACCGAAGTGCGA-ATAGGGACACTAAA-GTGAAAACAGGGGC
* * *
36450576 ACCGTAGTGCGAATAGGGACACTGAAGTGTAAACAGGGGC
1 ACCGAAGTGCGAATAGGGACACTAAAGTGAAAACAGGGGC
36450616 ACCGAAGTGC
1 ACCGAAGTGC
36450626 AAATCTCGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 39 0.93
41 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (40 bp):
ACCGAAGTGCGAATAGGGACACTAAAGTGAAAACAGGGGC
Found at i:36455248 original size:15 final size:16
Alignment explanation
Indices: 36455228--36455273 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
36455218 GTCACCAGGC
36455228 CATGTGTCTCACACGG
1 CATGTGTCTCACACGG
* * *
36455244 C-TGTGTCGC-CAAGC
1 CATGTGTCTCACACGG
36455258 CATGTGTCTCACACGG
1 CATGTGTCTCACACGG
36455274 TTGAGTCAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.24
Consensus pattern (16 bp):
CATGTGTCTCACACGG
Found at i:36455260 original size:30 final size:30
Alignment explanation
Indices: 36455207--36455273 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
36455197 ATACTAGGGA
* *
36455207 CACACGACTATGTCACCAGGCCATGTGTCT
1 CACACGGCTATGTCACCAAGCCATGTGTCT
* *
36455237 CACACGGCTGTGTCGCCAAGCCATGTGTCT
1 CACACGGCTATGTCACCAAGCCATGTGTCT
36455267 CACACGG
1 CACACGG
36455274 TTGAGTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (30 bp):
CACACGGCTATGTCACCAAGCCATGTGTCT
Found at i:36465185 original size:7 final size:7
Alignment explanation
Indices: 36465170--36465242 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
36465160 TTTATTCCTA
*
36465170 AATTCTC
1 AATTTTC
36465177 AATTTTC
1 AATTTTC
* *
36465184 AATCTCC
1 AATTTTC
36465191 AATTTTC
1 AATTTTC
36465198 AATTTT-
1 AATTTTC
36465204 ATATTTTC
1 A-ATTTTC
*
36465212 AATCTTC
1 AATTTTC
* *
36465219 AAATTTA
1 AATTTTC
*
36465226 AATTTTT
1 AATTTTC
36465233 AATTTTC
1 AATTTTC
36465240 AAT
1 AAT
36465243 CCTCAATCCT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 1 0.02
7 50 0.96
8 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTC
Found at i:36465210 original size:28 final size:28
Alignment explanation
Indices: 36465168--36465243 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
36465158 TTTTTATTCC
* * *
36465168 TAAATTCTCAATTTTCAATCTCCAATTT
1 TAAATTTTTAATTTTCAATCTCCAAATT
* *
36465196 TCAA-TTTTATATTTTCAATCTTCAAATT
1 TAAATTTTTA-ATTTTCAATCTCCAAATT
36465224 TAAATTTTTAATTTTCAATC
1 TAAATTTTTAATTTTCAATC
36465244 CTCAATCCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.08
28 32 0.80
29 5 0.12
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAATTTTTAATTTTCAATCTCCAAATT
Found at i:36465214 original size:21 final size:21
Alignment explanation
Indices: 36465170--36465242 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
36465160 TTTATTCCTA
* * * *
36465170 AATTCTCAATTTTCAATCTCC
1 AATTTTCAATTTTAAATTTTC
*
36465191 AATTTTCAATTTTATATTTTC
1 AATTTTCAATTTTAAATTTTC
* * *
36465212 AATCTTCAAATTTAAATTTTT
1 AATTTTCAATTTTAAATTTTC
36465233 AATTTTCAAT
1 AATTTTCAAT
36465243 CCTCAATCCT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTCAATTTTAAATTTTC
Found at i:36465248 original size:7 final size:7
Alignment explanation
Indices: 36465238--36465271 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
36465228 TTTTTAATTT
36465238 TCAATCC
1 TCAATCC
36465245 TCAATCC
1 TCAATCC
36465252 TCAATCC
1 TCAATCC
36465259 TCAATCC
1 TCAATCC
36465266 TCAATC
1 TCAATC
36465272 TACAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (7 bp):
TCAATCC
Found at i:36465792 original size:7 final size:7
Alignment explanation
Indices: 36465780--36465805 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36465770 CCTAAATTCA
36465780 CAATCTT
1 CAATCTT
36465787 CAATCTT
1 CAATCTT
36465794 CAATCTT
1 CAATCTT
36465801 CAATC
1 CAATC
36465806 CCCAATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (7 bp):
CAATCTT
Found at i:36471083 original size:25 final size:25
Alignment explanation
Indices: 36471055--36471119 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
36471045 ATACGAGTAC
*
36471055 ATAACGGGAAGCTCTTCTGAGCCAT
1 ATAACGGGAAGCTCATCTGAGCCAT
* * *
36471080 ATAACGGGAAGATCATGTGAGTCAT
1 ATAACGGGAAGCTCATCTGAGCCAT
* *
36471105 GTAATGGGAAGCTCA
1 ATAACGGGAAGCTCA
36471120 AGAGAGCCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (25 bp):
ATAACGGGAAGCTCATCTGAGCCAT
Found at i:36471172 original size:24 final size:24
Alignment explanation
Indices: 36471110--36471190 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
36471100 GTCATGTAAT
*
36471110 GGGAAGCTCAAGAGAGCCAA-ATTC
1 GGGAAGCTCAAGCGAGCCAATA-TC
* * *
36471134 AGAAAGCTCATGCGAGCCAATATC
1 GGGAAGCTCAAGCGAGCCAATATC
*
36471158 GGGAAGTTCAAGCGAGCCAATATC
1 GGGAAGCTCAAGCGAGCCAATATC
36471182 GGGAAGCTC
1 GGGAAGCTC
36471191 CGAAGAGCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.28, T:0.15
Consensus pattern (24 bp):
GGGAAGCTCAAGCGAGCCAATATC
Found at i:36471198 original size:24 final size:24
Alignment explanation
Indices: 36471147--36471372 Score: 95
Period size: 25 Copynumber: 9.2 Consensus size: 24
36471137 AAGCTCATGC
*
36471147 GAGCCAATATCGGGAAG-TTC-AA
1 GAGCCAATATCGGGAAGCTCCTAA
*
36471169 GCGAGCCAATATCGGGAAGCTCCGAA
1 --GAGCCAATATCGGGAAGCTCCTAA
