Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 102 of 106
Found at i:21721249 original size:45 final size:47
Alignment explanation
Indices: 21721165--21721260 Score: 137
Period size: 45 Copynumber: 2.1 Consensus size: 47
21721155 GTTAATAATA
*
21721165 AAAATAAAATATAATCAATTTAGTTTTTTTAAATT-AAA-ATATTAT
1 AAAATAAAATATAATCAATTTAGATTTTTTAAATTAAAATATATTAT
21721210 AAAATAAAATATAAT-ACATTTA-ATTTTTTAAATTAAAAATATATTAT
1 AAAATAAAATATAATCA-ATTTAGATTTTTTAAATT-AAAATATATTAT
21721257 AAAA
1 AAAA
21721261 AATAAAATGC
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
44 12 0.26
45 20 0.43
46 3 0.07
47 11 0.24
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (47 bp):
AAAATAAAATATAATCAATTTAGATTTTTTAAATTAAAATATATTAT
Found at i:21721274 original size:44 final size:44
Alignment explanation
Indices: 21721165--21721275 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
21721155 GTTAATAATA
* *
21721165 AAAATAAAATATAAT-CAATTTAGTTTTTTTAAATTAAAATATTAT
1 AAAATAAAATAAAATAC-ATTTA-ATTTTTTAAATTAAAATATTAT
*
21721210 AAAATAAAATATAATACATTTAATTTTTTAAATTAAAA-ATATATT
1 AAAATAAAATAAAATACATTTAATTTTTTAAATTAAAATAT-TA-T
* *
21721255 ATAA-AAAATAAAATGCATTTA
1 AAAATAAAATAAAATACATTTA
21721276 TTATATGTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.03
44 32 0.54
45 24 0.41
46 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (44 bp):
AAAATAAAATAAAATACATTTAATTTTTTAAATTAAAATATTAT
Found at i:21721838 original size:77 final size:75
Alignment explanation
Indices: 21721642--21721865 Score: 263
Period size: 77 Copynumber: 2.9 Consensus size: 75
21721632 ATTTGAGTTA
* ** * *
21721642 AATTGATTTGATTTTGACTAAATTAATTGTATTTATATTTAATAGCTTAAATTTCTCTCTCAATT
1 AATTAATTTGATTTTG-CTAAATTAATTACATTTATTTTTAATAGATTAAA--TCTCTCTCAATT
21721707 AATTTTAATTCTT
63 AATTTTAATTCTT
* ** *
21721720 AATTAATATGATTCTAACCAAATTAATTACATTTA-TTTTAATAGATTAAATCTCTCTCAATTAA
1 AATTAATTTGATT-TTGCTAAATTAATTACATTTATTTTTAATAGATTAAATCTCTCTCAATTAA
21721784 TTTTAATTCTT
65 TTTTAATTCTT
* * *
21721795 AATTTAATTTGATTTTGCTTAAATTAATAACATTTATTTTTAATA-ACTTATATCTCTCTTAATT
1 AA-TTAATTTGATTTTGC-TAAATTAATTACATTTATTTTTAATAGA-TTAAATCTCTCTCAATT
21721859 AATTTTA
63 AATTTTA
21721866 TTTACTATTT
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
75 29 0.23
76 26 0.21
77 43 0.34
78 26 0.21
79 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (75 bp):
AATTAATTTGATTTTGCTAAATTAATTACATTTATTTTTAATAGATTAAATCTCTCTCAATTAAT
TTTAATTCTT
Found at i:21722967 original size:22 final size:24
Alignment explanation
Indices: 21722932--21722975 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
21722922 TAAATTATTT
21722932 TTTAATTTGTATATAAA-TAAACC
1 TTTAATTTGTATATAAACTAAACC
*
21722955 TTTATTTTG-ATATAAACTAAA
1 TTTAATTTGTATATAAACTAAA
21722976 AGTTAAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (24 bp):
TTTAATTTGTATATAAACTAAACC
Found at i:21723752 original size:14 final size:14
Alignment explanation
Indices: 21723695--21723754 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
21723685 TTGCAAGTTG
* *
21723695 AAAAAATTTGATCT
1 AAAAAATATGATTT
21723709 AAAAAA-ATGTATTT
1 AAAAAATATG-ATTT
*
21723723 -AAAAATAT-A-AT
1 AAAAAATATGATTT
21723734 AAAAAATATGATTT
1 AAAAAATATGATTT
21723748 AAAAAAT
1 AAAAAAT
21723755 TTAAATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
11 1 0.03
12 9 0.24
13 8 0.22
14 19 0.51
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
AAAAAATATGATTT
Found at i:21724581 original size:16 final size:16
Alignment explanation
Indices: 21724562--21724594 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21724552 TTTTTGGAAA
*
21724562 AAAATTATTTATGAAT
1 AAAATTATTTATCAAT
21724578 AAAATTATTTATCAAT
1 AAAATTATTTATCAAT
21724594 A
1 A
21724595 TTTTTTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAATTATTTATCAAT
Found at i:21724721 original size:19 final size:18
Alignment explanation
Indices: 21724697--21724742 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
21724687 AAATTTTAAG
21724697 TATTTTTATATTAATATAA
1 TATTTTTATATTAA-ATAA
* *
21724716 TATTTTAATATTAAATAT
1 TATTTTTATATTAAATAA
*
21724734 TATTATTAT
1 TATTTTTAT
21724743 TATATAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTTATATTAAATAA
Found at i:21724823 original size:25 final size:24
Alignment explanation
Indices: 21724758--21724828 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
21724748 AGTTATTTTT
* *
21724758 TAATATTAATAATTTTAATAATAAA
1 TAATGTTAAT-ATTTTAATAAAAAA
**
21724783 TAATGACAATATTTTTAATAAAAAA
1 TAATGTTAATA-TTTTAATAAAAAA
*
21724808 TAATTTTTAATATTTTAATAA
1 TAA-TGTTAATATTTTAATAA
21724829 TTATATTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 1 0.03
25 31 0.84
26 5 0.14
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (24 bp):
TAATGTTAATATTTTAATAAAAAA
Found at i:21728118 original size:24 final size:24
Alignment explanation
Indices: 21728086--21728136 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
21728076 TCATACTACT
21728086 TCTCATCCAACTTTGTGGATGAGA
1 TCTCATCCAACTTTGTGGATGAGA
*
21728110 TCTCGTCCAACTTTGTGGATGAGA
1 TCTCATCCAACTTTGTGGATGAGA
21728134 TCT
1 TCT
21728137 GGGTTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (24 bp):
TCTCATCCAACTTTGTGGATGAGA
Found at i:21734643 original size:13 final size:13
Alignment explanation
Indices: 21734625--21734660 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21734615 TTTGATTTGG
21734625 ATTAAATTTAGAT
1 ATTAAATTTAGAT
* *
21734638 ATTAAATATATAT
1 ATTAAATTTAGAT
21734651 ATTAAATTTA
1 ATTAAATTTA
21734661 AAATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTAAATTTAGAT
Found at i:21734668 original size:18 final size:19
Alignment explanation
Indices: 21734639--21734674 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21734629 AATTTAGATA
21734639 TTAAATATATATATTAAAT
1 TTAAATATATATATTAAAT
*
21734658 TTAAA-ATATATTTTAAA
1 TTAAATATATATATTAAA
21734675 AATATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATATATATATTAAAT
Found at i:21734777 original size:17 final size:19
Alignment explanation
Indices: 21734747--21734786 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21734737 TTTTTATAAA
21734747 ATAAAAATAATTATTTT-AT
1 ATAAAAAT-ATTATTTTAAT
21734766 ATAAAAAT-TTATTTTAAT
1 ATAAAAATATTATTTTAAT
21734784 ATA
1 ATA
21734787 TTAAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAAAAATATTATTTTAAT
Found at i:21734810 original size:21 final size:21
Alignment explanation
Indices: 21734763--21734815 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
21734753 ATAATTATTT
**
21734763 TATA-TAAAAATTTATTTTAA
1 TATATTAAAAATTTATTAAAA
21734783 TATATTAAAAATCTTATTAAAA
1 TATATTAAAAAT-TTATTAAAA
21734805 TA-ATTATAAAA
1 TATATTA-AAAA
21734816 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.14
21 11 0.39
22 13 0.46
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATTAAAAATTTATTAAAA
Found at i:21734909 original size:33 final size:33
Alignment explanation
Indices: 21734872--21734938 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
21734862 TAAAATTTGA
* *
21734872 TTAAAATCAAATCGATTTTAAAAAAATATTAAT
1 TTAAAATCAAATCGATTTAAAAAAAATATCAAT
* * * *
21734905 TTAAATTTAGATGGATTTAAAAAAAATATCAAT
1 TTAAAATCAAATCGATTTAAAAAAAATATCAAT
21734938 T
1 T
21734939 CACATTTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.37
Consensus pattern (33 bp):
TTAAAATCAAATCGATTTAAAAAAAATATCAAT
Found at i:21734961 original size:33 final size:33
Alignment explanation
Indices: 21734882--21734967 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
21734872 TTAAAATCAA
* * *
21734882 ATCGATTTTAAAAAAATATTAATTTAAATTTAG
1 ATCGATTTAAAAAAAATATCAATTCAAATTTAG
* * *
21734915 ATGGATTTAAAAAAAATATCAATTCACATTTGG
1 ATCGATTTAAAAAAAATATCAATTCAAATTTAG
* *
21734948 ATCTATTTCAAAAAAATATC
1 ATCGATTTAAAAAAAATATC
21734968 GATTTATATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (33 bp):
ATCGATTTAAAAAAAATATCAATTCAAATTTAG
Found at i:21738582 original size:15 final size:15
Alignment explanation
Indices: 21738558--21738598 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
21738548 TCGAGTCTTC
*
21738558 AACAACAATAACAAT
1 AACAATAATAACAAT
21738573 AACAATAATAACAAT
1 AACAATAATAACAAT
*
21738588 AATAATAATAA
1 AACAATAATAA
21738599 ACAACAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (15 bp):
AACAATAATAACAAT
Found at i:21741907 original size:27 final size:27
Alignment explanation
Indices: 21741848--21741900 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21741838 TTTTCATTTG
* *
21741848 AAAAATAAGCTCCCCTTGAATTTATGA
1 AAAAATAAGCTCCCCTTAAATTTAAGA
21741875 AAAAATAAGCTCTCCC-TAAATTTAAG
1 AAAAATAAGCTC-CCCTTAAATTTAAG
21741901 CATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAAATAAGCTCCCCTTAAATTTAAGA
Found at i:21742193 original size:15 final size:15
Alignment explanation
Indices: 21742175--21742204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21742165 AATAAGATAT
*
21742175 CAATTTCACAAGCCA
1 CAATGTCACAAGCCA
21742190 CAATGTCACAAGCCA
1 CAATGTCACAAGCCA
21742205 TATCATAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (15 bp):
CAATGTCACAAGCCA
