Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 397 of 427
Found at i:115070549 original size:21 final size:22
Alignment explanation
Indices: 115070523--115070567 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
115070513 ATTAAATAAA
115070523 TATTTAATAAATA-TATATTAT
1 TATTTAATAAATATTATATTAT
**
115070544 TATTTAATTGATATTATATTAT
1 TATTTAATAAATATTATATTAT
115070566 TA
1 TA
115070568 GATTAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTTAATAAATATTATATTAT
Found at i:115070699 original size:24 final size:25
Alignment explanation
Indices: 115070668--115070716 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
115070658 ATTTATTTAC
115070668 TTATTATTTAAG-AA-ATAATAATAA
1 TTATTA-TTAAGTAATATAATAATAA
115070692 TTATTATTAAGTTAATATAATAATA
1 TTATTATTAAG-TAATATAATAATA
115070717 CAATAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.23
24 6 0.27
25 2 0.09
26 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TTATTATTAAGTAATATAATAATAA
Found at i:115071856 original size:45 final size:45
Alignment explanation
Indices: 115071806--115071912 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
115071796 CGACTATTGT
*
115071806 TACTGTTACCGTTACTGTCACCGATTCGACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTCACAGATTCGACACTTTGTGTGTTGAA
* *
115071851 TACTGTTACCATTACTGTTACAGATTCGACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTCACAGATTCGACACTTTGTGTGTTGAA
* *
115071896 TTCTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
115071913 CTACCATTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTCACAGATTCGACACTTTGTGTGTTGAA
Found at i:115074806 original size:26 final size:26
Alignment explanation
Indices: 115074748--115074807 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
115074738 TAGCAATGCC
** *
115074748 TTTGAAAAGTGCTTTTGAGAAATGCT
1 TTTGAAAAGTAATTTTGAGAAATACT
* *
115074774 GTGGAAAAGTAATTTTGAGAAATACT
1 TTTGAAAAGTAATTTTGAGAAATACT
115074800 TTTGAAAA
1 TTTGAAAA
115074808 TTTGAGTGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (26 bp):
TTTGAAAAGTAATTTTGAGAAATACT
Found at i:115075058 original size:19 final size:19
Alignment explanation
Indices: 115075034--115075071 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
115075024 AATTATTTAT
115075034 TAAATT-TAATTAGAATATA
1 TAAATTATAATTA-AATATA
*
115075053 TAAATTATATTTAAATATA
1 TAAATTATAATTAAATATA
115075072 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATTATAATTAAATATA
Found at i:115075092 original size:14 final size:14
Alignment explanation
Indices: 115075073--115075100 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
115075063 TTAAATATAA
115075073 TAATTAAATATTTG
1 TAATTAAATATTTG
115075087 TAATTAAATATTTG
1 TAATTAAATATTTG
115075101 GACGAAGAAC
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:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TAATTAAATATTTG
Found at i:115075742 original size:28 final size:28
Alignment explanation
Indices: 115075711--115075768 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
115075701 TATAATGACA
115075711 TAGCATGAAATTGAAGCTTTAATTTGTT
1 TAGCATGAAATTGAAGCTTTAATTTGTT
115075739 TAGCATGAAATTGAAGCTTTAATTTGTT
1 TAGCATGAAATTGAAGCTTTAATTTGTT
115075767 TA
1 TA
115075769 TGAGATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (28 bp):
TAGCATGAAATTGAAGCTTTAATTTGTT
Found at i:115086674 original size:20 final size:20
Alignment explanation
Indices: 115086636--115086674 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
115086626 TTTTAAATAT
*
115086636 AAAATTATAAAATTTATTAA
1 AAAATTATAAAATTAATTAA
115086656 AAAATTA-AAAAGTTAATTA
1 AAAATTATAAAA-TTAATTA
115086675 CTTACTGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATTATAAAATTAATTAA
Found at i:115088191 original size:21 final size:19
Alignment explanation
Indices: 115088166--115088204 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
115088156 TTTTGTTTTA
*
115088166 AATTTTTAATATTGATAAATT
1 AATTTGTAAT-TTGA-AAATT
115088187 AATTTGTAATTTGAAAAT
1 AATTTGTAATTTGAAAAT
115088205 ACTTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
AATTTGTAATTTGAAAATT
Found at i:115088947 original size:18 final size:18
Alignment explanation
Indices: 115088924--115088961 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
115088914 CCGAAACATG
115088924 TTAGTTTTTTATGAAGAT
1 TTAGTTTTTTATGAAGAT
115088942 TTAGTTTTTTATGAAGAT
1 TTAGTTTTTTATGAAGAT
115088960 TT
1 TT
115088962 TGTGGAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (18 bp):
TTAGTTTTTTATGAAGAT
Found at i:115092813 original size:137 final size:137
Alignment explanation