* * * *
36471195 GAGCCATTAACCGAGAAGCTCTTAA
1 GAGCCAAT-ATCGGGAAGCTCCTAA
* *
36471220 GAGCCAGTTATCAGGAAGCTCCTAA
1 GAGCCA-ATATCGGGAAGCTCCTAA
* * * *
36471245 GAGCCAATGTTCAGGAA-CTTTCGAA
1 GAGCCAAT-ATCGGGAAGC-TCCTAA
* * * *
36471270 GAGCCACA-AACGGAAAG-TTCAAA
1 GAGCCA-ATATCGGGAAGCTCCTAA
* *
36471293 TGAGCCATTAATCGAGAAGCTCGC-AA
1 -GAGCCAAT-ATCGGGAAGCTC-CTAA
* * *
36471319 GAACCATATAACGGGAAGCTCATAA
1 GAGCCA-ATATCGGGAAGCTCCTAA
* *
36471344 GAGCCAAATATCGGGACGCTCGTAA
1 GAGCC-AATATCGGGAAGCTCCTAA
36471369 GAGC
1 GAGC
36471373 TGCGGTGTGT
Statistics
Matches: 153, Mismatches: 33, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
23 5 0.03
24 36 0.24
25 101 0.66
26 10 0.07
27 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCCTAA
Found at i:36474024 original size:30 final size:30
Alignment explanation
Indices: 36474004--36474058 Score: 96
Period size: 28 Copynumber: 1.9 Consensus size: 30
36473994 AAAAGTTGGT
36474004 AAAAAAAATTTT-GGG-CCCTTAAAAATTA
1 AAAAAAAATTTTGGGGCCCCTTAAAAATTA
36474032 AAAAAAAATTTTGGGGCCCCTTAAAAA
1 AAAAAAAATTTTGGGGCCCCTTAAAAA
36474059 CTGAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 12 0.48
29 3 0.12
30 10 0.40
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (30 bp):
AAAAAAAATTTTGGGGCCCCTTAAAAATTA
Found at i:36474065 original size:28 final size:27
Alignment explanation
Indices: 36474003--36474066 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
36473993 TAAAAGTTGG
*
36474003 TAAAAAAAATTTTGGGCCCTTAAAAAT
1 TAAAAAAAATTTTGGGCCCTTAAAAAC
36474030 TAAAAAAAAATTTTGGGGCCCCTTAAAAAC
1 T-AAAAAAAATTTT-GGG-CCCTTAAAAAC
*
36474060 TGAAAAA
1 TAAAAAA
36474067 TAATATTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.03
28 12 0.38
29 8 0.25
30 11 0.34
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (27 bp):
TAAAAAAAATTTTGGGCCCTTAAAAAC
Found at i:36474066 original size:30 final size:28
Alignment explanation
Indices: 36474004--36474066 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 28
36473994 AAAAGTTGGT
*
36474004 AAAAAAAATTTTGGGCCCTTAAAAATTA
1 AAAAAAAATTTTGGGCCCTTAAAAACTA
*
36474032 AAAAAAAATTTTGGGGCCCCTTAAAAACTG
1 AAAAAAAATTTT-GGG-CCCTTAAAAACTA
36474062 AAAAA
1 AAAAA
36474067 TAATATTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 12 0.39
29 3 0.10
30 16 0.52
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.24
Consensus pattern (28 bp):
AAAAAAAATTTTGGGCCCTTAAAAACTA
Found at i:36474450 original size:10 final size:10
Alignment explanation
Indices: 36474444--36474617 Score: 76
Period size: 10 Copynumber: 17.6 Consensus size: 10
36474434 TGTTAAAATT
36474444 TTATAAAAATA
1 TTATAAAAA-A
36474455 TTA-AAAAAA
1 TTATAAAAAA
* *
36474464 TTATATAAAC
1 TTATAAAAAA
*
36474474 TTATAAAAAT
1 TTATAAAAAA
* *
36474484 TTATAAATAG
1 TTATAAAAAA
*
36474494 GTAT--AAAA
1 TTATAAAAAA
36474502 TTATAAAAAAA
1 TTAT-AAAAAA
*
36474513 TTATAAAACA
1 TTATAAAAAA
**
36474523 TCCT-AAAAA
1 TTATAAAAAA
36474532 TTATAAAAAA
1 TTATAAAAAA
*
36474542 --AGT-TAAAA
1 TTA-TAAAAAA
* *
36474550 TT-TATAAAT
1 TTATAAAAAA
36474559 TTATAAAAAAA
1 TTAT-AAAAAA
* *
36474570 TAGAAAAAAAAA
1 T--TATAAAAAA
* *
36474582 TCATAAAAAC
1 TTATAAAAAA
**
36474592 TTATAATGAA
1 TTATAAAAAA
36474602 TTATAAAAAA
1 TTATAAAAAA
36474612 TTATAA
1 TTATAA
36474618 TTTTTAAAAA
Statistics
Matches: 119, Mismatches: 31, Indels: 27
0.67 0.18 0.15
Matches are distributed among these distances:
8 11 0.09
9 17 0.14
10 67 0.56
11 16 0.13
12 7 0.06
13 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:36474482 original size:22 final size:22
Alignment explanation
Indices: 36474438--36474482 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36474428 AAATAATGTT
* *
36474438 AAAATTTTATAAAAATATTAAA
1 AAAATTATATAAAAATATAAAA
**
36474460 AAAATTATATAAACTTATAAAA
1 AAAATTATATAAAAATATAAAA
36474482 A
1 A
36474483 TTTATAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATTATATAAAAATATAAAA
Found at i:36474555 original size:49 final size:49
Alignment explanation
Indices: 36474445--36474557 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
36474435 GTTAAAATTT
* * * *
36474445 TATAAAAATATTAAAAAAATTATATAAACTTATAAAAATTTATAAATAGG
1 TATAAAATTA-TAAAAAAATTATATAAACTCATAAAAATTTATAAAAAAG
*
36474495 TATAAAATTATAAAAAAATTATA-AAACATCCTAAAAA-TTATAAAAAAAG
1 TATAAAATTATAAAAAAATTATATAAAC-TCATAAAAATTTAT-AAAAAAG
36474544 T-TAAAATTTATAAA
1 TATAAAA-TTATAAA
36474558 TTTATAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
48 13 0.24
49 33 0.60
50 9 0.16
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (49 bp):
TATAAAATTATAAAAAAATTATATAAACTCATAAAAATTTATAAAAAAG
Found at i:36475053 original size:9 final size:9
Alignment explanation
Indices: 36475023--36475186 Score: 102
Period size: 9 Copynumber: 17.6 Consensus size: 9
36475013 CTTTTTGTAC
*
36475023 TTTTATAGT
1 TTTTATAAT
*
36475032 ATTTATAAGT
1 TTTTATAA-T
*
36475042 TTTTATGAT
1 TTTTATAAT
36475051 TTTATATAAT
1 TTT-TATAAT
36475061 TTTTATAA-
1 TTTTATAAT
* *
36475069 GTTTATATT
1 TTTTATAAT
*
36475078 TTTTAAATAT
1 TTTTATA-AT
36475088 TTTTA-ATAT
1 TTTTATA-AT
*
36475097 ATTTTATTAT
1 -TTTTATAAT
*
