Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 144 of 161
Found at i:44843180 original size:41 final size:41
Alignment explanation
Indices: 44843132--44843222 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
44843122 TAGGCTTAAG
* * * *
44843132 GCCGGTGAAGTTATTCGGACTTTATGTCTAGCAGGCT-TTGT
1 GCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCTAAT-T
44843173 GCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCTAATT
1 GCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCTAATT
44843214 GCCGGTGAA
1 GCCGGTGAA
44843223 TTGAATCAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (41 bp):
GCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCTAATT
Found at i:44851708 original size:37 final size:39
Alignment explanation
Indices: 44851665--44851751 Score: 110
Period size: 37 Copynumber: 2.3 Consensus size: 39
44851655 TTTTACATTA
* *
44851665 TATTATTGTTAGTTA-T-T-ATTTTTAGTA-AAACCCTAAT
1 TATTATTGTTAGTTAGTATAATTTTGAGTATAAA-ACT-AT
44851702 TATTATTGTTAGTTAGTATAATTTTGAGTATAAAACTAT
1 TATTATTGTTAGTTAGTATAATTTTGAGTATAAAACTAT
44851741 TATTATTGTTA
1 TATTATTGTTA
44851752 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 15 0.34
38 1 0.02
39 14 0.32
40 11 0.25
41 3 0.07
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (39 bp):
TATTATTGTTAGTTAGTATAATTTTGAGTATAAAACTAT
Found at i:44851745 original size:76 final size:77
Alignment explanation
Indices: 44851587--44851751 Score: 194
Period size: 76 Copynumber: 2.2 Consensus size: 77
44851577 AACTAATATC
* *
44851587 ATTATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGCTAGTATGATTGTT
1 ATTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGCTAGTATAATTGTT
* * * *
44851652 AGTTTTTACATT
66 AGTTATAAAACT
*** *
44851664 A-TATTATTGTTAGTTATTATTTTTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATAATT-T
1 ATTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATT-TTAGCTAGTATAATTGT
44851726 TGAG-TATAAAACT
65 T-AGTTATAAAACT
44851739 ATTATTATTGTTA
1 ATTATTATTGTTA
44851752 TTGTGTTAGT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
75 26 0.35
76 48 0.64
77 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (77 bp):
ATTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATTTTAGCTAGTATAATTGTT
AGTTATAAAACT
Found at i:44854541 original size:52 final size:48
Alignment explanation
Indices: 44854456--44854724 Score: 302
Period size: 46 Copynumber: 5.6 Consensus size: 48
44854446 TTTGAGTACT
* * *
44854456 TCTGATCAAGTGAC--AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * * *
44854502 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGAGACAA----AAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
44854554 TCTGATCAAGCGAC--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
44854600 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGAGAC-A---AAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
44854652 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTCAGCTACACTTA
44854698 TCTGATCAAGAGAC--AAAGTGATAAGTG
1 TCTGATCAAGAGACAAAAAGTGATAAGTG
44854725 GCTACACTTA
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
46 112 0.57
52 83 0.43
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
TCTGATCAAGAGACAAAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:44854577 original size:98 final size:98
Alignment explanation
Indices: 44854456--44854724 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
44854446 TTTGAGTACT
* *
44854456 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
44854521 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
44854554 TCTGATCAAGCGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
44854619 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
44854652 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
44854717 GATAAGTG
65 GAAAAGTG
44854725 GCTACACTTA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 150 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:44854732 original size:37 final size:37
Alignment explanation
Indices: 44854688--44854796 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
44854678 GATAGCTTTA
44854688 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
44854725 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
44854762 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
44854797 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:44855136 original size:12 final size:12
Alignment explanation
Indices: 44855119--44855147 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44855109 TTGCTAGTGA
44855119 TATGATTTAAAT
1 TATGATTTAAAT
44855131 TATGATTTAAAT
1 TATGATTTAAAT
44855143 TATGA
1 TATGA
44855148 GCATGAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
TATGATTTAAAT
Found at i:44857809 original size:124 final size:124
Alignment explanation
Indices: 44857589--44857840 Score: 459
Period size: 124 Copynumber: 2.0 Consensus size: 124
44857579 AATGCTGTCA
44857589 AATTGTTATGTGTAATGTTCGAATGTTGCAATGTTGTTTTAACACCCATTAACGTAAATTCAGCT
1 AATTGTTATGTGTAATGTTCGAATGTTGCAATGTTGTTTTAACACCCATTAACGTAAATTCAGCT
44857654 TATGCTTATGCTTAAATTGAATCCAAATTAAGTTATAAAAAGTATAATTCATTCGGAAT
66 TATGCTTATGCTTAAATTGAATCCAAATTAAGTTATAAAAAGTATAATTCATTCGGAAT
* * *
44857713 AATTGTTCTGTGTAATGTTCGGATGTTGCAATGTTGTTTTAACACCCATTAACTTAAATTCAGCT
1 AATTGTTATGTGTAATGTTCGAATGTTGCAATGTTGTTTTAACACCCATTAACGTAAATTCAGCT
* *
44857778 TATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATTTGGAAT
66 TATGCTTATGCTTAAATTGAATCCAAATTAAGTTATAAAAAGTATAATTCATTCGGAAT
44857837 AATT
1 AATT
44857841 AACATTATAT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 123 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (124 bp):
AATTGTTATGTGTAATGTTCGAATGTTGCAATGTTGTTTTAACACCCATTAACGTAAATTCAGCT
TATGCTTATGCTTAAATTGAATCCAAATTAAGTTATAAAAAGTATAATTCATTCGGAAT
Found at i:44861155 original size:16 final size:16
Alignment explanation
Indices: 44861134--44861164 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44861124 ACAAAGCGGT
44861134 AAAGCAAAAGAGGCAC
1 AAAGCAAAAGAGGCAC
44861150 AAAGCAAAAGAGGCA
1 AAAGCAAAAGAGGCA
44861165 GAGCAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.16, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGCAAAAGAGGCAC
Found at i:44861171 original size:14 final size:15
Alignment explanation
Indices: 44861134--44861171 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44861124 ACAAAGCGGT
44861134 AAAGCAAAAGAGGCAC
1 AAAGCAAAAGAGG-AC
44861150 AAAGCAAAAGAGG-C
1 AAAGCAAAAGAGGAC
*
44861164 AGAGCAAA
1 AAAGCAAA
44861172 GCAGCAGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
16 13 0.62
ACGTcount: A:0.58, C:0.16, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGCAAAAGAGGAC
Found at i:44873593 original size:24 final size:24
Alignment explanation
Indices: 44873548--44873598 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
44873538 TAATATGTAT
*
44873548 TTTTTTATTTCATGTTATTTCAAG
1 TTTTTTATTTCATGTTAATTCAAG
* *
44873572 TTTTTTATTT-ATTTTTAATTCATG
1 TTTTTTATTTCA-TGTTAATTCAAG
44873596 TTT
1 TTT
44873599 ATAATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTTTTATTTCATGTTAATTCAAG
Found at i:44873668 original size:21 final size:21
Alignment explanation
Indices: 44873626--44873669 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44873616 TATTTTCAAG
*
44873626 TTTTTTATTTTTAATTAATAAA
1 TTTTTTATTTATAA-TAATAAA
44873648 TTTTTTATTTATAA-AATTAAA
1 TTTTTTATTTATAATAA-TAAA
44873669 T
1 T
44873670 AATAAATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 5 0.25
22 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTATTTATAATAATAAA
Found at i:44874134 original size:14 final size:14
Alignment explanation
Indices: 44874115--44874144 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44874105 GCGACACCGT
44874115 AGCGTGAGACAAAA
1 AGCGTGAGACAAAA
*
44874129 AGCGTGAGATAAAA
1 AGCGTGAGACAAAA
44874143 AG
1 AG
44874145 TAAACTAAAC
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:0.50, C:0.10, G:0.30, T:0.10
Consensus pattern (14 bp):
AGCGTGAGACAAAA
Found at i:44898667 original size:40 final size:40
Alignment explanation
Indices: 44898612--44898691 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
44898602 GTAAATGCTG
44898612 CCATTGTTCCAACAATAATTGAGTTGCAGAACTTGAAGCT
1 CCATTGTTCCAACAATAATTGAGTTGCAGAACTTGAAGCT
44898652 CCATTGTTCCAACAATAATTGAGTTGCAGAACTTGAAGCT
1 CCATTGTTCCAACAATAATTGAGTTGCAGAACTTGAAGCT
44898692 TCTTCAGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (40 bp):
CCATTGTTCCAACAATAATTGAGTTGCAGAACTTGAAGCT
Found at i:44914642 original size:13 final size:14
Alignment explanation
Indices: 44914619--44914651 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
44914609 AATATTGAAA
44914619 ATATATAATATTTT
1 ATATATAATATTTT
44914633 ATAT-TAATATTTT
1 ATATATAATATTTT
*
44914646 AAATAT
1 ATATAT
44914652 TTTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATAATATTTT
Found at i:44915294 original size:21 final size:21
Alignment explanation
Indices: 44915262--44915316 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
44915252 TTTGAAATTT
*
44915262 ATTTTTTATTTTAT-TTTAAA
1 ATTTTTAATTTTATATTTAAA
*
44915282 ATTTTTAATTTTTATATTTCAA
1 ATTTTTAA-TTTTATATTTAAA
**
44915304 ATTTCAAATTTTA
1 ATTTTTAATTTTA
44915317 AAATTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTAATTTTATATTTAAA
Found at i:44915313 original size:22 final size:21
Alignment explanation
Indices: 44915270--44915315 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
44915260 TTATTTTTTA
**
44915270 TTTTATTTTAAAATTTTTAAT
1 TTTTATTTTAAAATTTCAAAT
*
44915291 TTTTATATTTCAAATTTCAAAT
1 TTTTAT-TTTAAAATTTCAAAT
44915313 TTT
1 TTT
44915316 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATTTTAAAATTTCAAAT
Found at i:44917007 original size:17 final size:17
Alignment explanation
Indices: 44916985--44917018 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
44916975 GCTCAAATTT
44916985 TAAAACT-AAAAATAAAG
1 TAAAACTGAAAAA-AAAG
44917002 TAAAACTGAAAAAAAAG
1 TAAAACTGAAAAAAAAG
44917019 AGTGTAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (17 bp):
TAAAACTGAAAAAAAAG
Found at i:44919095 original size:7 final size:7
Alignment explanation
Indices: 44919083--44919107 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44919073 AATTAACGAG
44919083 AAATTCA
1 AAATTCA
44919090 AAATTCA
1 AAATTCA
44919097 AAATTCA
1 AAATTCA
44919104 AAAT
1 AAAT
44919108 AAAAATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTCA
Found at i:44927819 original size:46 final size:47
Alignment explanation
Indices: 44927736--44927947 Score: 192
Period size: 52 Copynumber: 4.3 Consensus size: 47
44927726 TTGCACATAG
* * *
44927736 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGG-A
1 TCACATATCAC--ACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* * * * *
44927784 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
*
44927831 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGGAA
* *
44927883 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGG-AA
*
44927936 TCACATTTCACA
1 TCACATATCACA
44927948 TGCTGCCATG
Statistics
Matches: 141, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
46 28 0.20
47 12 0.09
48 11 0.08
50 2 0.01
52 77 0.55
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
Found at i:44927864 original size:52 final size:51
Alignment explanation
Indices: 44927750--44927931 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 51
44927740 ATATCACATA
* * * *
44927750 CCGAGGCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
* * * *
44927798 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
*
44927848 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCT
1 CCGAAGCCATAGCCCAGCTATGGTCTTATAC-GAAGCACATATCACATTTCT
44927900 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
1 CCGAAGCCATAGCCCAGCTATGGTCTTATACG
44927932 GAAATCACAT
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
46 25 0.22
47 13 0.11
50 2 0.02
51 1 0.01
52 75 0.65
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (51 bp):
CCGAAGCCATAGCCCAGCTATGGTCTTATACGAAGCACATATCACATTTCT
Found at i:44933931 original size:41 final size:41
Alignment explanation
Indices: 44933875--44934034 Score: 275
Period size: 41 Copynumber: 3.9 Consensus size: 41
44933865 CATGTTTATT
*
44933875 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
44933916 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
*
44933957 GCCGGTGAAACATTTCAGGCTTTAAGTCTAGCAGGCTTGAC
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
* * *
44933998 GCTGGTGAAACATTTCAGACATTATGTCTAGCAGGCT
1 GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCT
44934035 AAGAGCTAGT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (41 bp):
GCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGAC
Found at i:44935621 original size:13 final size:13
Alignment explanation
Indices: 44935603--44935628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44935593 TATTATTTAC
44935603 TTAATTAAATTAA
1 TTAATTAAATTAA
44935616 TTAATTAAATTAA
1 TTAATTAAATTAA
44935629 CTAAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:44942165 original size:85 final size:85
Alignment explanation
Indices: 44942019--44942193 Score: 314
Period size: 85 Copynumber: 2.1 Consensus size: 85
44942009 ACCCACAGCT
* *
44942019 TGTGTGAGCAGACCTATTTTCACAGCTCGTATGAGCATACATGTACAAGAATTGACGGATTATAG
1 TGTGTGAGCAGACCTATTTTCACAACTCGTATGAGCATACATGTACAAGAATTGACAGATTATAG
44942084 TTATATGAGTTAGCATACTA
66 TTATATGAGTTAGCATACTA
* *
44942104 TGTGTGAGCAGACCTATTTTCACAACTCGTGTGAGCATACATGTACAGGAATTGACAGATTATAG
1 TGTGTGAGCAGACCTATTTTCACAACTCGTATGAGCATACATGTACAAGAATTGACAGATTATAG
44942169 TTATATGAGTTAGCATACTA
66 TTATATGAGTTAGCATACTA
44942189 TGTGT
1 TGTGT
44942194 AAGCTATCCC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (85 bp):
TGTGTGAGCAGACCTATTTTCACAACTCGTATGAGCATACATGTACAAGAATTGACAGATTATAG
TTATATGAGTTAGCATACTA
Found at i:44943787 original size:22 final size:22
Alignment explanation
Indices: 44943747--44943788 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44943737 AATTTTAAAA
**
44943747 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAAATTTTTTT
*
44943769 TATTTTTAAATTAAATTTTT
1 TATTTTTAAAATAAATTTTT
44943789 GGTGTTTATT
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:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTTT
Found at i:44951400 original size:5 final size:5
Alignment explanation
Indices: 44951394--44951433 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
44951384 TCTATGGTTA
* *
44951394 TGTTA TGTTA TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG
1 TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG TGTTG
44951434 GAATATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.35, T:0.60
Consensus pattern (5 bp):
TGTTG
Found at i:44956654 original size:16 final size:16
Alignment explanation
Indices: 44956630--44956660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44956620 TTGGTTTACT
44956630 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
44956646 ATTATGCCTCTATTC
1 ATTACGCCTCTATTC
44956661 TAATACAGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.32, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:44965938 original size:4 final size:4
Alignment explanation
Indices: 44965929--44965963 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
44965919 TAGTAAACTA
44965929 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
44965964 TGTAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:44980104 original size:20 final size:21
Alignment explanation
Indices: 44980079--44980139 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
44980069 TTAACTTGAA
44980079 CAATTTCACTCGA-TTCGATT
1 CAATTTCACTCGACTTCGATT
* *
44980099 CAATTTGACTCGACTTGGATT
1 CAATTTCACTCGACTTCGATT
** *
44980120 TTATTTCACTCGGCTT-GATT
1 CAATTTCACTCGACTTCGATT
44980140 GAAAAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (21 bp):
CAATTTCACTCGACTTCGATT
Found at i:44985298 original size:24 final size:24
Alignment explanation
Indices: 44985251--44985300 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
44985241 GTAGTTTTTT
* ** *
44985251 AAAATTAGTACATTTTTTATTTAA
1 AAAAATAGTACATTTTAAAATTAA
44985275 AAAAATAGTACATTTTAAAATTAA
1 AAAAATAGTACATTTTAAAATTAA
44985299 AA
1 AA
44985301 CACTTGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAAATAGTACATTTTAAAATTAA
Found at i:44985831 original size:21 final size:21
Alignment explanation
Indices: 44985807--44985847 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44985797 ATCTAAGAAA
*
44985807 ATAAAAATATATAAAATTATC
1 ATAAAAATAAATAAAATTATC
* *
44985828 ATAAATATAAATAATATTAT
1 ATAAAAATAAATAAAATTAT
44985848 GTTAATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAAAAATAAATAAAATTATC
Found at i:44988525 original size:13 final size:13
Alignment explanation
Indices: 44988507--44988531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44988497 AAATATATTA
44988507 TATATTATTATAT
1 TATATTATTATAT
44988520 TATATTATTATA
1 TATATTATTATA
44988532 ATAATATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:44988619 original size:20 final size:20
Alignment explanation
Indices: 44988577--44988645 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
44988567 AAAAAATTAA
44988577 AGAAA-AAAGAAATAGAAAAAG
1 AGAAAGAAAG-AA-AGAAAAAG
* * *
44988598 AGAAAGATAGAACGAAACAG
1 AGAAAGAAAGAAAGAAAAAG
*
44988618 AGAACGAAAGAAAGAAAAAG
1 AGAAAGAAAGAAAGAAAAAG
44988638 -GAAAGAAA
1 AGAAAGAAA
44988646 AGGAGAAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 7 0.18
20 22 0.56
21 7 0.18
22 3 0.08
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.03
Consensus pattern (20 bp):
AGAAAGAAAGAAAGAAAAAG
Found at i:44995248 original size:13 final size:13
Alignment explanation
