Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 73 of 226
Found at i:23415335 original size:51 final size:50
Alignment explanation
Indices: 23415208--23415335 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 50
23415198 ATACCAGAAA
*
23415208 AGCAAGCCTTGAGCCGATGGTTATTTAGCAGGACTTAAGTTGGTGTTGATTT
1 AGCAGGCCTTGAGCC-ATGGTTA-TTAGCAGGACTTAAGTTGGTGTTGATTT
* * * * * *
23415260 AGCAGGCCTTAAACCAGTGTTTATTAGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCA-TGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
*
23415311 AGTAGGCCTTGAGCCATTGGTTATT
1 AGCAGGCCTTGAGCCA-TGGTTATT
23415336 TAGTAAGCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
51 46 0.73
52 17 0.27
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (50 bp):
AGCAGGCCTTGAGCCATGGTTATTAGCAGGACTTAAGTTGGTGTTGATTT
Found at i:23415363 original size:26 final size:26
Alignment explanation
Indices: 23415305--23415355 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
23415295 GAGTTGGTGT
* *
23415305 TTATTTAGTAGGCCTTGAGCCATTGG
1 TTATTTAGTAAGCCTTGAGCCAGTGG
*
23415331 TTATTTAGTAAGCTTTGAGCCAGTG
1 TTATTTAGTAAGCCTTGAGCCAGTG
23415356 TATGTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (26 bp):
TTATTTAGTAAGCCTTGAGCCAGTGG
Found at i:23418003 original size:17 final size:18
Alignment explanation
Indices: 23417971--23418004 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23417961 CAAACTAAAC
*
23417971 AAAATAAAAACCGAAAAT
1 AAAATAAAAACAGAAAAT
23417989 AAAAT-AAAACAGAAAA
1 AAAATAAAAACAGAAAA
23418005 CAATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAATAAAAACAGAAAAT
Found at i:23418921 original size:18 final size:18
Alignment explanation
Indices: 23418898--23418934 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23418888 TACCATGATG
23418898 TATCTTGGGAATATTGCT
1 TATCTTGGGAATATTGCT
23418916 TATCTTGGGAATATTGCT
1 TATCTTGGGAATATTGCT
23418934 T
1 T
23418935 TTTTTATTAT
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:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (18 bp):
TATCTTGGGAATATTGCT
Found at i:23419584 original size:29 final size:28
Alignment explanation
Indices: 23419549--23419611 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
23419539 AAAAAAGCCA
*
23419549 ATTTTTTTATAAAATTACCAAAATGGGCC
1 ATTTTTTAAT-AAATTACCAAAATGGGCC
* * *
23419578 GATTTTTTAATTATTTACCAGAATGGGCC
1 -ATTTTTTAATAAATTACCAAAATGGGCC
23419607 ATTTT
1 ATTTT
23419612 CCCCGAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 15 0.52
30 9 0.31
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (28 bp):
ATTTTTTAATAAATTACCAAAATGGGCC
Found at i:23420086 original size:124 final size:124
Alignment explanation
Indices: 23419879--23420122 Score: 382
Period size: 124 Copynumber: 2.0 Consensus size: 124
23419869 ATCGCTTCTA
* * *
23419879 CCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTGG
*
23419944 TCATGTAAGAAATAA-TTTTTTTTGACGTTTTCTGAGCAAATAGTATTAAATCGCTGATG
66 TCATGTAAGAAATAATTTTTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATG
* *
23420003 CCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTG
1 CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAG-TG
* * *
23420068 GTCATGTAGGAAATATTTTTTTTTTGACGTTTCTGAGCAAATAGTGTAAAATCGC
65 GTCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGC
23420123 GCCCTCGTGG
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
124 57 0.52
125 40 0.37
126 12 0.11
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (124 bp):
CCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTGG
TCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATG
Found at i:23423478 original size:58 final size:57
Alignment explanation
Indices: 23423343--23424117 Score: 323
Period size: 52 Copynumber: 14.8 Consensus size: 57
23423333 TTTTACATTA
* * * * * *
23423343 ATTAAATTAGGTTAGGGTTAGGGATTTCAAATAAAAT-GATAAATCAGGGTAAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGT---T-AGGGTTAG-GGTTTTC
23423404 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
23423461 ATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTTA-GGTTAGAGATTTC
1 AT-TAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * ** * *
23423518 TATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTA-GCTTATGG-TTT-
1 -ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * * * *
23423573 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATT---A-A-GTTA-TGTTTGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * *
23423622 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-GTTA-TGTTTGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* *
23423674 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-G-TAGGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * *
23423726 ATTAAATTA---T---GTTAGGGTTTTTAATTTAATTAAGTTA-GGTTA-GGTTTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
23423774 -TT-AATTAAGTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
23423826 -TT-AATTAAG-TAGGGTTAGGGTTTTTAATT---A-A-GTTA-TGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
*
23423875 ATTAAATTAGGTTAGGG-T-----TTTTAATTAAATTAGGTTAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * * *
23423924 -TT-AATTAAG-TAGGGTTAGGGTTTTTAATT---A-A-GTTA-TGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
* * * * *
23423973 ATTTAATTAAGTTA-GGTTAGGGTTTTTAATT---A-A-GTTA-TGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
*
23424024 ATTAAATTAGGTTAGGG-T-----TTTTAATTAAATTAGGTTAGGGTTAGGG-TTT-
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
* * ** *
23424073 -TT-AATTAAG-TAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTT
23424118 TTTAATTTAA
Statistics
Matches: 603, Mismatches: 50, Indels: 131
0.77 0.06 0.17
Matches are distributed among these distances:
46 68 0.11
47 25 0.04
48 15 0.02
49 6 0.01
50 17 0.03
51 132 0.22
52 189 0.31
53 4 0.01
56 3 0.00
57 60 0.10
58 46 0.08
59 1 0.00
61 35 0.06
62 2 0.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (57 bp):
ATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGGTTTTC
Found at i:23423578 original size:23 final size:24
Alignment explanation
Indices: 23423534--23424288 Score: 686
Period size: 23 Copynumber: 30.4 Consensus size: 24
23423524 ATTAGGTTAG
23423534 GGTTAGGGTTTTTAATTAAATTAAATT
1 GGTTAGGGTTTTTAATTAAATT--A-T
* * *
23423561 AGCTTATGGTTTTTAATTAAGTTAT
1 -GGTTAGGGTTTTTAATTAAATTAT
*
23423586 -GTTAGGGTTTTTAATTAAGTTAT
1 GGTTAGGGTTTTTAATTAAATTAT
*
23423609 -GTTTGGGTTTTTAATTAAATTAGGTT
1 GGTTAGGGTTTTTAATTAAATTA---T
*
23423635 AGGGTTAGGGTTTTTAATTAAGTTAT
1 --GGTTAGGGTTTTTAATTAAATTAT
*
23423661 -GTTTGGGTTTTTAATTAAATTAGGTT
1 GGTTAGGGTTTTTAATTAAATTA---T
* *
23423687 AGGGTTAGGGTTTTTAATT-AAGTAG
1 --GGTTAGGGTTTTTAATTAAATTAT
23423712 GGTTAGGGTTTTTAATTAAATTAT
1 GGTTAGGGTTTTTAATTAAATTAT
*
23423736 -GTTAGGGTTTTTAATTTAATTAAGTT
1 GGTTAGGGTTTTTAATTAAATT-A--T
* *
23423762 AGGTTAGGTTTTTTAATTAAGTTAT
1 -GGTTAGGGTTTTTAATTAAATTAT
23423787 -GTTAGGGTTTTTAATTAAATTAGGTT
1 GGTTAGGGTTTTTAATTAAATTA---T
* *
23423813 AGGGTTAGGGTTTTTAATT-AAGTAG
1 --GGTTAGGGTTTTTAATTAAATTAT
*
23423838 GGTTAGGGTTTTTAATTAAGTTAT
1 GGTTAGGGTTTTTAATTAAATTAT
23423862 -GTTAGGGTTTTTAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAT
23423884 GGTTAGGGTTTTTAATTAAATTAGGTT
1 GGTTAGGGTTTTTAATTAAATTA---T
* *
23423911 AGGGTTAGGGTTTTTAATT-AAGTAG
1 --GGTTAGGGTTTTTAATTAAATTAT
*
23423936 GGTTAGGGTTTTTAATTAAGTTAT
1 GGTTAGGGTTTTTAATTAAATTAT
*
23423960 -GTTAGGGTTTTTAATTTAATTAAGTT
1 GGTTAGGGTTTTTAATTAAATT-A--T
*
23423986 AGGTTAGGGTTTTTAATTAAGTTAT
1 -GGTTAGGGTTTTTAATTAAATTAT
23424011 -GTTAGGGTTTTTAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAT
23424033 GGTTAGGGTTTTTAATTAAATTAGGTT
1 GGTTAGGGTTTTTAATTAAATTA---T
* *
23424060 AGGGTTAGGGTTTTTAATT-AAGTAG
1 --GGTTAGGGTTTTTAATTAAATTAT
*
23424085 GGTTAGGGTTTTTAATTAATTTAT
1 GGTTAGGGTTTTTAATTAAATTAT
*
23424109 -GTTAGGGTTTTTAATTTAATTAAGCT
1 GGTTAGGGTTTTTAATTAAATT-A--T
* * *
23424135 AAGTTAGGTTTTTTAATTAAGTTAT
1 -GGTTAGGGTTTTTAATTAAATTAT
*
23424160 -GTTAGGGTTTTTAATTAAGTTAT
1 GGTTAGGGTTTTTAATTAAATTAT
*
23424183 -GTTAGGCTTTTTAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAT
23424205 GGTTAGGGTTTTTAATTAAATTAGTT
1 GGTTAGGGTTTTTAATTAAATTA--T
* *
23424231 AGGGTTAGGGTTTTTAATT-AAGTAA
1 --GGTTAGGGTTTTTAATTAAATTAT
23424256 GGTTAGGGTTTTTAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAT
23424279 GGTTAGGGTT
1 GGTTAGGGTT
23424289 AGGGTTTTTA
Statistics
Matches: 614, Mismatches: 55, Indels: 121
0.78 0.07 0.15
Matches are distributed among these distances:
23 383 0.62
24 20 0.03
25 4 0.01
26 8 0.01
27 7 0.01
28 107 0.17
29 85 0.14
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (24 bp):
GGTTAGGGTTTTTAATTAAATTAT
Found at i:23423580 original size:28 final size:27
Alignment explanation
Indices: 23423397--23424305 Score: 517
Period size: 23 Copynumber: 35.5 Consensus size: 27
23423387 CAGGGTAAGA
23423397 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
* *
23423426 GATTTTAATTAAAATAGGTTAGGGTTAG
1 GTTTTTAATTAAATTAGGTTA-GGTTAG
* * * *
23423454 GGTTTTCATGTAAAATAGGTTAGGGTTGGG
1 GTTTTTAAT-TAAATTAGGTTA-GGTT-AG
23423484 GTTTTTAATTAAATTAGGTTAGGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
*
23423511 AGATTTCT-ATTAAATTAGGTTAGGGTTAGG
1 -G-TTTTTAATTAAATTAGGTTA-GGTTA-G
** *
23423541 GTTTTTAATTAAATTAAATTAGCTTATG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
23423569 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* * *
23423592 GTTTTTAATTAAGTTA---T-GTTTGG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23423615 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
* * *
23423644 GTTTTTAATTAAGTTA---T-GTTTGG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23423667 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
23423696 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
*
23423719 GTTTTTAATTAAATTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
23423742 GTTTTTAATTTAATTAAGTTAGGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
23423769 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
23423793 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
23423822 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
23423845 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23423868 GTTTTTAATTAAATTAGGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23423891 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
23423920 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
23423943 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
23423966 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
23423994 GTTTTTAATTAAGTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23424017 GTTTTTAATTAAATTAGGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23424040 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
23424069 GTTTTTAATT-AAGTA-G---GGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
* *
23424092 GTTTTTAATTAATTTATGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* * * *
23424115 GTTTTTAATTTAATTAAGCTAAGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
* *
23424142 G-TTTT--TT-AATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGGTTA-G
*
23424166 GTTTTTAATT--A--A-GTTATGTTAG
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23424188 GCTTTTTAATTAAATTAGGTTA-G---G
1 G-TTTTTAATTAAATTAGGTTAGGTTAG