36475107 TTTCATAAT
1 TTTTATAAT
36475116 TTATTATAAGT
1 TT-TTATAA-T
36475127 TTTTATAA-
1 TTTTATAAT
*
36475135 TTTTATAAG
1 TTTTATAAT
* *
36475144 CTTTAT-GT
1 TTTTATAAT
*
36475152 TTGTTATAAC
1 TT-TTATAAT
36475162 TTTTATAAT
1 TTTTATAAT
36475171 TTTATATAAGT
1 TTT-TATAA-T
36475182 TTTTA
1 TTTTA
36475187 ATATGAACCT
Statistics
Matches: 121, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
8 15 0.12
9 51 0.42
10 48 0.40
11 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:36475062 original size:10 final size:10
Alignment explanation
Indices: 36475035--36475141 Score: 61
Period size: 10 Copynumber: 11.2 Consensus size: 10
36475025 TTATAGTATT
36475035 TATAAGTTTT-
1 TATAA-TTTTA
*
36475045 TATGATTTTA
1 TATAATTTTA
36475055 TATAATTTT-
1 TATAATTTTA
*
36475064 TATAAGTTTA
1 TATAATTTTA
*
36475074 TAT-TTTTTA
1 TATAATTTTA
* *
36475083 AATATTTTTA
1 TATAATTTTA
36475093 -ATATATTTTA
1 TATA-ATTTTA
36475103 T-T-ATTTT-
1 TATAATTTTA
*
36475110 CATAA-TTTA
1 TATAATTTTA
36475119 TTATAAGTTTT-
1 -TATAA-TTTTA
36475130 TATAATTTTA
1 TATAATTTTA
36475140 TA
1 TA
36475142 AGCTTTATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
8 9 0.12
9 26 0.34
10 38 0.50
12 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.62
Consensus pattern (10 bp):
TATAATTTTA
Found at i:36475063 original size:19 final size:20
Alignment explanation
Indices: 36475023--36475076 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
36475013 CTTTTTGTAC
36475023 TTTTAT-AGTATT-TATAAGT
1 TTTTATAAGT-TTATATAAGT
* *
36475042 TTTTATGATTTTATATAA-T
1 TTTTATAAGTTTATATAAGT
36475061 TTTTATAAGTTTATAT
1 TTTTATAAGTTTATAT
36475077 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTATAAGTTTATATAAGT
Found at i:36475074 original size:37 final size:36
Alignment explanation
Indices: 36475033--36475183 Score: 114
Period size: 37 Copynumber: 4.1 Consensus size: 36
36475023 TTTTATAGTA
*
36475033 TTTATAAGTTT-TTATGATTTTATATAATTTTTATAAG
1 TTTAT-AGTTTATTATAATTTT-TATAATTTTTATAAG
* * * *
36475070 TTTATA-TTTTTTAAATATTTTTA-ATATATTTTATTAT
1 TTTATAGTTTATTATA-ATTTTTATA-AT-TTTTATAAG
*
36475107 TTTCATAATTTATTATAAGTTTTTATAA-TTTTATAAG
1 TTT-ATAGTTTATTATAA-TTTTTATAATTTTTATAAG
* *
36475144 CTTTAT-GTTTGTTATAACTTTTATAATTTTATATAAG
1 -TTTATAGTTTATTATAATTTTTATAATTTT-TATAAG
36475181 TTT
1 TTT
36475184 TTAATATGAA
Statistics
Matches: 92, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
35 12 0.13
36 23 0.25
37 35 0.38
38 7 0.08
39 14 0.15
40 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (36 bp):
TTTATAGTTTATTATAATTTTTATAATTTTTATAAG
Found at i:36475372 original size:19 final size:18
Alignment explanation
Indices: 36475348--36475540 Score: 108
Period size: 19 Copynumber: 10.3 Consensus size: 18
36475338 TTTTTTATAC
36475348 TTTTATAATATTTATAAGT
1 TTTTATAATATTTATAA-T
*
36475367 TTTTATGAT-TTTATATAT
1 TTTTATAATATTTATA-AT
*
36475385 CTTTTATAA-GTTTAT-AT
1 -TTTTATAATATTTATAAT
*
36475402 TTTTA-AATATTTTTAATAT
1 TTTTATAATATTTAT-A-AT
* *
36475421 GTTTTATTATTTTTATAAT
1 -TTTTATAATATTTATAAT
* *
36475440 TTATTAGAATTTATTATAAGT
1 TT-TTATAATAT-TTATAA-T
*
36475461 TTTTATAATATTTATAAG
1 TTTTATAATATTTATAAT
* *
36475479 TTTTATATTTTTTATAAAT
1 TTTTATAATATTTAT-AAT
* *
36475498 TTATATAAGTTTTTA-ATAT
1 TTTTATAA-TATTTATA-AT
* * *
36475517 TTTTATGATTTTTATGAT
1 TTTTATAATATTTATAAT
36475535 TTTTAT
1 TTTTAT
36475541 TAGAAAATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 33
0.72 0.10 0.17
Matches are distributed among these distances:
15 2 0.01
16 9 0.07
17 2 0.01
18 37 0.27
19 54 0.39
20 25 0.18
21 9 0.07
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATATTTATAAT
Found at i:36475466 original size:10 final size:9
Alignment explanation
Indices: 36475339--36475540 Score: 137
Period size: 9 Copynumber: 21.8 Consensus size: 9
36475329 TAATAGAGAT
36475339 TTTTTAT-A
1 TTTTTATAA
*
36475347 CTTTTATAA
1 TTTTTATAA
*
36475356 TATTTATAA
1 TTTTTATAA
*
36475365 GTTTTTATGA
1 -TTTTTATAA
36475375 -TTTTATATA
1 TTTTTATA-A
36475384 TCTTTTATAA
1 T-TTTTATAA
*
36475394 -GTTTAT-A
1 TTTTTATAA
*
36475401 TTTTTAAATA
1 TTTTTATA-A
36475411 TTTTTA-ATA
1 TTTTTATA-A
*
36475420 TGTTTTATTA
1 T-TTTTATAA
36475430 TTTTTATAA
1 TTTTTATAA
*
36475439 TTTATTAGAA
1 TTT-TTATAA
36475449 TTTATTATAA
1 TTT-TTATAA
36475459 GTTTTTATAA
1 -TTTTTATAA
*
36475469 TATTTATAA
1 TTTTTATAA
* *
36475478 GTTTTATAT
1 TTTTTATAA
36475487 TTTTTATAAA
1 TTTTTAT-AA
*
36475497 TTTATATAA
1 TTTTTATAA
36475506 GTTTTTA-ATA
1 -TTTTTATA-A
*
36475516 TTTTTATGA
1 TTTTTATAA
*
36475525 TTTTTATGA
1 TTTTTATAA
36475534 TTTTTAT
1 TTTTTAT
36475541 TAGAAAATAA
Statistics
Matches: 156, Mismatches: 22, Indels: 31
0.75 0.11 0.15
Matches are distributed among these distances:
7 1 0.01
8 21 0.13
9 69 0.44
10 55 0.35
11 10 0.06
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36475539 original size:47 final size:47
Alignment explanation
Indices: 36475339--36475540 Score: 147
Period size: 47 Copynumber: 4.3 Consensus size: 47
36475329 TAATAGAGAT
* *
36475339 TTTTTATACTTTTAT-AATAT-TTATAAGTTTTT-ATGA-TTTTATATA
1 TTTTTATATTTTTATAAATTTATTATAAGTTTTTAAT-ATTTTTATA-A
