Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 34 of 402
Found at i:7074146 original size:17 final size:17
Alignment explanation
Indices: 7074096--7074138 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7074086 TTTATGTGAA
7074096 TTACCGTTAT-ATAT-TT
1 TTACC-TTATCATATCTT
7074112 TTACCTTATCATATCTT
1 TTACCTTATCATATCTT
*
7074129 TTCCCTTATC
1 TTACCTTATC
7074139 CATTCTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 11 0.46
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.53
Consensus pattern (17 bp):
TTACCTTATCATATCTT
Found at i:7076082 original size:45 final size:46
Alignment explanation
Indices: 7076008--7076254 Score: 156
Period size: 46 Copynumber: 5.4 Consensus size: 46
7075998 TAAAATTAAA
* * * *
7076008 ATGTGAAGTCACAAAGTTTTTGAA-A-AAGAACCTTTGAAACTTTGG
1 ATGTGAATTC-CAAAATTTTTCAATATAAGAATCTTTGAAACTTTGG
* *
7076053 ATGTGAATTCCAAAATTTTTCAAT-TAAGAATCTTT-AAAATTTCAG
1 ATGTGAATTCCAAAATTTTTCAATATAAGAATCTTTGAAACTTT-GG
* * * * * * *
7076098 ATGTGACTCCCAAAATTTTTGAATGT--GAATTTTTGAAATTTTAG
1 ATGTGAATTCCAAAATTTTTCAATATAAGAATCTTTGAAACTTTGG
* * *
7076142 ATGTGAAACTT--AGAAACTTTT-AATATGAGAATCTTTGAAATTTTGG
1 ATGTG-AA-TTCCA-AAATTTTTCAATATAAGAATCTTTGAAACTTTGG
* * * *
7076188 TTATGAAATAT-TAAAATTTTTCAA-ATATGAATCTTTGAAACTTTGG
1 ATGTG-AAT-TCCAAAATTTTTCAATATAAGAATCTTTGAAACTTTGG
*
7076234 ATGTGAATCTCTAAAATTTTT
1 ATGTGAAT-TCCAAAATTTTT
7076255 TAAATTTTTG
Statistics
Matches: 162, Mismatches: 26, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
44 36 0.22
45 59 0.36
46 64 0.40
47 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (46 bp):
ATGTGAATTCCAAAATTTTTCAATATAAGAATCTTTGAAACTTTGG
Found at i:7076139 original size:22 final size:23
Alignment explanation
Indices: 7076114--7076253 Score: 74
Period size: 22 Copynumber: 6.2 Consensus size: 23
7076104 CTCCCAAAAT
*
7076114 TTTTGA-ATGTGAATTTTTGAAA
1 TTTTGAGATGTGAATCTTTGAAA
* *
7076136 TTTT-AGATGTGAAACTTAGAAA
1 TTTTGAGATGTGAATCTTTGAAA
* * *
7076158 CTTTTAATATGAGAATCTTTGAAA
1 -TTTTGAGATGTGAATCTTTGAAA
* * * *
7076182 TTTTG-GTTATGAAAT-ATTAAAA
1 TTTTGAGATGTG-AATCTTTGAAA
* * *
7076204 TTTTTCAAATATGAATCTTTGAAA
1 -TTTTGAGATGTGAATCTTTGAAA
* * *
7076228 CTTTG-GATGTGAATCTCTAAAA
1 TTTTGAGATGTGAATCTTTGAAA
7076250 TTTT
1 TTTT
7076254 TTAAATTTTT
Statistics
Matches: 85, Mismatches: 26, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
21 1 0.01
22 40 0.47
23 21 0.25
24 23 0.27
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (23 bp):
TTTTGAGATGTGAATCTTTGAAA
Found at i:7076332 original size:22 final size:23
Alignment explanation
Indices: 7076279--7076332 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
7076269 GAAATTTCTA
* *
7076279 AAAATTTTTGTATATAAATCTTTG
1 AAAA-TTTTATATATAAATATTTG
*
7076303 AAAA-TTTATATGTAAATATTT-
1 AAAATTTTATATATAAATATTTG
7076324 AAAATTTTA
1 AAAATTTTA
7076333 AAATGAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 4 0.15
22 18 0.69
24 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (23 bp):
AAAATTTTATATATAAATATTTG
Found at i:7076457 original size:16 final size:16
Alignment explanation
Indices: 7076433--7076469 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7076423 TGTGAATCCC
*
7076433 TGAATTCTTGTAAATT
1 TGAAATCTTGTAAATT
7076449 TGAAATCTTGTAAATT
1 TGAAATCTTGTAAATT
7076465 TGAAA
1 TGAAA
7076470 ATTTTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (16 bp):
TGAAATCTTGTAAATT
Found at i:7076558 original size:18 final size:18
Alignment explanation
Indices: 7076537--7076724 Score: 137
Period size: 18 Copynumber: 10.3 Consensus size: 18
7076527 AAAAATATTA
*
7076537 AAATTTTTGTAAATCTTG
1 AAATTTTTGTGAATCTTG
7076555 AAATTTTTTGTGAATCTTG
1 AAA-TTTTTGTGAATCTTG
*
7076574 AAATGTTTTGCGAATCTTG
1 AAAT-TTTTGTGAATCTTG
** **
7076593 AAACCTTAATGAATCTTG
1 AAATTTTTGTGAATCTTG
* *
7076611 AAGTTTTT-TAAAATCTTG
1 AAATTTTTGT-GAATCTTG
* *** *
7076629 -AATAATTTACAAACTTTTG
1 AAAT-TTTTGTGAA-TCTTG
* **
7076648 GAATCATTGTGAATCTTG
1 AAATTTTTGTGAATCTTG
*
7076666 AAATTTTTGTGAATCTTA
1 AAATTTTTGTGAATCTTG
*
7076684 AAATTTTTGTGAATCTTA
1 AAATTTTTGTGAATCTTG
* *
7076702 AAATTTTTGTGAGTTTTG
1 AAATTTTTGTGAATCTTG
7076720 AAATT
1 AAATT
7076725 ACTACAAATT
Statistics
Matches: 134, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.02
18 87 0.65
19 41 0.31
20 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (18 bp):
AAATTTTTGTGAATCTTG
Found at i:7077048 original size:6 final size:6
Alignment explanation
Indices: 7077025--7077090 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
7077015 TTGGCCCAAA
* * * *
7077025 AATTTT AATTTC AATTTT AGTTTT AATTTT GACTTTT -ATTTG AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT -AATTTT AATTTT AATTTT
* *
7077073 AGTTTT AATTTG AATTTT
1 AATTTT AATTTT AATTTT
7077091 TATTATTTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
5 3 0.07
6 38 0.83
7 5 0.11
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:7077092 original size:30 final size:31
Alignment explanation
Indices: 7077025--7077094 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
7077015 TTGGCCCAAA
*
7077025 AATTTTAATTTCAATTTTAGTTTTAATTTTG
1 AATTTTTATTTCAATTTTAGTTTTAATTTTG
* *
7077056 -ACTTTTATTTGAATTTTAGTTTTAA-TTTG
1 AATTTTTATTTCAATTTTAGTTTTAATTTTG
7077085 AATTTTTATT
1 AATTTTTATT
7077095 ATTTTATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (31 bp):
AATTTTTATTTCAATTTTAGTTTTAATTTTG
Found at i:7078369 original size:227 final size:227
Alignment explanation
Indices: 7077959--7078406 Score: 736
Period size: 227 Copynumber: 2.0 Consensus size: 227
7077949 ATTAGAGGAT
* *
7077959 TTTTTATGTATTTAATTTTTTTTATGAATTTTACCAAACTATTGAAAAATCTTATAACCAAATTT
1 TTTTTATGTATTTAATTTTTTTTATGAATGTTACCAAACTATTGAAAAATCTCATAACCAAATTT
* *
7078024 TTATGCAAAAAATAATTTTTTTTCATAAAAAAATAAAATTTCAATCCTACTAATAGATTAAAGGA
66 TTATGAAAAAAATAATTTTTTTTCATAAAAAAATAAAATTTCAATCCTACCAATAGATTAAAGGA
* * * * * * *
7078089 TAATTCTTGATAGAAAATCTTATAAATAGATTAAAGGATATTTTTTTACTATAAACTCGGTTTAT
131 TAATTCTTGATAAAAAATCTTACAAATAGATAAAAAGATATTTTCTGACTATAAACTCAGTTTAT
7078154 AGATATTTATTTCTGGAAGCAAAATTGGAGGG
196 AGATATTTATTTCTGGAAGCAAAATTGGAGGG
***
7078186 TTTTTATGTATTTAATTTTTTTTATGAATGTTACCAAACTATTGGGGAATCTCATAACCAAATTT
1 TTTTTATGTATTTAATTTTTTTTATGAATGTTACCAAACTATTGAAAAATCTCATAACCAAATTT
*
7078251 TTATGAAAAAAATAATTTTTTTTCATAAAAAAATAAAATTTCAATCCTACCAATAGATTAGAGGA
66 TTATGAAAAAAATAATTTTTTTTCATAAAAAAATAAAATTTCAATCCTACCAATAGATTAAAGGA
*
7078316 TAATTTTTGATAAAAAAATCTTACAAATAGATAAAAAGATA-TTTCTGACTATAAACTCAGTTTA
131 TAATTCTTGAT-AAAAAATCTTACAAATAGATAAAAAGATATTTTCTGACTATAAACTCAGTTTA
7078380 TAGATATTTATTTCTGGAAGCAAAATT
195 TAGATATTTATTTCTGGAAGCAAAATT
7078407 AAATGAATCT
Statistics
Matches: 204, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
227 179 0.88
228 25 0.12
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (227 bp):
TTTTTATGTATTTAATTTTTTTTATGAATGTTACCAAACTATTGAAAAATCTCATAACCAAATTT
TTATGAAAAAAATAATTTTTTTTCATAAAAAAATAAAATTTCAATCCTACCAATAGATTAAAGGA
TAATTCTTGATAAAAAATCTTACAAATAGATAAAAAGATATTTTCTGACTATAAACTCAGTTTAT
AGATATTTATTTCTGGAAGCAAAATTGGAGGG
Found at i:7094567 original size:21 final size:21
Alignment explanation
Indices: 7094541--7094581 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7094531 ATTTGCGATC
* *
7094541 AAAATTCAATGTTCGTAATTA
1 AAAATTCAATATTCGCAATTA
7094562 AAAATTCAATATTCGCAATT
1 AAAATTCAATATTCGCAATT
7094582 TGAAGTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATTCAATATTCGCAATTA
Found at i:7094660 original size:14 final size:14
Alignment explanation
Indices: 7094641--7094668 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7094631 CAAAGATTCT
7094641 CAATTTGAATTTAA
1 CAATTTGAATTTAA
7094655 CAATTTGAATTTAA
1 CAATTTGAATTTAA
7094669 TGACTTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
CAATTTGAATTTAA
Found at i:7094811 original size:18 final size:18
Alignment explanation
Indices: 7094790--7094895 Score: 74
Period size: 18 Copynumber: 5.9 Consensus size: 18
7094780 AAAGATCACA
*
7094790 AAAAATTAAAAGATTTGT
1 AAAAATTAAAAGATTCGT
*
7094808 AAAAGATTCAAA-ATTCGT
1 AAAA-ATTAAAAGATTCGT
* * *
7094826 AAAGATTTAAAGATTCGC
1 AAAAATTAAAAGATTCGT
* * *
7094844 AAAGATTCAAAGATTCGCA
1 AAAAATTAAAAGATTCG-T
* *
7094863 AAAAATTCAAA-ATTCAT
1 AAAAATTAAAAGATTCGT
7094880 AAAAATTTAAAA-ATTC
1 AAAAA-TTAAAAGATTC
7094896 ACAAAAGATT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.15
18 46 0.63
19 16 0.22
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (18 bp):
AAAAATTAAAAGATTCGT
Found at i:7094854 original size:8 final size:8
Alignment explanation
Indices: 7094809--7094859 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
7094799 AAGATTTGTA
7094809 AAAGATTC
1 AAAGATTC
7094817 AAA-ATTC
1 AAAGATTC
*
7094824 GTAAAGATTT
1 --AAAGATTC
7094834 AAAGATTCGC
1 AAAGATT--C
7094844 AAAGATTC
1 AAAGATTC
7094852 AAAGATTC
1 AAAGATTC
7094860 GCAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.11
8 19 0.53
9 3 0.08
10 10 0.28
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (8 bp):
AAAGATTC
Found at i:7094871 original size:54 final size:55
Alignment explanation
Indices: 7094756--7094990 Score: 205
Period size: 54 Copynumber: 4.3 Consensus size: 55
7094746 GATTTGTAAT
* * * * * * *
7094756 AAAA-TCAAAGATTCATAAAAATCTAAAGA-TCACAAAAAATTAAAAGATTTGTAA
1 AAAATTCAAA-ATTCATAAAGATTTAAAGATTCGCAAAAGATTCAAAGATTCGCAA
* *
7094810 AAGATTCAAAATTCGTAAAGATTTAAAGATTCGC-AAAGATTCAAAGATTCGCAA