Indices: 44995230--44995254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44995220 AAGTATATTA
44995230 TATATTATTATAT
1 TATATTATTATAT
44995243 TATATTATTATA
1 TATATTATTATA
44995255 ATAATATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:44995876 original size:40 final size:39
Alignment explanation
Indices: 44995755--44995889 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
44995745 GACCTCGAGT
* *
44995755 CGATGAGACACTGGGTATCAATCTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGATT-ATC
* * * * *
44995796 TGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTATC
* *
44995833 CGATGAGACACTGGGTGTCAACTTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGATTATC
* *
44995873 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
44995890 CTAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 19 0.25
38 11 0.15
39 2 0.03
40 26 0.35
41 17 0.23
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTATC
Found at i:44997407 original size:21 final size:23
Alignment explanation
Indices: 44997357--44997407 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
44997347 TTGCTAGTAG
* *
44997357 GTTGTGGATGAACCACTGTAATAT
1 GTTGTAGATGAACCAC-GTAATAC
44997381 GTTGTAGATGAACCAC-TAAT-C
1 GTTGTAGATGAACCACGTAATAC
44997402 GTTGTA
1 GTTGTA
44997408 AATAAACTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.24
22 4 0.16
24 15 0.60
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (23 bp):
GTTGTAGATGAACCACGTAATAC
Found at i:44997552 original size:33 final size:34
Alignment explanation
Indices: 44997514--44997627 Score: 149
Period size: 34 Copynumber: 3.4 Consensus size: 34
44997504 ATACAACATG
*
44997514 ACATGCTTATAAAAAATCAATACGGTAGCAA-TA
1 ACATGCTTATAATAAATCAATACGGTAGCAATTA
* ** **
44997547 ACATGCTTATAATAAGTTGATACAATAGCAATTA
1 ACATGCTTATAATAAATCAATACGGTAGCAATTA
* *
44997581 TCATGCTTATAATAGATCAATACGGTAGCAATTA
1 ACATGCTTATAATAAATCAATACGGTAGCAATTA
44997615 ACATGCTTATAAT
1 ACATGCTTATAAT
44997628 GGATTATTGC
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
33 25 0.38
34 41 0.62
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (34 bp):
ACATGCTTATAATAAATCAATACGGTAGCAATTA
Found at i:45009825 original size:2 final size:2
Alignment explanation
Indices: 45009818--45009852 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
45009808 AACAGAGGAG
45009818 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
45009853 CAAAGCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:45010000 original size:2 final size:2
Alignment explanation
Indices: 45009993--45010021 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45009983 GATGGTAGAT
45009993 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45010022 TGTTCATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:45014386 original size:7 final size:7
Alignment explanation
Indices: 45014374--45014406 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
45014364 TTTTATAAGC
45014374 AATTAAA
1 AATTAAA
45014381 AATTAAA
1 AATTAAA
45014388 AATTAAA
1 AATTAAA
45014395 AATTAAA
1 AATTAAA
45014402 AATTA
1 AATTA
45014407 TGAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATTAAA
Found at i:45025381 original size:22 final size:22
Alignment explanation
Indices: 45025356--45025398 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45025346 TTTAAATCTT
45025356 AAAAAAATTCTA-AAGTTATAAG
1 AAAAAAA-TCTATAAGTTATAAG
*
45025378 AAAAAAATCTATATGTTATAA
1 AAAAAAATCTATAAGTTATAA
45025399 AAGTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAAAAATCTATAAGTTATAAG
Found at i:45026806 original size:9 final size:9
Alignment explanation
Indices: 45026794--45026866 Score: 67
Period size: 10 Copynumber: 7.7 Consensus size: 9
45026784 TTTTATGTTT
45026794 TTTTTATAA
1 TTTTTATAA
45026803 TTTTTATAA
1 TTTTTATAA
*
45026812 GTTTATATCAA
1 -TTTTTAT-AA
*
45026823 -TTTTATTA
1 TTTTTATAA
45026831 TTTTTAATAA
1 TTTTT-ATAA
*
45026841 TTTTATATGA
1 TTTT-TATAA
45026851 TTTTTATAA
1 TTTTTATAA
45026860 GTTTTTA
1 -TTTTTA
45026867 AGAATTTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
8 1 0.02
9 22 0.42
10 26 0.50
11 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45026840 original size:29 final size:29
Alignment explanation
Indices: 45026795--45026867 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
45026785 TTTATGTTTT
45026795 TTTTATAATTTTT-ATAAGTTTATATCAA
1 TTTTATAATTTTTAATAAGTTTATATCAA
* * * *
45026823 TTTTATTATTTTTAATAATTTTATATGAT
1 TTTTATAATTTTTAATAAGTTTATATCAA
45026852 TTTTATAAGTTTTTAA
1 TTTTATAA-TTTTTAA
45026868 GAATTTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 12 0.32
29 19 0.50
30 7 0.18
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTATAATTTTTAATAAGTTTATATCAA
Found at i:45028775 original size:15 final size:15
Alignment explanation
Indices: 45028757--45028789 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45028747 CAAATGCTAT
45028757 AATAATAAATACAAC
1 AATAATAAATACAAC
*
45028772 AATAATAAATACATC
1 AATAATAAATACAAC
45028787 AAT
1 AAT
45028790 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:45036058 original size:22 final size:22
Alignment explanation
Indices: 45036016--45036058 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45036006 TTGATTTGCT
**
45036016 TGATAAATTTTATAATTTTTTA
1 TGATAAATTTTATAACATTTTA
45036038 TGATAAA-TTTAGTAACATTTT
1 TGATAAATTTTA-TAACATTTT
45036059 TAGTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (22 bp):
TGATAAATTTTATAACATTTTA
Found at i:45037854 original size:25 final size:26
Alignment explanation
Indices: 45037826--45037877 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
45037816 CGTAAATACT
* *
45037826 CAAATAAC-TAATTTTTCTAGTATCC
1 CAAATAACATAAATTTTCTAGCATCC
45037851 CAAATAACATAAATTTTCTAGCATCC
1 CAAATAACATAAATTTTCTAGCATCC
45037877 C
1 C
45037878 GTTTTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (26 bp):
CAAATAACATAAATTTTCTAGCATCC
Found at i:45042956 original size:15 final size:16
Alignment explanation
Indices: 45042915--45042957 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
45042905 TTTCTCTCTC
45042915 TCTCTCTTTTTTTGTT
1 TCTCTCTTTTTTTGTT
*
45042931 TCT-TCTCTTTTTGTT
1 TCTCTCTTTTTTTGTT
45042946 TCTCT-TTTTTTT
1 TCTCTCTTTTTTT
45042958 ATTTGCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (16 bp):
TCTCTCTTTTTTTGTT
Found at i:45051100 original size:29 final size:29
Alignment explanation
Indices: 45051059--45051116 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
45051049 GAATAAAATC
*
45051059 AAATCAAAA-TTTTATGTTAAAATTACACA
1 AAATCAAAATTTTTAT-ATAAAATTACACA
*
45051088 AAATCAAAGTTTTTATATAAAATTACACA
1 AAATCAAAATTTTTATATAAAATTACACA
45051117 TCAACCAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATCAAAATTTTTATATAAAATTACACA
Found at i:45052264 original size:29 final size:29
Alignment explanation
Indices: 45052232--45052287 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
45052222 TTACTATTTT
*
45052232 AACTAATTAATTACATTATAAAAATATTA
1 AACTAATTAATAACATTATAAAAATATTA
*
45052261 AACTAATTAATAACATTATACAAATAT
1 AACTAATTAATAACATTATAAAAATAT
45052288 GAAAACCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (29 bp):
AACTAATTAATAACATTATAAAAATATTA
Found at i:45052562 original size:23 final size:23
Alignment explanation
Indices: 45052532--45052578 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
45052522 CTCTTGGACC
*
45052532 TTACTTTAATATATAGGTATAGA
1 TTACTTTAATATATAAGTATAGA
*
45052555 TTACTTTACTATATAAGTATAGA
1 TTACTTTAATATATAAGTATAGA
45052578 T
1 T
45052579 AAGTTGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (23 bp):
TTACTTTAATATATAAGTATAGA
Found at i:45053039 original size:6 final size:7
Alignment explanation
Indices: 45053022--45053046 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45053012 AAGCAGTATC
45053022 TTTTTTA
1 TTTTTTA
45053029 TTTTTTA
1 TTTTTTA
45053036 TTTTTTA
1 TTTTTTA
45053043 TTTT
1 TTTT
45053047 CTAGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:45056453 original size:25 final size:25
Alignment explanation
Indices: 45056392--45056487 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
45056382 CCCGTTATTA
* *
45056392 GCTCTCATGAGCTTCCCATTACATG
1 GCTCACATGAGCTTCCCGTTACATG
* ****
45056417 GTTCTTGCGAGCTTCCCGTTACATG
1 GCTCACATGAGCTTCCCGTTACATG
*
45056442 GCTCACATGAGCTTCCCGTTATATG
1 GCTCACATGAGCTTCCCGTTACATG
* * *
45056467 GCTCAGAAGAGCTTTCCGTTA
1 GCTCACATGAGCTTCCCGTTA
45056488 ATGTGCTTGT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCACATGAGCTTCCCGTTACATG
Found at i:45058895 original size:12 final size:12
Alignment explanation
Indices: 45058878--45058903 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45058868 AACAGTGACT
45058878 TAACTAGATAGG
1 TAACTAGATAGG
45058890 TAACTAGATAGG
1 TAACTAGATAGG
45058902 TA
1 TA
45058904 CATGCCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (12 bp):
TAACTAGATAGG