** * *
36475384 TCTTTTATAAGTTTAT--ATTT-TTA-AATATTTTTAATATGTTTTATTA
1 T-TTTTATATTTTTATAAATTTATTATAA-GTTTTTAATAT-TTTTATAA
* *
36475430 TTTTTATAATTTATTA-GAATTTATTATAAGTTTTT-ATAATATTTATAA
1 TTTTTAT-ATTT-TTATAAATTTATTATAAGTTTTTAAT-ATTTTTATAA
* *
36475478 GTTTTATATTTTTTATAAATTTA-TATAAGTTTTTAATATTTTTATGA
1 TTTTTATA-TTTTTATAAATTTATTATAAGTTTTTAATATTTTTATAA
36475525 TTTTTATGATTTTTAT
1 TTTTTAT-ATTTTTAT
36475541 TAGAAAATAA
Statistics
Matches: 126, Mismatches: 15, Indels: 30
0.74 0.09 0.18
Matches are distributed among these distances:
44 2 0.02
45 19 0.15
46 18 0.14
47 45 0.36
48 30 0.24
49 10 0.08
50 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (47 bp):
TTTTTATATTTTTATAAATTTATTATAAGTTTTTAATATTTTTATAA
Found at i:36475866 original size:26 final size:24
Alignment explanation
Indices: 36475813--36475858 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36475803 TTGAAATTAA
*
36475813 AAAATATATAATTTAAAAAAAACT
1 AAAATATATAAATTAAAAAAAACT
*
36475837 AAAATATATAAATTAATAAAAA
1 AAAATATATAAATTAAAAAAAA
36475859 GTATAAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATATATAAATTAAAAAAAACT
Found at i:36475983 original size:15 final size:16
Alignment explanation
Indices: 36475965--36475999 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
36475955 TATTATATCT
*
36475965 TTTTATATTTTATA-A
1 TTTTATAATTTATATA
36475980 TTTTATAATTTATATA
1 TTTTATAATTTATATA
36475996 TTTT
1 TTTT
36476000 TCAAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATAATTTATATA
Found at i:36476000 original size:17 final size:17
Alignment explanation
Indices: 36475907--36476000 Score: 66
Period size: 20 Copynumber: 5.2 Consensus size: 17
36475897 AATGGTTGTA
36475907 TTTAGTAATTATATATATT
1 TTTA-TAATT-TATATATT
*
36475926 TATTATAAATTTTTATATTT
1 T-TTAT-AATTTATATA-TT
* *
36475946 GTTTCAAAATATTATATCTT
1 -TTT-ATAAT-TTATATATT
*
36475966 TTTAT-ATTT-TATAAT
1 TTTATAATTTATATATT
36475981 TTTATAATTTATATATT
1 TTTATAATTTATATATT
36475998 TTT
1 TTT
36476001 CAAAATAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
15 9 0.15
16 6 0.10
17 10 0.17
18 1 0.02
19 10 0.17
20 16 0.27
21 7 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTATAATTTATATATT
Found at i:36481007 original size:28 final size:30
Alignment explanation
Indices: 36480952--36481007 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
36480942 CAAAATATTA
*
36480952 TTTTCTAATTTTTAAAAGGTCTAAAAAAAC
1 TTTTCTAATTTTTAAAAGGCCTAAAAAAAC
* *
36480982 TTTT-TAATTTTTAAAGGGCCTCAAAA
1 TTTTCTAATTTTTAAAAGGCCTAAAAA
36481008 GTTGCTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (30 bp):
TTTTCTAATTTTTAAAAGGCCTAAAAAAAC
Found at i:36481884 original size:22 final size:22
Alignment explanation
Indices: 36481848--36481889 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
36481838 TTCTAAAAAC
**
36481848 ATAAAAAAATGTAAAATAAATT
1 ATAAAAAAAACTAAAATAAATT
*
36481870 ATAAAAAAAACTAAATTAAA
1 ATAAAAAAAACTAAAATAAA
36481890 AAGGTGAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAAAAAAACTAAAATAAATT
Found at i:36484936 original size:20 final size:20
Alignment explanation
Indices: 36484907--36484950 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
36484897 CCCTTTCCAA
*
36484907 ATTTTCTTACTTT-CATTTGC
1 ATTTTATTACTTTCCA-TTGC
36484927 ATTTTATTACTTTCCATTGC
1 ATTTTATTACTTTCCATTGC
36484947 ATTT
1 ATTT
36484951 ACTTTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTATTACTTTCCATTGC
Found at i:36486922 original size:40 final size:40
Alignment explanation
Indices: 36486885--36487110 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
36486875 GCTACTCGTT
* *
36486885 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
36486925 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
36486965 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
36487005 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
36487045 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
36487086 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36487111 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36490558 original size:122 final size:122
Alignment explanation
Indices: 36490337--36490558 Score: 284
Period size: 122 Copynumber: 1.8 Consensus size: 122
36490327 TACAGATACC
* *
36490337 TTGAGGACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCACCTCCTGCACTTCTACC
1 TTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACACCTCCTGCACTTCTACC
* ** * **
36490402 GATACTATGCTGGGTTCTATTGATACTAGTTGAAATCACTAGAGTTTTACTACTAAT
66 GATACTATGATGGGTTCTACCGATACCAAATGAAATCACTAGAGTTTTACTACTAAT
* * * * * *
36490459 TTGAGGATTTCTACCAAAACTAGTCAAAACAGTAGCCAAATTTCAACTTCC-CCTGTACTTTTAC
1 TTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAAC-ACCTCCTGCACTTCTAC
* *
36490523 CGATACTCTGATGGGTTTTACCGATACCAAATGAAA
65 CGATACTATGATGGGTTCTACCGATACCAAATGAAA
36490559 CCCTCAGGGT
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 81 0.98
123 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (122 bp):
TTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACACCTCCTGCACTTCTACC
GATACTATGATGGGTTCTACCGATACCAAATGAAATCACTAGAGTTTTACTACTAAT