Found at i:21760808 original size:71 final size:71
Alignment explanation
Indices: 21760692--21760842 Score: 275
Period size: 71 Copynumber: 2.1 Consensus size: 71
21760682 AGAAGTTGAT
21760692 AGCAGGATCATTGAGTAAAAAGAATTCAAACCACACCTAGAGTGAATTTTTCATCATTTACTGTG
1 AGCAGGATCATTGAGTAAAAAGAATTCAAACCACACCTAGAGTGAATTTTTCATCATTTACTGTG
21760757 CACAAC
66 CACAAC
* *
21760763 AGCAGGATCATTGAGTAGAAAGAATTCAAACCACACCTAGAGTGAATTTTTCATCATTTACTTTG
1 AGCAGGATCATTGAGTAAAAAGAATTCAAACCACACCTAGAGTGAATTTTTCATCATTTACTGTG
21760828 CACAAC
66 CACAAC
*
21760834 AGCATGATC
1 AGCAGGATC
21760843 CAGGTAATGG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (71 bp):
AGCAGGATCATTGAGTAAAAAGAATTCAAACCACACCTAGAGTGAATTTTTCATCATTTACTGTG
CACAAC
Found at i:21764839 original size:76 final size:75
Alignment explanation
Indices: 21764707--21764885 Score: 202
Period size: 77 Copynumber: 2.4 Consensus size: 75
21764697 ATTGTTACTT
* * * *
21764707 ATTAGGAAATGATCT-AGGATAAAATCACTAAGCGCATGCACAGAAACACACAAAACGAAAGAGA
1 ATTAGGAAATGATCTAAGAAAAAAATCACTAAGCGCATGCACACAAACACACAAAACGAAACAG-
21764771 AAAAGAGAAGTA
65 AAAAGAG-AGTA
* * * * *
21764783 ATTGGGAAATGATCTAAGAAAAAAATCACTAAGTGGATGCTA-ACTAACACA-AAAACGAGACAG
1 ATTAGGAAATGATCTAAGAAAAAAATCACTAAGCGCATGC-ACACAAACACACAAAACGAAACAG
21764846 AAAAGAGAGTA
65 AAAAGAGAGTA
* *
21764857 ATTAGAAAATGATCAAAGAAAAATAATCA
1 ATTAGGAAATGATCTAAGAAAAA-AATCA
21764886 AGTGCGTACT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
74 24 0.27
75 12 0.14
76 24 0.27
77 27 0.31
78 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.16
Consensus pattern (75 bp):
ATTAGGAAATGATCTAAGAAAAAAATCACTAAGCGCATGCACACAAACACACAAAACGAAACAGA
AAAGAGAGTA
Found at i:21765267 original size:6 final size:6
Alignment explanation
Indices: 21765256--21765280 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21765246 CCTTTCATGA
21765256 GTTGCT GTTGCT GTTGCT GTTGCT G
1 GTTGCT GTTGCT GTTGCT GTTGCT G
21765281 CAACATCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTGCT
Found at i:21773480 original size:29 final size:29
Alignment explanation
Indices: 21773424--21773489 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
21773414 ATAAAATGAA
* * *
21773424 ATTTTTAATATGATATTCAAATTTTAAAT
1 ATTTTTAATATGATATTAAAAATATAAAT
21773453 ATTTTTAATATGAT-TTAAGAAATATAAAT
1 ATTTTTAATATGATATTAA-AAATATAAAT
*
21773482 -TTATTAAT
1 ATTTTTAAT
21773490 TAATATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (29 bp):
ATTTTTAATATGATATTAAAAATATAAAT
Found at i:21773620 original size:29 final size:29
Alignment explanation
Indices: 21773585--21773660 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
21773575 AAATTAATAA
*
21773585 TTCAAATATCATATTAAAAATTTTTAAAC
1 TTCAAATATCACATTAAAAATTTTTAAAC
*
21773614 TTCAAATATCACATTAAAAATTTTTAAAT
1 TTCAAATATCACATTAAAAATTTTTAAAC
* *
21773643 TTCAAACACCACATTAAA
1 TTCAAATATCACATTAAA
21773661 CATTAACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (29 bp):
TTCAAATATCACATTAAAAATTTTTAAAC
Found at i:21777635 original size:18 final size:19
Alignment explanation
Indices: 21777589--21777635 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
21777579 ACTACATTTC
21777589 TAATATAAAAAATGTCATCTT
1 TAAT-TAAAAAATGTCA-CTT
* *
21777610 TAACTAAACAATGTCA-TT
1 TAATTAAAAAATGTCACTT
21777628 TAATTAAA
1 TAATTAAA
21777636 TAAAATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.39
20 11 0.48
21 3 0.13
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (19 bp):
TAATTAAAAAATGTCACTT
Found at i:21778204 original size:137 final size:137
Alignment explanation
Indices: 21777958--21778232 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 137
21777948 CACCCTTTAC
* *
21777958 TAGGAATTCACACTTTCCTAAAGGTCGTTTTCCCTTTTGAAATCTAAAATTTCGTTAATCAAATG
1 TAGGAATTCACACTTTCCTAAAGGTCGTTTTCCCTTTTGAAATCTAAAATTTCGTTAACCAAATA
*
21778023 CCCCTTTAGTGATTTTCCGTAAAGGTAATTTTGGATCATCAAACATAATCGGATCATTGTTTTAA
66 CCCCTTTAGTGATTTTACGTAAAGGTAATTTTGGATCATCAAACATAATCGGATCATTGTTTTAA
21778088 AGATTAA
131 AGATTAA
*
21778095 TAGGAATTCACACTTTCCTAAAGGTCGTTTTTCCTTTTGAAATCTAAAATTTCGTTAACCAAATA
1 TAGGAATTCACACTTTCCTAAAGGTCGTTTTCCCTTTTGAAATCTAAAATTTCGTTAACCAAATA
21778160 CCCCTTTAGTGATTTTACGTAAAGGTAATTTTGGATCATCAAACATAATCGGATCATTGTTTTAA
66 CCCCTTTAGTGATTTTACGTAAAGGTAATTTTGGATCATCAAACATAATCGGATCATTGTTTTAA
21778225 AGATTAA
131 AGATTAA
21778232 T
1 T
21778233 CTAATTTTCA
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (137 bp):
TAGGAATTCACACTTTCCTAAAGGTCGTTTTCCCTTTTGAAATCTAAAATTTCGTTAACCAAATA
CCCCTTTAGTGATTTTACGTAAAGGTAATTTTGGATCATCAAACATAATCGGATCATTGTTTTAA
AGATTAA
Found at i:21783632 original size:24 final size:24
Alignment explanation
Indices: 21783600--21783645 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
21783590 TTTAAGAAAA
*
21783600 TAAACTGCTCCTCTAAATAGAGAC
1 TAAACTGCTCATCTAAATAGAGAC
*
21783624 TAAATTGCTCATCTAAATAGAG
1 TAAACTGCTCATCTAAATAGAG
21783646 GCAACAGAAC
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:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (24 bp):
TAAACTGCTCATCTAAATAGAGAC
Found at i:21783672 original size:43 final size:42
Alignment explanation
Indices: 21783624--21783798 Score: 242
Period size: 42 Copynumber: 4.1 Consensus size: 42
21783614 AAATAGAGAC
21783624 TAAATTGCTCATCTAAATAGAGGCAACAGAACTTTGGAAAAAA
1 TAAATTGCTCATCTAAATAGAGGCAACAGAACTTTGG-AAAAA
* * *
21783667 TAAATTACTCATCTAAATAGAGGCAACAGAATTTTAGAAAAA
1 TAAATTGCTCATCTAAATAGAGGCAACAGAACTTTGGAAAAA
* * * *
21783709 TAAATTGCTTATCTAAATAAAAGCAATAGAACTTTGGAAAAA
1 TAAATTGCTCATCTAAATAGAGGCAACAGAACTTTGGAAAAA
* * * *
21783751 TAAATTGCTCCTCTAAATAGAGGTAACAAAACTTTGAAAAAA
1 TAAATTGCTCATCTAAATAGAGGCAACAGAACTTTGGAAAAA
21783793 TAAATT
1 TAAATT
21783799 ACTCCTCGAC
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
42 80 0.70
43 34 0.30
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (42 bp):
TAAATTGCTCATCTAAATAGAGGCAACAGAACTTTGGAAAAA
Found at i:21796105 original size:25 final size:25
Alignment explanation
Indices: 21796073--21796124 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
21796063 TTTTCACCTA
21796073 GAAATTTTATAGAAATTT-ATCATTT
1 GAAATTTT-TAGAAATTTCATCATTT
*
21796098 GAAATTTTTATAAATTTCATCATTT
1 GAAATTTTTAGAAATTTCATCATTT
21796123 GA
1 GA
21796125 TGATTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (25 bp):
GAAATTTTTAGAAATTTCATCATTT
Found at i:21798218 original size:18 final size:18
Alignment explanation
Indices: 21798195--21798231 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21798185 AAATTATTTT
21798195 ACCGGTATACTTAACAAA
1 ACCGGTATACTTAACAAA
21798213 ACCGGTATACTTAACAAA
1 ACCGGTATACTTAACAAA
21798231 A
1 A
21798232 ATAAAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ACCGGTATACTTAACAAA
Found at i:21814074 original size:22 final size:22
Alignment explanation
Indices: 21814048--21814091 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
21814038 TGTATATTTA
*
21814048 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
21814070 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
21814092 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:21818314 original size:24 final size:24
Alignment explanation
Indices: 21818282--21818331 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
21818272 AATATGCATT
21818282 CAGTTTTAT-TCTTAGTTTTTCACA
1 CAGTTTTATATCTTAGTTTTTC-CA
21818306 CAGTTTTATATCTTAGTTTTTCCA
1 CAGTTTTATATCTTAGTTTTTCCA
21818330 CA
1 CA
21818332 ATTACATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.52
Consensus pattern (24 bp):
CAGTTTTATATCTTAGTTTTTCCA
Found at i:21819366 original size:77 final size:78
Alignment explanation
Indices: 21819239--21819394 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 78
21819229 TTGTACATAC
21819239 TTAACAACCAAACAAAAGCATATCCGTGTGTGTGTGGCATTAAATTGCTATTATCCTC-TAACTA
1 TTAACAACCAAACAAAAGCATATCCGTGTGTGTGTGGCATTAAATTGCTATTATCCTCTTAACTA
21819303 AATCAATATTGAA
66 AATCAATATTGAA
21819316 TTAACAACCAAACAAAAGCATATCCGTGTGTGTGTGGCATTAAATTGCTATTATCCTCTTAACTA
1 TTAACAACCAAACAAAAGCATATCCGTGTGTGTGTGGCATTAAATTGCTATTATCCTCTTAACTA
21819381 AATCAATATTGAA
66 AATCAATATTGAA
21819394 T
1 T
21819395 GACATAAAAT
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 58 0.74
78 20 0.26
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (78 bp):
TTAACAACCAAACAAAAGCATATCCGTGTGTGTGTGGCATTAAATTGCTATTATCCTCTTAACTA
AATCAATATTGAA
Found at i:21819554 original size:22 final size:21
Alignment explanation
Indices: 21819513--21819554 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21819503 AAGATGAAAA
*
21819513 GAGTGTCCTGGGAAAATTTTG
1 GAGTGTCCAGGGAAAATTTTG
*
21819534 GAGTGTCCAGTGGAAATTTTT
1 GAGTGTCCAG-GGAAAATTTT
21819555 CTTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (21 bp):
GAGTGTCCAGGGAAAATTTTG
Found at i:21824577 original size:13 final size:13
Alignment explanation
Indices: 21824539--21824838 Score: 114
Period size: 13 Copynumber: 23.8 Consensus size: 13
21824529 AATTTTACTT
21824539 ATAAATAATATTA
1 ATAAATAATATTA
21824552 TATTATAAT-ATATTA
1 -A-TA-AATAATATTA
21824567 ATAAATAATATTA
1 ATAAATAATATTA