Indices: 115092504--115092780 Score: 421
Period size: 137 Copynumber: 2.0 Consensus size: 137
115092494 TTAGCAGCCT
***
115092504 TAAAAATATCAATATCAATTTCGATTAAGATCTTTTCAAATATTCTATCTATAATAAACTTTAAA
1 TAAAAA-ATCAATATCAAGCACGATTAAGATCTTTTCAAATATTCTATCTATAATAAACTTTAAA
*
115092569 CTGTTCATGATGTCTTAAATTTAGCCTCAATCACTCTACAATTCTCTAAATATTTATCAAATCCC
65 CTGTTCATGATGTCTTAAATTTAACCTCAATCACTCTACAATTCTCTAAATATTTATCAAATCCC
115092634 ATGATTTA
130 ATGATTTA
*** *
115092642 TAAAAAATCAATATCAATTTCGATTAAGATCTTTTCAAATATTCTATCTATAATAAATTTTAAAC
1 TAAAAAATCAATATCAAGCACGATTAAGATCTTTTCAAATATTCTATCTATAATAAACTTTAAAC
* * *
115092707 TG-TCAATGATGTTTTAAAGTTTAACCTCAATCGCTGTACAATTCTCTAAATATTTATCAAATCC
66 TGTTC-ATGATGTCTTAAA-TTTAACCTCAATCACTCTACAATTCTCTAAATATTTATCAAATCC
115092771 CATGATTTA
129 CATGATTTA
115092780 T
1 T
115092781 CCATAATTTT
Statistics
Matches: 132, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
136 2 0.02
137 72 0.55
138 58 0.44
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (137 bp):
TAAAAAATCAATATCAAGCACGATTAAGATCTTTTCAAATATTCTATCTATAATAAACTTTAAAC
TGTTCATGATGTCTTAAATTTAACCTCAATCACTCTACAATTCTCTAAATATTTATCAAATCCCA
TGATTTA
Found at i:115094613 original size:14 final size:14
Alignment explanation
Indices: 115094594--115094623 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115094584 ACAAAGGGAT
115094594 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
*
115094608 AAAAGAAAAAAGAG
1 AAAAGAAAAAAAAG
115094622 AA
1 AA
115094624 CATACTTTAA
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:115097956 original size:22 final size:22
Alignment explanation
Indices: 115097931--115097972 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
115097921 TAATAATGGT
* *
115097931 AGCAATATAATAATAAAATAGC
1 AGCAAAATAATAAGAAAATAGC
*
115097953 AGCAAAATAATGAGAAAATA
1 AGCAAAATAATAAGAAAATA
115097973 TAAATAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.19
Consensus pattern (22 bp):
AGCAAAATAATAAGAAAATAGC
Found at i:115106862 original size:20 final size:20
Alignment explanation
Indices: 115106837--115106874 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
115106827 TTCACTTTGC
115106837 GATTCTCAGACGCTCCTTTT
1 GATTCTCAGACGCTCCTTTT
115106857 GATTCTCAGACGCTCCTT
1 GATTCTCAGACGCTCCTT
115106875 CTCCATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.37
Consensus pattern (20 bp):
GATTCTCAGACGCTCCTTTT
Found at i:115112497 original size:35 final size:35
Alignment explanation
Indices: 115112430--115112597 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
115112420 TCCTCATTGA
*** *
115112430 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
115112466 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115112506 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115112541 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115112576 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115112598 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:115112556 original size:75 final size:73
Alignment explanation
Indices: 115112425--115112597 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
115112415 GGTTTTCCTC
*** * * **
115112425 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
115112490 TCAGTATGG
65 TCAGTATGG
*
115112499 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
115112563 ACTCAGTATGG
63 ACTCAGTATGG
115112574 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115112598 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:115119992 original size:35 final size:35
Alignment explanation
Indices: 115119927--115120092 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
115119917 TCCTCATTGA
** *
115119927 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
115119961 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115120001 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115120036 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115120071 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115120093 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:115120051 original size:75 final size:72
Alignment explanation
Indices: 115119922--115120094 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
115119912 GGTTTTCCTC
* * * **
115119922 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
115119986 CAGTATGG
65 CAGTATGG
115119994 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
115120058 ACTCAGTATGG
62 ACTCAGTATGG
115120069 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
115120095 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:115121464 original size:31 final size:31