Found at i:36494405 original size:95 final size:95
Alignment explanation
Indices: 36493993--36494439 Score: 441
Period size: 95 Copynumber: 4.7 Consensus size: 95
36493983 AGGCTCGCTA
* * * * * *
36493993 ATTTAAGATCATAGCCTAAGTTTATTCAATTTAACATCATGAACAATCTTATCTGAGTTAGTTGA
1 ATTTAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAATTTTCTCTGAGTTAGCTGA
* ** * *
36494058 TTTAACATCGTTGCTCCAAATGGCTCGCTT
66 TTTAACATCATTGCTCCAAACAGCTCACTG
* * * * *
36494088 ATTTAAGATCTCAACCTAAGTTCA-TCAATTTAACATCATGAACAACTTTCTTTAAGTTAACTGA
1 ATTTAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAATTTTCTCTGAGTTAGCTGA
* ** *
36494152 TTTAACATCGTTTG-TCCAAATGGCTCAATG
66 TTTAACATC-ATTGCTCCAAACAGCTCACTG
* * * ** * * * *
36494182 ATTTAAGATCATAGCCTAAGTTTATTTGATTTAACATCATAAAAAATATTCTCTGAGTTAGTTGA
1 ATTTAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAATTTTCTCTGAGTTAGCTGA
* *
36494247 TTTAACATCACTGCTCCAAACAGCTCATTG
66 TTTAACATCATTGCTCCAAACAGCTCACTG
* * ** * *
36494277 ATTTAAGATCGCAGCCTGTGTTCATTCAATTTAACATCATGAACAATTTTCTCTAAGTTAGCTAA
1 ATTTAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAATTTTCTCTGAGTTAGCTGA
* *
36494342 TTTAACATCATTGCACCAAACAGCTTACTG
66 TTTAACATCATTGCTCCAAACAGCTCACTG
* *** * * *
36494372 ATTTAAGATCACAATCTAAGTTCATTTGGTTTAAGAT-ATTGAATAATTTTCTCTGAGTTAGCTA
1 ATTTAAGATCACAACCTAAGTTCATTCAATTTAACATCA-TGAACAATTTTCTCTGAGTTAGCTG
36494436 ATTT
65 ATTT
36494440 GTCATCACTA
Statistics
Matches: 286, Mismatches: 62, Indels: 8
0.80 0.17 0.02
Matches are distributed among these distances:
94 78 0.27
95 208 0.73
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (95 bp):
ATTTAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAATTTTCTCTGAGTTAGCTGA
TTTAACATCATTGCTCCAAACAGCTCACTG
Found at i:36494426 original size:190 final size:189
Alignment explanation
Indices: 36493993--36494432 Score: 490
Period size: 190 Copynumber: 2.3 Consensus size: 189
36493983 AGGCTCGCTA
* * * ** * * * *
36493993 ATTTAAGATCATAGCCTAAGTTTATTCAATTTAACATCATGAACAATCTTATCTGAGTTAGTTGA
1 ATTTAAGATCACAACCTAAGTTCATTTGATTTAACATCATAAAAAATATTCTCTGAGTTAGTTGA
** ** * *
36494058 TTTAACATCGTTGCTCCAAATGGCTCGCTTATTTAAGATCTCAACCTAAGTTCATCAATTTAACA
66 TTTAACATCACTGCTCCAAACAGCTCGATTATTTAAGATCGCAACCTAAGTTCATCAATTTAACA
* * * * **
36494123 TCATGAACAACTTTCTTTAAGTTAACTGATTTAACATCGTTTGTCCAAATGGCTCAATG
131 TCATGAACAACTTTCTCTAAGTTAACTAATTTAACATCGATTGACCAAACAGCTCAATG
* * *
36494182 ATTTAAGATCATAGCCTAAGTTTATTTGATTTAACATCATAAAAAATATTCTCTGAGTTAGTTGA
1 ATTTAAGATCACAACCTAAGTTCATTTGATTTAACATCATAAAAAATATTCTCTGAGTTAGTTGA
* **
36494247 TTTAACATCACTGCTCCAAACAGCTC-ATTGATTTAAGATCGCAGCCTGTGTTCATTCAATTTAA
66 TTTAACATCACTGCTCCAAACAGCTCGATT-ATTTAAGATCGCAACCTAAGTTCA-TCAATTTAA
* * * *
36494311 CATCATGAACAATTTTCTCTAAGTTAGCTAATTTAACATC-ATTGCACCAAACAGCTTACTG
129 CATCATGAACAACTTTCTCTAAGTTAACTAATTTAACATCGATTG-ACCAAACAGCTCAATG
* * * * * *
36494372 ATTTAAGATCACAATCTAAGTTCATTTGGTTTAAGAT-ATTGAATAATTTTCTCTGAGTTAG
1 ATTTAAGATCACAACCTAAGTTCATTTGATTTAACATCA-TAAAAAATATTCTCTGAGTTAG
36494433 CTAATTTGTC
Statistics
Matches: 213, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
188 2 0.01
189 105 0.49
190 106 0.50
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (189 bp):
ATTTAAGATCACAACCTAAGTTCATTTGATTTAACATCATAAAAAATATTCTCTGAGTTAGTTGA
TTTAACATCACTGCTCCAAACAGCTCGATTATTTAAGATCGCAACCTAAGTTCATCAATTTAACA
TCATGAACAACTTTCTCTAAGTTAACTAATTTAACATCGATTGACCAAACAGCTCAATG
Found at i:36506643 original size:4 final size:4
Alignment explanation
Indices: 36506634--36506660 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36506624 AAACTAAGAC
36506634 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
36506661 GGAAAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:36508280 original size:14 final size:14
Alignment explanation
Indices: 36508263--36508300 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
36508253 TATTATTTTG
36508263 TTTATTTTTTGGAT
1 TTTATTTTTTGGAT
*
36508277 TTTA-TTTTTGTAT
1 TTTATTTTTTGGAT
36508290 TTTATATTTTT
1 TTTAT-TTTTT
36508301 AACATTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTGGAT
Found at i:36508682 original size:44 final size:44
Alignment explanation
Indices: 36508661--36508786 Score: 139
Period size: 44 Copynumber: 2.9 Consensus size: 44
36508651 GATTCATTGT
36508661 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAAC
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAAC
* * * *
36508705 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTATA-
1 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTA-AC
* ** * *
36508749 TTCAA-CCTATTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCC-GCTCCACTACAACTTCAGGGAGATAGGATT
36508787 TGATATGCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
43 1 0.01
44 70 0.97
45 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (44 bp):
TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAAC
Found at i:36508821 original size:41 final size:41
Alignment explanation
Indices: 36508762--36508914 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 41
36508752 AACCTATTCC
*