23424212 GTTTTTAATTAAATTA-GTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
* *
23424240 GTTTTTAATTAAGTAAGGTTA-G---G
1 GTTTTTAATTAAATTAGGTTAGGTTAG
23424263 GTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTTTTAATTAAATTAGGTTA-GGTTA-G
*
23424292 GTTTTTAATCAAAT
1 GTTTTTAATTAAAT
23424306 AATGTCAAAA
Statistics
Matches: 717, Mismatches: 66, Indels: 194
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.00
22 6 0.01
23 340 0.47
24 31 0.04
25 16 0.02
26 12 0.02
27 21 0.03
28 123 0.17
29 158 0.22
30 9 0.01
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.48
Consensus pattern (27 bp):
GTTTTTAATTAAATTAGGTTAGGTTAG
Found at i:23423798 original size:126 final size:126
Alignment explanation
Indices: 23423397--23424288 Score: 936
Period size: 126 Copynumber: 7.0 Consensus size: 126
23423387 CAGGGTAAGA
* *
23423397 GTTTTTAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTC
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT---A-A-G-TAGGGTTAGGGTTTTTA
* * * * *
23423461 ATGTAAAATAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTTAGGTTAGAGATTTCTATTAAAT
60 AT-T--AA-A--TTA-TGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAG-G-GTT-T-TT-AAT
*
23423526 TAGGTTAGGGTTAGG
113 TAAGTTA-GGTTAGG
** * * *
23423541 GTTTTTAATTAAATTAAATTA-GCTTATGGTTTTTAATTAAGTTA-TGTTAGGGTTTTTAATTAA
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTTAATTAA
* * * * * *
23423604 GTTATGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTTGG
65 ATTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGG
23423667 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
* *
23423732 TTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTAGG
66 TTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
23423793 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAG
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
*
23423858 TTATGTTAGGGTTTTTAA-TT-A--AA-TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
66 TTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
* *
23423914 GTTAGGGTTT--TT-AATTAAG-TAGGGTTAGGGTTTTTAATTAAGTTA-TGTTAGGGTTTTTAA
1 GTT----TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG-TAGGGTTAGGGTTTTTAA
* * * * *
23423974 TTTAATTAAGTTA-GGTTAGGGTT--TTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGT
61 TTAAATTATGTTAGGGTT---TTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGT
23424036 TAGG
123 TAGG
*
23424040 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAT
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
* * * *
23424105 TTATGTTAGGGTTTTTAATTTAATTAAGCTAAGTTAGGTTTTTTAATTAAGTTATGTTAGG
66 TTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
* * *
23424166 GTTTTTAATT--A--A-GTTA-TGTTAGGCTTTTTAATTAAATTA-GGTTAGGGTTTTTAATTAA
1 GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AAGTAGGGTTAGGGTTTTTAATTAA
* * *
23424224 ATTA-GTTAGGGTTAGGGTT--TTTAATTAAGTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
65 ATTATGTTAGGGTT---TTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
23424286 GTT
1 GTT
23424289 AGGGTTTTTA
Statistics
Matches: 661, Mismatches: 58, Indels: 82
0.83 0.07 0.10
Matches are distributed among these distances:
119 9 0.01
120 81 0.12
121 88 0.13
122 18 0.03
123 5 0.01
124 6 0.01
125 15 0.02
126 266 0.40
127 77 0.12
128 2 0.00
129 1 0.00
130 2 0.00
131 27 0.04
132 9 0.01
135 2 0.00
137 8 0.01
138 10 0.02
139 1 0.00
140 1 0.00
143 14 0.02
144 19 0.03
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.48
Consensus pattern (126 bp):
GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTAGGGTTTTTAATTAAA
TTATGTTAGGGTTTTTAATTTAATTAAGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:23423883 original size:149 final size:149
Alignment explanation
Indices: 23423472--23424300 Score: 938
Period size: 149 Copynumber: 5.5 Consensus size: 149
23423462 TGTAAAATAG
* * * * *
23423472 GTTAGGGTTGGGGTTTTTAATTAAATTAGGTTAGGTTAGAGATTTCTATTAAATTAGGTTAGGGT
1 GTTAGGGTTAGGGTTTTTAATT--A--A-GTTAGGTTAG-GGTTTTTATTTAATTAAGTTAGGGT
* * *
23423537 TAGGGTTTTTAATTAAATTAAATTAGCTTATGGTTTTTAATTAAGTTATGTTAGGG---TT--TT
60 TAGGGTTTTTAATTAAGTT--A-T-G-TTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATT
* *
23423597 TAATTAAGTTATGTTTGGGTTTTTAATTAAATTA
120 TAATTAAGTTAGGTTAGGGTTTTTAATT--A--A
* * * *
23423631 GGTTAGGGTTAGGGTTTTTAATTAAGTTATGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 -GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTT-ATTTAATTAAGTTAGGGTTAGG
*
23423696 GTTTTTAATTAAG-TAGGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAG
64 GTTTTTAATTAAGTTA-TGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAG
*
23423760 TTAGGTTAGGTTTTTTAATTAA
128 TTAGGTTAGGGTTTTTAATTAA
* * *
23423782 GTTA-TGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT-TTTAATTAAG-TAGGGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTT---TTTATTTAATTAAGTTAGGGTTAG
* * *
23423844 GGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGG
63 GGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAG
23423909 TTAGGGTTAGGGTTTTTAATTAA
128 TTA-GGTTAGGGTTTTTAATTAA
*
23423932 G-TAGGGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTT-ATTTAATTAAGTTAGGGTTAGGG
* * *
23423995 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTT
65 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAGTT
23424060 AGGGTTAGGGTTTTTAATTAA
130 A-GGTTAGGGTTTTTAATTAA
* * * * *
23424081 G-TAGGGTTAGGGTTTTTAATTAATTTATGTTAGGGTTTTTAATTTAATTAAGCTA-AGTTAGGT
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTT-ATTTAATTAAGTTAGGGTTAGGG
* *
23424144 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAGTTATGTTAGGCTTTTTAA-TT-A--AA-TT
65 TTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAGTT
23424204 AGGTTAGGGTTTTTAATTAAATTA
130 AGGTTAGGGTTTTTAATT--A--A
* * *
23424228 GTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTT-ATTTAATTAAGTTAGGGTTAGGG
23424293 TTTTTAAT
65 TTTTTAAT
23424301 CAAATAATGT
Statistics
Matches: 602, Mismatches: 46, Indels: 53
0.86 0.07 0.08
Matches are distributed among these distances:
143 17 0.03
144 3 0.00
145 2 0.00
147 5 0.01
148 49 0.08
149 328 0.54
150 92 0.15
151 2 0.00
152 3 0.00
153 3 0.00
154 6 0.01
155 69 0.11
156 1 0.00
158 1 0.00
160 21 0.03
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (149 bp):
GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTTTTATTTAATTAAGTTAGGGTTAGGGT
TTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTTAATTAAGTTA
GGTTAGGGTTTTTAATTAA
Found at i:23426460 original size:14 final size:15
Alignment explanation
Indices: 23426443--23426476 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
23426433 AATAAATATC
23426443 TAAAAATA-CTTAAA
1 TAAAAATATCTTAAA
23426457 TAAAAATATCTTAAA
1 TAAAAATATCTTAAA
23426472 TAAAA
1 TAAAA
23426477 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATATCTTAAA
Found at i:23426704 original size:22 final size:21
Alignment explanation
Indices: 23426674--23426714 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
23426664 TTTGGAGATT
23426674 TTTTGAAGGAAATTGAGAGGA
1 TTTTGAAGGAAATTGAGAGGA
*
23426695 TTTTGCAAGGAATTTGAGAG
1 TTTTG-AAGGAAATTGAGAG
23426715 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (21 bp):
TTTTGAAGGAAATTGAGAGGA
Found at i:23426721 original size:30 final size:30
Alignment explanation
Indices: 23426686--23426744 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
23426676 TTGAAGGAAA
*
23426686 TTGAGAGGATTTTGCAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGCAAGGAATTTGAGAGT
*
23426716 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGCAAGGAATTTGAGAG
23426745 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGCAAGGAATTTGAGAGT
Found at i:23426740 original size:22 final size:21
Alignment explanation
Indices: 23426716--23426807 Score: 121
Period size: 22 Copynumber: 4.2 Consensus size: 21
23426706 ATTTGAGAGT
*
23426716 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
*
23426737 TTTGAGAGAAATTTTGAAGGGAA
1 -TTGAGAGAATTTTTGAA-GGAA
*
23426760 TTGAGAGAATTTTTTAAAGGAA
1 TTGAGAGAA-TTTTTGAAGGAA
23426782 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
23426804 TTGA
1 TTGA
23426808 TATTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 9 0.15
22 43 0.69
23 10 0.16
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:23426742 original size:52 final size:51
Alignment explanation
Indices: 23426664--23426766 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
23426654 TTAATATGGA
* * *
23426664 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGCAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTG-AAGGGAA-TTGAGAG
*
23426715 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
23426767 AATTTTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 31 0.69
53 10 0.22
ACGTcount: A:0.34, C:0.01, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:23430759 original size:40 final size:40
Alignment explanation
Indices: 23430714--23430913 Score: 267
Period size: 40 Copynumber: 5.0 Consensus size: 40
23430704 AGATTATTGT
* *
23430714 TTGATTGCACATACGTGCCCCTATTTATACTTCGGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* **
23430754 TTGATTGCACACACGTGCCCCTGTTTGTACTTCAATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
23430794 CTGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCC
1 TTGATTGCACATACGTG-CCCCTGTTTGTACTTCGGTACCC
* * * *
23430834 CTGATTGCACATACATGCCCCTGTTTATACTTCGATACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
23430874 TTGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCC
1 TTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
23430914 CGAATGCACA
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 4 0.03
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:23430807 original size:80 final size:80
Alignment explanation
Indices: 23430715--23430923 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
23430705 GATTATTGTT
* * * *
23430715 TGATTGCACATACGTGCCCCTATTTATACTTCGGTACCCTTGATTGCACACACGTGCCCCTGTTT
1 TGATTGCACATACGTGTCCCTATTTGTACTTCGGTACCCCTGATTGCACACACATGCCCCTGTTT
*
23430780 GTACTTCAATACCCC
66 ATACTTCAATACCCC
*
23430795 TGATTGCACATACGTGTCCC-ATTTTGTACTTCGGTACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGTCCCTA-TTTGTACTTCGGTACCCCTGATTGCACACACATGCCCCTGTT
* *
23430859 TATACTTCGATACCCT
65 TATACTTCAATACCCC
* * *
23430875 TGATTGCACATACGTGTCCCTGTTTGTACTTCAGTACCCC-GAATGCACA
1 TGATTGCACATACGTGTCCCTATTTGTACTTCGGTACCCCTGATTGCACA
23430924 TTTGTGCCCT
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 9 0.08
80 107 0.92
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.33
Consensus pattern (80 bp):
TGATTGCACATACGTGTCCCTATTTGTACTTCGGTACCCCTGATTGCACACACATGCCCCTGTTT
ATACTTCAATACCCC
Found at i:23435542 original size:31 final size:33
Alignment explanation
Indices: 23435507--23435589 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 33
23435497 TTACCCACTA
*
23435507 TTTAAAACTTTTTAAATTTTT-TTAT-ACATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
23435538 TTTAAAACTTTTTAAATTTTTATTTTGAAATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
23435571 TTT-AAACTATTTTATATTT
1 TTTAAAACT-TTTTAAATTT
23435590 AACGCTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 21 0.46
32 8 0.17
33 17 0.37
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (33 bp):
TTTAAAACTTTTTAAATTTTTATTATGAAATTT
Found at i:23442648 original size:10 final size:10