Found at i:45062227 original size:18 final size:18
Alignment explanation
Indices: 45062192--45062228 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45062182 TGCTTCTAAG
*
45062192 AAGCACTTTTGGGGTAAA
1 AAGCACTTTTGGGATAAA
*
45062210 AAGCACTTTTGTGATAAA
1 AAGCACTTTTGGGATAAA
45062228 A
1 A
45062229 GTATGGCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (18 bp):
AAGCACTTTTGGGATAAA
Found at i:45067485 original size:17 final size:16
Alignment explanation
Indices: 45067451--45067485 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
45067441 ATAATTACGG
*
45067451 TTAAAAATTATTTTTT
1 TTAAAAATTATTTATT
45067467 TTAAAAATTATTTCATT
1 TTAAAAATTATTT-ATT
45067484 TT
1 TT
45067486 TCTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAAAAATTATTTATT
Found at i:45075963 original size:30 final size:30
Alignment explanation
Indices: 45075928--45075987 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45075918 TATTTTATTG
*
45075928 TTAATTTGGTTATTATTTTAAAGGTATTTA
1 TTAATTTGGTTATTATTTTAAAGGAATTTA
* *
45075958 TTAATTTTGTTATTATTTTAGAGGAATTTA
1 TTAATTTGGTTATTATTTTAAAGGAATTTA
45075988 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTGGTTATTATTTTAAAGGAATTTA
Found at i:45076123 original size:11 final size:11
Alignment explanation
Indices: 45076109--45076138 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
45076099 TATATATATT
45076109 TAAAAATTATA
1 TAAAAATTATA
45076120 TAAAAATTATA
1 TAAAAATTATA
45076131 TAAAAATT
1 TAAAAATT
45076139 TAATATGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:45083187 original size:41 final size:41
Alignment explanation
Indices: 45083142--45083219 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
45083132 ATCTGAGATT
*
45083142 TTCAGGCTTAATGCCTAGCAAGC-TTGATGCCGGTGAATTAC
1 TTCAGACTTAATGCCTAGCAAGCTTTG-TGCCGGTGAATTAC
* * *
45083183 TTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
1 TTCAGACTTAATGCCTAGCAAGCTTTGTGCCGGTGAA
45083220 ATGTATCGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (41 bp):
TTCAGACTTAATGCCTAGCAAGCTTTGTGCCGGTGAATTAC
Found at i:45084693 original size:40 final size:41
Alignment explanation
Indices: 45084617--45084693 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
45084607 GGGCATGCGG
* * * *
45084617 GGATTTAGCGGCGTTTTTTATTAAGCGCCGCTAAAGATCAA
1 GGATTTAGCGGCATTTTTGATAAAGCGCCACTAAAGATCAA
*
45084658 GGATTTAGCGGCATTTTTGATAAATCGCCAC-AAAGA
1 GGATTTAGCGGCATTTTTGATAAAGCGCCACTAAAGA
45084694 AACCTAAGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 5 0.16
41 26 0.84
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
GGATTTAGCGGCATTTTTGATAAAGCGCCACTAAAGATCAA
Found at i:45084779 original size:114 final size:114
Alignment explanation
Indices: 45084622--45084874 Score: 255
Period size: 114 Copynumber: 2.2 Consensus size: 114
45084612 TGCGGGGATT
* * * *
45084622 TAGCGGCGTTTTTTATTAAGCGCCGCTAAAGATCAAGGATTTAGCGGCATTTTTGAT-AAATCGC
1 TAGCGGCGTTTTTGAGTAAGCGCCGCTAAAGATCAAGGATTTAGCGGCATTTGT-ATGAAAGCGC
* * *
45084686 CACAAAGAAACCTAAGACC-AACGACGCCGTTTTCTGAGCATTCGGTAACC
65 CACAAAGAAACATAAG-CCGAACGACACCGTTCTCTGAGCATTCGGTAACC
* * * * *
45084736 TAGCGGCGTTTTTGAGGT-AGCGCCGCTAATGTTC-AGTACTTTAGCGGCGTTTGTATGGAAGCG
1 TAGCGGCGTTTTTGA-GTAAGCGCCGCTAAAGATCAAGGA-TTTAGCGGCATTTGTATGAAAGCG
* * * ** **
45084799 CCGCAAATAAACATAAGCCGAACGACACCGTTCTCTGAGTATTCGGGGATT
64 CCACAAAGAAACATAAGCCGAACGACACCGTTCTCTGAGCATTCGGTAACC
*
45084850 TAGCGGCATTTTTG-GTAAGCGCCGC
1 TAGCGGCGTTTTTGAGTAAGCGCCGC
45084875 CAATAACCTA
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
112 2 0.02
113 15 0.13
114 96 0.84
115 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (114 bp):
TAGCGGCGTTTTTGAGTAAGCGCCGCTAAAGATCAAGGATTTAGCGGCATTTGTATGAAAGCGCC
ACAAAGAAACATAAGCCGAACGACACCGTTCTCTGAGCATTCGGTAACC
Found at i:45085751 original size:24 final size:24
Alignment explanation
Indices: 45085724--45085771 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
45085714 GGTTAATAAA
*
45085724 AAAGGACAGAAATTAAATTTATTT
1 AAAGGACAGAAATAAAATTTATTT
45085748 AAAGGACAGAAATAAAATTTATTT
1 AAAGGACAGAAATAAAATTTATTT
45085772 TAGTGTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (24 bp):
AAAGGACAGAAATAAAATTTATTT
Found at i:45086033 original size:31 final size:31
Alignment explanation
Indices: 45085997--45086059 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
45085987 AAACGCGCCG
45085997 CAAACTTTATGCCTGATACTGCAAAACGTTA
1 CAAACTTTATGCCTGATACTGCAAAACGTTA
*
45086028 CAAACTTTGTGCCTGATACTGCAAAACGTTA
1 CAAACTTTATGCCTGATACTGCAAAACGTTA
45086059 C
1 C
45086060 GTTTTATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (31 bp):
CAAACTTTATGCCTGATACTGCAAAACGTTA
Found at i:45086471 original size:146 final size:145
Alignment explanation
Indices: 45086283--45086746 Score: 397
Period size: 146 Copynumber: 3.2 Consensus size: 145
45086273 TTGCTATTAC
* * ** * * *
45086283 TGGCGCTTTACATAAAACGCCGCAAAATTGTATTTATGTTTATCGAAATGTTGTCGTTTTGTCAA
1 TGGCGCTTTACTTAAAACGCCGCAAAATTGT-TTAACATTTATCGAAACGCTGTCGTTTTGTAAA
* *
45086348 TGGTATTAGTGGC-TTTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGA-GAAACGACT-T
65 TGGTATTAGTGGCATTTTTTT-AAAACGCCACAAGCTTGAGGTAAATGTT-GATGAAACGACTGT
*
45086410 CG-TTTGATCTTATATTTAG
128 -GTTTTGAT-TTATAGTTAG
* * *
45086429 TGGCGCTTTACTTAAAACGCCGCAACATTGTTCTAACATTTATAGAAACGCTGTCGTTTTTTAAA
1 TGGCGCTTTACTTAAAACGCCGCAAAATTGTT-TAACATTTATCGAAACGCTGTCGTTTTGTAAA
* ** * * *
45086494 TGTTATTAGTGGCGATTTTTTTAAAACGCCACGGGTTTGAGGTAAGTGTTGATGAAATGACTGTG
65 TGGTATTAGTGGC-ATTTTTTTAAAACGCCACAAGCTTGAGGTAAATGTTGATGAAACGACTGTG
45086559 TTTTGATTTATAGTTAG
129 TTTTGATTTATAGTTAG
* * * * ** * **
45086576 T-GCGCTTTAATTAAAACGCTGCAAAAATGTTTTAACATTTATCGATACGAGGCCGTTTTGTTGT
1 TGGCGCTTTACTTAAAACGCCGCAAAATTG-TTTAACATTTATCGAAACGCTGTCGTTTTG-TAA
* ** * * * **
45086640 AT--TATTAGTGGCGTTTATTCAAAAACGCCAC-AGGTGTGCGCTATTTGTTGATGAAACGACTG
64 ATGGTATTAGTGGCATTT-TTTTAAAACGCCACAAGCT-TGAGGTAAATGTTGATGAAACGACTG
* * *
45086702 CGTTTCGACTTATAGTTAG
127 TGTTTTGATTTATAGTTAG
*
45086721 TGGCGC-TTATTTATAAACGCCGCAAA
1 TGGCGCTTTACTTA-AAACGCCGCAAA
45086747 TGGTTAATTT
Statistics
Matches: 260, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
144 5 0.02
145 67 0.26
146 128 0.49
147 46 0.18
148 14 0.05
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (145 bp):
TGGCGCTTTACTTAAAACGCCGCAAAATTGTTTAACATTTATCGAAACGCTGTCGTTTTGTAAAT
GGTATTAGTGGCATTTTTTTAAAACGCCACAAGCTTGAGGTAAATGTTGATGAAACGACTGTGTT
TTGATTTATAGTTAG
Found at i:45086695 original size:145 final size:146
Alignment explanation
Indices: 45086370--45086746 Score: 372
Period size: 145 Copynumber: 2.6 Consensus size: 146
45086360 CTTTTTTTGG
* * * * *
45086370 AAACGCCACAAGCT-TGAGTTAAATGTTGGA-GAAACGACTTCG-TTTGATCTTATATTTAGTGG
1 AAACGCCAC-AGGTGTGAGCTAAGTGTT-GATGAAACGACTGCGTTTTGAT-TTATAGTTAGTGG
* * * ** * *
45086432 CGCTTTACTTAAAACGCCGCAACATTGTTCTAACATTTATAGAAACGCTGTCGTTTTTTAAATGT
63 CGCTTTAATTAAAACGCCGCAAAAATGTTCTAACATTTATAGAAACGAGGCCGTTTTTT-AATAT
**
45086497 TATTAGTGGCGATTTTTTTA
127 TATTAGTGGCGATTTTTCAA
* * * * *
45086517 AAACGCCACGGGTTTGAGGTAAGTGTTGATGAAATGACTGTGTTTTGATTTATAGTTAGT-GCGC
1 AAACGCCACAGGTGTGAGCTAAGTGTTGATGAAACGACTGCGTTTTGATTTATAGTTAGTGGCGC
* * * * *
45086581 TTTAATTAAAACGCTGCAAAAATGTTTTAACATTTATCGATACGAGGCCGTTTTGTT-GTATTAT
66 TTTAATTAAAACGCCGCAAAAATGTTCTAACATTTATAGAAACGAGGCCGTTTT-TTAATATTAT
45086645 TAGTGGCG-TTTATTCAA
130 TAGTGGCGATTT-TTCAA
* ** * *
45086662 AAACGCCACAGGTGTGCGCTATTTGTTGATGAAACGACTGCGTTTCGACTTATAGTTAGTGGCGC
1 AAACGCCACAGGTGTGAGCTAAGTGTTGATGAAACGACTGCGTTTTGATTTATAGTTAGTGGCGC
*
45086727 -TTATTTATAAACGCCGCAAA
66 TTTAATTA-AAACGCCGCAAA
45086747 TGGTTAATTT
Statistics
Matches: 189, Mismatches: 34, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
144 3 0.02
145 72 0.38
146 67 0.35
147 41 0.22
148 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (146 bp):
AAACGCCACAGGTGTGAGCTAAGTGTTGATGAAACGACTGCGTTTTGATTTATAGTTAGTGGCGC
TTTAATTAAAACGCCGCAAAAATGTTCTAACATTTATAGAAACGAGGCCGTTTTTTAATATTATT
AGTGGCGATTTTTCAA
Found at i:45089198 original size:13 final size:13
Alignment explanation
Indices: 45089170--45089221 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
45089160 ACTTATTACT
45089170 AATATATATA-TTA
1 AATATAT-TACTTA
*
45089183 AATTTATTACTTA
1 AATATATTACTTA
*
45089196 AATATGTTACTTA
1 AATATATTACTTA
*
45089209 AATACATTACTTA
1 AATATATTACTTA
45089222 CTAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:45089297 original size:63 final size:63
Alignment explanation
Indices: 45089193--45089311 Score: 220
Period size: 63 Copynumber: 1.9 Consensus size: 63
45089183 AATTTATTAC
*
45089193 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATATGTAAAAT
*
45089256 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATAT
1 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATAT
45089312 TATATAATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (63 bp):
TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATATGTAAAAT
Found at i:45089354 original size:39 final size:38
Alignment explanation
Indices: 45089303--45089423 Score: 102
Period size: 39 Copynumber: 3.1 Consensus size: 38
45089293 TAAGTAAGTT
*
45089303 TACATATA-TTATATAA-TACATTACTTTTAACTTACATAA
1 TACATA-ACTTATA-AATTACATTA-TATTAACTTACATAA
***
45089342 TACATAACTTATAAATTTTTTTTATATTAACTTACATAA
1 TACATAACTTATAAA-TTACATTATATTAACTTACATAA
* *** **
45089381 TACATAACTTATAATTTTTTTTATACAAACTTACATAA
1 TACATAACTTATAAATTACATTATATTAACTTACATAA
45089419 TACAT
1 TACAT
45089424 TTAACTTACA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
38 29 0.40
39 39 0.54
40 4 0.06
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (38 bp):
TACATAACTTATAAATTACATTATATTAACTTACATAA
Found at i:45089412 original size:38 final size:39
Alignment explanation
Indices: 45089331--45089423 Score: 161
Period size: 38 Copynumber: 2.4 Consensus size: 39
45089321 CATTACTTTT
**
45089331 AACTTACATAATACATAACTTATAAATTTTTTTTATATT
1 AACTTACATAATACATAACTTATAAATTTTTTTTATACA
45089370 AACTTACATAATACATAACTTAT-AATTTTTTTTATACA
1 AACTTACATAATACATAACTTATAAATTTTTTTTATACA
45089408 AACTTACATAATACAT
1 AACTTACATAATACAT
45089424 TTAACTTACA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
38 29 0.56
39 23 0.44
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (39 bp):
AACTTACATAATACATAACTTATAAATTTTTTTTATACA
Found at i:45089439 original size:9 final size:9
Alignment explanation
Indices: 45089404--45089868 Score: 333
Period size: 9 Copynumber: 51.6 Consensus size: 9
45089394 ATTTTTTTTA
45089404 TACA-AACT
1 TACATAACT
45089412 TACATAA--
1 TACATAACT
45089419 TACATTTAACT
1 TACA--TAACT
45089430 TACATAACT
1 TACATAACT
45089439 TACATAACT
1 TACATAACT
*
45089448 TACACAACT
1 TACATAACT
45089457 TACATAACCT
1 TACATAA-CT
45089467 T-CATAA--
1 TACATAACT
45089473 TACATTTAACT
1 TACA--TAACT
45089484 TACATAACT
1 TACATAACT
45089493 TACATAACT
1 TACATAACT
45089502 TACATAA--
1 TACATAACT
* *
45089509 TGCAAAACT
1 TACATAACT
45089518 TACATAACAACT
1 TACAT---AACT
*
45089530 TACATAACA
1 TACATAACT
*
45089539 TACATTACT
1 TACATAACT
**
45089548 TTGATAACT
1 TACATAACT
45089557 TACATAACT
1 TACATAACT
45089566 TACATAA--
1 TACATAACT
* *
45089573 TGCAAAACT
1 TACATAACT
45089582 TACATAAC-
1 TACATAACT
* *
45089590 AAC-TTACT
1 TACATAACT
*
45089598 TACATAACA
1 TACATAACT
*
45089607 TACATTACT
1 TACATAACT
* * *
45089616 TAAATTATT
1 TACATAACT
45089625 TACATAA--
1 TACATAACT
45089632 TACATAACTT
1 TACATAAC-T
*
45089642 AGTACATAATT
1 --TACATAACT
45089653 TACATAA--
1 TACATAACT
*
45089660 TACAAAACTT
1 TACATAAC-T
*
45089670 AGTACACAACT
1 --TACATAACT
*
45089681 TACATAATTTT
1 TACATAA--CT
*
45089692 TTC-TAAATTGCT
1 TACAT-AA---CT
*
45089704 TACATAAAT
1 TACATAACT
*
45089713 TATATAACT
1 TACATAACT
45089722 TACATAACT
1 TACATAACT
45089731 TACATTAA-T
1 TACA-TAACT
*
45089740 TAAATAACT
1 TACATAACT
45089749 TACATAACT
1 TACATAACT
45089758 TACATAACT
1 TACATAACT
*
45089767 TAAATAACT
1 TACATAACT
45089776 TACATAACT
1 TACATAACT
*
45089785 TACATATCT
1 TACATAACT
45089794 TACATAACT
1 TACATAACT
45089803 TACATAACT
1 TACATAACT
*
45089812 TACATAAAT
1 TACATAACT
45089821 TACATAACT
1 TACATAACT
45089830 TACATAACT
1 TACATAACT
45089839 TACATAA--
1 TACATAACT
45089846 TACATAACCT
1 TACATAA-CT
*
45089856 T-CCTAACT
1 TACATAACT
45089864 TACAT
1 TACAT
45089869 TATTGTTTAA
Statistics
Matches: 364, Mismatches: 52, Indels: 81
0.73 0.10 0.16
Matches are distributed among these distances:
6 1 0.00
7 39 0.11
8 14 0.04
9 257 0.71
10 8 0.02
11 15 0.04
12 29 0.08
13 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:45089531 original size:12 final size:12
Alignment explanation
Indices: 45089514--45089596 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 12
45089504 CATAATGCAA
45089514 AACTTACATAAC
1 AACTTACATAAC
45089526 AACTTACATAAC
1 AACTTACATAAC
* * *
45089538 ATACATTACTTTGAT
1 A-AC-TTAC-ATAAC
45089553 AACTTACAT---
1 AACTTACATAAC
45089562 AACTTACATAATGC
1 AACTTACATAA--C
45089576 AAAACTTACATAAC
1 --AACTTACATAAC
45089590 AACTTAC
1 AACTTAC
45089597 TTACATAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
9 9 0.16
12 21 0.37
13 6 0.11
14 7 0.12
15 3 0.05
16 11 0.19
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (12 bp):
AACTTACATAAC
Found at i:45089566 original size:64 final size:64
Alignment explanation
Indices: 45089425--45089638 Score: 244
Period size: 64 Copynumber: 3.3 Consensus size: 64
45089415 ATAATACATT
* *
45089425 TAACTTACATAACTTACATAACTTACACAACTTACATAAC--CTT-CAT-A-ATACATTTAACTT
1 TAACTTACATAACTTACATAA--TGCAAAACTTACATAACAACTTACATAACATACA-TT-ACTT
45089485 ACA
62 ACA
**
45089488 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTACA
45089552 TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACTTACATAACATACATTACTT
1 TAACTTACATAACTTACATAATGCAAAACTTACATAAC-A---ACTTACATAACATACATTACTT
*
45089617 AAA
62 ACA
* *
45089620 TTATTTACATAA--TACATAA
1 TAACTTACATAACTTACATAA
45089639 CTTAGTACAT
Statistics
Matches: 134, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
61 15 0.11
63 24 0.18
64 46 0.34
65 4 0.03
66 12 0.09
68 33 0.25
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (64 bp):
TAACTTACATAACTTACATAATGCAAAACTTACATAACAACTTACATAACATACATTACTTACA
Found at i:45089660 original size:28 final size:28
Alignment explanation
Indices: 45089622--45089688 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
45089612 TACTTAAATT
* *
45089622 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACAAAACTTAGTACACA
45089650 ATTTACATAATACAAAACTTAGTACACA
1 ATTTACATAATACAAAACTTAGTACACA
*
45089678 ACTTACATAAT
1 ATTTACATAAT
45089689 TTTTTCTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (28 bp):
ATTTACATAATACAAAACTTAGTACACA
Found at i:45092323 original size:21 final size:21
Alignment explanation
Indices: 45092297--45092365 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
45092287 CAACAACTTA
* *
45092297 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
45092318 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
45092339 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
45092360 AAGCAG
1 AAGCAG
45092366 CGATAGAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.43, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:45092874 original size:42 final size:40
Alignment explanation
Indices: 45092815--45093106 Score: 221
Period size: 42 Copynumber: 6.9 Consensus size: 40
45092805 TTTGTGAAAT
* *
45092815 AAGCGCCGCTAAAGAACACTACTATTAGCGGCATTTTTGAA
1 AAGCGCCGCTAAAGAACACTACT-TTAGCGGCGTTTTTCAA
* * *
45092856 CAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCCTCCA
1 -AAGCGCCGCTAAAGAACACTAC-TTTAGCGGCGTTTT--TCAA
*
45092900 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTTC-A
1 AAGCGCCGCTAAAGAACACTA-CTTTAGCGGCG--TTTTTCAA
* * * * **
45092942 AAGCGCTGCTAAAGTACACGATCTATAGCGGCGTTTTTTTTA
1 AAGCGCCGCTAAAGAACACTA-CTTTAGCGGCG-TTTTTCAA
* * **
45092984 AAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACACTA-CTTTAGCGGCG-TTTTTCAA
**
45093026 AAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTATTTCCT
1 AAGCGCCGCTAAAGAACACT-A-CTTTAGCGGCG-TT-TTTCAA
* *
45093069 TAGCGCCGCTAAAGAACA-TGATCTTTAGCGGTGTTTTT
1 AAGCGCCGCTAAAGAACACT-A-CTTTAGCGGCGTTTTT
45093107 TTCTGTAAGC
Statistics
Matches: 218, Mismatches: 23, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
41 9 0.04
42 134 0.61
43 68 0.31
44 3 0.01
45 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACACTACTTTAGCGGCGTTTTTCAA
Found at i:45092904 original size:85 final size:84
Alignment explanation
Indices: 45092815--45093107 Score: 340
Period size: 85 Copynumber: 3.5 Consensus size: 84
45092805 TTTGTGAAAT
* * * * *
45092815 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCATTTTTGA-ACAAGCGCCGCTATAGAACATTA
1 AAGCGCCGCTAAAGAACACGATCT-TTAGCGGCGTTTTTTACA-AAGCGCCGCTAAAGAACATGA
*
45092878 -CTTTTAGCGGCGTTTTCCTCCA
64 TC-TTTAGCGGCGTTTT-TTCCA
* * * *
45092900 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTTCAAAGCGCTGCTAAAGTACACGATC
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
* **
45092965 TATAGCGGCGTTTTTTTTA
66 TTTAGCGGCGTTTTTTCCA
* * *
45092984 AAGCGCCGCTAAAGAACACGATCTTTAGTGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
*
45093049 TTTAGCGGCGTTTATTTCCT
66 TTTAGCGGCGTTT-TTTCCA
* * *
45093069 TAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTT
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTT
45093108 TCTGTAAGCG
Statistics
Matches: 177, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
84 73 0.41
85 100 0.56
86 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTCCA
Found at i:45106619 original size:13 final size:13
Alignment explanation
Indices: 45106576--45106621 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
45106566 ATTATTTTTA
45106576 TTTT-AAATAGTTT
1 TTTTAAAATA-TTT
45106589 TTATTGAAAATA-TT
1 TT-TT-AAAATATTT
45106603 TTTTAAAATATTT