1 AAAATTCAAAATTCATAAAGATTTAAAGATTCGCAAAAGATTCAAAGATTCGCAA
* * * *
7094864 AAAATTCAAAATTCATAAAAATTTAAAAATTCACAAAAGATTC-AAGATTCAC-A
1 AAAATTCAAAATTCATAAAGATTTAAAGATTCGCAAAAGATTCAAAGATTCGCAA
* * ** * * *
7094917 AATATTCAAATATTCACAAAGATACAAAGATTCGCAAAAGATT-TAATATTCAC-A
1 AAAATTCAAA-ATTCATAAAGATTTAAAGATTCGCAAAAGATTCAAAGATTCGCAA
*
7094971 AAGATTCAAAAATTCATAAA
1 AAAATTC-AAAATTCATAAA
7094991 AAGATTCAAG
Statistics
Matches: 150, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
53 10 0.07
54 121 0.81
55 19 0.13
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.26
Consensus pattern (55 bp):
AAAATTCAAAATTCATAAAGATTTAAAGATTCGCAAAAGATTCAAAGATTCGCAA
Found at i:7094896 original size:18 final size:18
Alignment explanation
Indices: 7094830--7094992 Score: 87
Period size: 18 Copynumber: 9.1 Consensus size: 18
7094820 ATTCGTAAAG
* * *
7094830 ATTTAAAGATTCGCAAAG
1 ATTTAAAAATTCACAAAA
* * *
7094848 ATTCAAAGATTCGCAAAA
1 ATTTAAAAATTCACAAAA
* * *
7094866 AATTCAAAATTCATAAAA
1 ATTTAAAAATTCACAAAA
7094884 ATTTAAAAATTCACAAAA
1 ATTTAAAAATTCACAAAA
* * *
7094902 GA-TTCAAGATTCACAAAT
1 -ATTTAAAAATTCACAAAA
* * *
7094920 ATTCAAATATTCACAAAG
1 ATTTAAAAATTCACAAAA
** * *
7094938 ATACAAAGATTCGCAAAA
1 ATTTAAAAATTCACAAAA
* *
7094956 GATTT-AATATTCACAAAG
1 -ATTTAAAAATTCACAAAA
* *
7094974 ATTCAAAAATTCATAAAA
1 ATTTAAAAATTCACAAAA
7094992 A
1 A
7094993 GATTCAAGAT
Statistics
Matches: 110, Mismatches: 31, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
17 4 0.04
18 103 0.94
19 3 0.03
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.26
Consensus pattern (18 bp):
ATTTAAAAATTCACAAAA
Found at i:7094908 original size:36 final size:37
Alignment explanation
Indices: 7094760--7094992 Score: 158
Period size: 36 Copynumber: 6.5 Consensus size: 37
7094750 TGTAATAAAA
* * *
7094760 TCAAAGATTCATAAAAATCTAAAGA-TCACAAAAAAT
1 TCAAAGATTCATAAAAATTTAAAAATTCACAAAAGAT
* ** * **
7094796 TAAAAGATTTGTAAAAGA-TTCAAAATTC-GTAAAGAT
1 TCAAAGATTCATAAAA-ATTTAAAAATTCACAAAAGAT
* ** * * * * *
7094832 TTAAAGATTCGCAAAGATTCAAAGATTCGCAAAAAAT
1 TCAAAGATTCATAAAAATTTAAAAATTCACAAAAGAT
7094869 TCAAA-ATTCATAAAAATTTAAAAATTCACAAAAGAT
1 TCAAAGATTCATAAAAATTTAAAAATTCACAAAAGAT
* * * *
7094905 TC-AAGATTCACAAATATTCAAATATTCAC-AAAGAT
1 TCAAAGATTCATAAAAATTTAAAAATTCACAAAAGAT
* ** *
7094940 ACAAAGATTCGCAAAAGATTT-AATATTCAC-AAAGAT
1 TCAAAGATTCATAAAA-ATTTAAAAATTCACAAAAGAT
*
7094976 TCAAAAATTCATAAAAA
1 TCAAAGATTCATAAAAA
7094993 GATTCAAGAT
Statistics
Matches: 151, Mismatches: 39, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
35 11 0.07
36 125 0.83
37 15 0.10
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.26
Consensus pattern (37 bp):
TCAAAGATTCATAAAAATTTAAAAATTCACAAAAGAT
Found at i:7095016 original size:54 final size:53
Alignment explanation
Indices: 7094853--7095022 Score: 132
Period size: 54 Copynumber: 3.1 Consensus size: 53
7094843 CAAAGATTCA
* * * * * *
7094853 AAGATTCGCAAAAAATTC-AAAATTCATAAAAA-TTTAAAAATTCACAAAAGATTC
1 AAGATTCAC-AAAGATTCAAAAATTCATAAAAAGATTCAAGATTCA-AAAA-ATTT
* * * * *
7094907 AAGATTCACAAATATTCAAATATTC--ACAAAGATACAAAGATTCGCAAAAGATTT
1 AAGATTCACAAAGATTCAAAAATTCATAAAAAGATTC-AAGATT--CAAAAAATTT
*
7094961 AATATTCACAAAGATTCAAAAATTCATAAAAAGATTCAAGATTCAAAAAATTTT
1 AAGATTCACAAAGATTCAAAAATTCATAAAAAGATTCAAGATTCAAAAAA-TTT
7095015 AAAGATTC
1 -AAGATTC
7095023 GTAAAAGATT
Statistics
Matches: 90, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
52 4 0.04
53 14 0.16
54 47 0.52
55 15 0.17
56 10 0.11
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (53 bp):
AAGATTCACAAAGATTCAAAAATTCATAAAAAGATTCAAGATTCAAAAAATTT
Found at i:7095056 original size:37 final size:36
Alignment explanation
Indices: 7094942--7095059 Score: 100
Period size: 37 Copynumber: 3.2 Consensus size: 36
7094932 ACAAAGATAC
* *
7094942 AAAGATTCGCAAAAGATT-TAATATTCACAAAGA-TTCA
1 AAAGATTCGTAAAAGATTCT-AGATT--CAAAGATTTCA
* * * *
7094979 AAA-ATTCATAAAAAGATTCAAGATTCAAAAAATTT-T
1 AAAGATTCGT-AAAAGATTCTAGATTC-AAAGATTTCA
7095015 AAAGATTCGTAAAAGATTCTAGATTCAAAGATTTACA
1 AAAGATTCGTAAAAGATTCTAGATTCAAAGATTT-CA
7095052 AAAGATTC
1 AAAGATTC
7095060 AAAATTCGCA
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
35 8 0.12
36 26 0.41
37 30 0.47
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (36 bp):
AAAGATTCGTAAAAGATTCTAGATTCAAAGATTTCA
Found at i:7095096 original size:18 final size:18
Alignment explanation
Indices: 7095050--7095100 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
7095040 CAAAGATTTA
* * *
7095050 CAAAAGATTCAAAATTCG
1 CAAAAGATTCAAGACTAG
*
7095068 C-AAATATTCAAGACTAG
1 CAAAAGATTCAAGACTAG
7095085 CAAAAGATTCAAGACT
1 CAAAAGATTCAAGACT
7095101 CAAATATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.22
Consensus pattern (18 bp):
CAAAAGATTCAAGACTAG
Found at i:7095299 original size:21 final size:21
Alignment explanation
Indices: 7095275--7095330 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
7095265 GATTTTAAAA
7095275 ATTCACA-TCTAAAATTCAAAG
1 ATTCACATTC-AAAATTCAAAG
7095296 ATTCACATTCAAAATTCAAAG
1 ATTCACATTCAAAATTCAAAG
7095317 ATTCACATTCAAAA
1 ATTCACATTCAAAA
7095331 AAATAAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.29
Consensus pattern (21 bp):
ATTCACATTCAAAATTCAAAG
Found at i:7096407 original size:19 final size:21
Alignment explanation
Indices: 7096370--7096409 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7096360 TTTTTTTTTC
*
7096370 TTTTTTCACATTCTTTTCATT
1 TTTTTTCACATTCTATTCATT
7096391 TTTTTTCAC-TT-TATTCATT
1 TTTTTTCACATTCTATTCATT
7096410 AATGATATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTCACATTCTATTCATT
Found at i:7099814 original size:55 final size:55
Alignment explanation
Indices: 7099743--7099855 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
7099733 CTAACTAGGG
*
7099743 TTATGTTCTAATTATGGATAGACATGGCTCTAACTTAAAGTTGAGTTTTTATGTT
1 TTATATTCTAATTATGGATAGACATGGCTCTAACTTAAAGTTGAGTTTTTATGTT
* *
7099798 TTATATTCTAATTATGGATAGACATGGCTTTAACTTAAGGTTGAGTTTTTATGTT
1 TTATATTCTAATTATGGATAGACATGGCTCTAACTTAAAGTTGAGTTTTTATGTT
7099853 TTA
1 TTA
7099856 CTACATGTGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (55 bp):
TTATATTCTAATTATGGATAGACATGGCTCTAACTTAAAGTTGAGTTTTTATGTT
Found at i:7100889 original size:17 final size:17
Alignment explanation
Indices: 7100848--7100903 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
7100838 TTTCATAATC
7100848 AAAATA-AATAATAAATA
1 AAAATATAA-AATAAATA
* * *
7100865 ATAGTATAAGATAAATA
1 AAAATATAAAATAAATA
7100882 AAAATATAAAATATAA-A
1 AAAATATAAAATA-AATA
7100899 AAAAT
1 AAAAT
7100904 TGCTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAATATAAAATAAATA
Found at i:7100896 original size:24 final size:24
Alignment explanation
Indices: 7100851--7100897 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7100841 CATAATCAAA
* *
7100851 ATAAATAATAAATAATAGTATAAG
1 ATAAATAATAAATAAAAATATAAG
7100875 ATAAATAA-AAATATAAAATATAA
1 ATAAATAATAAATA-AAAATATAA
7100898 AAAAATTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
ATAAATAATAAATAAAAATATAAG
Found at i:7102930 original size:16 final size:16
Alignment explanation
Indices: 7102909--7102942 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7102899 TTTTTACCTC
7102909 GTTAACCCTTCTTTTT
1 GTTAACCCTTCTTTTT
7102925 GTTAACCCTTCTTTTT
1 GTTAACCCTTCTTTTT
7102941 GT
1 GT
7102943 CGTTTCTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.09, T:0.56
Consensus pattern (16 bp):
GTTAACCCTTCTTTTT
Found at i:7103306 original size:23 final size:23
Alignment explanation
Indices: 7103280--7103324 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7103270 TAATTAATTA
7103280 AAAAATAAAAAAAAAAACAAAAC
1 AAAAATAAAAAAAAAAACAAAAC
* * *
7103303 AAAACTGAAAGAAAAAACAAAA
1 AAAAATAAAAAAAAAAACAAAA
7103325 GCATATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.82, C:0.09, G:0.04, T:0.04
Consensus pattern (23 bp):
AAAAATAAAAAAAAAAACAAAAC
Found at i:7103720 original size:22 final size:24
Alignment explanation
Indices: 7103695--7103752 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 24
7103685 ATTATATTTA
7103695 AATGTACATATCTTA-TAA-ATAT
1 AATGTACATATCTTATTAACATAT
* *
7103717 AATGT--ATATATTATTAACTTAT
1 AATGTACATATCTTATTAACATAT
*
7103739 AATGTACAAATCTT
1 AATGTACATATCTT
7103753 TATGGGTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 13 0.46
24 5 0.18
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (24 bp):
AATGTACATATCTTATTAACATAT
Found at i:7110162 original size:2 final size:2
Alignment explanation
Indices: 7110150--7110181 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7110140 ATCATGTGTA
*
7110150 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7110182 GTATGTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7112143 original size:22 final size:22
Alignment explanation
Indices: 7112118--7112181 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
7112108 TATATATTAT
7112118 TAATTTAATTTTTATTTTTAAA
1 TAATTTAATTTTTATTTTTAAA
* *
7112140 TAATTTTTATTTTTAATTTTTACA
1 TAA-TTTAATTTTT-ATTTTTAAA
* *
7112164 T-ATATAATTCTTATTTTT
1 TAATTTAATTTTTATTTTT
7112182 TATTTTTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 6 0.17
22 10 0.29
23 10 0.29
24 9 0.26
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (22 bp):
TAATTTAATTTTTATTTTTAAA
Found at i:7112145 original size:17 final size:17
Alignment explanation