Alignment explanation
Indices: 23442616--23442649 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23442606 GATTTGAAAT
23442616 TAATTAATAA
1 TAATTAATAA
*
23442626 TATATTAAAAA
1 TA-ATTAATAA
23442637 TAATTAATAA
1 TAATTAATAA
23442647 TAA
1 TAA
23442650 CATATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAATAA
Found at i:23442855 original size:20 final size:19
Alignment explanation
Indices: 23442830--23442867 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
23442820 ATCAACAATA
*
23442830 TTATTAATTATATAATATAT
1 TTATTAATAAT-TAATATAT
23442850 TTATTAATAATTAATATA
1 TTATTAATAATTAATATA
23442868 AGAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTAATAATTAATATAT
Found at i:23446626 original size:25 final size:24
Alignment explanation
Indices: 23446589--23446642 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
23446579 GCGCACAAAC
23446589 TATATAAATATAAA-TAAATCAATA
1 TATATAAATATAAATTAAAT-AATA
*
23446613 TATATAAAATATAAATTAAATAATT
1 TATAT-AAATATAAATTAAATAATA
23446638 TATAT
1 TATAT
23446643 TTAAATTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TATATAAATATAAATTAAATAATA
Found at i:23447096 original size:25 final size:25
Alignment explanation
Indices: 23447058--23447108 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23447048 AGGAGCAATT
* *
23447058 AAATTCATTTGATTAAAATCAAATC
1 AAATTCATTGGATTAAAATAAAATC
* *
23447083 AAATTGATTGGATTCAAATAAAATC
1 AAATTCATTGGATTAAAATAAAATC
23447108 A
1 A
23447109 GGATATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (25 bp):
AAATTCATTGGATTAAAATAAAATC
Found at i:23454025 original size:6 final size:6
Alignment explanation
Indices: 23454015--23454049 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
23454005 TTGATGCACT
*
23454015 TTATTT TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
23454050 TCAATTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (6 bp):
TTATTG
Found at i:23454056 original size:18 final size:18
Alignment explanation
Indices: 23454021--23454058 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23454011 CACTTTATTT
*
23454021 TTATTGTTATTGTTATTG
1 TTATTGTTATTGTAATTG
23454039 TTATTGTTATT-TCAATTG
1 TTATTGTTATTGT-AATTG
23454057 TT
1 TT
23454059 TTTCTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.66
Consensus pattern (18 bp):
TTATTGTTATTGTAATTG
Found at i:23461475 original size:5 final size:5
Alignment explanation
Indices: 23461465--23461496 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
23461455 GAGTTGAGCT
23461465 GACCA GACCA GACCA GACCA GACCA GACCA GA
1 GACCA GACCA GACCA GACCA GACCA GACCA GA
23461497 GCGGGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.38, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCA
Found at i:23461933 original size:16 final size:16
Alignment explanation
Indices: 23461912--23461947 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
23461902 TTTGGTTCGC
23461912 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23461928 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23461944 TGTA
1 TGTA
23461948 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23462279 original size:153 final size:153
Alignment explanation
Indices: 23462096--23462382 Score: 493
Period size: 153 Copynumber: 1.9 Consensus size: 153
23462086 TTGGTAAATG
* * *
23462096 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATTAATAATAAATATTTTAATCAT
1 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
* * * *
23462161 ATTTAAACATAATTATTATTAAACCCATTTTAATTAAAATATATAATTTCATAAAATTCTTAATA
66 ATTTAAACATAATTATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCATAATA
23462226 ATTAGCAGAAATTTGATTTGGTA
131 ATTAGCAGAAATTTGATTTGGTA
23462249 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
1 ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
* *
23462314 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATA
66 ATTTAAACATAATTATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCATAATA
23462379 ATTA
131 ATTA
23462383 ATATTTTTAT
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (153 bp):
ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCAT
ATTTAAACATAATTATTATTAAACACATTATAATTAAAATATATAATTTAATAAAATTCATAATA
ATTAGCAGAAATTTGATTTGGTA
Found at i:23462353 original size:16 final size:16
Alignment explanation
Indices: 23462316--23462357 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23462306 TTAATCATAT
*
23462316 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23462332 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23462347 TTAAAATATAT
1 TTAAAATATAT
23462358 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23462364 original size:14 final size:15
Alignment explanation
Indices: 23462325--23462366 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23462315 TTTAAACATA
*
23462325 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23462340 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23462354 A-TATAATTTAATA
1 ATTATAATTAAATA
23462367 AAATTCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23462452 original size:120 final size:120
Alignment explanation
Indices: 23462319--23462742 Score: 674
Period size: 120 Copynumber: 3.5 Consensus size: 120
23462309 ATCATATTTA
23462319 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATAATTAA
*
23462384 TATTTTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
23462439 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATAATTAA
** *
23462504 TATTCTTATATGAATTTACTTGAATCATAATATATGATGCTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
23462559 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATAATTAA
*
23462624 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* * * * * * *
23462679 GAA-ATAATTAATATTAAATATATTTTATTTAAAATATATGATTGAATAAAATTTAAAATAATTA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATAATTA
23462743 TAACTAATAA
Statistics
Matches: 284, Mismatches: 17, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
119 7 0.02
120 275 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCATAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:23462484 original size:14 final size:15
Alignment explanation
Indices: 23462435--23462486 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23462425 GTAAAATATA
23462435 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23462450 TATTAAATATATTAT
1 AATTAAATATATTAT
23462465 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23462478 AATTTAATA
1 AATTAAATA
23462487 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23462604 original size:14 final size:15
Alignment explanation
Indices: 23462555--23462606 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23462545 GTAAAATATA
23462555 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23462570 TATTAAATATATTAT
1 AATTAAATATATTAT
23462585 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23462598 AATTTAATA
1 AATTAAATA
23462607 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23462818 original size:24 final size:25
Alignment explanation
Indices: 23462772--23462819 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23462762 TATGAATTTG
23462772 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
23462798 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
23462820 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:23462823 original size:92 final size:92
Alignment explanation
Indices: 23462727--23462955 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
23462717 TGATTGAATA
* * *
23462727 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
23462789 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
23462819 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* * *
23462884 ATTAAATATAATTTAA-CAGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
23462909 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
23462956 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:23465998 original size:11 final size:11
Alignment explanation
Indices: 23465982--23466008 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23465972 GATTTTATCA
23465982 ATTGTTGAGAT
1 ATTGTTGAGAT
23465993 ATTGTTGAGAT
1 ATTGTTGAGAT
23466004 ATTGT
1 ATTGT
23466009 CATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTGTTGAGAT
Found at i:23466208 original size:97 final size:97
Alignment explanation
Indices: 23466097--23466526 Score: 824
Period size: 97 Copynumber: 4.4 Consensus size: 97
23466087 TTTAATAACA
23466097 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
23466162 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
**
23466194 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTAGGTTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
23466259 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
23466291 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
23466356 TAAAATATGAAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
*
23466388 ATTATATAAGCATTGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
23466453 TAAAATATGCAGATTTAATCTTAAATTTGGAT
66 TAAAATATGAAGATTTAATCTTAAATTTGGAT
23466485 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
23466527 CATAATTTAA
Statistics
Matches: 326, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 326 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.41
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGAAGATTTAATCTTAAATTTGGAT
Found at i:23474285 original size:26 final size:26
Alignment explanation
Indices: 23474249--23474300 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23474239 ATATAGTGCC
23474249 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
23474275 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
23474301 TCATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTCAACTCAATTCAATTTCATTTAA
Found at i:23475782 original size:67 final size:67
Alignment explanation
Indices: 23475674--23475803 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
23475664 AAATATGAAG
*
23475674 AAGATGACTACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
23475739 TT
66 TT
23475741 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
23475804 TCACCTTAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.45
Consensus pattern (67 bp):
AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
TT
Found at i:23479014 original size:17 final size:19
Alignment explanation
Indices: 23478992--23479027 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
23478982 CTAAAATAGT
23478992 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
23479009 AACAAAAGTTATACAATAA
1 AACAAAAGTTATACAATAA
23479028 TCAAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.19
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:23496847 original size:36 final size:36
Alignment explanation
Indices: 23496792--23496872 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
23496782 ACACAATGGC
* * * *
23496792 AAATTAATACAGTTTGCCATATTAATACAAATCACA
1 AAATTAACACAATTCGCCATAATAATACAAATCACA
* * *
23496828 AAATTAACACAATTCGCCATAATAATAGAATTCACC
1 AAATTAACACAATTCGCCATAATAATACAAATCACA
*
23496864 AAGTTAACA
1 AAATTAACA
23496873 TGGTTCATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (36 bp):
AAATTAACACAATTCGCCATAATAATACAAATCACA
Found at i:23503836 original size:16 final size:18
Alignment explanation