Alignment explanation
Indices: 115121426--115121487 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
115121416 AAATCACCAT
115121426 TTCCGACACCACTGAAAATTAGGCCGTTACA
1 TTCCGACACCACTGAAAATTAGGCCGTTACA
*
115121457 TTCCGACACCATTGAAAATTAGGCCGTTACA
1 TTCCGACACCACTGAAAATTAGGCCGTTACA
115121488 AAGAAATTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (31 bp):
TTCCGACACCACTGAAAATTAGGCCGTTACA
Found at i:115123437 original size:35 final size:35
Alignment explanation
Indices: 115123369--115123536 Score: 194
Period size: 35 Copynumber: 4.6 Consensus size: 35
115123359 TCCTCATTGA
** *
115123369 AATACCATACCTACATTTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
115123405 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115123445 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115123480 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115123515 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115123537 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
35 73 0.62
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:115123495 original size:75 final size:73
Alignment explanation
Indices: 115123364--115123536 Score: 219
Period size: 75 Copynumber: 2.4 Consensus size: 73
115123354 GGTTTTCCTC
** * * **
115123364 ATTGAAATACCATACCTACATTTTTTCAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
115123429 TCAGTATGG
65 TCAGTATGG
*
115123438 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
115123502 ACTCAGTATGG
63 ACTCAGTATGG
115123513 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115123537 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.04
75 47 0.53
76 15 0.17
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:115130950 original size:75 final size:73
Alignment explanation
Indices: 115130862--115131033 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
115130852 GGTTTTCCTC
*** * * **
115130862 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
115130926 TCAGTATGG
65 TCAGTATGG
*
115130935 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
115131000 CTCAGTATGG
64 CTCAGTATGG
115131010 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
115131034 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:115131031 original size:35 final size:35
Alignment explanation
Indices: 115130867--115131033 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
115130857 TCCTCATTGA
*** *
115130867 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
115130902 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
115130942 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
115130977 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
115131012 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
115131034 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:115133802 original size:15 final size:15
Alignment explanation
Indices: 115133779--115133809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
115133769 TTTTATTTTA
115133779 AAATATATAAAAAAT
1 AAATATATAAAAAAT
*
115133794 AAATTTATAAAAAAT
1 AAATATATAAAAAAT
115133809 A
1 A
115133810 TAGACAATTA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATATAAAAAAT
Found at i:115133896 original size:25 final size:26
Alignment explanation
Indices: 115133863--115133925 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
115133853 ATATATAAAA
*
115133863 AAAAT-TATAAATTTAT-AAAACAAT
1 AAAATATATAAATATATAAAAACAAT
*
115133887 AAAATATATAAATATATAAAAAGAAT
1 AAAATATATAAATATATAAAAACAAT
*
115133913 AAAAAATTATAAA
1 AAAATA-TATAAA
115133926 AAAAAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 10 0.30
26 12 0.36
27 6 0.18
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAATATATAAATATATAAAAACAAT
Found at i:115133906 original size:45 final size:45
Alignment explanation
Indices: 115133851--115133962 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
115133841 ATATTTTGAA
* * * *
115133851 AAATATATAAAAAAAATTATAAATTTATAAAACAATAA-AATATAT
1 AAATATATAAAAAAAA-TAAAAAATTATAAAAAAAAAAGAATATAT
*
115133896 AAATATATAAAAAGAATAAAAAATTATAAAAAAAAAAGAATATAT
1 AAATATATAAAAAAAATAAAAAATTATAAAAAAAAAAGAATATAT
* * *
115133941 AAATACATAAAAGAACTAAAAA
1 AAATATATAAAAAAAATAAAAA
115133963 GCATAATTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 17 0.30
45 40 0.70
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (45 bp):
AAATATATAAAAAAAATAAAAAATTATAAAAAAAAAAGAATATAT
Found at i:115133926 original size:18 final size:18
Alignment explanation
Indices: 115133897--115133943 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
115133887 AAAATATATA