Indices: 7112123--7112155 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7112113 ATTATTAATT
7112123 TAATTTTTATTTTTAAA
1 TAATTTTTATTTTTAAA
7112140 TAATTTTTATTTTTAA
1 TAATTTTTATTTTTAA
7112156 TTTTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTTATTTTTAAA
Found at i:7112171 original size:28 final size:28
Alignment explanation
Indices: 7112139--7112196 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
7112129 TTATTTTTAA
*
7112139 ATAATTTTTATTTTTAATTTTTACATAT
1 ATAATTCTTATTTTTAATTTTTACATAT
*
7112167 ATAATTCTTATTTTTTATTTTTACATAT
1 ATAATTCTTATTTTTAATTTTTACATAT
7112195 AT
1 AT
7112197 GTGAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (28 bp):
ATAATTCTTATTTTTAATTTTTACATAT
Found at i:7113187 original size:23 final size:23
Alignment explanation
Indices: 7113161--7113218 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
7113151 TTAATAAAAT
*
7113161 TTTTTATCATTTTACCTTTTATA
1 TTTTTATTATTTTACCTTTTATA
* * *
7113184 TTTTAATTTTTTTACTTTTTATA
1 TTTTTATTATTTTACCTTTTATA
*
7113207 TATTTATTATTT
1 TTTTTATTATTT
7113219 CAAAATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTATTATTTTACCTTTTATA
Found at i:7115599 original size:22 final size:22
Alignment explanation
Indices: 7115569--7115627 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
7115559 CTCTCTTTTG
*
7115569 TTTATGCTCTTTATATAAAATA
1 TTTAAGCTCTTTATATAAAATA
7115591 TTTAAGCTCTTTATATAAAATA
1 TTTAAGCTCTTTATATAAAATA
7115613 TTTAAGCT-TTTATAT
1 TTTAAGCTCTTTATAT
7115628 CAATTGCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTAAGCTCTTTATATAAAATA
Found at i:7119744 original size:13 final size:13
Alignment explanation
Indices: 7119705--7119738 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
7119695 AATTATATAT
7119705 AAATAAATAATTAA
1 AAAT-AATAATTAA
7119719 AAATAATAATTAA
1 AAATAATAATTAA
7119732 AAATAAT
1 AAATAAT
7119739 TTTTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATTAA
Found at i:7122995 original size:20 final size:21
Alignment explanation
Indices: 7122972--7123010 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7122962 TTTCTTCTCC
*
7122972 TTCTTTT-TTTTTTCTTTTTT
1 TTCTTTTCTTTTTACTTTTTT
7122992 TTCTTTTCTTTTTACTTTT
1 TTCTTTTCTTTTTACTTTT
7123011 CTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (21 bp):
TTCTTTTCTTTTTACTTTTTT
Found at i:7122998 original size:14 final size:13
Alignment explanation
Indices: 7122975--7123004 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
7122965 CTTCTCCTTC
7122975 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
7122988 TTTTTTCTTTTCTT
1 TTTTTT-TTTTCTT
7123002 TTT
1 TTT
7123005 ACTTTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:7125207 original size:2 final size:2
Alignment explanation
Indices: 7125196--7125237 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
7125186 ATTAATCCTT
7125196 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7125237 T
1 T
7125238 TAAAGCCACT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7126964 original size:21 final size:21
Alignment explanation
Indices: 7126938--7126988 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
7126928 TAAAAAATCA
7126938 ATCAATCCTTATAAGGAAGGG
1 ATCAATCCTTATAAGGAAGGG
7126959 ATCAATCCTTATAAGGAAGGG
1 ATCAATCCTTATAAGGAAGGG
7126980 ATCAATCCT
1 ATCAATCCT
7126989 ATCTTTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCAATCCTTATAAGGAAGGG
Found at i:7128151 original size:27 final size:27
Alignment explanation
Indices: 7128121--7128214 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
7128111 CTATTTAATA
7128121 AATTATTCAAATTTAATATGTTTAGAT
1 AATTATTCAAATTTAATATGTTTAGAT
7128148 AATTATTCAAATTTAATATGTTTAGAT
1 AATTATTCAAATTTAATATGTTTAGAT
* * *
7128175 AATTATGCAAATTTAATATATTTGGAT
1 AATTATTCAAATTTAATATGTTTAGAT
*
7128202 AATTATTTAAATT
1 AATTATTCAAATT
7128215 CAAATCAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (27 bp):
AATTATTCAAATTTAATATGTTTAGAT
Found at i:7128799 original size:20 final size:20
Alignment explanation
Indices: 7128769--7128817 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
7128759 GAACAAGTAA
*
7128769 ATTCATTTTATGTCTTTTATT
1 ATTC-TTTTATGTCTTTTAGT
*
7128790 ATTCTTTTATTTCTTTTAGT
1 ATTCTTTTATGTCTTTTAGT
*
7128810 ATTATTTT
1 ATTCTTTT
7128818 TTTAGTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTCTTTTATGTCTTTTAGT
Found at i:7128882 original size:2 final size:2
Alignment explanation
Indices: 7128871--7128902 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7128861 TCTTTGTTTT
7128871 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7128903 CTTAGATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7129998 original size:18 final size:17
Alignment explanation
Indices: 7129971--7130004 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7129961 AGTTCATTAC
7129971 TTTTTATATTATATTTCA
1 TTTTTATATTAT-TTTCA
*
7129989 TTTTTTTATTATTTTC
1 TTTTTATATTATTTTC
7130005 CTCTATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATATTATTTTCA
Found at i:7130321 original size:3 final size:3
Alignment explanation
Indices: 7130313--7130358 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
7130303 TTTGTAATTC
7130313 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7130359 TGATGTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7131628 original size:6 final size:7
Alignment explanation
Indices: 7131609--7131636 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7131599 CAATTAATAA
7131609 AATTTTT
1 AATTTTT
7131616 AATTTTT
1 AATTTTT
7131623 AATTTTT
1 AATTTTT
7131630 AATTTTT
1 AATTTTT
7131637 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:7134245 original size:21 final size:21
Alignment explanation
Indices: 7134221--7134266 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7134211 TTAGGATAAG
* *
7134221 ACTAAAGGACGATGAGTCATA
1 ACTAAAGGACAATGACTCATA
* *
7134242 ACTAAAGTACAATGACTCATT
1 ACTAAAGGACAATGACTCATA
7134263 ACTA
1 ACTA
7134267 TGGTATAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (21 bp):
ACTAAAGGACAATGACTCATA
Found at i:7136041 original size:24 final size:24
Alignment explanation
Indices: 7136009--7136059 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
7135999 AAAAAAGTTT
*
7136009 TGGAGGTGAGGTTGGAGGATTGTA
1 TGGAAGTGAGGTTGGAGGATTGTA
7136033 TGGAAGTGAGGTTGGAGGATTGTA
1 TGGAAGTGAGGTTGGAGGATTGTA
7136057 TGG
1 TGG
7136060 TTGAAATGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (24 bp):
TGGAAGTGAGGTTGGAGGATTGTA
Found at i:7140795 original size:12 final size:12
Alignment explanation
Indices: 7140778--7140804 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7140768 TTGCAAAATA
7140778 TTTTATTTTTTT
1 TTTTATTTTTTT
7140790 TTTTATTTTTTT
1 TTTTATTTTTTT
7140802 TTT
1 TTT
7140805 ATCTTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTATTTTTTT
Found at i:7141691 original size:9 final size:9
Alignment explanation
Indices: 7141679--7141758 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
7141669 GAAAAACAAG
7141679 AAAAAATTC
1 AAAAAATTC
*
7141688 AAAAAAATTT
1 -AAAAAATTC
*
7141698 AAAAAGTTC
1 AAAAAATTC
**
7141707 AAAGAAAAAC
1 AAA-AAATTC
7141717 TAAAAAATTC
1 -AAAAAATTC
7141727 TAAGAAAATTC
1 -AA-AAAATTC
* *
7141738 TAAAAATTT
1 AAAAAATTC
*
7141747 TAAAAATTC
1 AAAAAATTC
7141756 AAA
1 AAA
7141759 TAAAAATCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
9 26 0.47
10 19 0.35
11 10 0.18
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (9 bp):
AAAAAATTC
Found at i:7141711 original size:41 final size:41
Alignment explanation
Indices: 7141666--7141743 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
7141656 TCAACATAAA
7141666 AAAGAAAAACAAGAAAAAATTC-AAAAAAATT-TAAAAAGTTC
1 AAAGAAAAAC--GAAAAAATTCTAAAAAAATTCTAAAAAGTTC
* *
7141707 AAAGAAAAACTAAAAAATTCTAAGAAAATTCTAAAAA
1 AAAGAAAAACGAAAAAATTCTAAAAAAATTCTAAAAA
7141744 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 9 0.27
40 8 0.24
41 16 0.48
ACGTcount: A:0.68, C:0.08, G:0.06, T:0.18
Consensus pattern (41 bp):
AAAGAAAAACGAAAAAATTCTAAAAAAATTCTAAAAAGTTC
Found at i:7141736 original size:11 final size:10
Alignment explanation
Indices: 7141679--7142070 Score: 92
Period size: 10 Copynumber: 39.9 Consensus size: 10
7141669 GAAAAACAAG
*
7141679 AAAAAATTCA
1 AAAAAATTCT
7141689 AAAAAATT-T
1 AAAAAATTCT
*
7141698 AAAAAGTTC-
1 AAAAAATTCT
**
7141707 AAAGAAAAACT
1 AAA-AAATTCT
7141718 AAAAAATTCT
1 AAAAAATTCT
7141728 AAGAAAATTCT
1 AA-AAAATTCT
7141739 -AAAAATT-T
1 AAAAAATTCT
* *
7141747 TAAAAATTCA
1 AAAAAATTCT
*
7141757 AATAAAAATCT
1 AA-AAAATTCT
*
7141768 AAAAAAATCT
1 AAAAAATTCT
** *
7141778 AAAATTTTCAA
1 AAAAAATTC-T
7141789 AAACAAATT-T
1 AAA-AAATTCT
** *
7141799 -AAATTTTGT
1 AAAAAATTCT
*
7141808 TAAAAATTCT
1 AAAAAATTCT
*
7141818 AACAAATT-T
1 AAAAAATTCT
** *
7141827 TCAAATTTCT
1 AAAAAATTCT
7141837 --AAAATTCT
1 AAAAAATTCT
* *
7141845 AAAATATTTT
1 AAAAAATTCT
*
7141855 GAAAAAACTTTT
1 -AAAAAA-TTCT
*
7141867 AGAAAATTC-
1 AAAAAATTCT
*
7141876 -AAAAA-TAT
1 AAAAAATTCT
* *
7141884 AAAATATTTT
1 AAAAAATTCT
**
7141894 AAAATTTTCTT
1 AAAAAATTC-T
7141905 AAAAAATT-T
1 AAAAAATTCT
7141914 AAAAAAATTCT
1 -AAAAAATTCT
7141925 AAAAAACTT-T
1 AAAAAA-TTCT
* ** *
7141935 -CAACCTTTT
1 AAAAAATTCT
*
7141944 AAAAAA-TGT
1 AAAAAATTCT
7141953 AAATTTTAAATT-T
1 AAA----AAATTCT
*
7141966 TAAAAATT-T
1 AAAAAATTCT
**
7141975 -AAAAATTAGA
1 AAAAAATT-CT
7141985 AAAAAATT-T