Indices: 23503808--23503841 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23503798 TTAGAATTGC
23503808 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
23503825 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
23503842 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:23511412 original size:6 final size:6
Alignment explanation
Indices: 23511396--23511441 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 6
23511386 AAAGAGGGCG
*
23511396 AGAAAA A-AAAA AGAAAA AGGAAAA ACAAAA AG-AAA AG-AAA AGAAAA
1 AGAAAA AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA
23511442 TCTCTCATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 15 0.43
6 14 0.40
7 6 0.17
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:23512390 original size:152 final size:153
Alignment explanation
Indices: 23512205--23512513 Score: 557
Period size: 152 Copynumber: 2.0 Consensus size: 153
23512195 GGGTTCCATA
* *
23512205 TTTTCTTCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAGTTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
* *
23512270 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTTATGTCTTGGGTCTCTTTTGAAGCACTTGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
*
23512335 CTCCACAATATGACCATCTATAT
131 CTCCACAATATGACCATCTATAC
23512358 TTTTCTCCTATTGACAT-ATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
23512422 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
*
23512487 CTCCACTATATGACCATCTATAC
131 CTCCACAATATGACCATCTATAC
23512510 TTTT
1 TTTT
23512514 ATTTTCTTTT
Statistics
Matches: 150, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
152 134 0.89
153 16 0.11
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.46
Consensus pattern (153 bp):
TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
CTCCACAATATGACCATCTATAC
Found at i:23523446 original size:25 final size:25
Alignment explanation
Indices: 23523417--23523468 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
23523407 CCCTTGATTA
*
23523417 GTTCCAAGCAATCTTTAACAAGGGT
1 GTTCCAAGAAATCTTTAACAAGGGT
23523442 GTTCCAAGAAATCTTTAACAAGGGT
1 GTTCCAAGAAATCTTTAACAAGGGT
23523467 GT
1 GT
23523469 AAAAAGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (25 bp):
GTTCCAAGAAATCTTTAACAAGGGT
Found at i:23530250 original size:27 final size:27
Alignment explanation
Indices: 23530212--23530571 Score: 365
Period size: 27 Copynumber: 13.4 Consensus size: 27
23530202 TGTGATTCAT
*
23530212 GGTAAAATGACTGAAATACCTTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
23530239 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
23530266 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
*
23530293 GGTAAAATAACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * *
23530320 GGTAAAATGATTGAAATACCTTCGAAA
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** * *
23530347 GGTAAAATAACCAAAATACCCTCAAAA
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
23530374 GGTAAAAT-AATCGAAATACCCTCAAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
23530401 GAT-AAATGACTGAAATACCCCCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* ** *
23530427 GGTAAAAT-AATCGAAATACCCTTAAAA
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
23530454 GGTAAAATAACCGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * *
23530481 GATAAAATGATTGAAATACCC-CCAGAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
* *
23530508 GGTAAAATGA-TCGAAATAACCC-CAAAA
1 GGTAAAATGACT-GAAAT-ACCCTCGAAG
** *
23530535 TATAAAATGACTGAAATACCC-CCATAG
1 GGTAAAATGACTGAAATACCCTCGA-AG
23530562 GGTAAAATGA
1 GGTAAAATGA
23530572 TTGTTATACC
Statistics
Matches: 278, Mismatches: 45, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
26 31 0.11
27 239 0.86
28 8 0.03
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:23530318 original size:81 final size:82
Alignment explanation
Indices: 23530212--23530571 Score: 423
Period size: 81 Copynumber: 4.5 Consensus size: 82
23530202 TGTGATTCAT
* *
23530212 GGTAAAATGACTGAAATACCTTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
* *
23530277 T-GAAATACCCTCGAAG
66 TCGAAATACCCTCAAAA
* * * *
23530293 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGATTGAAATACCTTCGAAAGGTAAAATAAC
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
*
23530358 -CAAAATACCCTCAAAA
66 TCGAAATACCCTCAAAA
* * *
23530374 GGTAAAATAA-TCGAAATACCCTCAAAGGAT-AAATGACTGAAATACCCCCGAAGGGTAAAAT-A
1 GGTAAAATAACT-GAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGA
* *
23530436 ATCGAAATACCCTTAAAA
65 CTCGAAATACCCTCAAAA
* * * *
23530454 GGTAAAATAACCGAAATACCCTCGAAGGATAAAATGATTGAAATACCC-CCAGAGGGTAAAATGA
1 GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGA-AGGGTAAAATGA
23530518 -TCGAAATAACCC-CAAAA
65 CTCGAAAT-ACCCTCAAAA
** * *
23530535 TATAAAATGACTGAAATACCC-CCATAGGGTAAAATGA
1 GGTAAAATAACTGAAATACCCTCGA-AGGGTAAAATGA
23530572 TTGTTATACC
Statistics
Matches: 241, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.00
80 73 0.30
81 162 0.67
82 5 0.02
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (82 bp):
GGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGAC
TCGAAATACCCTCAAAA
Found at i:23530455 original size:107 final size:107
Alignment explanation
Indices: 23530224--23530515 Score: 338
Period size: 107 Copynumber: 2.7 Consensus size: 107
23530214 TAAAATGACT
* * * ** *
23530224 GAAATACCTTCGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGA-CTGAAATACCCT
1 GAAATACCTTCAAAAGGTAAAATAACCAAAATACCCTC-AAAGGTAAAATGATC-GAAATACCCT
* * * * *
23530288 CGAAGGGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGATT
64 CAAAGGATAAAATAACTGAAATACCCCCGAAGGGTAAAATAATC
* *
23530332 GAAATACCTTCGAAAGGTAAAATAACCAAAATACCCTCAAAAGGTAAAATAATCGAAATACCCTC
1 GAAATACCTTCAAAAGGTAAAATAACCAAAATACCCTC-AAAGGTAAAATGATCGAAATACCCTC
*
23530397 AAAGGAT-AAATGACTGAAATACCCCCGAAGGGTAAAATAATC
65 AAAGGATAAAATAACTGAAATACCCCCGAAGGGTAAAATAATC
* * * *
23530439 GAAATACCCTT-AAAAGGTAAAATAACCGAAATACCCTCGAAGGATAAAATGATTGAAATACCCC
1 GAAATA-CCTTCAAAAGGTAAAATAACCAAAATACCCTCAAAGG-TAAAATGATCGAAATACCCT
* *
23530503 CAGAGGGTAAAAT
64 CAAAGGATAAAAT
23530516 GATCGAAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
106 4 0.03
107 85 0.53
108 69 0.43
109 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (107 bp):
GAAATACCTTCAAAAGGTAAAATAACCAAAATACCCTCAAAGGTAAAATGATCGAAATACCCTCA
AAGGATAAAATAACTGAAATACCCCCGAAGGGTAAAATAATC
Found at i:23533563 original size:99 final size:99
Alignment explanation
Indices: 23533451--23533649 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
23533441 TCTATCTTCT
23533451 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
1 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
23533516 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
66 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
23533550 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
1 CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
23533615 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
66 GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
23533649 C
1 C
23533650 TTATGGCTAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (99 bp):
CCACTCAATTTTTGAAAGGAATTGAAGAGAGAAAAGAAAAAAATTCCCGAACTTCTTTTGCATGT
GTTAAGATTATGGCTTTAGTAATGAGCTACATAA
Found at i:23534218 original size:35 final size:35
Alignment explanation
Indices: 23534170--23534290 Score: 116
Period size: 35 Copynumber: 3.5 Consensus size: 35
23534160 TGATCAGCAT
* * *
23534170 TGGGCACATATTACTTCGGACGTTCCTATGAGTGT
1 TGGGCACACATTACTTCGGACGTTCCGATGAGTGC
* * *
23534205 TGGGCACACATTACTTCGAATGTACCGATGAGTGC
1 TGGGCACACATTACTTCGGACGTTCCGATGAGTGC
* ** * * *
23534240 TAGGTGCATATTACTTCAGACATTCCGATGAGTGC
1 TGGGCACACATTACTTCGGACGTTCCGATGAGTGC
* *
23534275 TGAGCACTCATTACTT
1 TGGGCACACATTACTT
23534291 TGGATGTACT
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (35 bp):
TGGGCACACATTACTTCGGACGTTCCGATGAGTGC
Found at i:23534289 original size:70 final size:70
Alignment explanation
Indices: 23534176--23534306 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 70
23534166 GCATTGGGCA
* * * * *
23534176 CATATTACTTCGGACGTTCCTATGAGTGTTGGGCACACATTACTTCGAATGTACCGATGAGTGCT
1 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAGTGCT
23534241 AGGTG
66 AGGTG
* * * *
23534246 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACTCATTACTTTGGATGTACTGATGAG
1 CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAG
23534307 CACTGGGTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 52 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (70 bp):
CATATTACTTCAGACATTCCGATGAGTGCTGAGCACACATTACTTCGAATGTACCGATGAGTGCT
AGGTG
Found at i:23535101 original size:31 final size:31
Alignment explanation
Indices: 23535066--23535128 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
23535056 TAAATGGCCC
* **
23535066 AGTAACTTCAATAAAAACTTTTGAATAATTT
1 AGTAACTTAAATAAAAACTTTCAAATAATTT
*
23535097 AGTAATTTAAATAAAAACTTTCAAATAATTT
1 AGTAACTTAAATAAAAACTTTCAAATAATTT
23535128 A
1 A
23535129 ATGACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (31 bp):
AGTAACTTAAATAAAAACTTTCAAATAATTT
Found at i:23550239 original size:17 final size:16
Alignment explanation
Indices: 23550213--23550246 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
23550203 ATGAACATTT
23550213 AAAACCATTAAGAAAC
1 AAAACCATTAAGAAAC
23550229 AAAAGCCATTAAGAAAC
1 AAAA-CCATTAAGAAAC
23550246 A
1 A
23550247 GACATTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAACCATTAAGAAAC
Found at i:23554950 original size:30 final size:30
Alignment explanation
Indices: 23554916--23554975 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
23554906 CATCTATTAT
23554916 CACAACTCGTAAAATTACGAACAAAAAAAA
1 CACAACTCGTAAAATTACGAACAAAAAAAA
23554946 CACAACTCGTAAAATTACGAACAAAAAAAA
1 CACAACTCGTAAAATTACGAACAAAAAAAA
23554976 AACCCAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.20, G:0.07, T:0.13
Consensus pattern (30 bp):
CACAACTCGTAAAATTACGAACAAAAAAAA
Found at i:23557045 original size:19 final size:20
Alignment explanation
Indices: 23557004--23557045 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
23556994 ATTTCTAAGC
* *
23557004 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
23557024 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
23557043 CAT
1 CAT
23557046 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:23560752 original size:24 final size:24
Alignment explanation
Indices: 23560725--23560770 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23560715 AGAACAGTCC
*
23560725 CAAAAGGAAATGTAGGAGCAGCTT
1 CAAAAGGAAATGAAGGAGCAGCTT
* *
23560749 CAAAAGTAAATGAATGAGCAGC
1 CAAAAGGAAATGAAGGAGCAGC
23560771 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (24 bp):
CAAAAGGAAATGAAGGAGCAGCTT
Found at i:23568924 original size:44 final size:42
Alignment explanation
Indices: 23568876--23569739 Score: 319
Period size: 44 Copynumber: 19.9 Consensus size: 42
23568866 CATAATTTAA
*
23568876 TAAAATCAAAGGTCATATCTCCCTAAAGTTGCAGTGGAGCAGAT
1 TAAAATC-AA-GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
** * * * *
23568920 TAAAATCTTGGGTCTTATCTCTCTACAGTTGCAG-AGAGCATA-
1 TAAAATC--AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
*** * *
23568962 TCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGA-CTAGAC
1 TAAAATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC-AGAT
* * *