*
21824580 TATGAAT-A-ATTA
1 -ATAAATAATATTA
*
21824592 AT--ATACTATTA
1 ATAAATAATATTA
**
21824603 ATATAAT-ATATCC
1 ATA-AATAATATTA
21824616 ATAAATAATTATTA
1 ATAAATAA-TATTA
*
21824630 TTATAA-AATATT-
1 ATA-AATAATATTA
21824642 AT-AATAACGTATTAA
1 ATAAATAA--TATT-A
21824657 TATAAATAA-A-TA
1 -ATAAATAATATTA
* *
21824669 ATATTATTATATTA
1 ATA-AATAATATTA
21824683 ATAAAT-A-A-TA
1 ATAAATAATATTA
21824693 ATAAATAATA-TA
1 ATAAATAATATTA
21824705 ATAAAT-ATATTA
1 ATAAATAATATTA
*
21824717 AT---TTA-ATTA
1 ATAAATAATATTA
*
21824726 ATAAATATTA-TA
1 ATAAATAATATTA
21824738 AT-AAT-ATATTA
1 ATAAATAATATTA
*
21824749 AGAAAATAATATACTA
1 A-TAAATAATAT--TA
*
21824765 TTAATATAATATCTTA
1 ATAA-ATAATA--TTA
*
21824781 ATAAATATTATTA
1 ATAAATAATATTA
21824794 ATAAATAATATT-
1 ATAAATAATATTA
*
21824806 AT--ATTATATTA
1 ATAAATAATATTA
* *
21824817 AGAAATAATATAA
1 ATAAATAATATTA
21824830 AT-AATAATA
1 ATAAATAATA
21824839 AATATTTTAT
Statistics
Matches: 218, Mismatches: 26, Indels: 86
0.66 0.08 0.26
Matches are distributed among these distances:
9 9 0.04
10 20 0.09
11 25 0.11
12 43 0.20
13 54 0.25
14 26 0.12
15 17 0.08
16 18 0.08
17 5 0.02
18 1 0.00
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (13 bp):
ATAAATAATATTA
Found at i:21824605 original size:18 final size:18
Alignment explanation
Indices: 21824562--21824626 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
21824552 TATTATAATA
*
21824562 TATTAATAAATAATATTA-
1 TATTAATAATTAATA-TAC
*
21824580 TATGAATAATTAATATAC
1 TATTAATAATTAATATAC
21824598 TATTAAT-A-TAATATATC
1 TATTAATAATTAATATA-C
* *
21824615 CATAAATAATTA
1 TATTAATAATTA
21824627 TTATTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.18
17 9 0.24
18 20 0.53
19 2 0.05
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (18 bp):
TATTAATAATTAATATAC
Found at i:21824647 original size:53 final size:50
Alignment explanation
Indices: 21824537--21824685 Score: 132
Period size: 49 Copynumber: 3.0 Consensus size: 50
21824527 ATAATTTTAC
* * *
21824537 TTATAA-ATAATATTATATTATAATATATTAATAAATAATATTATATGAATA
1 TTATAATATACTATTA-A-TATAATATATCAATAAATAATATTATATAAATA
* *
21824588 AT-TAATATACTATTAATATAATATATCCATAAATAATTATTATTATAAAATA
1 TTATAATATACTATTAATATAATATATCAATAAATAA-TATTA-TAT-AAATA
* *
21824640 TTATAATA-ACGTATTAATATAA-ATA--AAT-AATATTATTATATTAATA
1 TTATAATATAC-TATTAATATAATATATCAATAAATAATATTATATAAATA
21824686 AATAATAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
46 4 0.05
47 3 0.04
48 5 0.06
49 22 0.27
50 11 0.13
51 12 0.14
52 10 0.12
53 16 0.19
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (50 bp):
TTATAATATACTATTAATATAATATATCAATAAATAATATTATATAAATA
Found at i:21824669 original size:21 final size:20
Alignment explanation
Indices: 21824601--21824741 Score: 67
Period size: 21 Copynumber: 6.8 Consensus size: 20
21824591 AATATACTAT
* **
21824601 TAATATAATATATCCATAAA
1 TAATATTATATATAAATAAA
*
21824621 TAATTATTATTATAAAATATTATAA
1 TAA-TATTA-TATATAA-A-TA-AA
21824646 TAACGTATTA-ATATAAATAAA
1 TAA--TATTATATATAAATAAA
*
21824667 TAATATTATTATATTAATAAA
1 TAATATTA-TATATAAATAAA
* *
21824688 TAATAATAAATAATATAATAAA
1 TAATATTATAT-ATA-AATAAA
* *
21824710 T-ATATTA-AT-TTAATTAA
1 TAATATTATATATAAATAAA
21824727 TAAATATTATA-ATAA
1 T-AATATTATATATAA
21824742 TATATTAAGA
Statistics
Matches: 93, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
17 6 0.06
18 1 0.01
19 11 0.12
20 10 0.11
21 33 0.35
22 13 0.14
23 2 0.02
24 7 0.08
25 5 0.05
26 5 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (20 bp):
TAATATTATATATAAATAAA
Found at i:21824767 original size:32 final size:31
Alignment explanation
Indices: 21824635--21824811 Score: 114
Period size: 32 Copynumber: 5.7 Consensus size: 31
21824625 TATTATTATA
**
21824635 AAATATTATAATAACGTATTAATATAAATAA-
1 AAATATTATAATAATATATTAATA-AAATAAT
* * *
21824666 ATAATATTATTAT-AT-TAATAA-ATAATAAT
1 A-AATATTATAATAATATATTAATAAAATAAT
* * *
21824695 AAATAATATAATAAATATATTAATTTAATTAAT
1 AAATATTATAAT-AATATATTAA-TAAAATAAT
*
21824728 AAATATTATAATAATATATTAAGAAAATAAT
1 AAATATTATAATAATATATTAATAAAATAAT
* * *
21824759 ATACTATTA-ATATAATATCTTAATAAATATTAT
1 A-AATATTATA-ATAATATATTAATAAA-ATAAT
* * *
21824792 TAATA-AATAATATTATATTA
1 AAATATTATAATAATATATTA
21824812 TATTAAGAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
28 14 0.12
29 2 0.02
30 7 0.06
31 25 0.22
32 44 0.39
33 20 0.18
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (31 bp):
AAATATTATAATAATATATTAATAAAATAAT
Found at i:21824838 original size:68 final size:64
Alignment explanation
Indices: 21824661--21824853 Score: 189
Period size: 68 Copynumber: 3.0 Consensus size: 64
21824651 TATTAATATA
*
21824661 AATAAATAATA-T-TATTATATTAATAAATAATAATAAATAAT-ATAATAAATATATTAATTTAA
1 AATAAATAATATTATATTATATTAAGAAATAAT-ATAAATAATAAT-AT-AATATATTAATTTAA
21824723 TT
63 TT
* * * * * *
21824725 AATAAATATTATAATAATATATTAAGAAAATAATAT-ACTATTAATATAATATCTTAATAAATAT
1 AATAAATAATATTATATTATATTAAG-AAATAATATAAATAATAATATAATATATTAAT---T-T
*
21824789 TATT
61 AATT
* *
21824793 AATAAATAATATTATATTATATTAAGAAATAATATAAATAATAATA-AATATTTTATTTTAA
1 AATAAATAATATTATATTATATTAAGAAATAATATAAATAATAATATAATATATTAATTTAA
21824854 GTATTTTTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 19
0.75 0.12 0.14
Matches are distributed among these distances:
63 2 0.02
64 21 0.20
65 6 0.06
66 14 0.13
67 26 0.25
68 35 0.34
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (64 bp):
AATAAATAATATTATATTATATTAAGAAATAATATAAATAATAATATAATATATTAATTTAATT
Found at i:21824854 original size:36 final size:36
Alignment explanation
Indices: 21824654--21824849 Score: 122
Period size: 36 Copynumber: 5.8 Consensus size: 36
21824644 AATAACGTAT
*
21824654 TAATATAAATAAATAAT-AT-TATTATATTAATAAA
1 TAATATAAATAAATAATAATATATTATATTAAGAAA
*
21824688 TAATAATAAATAATATAATAAATATATTA-ATT---TAA
1 TAAT-ATAAATAA-ATAAT-AATATATTATATTAAGAAA
* *
21824723 TTA-ATAAAT--ATTATAATA-A-TATATTAAGAAAA
1 TAATATAAATAAATAATAATATATTATATTAAG-AAA
* * * *
21824755 TAATAT-ACT--AT--TAATATAATATCTTAATAAA
1 TAATATAAATAAATAATAATATATTATATTAAGAAA
* * *
21824786 TATTATTAATAAATAATATTATATTATATTAAGAAA
1 TAATATAAATAAATAATAATATATTATATTAAGAAA
*
21824822 TAATATAAAT-AATAATAA-ATATTTTATT
1 TAATATAAATAAATAATAATATATTATATT
21824850 TTAAGTATTT
Statistics
Matches: 126, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
27 2 0.02
28 4 0.03
29 4 0.03
30 9 0.07
31 9 0.07
32 17 0.13
33 8 0.06
34 15 0.12
35 19 0.15
36 29 0.23
38 5 0.04
39 5 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (36 bp):
TAATATAAATAAATAATAATATATTATATTAAGAAA
Found at i:21824893 original size:15 final size:14
Alignment explanation
Indices: 21824872--21824929 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 14
21824862 TATATTAACA
21824872 TAATATTTTAATAT
1 TAATATTTTAATAT
*
21824886 TAAATATTATTAAAAAT
1 T-AATATT-TT-AATAT
*
21824903 TATTATTTTTAATAT
1 TAATA-TTTTAATAT
21824918 TAATAATTTTAA
1 TAAT-ATTTTAA
21824930 AATAATTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.03
15 19 0.54
16 8 0.23
17 7 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATATTTTAATAT
Found at i:21824896 original size:18 final size:17
Alignment explanation
Indices: 21824841--21824896 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
21824831 TAATAATAAA
* *
21824841 TATTTTATTTTAAGTAT
1 TATTTTATATTAAATAT
*
21824858 T-TTTTATATTAACATAA
1 TATTTTATATTAA-ATAT
21824875 TATTTTAATATTAAATAT
1 TATTTT-ATATTAAATAT
21824893 TATT
1 TATT
21824897 AAAAATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 10 0.31
17 4 0.12
18 11 0.34
19 7 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTTATATTAAATAT
Found at i:21825540 original size:30 final size:30
Alignment explanation
Indices: 21825506--21825562 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
21825496 TGATTTATAT
* *
21825506 TAAGTGTTTATTTAGATACAAATTAAAAGC
1 TAAGTGATGATTTAGATACAAATTAAAAGC
**
21825536 TAAGTGATGATTTAGATGTAAATTAAA
1 TAAGTGATGATTTAGATACAAATTAAA
21825563 GATTAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.37
Consensus pattern (30 bp):
TAAGTGATGATTTAGATACAAATTAAAAGC
Found at i:21827125 original size:15 final size:15
Alignment explanation
Indices: 21827102--21827138 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21827092 GATTTGATTA
*
21827102 ATTTTAAATTAAATT
1 ATTTAAAATTAAATT
21827117 ATTTAAAATTAAATT
1 ATTTAAAATTAAATT
*
21827132 AATTAAA
1 ATTTAAA
21827139 TTATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAAAATTAAATT
Found at i:21828054 original size:20 final size:20
Alignment explanation
Indices: 21828026--21828095 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
21828016 ATAGCATTTT
*
21828026 ATTTGTAATTTTTATTACAA
1 ATTTTTAATTTTTATTACAA
** *
21828046 ATTTTTAA-TTAAAATA-AA
1 ATTTTTAATTTTTATTACAA
*
21828064 TTTTATGTAATTTTTATTACAA
1 ATTT-T-TAATTTTTATTACAA
*
21828086 TTTTTTAATT
1 ATTTTTAATT
21828096 AAAATATAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 5 0.13
19 6 0.16
20 15 0.39
21 6 0.16
22 6 0.16
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTTTTAATTTTTATTACAA
Found at i:21828075 original size:40 final size:41