1 AAAAAATTCT
*
7141994 AAAAATTTCT
1 AAAAAATTCT
*
7142004 -AAAAATTTT
1 AAAAAATTCT
* *
7142013 AAAATATT-A
1 AAAAAATTCT
7142022 AAAAAATT-T
1 AAAAAATTCT
7142031 ATAAAAATTCT
1 A-AAAAATTCT
*
7142042 AGAAAATTCT
1 AAAAAATTCT
* *
7142052 AGAAAATTTT
1 AAAAAATTCT
7142062 AAAAAATTC
1 AAAAAATTC
7142071 GAAACTAATT
Statistics
Matches: 281, Mismatches: 64, Indels: 74
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.00
8 24 0.09
9 72 0.26
10 119 0.42
11 51 0.18
12 7 0.02
13 6 0.02
14 1 0.00
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:7141743 original size:29 final size:29
Alignment explanation
Indices: 7141711--7141773 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
7141701 AAGTTCAAAG
* *
7141711 AAAAACTAAAAAATTCTAAGAAAATTCTA
1 AAAAACTAAAAAATTCAAAGAAAAATCTA
** * *
7141740 AAAATTTTAAAAATTCAAATAAAAATCTA
1 AAAAACTAAAAAATTCAAAGAAAAATCTA
7141769 AAAAA
1 AAAAA
7141774 ATCTAAAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAAACTAAAAAATTCAAAGAAAAATCTA
Found at i:7141743 original size:50 final size:50
Alignment explanation
Indices: 7141681--7141801 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
7141671 AAAACAAGAA
*
7141681 AAAATTCAAAAAAATTTAAAAAGTTCAAAGAAAAA-CTAAAAAATTCTAAG
1 AAAATTCAAAAAAATTTAAAAA-TTCAAAGAAAAATCTAAAAAAATCTAAG
* * *
7141731 AAAATTCTAAAAATTTTAAAAATTCAAATAAAAATCTAAAAAAATCTAA-
1 AAAATTCAAAAAAATTTAAAAATTCAAAGAAAAATCTAAAAAAATCTAAG
**
7141780 AATTTTCAAAAACAAATTTAAA
1 AAAATTC-AAAA-AAATTTAAA
7141802 TTTTGTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
49 16 0.27
50 36 0.60
51 8 0.13
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.26
Consensus pattern (50 bp):
AAAATTCAAAAAAATTTAAAAATTCAAAGAAAAATCTAAAAAAATCTAAG
Found at i:7141917 original size:9 final size:9
Alignment explanation
Indices: 7141903--7142069 Score: 84
Period size: 9 Copynumber: 17.1 Consensus size: 9
7141893 TAAAATTTTC
7141903 TTAAAAAAT
1 TTAAAAAAT
7141912 TTAAAAAAAT
1 TT-AAAAAAT
7141922 TCTAAAAAACT
1 T-TAAAAAA-T
* ***
7141933 TTCAACCTT
1 TTAAAAAAT
7141942 TTAAAAAAT
1 TTAAAAAAT
*
7141951 GTAAATTTTAAAT
1 TTAAA----AAAT
*
7141964 TTTAAAAAT
1 TTAAAAAAT
7141973 TT-AAAAAT
1 TTAAAAAAT
*
7141981 TAGAAAAAAAT
1 T--TAAAAAAT
*
7141992 TTAAAAATT
1 TTAAAAAAT
*
7142001 TCTAAAAATT
1 T-TAAAAAAT
*
7142011 TTAAAATAT
1 TTAAAAAAT
*
7142020 TAAAAAAAT
1 TTAAAAAAT
7142029 TTATAAAAAT
1 TTA-AAAAAT
*
7142039 TCTAGAAAAT
1 T-TAAAAAAT
*
7142049 TCTAGAAAATT
1 T-TA-AAAAAT
7142060 TTAAAAAAT
1 TTAAAAAAT
7142069 T
1 T
7142070 CGAAACTAAT
Statistics
Matches: 121, Mismatches: 23, Indels: 28
0.70 0.13 0.16
Matches are distributed among these distances:
8 7 0.06
9 46 0.38
10 44 0.36
11 17 0.14
13 7 0.06
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:7141991 original size:19 final size:18
Alignment explanation
Indices: 7141967--7142039 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 18
7141957 TTTAAATTTT
7141967 AAAAATTTAAAAATTAGAA
1 AAAAATTTAAAAATTA-AA
**
7141986 AAAAATTTAAAAATTTCTA
1 AAAAATTTAAAAA-TTAAA
*
7142005 AAAATTTTAAAATATTAAA
1 AAAAATTTAAAA-ATTAAA
*
7142024 AAAATTTATAAAAATT
1 AAAAATT-TAAAAATT
7142040 CTAGAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 38 0.83
20 8 0.17
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAAATTTAAAAATTAAA
Found at i:7142016 original size:29 final size:28
Alignment explanation
Indices: 7141964--7142066 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 28
7141954 AATTTTAAAT
**
7141964 TTTAAAAA-TTTAAAAATTAGAAAAAAA
1 TTTAAAAATTTTAAAAATTTTAAAAAAA
*
7141991 TTTAAAAATTTCTAAAAATTTT-AAAATA
1 TTTAAAAATTT-TAAAAATTTTAAAAAAA
* * *
7142019 TTAAAAAAATTTATAAAAATTCT-AGAAAA
1 TT-TAAAAATTT-TAAAAATTTTAAAAAAA
7142048 TTCTAGAAAATTTTAAAAA
1 TT-TA-AAAATTTTAAAAA
7142067 ATTCGAAACT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 8 0.13
28 9 0.15
29 38 0.61
30 7 0.11
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (28 bp):
TTTAAAAATTTTAAAAATTTTAAAAAAA
Found at i:7142149 original size:16 final size:16
Alignment explanation
Indices: 7142128--7142164 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7142118 TTTTTATAAA
* *
7142128 TTTATAGAATTTCATT
1 TTTATAAAATTTAATT
7142144 TTTATAAAATTTAATT
1 TTTATAAAATTTAATT
7142160 TTTAT
1 TTTAT
7142165 GATTTTACTT
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:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAAAATTTAATT
Found at i:7142202 original size:18 final size:18
Alignment explanation
Indices: 7142181--7142218 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7142171 ACTTTTTTTC
* *
7142181 AATTTTTAATTTTTAAAA
1 AATTTTCAAATTTTAAAA
7142199 AATTTTCAAATTTTAAAA
1 AATTTTCAAATTTTAAAA
7142217 AA
1 AA
7142219 CTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTCAAATTTTAAAA
Found at i:7142312 original size:21 final size:20
Alignment explanation
Indices: 7142282--7142320 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7142272 TATAAATTTC
7142282 AAAAGTTTTTGAAA-ATTTTA
1 AAAAGTTTTT-AAACATTTTA
7142302 AAAATGTTTTTAAACATTT
1 AAAA-GTTTTTAAACATTT
7142321 AACCATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAAGTTTTTAAACATTTTA
Found at i:7142321 original size:20 final size:19
Alignment explanation
Indices: 7142275--7142322 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
7142265 TAAGTTTTAT
*
7142275 AAATTTCAAAAGTTTTTGA
1 AAATTTAAAAAGTTTTTGA
7142294 AAATTTTAAAAATGTTTTT-A
1 AAA-TTTAAAAA-GTTTTTGA
7142314 AACATTTAA
1 AA-ATTTAA
7142323 CCATTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 15 0.60
21 7 0.28
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (19 bp):
AAATTTAAAAAGTTTTTGA
Found at i:7142421 original size:19 final size:18
Alignment explanation
Indices: 7142395--7142452 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
7142385 TGAAATTAAA
7142395 AATTTTTTATAAATTTTT
1 AATTTTTTATAAATTTTT
* *
7142413 AATTATTTTCTAATTTTTT
1 AATT-TTTTATAAATTTTT
*
7142432 TATTTTTT-TCAAAATTTTT
1 AATTTTTTAT--AAATTTTT
7142451 AA
1 AA
7142453 AATTTTTTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 23 0.72
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTTTTTATAAATTTTT
Found at i:7142431 original size:20 final size:19
Alignment explanation
Indices: 7142395--7142482 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 19
7142385 TGAAATTAAA
* *
7142395 AATTTTTTATAA-ATTTTT
1 AATTTTTTCTAATTTTTTT
7142413 AATTATTTTCTAATTTTTTT
1 AATT-TTTTCTAATTTTTTT
* * **
7142433 ATTTTTTTCAAAATTTTTAA
1 AATTTTTTC-TAATTTTTTT
*
7142453 AATTTTTTCTATAATTCTTTTG
1 AATTTTTTC--TAATT-TTTTT
7142475 AATTTTTT
1 AATTTTTT
7142483 TAAAATTTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
18 4 0.07
19 12 0.22
20 23 0.42
21 5 0.09
22 11 0.20
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (19 bp):
AATTTTTTCTAATTTTTTT
Found at i:7142457 original size:21 final size:20
Alignment explanation
Indices: 7142433--7142581 Score: 115
Period size: 20 Copynumber: 7.2 Consensus size: 20
7142423 TAATTTTTTT
*
7142433 ATTTTTTTCAAAATTTTTAAA
1 ATTTTTTT-AAAATTTTTAGA
* *
7142454 ATTTTTTCTATAATTCTTTTGA
1 ATTTTTT-TAAAATT-TTTAGA
*
7142476 ATTTTTTTAAAATTTATAGA
1 ATTTTTTTAAAATTTTTAGA
* * *
7142496 GTTTTATTAAAA-ATTTAGA
1 ATTTTTTTAAAATTTTTAGA
*
7142515 A-TTTTTTAATATTTTGTGAGA
1 ATTTTTTTAAAATTTT-T-AGA
7142536 ATTTTTTTTCAAAATTTTTA-A
1 A-TTTTTTT-AAAATTTTTAGA
* **
7142557 TTTTTTTTTTAATTTTTAGA
1 ATTTTTTTAAAATTTTTAGA
7142577 ATTTT
1 ATTTT
7142582 ATTATTATTT
Statistics
Matches: 100, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
18 8 0.08
19 15 0.15
20 27 0.27
21 23 0.23
22 13 0.13
23 7 0.07
24 7 0.07
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
ATTTTTTTAAAATTTTTAGA
Found at i:7142520 original size:20 final size:18
Alignment explanation
Indices: 7142474--7142521 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
7142464 TAATTCTTTT
7142474 GAATTTTTTTAAAATTTATA
1 GAATTTTTTTAAAA-TT-TA
* *
7142494 GAGTTTTATTAAAAATTTA
1 GAATTTT-TTTAAAATTTA
7142513 GAATTTTTT
1 GAATTTTTT
7142522 AATATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 8 0.33
21 6 0.25
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
GAATTTTTTTAAAATTTA
Found at i:7142573 original size:20 final size:20
Alignment explanation
Indices: 7142535--7142597 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
7142525 ATTTTGTGAG
** *
7142535 AATTTTTTTTCAAAATTTTT
1 AATTTTTTTTTTAATTTTTT
*
7142555 AATTTTTTTTTTAATTTTTAG
1 AATTTTTTTTTTAATTTTT-T
* * *
7142576 AATTTTATTATTATTTTTTT
1 AATTTTTTTTTTAATTTTTT
7142596 AA
1 AA
7142598 AAATTTTAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
AATTTTTTTTTTAATTTTTT
Found at i:7142639 original size:17 final size:18
Alignment explanation
Indices: 7142612--7142654 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
7142602 TTTAGAATTG
7142612 TTTAGAATTTTTTA-AGTT
1 TTTA-AATTTTTTATAGTT
7142630 TTTAAA-TTTTTATAGTT
1 TTTAAATTTTTTATAGTT
*
7142647 TTAAAATT
1 TTTAAATT
7142655 GAAACAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 11 0.50
18 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTAAATTTTTTATAGTT
Found at i:7142756 original size:19 final size:19
Alignment explanation
Indices: 7142726--7142916 Score: 86
Period size: 19 Copynumber: 9.9 Consensus size: 19
7142716 AATTTAATAT
*
7142726 TTTTTGAGAATTTTTTAATG
1 TTTTT-AGAATTTTTTAAAG
* *
7142746 TTTTTATAATTTTATAAAG
1 TTTTTAGAATTTTTTAAAG
*
7142765 TTTTTAGAATTTTTTATAG