23569004 TAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACT
1 TAA--AATCAAGTCTTATCTC-CCTAAAGTTGCAGTGGAGCAGA-T
* * * *
23569049 GAAGATGGTAAATCTTATCTCCCTAAAGTTGCAGTGGAGCA-AGT
1 TAAAAT--CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-T
** * * * *
23569093 TAAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGAT
1 TAAAATC-A-AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
** * * *
23569137 TAAAATCTTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-
1 TAAAATC-AAG-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
*** * * * *
23569179 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAAC
1 TAAAATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
* * * *
23569221 TAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGAC
1 TAA--AATCAAGTCTTATCTC-CCTAAAGTTGCAGTGGAGCAGAT
** *
23569265 TAAAGATGGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGT
1 TAAA-AT--CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
** * *
23569310 TAAAGCCGATAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TAAAATC-A-AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
* * * *
23569354 T-AAATCATTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAAGA-
1 TAAAATCA--AG-TCTTATCTCCCTAAAGTTGCAGTGGAGC-AGAT
*** * * * * * *
23569397 TCGCACCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGAC
1 TAAAATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
* * * *
23569439 TAAGTAAGCAGGTCTTATC-CTCTTGAAGTTGCAGTGG-GACAGAT
1 TAA--AATCAAGTCTTATCTC-CCTAAAGTTGCAGTGGAG-CAGAT
* * * * *
23569483 TGAAGATGGCGAA-TCTTATGTCCCTGAAGTTGTAGTGGAGCAGAC
1 T-AAAAT--C-AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
* * *
23569528 TAAGTAAGCAAGTCTTATC-CTCTTGAAGTTGCAGTAGG-GCAGACT
1 TAA--AATCAAGTCTTATCTC-CCTAAAGTTGCAGT-GGAGCAGA-T
* * * *
23569573 GAAGATGGCGAA-TCTTATCTCCCTGAAGTTGCAATGGAGCAGAT
1 TAAAAT--C-AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
* * * * * *
23569617 TAAGACCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 TAAAATC-A-AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
* * * *
23569661 TAAAATCACAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-
1 TAAAATCA-AG-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
*** * *
23569703 TCGCATCTAGTCTTATCTCCCTGACA-TTGCAGTGGAG
1 TAAAATCAAGTCTTATCTCCCT-AAAGTTGCAGTGGAG
23569740 TAGACTGCAG
Statistics
Matches: 613, Mismatches: 148, Indels: 121
0.70 0.17 0.14
Matches are distributed among these distances:
40 59 0.10
41 41 0.07
42 24 0.04
43 44 0.07
44 316 0.52
45 120 0.20
46 9 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
TAAAATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
Found at i:23569081 original size:89 final size:87
Alignment explanation
Indices: 23568972--23569656 Score: 348
Period size: 89 Copynumber: 7.8 Consensus size: 87
23568962 TCGCATCTAG
*
23568972 TCTTATCTCCCTAAAGTTGCAGTGGACTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAC-AGACTAAGTAAGCAAGTCTTAT-CTCCTGAAGTTGCA
* *
23569037 GTGGGGCAGACTGAAGATGGTAAA
64 GTGGAGCAGACTGAAGATGGCAAA
* * * *
23569061 TCTTATCTCCCTAAAGTTGCAGTGG--AG-C-AAGTTAAAGCCGATAATCCTATCTCCCTAAAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGACAGACTAAG-T-AAG-C-A-AGTCTTATCT-CCTGAAGT
* * * * *****
23569122 TGTAGTGGAGCGGA-TTAAAATCTTGGA
60 TGCAGTGGAGCAGACTGAAGATGGCAAA
* * * * * *
23569149 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCTAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-CAGACTAAGTAAGCAAGTCTTATCT-CCTGAAGTTGCA
* * *
23569210 GTGGAGCAAACT-AAG-TAAGCAAG
64 GTGGAGCAGACTGAAGAT-GGCAAA
* * ** *
23569233 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTAAAG-ATGGCAAACCTTATCTCCCTAAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGT-GGACAGACT-AAGTA-AGCAAGTCTTATCT-CCTGAAGTT
* * * *
23569296 GCAGTGGAGCAG-GTTAA-A-GCCGATAG
61 GCAGTGGAGCAGACTGAAGATGGC-A-AA
* * * * *
23569322 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCATTG-GA-TCTTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGA-CAGACTAAGT-A-AGCAAGTCTTATCTC-CTGAAGTTG
* *
23569385 CA---GAG-AG-C--AAGATCGCACCTAG
62 CAGTGGAGCAGACTGAAGATGGCA---AA
* * * *
23569407 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAGTAAGCAGGTCTTATCCTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-CAGACTAAGTAAGCAAGTCTTAT-CTCCTGAAGTTGCA
* *
23569472 GTGG-GACAGATTGAAGATGGCGAA
64 GTGGAG-CAGACTGAAGATGGCAAA
* * *
23569496 TCTTATGTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-CAGACTAAGTAAGCAAGTCTTAT-CTCCTGAAGTTGCA
*
23569561 GTAGG-GCAGACTGAAGATGGCGAA
64 GT-GGAGCAGACTGAAGATGGCAAA
* * * * *
23569585 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAG--ACCAATAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGA-CAGACTAAGTAAGC-A-AGTCTTATCT-CCTGAAGTTG
23569648 CAGTGGAGC
62 CAGTGGAGC
23569657 GGATTAAAAT
Statistics
Matches: 464, Mismatches: 83, Indels: 98
0.72 0.13 0.15
Matches are distributed among these distances:
82 2 0.00
83 5 0.01
84 55 0.12
85 61 0.13
86 11 0.02
87 8 0.02
88 60 0.13
89 245 0.53
90 10 0.02
92 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGACAGACTAAGTAAGCAAGTCTTATCTCCTGAAGTTGCAGT
GGAGCAGACTGAAGATGGCAAA
Found at i:23569273 original size:217 final size:217
Alignment explanation
Indices: 23568891--23569524 Score: 1004
Period size: 217 Copynumber: 2.9 Consensus size: 217
23568881 TCAAAGGTCA
*
23568891 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAATCTTGGGTCTTATCTCTCT-ACAGTTGCAGA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTGA-AGTTGCAGA
* *
23568955 GAGCATATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGA-CTAGACTAAGTAAGCAAGTCT
65 GAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTAAGTAAGCAAGTCT
*
23569019 TATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCCCTAAAGTTGCAGT
129 TATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGT
23569084 GGAGCAAGTTAAAGCCGATAATCC
194 GGAGCAAGTTAAAGCCGATAATCC
* *
23569108 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCAGAG
*
23569173 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTA
66 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
* *
23569238 TCCTCCTGAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTAAAGTTGCAGTGG
131 TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGG
* *
23569303 AGCAGGTTAAAGCCGATAGTCC
196 AGCAAGTTAAAGCCGATAATCC
*
23569325 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAATCATTGGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAATC-TTGGATCTTATCTCTCTGAAGTTGCAGA
* * * *
23569389 GAGCAAGATCGCACCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAAGTAAGCAGGTCT
65 GAGC-AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
* * * * * * *
23569454 TATCCTCTTGAAGTTGCAGTGGGACAGATTGAAGATGGCGAATCTTATGTCCCTGAAGTTGTAGT
129 TATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGT
23569519 GGAGCA
194 GGAGCA
23569525 GACTAAGTAA
Statistics
Matches: 385, Mismatches: 28, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
216 5 0.01
217 261 0.68
218 119 0.31
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTA
TCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGG
AGCAAGTTAAAGCCGATAATCC
Found at i:23569561 original size:307 final size:306
Alignment explanation
Indices: 23569189--23569745 Score: 886
Period size: 307 Copynumber: 1.8 Consensus size: 306
23569179 TCGCATCTAG
23569189 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
* * * *
23569254 GTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAA-AGCCG
66 GTAGGGCAGACTAAAGATGGCAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAGA-CCA
* **
23569318 ATAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAATCATTGGATCTTATCTCTCTGAAG
130 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCA-CAGATCTTATCTCTCTGAAG
* *
23569382 TTGCAGAGAGCAAGATCGCACCTAGTCTTATCTCCCTGA-AGTTGTAGTGGAGTAGACTAAGTAA
194 TTACAGAGAGC-AGATCGCACCTAGTCTTATCTCCCTGACA-TTGCAGTGGAGTAGACTAAGTAA
23569446 GCAGGTCTTATCCTCTTGAAGTTGCAGTGGGACAGATTGAAGATGGCGAA
257 GCAGGTCTTATCCTCTTGAAGTTGCAGTGGGACAGATTGAAGATGGCGAA
* * * *
23569496 TCTTATGTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
* * * *
23569561 GTAGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAGACCAA
66 GTAGGGCAGACTAAAGATGGCAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAGACCAA
*
23569626 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTT
*
23569691 ACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGACATTGCAGTGGAGTAGACT
196 ACAGAGAGCAGATCGCACCTAGTCTTATCTCCCTGACATTGCAGTGGAGTAGACT
23569746 GCAGCACTAG
Statistics
Matches: 228, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
306 42 0.18
307 179 0.79
308 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (306 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
GTAGGGCAGACTAAAGATGGCAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAGACCAA
TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTT
ACAGAGAGCAGATCGCACCTAGTCTTATCTCCCTGACATTGCAGTGGAGTAGACTAAGTAAGCAG
GTCTTATCCTCTTGAAGTTGCAGTGGGACAGATTGAAGATGGCGAA
Found at i:23571529 original size:19 final size:20
Alignment explanation
Indices: 23571488--23571529 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
23571478 ATTTCTATGC
* *
23571488 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
23571508 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
23571527 CAT
1 CAT
23571530 CACATCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:23576966 original size:15 final size:15
Alignment explanation
Indices: 23576946--23576976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23576936 ATTTTTTAGA
23576946 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
23576961 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
23576976 A
1 A
23576977 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:23577172 original size:20 final size:20
Alignment explanation
Indices: 23577149--23577195 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23577139 TTTTTCTAGA
*
23577149 TTATATATATTTAAATTTTT
1 TTATATATATTTAAATATTT
* * *
23577169 TTATACATTTTTATATATTT
1 TTATATATATTTAAATATTT
23577189 TTA-ATAT
1 TTATATAT
23577196 GTATATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATATATTTAAATATTT
Found at i:23577183 original size:28 final size:28
Alignment explanation
Indices: 23577108--23577193 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
23577098 TATTTTTGTG
*
23577108 AATTTTTTTATAATTTTTA-ATAAATTAT
1 AATTTTTTTATAATTTTTATAT-ATTTAT
* *
23577136 AATTTTTTCTA-GA-TTATATATATTTA-
1 AATTTTTT-TATAATTTTTATATATTTAT
*
23577162 AATTTTTTTATACATTTTTATATATTTTT
1 AATTTTTTTATA-ATTTTTATATATTTAT
23577191 AAT
1 AAT
23577194 ATGTATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
25 2 0.04
26 8 0.17
27 9 0.20
28 22 0.48
29 5 0.11
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (28 bp):
AATTTTTTTATAATTTTTATATATTTAT
Found at i:23586058 original size:59 final size:59
Alignment explanation
Indices: 23585986--23586101 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
23585976 TGATAAAAGA
* * *
23585986 ATGTCTCTCACAGGTTACGTCTTTACTATTAGTGGTTGGGCCATAGTTGGAAAGTCGTT
1 ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCGTT
*
23586045 ATGTCTCTCACAGGGTACGTCTTTACTACTGGGGGTTGGGCCATAGTTGGAAAGTCG
1 ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCG
23586102 CTTTGCAGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (59 bp):