Alignment explanation
Indices: 21828029--21828113 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 41
21828019 GCATTTTATT
21828029 TGTAATTTTTATTACAAATTTTTAATTAAAATA-AATTTTA
1 TGTAATTTTTATTACAAATTTTTAATTAAAATATAATTTTA
*
21828069 TGTAATTTTTATTACAATTTTTTAATTAAAATATAATTTTA
1 TGTAATTTTTATTACAAATTTTTAATTAAAATATAATTTTA
21828110 TGTA
1 TGTA
21828114 GAAATTTATC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 32 0.74
41 11 0.26
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (41 bp):
TGTAATTTTTATTACAAATTTTTAATTAAAATATAATTTTA
Found at i:21828607 original size:18 final size:18
Alignment explanation
Indices: 21828586--21828620 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21828576 TTTTTTTTGC
21828586 TTTTTATTTACATTTTAT
1 TTTTTATTTACATTTTAT
* *
21828604 TTTTTTTTTAGATTTTA
1 TTTTTATTTACATTTTA
21828621 AAATTCTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTATTTACATTTTAT
Found at i:21828783 original size:14 final size:13
Alignment explanation
Indices: 21828760--21828816 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
21828750 AAGTCATTTG
21828760 TTTTTTTTTTCTA
1 TTTTTTTTTTCTA
*
21828773 TTTTTTATTTTTTA
1 TTTTTT-TTTTCTA
**
21828787 TTTACTTTTTCT-
1 TTTTTTTTTTCTA
21828799 TTCTTTTTTTTCT-
1 TT-TTTTTTTTCTA
21828812 TTTTT
1 TTTTT
21828817 AATATTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
12 5 0.14
13 21 0.58
14 10 0.28
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTA
Found at i:21832569 original size:15 final size:15
Alignment explanation
Indices: 21832522--21832569 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
21832512 TAATTGAATG
21832522 AAAATAAATATTAAA
1 AAAATAAATATTAAA
* *
21832537 AAAATTAAT-TGAATA
1 AAAATAAATATTAA-A
21832552 AAAATAAATATTTAAA
1 AAAATAAATA-TTAAA
21832568 AA
1 AA
21832570 TTTAATTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 3 0.12
15 17 0.65
16 3 0.12
17 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAATAAATATTAAA
Found at i:21832591 original size:30 final size:30
Alignment explanation
Indices: 21832491--21832602 Score: 111
Period size: 30 Copynumber: 3.8 Consensus size: 30
21832481 AATAAATATG
* ***
21832491 AAAAATAAATATTCAAGTGTTTAATTGAAT
1 AAAAATAAATATTTAAAAATTTAATTGAAT
* * *
21832521 GAAAATAAATATTAAAAAAATTAATTGAAT
1 AAAAATAAATATTTAAAAATTTAATTGAAT
*
21832551 AAAAATAAATATTTAAAAATTTAATTG-GT
1 AAAAATAAATATTTAAAAATTTAATTGAAT
* *
21832580 AATAATAAA-ATAATAAAAATTTA
1 AAAAATAAATAT-TTAAAAATTTA
21832603 TATAATTATT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.03
29 19 0.28
30 48 0.70
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (30 bp):
AAAAATAAATATTTAAAAATTTAATTGAAT
Found at i:21832866 original size:21 final size:22
Alignment explanation
Indices: 21832836--21832876 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21832826 TAAAAATATA
*
21832836 TATTTTTAA-TTTTATTAAACT
1 TATTTATAATTTTTATTAAACT
21832857 TATTTATAATTTTTATTAAA
1 TATTTATAATTTTTATTAAA
21832877 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTATAATTTTTATTAAACT
Found at i:21838668 original size:67 final size:69
Alignment explanation
Indices: 21838560--21838697 Score: 253
Period size: 67 Copynumber: 2.0 Consensus size: 69
21838550 GGGTCTGTGA
*
21838560 TTCTTTTAGCAACTAAACAGTAAATAATAAGATTATAGTATTTGAA-CGAAAAAATTGTATTTTT
1 TTCTTTTAGCAACTAAACAGTAAATAATAAGATTATAGTATTTGAACCAAAAAAATTGTATTTTT
21838624 -TTG
66 GTTG
21838627 TTCTTTTAGCAACTAAACAGTAAATAATAAGATTATAGTATTTGAACCAAAAAAATTGTATTTTT
1 TTCTTTTAGCAACTAAACAGTAAATAATAAGATTATAGTATTTGAACCAAAAAAATTGTATTTTT
21838692 GTTG
66 GTTG
21838696 TT
1 TT
21838698 GTACTTTTAG
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 46 0.68
68 17 0.25
69 5 0.07
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (69 bp):
TTCTTTTAGCAACTAAACAGTAAATAATAAGATTATAGTATTTGAACCAAAAAAATTGTATTTTT
GTTG
Found at i:21840990 original size:2 final size:2
Alignment explanation
Indices: 21840983--21841009 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21840973 ACAAGTTGGT
21840983 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
21841010 TGGGGTGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21842009 original size:18 final size:18
Alignment explanation
Indices: 21841986--21842031 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
21841976 CCCTTTTCAC
21841986 AGAGATCGGGATTATGAA
1 AGAGATCGGGATTATGAA
* * *
21842004 AGAGATAGAGATTATGAT
1 AGAGATCGGGATTATGAA
*
21842022 AGAGAACGGG
1 AGAGATCGGG
21842032 GACGTGGCCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (18 bp):
AGAGATCGGGATTATGAA
Found at i:21842953 original size:30 final size:31
Alignment explanation
Indices: 21842917--21842982 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
21842907 TTGGACGCCA
*
21842917 TGTGTGTTCCACTTTGAAATAGCTACACCT-
1 TGTGTGTTCCACTCTGAAATAGCTACACCTC
* *
21842947 TGTGTGTTTCACTCTGAAATAGCTACAGCTC
1 TGTGTGTTCCACTCTGAAATAGCTACACCTC
21842978 TGTGT
1 TGTGT
21842983 TGAACAACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (31 bp):
TGTGTGTTCCACTCTGAAATAGCTACACCTC
Found at i:21849037 original size:1 final size:1
Alignment explanation
Indices: 21848995--21849023 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
21848985 TTAGTCATGC
21848995 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21849024 CTTGCCAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21855000 original size:42 final size:42
Alignment explanation
Indices: 21854918--21855001 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
21854908 ATTTGATAAT
** *
21854918 TATTTGTTTAACATTAGATTATATAAGTCTTGAAGTGAAACA
1 TATTTGTTTAACATTAGATTATATAAGTCACGAAGCGAAACA
* *
21854960 TATTTGTTTAATATTATATTATATAAGTCACGAAGCGAAACA
1 TATTTGTTTAACATTAGATTATATAAGTCACGAAGCGAAACA
21855002 CGGATCTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (42 bp):
TATTTGTTTAACATTAGATTATATAAGTCACGAAGCGAAACA
Found at i:21855547 original size:88 final size:88
Alignment explanation
Indices: 21855395--21855660 Score: 478
Period size: 88 Copynumber: 3.0 Consensus size: 88
21855385 AACACAACCA
21855395 AGCACATACCTCATACCTATGTGGACCCTTTCAGTCTCTTCTAGTCCACTCACAAGCAAAGATAC
1 AGCACATACCTCATACCTATGTGGACCCTTTCAGTCTCTTCTAGTCCACTCACAAGCAAAGATAC
21855460 ACACCCATAAGACATAAAGCCCC
66 ACACCCATAAGACATAAAGCCCC
* * *
21855483 AGCACATACCTCATACTTATGTGGACCCTCTCAGTCTCTTCTAGTCCACTCACAAGCAAGGATAC
1 AGCACATACCTCATACCTATGTGGACCCTTTCAGTCTCTTCTAGTCCACTCACAAGCAAAGATAC
*
21855548 ACACCCATAAGACTTAAAGCCCC
66 ACACCCATAAGACATAAAGCCCC
*
21855571 GGCACATACCTCATACCTATGTGGACCCTTTCAGTCTCTTCTAGTCCACTCACAAGCAAAGATAC
1 AGCACATACCTCATACCTATGTGGACCCTTTCAGTCTCTTCTAGTCCACTCACAAGCAAAGATAC
*
21855636 ACACCCATAAGACGTAAAGCCCC
66 ACACCCATAAGACATAAAGCCCC
21855659 AG
1 AG
21855661 TACTCCTATG
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 168 1.00
ACGTcount: A:0.32, C:0.34, G:0.13, T:0.22
Consensus pattern (88 bp):
AGCACATACCTCATACCTATGTGGACCCTTTCAGTCTCTTCTAGTCCACTCACAAGCAAAGATAC
ACACCCATAAGACATAAAGCCCC
Found at i:21856024 original size:25 final size:25
Alignment explanation
Indices: 21855985--21856043 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
21855975 CTTAAGCCAT
*
21855985 GCTCTTCTCACATCTTGAACCTTCA
1 GCTCTTCTCACATCTCGAACCTTCA
* *
21856010 GCTCTTTTCATATCTCGAACCTTCA
1 GCTCTTCTCACATCTCGAACCTTCA
*
21856035 ACTCTTCTC
1 GCTCTTCTC
21856044 TTATGAGGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.36, G:0.07, T:0.39
Consensus pattern (25 bp):
GCTCTTCTCACATCTCGAACCTTCA
Found at i:21860637 original size:12 final size:12
Alignment explanation
Indices: 21860620--21860644 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21860610 TAGGTATACA
21860620 TAATATCATCGT
1 TAATATCATCGT
21860632 TAATATCATCGT
1 TAATATCATCGT
21860644 T
1 T
21860645 TAATGATTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TAATATCATCGT
Found at i:21865181 original size:2 final size:2
Alignment explanation
Indices: 21865174--21865231 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
21865164 TCTTAAAATA
21865174 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21865216 AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
21865232 TAAGGTGAGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21866062 original size:32 final size:33
Alignment explanation
Indices: 21866021--21866113 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 33
21866011 GACTTGTAAA
* * *
21866021 AAAAAAATTCTAAGAAG-AGATGGATTCTTAAT
1 AAAAGAATTCTAAGAAGAAAATAGATTCTTAAT
* *
21866053 AAAAGAATTCAAAG-AGAAAATAGATTCTTGAT
1 AAAAGAATTCTAAGAAGAAAATAGATTCTTAAT
** *
21866085 AGGAGAATTCTAAG-AGAAAAAAGATTCTT
1 AAAAGAATTCTAAGAAGAAAATAGATTCTT
21866114 GATAGGCAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 2 0.04
32 49 0.96
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (33 bp):
AAAAGAATTCTAAGAAGAAAATAGATTCTTAAT
Found at i:21866114 original size:32 final size:32
Alignment explanation
Indices: 21866056--21866119 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
21866046 TCTTAATAAA
*
21866056 AGAATTCAAAGAGAAAATAGATTCTTGATAGG
1 AGAATTCAAAGAGAAAAAAGATTCTTGATAGG