36508762 ACTGCAACTTCAGGGAGATAAGATTTGATATGCTCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTTGATATGCTCTGCTCT
* *
36508803 ACTGCAACTTCAGAGAGATAA-ATCTATAATTTATAGCTTCAATATGTTCT
1 ACTGCAACTTCAGAGAGATAAGAT-T-TGA--TAT-GC-TC----TGCTCT
* * * *
36508853 ACTGCAACTTTAGGGAAATAAGATTTGATATGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATTTGATATGCTCTGCTCT
36508894 ACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGAGAGATAA
36508915 TATCTGTAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
40 2 0.02
41 44 0.49
42 2 0.02
44 3 0.03
45 4 0.04
46 3 0.03
47 3 0.03
49 2 0.02
50 24 0.27
51 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (41 bp):
ACTGCAACTTCAGAGAGATAAGATTTGATATGCTCTGCTCT
Found at i:36508874 original size:91 final size:92
Alignment explanation
Indices: 36508762--36509066 Score: 411
Period size: 95 Copynumber: 3.3 Consensus size: 92
36508752 AACCTATTCC
*
36508762 ACTGCAACTTCAGGGAGATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAA-AT
1 ACTGCAACTTCAGGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
36508826 CTATAATTTATAGCTTCAATATGTTCT
66 CTGTAATTTATAGCTTCAATATGTTCT
* * *
36508853 ACTGCAACTTTAGGGAAATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAATAT
1 ACTGCAACTTCAGGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
* *
36508918 CTGTAATTTATTGCTTCAATATGTTCC
66 CTGTAATTTATAGCTTCAATATGTTCT
* * *
36508945 ACTGAAACTTCAGGGAAATAAGATTTG-TAACTTCAGTCTGCTCTACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGAT-A-TGC--TCTGCTCTACTGCAACTTCAGAGAGATA
*
36509009 AGA-CTTGTAATTTATAGCTTCAATCTGTTCCT
62 AGATC-TGTAATTTATAGCTTCAATATGTT-CT
* *
36509041 -CTGCAACTTCAAGGAAATGAGATTTG
1 ACTGCAACTTCAGGGAAATAAGATTTG
36509067 CTATCTTCAG
Statistics
Matches: 189, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
91 60 0.32
92 52 0.28
93 1 0.01
94 1 0.01
95 74 0.39
96 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (92 bp):
ACTGCAACTTCAGGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTAATTTATAGCTTCAATATGTTCT
Found at i:36508974 original size:51 final size:50
Alignment explanation
Indices: 36508885--36509201 Score: 181
Period size: 51 Copynumber: 6.7 Consensus size: 50
36508875 ATTTGATATG
* * * * * *
36508885 ATCTGCTCTACTGCAACTTCAGAGAGATAATATCTGTAATTTATTGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAATTTA-TGCTTCA
* *
36508936 ATATGTTCCACTGAAACTTCAGGGAAATAAGATTTGT-A---A--CTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAATTTATGCTTCA
* * * * *
36508980 GTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTATAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAATTTAT-GCTTCA
* * * *
36509031 ATCTGTTCCTCTGCAACTTCAAGGAAATGAGATTTG----CTAT-CTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAATTTATGCTTCA
* * * *
36509076 GTCTGCTCCACTACAACTTCAGGGAGATAA-AGTTTG--A--TATG-----
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTTGTAATTTATGCTTCA
* * * * * * *
36509117 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAATTTAT-GCTTCA
* *
36509168 ATCTGTTCCACTACAACTTTAGGGAAATAAGATT
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
36509202 CACTATCTTC
Statistics
Matches: 203, Mismatches: 42, Indels: 42
0.71 0.15 0.15
Matches are distributed among these distances:
41 29 0.14
42 1 0.00
43 1 0.00
44 36 0.18
45 39 0.19
46 1 0.00
47 4 0.02
48 1 0.00
50 1 0.00
51 90 0.44
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (50 bp):
ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAATTTATGCTTCA
Found at i:36509144 original size:137 final size:137
Alignment explanation
Indices: 36508981--36509242 Score: 409
Period size: 137 Copynumber: 1.9 Consensus size: 137
36508971 GTAACTTCAG
* * * * *
36508981 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-CTTGTAATTTATAGCTTCAATCTGTTCCTCTGC
1 TCTGCTCTACTACAACTTCAGAGAGATAAGATC-TATAATTTATAGCTTCAATCTGTTCCACTAC
* **
36509045 AACTTCAAGGAAATGAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAAGTT
65 AACTTCAAGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAAGTT
36509110 TGATATGA
130 TGATATGA
36509118 TCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACA
1 TCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACA
* * *
36509183 ACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAA
66 ACTTCAAGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAA
36509243 GGCTGGTGGC
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
137 112 0.99
138 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (137 bp):
TCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACA
ACTTCAAGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAAGTTT
GATATGA
Found at i:36509413 original size:44 final size:44
Alignment explanation
Indices: 36509362--36509528 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 44
36509352 TTCAGTTTGT
36509362 TCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGC
1 TCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGC
* * * * * * *
36509406 TCTACTGCAACTTTAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGAAGATAAG----G------CTGGTGGCTTCAATCTGC
*
36509460 TCCACTGCAACTTCAAGG-AGATAAGACTGGTGGCTTCAATCTGC