ATGTCTCTCACAGGGTACGTCTTTACTACTAGGGGTTGGGCCATAGTTGGAAAGTCGTT
Found at i:23589776 original size:29 final size:29
Alignment explanation
Indices: 23589743--23589798 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
23589733 AAAAGCACTT
23589743 TTTTTCAA-AATTTACC-GAAATGGGCCACA
1 TTTTT-AATAATTTACCAG-AATGGGCCACA
*
23589772 TTTTTAATTATTTACCAGAATGGGCCA
1 TTTTTAATAATTTACCAGAATGGGCCA
23589799 TTTTCGCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 21 0.88
30 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTTTAATAATTTACCAGAATGGGCCACA
Found at i:23599690 original size:28 final size:28
Alignment explanation
Indices: 23599650--23599703 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
23599640 TGAACCTACA
23599650 AACAACTTGTACATTTAACCAAGACCAT
1 AACAACTTGTACATTTAACCAAGACCAT
23599678 AACAACTTGTACATTTAACCAAGACC
1 AACAACTTGTACATTTAACCAAGACC
23599704 TTAAAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (28 bp):
AACAACTTGTACATTTAACCAAGACCAT
Found at i:23602773 original size:50 final size:50
Alignment explanation
Indices: 23602649--23602896 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
23602639 GATAATAACA
* * ** * *
23602649 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
23602700 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
23602750 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
23602800 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
23602855 ATGCCAATGCCATGTCCCA-ACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
23602897 TTACCAAATG
Statistics
Matches: 169, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 23 0.14
56 17 0.10
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23602779 original size:101 final size:105
Alignment explanation
Indices: 23602648--23602893 Score: 353
Period size: 100 Copynumber: 2.4 Consensus size: 105
23602638 TGATAATAAC
**
23602648 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGT-ATCGGTGCCCATGCCAT
* *
23602712 GTCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
23602750 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTATCGGTGCCCATGCCATG
23602813 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
23602855 ATGCCAATGCCATGTCCCA-ACATGGTCTTACATGGGATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
23602894 TCTTTACCAA
Statistics
Matches: 129, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
99 1 0.01
100 50 0.39
101 36 0.28
103 3 0.02
104 1 0.01
105 20 0.16
106 18 0.14
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTATCGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:23603011 original size:13 final size:13
Alignment explanation
Indices: 23602990--23603021 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23602980 GCTTGGATCA
*
23602990 TCATCAAATAAAT
1 TCATAAAATAAAT
23603003 TCATAAAATAAAT
1 TCATAAAATAAAT
23603016 TCATAA
1 TCATAA
23603022 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:23603264 original size:29 final size:30
Alignment explanation
Indices: 23603232--23603288 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23603222 CCTCGACTCT
23603232 AACTTTT-CAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
23603261 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
23603289 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:23610327 original size:50 final size:50
Alignment explanation
Indices: 23610203--23610451 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
23610193 GATAATAACA
* * ** * *
23610203 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
23610254 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
23610304 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
23610354 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
23610409 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
23610452 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23610381 original size:100 final size:104
Alignment explanation
Indices: 23610202--23610451 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
23610192 TGATAATAAC
**
23610202 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
23610267 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
23610304 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
23610367 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
23610409 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23610452 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:23610567 original size:13 final size:13
Alignment explanation
Indices: 23610546--23610577 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23610536 GCTTGGATCA
*
23610546 TCATCAAATAAAT
1 TCATAAAATAAAT
23610559 TCATAAAATAAAT
1 TCATAAAATAAAT
23610572 TCATAA
1 TCATAA
23610578 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:23610824 original size:30 final size:30
Alignment explanation
Indices: 23610789--23610846 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23610779 CCTCGACTCT
*
23610789 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
23610819 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
23610847 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:23617667 original size:46 final size:45
Alignment explanation
Indices: 23617595--23617731 Score: 157
Period size: 46 Copynumber: 3.0 Consensus size: 45
23617585 ACAATGTTAT
* * * *
23617595 AACTCAGTATGATTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCCAA
* *
23617641 AACTCAATATGGTTTTCATTATTGAAATACCATACCTACGTTCCAA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCAA
* * * *
23617687 AAATCAGTATGGATTTCTTTACTGAATTACCATACCTATGTTCCA
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCCA
23617732 TACTTTGCCA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 75 0.97
47 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCCAA
Found at i:23622810 original size:37 final size:37
Alignment explanation
Indices: 23622760--23622869 Score: 107
Period size: 37 Copynumber: 3.0 Consensus size: 37
23622750 GAAATATACT
*** *
23622760 AGATGCTCATAAGAGCTAATCCACTTGATAACATGCC
1 AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
* *
23622797 AGATGCTCATAAGAGCCAATTCACCCAATAACACGCC
1 AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
* * *
23622834 A-ATTGCTCCTAAGAGCTAGTCCAACCGAA-AACACGC
1 AGA-TGCTCATAAGAGCTAATCC-ACCCAATAACACGC
23622870 AAAAACAGGG
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
36 1 0.02
37 54 0.90
38 5 0.08
ACGTcount: A:0.36, C:0.29, G:0.15, T:0.19
Consensus pattern (37 bp):
AGATGCTCATAAGAGCTAATCCACCCAATAACACGCC
Found at i:23625196 original size:26 final size:28
Alignment explanation
Indices: 23625152--23625204 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
23625142 AAAGTTAATT
23625152 CAATTAAACAAATAAATTACATAAAATG
1 CAATTAAACAAATAAATTACATAAAATG
*
23625180 CAATT-AA-AAATGAATTACATAAAAT
1 CAATTAAACAAATAAATTACATAAAAT
23625205 TAGTTGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 17 0.71
27 2 0.08
28 5 0.21
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.26
Consensus pattern (28 bp):
CAATTAAACAAATAAATTACATAAAATG
Found at i:23633477 original size:22 final size:22
Alignment explanation
Indices: 23633452--23633494 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23633442 AACTTAATTC
*
23633452 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
23633474 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
23633495 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:23639406 original size:22 final size:22
Alignment explanation
Indices: 23639376--23639418 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23639366 ACACCAAAAC
* *
23639376 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
23639398 AGGCATTTAGCGGCGCTTTTT
1 AGGCATTTAGCGGCGCTTTTT
23639419 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:23639581 original size:43 final size:43
Alignment explanation
Indices: 23639534--23639697 Score: 242
Period size: 43 Copynumber: 3.8 Consensus size: 43
23639524 AGACCAAAAG
* *
23639534 CTTTAGCGATGCTTTCACCAAA-AAA-TCCGCTAAAGGTCATGGT
1 CTTTAGCGACGC-TT-ACCAAACAAACGCCGCTAAAGGTCATGGT
* *
23639577 CTTTAGCGGCGCTTACCACACAAACGCCGCTAAAGGTCATGGT
1 CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAGGTCATGGT
* *
23639620 CTTTAGCGGCGCTTACCAAACAAACGCCGCTAAAGGTCATGGA
1 CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAGGTCATGGT
23639663 CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAG
1 CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAG
23639698 ATAATGACCT
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 5 0.04
42 5 0.04
43 102 0.91
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (43 bp):
CTTTAGCGACGCTTACCAAACAAACGCCGCTAAAGGTCATGGT
Found at i:23639710 original size:43 final size:43
Alignment explanation
Indices: 23639560--23639719 Score: 241
Period size: 43 Copynumber: 3.7 Consensus size: 43
23639550 ACCAAAAAAT
* *
23639560 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCACACAAACG
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
*
23639603 CCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCAAACAAACG
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
*
23639646 CCGCTAAAGGTCATGGA-CTTTAGCGACGCTTACCAAACAAACG
1 CCGCTAAAGGTCAT-GATCTTTAGCGGCGCTTACCAAACAAACG
* * *
23639689 CCGCTAAAGATAATGACCTTTAGCGGCGCTT
1 CCGCTAAAGGTCATGATCTTTAGCGGCGCTT
23639720 CTCTTTACAA
Statistics
Matches: 109, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
42 2 0.02
43 106 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (43 bp):
CCGCTAAAGGTCATGATCTTTAGCGGCGCTTACCAAACAAACG
Found at i:23639740 original size:44 final size:44
Alignment explanation
Indices: 23639682--23639767 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
23639672 CGCTTACCAA
* * *
23639682 ACAAACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTCTCTTT
1 ACAAACGCCGCTAAAAACAATGACATTTAGCGGCGCTTCTCTTT
* ** *
23639726 ACAAATGCCGCTAAAAACCCTGATATTTAGCGGCGCTTCTCT
1 ACAAACGCCGCTAAAAACAATGACATTTAGCGGCGCTTCTCT
23639768 CGAAAACGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (44 bp):
ACAAACGCCGCTAAAAACAATGACATTTAGCGGCGCTTCTCTTT
Found at i:23639829 original size:43 final size:44
Alignment explanation
Indices: 23639682--23639851 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 44
23639672 CGCTTACCAA
** ** * * **
23639682 ACAAACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTCTCTTT
1 ACAAACGCCGCTAAAGACCATGATATTTAGTGGCGCTTTTCTCC
* * * * * *
23639726 ACAAATGCCGCTAAAAACCCTGATATTTAGCGGCGCTTCTCTCG
1 ACAAACGCCGCTAAAGACCATGATATTTAGTGGCGCTTTTCTCC
* *
23639770 A-AAACGCCGTTGAAGACCATGATATTTAGTGGCGCTTTTC-CC
1 ACAAACGCCGCTAAAGACCATGATATTTAGTGGCGCTTTTCTCC
* * ** *
23639812 ACAAACGCCACTAAAGACCATTACCTTTAGTGGCGTTTTT
1 ACAAACGCCGCTAAAGACCATGATATTTAGTGGCGCTTTT
23639852 TAAAAACGCC
Statistics
Matches: 101, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
42 2 0.02
43 63 0.62
44 36 0.36
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGACCATGATATTTAGTGGCGCTTTTCTCC
Found at i:23639989 original size:10 final size:10
Alignment explanation
Indices: 23639967--23640003 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
23639957 CAATAAATCT
23639967 ATAATATAT-A
1 ATAA-ATATCA
23639977 ATAAATATCA
1 ATAAATATCA
23639987 ATAAATATCA
1 ATAAATATCA
23639997 ATAAATA
1 ATAAATA
23640004 AAATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAATATCA
Found at i:23640012 original size:20 final size:20
Alignment explanation
Indices: 23639967--23640012 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23639957 CAATAAATCT
* *
23639967 ATAATATATAATAAATATCA
1 ATAAAATATAATAAATATAA
23639987 AT-AAATATCAATAAATA-AA
1 ATAAAATAT-AATAAATATAA
23640006 ATAAAAT
1 ATAAAAT
23640013 TCGTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAATATAATAAATATAA
Found at i:23640307 original size:66 final size:66
Alignment explanation
Indices: 23640194--23640361 Score: 205
Period size: 66 Copynumber: 2.5 Consensus size: 66
23640184 TTCGCTGCAG
* * * *
23640194 CCTCTGCTTCTCTTGCTGCCGCATCTACTTTAAGCTGCTGCTAGAGTTCTTCATA-CTTTCGTTG
1 CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTTGCTGCTAGAGTTCTTCATATCTTT-GTTG
23640258 AA
65 AA
* *
23640260 CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTG
1 CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTTGCT-GCTAGAGTTCTTCATATCTTTGTTG
23640324 AA
65 AA
* * * * *
23640326 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTT
23640362 TTGTAATTTG
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 84 0.94
67 4 0.04
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTTGCTGCTGCATCTGCTTTAAGTTGCTGCTAGAGTTCTTCATATCTTTGTTGA
A
Found at i:23645849 original size:42 final size:41
Alignment explanation
Indices: 23645802--23645891 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 41
23645792 TCACTTATAA
* *
23645802 GTATTATTTC-ACTATGTAAGTTATCATATGATATATATTTAT
1 GTATTATGTCGACTATGTAAGTTAT-ATATGATATA-AGTTAT
* * *
23645844 GTATTATGTCGTATTATGTAAGTTATGTATTATATAAGTTAT
1 GTATTATGTCG-ACTATGTAAGTTATATATGATATAAGTTAT
23645886 GTATTA
1 GTATTA
23645892 ATAAGTTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 20 0.49
43 8 0.20
44 13 0.32
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.50
Consensus pattern (41 bp):
GTATTATGTCGACTATGTAAGTTATATATGATATAAGTTAT
Found at i:23645871 original size:9 final size:9
Alignment explanation
Indices: 23645857--23645912 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
23645847 TTATGTCGTA
23645857 TTATGTAAG
1 TTATGTAAG
23645866 TTATGT-A-
1 TTATGTAAG
*
23645873 TTATATAAG
1 TTATGTAAG
23645882 TTATGT-A-
1 TTATGTAAG
*
23645889 TTA-ATAAG
1 TTATGTAAG
23645897 TTATGTAAG
1 TTATGTAAG
23645906 TTATGTA
1 TTATGTA
23645913 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 6 0.16
9 22 0.58
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23645897 original size:15 final size:16
Alignment explanation
Indices: 23645854--23645903 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
23645844 GTATTATGTC
*
23645854 GTATTATGTAAGTTAT
1 GTATTATATAAGTTAT
23645870 GTATTATATAAGTTAT
1 GTATTATATAAGTTAT
23645886 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
23645901 GTA
1 GTA
23645904 AGTTATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTATTATATAAGTTAT
Found at i:23645946 original size:43 final size:40
Alignment explanation
Indices: 23645857--23645963 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 40
23645847 TTATGTCGTA
* * *
23645857 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATCATATAAATTATATATTAATAAG
*
23645897 TTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
1 TTATGTAAGTTATGTATCA-TAT-AAAT-TATATATTAATAAG
23645940 TTATGTAA-TATATGTAT--TATAAAT
1 TTATGTAAGT-TATGTATCATATAAAT
23645964 GGGTAATTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.07
40 20 0.34
41 2 0.03
42 4 0.07
43 28 0.48
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTTATGTATCATATAAATTATATATTAATAAG
Found at i:23645957 original size:24 final size:24
Alignment explanation
Indices: 23645883--23645958 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 24
23645873 TTATATAAGT
23645883 TATGTATTAATAAGTTATGTAAGT-
1 TATGTATTAATAAGTTATGTAA-TA
* **
23645907 TATGTA-TCAT---TT-TAAAATA
1 TATGTATTAATAAGTTATGTAATA
*
23645926 TATATATTAATAAGTTATGTAATA
1 TATGTATTAATAAGTTATGTAATA
23645950 TATGTATTA
1 TATGTATTA
23645959 TAAATGGGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
18 1 0.03
19 8 0.21
20 5 0.13
23 5 0.13
24 19 0.50
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (24 bp):
TATGTATTAATAAGTTATGTAATA
Found at i:23646583 original size:15 final size:15
Alignment explanation
Indices: 23646558--23646593 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
23646548 TTAATAAAAG
23646558 GAAAA-AGTAGAAAT
1 GAAAACAGTAGAAAT
23646572 GAAAACAGTAGAAAT
1 GAAAACAGTAGAAAT
23646587 GAAAACA
1 GAAAACA
23646594 AATTGGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.64, C:0.06, G:0.19, T:0.11
Consensus pattern (15 bp):
GAAAACAGTAGAAAT
Found at i:23648537 original size:10 final size:9
Alignment explanation
Indices: 23648500--23648534 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
23648490 ATACATTATT
*
23648500 TTAAATTGA
1 TTAAATTTA
*
23648509 TAAAATTTA
1 TTAAATTTA
23648518 TTAAATTTA
1 TTAAATTTA
23648527 TTAAATTT
1 TTAAATTT
23648535 TATACAGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
TTAAATTTA
Found at i:23651092 original size:41 final size:41
Alignment explanation
Indices: 23651003--23651095 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
23650993 AAACGCCGCT
* *
23651003 AACGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTCTAAGA
1 AACGCCGCTAATGCTCAGGTATTTAGCGGCGTTTTCTAAGA
***
23651044 TGTGCCGCTAATGCTCAGGTATTTAGCGGCGCTTTT-TAAGA
1 AACGCCGCTAATGCTCAGGTATTTAGCGGCG-TTTTCTAAGA
23651085 AACGCCGCTAA
1 AACGCCGCTAA
23651096 AAACCGGAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 39 0.91
42 4 0.09
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (41 bp):
AACGCCGCTAATGCTCAGGTATTTAGCGGCGTTTTCTAAGA
Found at i:23651111 original size:41 final size:41
Alignment explanation
Indices: 23651066--23651218 Score: 195
Period size: 41 Copynumber: 3.7 Consensus size: 41
23651056 GCTCAGGTAT
*
23651066 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAAACCGGAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
* * *
23651107 TTAGCGGCGCTTTCTAATAAACGCCGCTAAAGACCTGAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
* *
23651148 TTAGCGGCGCATCTT-AGAAAACGCCGCTAAAGACCGGAGCA
1 TTAGCGGCGCTTTTTAAG-AAACGCCGCTAAAGACCGGAGCA
*
23651189 TTAGTGGCG-TGTTTTAA-AAAGCGCCGCTAA
1 TTAGCGGCGCT-TTTTAAGAAA-CGCCGCTAA
23651219 GGGCCCCAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 4 0.04
41 91 0.95
42 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
Found at i:23651347 original size:40 final size:39
Alignment explanation
Indices: 23651279--23651387 Score: 157
Period size: 40 Copynumber: 2.7 Consensus size: 39
23651269 TTTGAAAACA
*
23651279 CCGCTAATGCTTGTTTTTAGCGGCGTTTTACA-AATAGCG
1 CCGCTAATGCTTGTTTTTTGCGGCGTTTTACATAAT-GCG
*
23651318 CCGCTAATGCTTGTTTTTTGGCGGCGTTTTACATAATTCG
1 CCGCTAATGCTTGTTTTTT-GCGGCGTTTTACATAATGCG
*
23651358 CCGCTAATGCTTGATTTTTTGTGGCGTTTT
1 CCGCTAATGCTTG-TTTTTTGCGGCGTTTT
23651388 TTGTCCAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
39 18 0.28
40 37 0.58
41 9 0.14
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (39 bp):
CCGCTAATGCTTGTTTTTTGCGGCGTTTTACATAATGCG
Found at i:23655736 original size:12 final size:12
Alignment explanation
Indices: 23655721--23655765 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
23655711 CGTGTCCCAG
23655721 CCCGTGTGTCCT
1 CCCGTGTGTCCT
23655733 CCCGTGTGT-CT
1 CCCGTGTGTCCT
* *
23655744 GCCTGTGTGTCCG
1 -CCCGTGTGTCCT
23655757 CCCGTGTGT
1 CCCGTGTGT
23655766 ATATTCGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 2 0.07
12 25 0.89
13 1 0.04
ACGTcount: A:0.00, C:0.36, G:0.31, T:0.33
Consensus pattern (12 bp):
CCCGTGTGTCCT
Found at i:23657498 original size:42 final size:42
Alignment explanation
Indices: 23657390--23657642 Score: 289
Period size: 42 Copynumber: 6.0 Consensus size: 42
23657380 CACTTACAGA
*
23657390 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAAG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
*
23657431 AAAATAAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTATG
1 -AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
* * *
23657475 AAAAAACACCGCTAAAGATCACGTTCTTTAGCGGCGCTTAAG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
*
23657517 AAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTT-TGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAT--G
* * * * *
23657560 ATAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGTT
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTATG
* * * *
23657602 CAAAAACGCTGCTAATAG-TAATGTTATTTAGCGGCGCTTAT
1 AAAAAACGCCGCTAA-AGATCATGTTCTTTAGCGGCGCTTAT
23657643 TTCACAAACG
Statistics
Matches: 184, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
42 109 0.59
43 71 0.39
44 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATG
Found at i:23657607 original size:85 final size:83
Alignment explanation
Indices: 23657390--23657642 Score: 287
Period size: 85 Copynumber: 3.0 Consensus size: 83
23657380 CACTTACAGA
* *
23657390 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGATCAC
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-TGAAAA-AAACGCCGCTAAAGATCAT
23657455 GTTCTTTAGCGGCGCTTATG
64 GTTCTTTAGCGGCGCTTATG
* * * *
23657475 AAAAAACACCGCTAAAGATCACGTTCTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA-AAAAAACGCCGCTAAAGATCATG
23657540 TTCTTTAGCGGCGCTT-TGGG
65 TTCTTTAGCGGCGCTTAT--G
* * * ** * *
23657560 ATAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGTTCAAAAACGCTGCTAATAG-TAA
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTG-AAAAAAACGCCGCTAA-AGATCA
*
23657623 TGTTATTTAGCGGCGCTTAT
63 TGTTCTTTAGCGGCGCTTAT
23657643 TTCACAAACG
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
83 1 0.01
84 36 0.25
85 103 0.72
86 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (83 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGAAAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCGCTTATG
Found at i:23657616 original size:127 final size:129
Alignment explanation
Indices: 23657371--23657641 Score: 318
Period size: 127 Copynumber: 2.1 Consensus size: 129
23657361 ATGTCGCTAA
* * *
23657371 CTTTTGCGGCACTTACAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAT
1 CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGAAAAT
* * *
23657436 AAACGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTATGAAAAAACACCGCTAA-AGATCACGTT
66 AAACGCCGCTAAAGATAACGTTCTATAGCGGCGCTTATGAAAAAACACCGCTAATAG-TAACGTT
** **
23657500 CTTTAGCGGCGCTTA-AG-AAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTTTG-GGAT
1 CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGAAAAT
* * ** * * *
23657562 AAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGTTCAAAAACGCTGCTAATAGTAATGT
66 -AAACGCCGCTAAAGA-TAACGTTCTATAGCGGCGCTTATGAAAAAACACCGCTAATAGTAACGT
23657626 T
129 T
*
23657627 ATTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
23657642 TTTCACAAAC
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
126 3 0.02
127 101 0.83
128 4 0.03
129 13 0.11
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (129 bp):
CTTTAGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATATTCTTTAGCGGCGCTAAGAAAAT
AAACGCCGCTAAAGATAACGTTCTATAGCGGCGCTTATGAAAAAACACCGCTAATAGTAACGTT
Found at i:23658119 original size:21 final size:22
Alignment explanation
Indices: 23658093--23658160 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