*
21866088 AGAATTCTAAGAGAAAAAAGATTCTTGATAGG
1 AGAATTCAAAGAGAAAAAAGATTCTTGATAGG
21866120 CAAGTTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (32 bp):
AGAATTCAAAGAGAAAAAAGATTCTTGATAGG
Found at i:21873368 original size:23 final size:22
Alignment explanation
Indices: 21873333--21873384 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
21873323 ATCTTTTTCA
* * *
21873333 TCTTTTTTCTTTTTTTTTGTTG
1 TCTTTTTCCTTTTCTTTTCTTG
*
21873355 TCTTTTTCCTTTTTCTTTTCTTT
1 TCTTTTTCC-TTTTCTTTTCTTG
21873378 TCTTTTT
1 TCTTTTT
21873385 TGCATGAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (22 bp):
TCTTTTTCCTTTTCTTTTCTTG
Found at i:21879411 original size:29 final size:29
Alignment explanation
Indices: 21879378--21879435 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
21879368 ATTTTGTGTG
*
21879378 TTGTATTTTAATCTAGCATGACTAACATA
1 TTGTATTTTAATCTAGCATCACTAACATA
*
21879407 TTGTATTTTAATTTAGCATCACTAACATA
1 TTGTATTTTAATCTAGCATCACTAACATA
21879436 AGTATTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (29 bp):
TTGTATTTTAATCTAGCATCACTAACATA
Found at i:21881139 original size:63 final size:62
Alignment explanation
Indices: 21881072--21881190 Score: 150
Period size: 63 Copynumber: 1.9 Consensus size: 62
21881062 TTAATTTATT
* * *
21881072 TATAAAATAATCGTTTAAGGCATTTT-TGTACATAAAATGCCTTAAATAATCTTTTTATATGCA
1 TATAAAATAATCATTTAAAGCATTTTCTATACA-AAAATGCCTTAAATAAT-TTTTTATATGCA
* * **
21881135 TATAAAATGATTATTTAAAGTGTTTTCTATACAAAAATGCCTTAAATAATTTTTTA
1 TATAAAATAATCATTTAAAGCATTTTCTATACAAAAATGCCTTAAATAATTTTTTA
21881191 ATTTTTTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 6 0.12
63 37 0.77
64 5 0.10
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (62 bp):
TATAAAATAATCATTTAAAGCATTTTCTATACAAAAATGCCTTAAATAATTTTTTATATGCA
Found at i:21882979 original size:363 final size:365
Alignment explanation
Indices: 21882306--21883022 Score: 1014
Period size: 363 Copynumber: 2.0 Consensus size: 365
21882296 GTGATGTCTT
* ** * *
21882306 AAAAATCTCTAGGTGAGAAATTTTTTTAAAATACTACCAGTGTATTGGGTTATTTACAAAAGTTT
1 AAAAATCTCTAGGTGAGAAATTGTTTTAAAATACTACCAGCATATTGGGGTATTTACAAAAATTT
* * * *
21882371 TTTAATACGATAAATTTTTCTTTTTTTCAAAACAATAATAATATTAATGATTAAAAAAATCCAAT
66 TTCAATACAATAAAATTTCCTTTTTTTCAAAACAATAATAATATTAATGATTAAAAAAATCCAAT
*
21882436 AAAATTTTCAAGGAATAAAATGTGTGCATCAACATATTGTCATTCATATTACATGCATATTTTTA
131 AAAATTTTCAAGAAATAAAATGTGTGCATCAACATATTGTCATTCATATTACATGCATATTTTTA
* * * *
21882501 CGAAAAATAAATCCGAGCTTCTGAGGATGAGATTTTAAAGTATTTCGAGAAGCAATGCCTAAGAA
196 CGAAAAATAAATCCGAGCGTCTGAAGATGAGATTCTAAAGTATTTCAAGAAGCAATGCCTAAGAA
* * * * * * *
21882566 ATTTTTAAGTGAGAAATAGTTCTTTTAATGTTACAAAAGTACTAGAACATTTTAAGAATTATTTT
261 ATCTCTAAGTAAGAAAGAGTTCTTCTAATGTTACAAAAGTACTAGAACATTTCAAGAATTATTTC
*
21882631 AAT-AAGAGGGTTAT-AATTT-TTTTTCTTGAATAACTCGA
326 AATAAAAAGGGTT-TCAATTTATTTTTCTTGAATAACTCGA
* *
21882669 AAAAATCTTTAGGTGAGAAGTTGTTTTAAAATACTACCAGCATATTGGGGTATTTACAAAAATTT
1 AAAAATCTCTAGGTGAGAAATTGTTTTAAAATACTACCAGCATATTGGGGTATTTACAAAAATTT
*
21882734 TTCAATATAATAAAATTTCCTTTTTCTTCAAAACAATAATAATATTAATGATTAAAAAAA-CCAA
66 TTCAATACAATAAAATTTCCTTTTT-TTCAAAACAATAATAATATTAATGATTAAAAAAATCCAA
** * *
21882798 TAAAATTTTCAAGAAATAAAATGTGTGTGTCAACATATTGTCATTCATATTGCATGGATATTTTT
130 TAAAATTTTCAAGAAATAAAATGTGTGCATCAACATATTGTCATTCATATTACATGCATATTTTT
* * *
21882863 ATGAAAAATAAATTCGAGCGTCTGAAGATGAGATTCTAAGGTA-TTCTAAGAAGCAATGCCTAAG
195 ACGAAAAATAAATCCGAGCGTCTGAAGATGAGATTCTAAAGTATTTC-AAGAAGCAATGCCTAAG
* * * ** *
21882927 AAATCTCTAGGTAAGAAAGATTTCTTCTAATGTTACCATTGTAC-AGGAACATTTCAAGGATTAT
259 AAATCTCTAAGTAAGAAAGAGTTCTTCTAATGTTACAAAAGTACTA-GAACATTTCAAGAATTAT
21882991 TTCAATAAAAAGGGTTTCAATTTATTTTTCTT
323 TTCAATAAAAAGGGTTTCAATTTATTTTTCTT
21883023 AAATTAAACG
Statistics
Matches: 310, Mismatches: 38, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
362 4 0.01
363 251 0.81
364 47 0.15
365 8 0.03
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (365 bp):
AAAAATCTCTAGGTGAGAAATTGTTTTAAAATACTACCAGCATATTGGGGTATTTACAAAAATTT
TTCAATACAATAAAATTTCCTTTTTTTCAAAACAATAATAATATTAATGATTAAAAAAATCCAAT
AAAATTTTCAAGAAATAAAATGTGTGCATCAACATATTGTCATTCATATTACATGCATATTTTTA
CGAAAAATAAATCCGAGCGTCTGAAGATGAGATTCTAAAGTATTTCAAGAAGCAATGCCTAAGAA
ATCTCTAAGTAAGAAAGAGTTCTTCTAATGTTACAAAAGTACTAGAACATTTCAAGAATTATTTC
AATAAAAAGGGTTTCAATTTATTTTTCTTGAATAACTCGA
Found at i:21885498 original size:47 final size:49
Alignment explanation
Indices: 21885404--21885501 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 49
21885394 TTTTTGATGA
** *
21885404 TTTATTTAAAGAAAAATTGATACTTTCAACTTTTTTTTCAGAAATATTT
1 TTTATTTAAAGAAAAATTGATACTTTCAACTTTCCTTTCAAAAATATTT
*
21885453 TTTATTT-AAGGAAAATTGATA-TTTCAACTTTCCTTT-AAAACATATTT
1 TTTATTTAAAGAAAAATTGATACTTTCAACTTTCCTTTCAAAA-ATATTT
21885500 TT
1 TT
21885502 GGAAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 3 0.07
47 21 0.48
48 13 0.30
49 7 0.16
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (49 bp):
TTTATTTAAAGAAAAATTGATACTTTCAACTTTCCTTTCAAAAATATTT
Found at i:21885509 original size:59 final size:59
Alignment explanation
Indices: 21885444--21885619 Score: 239
Period size: 60 Copynumber: 3.0 Consensus size: 59
21885434 TTTTTTTTCA
*
21885444 GAAATATTTTTTATTTAAGGAAAATTGATATTTCAA-CTTTCCTTTAAAACATATTTTTG
1 GAAATATTTTTTATTTAAGGAAAATTGATATTTCAATTTTTCCTTTAAAACAT-TTTTTG
* * ** *
21885503 GAAATATTTTTTAGTTAAGAAAAATTGATATTTCAATTTTTCCTCCAAAAACATTTTTTT
1 GAAATATTTTTTATTTAAGGAAAATTGATATTTCAATTTTTCCT-TTAAAACATTTTTTG
* * *
21885563 GAAATATTTTTTATTTAATGAAAATTGATACTTCAATTTTTCC-TTAAAATATTTTTT
1 GAAATATTTTTTATTTAAGGAAAATTGATATTTCAATTTTTCCTTTAAAACATTTTTT
21885620 TAAGAAAAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 11 0.11
59 34 0.33
60 50 0.49
61 7 0.07
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (59 bp):
GAAATATTTTTTATTTAAGGAAAATTGATATTTCAATTTTTCCTTTAAAACATTTTTTG
Found at i:21885709 original size:55 final size:55
Alignment explanation
Indices: 21885609--21885714 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 55
21885599 TTTTTCCTTA
* * * * * *
21885609 AAATATTTTTTTAAGAAAAATTTATGCTTCAACTTTTCCTTAAAACATTTTATTG
1 AAATATTTTTTTAAGAAAAATTGATACTTAAACATTTCATAAAAACATTTTATTG
21885664 AAATA-TTTTTTAAGAAAAATTGATACTTAAACATTTCATCAAAAACATTTT
1 AAATATTTTTTTAAGAAAAATTGATACTTAAACATTTCAT-AAAAACATTTT
21885715 CTAAATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 29 0.66
55 15 0.34
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (55 bp):
AAATATTTTTTTAAGAAAAATTGATACTTAAACATTTCATAAAAACATTTTATTG
Found at i:21885727 original size:54 final size:55
Alignment explanation
Indices: 21885609--21885728 Score: 129
Period size: 54 Copynumber: 2.2 Consensus size: 55
21885599 TTTTTCCTTA
* * * * * * * *
21885609 AAATATTTTTTTAAGAAAAATTTATGCTTCAACTTTTCCTTAAAACATTTTATTG
1 AAATTTTTTTTTAAGAAAAATTGATACTTAAACATTTCATAAAAACATTTTACTG
*
21885664 AAA-TATTTTTTAAGAAAAATTGATACTTAAACATTTCATCAAAAACATTTT-CT-
1 AAATTTTTTTTTAAGAAAAATTGATACTTAAACATTTCAT-AAAAACATTTTACTG
21885717 AAATTTTTTTTT
1 AAATTTTTTTTT
21885729 TATTTTTAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
53 3 0.06
54 37 0.70
55 13 0.25
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (55 bp):
AAATTTTTTTTTAAGAAAAATTGATACTTAAACATTTCATAAAAACATTTTACTG
Found at i:21885761 original size:31 final size:31
Alignment explanation
Indices: 21885726--21885819 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 31
21885716 TAAATTTTTT
21885726 TTTTATTTTTAAGAAAAATTAATACTTCAAC
1 TTTTATTTTTAAGAAAAATTAATACTTCAAC
* * * ** *
21885757 TTTTA---CTAA-AAAAAATAGTTTTTGAGAC
1 TTTTATTTTTAAGAAAAATTAATACTTCA-AC
*
21885785 TTTTATTTTTAAGAAAAATTAATACTTTAAC
1 TTTTATTTTTAAGAAAAATTAATACTTCAAC
21885816 TTTT
1 TTTT
21885820 TCTCTAAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
27 11 0.24
28 10 0.22
31 14 0.30
32 11 0.24
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTTATTTTTAAGAAAAATTAATACTTCAAC
Found at i:21885769 original size:61 final size:56
Alignment explanation
Indices: 21885670--21885865 Score: 169
Period size: 61 Copynumber: 3.3 Consensus size: 56
21885660 ATTGAAATAT
* * * * *
21885670 TTTTTAAGAAAAATTGATACTTAAACATTTCATCAAAAACATTTTCTAAATTTTTTTTTTA
1 TTTTTAAGAAAAATTAATACTTAAACTTTTC-TAAAAAAAATTTTTTAAA----TTTTTTA
* * *
21885731 TTTTTAAGAAAAATTAATACTTCAACTTTTACTAAAAAAAATAGTTTTTGAGA-CTTTTA
1 TTTTTAAGAAAAATTAATACTTAAACTTTT-CTAAAAAAAAT--TTTTT-AAATTTTTTA
* * *
21885790 TTTTTAAGAAAAATTAATACTTTAACTTTTTCTCTAAAAATATTTTTTTAAAATTTTTTA
1 TTTTTAAGAAAAATTAATACTTAAAC--TTT-TCTAAAAAAAATTTTTT-AAATTTTTTA
21885850 TTTTTAAGAAAAATTA
1 TTTTTAAGAAAAATTA
21885866 GTATTCCAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
59 37 0.33
60 21 0.19
61 47 0.42
62 2 0.02
63 4 0.04
64 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (56 bp):
TTTTTAAGAAAAATTAATACTTAAACTTTTCTAAAAAAAATTTTTTAAATTTTTTA
Found at i:21885858 original size:60 final size:60
Alignment explanation
Indices: 21885724--21885865 Score: 189
Period size: 59 Copynumber: 2.4 Consensus size: 60
21885714 TCTAAATTTT
* *
21885724 TTTTTTATTTTTAAGAAAAATTAATACTTCAACTTTTACTAAAAAAAATAGTTTTTGAGA