1 TTTTTAGAATTTTTTAAAG
* *
7142784 ---TTAAAATATTTTTAATAC
1 TTTTTAGAAT-TTTTTAA-AG
** * * *
7142802 AATATAAAATTTTTTAAAA
1 TTTTTAGAATTTTTTAAAG
*
7142821 TATTTTAGAATTTTTTCAGAAA
1 T-TTTTAGAATTTTTT-A-AAG
* *
7142843 TTTTTAGAAATTTTTAAAA
1 TTTTTAGAATTTTTTAAAG
* *
7142862 TTTTTA-AAGTTTTTTTAAT
1 TTTTTAGAA-TTTTTTAAAG
* * **
7142881 TTTTTTGAAGTTTTGCAA-
1 TTTTTAGAATTTTTTAAAG
* *
7142899 TTTTTACAAATTTTTAAA
1 TTTTTAGAATTTTTTAAA
7142917 ATTGTAAAAA
Statistics
Matches: 133, Mismatches: 28, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
16 6 0.05
17 6 0.05
18 16 0.12
19 55 0.41
20 26 0.20
21 20 0.15
22 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTTTAGAATTTTTTAAAG
Found at i:7142778 original size:10 final size:9
Alignment explanation
Indices: 7142718--7142885 Score: 54
Period size: 10 Copynumber: 17.3 Consensus size: 9
7142708 TATAAAAAAA
7142718 TTTAATATTT
1 TTTAA-ATTT
7142728 TTTGAGAATTT
1 TTT-A-AATTT
7142739 TTT-AATGTT
1 TTTAAAT-TT
7142748 TTTATAATTT
1 TTTA-AATTT
* *
7142758 TATAAAGTT
1 TTTAAATTT
7142767 TTTAGAATTT
1 TTTA-AATTT
**
7142777 TTT--ATAG
1 TTTAAATTT
*
7142784 TTAAAATATT
1 TTTAAAT-TT
***
7142794 TTTAATACAA
1 TTTAA-ATTT
*
7142804 TATAAAATTT
1 TTTAA-ATTT
*
7142814 TTTAAAATAT
1 TTT-AAATTT
7142824 TTTAGAATTT
1 TTTA-AATTT
*
7142834 TTTCAGAAATT
1 TTT-A-AATTT
*
7142845 TTTAGAAATT
1 TTTA-AATTT
*
7142855 TTTAAAATT
1 TTTAAATTT
7142864 TTTAAAGTTT
1 TTTAAA-TTT
*
7142874 TTTTAATTT
1 TTTAAATTT
7142883 TTT
1 TTT
7142886 TGAAGTTTTG
Statistics
Matches: 120, Mismatches: 24, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
7 4 0.03
8 3 0.03
9 32 0.27
10 57 0.47
11 23 0.19
12 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (9 bp):
TTTAAATTT
Found at i:7142862 original size:9 final size:9
Alignment explanation
Indices: 7142806--7142919 Score: 75
Period size: 10 Copynumber: 11.8 Consensus size: 9
7142796 TAATACAATA
7142806 TAAAATTTTT
1 TAAAA-TTTT
7142816 TAAAATATTT
1 TAAAAT-TTT
*
7142826 TAGAATTTTT
1 TA-AAATTTT
7142836 TCAGAAATTTT
1 T-A-AAATTTT
7142847 TAGAAATTTT
1 TA-AAATTTT
7142857 TAAAATTTT
1 TAAAATTTT
*
7142866 TAAAGTTTTT
1 TAAA-ATTTT
* *
7142876 TTAATTTTT
1 TAAAATTTT
** *
7142885 TTGAAGTTT
1 TAAAATTTT
**
7142894 TGCAATTTT
1 TAAAATTTT
7142903 TACAAATTTT
1 TA-AAATTTT
7142913 TAAAATT
1 TAAAATT
7142920 GTAAAAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
9 35 0.40
10 40 0.46
11 12 0.14
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (9 bp):
TAAAATTTT
Found at i:7142877 original size:20 final size:20
Alignment explanation
Indices: 7142811--7142879 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
7142801 CAATATAAAA
7142811 TTTTTTAAAATATTTTAGAAT
1 TTTTTTAAAAT-TTTTAGAAT
*
7142832 TTTTTCAGAAATTTTTAGAA-
1 TTTTTTA-AAATTTTTAGAAT
*
7142852 ATTTTTAAAATTTTTA-AAGT
1 TTTTTTAAAATTTTTAGAA-T
7142872 TTTTTTAA
1 TTTTTTAA
7142880 TTTTTTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.05
19 9 0.22
20 12 0.29
21 14 0.34
22 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTTTAAAATTTTTAGAAT
Found at i:7142990 original size:28 final size:28
Alignment explanation
Indices: 7142942--7143004 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
7142932 TGGAATTGAA
*
7142942 AAAATTTTTAATATTTTAAGATTTTTTT
1 AAAATTTTTAATATTTTAAGAATTTTTT
*
7142970 AATATTTTTAAT-TTTTAAAGAATTTTTT
1 AAAATTTTTAATATTTT-AAGAATTTTTT
7142998 AAAATTT
1 AAAATTT
7143005 ATCTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
AAAATTTTTAATATTTTAAGAATTTTTT
Found at i:7148674 original size:67 final size:66
Alignment explanation
Indices: 7148488--7148750 Score: 255
Period size: 67 Copynumber: 3.9 Consensus size: 66
7148478 GATAATTTAT
* * ** * *
7148488 TTTTTGGCTTTCTTTACCCTTTT-GTTTTCTTCAATTTAAAAGCAATATTTAGCT-ATTAATTGC
1 TTTTTGGCTTTCTTTA-CCTTTTCATTTTCTTCATTTTAAAAATAATATTTA-TTAATTAATTGT
7148551 GT-
64 GTA
* * * * * *
7148553 TTTCTTGGTTTTCTTTACTTTTTCTTTTTTTTTTTATTTTAAAAATAATATTTATTAATGAATTG
1 TTT-TTGGCTTTCTTTACCTTTTC--ATTTTCTTCATTTTAAAAATAATATTTATTAATTAATTG
7148618 TGTA
63 TGTA
* * **
7148622 TTTTTGGCTTTTTTTACCTTTTCATTTTCTTCGATTTTAAAATTAATATTTATTAATTAATCATG
1 TTTTTGGCTTTCTTTACCTTTTCATTTTCTTC-ATTTTAAAAATAATATTTATTAATTAATTGTG
7148687 TA
65 TA
* * *
7148689 TCTTTGACTTTCTTTACCTTTTCAATTTCTTCAATTTTAAAAATAATATTTATCT-ATTAATT
1 TTTTTGGCTTTCTTTACCTTTTCATTTTCTTC-ATTTTAAAAATAATATTTAT-TAATTAATT
7148751 ATGATCATTG
Statistics
Matches: 162, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
65 8 0.05
66 18 0.11
67 84 0.52
68 49 0.30
69 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.57
Consensus pattern (66 bp):
TTTTTGGCTTTCTTTACCTTTTCATTTTCTTCATTTTAAAAATAATATTTATTAATTAATTGTGT
A
Found at i:7149401 original size:2 final size:2
Alignment explanation
Indices: 7149396--7149440 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
7149386 TAATTGTGTG
* *
7149396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7149438 TA T
1 TA T
7149441 TGCCTTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7150899 original size:5 final size:5
Alignment explanation
Indices: 7150886--7150921 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
7150876 TCCAATCAAG
7150886 TATATA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA
7150922 ATACTATCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:7158455 original size:21 final size:23
Alignment explanation
Indices: 7158424--7158470 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
7158414 TTTATCATAA
7158424 ATTTGATCTAAATT-TATATT-AT
1 ATTTGATCT-AATTATATATTGAT
7158446 ATTT-ATCTAATTATATATTGAT
1 ATTTGATCTAATTATATATTGAT
7158468 ATT
1 ATT
7158471 GGTTGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
22 9 0.39
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTGATCTAATTATATATTGAT
Found at i:7159173 original size:60 final size:60
Alignment explanation
Indices: 7159044--7159396 Score: 492
Period size: 59 Copynumber: 5.9 Consensus size: 60
7159034 TTTTTTGTAG
* *
7159044 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTT--ATTTCT-AA
7159103 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
*
7159163 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTC-TTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
**
7159222 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTTAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCC-TTTTTTTTGAAAATTTATTTCTAA
*
7159283 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCC---TTTTTG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
***
7159339 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTGGAAAATTTTATTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCCTTTTTTTT-GAAAA-TTTATTT
7159397 TTATTTAAAA
Statistics
Matches: 270, Mismatches: 11, Indels: 23
0.89 0.04 0.08
Matches are distributed among these distances:
55 1 0.00
56 44 0.16
57 5 0.02
59 95 0.35
60 42 0.16
61 61 0.23
62 22 0.08
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
Found at i:7159255 original size:119 final size:117
Alignment explanation
Indices: 7159044--7159396 Score: 516
Period size: 119 Copynumber: 3.0 Consensus size: 117
7159034 TTTTTTGTAG
* *
7159044 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTCGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTGAAAATTT--ATTTT-AAGGAAA
7159108 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
63 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
7159163 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTC-TTTTTTGAAAATTTATTT-TAAGGAAAA
**
7159228 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTTAAATTTATTTCTAA
64 TTGATACTTTCAACTTTTCCTCAAAAACCC-TTTTTTTTGAAAATTTATTTCTAA
*
7159283 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAC-CCTTTTTG-AAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTGAAAATTTA-TTTTAAGGAAAAT
***
7159346 TGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTGGAAAATTTTATTT
65 TGATACTTTCAACTTTTCCTC-AAAAACCCTTTTTTTT-GAAAA-TTTATTT
7159397 TTATTTAAAA
Statistics
Matches: 216, Mismatches: 10, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
116 9 0.04
117 44 0.20
118 16 0.07
119 75 0.35
120 58 0.27
121 14 0.06
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTGAAAATTTATTTTAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGAAAATTTATTTCTAA
Found at i:7159415 original size:6 final size:6
Alignment explanation
Indices: 7159406--7159491 Score: 52
Period size: 6 Copynumber: 13.8 Consensus size: 6
7159396 TTTATTTAAA
* *
7159406 AAAAAT AAAATAAT AAAAAG ATAAAT AAAAAT AAAAAT AAATAA- AGAAAAGT
1 AAAAAT -AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A-AAAA-T
* * *
7159458 -AAAAC AGAAAT AAAAA- ATAAAAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAA
7159492 GAATATTAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
5 1 0.02
6 46 0.75
7 11 0.18
8 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:7159433 original size:20 final size:19
Alignment explanation
Indices: 7159408--7159479 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
7159398 TATTTAAAAA
7159408 AAATAAAATAATAAAAAGAT
1 AAATAAAA-AATAAAAAGAT
7159428 AAAT-AAAAAT-AAAA-AT
1 AAATAAAAAATAAAAAGAT
7159444 AAATAAAGAAAAGTAAAACAG--
1 AAAT-AA-AAAA-TAAAA-AGAT
7159465 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
7159480 TAAAGATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
16 6 0.13
17 4 0.09
18 9 0.20
19 11 0.24
20 7 0.16
21 7 0.16