23658083 CTTCTCTCGT
* *
23658093 TGCTTCTCCT-GTTGTGGCCTC
1 TGCTTCTCCTCGCTGTAGCCTC
*
23658114 TGCTTCT-CTCGCTGTAGCATC
1 TGCTTCTCCTCGCTGTAGCCTC
*
23658135 TGCTTC-CCTCGCTGTCGCCTC
1 TGCTTCTCCTCGCTGTAGCCTC
23658156 TGCTT
1 TGCTT
23658161 TAAGTTGTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.95
ACGTcount: A:0.03, C:0.37, G:0.21, T:0.40
Consensus pattern (22 bp):
TGCTTCTCCTCGCTGTAGCCTC
Found at i:23663641 original size:9 final size:9
Alignment explanation
Indices: 23663616--23663753 Score: 105
Period size: 9 Copynumber: 15.8 Consensus size: 9
23663606 GATTTAGGAA
23663616 TAAGTTATG
1 TAAGTTATG
23663625 T-A-TTATG
1 TAAGTTATG
23663632 TAAGTTATG
1 TAAGTTATG
23663641 TAAGTTATG
1 TAAGTTATG
*
23663650 TAAGTTGTG
1 TAAGTTATG
*
23663659 TAAGTTGTG
1 TAAGTTATG
*
23663668 TAAGTTGTG
1 TAAGTTATG
23663677 T-A-TTATG
1 TAAGTTATG
* *
23663684 AAACTTATG
1 TAAGTTATG
*
23663693 TAAATTATG
1 TAAGTTATG
*
23663702 T--CTTATG
1 TAAGTTATG
23663709 TAAGTTATG
1 TAAGTTATG
23663718 TATTA-TTATG
1 TA--AGTTATG
23663728 TAGAG-TATG
1 TA-AGTTATG
23663737 TATTA-TTATG
1 TA--AGTTATG
23663747 TAAGTTA
1 TAAGTTA
23663754 CACTATGTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
7 16 0.15
8 5 0.05
9 72 0.67
10 14 0.13
11 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:23663645 original size:25 final size:25
Alignment explanation
Indices: 23663616--23663719 Score: 127
Period size: 25 Copynumber: 4.1 Consensus size: 25
23663606 GATTTAGGAA
23663616 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
23663641 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
23663668 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
23663693 TAAATTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
23663718 TA
1 TA
23663720 TTATTATGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 42 0.65
26 2 0.03
27 21 0.32
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:23663669 original size:27 final size:26
Alignment explanation
Indices: 23663616--23663753 Score: 115
Period size: 25 Copynumber: 5.3 Consensus size: 26
23663606 GATTTAGGAA
23663616 TAAGTTATGT-ATTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
23663641 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGTAA-TTATGTAAGTTATG
* * *
23663668 TAAGTTGTGT-ATTATGAAACTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
* *
23663693 TAAATTATGT-CTTATGTAAGTTATG
1 TAAGTTATGTAATTATGTAAGTTATG
*
23663718 TATTA-TTATGTAGAGTATGTATTA-TTATG
1 TA--AGTTATGTA-ATTATGTA--AGTTATG
23663747 TAAGTTA
1 TAAGTTA
23663754 CACTATGTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 15
0.76 0.12 0.13
Matches are distributed among these distances:
25 42 0.47
26 8 0.09
27 23 0.26
28 9 0.10
29 7 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
TAAGTTATGTAATTATGTAAGTTATG
Found at i:23663706 original size:16 final size:16
Alignment explanation
Indices: 23663687--23663723 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23663677 TATTATGAAA
23663687 CTTATGTAAATTATGT
1 CTTATGTAAATTATGT
*
23663703 CTTATGTAAGTTATGT
1 CTTATGTAAATTATGT
*
23663719 ATTAT
1 CTTAT
23663724 TATGTAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (16 bp):
CTTATGTAAATTATGT
Found at i:23663728 original size:19 final size:19
Alignment explanation
Indices: 23663704--23663753 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
23663694 AAATTATGTC
23663704 TTATGTAAGTTATGTATTA
1 TTATGTAAGTTATGTATTA
23663723 TTATGTAGAG-TATGTATTA
1 TTATGTA-AGTTATGTATTA
23663742 TTATGTAAGTTA
1 TTATGTAAGTTA
23663754 CACTATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (19 bp):
TTATGTAAGTTATGTATTA
Found at i:23663824 original size:37 final size:36
Alignment explanation
Indices: 23663778--23663907 Score: 98
Period size: 37 Copynumber: 3.3 Consensus size: 36
23663768 CCTTATTGTG
23663778 TATTATGTAACTTATTTAATTTATGTAGGGTATGCAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATG-AT
* * * * *
23663815 TATTATGTAAGTTATTATGTAAGTTATGTAAGTTTTTGTTTTTGTT
1 TATTATGTAACTTA-T-T-TAATTTATGT-AG-----G-GTATGAT
*
23663861 TATTATGTAACTTATTTAATTTATGTACGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATG-AT
23663898 TATTATGTAA
1 TATTATGTAA
23663908 GTAGGGATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
36 3 0.04
37 25 0.35
38 1 0.01
39 1 0.01
40 9 0.13
41 2 0.03
42 1 0.01
43 9 0.13
44 1 0.01
45 1 0.01
46 15 0.21
47 3 0.04
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.53
Consensus pattern (36 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGAT
Found at i:23663831 original size:12 final size:12
Alignment explanation
Indices: 23663814--23663841 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23663804 AGGGTATGCA
23663814 TTATTATGTAAG
1 TTATTATGTAAG
23663826 TTATTATGTAAG
1 TTATTATGTAAG
23663838 TTAT
1 TTAT
23663842 GTAAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:23663877 original size:83 final size:83
Alignment explanation
Indices: 23663773--23664017 Score: 323
Period size: 95 Copynumber: 2.8 Consensus size: 83
23663763 TTTAACCTTA
* *
23663773 TTGTGTATTATGTAACTTATTTAATTTATGTAGGGTATGCATTATTATGTAAGTTATTATGTAAG
1 TTGTGTATTATGTAACTTATTTAATTTATGTACGGTATGTATTATTATGTAAGTTATTATGTAAG
23663838 TTATGTAAGTTTTTGTTT
66 TTATGTAAGTTTTTGTTT
*
23663856 TTGTTTATTATGTAACTTATTTAATTTATGTACGGTATGTATTATTATGTAAGTAGGGATGTAGG
1 TTGTGTATTATGTAACTTATTTAATTTATGTACGGTATGTATTATTA--T--GTA---A-GT---
23663921 ATATTATGTAAGTTATGTAAGTTTTTGTTT
55 -TATTATGTAAGTTATGTAAGTTTTTGTTT
* *
23663951 TTGTGTATTATGTAACTTATTTAATTTATGTATGTTATGTATTATTATGT-A-TTATTATGTAAG
1 TTGTGTATTATGTAACTTATTTAATTTATGTACGGTATGTATTATTATGTAAGTTATTATGTAAG
23664014 TTAT
66 TTAT
23664018 TATGTAGGTT
Statistics
Matches: 144, Mismatches: 6, Indels: 26
0.82 0.03 0.15
Matches are distributed among these distances:
81 15 0.10
83 44 0.31
85 2 0.01
87 4 0.03
90 1 0.01
91 4 0.03
93 1 0.01
95 73 0.51
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.53
Consensus pattern (83 bp):
TTGTGTATTATGTAACTTATTTAATTTATGTACGGTATGTATTATTATGTAAGTTATTATGTAAG
TTATGTAAGTTTTTGTTT
Found at i:23663992 original size:34 final size:34
Alignment explanation
Indices: 23663922--23663995 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
23663912 GGATGTAGGA
* * * *
23663922 TATTATGTAAGTTATGTAAGTTTTTGTTTTTGTG
1 TATTATGTAACTTATGTAAGTTTATGTTGTTATG
*
23663956 TATTATGTAACTTATTTAA-TTTATGTATGTTATG
1 TATTATGTAACTTATGTAAGTTTATGT-TGTTATG
23663990 TATTAT
1 TATTAT
23663996 TATGTATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (34 bp):
TATTATGTAACTTATGTAAGTTTATGTTGTTATG
Found at i:23664000 original size:10 final size:10
Alignment explanation
Indices: 23663976--23664035 Score: 68
Period size: 12 Copynumber: 5.7 Consensus size: 10
23663966 CTTATTTAAT
*
23663976 TTATGTA-TG
1 TTATGTATTA
23663985 TTATGTATTA
1 TTATGTATTA
23663995 TTATGTATTA
1 TTATGTATTA
23664005 TTATGTAAGTTA
1 TTATGT-A-TTA
23664017 TTATGTAGGTTA
1 TTATGTA--TTA
23664029 TTATGTA
1 TTATGTA
23664036 AGTCATTATG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
9 7 0.15
10 17 0.37
11 2 0.04
12 20 0.43
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (10 bp):
TTATGTATTA
Found at i:23664019 original size:12 final size:12
Alignment explanation
Indices: 23663992--23664046 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
23663982 ATGTTATGTA
23663992 TTATTATGT-A-
1 TTATTATGTAAG
23664002 TTATTATGTAAG
1 TTATTATGTAAG
*
23664014 TTATTATGTAGG
1 TTATTATGTAAG
23664026 TTATTATGTAAG
1 TTATTATGTAAG
*
23664038 TCATTATGT
1 TTATTATGT
23664047 TGGTTATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.22
11 1 0.03
12 30 0.75
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:23664034 original size:24 final size:24
Alignment explanation
Indices: 23663985--23664053 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
23663975 TTTATGTATG
23663985 TTATGT-A-TTATTATGTA--TTA
1 TTATGTAAGTTATTATGTAGGTTA
23664005 TTATGTAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
* *
23664029 TTATGTAAGTCATTATGTTGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
23664053 T
1 T
23664054 GTAAGTTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.14
21 1 0.02
22 10 0.23
24 26 0.60
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAGGTTA
Found at i:23664055 original size:21 final size:22
Alignment explanation
Indices: 23664005--23664059 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
23663995 TTATGTATTA
*
23664005 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
23664028 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
23664050 TTATGTAAGT
1 TTATGTAAGT
23664060 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:23664315 original size:18 final size:17
Alignment explanation
Indices: 23664271--23664326 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
23664261 TTATAAATTT
23664271 AAATTACGTAAGTTATG
1 AAATTACGTAAGTTATG
* *
23664288 -AATTATGTAAGATATG
1 AAATTACGTAAGTTATG
23664304 TAAATTACGTAAGTTATG
1 -AAATTACGTAAGTTATG
23664322 AAATT
1 AAATT
23664327 TGAACTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.42
17 5 0.15
18 14 0.42
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.38
Consensus pattern (17 bp):
AAATTACGTAAGTTATG
Found at i:23664408 original size:34 final size:35
Alignment explanation
Indices: 23664333--23664425 Score: 136
Period size: 34 Copynumber: 2.7 Consensus size: 35
23664323 AATTTGAACT
** *
23664333 TTAAAA-AAAATTTAATATTTAAAAATATTCGTGA
1 TTAAAATAAAATAAAATATTTAAAAATATTCATGA
*
23664367 TTCAAATAAAATAAAATATTTAAAAA-ATTCATGA
1 TTAAAATAAAATAAAATATTTAAAAATATTCATGA
23664401 TTAAAATAAAATAAAATATTTAAAA
1 TTAAAATAAAATAAAATATTTAAAA
23664426 TATAACTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
34 36 0.68
35 17 0.32
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (35 bp):
TTAAAATAAAATAAAATATTTAAAAATATTCATGA
Found at i:23666120 original size:44 final size:44
Alignment explanation
Indices: 23666056--23666149 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
23666046 CTGGAAGGAG
* * *
23666056 GAAGGAGTCGATTTAGGGATTTCGGATTTCAAGAAATTCGGCAA
1 GAAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTCGGCAA
* *
23666100 GAAGGAGGCGATTTACGGATTTGGGAATTCAAGAAATTGGGCAA
1 GAAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTCGGCAA
23666144 GAAGGA
1 GAAGGA
23666150 CGCAAGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.33, T:0.23
Consensus pattern (44 bp):
GAAGGAGGCGATTTACGGATTTCGGAATTCAAGAAATTCGGCAA
Found at i:23667337 original size:15 final size:15
Alignment explanation
Indices: 23667304--23667343 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
23667294 TCTAAACCCC
*
23667304 AAACCCCAAA-TCTT
1 AAACCCCAAACTCCT
23667318 AAACCCCAAACTCCT
1 AAACCCCAAACTCCT
*
23667333 AAACCCTAAAC
1 AAACCCCAAAC
23667344 CCAAAACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.45, C:0.40, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCCCAAACTCCT
Found at i:23667346 original size:21 final size:21
Alignment explanation
Indices: 23667295--23667360 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
23667285 CTAAAGCAGT
*
23667295 CTAAACCCCAAACCCCAAATC
1 CTAAACCCCAAACCCCAAACC
* *
23667316 TTAAACCCCAAACTCCTAAACC
1 CTAAACCCCAAAC-CCCAAACC
* *
23667338 CTAAACCCAAAACACCATAACC
1 CTAAACCCCAAACCCCA-AACC
23667360 C
1 C
23667361 ACATCATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (21 bp):
CTAAACCCCAAACCCCAAACC
Done.