1 TTTTTTATTTTTAAGAAAAATTAATACTTCAACTTTTACTAAAAAAAATAGTTTTTAAAA
* * * ** *
21885784 -CTTTTATTTTTAAGAAAAATTAATACTTTAACTTTTTCT-CTAAAAATATTTTTTTAAAA
1 TTTTTTATTTTTAAGAAAAATTAATACTTCAACTTTTACTAAAAAAAATA-GTTTTTAAAA
21885843 TTTTTTATTTTTAAGAAAAATTA
1 TTTTTTATTTTTAAGAAAAATTA
21885866 GTATTCCAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
58 7 0.10
59 43 0.61
60 21 0.30
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (60 bp):
TTTTTTATTTTTAAGAAAAATTAATACTTCAACTTTTACTAAAAAAAATAGTTTTTAAAA
Found at i:21887366 original size:29 final size:29
Alignment explanation
Indices: 21887345--21887414 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
21887335 TATGGAAAAG
*
21887345 AATAAAATAAAAATAAATATATGCAGATA
1 AATAAAATAAAAATAAATATATGCAGAAA
* *
21887374 AATACAATAAAAATAAA-ACAT-CA-AAA
1 AATAAAATAAAAATAAATATATGCAGAAA
21887400 ATATAAAAATAAAAA
1 A-AT-AAAATAAAAA
21887415 AATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.09
27 4 0.11
28 12 0.34
29 16 0.46
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (29 bp):
AATAAAATAAAAATAAATATATGCAGAAA
Found at i:21887413 original size:14 final size:13
Alignment explanation
Indices: 21887310--21887414 Score: 50
Period size: 14 Copynumber: 7.6 Consensus size: 13
21887300 GATAAACCAC
21887310 AATAAAAATAAAA
1 AATAAAAATAAAA
* *
21887323 AATTAAAGT-AAA
1 AATAAAAATAAAA
* * *
21887335 TATGGAAAAGAATAA
1 AAT-AAAAATAA-AA
21887350 AATAAAAATAAATA
1 AATAAAAATAAA-A
* ** *
21887364 TATGCAGATAAATA
1 AATAAAAATAAA-A
21887378 CAATAAAAATAAAA
1 -AATAAAAATAAAA
*
21887392 CATCAAAAATATAAA
1 AAT-AAAAATA-AAA
21887407 AATAAAAA
1 AATAAAAA
21887415 AATTTTGATT
Statistics
Matches: 66, Mismatches: 19, Indels: 13
0.67 0.19 0.13
Matches are distributed among these distances:
12 5 0.08
13 13 0.20
14 31 0.47
15 17 0.26
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:21887719 original size:5 final size:4
Alignment explanation
Indices: 21887687--21887732 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
21887677 AAAGATATGG
21887687 TTTA TTTA TTTA TTTA -TTA TGTTA -TTA TGTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA TTTA TTT
21887733 CTTTCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
3 9 0.24
4 21 0.57
5 7 0.19
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:21888325 original size:20 final size:19
Alignment explanation
Indices: 21888281--21888330 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
21888271 TTGGGTTCCT
*
21888281 AGAGAGAGAAAAAAAGAAA
1 AGAGGGAGAAAAAAAGAAA
*
21888300 AGAGGG-GAAAAAGAGAGAA
1 AGAGGGAGAAAAAAAGA-AA
21888319 AGAAGGGAGAAA
1 AG-AGGGAGAAA
21888331 TCTGAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 9 0.35
19 9 0.35
20 4 0.15
21 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AGAGGGAGAAAAAAAGAAA
Found at i:21888885 original size:13 final size:12
Alignment explanation
Indices: 21888853--21888910 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 12
21888843 GTTTTCAAAC
21888853 AAAAAAATAAAA
1 AAAAAAATAAAA
21888865 ATAAAAAATAAAA
1 A-AAAAAATAAAA
*
21888878 AACCAAAAACCAAAA
1 AA--AAAAA-TAAAA
21888893 CCAAAAAAATAAAA
1 --AAAAAAATAAAA
21888907 AAAA
1 AAAA
21888911 TAAAATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
12 6 0.16
13 12 0.32
14 9 0.24
15 9 0.24
17 2 0.05
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:21899667 original size:9 final size:9
Alignment explanation
Indices: 21899653--21899721 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
21899643 ACTATGCTTG
21899653 AAAAAGAAA
1 AAAAAGAAA
21899662 AAAAAGAAA
1 AAAAAGAAA
*
21899671 AAAATG--A
1 AAAAAGAAA
*
21899678 AAAAAGAGA
1 AAAAAGAAA
* *
21899687 AAAATGATA
1 AAAAAGAAA
*
21899696 AAAATGATAA
1 AAAAAGA-AA
*
21899706 AAAAATAAA
1 AAAAAGAAA
21899715 AAAAAGA
1 AAAAAGA
21899722 GATGACTCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
7 6 0.12
9 37 0.76
10 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.09
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:21899680 original size:16 final size:16
Alignment explanation
Indices: 21899661--21899709 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
21899651 TGAAAAAGAA
21899661 AAAAAAGAAAAAAATG
1 AAAAAAGAAAAAAATG
*
21899677 AAAAAAGAGAAAAATG
1 AAAAAAGAAAAAAATG
21899693 ATAAAAATGATAAAAAA
1 A-AAAAA-GA-AAAAAA
21899710 ATAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 16 0.57
17 5 0.18
18 2 0.07
19 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAAAAGAAAAAAATG
Found at i:21900854 original size:89 final size:89
Alignment explanation
Indices: 21900698--21901028 Score: 418
Period size: 89 Copynumber: 3.7 Consensus size: 89
21900688 GACTCCTTTG
* * * * *
21900698 ATTATAGGAGCTTTGTTTATTTTTCAAAAGTAGTTGAGTCTCTATTTAGAGGAGCTTGGTTTATT
1 ATTAGAGGAGCTTTATTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATT
* *
21900763 TTTTCTAAAGTCGTTGAGCCTCTG
66 TTTTCTAAAGTTGTTGAGCCTCTA
* * **
21900787 TTTAGAGGAGCTTTACTTATTTTTTTAAAGTCGTTGAGCCTCTCA-TTAGAGGAGCTTTGTTTAT
1 ATTAGAGGAGCTTTATTTATTTTTCAAAAGTCGTTGAGCCTCT-ATTTAGAGGAGCTTTGTTTAT
*
21900851 TTTTTTTGAAAGTTGTTGAGCCTCTA
65 TTTTTCT-AAAGTTGTTGAGCCTCTA
* *
21900877 ATTAGATGAGCTTTATTT-TTTTT-ACACAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTAT
1 ATTAGAGGAGCTTTATTTATTTTTCA-AAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTAT
* * *
21900940 TTTTTC-AAAGTTGCTGAGCTTTTA
65 TTTTTCTAAAGTTGTTGAGCCTCTA
* * * *
21900964 ATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGATCTTTATTTATT
1 ATTAGAGGAGCTTTATTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATT
21901029 CTCCAAAAAT
Statistics
Matches: 209, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
87 31 0.15
88 41 0.20
89 105 0.50
90 32 0.15
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (89 bp):
ATTAGAGGAGCTTTATTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATT
TTTTCTAAAGTTGTTGAGCCTCTA
Found at i:21900941 original size:133 final size:135
Alignment explanation
Indices: 21900698--21901028 Score: 395
Period size: 133 Copynumber: 2.5 Consensus size: 135
21900688 GACTCCTTTG
* * * *
21900698 ATTATAGGAGCTTTGTTTA--TTTTTCAAAAGTAGTTGAGTCTCTATTTAGAGGAGCTTGGTTTA
1 ATTAGAGGAGCTTTGTTTATTTTTTTCAAAAGTAGTTGAGCCTCTAATTAGAGGAGCTTGATTTA
* * * *
21900761 TTTTTTCTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTACTTATTTTTTTAAAGTCGTTGAGC
66 TTTTTACTAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTACTTATTTTTTCAAAGTCGCTGAGC
*
21900826 CTCTC
131 CTCTA
** * * *
21900831 ATTAGAGGAGCTTTGTTTATTTTTTTTGAAAGTTGTTGAGCCTCTAATTAGATGAGCTTTATTT-
1 ATTAGAGGAGCTTTGTTTATTTTTTTCAAAAGTAGTTGAGCCTCTAATTAGAGGAGCTTGATTTA
* ** *
21900895 TTTTTAC-ACAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTTTCAAAGTTGCTGAGC
66 TTTTTACTAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTACTTATTTTTTCAAAGTCGCTGAGC
* *
21900959 TTTTA
131 CTCTA
* ** * *
21900964 ATTAGAGGAGCTTTGTTTA--TTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGATCTTTATTTA
1 ATTAGAGGAGCTTTGTTTATTTTTTTCAAAAGTAGTTGAGCCTCTAATTAGAGGAGCTTGATTTA
21901027 TT
66 TT
21901029 CTCCAAAAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
131 36 0.21
132 2 0.01
133 89 0.53
134 6 0.04
135 35 0.21
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (135 bp):
ATTAGAGGAGCTTTGTTTATTTTTTTCAAAAGTAGTTGAGCCTCTAATTAGAGGAGCTTGATTTA
TTTTTACTAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTACTTATTTTTTCAAAGTCGCTGAGC
CTCTA
Found at i:21901036 original size:44 final size:44
Alignment explanation
Indices: 21900703--21901028 Score: 354
Period size: 44 Copynumber: 7.4 Consensus size: 44
21900693 CTTTGATTAT
* *
21900703 AGGAGCTTTGTTTATTTTTCAAAAGTAGTTGAGTCTCTATTTAG
1 AGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAG
* * *
21900747 AGGAGCTTGGTTTATTTTTTCTAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCTTTGTTTA-TTTTTCAAAAGTCGTTGAGCCTCTATTTAG
** **
21900792 AGGAGCTTTACTTATTTTTTTAAAGTCGTTGAGCCTCTCA-TTAG
1 AGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCT-ATTTAG
** * *
21900836 AGGAGCTTTGTTTATTTTTTTTGAAAGTTGTTGAGCCTCTAATTAG
1 AGGAGCTTTGTTTA--TTTTTCAAAAGTCGTTGAGCCTCTATTTAG
* * *
21900882 ATGAGCTTTATTT-TTTTT-ACACAGTCGTTGAGCCTCTATTTAG
1 AGGAGCTTTGTTTATTTTTCA-AAAGTCGTTGAGCCTCTATTTAG
* * * * *
21900925 AGGAGCTTTGTTTATTTTTTC-AAAGTTGCTGAGCTTTTAATTAG
1 AGGAGCTTTGTTTA-TTTTTCAAAAGTCGTTGAGCCTCTATTTAG
*
21900969 AGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAG
* *
21901013 AGGATCTTTATTTATT
1 AGGAGCTTTGTTTATT
21901029 CTCCAAAAAT
Statistics
Matches: 236, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
43 42 0.18
44 114 0.48
45 43 0.18
46 37 0.16
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.46
Consensus pattern (44 bp):
AGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAGCCTCTATTTAG
Found at i:21901316 original size:11 final size:11
Alignment explanation
Indices: 21901272--21901318 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
21901262 AATTAATTAA
*
21901272 TTATTTATTTA
1 TTATTTATTTT
*
21901283 TTATGTTATTAT
1 TTAT-TTATTTT
21901295 TTATTTATTTT
1 TTATTTATTTT
*
21901306 TTCTTTATTTT