22 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (19 bp):
AAATAAAAAATAAAAAGAT
Found at i:7159443 original size:32 final size:33
Alignment explanation
Indices: 7159405--7159485 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 33
7159395 TTTTATTTAA
7159405 AAAAAATAAAATAATA-AAAAGATAAATA-A-AAAT
1 AAAAAATAAAATAA-AGAAAAG-TAAA-ACAGAAAT
7159438 -AAAAAT-AAATAAAGAAAAGTAAAACAGAAAT
1 AAAAAATAAAATAAAGAAAAGTAAAACAGAAAT
7159469 AAAAAATAAAATAAAGA
1 AAAAAATAAAATAAAGA
7159486 TAAAAAGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
29 1 0.02
30 6 0.14
31 15 0.35
32 12 0.28
33 9 0.21
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (33 bp):
AAAAAATAAAATAAAGAAAAGTAAAACAGAAAT
Found at i:7159445 original size:16 final size:15
Alignment explanation
Indices: 7159403--7159455 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
7159393 ATTTTTATTT
7159403 AAAAAAAATAAAATAA
1 AAAAAAAAT-AAATAA
* *
7159419 TAAAAAGATAAATAA
1 AAAAAAAATAAATAA
7159434 AAATAAAAATAAATAA
1 AAA-AAAAATAAATAA
7159450 AGAAAA
1 A-AAAA
7159456 GTAAAACAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 8 0.26
16 21 0.68
17 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAAAAATAAATAA
Found at i:7160473 original size:3 final size:3
Alignment explanation
Indices: 7160465--7160527 Score: 92
Period size: 3 Copynumber: 20.7 Consensus size: 3
7160455 TATATTAAAA
*
7160465 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
7160511 -AT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
7160528 CTATATACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.04
3 47 0.85
4 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7160816 original size:19 final size:19
Alignment explanation
Indices: 7160794--7160837 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
7160784 TATATATATA
7160794 TTTTTTTA-TGTTTTTTTG
1 TTTTTTTATTGTTTTTTTG
*
7160812 TTTTTTTATTTTTTTTTTG
1 TTTTTTTATTGTTTTTTTG
7160831 TTTTTTT
1 TTTTTTT
7160838 TTTATCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.89
Consensus pattern (19 bp):
TTTTTTTATTGTTTTTTTG
Found at i:7160839 original size:11 final size:11
Alignment explanation
Indices: 7160812--7160842 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7160802 TGTTTTTTTG
7160812 TTTTTTTATTT
1 TTTTTTTATTT
*
7160823 TTTTTTTGTTT
1 TTTTTTTATTT
7160834 TTTTTTTAT
1 TTTTTTTAT
7160843 CAAAGCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:7160904 original size:41 final size:42
Alignment explanation
Indices: 7160847--7161213 Score: 562
Period size: 42 Copynumber: 9.0 Consensus size: 42
7160837 TTTTATCAAA
*
7160847 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
7160888 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
7160929 GCTCCTCTAAACAGAGGCA--ACTAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAGTAAATT
*
7160969 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
7161011 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
*
7161051 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
7161093 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
7161135 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
7161174 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAAT
7161214 ACTCCTAGAA
Statistics
Matches: 302, Mismatches: 9, Indels: 30
0.89 0.03 0.09
Matches are distributed among these distances:
39 32 0.11
40 78 0.26
41 86 0.28
42 106 0.35
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:7161012 original size:82 final size:80
Alignment explanation
Indices: 7160847--7161213 Score: 544
Period size: 82 Copynumber: 4.5 Consensus size: 80
7160837 TTTTATCAAA
* *
7160847 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
7160911 GACTTTGGAAAGTAAATT
63 GACTTTGGAAAGTAAATT
*
7160929 GCTCCTCTAAACAGAGGCAACTAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAAC-GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
7160994 CTTTGGAAAAGTAAATT
65 CTTTGG-AAAGTAAATT
7161011 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
7161076 CTTTGGAAAAGTAAATT
65 CTTTGG-AAAGTAAATT
* *
7161093 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
1 GCTCCTCTAAACAGAGG--CAACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
7161156 GAAC-TTGGAAAGTAAATT
63 G-ACTTTGGAAAGTAAATT
7161174 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAAT
7161214 ACTCCTAGAA
Statistics
Matches: 268, Mismatches: 7, Indels: 22
0.90 0.02 0.07
Matches are distributed among these distances:
79 1 0.00
80 17 0.06
81 77 0.29
82 133 0.50
83 8 0.03
84 32 0.12
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC
TTTGGAAAGTAAATT
Found at i:7162396 original size:10 final size:10
Alignment explanation
Indices: 7162381--7162410 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7162371 TTGACCTGGA
7162381 TCTTTTTTTT
1 TCTTTTTTTT
7162391 TCTTTTTTTT
1 TCTTTTTTTT
*
7162401 TATTTTTTTT
1 TCTTTTTTTT
7162411 GTACCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:7166439 original size:59 final size:57
Alignment explanation
Indices: 7166376--7166952 Score: 651
Period size: 59 Copynumber: 9.8 Consensus size: 57
7166366 ATTTTTTTGT
7166376 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTTC
* * *
7166435 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTA-TTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAATTTATTTTC
* *
7166493 TAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAATTTTGATTTTC
1 -AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA-TTT-ATTTTC
* * *
7166554 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAAATTTA-TTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTGGAAATTTATTTTC
* * * *
7166612 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTTGAAAATTTA-TTTC
1 -AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA----TATTTTTTGGAAATTTATTTTC
** *
7166673 TAAGGAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTGGAAATTTATTTTT
1 -AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTC
*
7166733 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA-TTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTTC
* * * *
7166790 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTGAAACTTTGATTTCC
1 -AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA----TATTTTTTGGAAA-TTT-ATTTTC
* *** *
7166854 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTT-GAAATTTATTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTC
*
7166910 AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
7166953 TTTGGAATTT
Statistics
Matches: 453, Mismatches: 41, Indels: 51
0.83 0.08 0.09
Matches are distributed among these distances:
56 42 0.09
57 8 0.02
58 70 0.15
59 160 0.35
60 40 0.09
61 89 0.20
62 5 0.01
63 36 0.08
64 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (57 bp):
AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTC
Found at i:7166575 original size:119 final size:117
Alignment explanation
Indices: 7166365--7166954 Score: 759
Period size: 119 Copynumber: 5.0 Consensus size: 117
7166355 GGAAAGAATG
* * * *
7166365 AATTTTTTTGTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCG
1 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTT--
7166429 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAA
64 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAA
*
7166483 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAATTTTG
1 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTGAAAATTT-
7166548 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTCTTTTTTTGAA
64 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTTGAA
* *
7166602 AATTTATTTCTAAGAAAAATTGATACTTTCAAC-TTTTCCTCAAAAACTTTTTTTTTTTGAAAAT
1 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAA---TATTTTTTTGAAAAT
* ** *
7166666 TTA-TTTCTAAGGAAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTTTGGA
62 TTATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAACCTTTTTTTTGAA
* *
7166722 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTA-
1 AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTAT
7166786 TTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTGAA
66 TTTC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CC--TTTTTTTTGAA
* * ***
7166842 ACTTTGATTTCCAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAA-CCCTTTTTG-AAATTT
1 AATTT-ATTTCTAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAAATTT
* **
7166904 ATTTTTAAGGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
64 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTTTT
7166955 TGGAATTTTT
Statistics
Matches: 424, Mismatches: 29, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
116 8 0.02
117 54 0.13
118 55 0.13
119 135 0.32
120 119 0.28
121 52 0.12
122 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (117 bp):
AATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTAT
TTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAA
Found at i:7166954 original size:178 final size:176
Alignment explanation
Indices: 7166365--7166953 Score: 895
Period size: 178 Copynumber: 3.3 Consensus size: 176
7166355 GGAAAGAATG
*
7166365 AATTT-TTTTGTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTC
1 AATTTATTTT-TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-
7166428 GATTT-TCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACC--TTTTTTTTGAAAATTTAT