1 TTTTAAAATATTT
45106616 TTTTAA
1 TTTTAA
45106622 TAACTGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 12 0.41
14 6 0.21
16 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:45110047 original size:18 final size:17
Alignment explanation
Indices: 45110026--45110359 Score: 135
Period size: 18 Copynumber: 18.6 Consensus size: 17
45110016 GCAACCTTTT
45110026 TTTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
*
45110043 CTTTTTAAAACAAC-AGAA
1 TTTTTTAAAAC-ACGA-AA
*
45110061 --TTTTAGAAACACGAATT
1 TTTTTTA-AAACACGAA-A
45110078 TTTTTTAAAAAACACGAAA
1 TTTTTT--AAAACACGAAA
* *
45110097 -ATTTTGAAACACGAGAA
1 TTTTTTAAAACACGA-AA
*
45110114 TTTTTTTTTGAAAACACGAATTT
1 ---TTTTTT-AAAACACGAA--A
* *
45110137 TCTTTTTGAAGCACGAAA
1 T-TTTTTAAAACACGAAA
**
45110155 AATTTTAAAACAC-AAA
1 TTTTTTAAAACACGAAA
* *
45110171 TTTTTGAAAACATGGAAA
1 TTTTTTAAAACA-CGAAA
*
45110189 -TTTTTAAAACACGGGAA
1 TTTTTTAAAACAC-GAAA
* *
45110206 TTTTTGAAAACATGAAAA
1 TTTTTTAAAACACG-AAA
*
45110224 TTTTTGAAAACACCGAAA
1 TTTTTTAAAACA-CGAAA
* *
45110242 CTTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
* * *
45110260 -TTTTTGAAACATAGGAA
1 TTTTTTAAAACA-CGAAA
45110277 TTTTTTGAAAACACGAAAA
1 TTTTTT-AAAACACG-AAA
* * * *
45110296 ATTTTGAAAA-ATGGAATT
1 TTTTTTAAAACA-CGAA-A
45110314 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGA-AA
*
45110332 TTTTTTGAAAACATGAAA
1 TTTTTT-AAAACACGAAA
**
45110350 AATTTTAAAA
1 TTTTTTAAAA
45110360 AACGGATTCT
Statistics
Matches: 238, Mismatches: 45, Indels: 68
0.68 0.13 0.19
Matches are distributed among these distances:
16 28 0.12
17 62 0.26
18 85 0.36
19 26 0.11
20 18 0.08
21 11 0.05
22 8 0.03
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:45110061 original size:54 final size:53
Alignment explanation
Indices: 45109996--45110117 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 53
45109986 GATCCAATTG
* ** *
45109996 AAACACGAGAATTTT-GAAACGC-AACCTTTTTTTTTTAAAACACGAAACTTTTTA
1 AAACACGAGAATTTTAGAAACACGAA--TTTTTTTTAAAAAACACGAAA-ATTTTA
*
45110050 AAACAAC-AGAATTTTAGAAACACGAATTTTTTTTAAAAAACACGAAAATTTTG
1 AAAC-ACGAGAATTTTAGAAACACGAATTTTTTTTAAAAAACACGAAAATTTTA
45110103 AAACACGAGAATTTT
1 AAACACGAGAATTTT
45110118 TTTTTGAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
52 2 0.03
53 16 0.27
54 31 0.53
55 8 0.14
56 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (53 bp):
AAACACGAGAATTTTAGAAACACGAATTTTTTTTAAAAAACACGAAAATTTTA
Found at i:45110108 original size:16 final size:16
Alignment explanation
Indices: 45110087--45110117 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45110077 TTTTTTTAAA
45110087 AAACACGAAAATTTTG
1 AAACACGAAAATTTTG
*
45110103 AAACACGAGAATTTT
1 AAACACGAAAATTTT
45110118 TTTTTGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (16 bp):
AAACACGAAAATTTTG
Found at i:45110123 original size:21 final size:23
Alignment explanation
Indices: 45110098--45110152 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 23
45110088 AACACGAAAA
45110098 TTTTGAAACACGA-GAATTTT-T
1 TTTTGAAACACGACGAATTTTCT
45110119 TTTTGAAA-AC-ACGAATTTTCT
1 TTTTGAAACACGACGAATTTTCT
*
45110140 TTTTGAAGCACGA
1 TTTTGAAACACGA
45110153 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.31
21 16 0.55
22 2 0.07
23 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (23 bp):
TTTTGAAACACGACGAATTTTCT
Found at i:45110128 original size:38 final size:37
Alignment explanation
Indices: 45110028--45110133 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 37
45110018 AACCTTTTTT
**
45110028 TTTTA-AAACACGAA-ACTTTTTAAAACAACA-G--AA
1 TTTTAGAAACACGAATTTTTTTTAAAA-AACACGAAAA
45110061 TTTTAGAAACACGAATTTTTTTTAAAAAACACGAAAA
1 TTTTAGAAACACGAATTTTTTTTAAAAAACACGAAAA
**
45110098 TTTT-GAAACACGAGAATTTTTTTTTGAAAACACGAA
1 TTTTAGAAACAC--GAATTTTTTTTAAAAAACACGAA
45110134 TTTTCTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
33 5 0.08
34 13 0.21
35 10 0.16
36 7 0.11
37 6 0.10
38 21 0.34
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (37 bp):
TTTTAGAAACACGAATTTTTTTTAAAAAACACGAAAA
Found at i:45110137 original size:58 final size:57
Alignment explanation
Indices: 45110067--45110175 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
45110057 AGAATTTTAG
*
45110067 AAACACGAATTTT-TTTTAAAAAACACG-AAAATTTTGAAACACGAGAATTTTTTTTTGA
1 AAACACGAATTTTCTTTT-AAAAACACGAAAAATTTTAAAACAC-A-AATTTTTTTTTGA
** *
45110125 AAACACGAATTTTCTTTTTGAAGCACGAAAAATTTTAAAACACAAATTTTT
1 AAACACGAATTTTCTTTTAAAAACACGAAAAATTTTAAAACACAAATTTTT
45110176 GAAAACATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
57 7 0.16
58 20 0.44
59 18 0.40
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (57 bp):
AAACACGAATTTTCTTTTAAAAACACGAAAAATTTTAAAACACAAATTTTTTTTTGA
Found at i:45110153 original size:20 final size:20
Alignment explanation
Indices: 45110067--45110146 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
45110057 AGAATTTTAG
**
45110067 AAACACGAATTTTTTTTAAA
1 AAACACGAATTTTTTTTTGA
**
45110087 AAACACGAA---AATTTTG-
1 AAACACGAATTTTTTTTTGA
45110103 AAACACGAGAATTTTTTTTTGA
1 AAACAC--GAATTTTTTTTTGA
45110125 AAACACGAATTTTCTTTTTGA
1 AAACACGAATTTT-TTTTTGA
45110146 A
1 A
45110147 GCACGAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
16 6 0.13
17 3 0.06
18 3 0.06
20 16 0.34
21 13 0.28
22 6 0.13
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (20 bp):
AAACACGAATTTTTTTTTGA
Found at i:45110247 original size:36 final size:36
Alignment explanation
Indices: 45110026--45110344 Score: 176
Period size: 36 Copynumber: 8.8 Consensus size: 36
45110016 GCAACCTTTT
* * *
45110026 TTTTTTAAAACACGAAACTTTTT-AAAACAAC-AGAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACCGA-AA
* ** * *
45110061 TTTTAG-AAACACGAATTTTTTTTAAAAAACACGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACAC-CGAAA
* * *
45110097 ATTTTG-AAACACGAGAATTTTTTTTTGAAAACA-CGAATTTTC
1 TTTTTGAAAACACGA-AA---ATTTTTGAAAACACCGAA----A
* *
45110139 TTTTTG-AAGCACGAAAAATTTT-AAAACA-C-AAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACCGAAA
* * * *
45110171 TTTTTGAAAACATGGAAATTTTT-AAAACACGGGAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACCGAAA
*
45110206 TTTTTGAAAACATGAAAATTTTTGAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACCGAAA
* * ** *
45110242 CTTTTGAAAACACGAAGATTTTTG-AAACATAGGAAT
1 TTTTTGAAAACACGAAAATTTTTGAAAACA-CCGAAA
* ** *
45110278 TTTTTGAAAACACGAAAAATTTTGAAAA-ATGGAATT
1 TTTTTGAAAACACGAAAATTTTTGAAAACACCGAA-A
* *
45110314 TTTTTTAAAACACGAGAATTTTTTGAAAACA
1 TTTTTGAAAACACGA-AAATTTTTGAAAACA
45110345 TGAAAAATTT
Statistics
Matches: 225, Mismatches: 39, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
32 6 0.03
33 18 0.08
34 14 0.06
35 42 0.19
36 88 0.39
37 23 0.10
38 9 0.04
40 11 0.05
41 2 0.01
42 12 0.05
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACACCGAAA
Found at i:45110265 original size:54 final size:52
Alignment explanation
Indices: 45110168--45110305 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 52
45110158 TTTAAAACAC
* * *
45110168 AAATTTTTGAAAACATGGAAATTTTTAAAACACGGGAATTTTTGAAAACAT-GA
1 AAATTTTTGAAAACA-CGAAATTTTGAAAACACGAGAATTTTTG-AAACATAGA
*
45110221 AAATTTTTGAAAACACCGAAACTTTTGAAAACACGA-AGATTTTTGAAACATAGG
1 AAATTTTTGAAAACA-CGAAA-TTTTGAAAACACGAGA-ATTTTTGAAACATAGA
*
45110275 AATTTTTTGAAAACACGAAAAATTTTGAAAA
1 AAATTTTTGAAAACACG--AAATTTTGAAAA
45110306 ATGGAATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
53 28 0.38
54 43 0.58
55 3 0.04
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (52 bp):
AAATTTTTGAAAACACGAAATTTTGAAAACACGAGAATTTTTGAAACATAGA
Found at i:45110410 original size:18 final size:18
Alignment explanation
Indices: 45110389--45110430 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45110379 TTATTTTTAT
*
45110389 TTTTTTAAAACACGAATA
1 TTTTTTAAAACACGAAGA
* *
45110407 TTTTTGAAACCACGAAGA
1 TTTTTTAAAACACGAAGA
45110425 TTTTTT
1 TTTTTT
45110431 TTACACAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (18 bp):
TTTTTTAAAACACGAAGA
Found at i:45110642 original size:19 final size:20
Alignment explanation
Indices: 45110606--45110647 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
45110596 GACACAAAAA
45110606 TTTCGAAAAACGAGAATTTT
1 TTTCGAAAAACGAGAATTTT
45110626 TTTCGAAAACAC-A-AATTTT
1 TTTCGAAAA-ACGAGAATTTT
45110645 TTT
1 TTT
45110648 GAATATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 10 0.48
21 2 0.10
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTCGAAAAACGAGAATTTT
Found at i:45110983 original size:12 final size:12
Alignment explanation
Indices: 45110966--45111009 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
45110956 TTGAACCTTT
45110966 TTTCTTTTTCTC
1 TTTCTTTTTCTC
45110978 TTTCTTTTTC-C
1 TTTCTTTTTCTC
*
45110989 TTTTTTTTTCTC
1 TTTCTTTTTCTC
*
45111001 TCTCTTTTT
1 TTTCTTTTT
45111010 TTTCTCTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCTTTTTCTC
Found at i:45110986 original size:19 final size:18