1 TTATTTATTTT
21901317 TT
1 TT
21901319 TCTTCTAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:21901399 original size:18 final size:18
Alignment explanation
Indices: 21901362--21901408 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
21901352 CGGTTGTTAG
* *
21901362 AAGATAATGATAATGATT
1 AAGATAATAATAAAGATT
*
21901380 AAGATAATAATAAAGGTT
1 AAGATAATAATAAAGATT
21901398 AA-A-AATAATAA
1 AAGATAATAATAA
21901409 GAAAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 8 0.31
17 1 0.04
18 17 0.65
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.28
Consensus pattern (18 bp):
AAGATAATAATAAAGATT
Found at i:21902101 original size:14 final size:14
Alignment explanation
Indices: 21902067--21902102 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
21902057 CTTAGCCGAG
21902067 TTGAGCCGCGTCCC
1 TTGAGCCGCGTCCC
* *
21902081 TTAAGCCGCGTCCT
1 TTGAGCCGCGTCCC
21902095 TTGAGCCG
1 TTGAGCCG
21902103 TGCCAATGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.11, C:0.36, G:0.28, T:0.25
Consensus pattern (14 bp):
TTGAGCCGCGTCCC
Found at i:21902470 original size:13 final size:13
Alignment explanation
Indices: 21902452--21902476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21902442 TTTTCAAACA
21902452 AAAAAATAAGAAC
1 AAAAAATAAGAAC
21902465 AAAAAATAAGAA
1 AAAAAATAAGAA
21902477 AAACCAAAAA
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:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATAAGAAC
Found at i:21902503 original size:18 final size:18
Alignment explanation
Indices: 21902465--21902503 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21902455 AAATAAGAAC
*
21902465 AAAAAATAAGAAAAACCA
1 AAAAAATAAGAAAAACAA
* *
21902483 AAAAAATAATAAAAATAA
1 AAAAAATAAGAAAAACAA
21902501 AAA
1 AAA
21902504 CTTTGATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAAATAAGAAAAACAA
Found at i:21903502 original size:2 final size:2
Alignment explanation
Indices: 21903495--21903520 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21903485 ATGCTCTTCA
21903495 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21903521 CATAGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21903790 original size:14 final size:14
Alignment explanation
Indices: 21903771--21903801 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21903761 ATATTTTTAC
*
21903771 TAAAAATATCTATA
1 TAAAAATATATATA
21903785 TAAAAATATATATA
1 TAAAAATATATATA
21903799 TAA
1 TAA
21903802 TTTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAAATATATATA
Found at i:21909087 original size:3 final size:3
Alignment explanation
Indices: 21909081--21909120 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
21909071 CTTTTTACTT
*
21909081 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA -TA TATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T
21909121 ATATATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:21911788 original size:17 final size:18
Alignment explanation
Indices: 21911768--21911802 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21911758 AAAGTTCATG
21911768 ATTAAAAAATTA-CAAAA
1 ATTAAAAAATTATCAAAA
*
21911785 ATTATAAAATTATCAAAA
1 ATTAAAAAATTATCAAAA
21911803 TGAAAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
ATTAAAAAATTATCAAAA
Found at i:21915826 original size:51 final size:51
Alignment explanation
Indices: 21915766--21915864 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
21915756 CTATATTCTA
21915766 AAACGCTCTCACTCAAATTAAACCCTTTTCATTTATAACCTATAATGGGCG
1 AAACGCTCTCACTCAAATTAAACCCTTTTCATTTATAACCTATAATGGGCG
21915817 AAACGCTCTCACTCAAATTAAACCCTTTTCATTTATAACCTATAATGG
1 AAACGCTCTCACTCAAATTAAACCCTTTTCATTTATAACCTATAATGG
21915865 ACGAGAATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.32
Consensus pattern (51 bp):
AAACGCTCTCACTCAAATTAAACCCTTTTCATTTATAACCTATAATGGGCG
Found at i:21917488 original size:13 final size:13
Alignment explanation
Indices: 21917470--21917500 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
21917460 ATCAAAAGTG
21917470 ATAAGTTTAAGGA
1 ATAAGTTTAAGGA
21917483 ATAAGTTTAAGGA
1 ATAAGTTTAAGGA
21917496 ATAAG
1 ATAAG
21917501 AGACTACCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (13 bp):
ATAAGTTTAAGGA
Found at i:21919188 original size:10 final size:9
Alignment explanation
Indices: 21919166--21919198 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
21919156 GTAAAAAAAT
21919166 AAAAATATG
1 AAAAATATG
21919175 AAAAATATG
1 AAAAATATG
21919184 AAAAA-ATG
1 AAAAATATG
21919192 ATAAAAT
1 A-AAAAT
21919199 GATAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (9 bp):
AAAAATATG
Found at i:21919192 original size:8 final size:8
Alignment explanation
Indices: 21919159--21919212 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
21919149 AGATGAAGTA
21919159 AAAAAAT-
1 AAAAAATG
21919166 AAAAATATG
1 AAAAA-ATG
21919175 AAAAATATG
1 AAAAA-ATG
21919184 AAAAAATG
1 AAAAAATG
*
21919192 ATAAAATG
1 AAAAAATG
*
21919200 ATAAAA-G
1 AAAAAATG
21919207 AAAAAA
1 AAAAAA
21919213 GAGATAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 11 0.26
8 18 0.42
9 14 0.33
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (8 bp):
AAAAAATG
Found at i:21920448 original size:23 final size:21
Alignment explanation
Indices: 21920400--21920462 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 21
21920390 ATTTTTTATG
*
21920400 TGAAA-TTTTGGATGAAACTT
1 TGAAATTTTTGAATGAAACTT
*
21920420 TAAAATTTTTGAATGAGAACCTT
1 TGAAATTTTTGAATGA-AA-CTT
* *
21920443 TGAAATATTGGATATGAAAC
1 TGAAATTTTTGA-ATGAAAC
21920463 ACTAAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.12
21 9 0.26
22 3 0.09
23 14 0.41
24 4 0.12
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (21 bp):
TGAAATTTTTGAATGAAACTT
Found at i:21920525 original size:51 final size:51
Alignment explanation
Indices: 21920425--21920525 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
21920415 AACTTTAAAA
* *
21920425 TTTTTGAATGAGAACCTTTGAAATATTGGATATGAAACACTAAATTTTTTT
1 TTTTTGAATGAGAACCTTTGAAATATTGGAAATGAAACACTAAAGTTTTTT
* * *
21920476 TTTTTGAATGAGAATCTTTGAAATCTTGGAAATGAATC-CTTAAAGTTTTT
1 TTTTTGAATGAGAACCTTTGAAATATTGGAAATGAAACAC-TAAAGTTTTT
21920526 CAAATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (51 bp):
TTTTTGAATGAGAACCTTTGAAATATTGGAAATGAAACACTAAAGTTTTTT
Found at i:21920668 original size:42 final size:42
Alignment explanation
Indices: 21920607--21920713 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
21920597 AATCACTAAG
** * *
21920607 AATTTTCGAATGTGAATCTTTGAATGTTGGATATAAGCTTTG-A
1 AATTTT-GAATGTGAATCTTAAAATGTTAGATATAAGC-CTGAA
* *
21920650 AATTTTGAAAGTGAATCTTAAAATGTTAGATATGAGCCTGAA
1 AATTTTGAATGTGAATCTTAAAATGTTAGATATAAGCCTGAA
*
21920692 AACTTTGAATGTGAATCATTAA
1 AATTTTGAATGTGAATC-TTAA
21920714 GAATTTTCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.04
42 42 0.78
43 10 0.19
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.37
Consensus pattern (42 bp):
AATTTTGAATGTGAATCTTAAAATGTTAGATATAAGCCTGAA
Found at i:21920699 original size:108 final size:107
Alignment explanation
Indices: 21920576--21920773 Score: 306
Period size: 108 Copynumber: 1.8 Consensus size: 107
21920566 TTTTTTATTT
* * * *
21920576 AGCCTTAAAATTTTGAATGTGAATCACTAAGAATTTTCGAATGTGAATCTTTGAATGTTGGATAT
1 AGCCTGAAAACTTTGAATGTGAATCACTAAGAATTTTCAAATGTGAATATTTGAATGTTGGATAT
*
21920641 AAGCTTTGAAATTTTGAAAGTGAATCTTAAAATGTTAGATATG
66 AAGCCTTGAAATTTTG-AAGTGAATCTTAAAATGTTAGATATG
*
21920684 AGCCTGAAAACTTTGAATGTGAATCATTAAGAATTTTCAAATGTGAATATTTGAATGTTGGATAT
1 AGCCTGAAAACTTTGAATGTGAATCACTAAGAATTTTCAAATGTGAATATTTGAATGTTGGATAT
* * *
21920749 GAGCCTTGTAATTTTGATGTGAATC
66 AAGCCTTGAAATTTTGAAGTGAATC
21920774 CCTACATTGA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
107 8 0.10
108 73 0.90
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (107 bp):
AGCCTGAAAACTTTGAATGTGAATCACTAAGAATTTTCAAATGTGAATATTTGAATGTTGGATAT
AAGCCTTGAAATTTTGAAGTGAATCTTAAAATGTTAGATATG
Found at i:21920884 original size:17 final size:17
Alignment explanation
Indices: 21920864--21920913 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
21920854 CTTACAAATC
*
21920864 TAAAAATCTTGTGAATA
1 TAAAATTCTTGTGAATA
*
21920881 TAAAATTCTTATGAATA
1 TAAAATTCTTGTGAATA
* *
21920898 TGAAATTCTTGAGAAT
1 TAAAATTCTTGTGAAT
21920914 CAAAGCCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
TAAAATTCTTGTGAATA
Found at i:21920980 original size:16 final size:17
Alignment explanation
Indices: 21920939--21920998 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
21920929 CTAAAAATTT
* *
21920939 TTACGAGTCTAAAAGTA
1 TTACGAATCTAAAAGTC
* *
21920956 TTGCGAATCT-AAATTC
1 TTACGAATCTAAAAGTC
21920972 TTACGAATCTAAAAGTC
1 TTACGAATCTAAAAGTC
*
21920989 TTACAAATCT
1 TTACGAATCT
21920999 TTGACCATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
16 13 0.37
17 22 0.63
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (17 bp):
TTACGAATCTAAAAGTC
Found at i:21920998 original size:33 final size:34
Alignment explanation
Indices: 21920852--21920998 Score: 104
Period size: 33 Copynumber: 4.4 Consensus size: 34