1 TCCACTGCAACTTC-AGGAAGATAAGGCTGGTGGCTTCAATCTGC
36509504 TCCACTGCAACTTCAGGAAGATAAG
1 TCCACTGCAACTTCAGGAAGATAAG
36509529 ATACGCCATA
Statistics
Matches: 96, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
43 3 0.03
44 57 0.59
48 1 0.01
54 32 0.33
55 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGC
Found at i:36509471 original size:98 final size:98
Alignment explanation
Indices: 36509357--36509564 Score: 357
Period size: 98 Copynumber: 2.1 Consensus size: 98
36509347 CTTTCTTCAG
* * *
36509357 TTTGTTCCACTGCAACTTC-AGGAAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
1 TTTGTTCCACTGCAACTTCAAGG-AGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
36509421 GGAAGATAAGAT-CTGCCATAACTTGTAGCTTTAA
65 GGAAGATAAGATAC-GCCATAACTTGTAGCTTTAA
36509455 TTTGTTCCACTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TTTGTTCCACTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
36509520 GAAGATAAGATACGCCATAACTTGTAGCTTTAA
66 GAAGATAAGATACGCCATAACTTGTAGCTTTAA
36509553 TTTGTTCCACTG
1 TTTGTTCCACTG
36509565 TAACACTAGG
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
98 101 0.96
99 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (98 bp):
TTTGTTCCACTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATACGCCATAACTTGTAGCTTTAA
Found at i:36509484 original size:143 final size:141
Alignment explanation
Indices: 36508975--36509528 Score: 545
Period size: 143 Copynumber: 3.9 Consensus size: 141
36508965 AGATTTGTAA
* * *
36508975 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGA-CTTG-TAATTTATAGCTTCAATCTGTT
1 CTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATC-TGATAACTTATAGCTTCAATCTGTT
* * * * *
36509038 CCTCTGCAACTTCAAGGAAATGAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGA
65 CCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
* *
36509103 TAAAG-T--TTG
130 TAAGGCTGGTGG
* * * *
36509112 ATAT-GATCTGCTCTACTACAACTTCA-GAGAGATAAGATCT-ATAATTTATAGCTTCAATCTGT
1 CT-TCAATCTGCTCTACTGCAACTTCAGGA-AGATAAGATCTGATAACTTATAGCTTCAATCTGT
* * * * * * *
36509174 TCCACTACAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCGCTACAACTTCAGGGAG
64 TCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAG
36509239 ATAAGGCTGGTGG
129 ATAAGGCTGGTGG
* * * * * * *
36509252 CTTCAATTTGCT-TCACTCCAACTTCAGGAAAATAAGATCCGCCATAACTTGTAGCTTTAATCTA
1 CTTCAATCTGCTCT-ACTGCAACTTCAGGAAGATAAGATCTG--ATAACTTATAGCTTCAATCTG
* * * * * * *
36509316 TTCTACTGTAA-TGCCAGGGAAATAAGATTCGCTTTCTTCAGTTTGTTCCACTGCAACTTCAGGA
63 TTCCACTGCAACT-TCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGA
36509380 AGATAAGGCTGGTGG
127 AGATAAGGCTGGTGG
* * * *
36509395 CTTCAATCTGCTCTACTGCAACTTTAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGT
1 CTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCTG--ATAACTTATAGCTTCAATCTGT
* * * ** *
36509460 TCCACTGCAACTTCAAGGAGATAAGACT-GGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAG
64 TCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAG
36509524 ATAAG
129 ATAAG
36509529 ATACGCCATA
Statistics
Matches: 345, Mismatches: 56, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
136 1 0.00
137 112 0.32
138 3 0.01
139 2 0.01
140 29 0.08
141 2 0.01
142 36 0.10
143 158 0.46
144 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (141 bp):
CTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCTGATAACTTATAGCTTCAATCTGTTC
CACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGAT
AAGGCTGGTGG
Found at i:36509578 original size:241 final size:241
Alignment explanation
Indices: 36509226--36509680 Score: 685
Period size: 241 Copynumber: 1.9 Consensus size: 241
36509216 TGCTCCGCTA
* * * * *
36509226 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTTCACTCCAACTTCAGGAAAATAAGATC
1 CAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
* ** *
36509291 CGCCATAACTTGTAGCTTTAATCTATTCTACTGTAATGCCAGGGAAATAAGATTCGCTTTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTATTCCACTGTAACACCAGGGAAATAAGATTCGCTGTCTTCA
* ** * * * * *
36509356 GTTTGTTCCACTGCAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
131 GTCTACTCCACTACAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCCCCACTCCAACTTCA
*
36509421 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCACTG
196 GGAAGATAAGATCCGCCATAACTTGTAGCTTTAATTTGTTCCACTG
* *
36509467 CAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATA
1 CAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
* * *
36509532 CGCCATAACTTGTAGCTTTAATTTGTTCCACTGTAACACTAGGGAAATAAGATTCGCTGTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTATTCCACTGTAACACCAGGGAAATAAGATTCGCTGTCTTCA
* *
36509597 GTCTACTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCCCCACTCCAACTTCA
131 GTCTACTCCACTACAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCCCCACTCCAACTTCA
36509662 GGAAGATAAGATCCGCCAT
196 GGAAGATAAGATCCGCCAT
36509681 GATGACTTCA
Statistics
Matches: 189, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
241 189 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (241 bp):
CAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
CGCCATAACTTGTAGCTTTAATCTATTCCACTGTAACACCAGGGAAATAAGATTCGCTGTCTTCA
GTCTACTCCACTACAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCCCCACTCCAACTTCA
GGAAGATAAGATCCGCCATAACTTGTAGCTTTAATTTGTTCCACTG
Found at i:36509582 original size:98 final size:98
Alignment explanation
Indices: 36509357--36509627 Score: 341
Period size: 98 Copynumber: 2.8 Consensus size: 98
36509347 CTTTCTTCAG
* * * *
36509357 TTTGTTCCACTGCAACTTC-AGGAAGATAAGGCTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
1 TTTGTTCCACTGCAACCTCAAGGAA-ATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
36509421 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAA
65 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAA
* *
36509455 TTTGTTCCACTGCAACTTCAAGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TTTGTTCCACTGCAACCTCAAGGAAATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
36509520 GAAGATAAGATAC-GCCATAACTTGTAGCTTTAA
66 GAAGATAAGAT-CTGCCATAACTTGTAGCTTTAA
* * * * * * * * *
36509553 TTTGTTCCACTGTAACACT-AGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTACAACTTC
1 TTTGTTCCACTGCAAC-CTCAAGGAAATAAGACT-GGTGGCTTCAATCTGCTCCACTGCAACTTC
*
36509617 AGGGAGATAAG
64 AGGAAGATAAG
36509628 GCTGGTGGCT
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
98 113 0.74
99 40 0.26
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (98 bp):
TTTGTTCCACTGCAACCTCAAGGAAATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATCTGCCATAACTTGTAGCTTTAA
Found at i:36516304 original size:41 final size:41
Alignment explanation
Indices: 36516195--36516306 Score: 152
Period size: 41 Copynumber: 2.7 Consensus size: 41
36516185 ACCGGCTTTT
* * * * *
36516195 AGCCTGCTAGACCTATAGTCTGAAATGTATCACTGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACTGGCATCA
* *
36516236 AGTCTGCTAGACGTAAAGTCTGAATTATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACTGGCATCA
*
36516277 AGCCTGCTAGACGTAAAGTCTGTATTATAT
1 AGCCTGCTAGACGTAAAGTCTGAATTATAT
36516307 TCGATCACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACTGGCATCA
Found at i:36525969 original size:12 final size:12
Alignment explanation
Indices: 36525948--36526001 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
36525938 TTTTTTAAAA
*
36525948 ATATTTATATTT
1 ATATTAATATTT
*
36525960 ATATTAATATTA
1 ATATTAATATTT
36525972 AT-TTAATATTT
1 ATATTAATATTT
*
36525983 A-A-TAATTTTCT
1 ATATTAATATT-T
36525994 ATATTAAT
1 ATATTAAT
36526002 TTTTTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 6 0.18
11 11 0.32
12 13 0.38
13 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTAATATTT
Found at i:36526439 original size:4 final size:4
Alignment explanation
Indices: 36526426--36526491 Score: 55
Period size: 4 Copynumber: 16.0 Consensus size: 4
36526416 TTCATTTTCC
* **
36526426 CTTT CTTTT CTTT CTTT CTTT CTTT CTTT -TTC CCAT -TTT CTTT CTTT
1 CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
36526473 CTTATT CTTT CTTTT CTTT
1 C-T-TT CTTT C-TTT CTTT
36526492 TATTTTCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
3 3 0.06
4 34 0.68
5 10 0.20
6 3 0.06
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:36526482 original size:10 final size:9
Alignment explanation
Indices: 36526426--36526501 Score: 61
Period size: 10 Copynumber: 8.4 Consensus size: 9
36526416 TTCATTTTCC
36526426 CTTTCTTTT
1 CTTTCTTTT
36526435 CTTTC-TTT
1 CTTTCTTTT
36526443 CTTTC-TTT
1 CTTTCTTTT
**
36526451 CTTT-TTCC
1 CTTTCTTTT
36526459 CATTT-TCTTT
1 C-TTTCT-TTT
36526469 CTTTCTTATT
1 CTTTCTT-TT
36526479 CTTTCTTTT
1 CTTTCTTTT
*
36526488 CTTTTATTTT
1 C-TTTCTTTT
36526498 CTTT
1 CTTT
36526502 TCAATCTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
8 17 0.30
9 19 0.34
10 20 0.36
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:36526483 original size:18 final size:18
Alignment explanation
Indices: 36526437--36526491 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 18
36526427 TTTCTTTTCT
*
36526437 TTCTTTCTTTCTTTCTTT
1 TTCTTTCTTTCTTTCTTA
36526455 TTCCCATTTTCTTTCTTTCTTA
1 TT--C--TTTCTTTCTTTCTTA
36526477 TTCTTTCTTTTCTTT
1 TTCTTTC-TTTCTTT
36526492 TATTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 6 0.19
19 7 0.23
20 2 0.06
22 16 0.52
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTCTTTCTTTCTTA
Found at i:36526990 original size:13 final size:14
Alignment explanation
Indices: 36526973--36527016 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
36526963 TATTTCAGTT
36526973 TAATTTTAATAATA
1 TAATTTTAATAATA
*
36526987 -AATTTTAAAAATAA
1 TAATTTTAATAAT-A
36527001 TAATTTTAAATAATA
1 TAATTTT-AATAATA
36527016 T
1 T
36527017 TCTTCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.44
14 1 0.04
15 8 0.32
16 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTTTAATAATA
Found at i:36527001 original size:16 final size:16
Alignment explanation
Indices: 36526979--36527015 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36526969 AGTTTAATTT
36526979 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
36526996 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
36527011 TAATA
1 TAATA
36527016 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Done.