64 -ATTTCT-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTGAAAATTTAT
7166490 TTCTAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGA
127 TTCTAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAATATTTTTTTTGA
* * *
7166541 AATTTTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAAATT
1 AA-TTT-ATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAAATT
* *
7166606 TATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTTGAAAATTTATT
63 TATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTGAAAATTTATT
*
7166671 TCTAAGGAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTGGA
128 TCTAAGGAAAATTGATACTTTCAAC-TTTTTCCCAAAATATTTTTTTT-GA
7166722 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAT
1 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAT
*
7166787 TTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTTGAAACTTTGATTT
66 TTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTTTTTGAAAATTT-ATTT
* ***
7166852 CCAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAA-ACCCTTTTTGA
129 CTAAGGAAAATTGATACTTTCAACTTTTTCC-CAAAATATTTTTTTTGA
*
7166899 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
7166954 TTGGAATTTT
Statistics
Matches: 381, Mismatches: 19, Indels: 25
0.90 0.04 0.06
Matches are distributed among these distances:
176 2 0.01
177 59 0.15
178 141 0.37
179 67 0.18
180 101 0.27
181 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (176 bp):
AATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTAT
TTCTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTGAAAATTTATTTCT
AAGGAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTTGA
Found at i:7167012 original size:6 final size:6
Alignment explanation
Indices: 7166980--7167064 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
7166970 TTATTTAAAG
* *
7166980 AAAATA GAATAATA AAAAGA TAAATA AAAATA AAAATA AATAA-A GAAAAGT-
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA AA-AATA -AAAA-TA
* * *
7167031 AAAACA GAAATA AAAA-A TAAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAA
7167065 GAATATTAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
5 1 0.02
6 46 0.77
7 9 0.15
8 4 0.07
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:7167020 original size:16 final size:15
Alignment explanation
Indices: 7166980--7167028 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
7166970 TTATTTAAAG
*
7166980 AAAATAGAATAATAAA
1 AAAATA-AATAAAAAA
*
7166996 AAGATAAATAAAAATA
1 AAAATAAATAAAAA-A
7167012 AAAATAAATAAAGAAA
1 AAAATAAATAAA-AAA
7167028 A
1 A
7167029 GTAAAACAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 7 0.25
16 19 0.68
17 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAATAAATAAAAAA
Found at i:7167022 original size:20 final size:21
Alignment explanation
Indices: 7166999--7167044 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7166989 TAATAAAAAG
* *
7166999 ATAAATAAAAATAAAA-ATAA
1 ATAAAGAAAAATAAAACAGAA
*
7167019 ATAAAGAAAAGTAAAACAGAA
1 ATAAAGAAAAATAAAACAGAA
7167040 ATAAA
1 ATAAA
7167045 AAATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (21 bp):
ATAAAGAAAAATAAAACAGAA
Found at i:7168027 original size:3 final size:3
Alignment explanation
Indices: 7168019--7168075 Score: 89
Period size: 3 Copynumber: 18.7 Consensus size: 3
7168009 AATATATTAA
7168019 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
7168064 AAT AAT ATAT AA
1 AAT AAT A-AT AA
7168076 CTATATACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7168075 original size:28 final size:29
Alignment explanation
Indices: 7168009--7168075 Score: 102
Period size: 28 Copynumber: 2.3 Consensus size: 29
7167999 TAAACCCAAA
7168009 AATATATTAAAATAATAATAATAATAATAAT
1 AATATA-T-AAATAATAATAATAATAATAAT
7168040 AATA-ATAAATAATAATAATAAT-ATAAT
1 AATATATAAATAATAATAATAATAATAAT
7168067 AATATATAA
1 AATATATAA
7168076 CTATATACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
27 9 0.26
28 20 0.57
29 1 0.03
30 1 0.03
31 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AATATATAAATAATAATAATAATAATAAT
Found at i:7168110 original size:42 final size:38
Alignment explanation
Indices: 7168008--7168110 Score: 86
Period size: 42 Copynumber: 2.6 Consensus size: 38
7167998 ATAAACCCAA
* *
7168008 AAATATATTAAAATAATAATAATAATAATAATAATAAT
1 AAATATATTTAAATAAAAATAATAATAATAATAATAAT
*
7168046 AAATA-A-TAATAATAATATAATAATATATAACTATATACAT-AT
1 AAATATATTTA-AATAA-A-AATAATA-ATAA-TA-ATA-ATAAT
7168088 AAATATATTCTAAATAAAAATAA
1 AAATATATT-TAAATAAAAATAA
7168111 ATAAATACAG
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
36 3 0.06
37 6 0.11
38 5 0.09
39 7 0.13
40 4 0.08
41 2 0.04
42 15 0.28
43 4 0.08
44 6 0.11
45 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (38 bp):
AAATATATTTAAATAAAAATAATAATAATAATAATAAT
Found at i:7168219 original size:21 final size:21
Alignment explanation
Indices: 7168193--7168242 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
7168183 TTGAGCCAGG
7168193 CCCAATTGATCTGGGCCTAGA
1 CCCAATTGATCTGGGCCTAGA
7168214 CCCAATTGATCTGGGCCTAGA
1 CCCAATTGATCTGGGCCTAGA
*
7168235 CTCAATTG
1 CCCAATTG
7168243 GGTGTCTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (21 bp):
CCCAATTGATCTGGGCCTAGA
Found at i:7177543 original size:14 final size:14
Alignment explanation
Indices: 7177524--7177553 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7177514 CATTTTATGA
*
7177524 TTTAAGAATTTGGT
1 TTTAAGAATATGGT
7177538 TTTAAGAATATGGT
1 TTTAAGAATATGGT
7177552 TT
1 TT
7177554 GTGAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
TTTAAGAATATGGT
Found at i:7177567 original size:14 final size:15
Alignment explanation
Indices: 7177544--7177572 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7177534 TGGTTTTAAG
7177544 AATATGGTTTGTGAA
1 AATATGGTTTGTGAA
7177559 AATAT-GTTTGTGAA
1 AATATGGTTTGTGAA
7177573 TAAAAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (15 bp):
AATATGGTTTGTGAA
Found at i:7177946 original size:24 final size:24
Alignment explanation
Indices: 7177919--7177964 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7177909 GAATTTTTAA
*
7177919 AGTTT-GATTTTGAATTAGTATGCT
1 AGTTTAGAGTTTG-ATTAGTATGCT
7177943 AGTTTAGAGTTTGATTAGTATG
1 AGTTTAGAGTTTGATTAGTATG
7177965 ATATCTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (24 bp):
AGTTTAGAGTTTGATTAGTATGCT
Found at i:7181726 original size:30 final size:30
Alignment explanation
Indices: 7181690--7181756 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
7181680 TAAATTAAAT
*
7181690 TAAATTCAGTAGATTAATTTTTTAAATTTA
1 TAAATTCAATAGATTAATTTTTTAAATTTA
*
7181720 TAAATTCAATCGATTAATTTTTTAAATTTA
1 TAAATTCAATAGATTAATTTTTTAAATTTA
7181750 TAAATTC
1 TAAATTC
7181757 GGTTCGGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (30 bp):
TAAATTCAATAGATTAATTTTTTAAATTTA
Found at i:7184210 original size:13 final size:13
Alignment explanation
Indices: 7184192--7184228 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
7184182 TCATTGATAG
7184192 ATTGTTGGTTTAA
1 ATTGTTGGTTTAA
7184205 ATTGTTGGTTTAA
1 ATTGTTGGTTTAA
7184218 ATTGTTGGTTT
1 ATTGTTGGTTT
7184229 TATAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (13 bp):
ATTGTTGGTTTAA
Found at i:7187180 original size:59 final size:58
Alignment explanation
Indices: 7187091--7187497 Score: 493
Period size: 59 Copynumber: 6.8 Consensus size: 58
7187081 TTTTGTAGGA
*
7187091 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCGATTTTC-AAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTTCTAAGG
* * *
7187150 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATATA-TTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTATTTTCTAAGG
* *
7187209 AAAATTGATACTTTCAACTTCTCCCCAAAAATATTTTTTTGAAATTTTGATTTT-TAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTTCTAAGG
7187268 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCC-AAAA-ATA--TTTTTTGGAAATTTA-TTTTC---TAAG
7187333 G
58 G
* * * *
7187334 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTA-TTTATGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTCTAAGG
7187393 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAAGG
* * *
7187450 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTT
7187498 TTTATTTTTA
Statistics
Matches: 308, Mismatches: 22, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.00
57 61 0.20
58 19 0.06
59 130 0.42
60 7 0.02
61 16 0.05
62 11 0.04
63 10 0.03
64 19 0.06
65 4 0.01
66 30 0.10
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAAGG
Found at i:7187307 original size:118 final size:118
Alignment explanation
Indices: 7187091--7187507 Score: 549
Period size: 118 Copynumber: 3.5 Consensus size: 118
7187081 TTTTGTAGGA
* * *
7187091 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAAAT
* *
7187155 TGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATATATTTCTAAGG
66 TGATACTTTCAACTTTTCCCCAAAAA--ATATTTTTTGAAAATATATTTCTAAGG
* *
7187209 AAAATTGATACTTTCAACTTCTCCCCAAAAATA-TTTTTTTGAAATTTTGATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAAAT
* *
7187273 TGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
66 TGATACTTTCAACTTTTCCCCAAAAA-ATA--TTTTTT-GAAA-ATATATTTC---TAAGG
* *
7187334 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAA-TTT-ATTTATGAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTTGATTTTTAAGGAAAA
* *
7187397 TTGATACTTTCAACTTTTCCCC-AAAAATATTTTTTGGAAATTTATTTCTAAGG
65 TTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGAAAATATATTTCTAAGG
* *
7187450 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAATTTTTTATTTTTA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAA-TTTTGATTTTTA
7187508 TTTAAAGAAA
Statistics
Matches: 265, Mismatches: 21, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
115 4 0.02
116 45 0.17
117 4 0.02
118 89 0.34
119 6 0.02
120 9 0.03
121 10 0.04
122 7 0.03
123 3 0.01
124 4 0.02
125 70 0.26
126 10 0.04
127 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGAAAATATATTTCTAAGG
Found at i:7187396 original size:184 final size:176
Alignment explanation
Indices: 7187091--7187497 Score: 565
Period size: 184 Copynumber: 2.3 Consensus size: 176
7187081 TTTTGTAGGA
7187091 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTC-ATTTTCAAGGAAAA
* *
7187154 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATATATTTCTAAGGAAAATTGATA
65 TTGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATATATTTATAAGGAAAATTGATA
* *
7187219 CTTTCAACTTCTCCCCAAAAATATTTTTTTGAAATTTTGATTTTTAAGG
130 CTTTCAACTTCTCCCCAAAAATATTTTTTGGAAA-TTT-ATTTCTAAGG
*
7187268 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTT-ATTTTTCTTTTAA
1 AAAATTGATACTTTCAACTTTT-CCCTAAAA-ATATTTTTTTTGGAAATTTCA-TTTTC----AA
* * * *
7187332 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTCG-AAATTTATTTATGAGGAA
59 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAACACTTTTTTT-GAAAATATATTTATAAGGAA
*
7187395 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
122 AATTGATACTTTCAACTTCTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
7187450 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTT-GAAATTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT
7187498 TTTATTTTTA
Statistics
Matches: 207, Mismatches: 12, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
177 22 0.11
178 7 0.03
179 11 0.05
180 16 0.08
181 20 0.10
182 31 0.15
183 4 0.02
184 95 0.46
185 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTCATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATATATTTATAAGGAAAATTGATAC
TTTCAACTTCTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
Found at i:7188065 original size:31 final size:31
Alignment explanation
Indices: 7188027--7188097 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
7188017 ACTGGGCAGG
* ** *
7188027 TCGCCGGAAACTTCAAGGTTGGCAGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCAGGAATTT
*
7188058 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCAGGAATTT
*
7188089 TCGTCGGAA
1 TCGCCGGAA
7188098 TCTAGAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAACTTCGCAGGAATTT
Found at i:7188569 original size:15 final size:17
Alignment explanation
Indices: 7188532--7188571 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
7188522 ATTAGATACG
7188532 TAAAAATACAAAAATGA
1 TAAAAATACAAAAATGA
7188549 -ATAAAATA-AAAAA-GA
1 TA-AAAATACAAAAATGA
7188564 TAAAAATA
1 TAAAAATA
7188572 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
TAAAAATACAAAAATGA
Found at i:7188672 original size:35 final size:34
Alignment explanation
Indices: 7188575--7188676 Score: 93
Period size: 35 Copynumber: 2.9 Consensus size: 34
7188565 AAAAATATAT
*
7188575 ATATATACATATTAGTAATAATACATAAAT-AATAA
1 ATATATACATA-TATTAATAATA-ATAAATAAATAA
* * *
7188610 A-ATACACATAAATATTAACAAAAAATAAATAAATAA
1 ATATATACAT--ATATTAA-TAATAATAAATAAATAA
7188646 ATATATACATATATTAATACATAAT-AATAAA
1 ATATATACATATATTAATA-ATAATAAATAAA
7188677 ATACAAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
34 14 0.26
35 23 0.43
36 10 0.19
37 7 0.13
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (34 bp):
ATATATACATATATTAATAATAATAAATAAATAA
Found at i:7188679 original size:35 final size:33
Alignment explanation
Indices: 7188563--7188679 Score: 92
Period size: 35 Copynumber: 3.3 Consensus size: 33
7188553 AATAAAAAAG
* *
7188563 ATAAAAATATATATATATACATATTAGTAATAATA
1 ATAAAAA-ATAAATATATACATA-TATTAATAATA
* * * *
7188598 CATAAATAATAAA-ATACACATAAATATTAACAAAAA
1 -ATAAAAAATAAATATATACAT--ATATTAA-TAATA
7188634 ATAAATAAATAAATATATACATATATTAATACATA
1 ATAAA-AAATAAATATATACATATATTAATA-ATA
7188669 ATAATAAAATA
1 ATAA-AAAATA
7188680 CAAAAGAAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
34 8 0.12
35 32 0.50
36 17 0.27
37 7 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (33 bp):
ATAAAAAATAAATATATACATATATTAATAATA
Found at i:7190422 original size:20 final size:20
Alignment explanation
Indices: 7190397--7190435 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7190387 TACATATATT
7190397 TAAATAAAAAAGATAATTTC
1 TAAATAAAAAAGATAATTTC
7190417 TAAATAAAAAAGATAATTT
1 TAAATAAAAAAGATAATTT
7190436 GTGTATCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
TAAATAAAAAAGATAATTTC
Found at i:7201021 original size:30 final size:30
Alignment explanation
Indices: 7200985--7201044 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
7200975 GAGAAGAGGT
7200985 GGGGAAGGGGAGGCATTTAATGGAGAGGGG
1 GGGGAAGGGGAGGCATTTAATGGAGAGGGG
7201015 GGGGAAGGGGAGGCATTTAATGGAGAGGGG
1 GGGGAAGGGGAGGCATTTAATGGAGAGGGG
7201045 AAAGTGTCAA
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:0.27, C:0.03, G:0.57, T:0.13
Consensus pattern (30 bp):
GGGGAAGGGGAGGCATTTAATGGAGAGGGG
Found at i:7202600 original size:24 final size:23
Alignment explanation
Indices: 7202572--7202616 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7202562 TTAAATATTT
7202572 ATTAAATTAACAATTTATAAAATA
1 ATTAAA-TAACAATTTATAAAATA
* *
7202596 ATTAAATAATACTTTATAAAA
1 ATTAAATAACAATTTATAAAA
7202617 AAACAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTAAATAACAATTTATAAAATA
Found at i:7206475 original size:26 final size:26
Alignment explanation
Indices: 7206432--7206483 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7206422 TATCTAATGC
7206432 ATTATGATATGATAAAA-TAAGATAAT
1 ATTATGATATGATAAAATTAA-ATAAT
*
7206458 ATTATGATA-GAATTAAATTAAATAAT
1 ATTATGATATG-ATAAAATTAAATAAT
7206484 GTGATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.04
26 19 0.83
27 3 0.13
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (26 bp):
ATTATGATATGATAAAATTAAATAAT
Found at i:7211734 original size:2 final size:2
Alignment explanation
Indices: 7211727--7211764 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
7211717 TTTTCTTTAT
* *
7211727 TA TA TA TA AA TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7211765 ATTTTTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7211922 original size:2 final size:2
Alignment explanation
Indices: 7211915--7211947 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7211905 CAAGTAAAAT
7211915 TC TC TC TC -C T- TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7211948 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7213562 original size:10 final size:11
Alignment explanation
Indices: 7213541--7213567 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7213531 GGATATTATT
7213541 ATTTTTTAAAA
1 ATTTTTTAAAA
7213552 ATTTTTTAAAA
1 ATTTTTTAAAA
7213563 ATTTT
1 ATTTT
7213568 AATTTTAATA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTTTAAAA
Found at i:7213575 original size:15 final size:14
Alignment explanation
Indices: 7213555--7213602 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
7213545 TTTAAAAATT
7213555 TTTTAAAAATTTTAA
1 TTTT-AAAATTTTAA
*
7213570 TTTTAATATATTTAA
1 TTTTAAAAT-TTTAA
*
7213585 TATTAAAATTTTAA
1 TTTTAAAATTTTAA
7213599 TTTT
1 TTTT
7213603 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTAAAATTTTAA
Found at i:7222809 original size:10 final size:8
Alignment explanation
Indices: 7222779--7222819 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
7222769 AAAATATTAA
7222779 TTATATA-
1 TTATATAT
7222786 TTATATAT
1 TTATATAT
7222794 TTATATAT
1 TTATATAT
*
7222802 TTAAATAT
1 TTATATAT
7222810 TTATAT-T
1 TTATATAT
7222817 TTA
1 TTA
7222820 AAAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 11 0.35
8 20 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATAT
Found at i:7222809 original size:16 final size:16
Alignment explanation
Indices: 7222779--7222821 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
7222769 AAAATATTAA
*
7222779 TTATATA-TTATATAT
1 TTATATATTTAAATAT
7222794 TTATATATTTAAATAT
1 TTATATATTTAAATAT
7222810 TTATAT-TTTAAA
1 TTATATATTTAAA
7222822 AAATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATATTTAAATAT
Found at i:7222817 original size:22 final size:23
Alignment explanation
Indices: 7222803--7222846 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
7222793 TTTATATATT
7222803 TAAATATTTATAT-TTTAAAAAA
1 TAAATATTTATATATTTAAAAAA
*
7222825 T-AATATTT-TATATTTATAAAA
1 TAAATATTTATATATTTAAAAAA
7222846 T
1 T
7222847 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 16 0.80
22 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATTTATATATTTAAAAAA
Found at i:7222819 original size:15 final size:15
Alignment explanation
Indices: 7222779--7222842 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
7222769 AAAATATTAA
* *
7222779 TTATATATTATATAT
1 TTATATTTTAAATAT
7222794 TTATATATTTAAATAT
1 TTATAT-TTTAAATAT
* *
7222810 TTATATTTTAAAAAA
1 TTATATTTTAAATAT
*
7222825 TAATATTTT--ATAT
1 TTATATTTTAAATAT
7222838 TTATA
1 TTATA
7222843 AAATTTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 6 0.15
15 21 0.52
16 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATATTTTAAATAT
Done.