21920842 GAATCTTTAT
* ** *
21920852 GTCTTACAAATCTAAAAATCTTGTGAATATAAAA
1 GTCTTACAAATCTAAAATTCTTACGAATCTAAAA
* ** * *
21920886 TTCTTATGAATATGAAATTCTTGA-GAATC--AAA
1 GTCTTACAAATCTAAAATTCTT-ACGAATCTAAAA
* * * *
21920918 GCCTTACAAAACTAAAAATTTTTACGAGTCTAAAA
1 GTCTTACAAATCT-AAAATTCTTACGAATCTAAAA
* * *
21920953 GTATTGCGAATCT-AAATTCTTACGAATCTAAAA
1 GTCTTACAAATCTAAAATTCTTACGAATCTAAAA
21920986 GTCTTACAAATCT
1 GTCTTACAAATCT
21920999 TTGACCATTA
Statistics
Matches: 81, Mismatches: 27, Indels: 11
0.68 0.23 0.09
Matches are distributed among these distances:
32 11 0.14
33 39 0.48
34 20 0.25
35 11 0.14
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.33
Consensus pattern (34 bp):
GTCTTACAAATCTAAAATTCTTACGAATCTAAAA
Found at i:21924459 original size:20 final size:19
Alignment explanation
Indices: 21924434--21924474 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
21924424 AAAATCAAAT
21924434 ATGATCAAAATTGGTAAAAA
1 ATGATCAAAA-TGGTAAAAA
*
21924454 ATGATCAAAATGGTTAAAA
1 ATGATCAAAATGGTAAAAA
21924473 AT
1 AT
21924475 CAAGTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.27
Consensus pattern (19 bp):
ATGATCAAAATGGTAAAAA
Found at i:21926477 original size:14 final size:14
Alignment explanation
Indices: 21926442--21926533 Score: 62
Period size: 14 Copynumber: 6.4 Consensus size: 14
21926432 TGCATAATTC
21926442 CATAAAACCTCAAAT
1 CATAAAACCT-AAAT
* *
21926457 -TTGAAACCTAAAT
1 CATAAAACCTAAAT
21926470 CATAAAACCTAAAT
1 CATAAAACCTAAAT
* * *
21926484 CTTAAACCCTAAAAC
1 CATAAAACCT-AAAT
*
21926499 CCT-AAACCTTAAAT
1 CATAAAACC-TAAAT
* *
21926513 CTTAAAACCCTAAAC
1 CATAAAA-CCTAAAT
21926528 CATAAA
1 CATAAA
21926534 CCACTTCCAA
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
13 4 0.07
14 35 0.59
15 18 0.31
16 2 0.03
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (14 bp):
CATAAAACCTAAAT
Found at i:21926509 original size:22 final size:22
Alignment explanation
Indices: 21926472--21926535 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
21926462 ACCTAAATCA
*
21926472 TAAAA-CCTAAATCTTAAACCC
1 TAAAACCCTAAACCTTAAACCC
* *
21926493 TAAAACCCTAAACCTTAAATCT
1 TAAAACCCTAAACCTTAAACCC
*
21926515 TAAAACCCTAAACCATAAACC
1 TAAAACCCTAAACCTTAAACC
21926536 ACTTCCAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 5 0.14
22 32 0.86
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAAACCCTAAACCTTAAACCC
Found at i:21926514 original size:29 final size:28
Alignment explanation
Indices: 21926441--21926535 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 28
21926431 GTGCATAATT
*
21926441 CCATAAAACCTCAAAT-TTGAAA-CCTAAA
1 CCAT-AAACCT-AAATCTTAAAACCCTAAA
*
21926469 TCATAAAACCTAAATCTT-AAACCCTAAAA
1 CCAT-AAACCTAAATCTTAAAACCCT-AAA
*
21926498 CCCTAAACCTTAAATCTTAAAACCCTAAA
1 CCATAAACC-TAAATCTTAAAACCCTAAA
21926527 CCATAAACC
1 CCATAAACC
21926536 ACTTCCAAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
27 7 0.12
28 20 0.34
29 24 0.41
30 7 0.12
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.22
Consensus pattern (28 bp):
CCATAAACCTAAATCTTAAAACCCTAAA
Found at i:21926534 original size:14 final size:14
Alignment explanation
Indices: 21926463--21926535 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
21926453 AAATTTGAAA
*
21926463 CCTAAATCATAAAA
1 CCTAAATCATAAAC
*
21926477 CCTAAATCTTAAAC
1 CCTAAATCATAAAC
* *
21926491 CCTAAAACCCTAAAC
1 CCT-AAATCATAAAC
* *
21926506 CTTAAATCTTAAAAC
1 CCTAAATCAT-AAAC
*
21926521 CCTAAACCATAAAC
1 CCTAAATCATAAAC
21926535 C
1 C
21926536 ACTTCCAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
14 25 0.53
15 22 0.47
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAATCATAAAC
Found at i:21927017 original size:18 final size:17
Alignment explanation
Indices: 21926994--21927041 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
21926984 ATATTATTTT
21926994 TAACTATAAATATAAAAA
1 TAACTATAAA-ATAAAAA
* *
21927012 TAACTATATAAATATATA
1 TAACTATA-AAATAAAAA
21927030 TAACTATAAAAT
1 TAACTATAAAAT
21927042 TAAATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 21 0.78
19 2 0.07
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACTATAAAATAAAAA
Found at i:21928804 original size:30 final size:31
Alignment explanation
Indices: 21928747--21928818 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 31
21928737 TATTTTTTAT
21928747 TTTTATATTAATATAAATTATAATATATAAA
1 TTTTATATTAATATAAATTATAATATATAAA
21928778 TTTTAT-TTAA-ATATAA-TATAAATATATAAA
1 TTTTATATTAATATA-AATTAT-AATATATAAA
21928808 TTATTAATATT
1 TT-TT-ATATT
21928819 TTACGTCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
29 6 0.17
30 18 0.50
31 8 0.22
32 2 0.06
33 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
TTTTATATTAATATAAATTATAATATATAAA
Found at i:21928807 original size:19 final size:19
Alignment explanation
Indices: 21928755--21928808 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
21928745 ATTTTTATAT
21928755 TAATATAAAT-TATAATATA
1 TAATATAAATATATAA-ATA
** *
21928774 TAA-AT-TTTATTTAAATA
1 TAATATAAATATATAAATA
21928791 TAATATAAATATATAAAT
1 TAATATAAATATATAAAT
21928809 TATTAATATT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
17 7 0.27
18 8 0.31
19 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATATAAATATATAAATA
Found at i:21930455 original size:44 final size:44
Alignment explanation
Indices: 21930407--21930508 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
21930397 ATTTTTTAAA
*
21930407 AATTTTTATGTTTTCCA-ATTTTAAAATTTTTAATCAAAA-TATTT
1 AATTTTTATGTTTTCAACATTTTAAAATTTTT-AT-AAAATTATTT
* * *
21930451 AATTTTT-GGTTTTTAACATTTTAAAATTTTTATAAAATTTTTT
1 AATTTTTATGTTTTCAACATTTTAAAATTTTTATAAAATTATTT
*
21930494 ATATTTTTATATTTT
1 A-ATTTTTATGTTTT
21930509 TTATGTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
42 4 0.08
43 13 0.27
44 27 0.56
45 4 0.08
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (44 bp):
AATTTTTATGTTTTCAACATTTTAAAATTTTTATAAAATTATTT
Found at i:21930509 original size:9 final size:9
Alignment explanation
Indices: 21930487--21930536 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
21930477 TTTTTATAAA
21930487 ATTTTTTAT
1 ATTTTTTAT
21930496 A-TTTTTAT
1 ATTTTTTAT
21930504 ATTTTTTAT
1 ATTTTTTAT
* *
21930513 -GTTTTTAG
1 ATTTTTTAT
**
21930521 AAATTTTAT
1 ATTTTTTAT
21930530 ATTTTTT
1 ATTTTTT
21930537 TAATATTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
8 14 0.44
9 18 0.56
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:21930509 original size:17 final size:17
Alignment explanation
Indices: 21930487--21930535 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
21930477 TTTTTATAAA
*
21930487 ATTTTTTATATTTTTAT
1 ATTTTTTATATTTTTAG
*
21930504 ATTTTTTATGTTTTTAG
1 ATTTTTTATATTTTTAG
**
21930521 AAATTTTATATTTTT
1 ATTTTTTATATTTTT
21930536 TTAATATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
ATTTTTTATATTTTTAG
Found at i:21930978 original size:28 final size:27
Alignment explanation
Indices: 21930926--21930983 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
21930916 AAAATATTGA
* *
21930926 AAAAAATTTTAATATTTTAAAAAAACT
1 AAAAAATTTTAAAATTTGAAAAAAACT
21930953 AAAAAATTTATAAAATTTGAATAAAAGACT
1 AAAAAATTT-TAAAATTTGAA-AAAA-ACT
21930983 A
1 A
21930984 TTTGTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 9 0.35
29 4 0.15
30 4 0.15
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAAAATTTTAAAATTTGAAAAAAACT
Found at i:21931061 original size:20 final size:20
Alignment explanation
Indices: 21931033--21931072 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21931023 TTACGTCAAT
*
21931033 AAGTCAACACTACATCAGTA
1 AAGTCAACACCACATCAGTA
* *
21931053 AAGTTAACACCACATTAGTA
1 AAGTCAACACCACATCAGTA
21931073 TTTTAACTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (20 bp):
AAGTCAACACCACATCAGTA
Found at i:21934984 original size:19 final size:20
Alignment explanation
Indices: 21934955--21935008 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
21934945 AAACATTAAA
21934955 TTTAA-TTTTTAAAAAAA-T
1 TTTAATTTTTTAAAAAAATT
21934973 TTTAATTTTTTAAAAAAATT
1 TTTAATTTTTTAAAAAAATT
21934993 TTTAATTTTTTAAAAA
1 TTTAATTTTTTAAAAA
21935009 TTATATTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.15
19 12 0.35
20 17 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATTTTTTAAAAAAATT
Found at i:21935009 original size:18 final size:18
Alignment explanation
Indices: 21934955--21935010 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
21934945 AAACATTAAA
* *
21934955 TTTAATTTTTAAAAAAAT
1 TTTAATTTTTTAAAAATT
21934973 TTTAATTTTTTAAAAAAATT
1 TTTAATTTTTT--AAAAATT
21934993 TTTAATTTTTTAAAAATT
1 TTTAATTTTTTAAAAATT
21935011 ATATTTCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.50
20 17 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATTTTTTAAAAATT
Found at i:21938109 original size:2 final size:2
Alignment explanation
Indices: 21938102--21938130 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21938092 GCTAACTAAA
21938102 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21938131 TGATATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Done.