Alignment explanation
Indices: 45110962--45111032 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
45110952 CAAATTGAAC
45110962 CTTTTTTCTTTTTCTCTTT
1 CTTTTTT-TTTTTCTCTTT
45110981 CTTTTTCCTTTTTT-T-TTCT
1 CTTTTT--TTTTTTCTCTT-T
* *
45111000 CTCTCTTTTTTTTCTCTTC
1 CT-TTTTTTTTTTCTCTTT
*
45111019 CTTTCTTTTTTTCT
1 CTTTTTTTTTTTCT
45111033 GGCCTACCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
18 18 0.43
19 13 0.31
20 10 0.24
21 1 0.02
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTTTTTTTTTTCTCTTT
Found at i:45111000 original size:23 final size:24
Alignment explanation
Indices: 45110965--45111009 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
45110955 ATTGAACCTT
*
45110965 TTTTCTTTTTCTCTTTCTTTTTCC
1 TTTTCTTTTTCTCTCTCTTTTTCC
45110989 TTTT-TTTTTCTCTCTCTTTTT
1 TTTTCTTTTTCTCTCTCTTTTT
45111010 TTTCTCTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTCTTTTTCTCTCTCTTTTTCC
Found at i:45111022 original size:15 final size:14
Alignment explanation
Indices: 45110985--45111029 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 14
45110975 CTCTTTCTTT
45110985 TTCCTTTTTTTTTC
1 TTCCTTTTTTTTTC
45110999 TCTCTCTTTTTTTTCTC
1 T-TC-CTTTTTTTT-TC
45111016 TTCCTTTCTTTTTT
1 TTCCTTT-TTTTTT
45111030 TCTGGCCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
15 7 0.26
16 16 0.59
17 3 0.11
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTCCTTTTTTTTTC
Found at i:45111298 original size:7 final size:7
Alignment explanation
Indices: 45111286--45111352 Score: 64
Period size: 7 Copynumber: 9.0 Consensus size: 7
45111276 AAAAAAATTA
45111286 TTTTCTT
1 TTTTCTT
45111293 TTTTC-T
1 TTTTCTT
45111299 TTTTCTTT
1 TTTTC-TT
45111307 TTTTCTT
1 TTTTCTT
*
45111314 CTTTCTT
1 TTTTCTT
*
45111321 CTTTCTTT
1 TTTTC-TT
45111329 CTTCTTCTTT
1 -TT-TTC-TT
45111339 TTTTCTT
1 TTTTCTT
45111346 TTTTCTT
1 TTTTCTT
45111353 CCTTTCCTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.11
7 27 0.51
8 11 0.21
9 3 0.06
10 6 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:45111310 original size:14 final size:14
Alignment explanation
Indices: 45111286--45111348 Score: 74
Period size: 14 Copynumber: 4.3 Consensus size: 14
45111276 AAAAAAATTA
45111286 TTTTC-TTTTTTCT
1 TTTTCTTTTTTTCT
45111299 TTTTCTTTTTTTCT
1 TTTTCTTTTTTTCT
45111313 TCTTTCTTCTTTCTTTCT
1 T-TTTC-T-TTT-TTTCT
*
45111331 TCTTCTTTTTTTCT
1 TTTTCTTTTTTTCT
45111345 TTTT
1 TTTT
45111349 TCTTCCTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
13 5 0.12
14 17 0.40
15 7 0.16
16 2 0.05
17 6 0.14
18 6 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTTTTCT
Found at i:45111353 original size:18 final size:17
Alignment explanation
Indices: 45111286--45111352 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
45111276 AAAAAAATTA
*
45111286 TTTTCTTTTTTCTTTTT
1 TTTTCTTTCTTCTTTTT
45111303 CTTTT-TTTCTTCTTTCTT
1 -TTTTCTTTCTTCTTT-TT
*
45111321 CTTTCTTTCTTCTTCTTT
1 TTTTCTTTCTTCTT-TTT
*
45111339 TTTTCTTTTTTCTT
1 TTTTCTTTCTTCTT
45111353 CCTTTCCTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 12 0.29
18 29 0.69
19 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTCTTCTTTTT
Found at i:45111357 original size:11 final size:10
Alignment explanation
Indices: 45111288--45111353 Score: 69
Period size: 11 Copynumber: 6.3 Consensus size: 10
45111278 AAAAATTATT
45111288 TTCTTTTTTC
1 TTCTTTTTTC
* *
45111298 TTTTTCTTTTT
1 TTCTT-TTTTC
*
45111309 TTCTTCTTTC
1 TTCTTTTTTC
45111319 TTCTTTCTTTC
1 TTCTTT-TTTC
*
45111330 TTCTTCTTTTT
1 TTCTT-TTTTC
45111341 TTCTTTTTTC
1 TTCTTTTTTC
45111351 TTC
1 TTC
45111354 CTTTCCTTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 19 0.42
11 25 0.56
12 1 0.02
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:45111449 original size:5 final size:5
Alignment explanation
Indices: 45111441--45111493 Score: 67
Period size: 5 Copynumber: 11.2 Consensus size: 5
45111431 TCCTCTCCCC
*
45111441 TCTTT TCTTC T-TTT TCTTT TC-TT TCTTT TCTTT TCTTT TC-TT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
*
45111488 GCTTT T
1 TCTTT T
45111494 TTTATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 11 0.27
5 30 0.73
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:45111457 original size:9 final size:8
Alignment explanation
Indices: 45111443--45111503 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 8
45111433 CTCTCCCCTC
45111443 TTTTCTTCT
1 TTTTCTT-T
45111452 TTTTCTTT
1 TTTTCTTT
45111460 TCTTTCTTT
1 T-TTTCTTT
* *
45111469 TCTT-TTC
1 TTTTCTTT
45111476 TTTTCTTT
1 TTTTCTTT
*
45111484 CTTTGCTTT
1 -TTTTCTTT
*
45111493 TTTTATTT
1 TTTTCTTT
45111501 TTT
1 TTT
45111504 ATTTTTGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
7 5 0.12
8 15 0.36
9 22 0.52
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:45111460 original size:14 final size:13
Alignment explanation
Indices: 45111441--45111501 Score: 77
Period size: 14 Copynumber: 4.5 Consensus size: 13
45111431 TCCTCTCCCC
45111441 TCTTTTCTTCTTTT
1 TCTTTTCTT-TTTT
45111455 TCTTTTCTTTCTTT
1 TCTTTTCTTT-TTT
45111469 TCTTTTCTTTTCTT
1 TCTTTTCTTTT-TT
*
45111483 TCTTTGCTTTTTT
1 TCTTTTCTTTTTT
*
45111496 TATTTT
1 TCTTTT
45111502 TTATTTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 8 0.19
14 34 0.81
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (13 bp):
TCTTTTCTTTTTT
Found at i:45111474 original size:19 final size:19
Alignment explanation
Indices: 45111452--45111493 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
45111442 CTTTTCTTCT
*
45111452 TTTTCTTTTCTTTCTTTTC
1 TTTTCTTTTCTTTCTTTGC
45111471 TTTTCTTTTCTTTCTTTGC
1 TTTTCTTTTCTTTCTTTGC
45111490 TTTT
1 TTTT
45111494 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTCTTTTCTTTCTTTGC
Found at i:45111966 original size:59 final size:60
Alignment explanation
Indices: 45111853--45112006 Score: 188
Period size: 59 Copynumber: 2.6 Consensus size: 60
45111843 TTTTGGGACT
* * *
45111853 AAAATGTAATTTCA-AGAAAGTTTAGGGGTCAAAATATAATTTTGAGAAAGTTTAGGAGTC
1 AAAATGTAATTT-ATAGAAAATTTAGGGGTCAAAATATAATTTTAAGAAAATTTAGGAGTC
** * *
45111913 AAAATGTAATTTATA-AAAATTTAGGGGTTGAAATGTAATTTTAATAAAATTTAGGAGTC
1 AAAATGTAATTTATAGAAAATTTAGGGGTCAAAATATAATTTTAAGAAAATTTAGGAGTC
* *
45111972 AAAATGTAATTT-TAGAAAAGTTTAGAGGTAAAAAT
1 AAAATGTAATTTATAGAAAA-TTTAGGGGTCAAAAT
45112007 GCAGTTTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.02
59 54 0.67
60 25 0.31
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.34
Consensus pattern (60 bp):
AAAATGTAATTTATAGAAAATTTAGGGGTCAAAATATAATTTTAAGAAAATTTAGGAGTC
Found at i:45111984 original size:30 final size:30
Alignment explanation
Indices: 45111853--45111996 Score: 159
Period size: 30 Copynumber: 4.8 Consensus size: 30
45111843 TTTTGGGACT
* * *
45111853 AAAATGTAATTTCAAGAAAGTTTAGGGGTC
1 AAAATGTAATTTTAAGAAAATTTAGGAGTC
* * *
45111883 AAAATATAATTTTGAGAAAGTTTAGGAGTC
1 AAAATGTAATTTTAAGAAAATTTAGGAGTC
* *
45111913 AAAATGTAA-TTTATA-AAAATTTAGGGGTT
1 AAAATGTAATTTTA-AGAAAATTTAGGAGTC
* *
45111942 GAAATGTAATTTTAATAAAATTTAGGAGTC
1 AAAATGTAATTTTAAGAAAATTTAGGAGTC
45111972 AAAATGTAATTTT-AGAAAAGTTTAG
1 AAAATGTAATTTTAAGAAAA-TTTAG
45111997 AGGTAAAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
29 28 0.29
30 68 0.71
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTAAGAAAATTTAGGAGTC
Found at i:45112006 original size:30 final size:29
Alignment explanation
Indices: 45111839--45112007 Score: 155
Period size: 30 Copynumber: 5.7 Consensus size: 29
45111829 AAACTCAGTA
* * *
45111839 AAAGTTTTGGGACTAAAATGTAATTTCAAG
1 AAAGTTTAGGGTC-AAAATGTAATTTTAAG
* *
45111869 AAAGTTTAGGGGTCAAAATATAATTTTGAG
1 AAAGTTTA-GGGTCAAAATGTAATTTTAAG
45111899 AAAGTTTAGGAGTCAAAATGTAATTTATAA-
1 AAAGTTTAGG-GTCAAAATGTAATTT-TAAG
** *
45111929 AAA-TTTAGGGGTTGAAATGTAATTTTAAT
1 AAAGTTTA-GGGTCAAAATGTAATTTTAAG
*
45111958 AAAATTTAGGAGTCAAAATGTAATTTT-AG
1 AAAGTTTAGG-GTCAAAATGTAATTTTAAG
*
45111987 AAAAGTTTAGAGGTAAAAATG
1 -AAAGTTTAG-GGTCAAAATG
45112008 CAGTTTTTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
28 3 0.03
29 25 0.22
30 81 0.70
31 7 0.06
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (29 bp):
AAAGTTTAGGGTCAAAATGTAATTTTAAG
Found at i:45112593 original size:18 final size:19
Alignment explanation
Indices: 45112570--45112607 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
45112560 TTTCAATAGG
*
45112570 TGTCTTTCAAAATA-ATAA
1 TGTCTTTAAAAATATATAA
45112588 TGTCTTTAAAAATATATAA
1 TGTCTTTAAAAATATATAA
45112607 T
1 T
45112608 TATTCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (19 bp):
TGTCTTTAAAAATATATAA
Found at i:45131057 original size:15 final size:17
Alignment explanation
Indices: 45131037--45131076 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
45131027 AACCCTTTAC
45131037 AAATTATAAAAAT-AT-
1 AAATTATAAAAATGATA
*
45131052 AAATTATTAAAATGATA
1 AAATTATAAAAATGATA
45131069 AAATTATA
1 AAATTATA
45131077 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATTATAAAAATGATA
Found at i:45132752 original size:42 final size:42
Alignment explanation
Indices: 45132705--45132788 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
45132695 CAAAAGATTA
* *
45132705 TTTATTTCTAATTAGGATCTTAATAATATAATATTTTATATT
1 TTTATTTCTAATTAGAAGCTTAATAATATAATATTTTATATT
* *
45132747 TTTATTTCTAATTTGAAGCTTATTAATATAATATTTTATATT
1 TTTATTTCTAATTAGAAGCTTAATAATATAATATTTTATATT
45132789 ATTTTAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (42 bp):
TTTATTTCTAATTAGAAGCTTAATAATATAATATTTTATATT
Found at i:45133988 original size:22 final size:22
Alignment explanation
Indices: 45133963--45134004 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45133953 TAATTTTACC
45133963 ATTTAAACTAAA-ATATTATTTA
1 ATTTAAA-TAAATATATTATTTA
*
45133985 ATTTTAATAAATATATTATT
1 ATTTAAATAAATATATTATT
45134005 ATATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTAAATAAATATATTATTTA
Found at i:45138285 original size:19 final size:18
Alignment explanation
Indices: 45138261--45138304 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
45138251 AATATGAATA
45138261 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
45138279 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
45138298 AAATTTA
1 AAATTTA
45138305 AAATGTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:45139900 original size:9 final size:9
Alignment explanation
Indices: 45139883--45139937 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
45139873 TTTTAATCCT
*
45139883 AATTATAAA
1 AATTTTAAA
45139892 AATTTTAAA
1 AATTTTAAA
45139901 AATAATAATTAAA
1 AAT--T--TTAAA
45139914 AATTTTTAAA
1 AA-TTTTAAA
45139924 AATTTTAAA
1 AATTTTAAA
45139933 AATTT
1 AATTT
45139938 AAATTGGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
9 23 0.57
10 7 0.17
11 1 0.03
12 1 0.03
13 7 0.17
14 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTTAAA
Found at i:45139920 original size:23 final size:24
Alignment explanation
Indices: 45139882--45139926 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
45139872 ATTTTAATCC
45139882 TAATTATAAAAATTTTAAAAATAA
1 TAATTATAAAAATTTTAAAAATAA
*
45139906 TAATTA-AAAATTTTTAAAAAT
1 TAATTATAAAAATTTTAAAAAT
45139927 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATTATAAAAATTTTAAAAATAA
Found at i:45140962 original size:40 final size:40
Alignment explanation
Indices: 45140907--45140987 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
45140897 AACAACATAA
*
45140907 CTAGTTATTCTAGTTCTAACACACACTAGTGAAGAAATCT
1 CTAGTGATTCTAGTTCTAACACACACTAGTGAAGAAATCT
45140947 CTAGTGATTCTAGTTCTAACACACACTAGTGAAGAAATCT
1 CTAGTGATTCTAGTTCTAACACACACTAGTGAAGAAATCT
45140987 C
1 C
45140988 ACTCTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (40 bp):
CTAGTGATTCTAGTTCTAACACACACTAGTGAAGAAATCT
Found at i:45141555 original size:10 final size:10
Alignment explanation
Indices: 45141534--45141570 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
45141524 GATAAATATT
45141534 ATATTAATTTA
1 ATATT-ATTTA
45141545 ATATTATTTA
1 ATATTATTTA
45141555 ATATTATTTA
1 ATATTATTTA
45141565 ATATTA
1 ATATTA
45141571 AATTAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 21 0.81
11 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATATTATTTA
Found at i:45141558 original size:21 final size:21
Alignment explanation
Indices: 45141534--45141579 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
45141524 GATAAATATT
*
45141534 ATATTAATTTAATATT-ATTTA
1 ATATT-ATTTAATATTAAATTA
45141555 ATATTATTTAATATTAAATTA
1 ATATTATTTAATATTAAATTA
45141576 ATAT
1 ATAT
45141580 AATATTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATTTAATATTAAATTA
Found at i:45141619 original size:36 final size:35
Alignment explanation
Indices: 45141521--45141621 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 35
45141511 TTAAATTAAT
* *
45141521 CAAGATAAATATTATATTAATTTAATA-TTATTTA
1 CAAGATAAATATTAAATTAATTTAATATTTATCTA
* * *
45141555 -ATATTATTTAATATTAAATTAATATAATATTTATCTA
1 CA-A-GA-TAAATATTAAATTAATTTAATATTTATCTA
45141592 CAAGATAAATATTAAATTAAATTTAATATT
1 CAAGATAAATATTAAATT-AATTTAATATT
45141622 AAGATAATCA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
33 1 0.02
34 1 0.02
35 13 0.25
36 30 0.57
37 7 0.13
38 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (35 bp):
CAAGATAAATATTAAATTAATTTAATATTTATCTA
Found at i:45141649 original size:20 final size:18
Alignment explanation
Indices: 45141599--45141650 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
45141589 CTACAAGATA
45141599 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
45141616 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
45141636 AATATTAAATTAATA
1 AATATTAAATTAATA
45141651 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:45141691 original size:68 final size:71
Alignment explanation
Indices: 45141522--45141691 Score: 210
Period size: 72 Copynumber: 2.4 Consensus size: 71
45141512 TAAATTAATC
* * *
45141522 AAGATAAATATTATATT-AATTTAATATTATTTA-AT-ATTA-TTTAATATTAAATTAATATAAT
1 AAGATAAATATTAAATTAAATTTAATATTA---AGATAATCACTTTAATATTAAATTAATAAAAT
*
45141583 ATTTATCTA
63 ATCTATCTA
45141592 CAAGATAAATATTAAATTAAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATA-
1 -AAGATAAATATTAAATTAAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATAT
45141656 CTAT-T-
65 CTATCTA
*
45141661 AAGATAAGTATTAAATTAAATTTAATATTAA
1 AAGATAAATATTAAATTAAATTTAATATTAA
45141692 AATATTATTA
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
68 30 0.33
69 1 0.01
70 3 0.03
71 22 0.24
72 34 0.38
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (71 bp):
AAGATAAATATTAAATTAAATTTAATATTAAGATAATCACTTTAATATTAAATTAATAAAATATC
TATCTA
Found at i:45143211 original size:182 final size:182
Alignment explanation
Indices: 45142904--45143267 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 182
45142894 CATACGTATA
45142904 GTCAGTGACTAACTCAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAATAAATTTACAA
1 GTCAGTGACTAACTCAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAATAAATTTACAA
45142969 ACATGTTCAGAATTAATTCATCTTGAGTCCAGTCTAATGTATCATTCTACCAATGAATACATCTA
66 ACATGTTCAGAATTAATTCATCTTGAGTCCAGTCTAATGTATCATTCTACCAATGAATACATCTA
45143034 TGTCTCTACCTATGGAGTCAATTACTCCGATAGCTAAGATTAGTTATCTCCC
131 TGTCTCTACCTATGGAGTCAATTACTCCGATAGCTAAGATTAGTTATCTCCC
45143086 GTCAGTGACTAACTCAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAATAAATTTACAA
1 GTCAGTGACTAACTCAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAATAAATTTACAA
45143151 ACATGTTCAGAATTAATTCATCTTGAGTCCAGTCTAATGTATCATTCTACCAATGAATACATCTA
66 ACATGTTCAGAATTAATTCATCTTGAGTCCAGTCTAATGTATCATTCTACCAATGAATACATCTA
45143216 TGTCTCTACCTATGGAGTCAATTACTCCGATAGCTAAGATTAGTTATCTCCC
131 TGTCTCTACCTATGGAGTCAATTACTCCGATAGCTAAGATTAGTTATCTCCC
45143268 TAATTAGAAT
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 182 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (182 bp):
GTCAGTGACTAACTCAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAATAAATTTACAA
ACATGTTCAGAATTAATTCATCTTGAGTCCAGTCTAATGTATCATTCTACCAATGAATACATCTA
TGTCTCTACCTATGGAGTCAATTACTCCGATAGCTAAGATTAGTTATCTCCC
Found at i:45146373 original size:42 final size:44
Alignment explanation
Indices: 45146326--45146414 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 44
45146316 CTAAGCAAAA
*
45146326 AATAAATAAGATGTCTAGTGTTGAAC-T-TAACCAAAACTTGCC
1 AATAAATAAAATGTCTAGTGTTGAACTTATAACCAAAACTTGCC
* *
45146368 AATAAATAAAATGTCTAGTGTTGGACTTACTAACTAAAACTTGCC
1 AATAAATAAAATGTCTAGTGTTGAACTTA-TAACCAAAACTTGCC
45146413 AA
1 AA
45146415 CAATCATTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
42 24 0.59
43 1 0.02
45 16 0.39
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (44 bp):
AATAAATAAAATGTCTAGTGTTGAACTTATAACCAAAACTTGCC
Found at i:45148582 original size:13 final size:13
Alignment explanation
Indices: 45148564--45148588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45148554 GAATTTACTT
45148564 GTGTGAAAATTTC
1 GTGTGAAAATTTC
45148577 GTGTGAAAATTT
1 GTGTGAAAATTT
45148589 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:45152029 original size:27 final size:27
Alignment explanation
Indices: 45151999--45152056 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
45151989 CGGACTTTTA
*
45151999 CACGAACACATATATTACGGAATGTCC
1 CACGAACACATATATTACGAAATGTCC
* *
45152026 CACGAACACCTATATTGCGAAATGTCC
1 CACGAACACATATATTACGAAATGTCC
45152053 CACG
1 CACG
45152057 GATATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (27 bp):
CACGAACACATATATTACGAAATGTCC
Found at i:45155686 original size:7 final size:8
Alignment explanation
Indices: 45155670--45155695 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
45155660 TTGGTCCTGA
45155670 TTTTATTT
1 TTTTATTT
45155678 TTTTATTT
1 TTTTATTT
45155686 TTTTATTT
1 TTTTATTT
45155694 TT
1 TT
45155696 CTAAATTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Done.