*
115133897 AATATATAAAAAGAATAAAA
1 AATATATAAAAA-AA-AAAG
115133917 AAT-TATAAAAAAAAAAG
1 AATATATAAAAAAAAAAG
115133934 AATATATAAA
1 AATATATAAA
115133944 TACATAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 6 0.24
18 8 0.32
19 8 0.32
20 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (18 bp):
AATATATAAAAAAAAAAG
Found at i:115137355 original size:2 final size:2
Alignment explanation
Indices: 115137342--115137372 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
115137332 GGACAGATAA
*
115137342 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115137373 AAAGACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:115146041 original size:19 final size:20
Alignment explanation
Indices: 115146017--115146062 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
115146007 CATCCAAACA
115146017 CCAGAAAAATAAATCA-TTT
1 CCAGAAAAATAAATCATTTT
*
115146036 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAATAAATCATTTT
115146056 CCAGAAA
1 CCAGAAA
115146063 TCATTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (20 bp):
CCAGAAAAATAAATCATTTT
Found at i:115146894 original size:86 final size:86
Alignment explanation
Indices: 115146786--115146961 Score: 273
Period size: 86 Copynumber: 2.0 Consensus size: 86
115146776 GTCCCTCATT
*
115146786 TTTTTTGCACTCAATTGAGTACTTGAATTTTCAAAATACATCAAAAAGACCCTCAAACTTCTTCA
1 TTTTTTGCACTCAATTGAGTACTTGAATTTTCAAAATACATCAAAAAGACCCTCAAAATTCTTC-
*
115146851 AAAAAAACAATTAAGCTCCTGC
65 AAAAAAACAATTAAGCTCCCGC
* * * * *
115146873 TTTTTT-CACTCAATTGGGTACTTGAATTTTCAATATGCATCAAAAAGACCCTTAAAATTTTTCA
1 TTTTTTGCACTCAATTGAGTACTTGAATTTTCAAAATACATCAAAAAGACCCTCAAAATTCTTCA
115146937 AAAAAACAATTAAGCTCCCGC
66 AAAAAACAATTAAGCTCCCGC
115146958 TTTT
1 TTTT
115146962 ATTAAAAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 25 0.30
86 51 0.62
87 6 0.07
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (86 bp):
TTTTTTGCACTCAATTGAGTACTTGAATTTTCAAAATACATCAAAAAGACCCTCAAAATTCTTCA
AAAAAACAATTAAGCTCCCGC
Found at i:115147007 original size:17 final size:18
Alignment explanation
Indices: 115146986--115147020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
115146976 AAAAATTATA
*
115146986 AAAAATAATAAATTTTAG
1 AAAATTAATAAATTTTAG
*
115147004 AAAATTATTAAATTTTA
1 AAAATTAATAAATTTTA
115147021 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATTAATAAATTTTAG
Found at i:115149657 original size:28 final size:27
Alignment explanation
Indices: 115149608--115149674 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
115149598 TTTTGTAAAA
* * *
115149608 TTTTATATTTCTATATATTTTATAA-T
1 TTTTATATTTTTATAAATTTTACAATT
115149634 TTTTATGATTTTTATCAAATTTTACAATT
1 TTTTAT-ATTTTTAT-AAATTTTACAATT
115149663 TTTTATATTTTT
1 TTTTATATTTTT
115149675 TTCTATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.17
27 7 0.20
28 15 0.43
29 7 0.20
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTATATTTTTATAAATTTTACAATT
Found at i:115149716 original size:26 final size:28
Alignment explanation
Indices: 115149680--115149746 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 28
115149670 TTTTTTTCTA
*
115149680 TTTATATATATTCT-AATTTTTAAT-AAAT
1 TTTATA-ATATT-TGAATCTTTAATAAAAT
*
115149708 TTT-TAATATTTGAATCTTTATTAAAAT
1 TTTATAATATTTGAATCTTTAATAAAAT
115149735 TTTATAATATTT
1 TTTATAATATTT
115149747 ATAGATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 13 0.38
27 9 0.26
28 11 0.32
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTATAATATTTGAATCTTTAATAAAAT
Found at i:115149784 original size:12 final size:12
Alignment explanation
Indices: 115149767--115149792 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
115149757 TAGATTTTAA
115149767 TTTTTATAATTT
1 TTTTTATAATTT
115149779 TTTTTATAATTT
1 TTTTTATAATTT
115149791 TT
1 TT
115149793 AATAAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:115149797 original size:10 final size:9
Alignment explanation
Indices: 115149608--115149780 Score: 53
Period size: 9 Copynumber: 19.4 Consensus size: 9
115149598 TTTTGTAAAA
115149608 TTTTAT-AT
1 TTTTATAAT
*
115149616 TTCTAT-AT
1 TTTTATAAT
115149624 ATTTTATAAT
1 -TTTTATAAT
*
115149634 TTTTATGAT
1 TTTTATAAT
*
115149643 TTTTATCAAA
1 TTTTAT-AAT
*
115149653 TTTTACAAT
1 TTTTATAAT
115149662 TTTT-TATAT
1 TTTTATA-AT
**
115149671 TTTT-TTCT
1 TTTTATAAT
*
115149679 ATTTAT-AT
1 TTTTATAAT
* *
115149687 ATATTCTAAT
1 -TTTTATAAT
*
115149697 TTTTAATAAA
1 TTTT-ATAAT
115149707 TTTT-TAAT
1 TTTTATAAT
* *
115149715 ATTT-GAAT
1 TTTTATAAT
* *
115149723 CTTTATTAAAA
1 TTTTA-T-AAT
115149734 TTTTATAAT
1 TTTTATAAT
*
115149743 ATTTATAGA-
1 TTTTATA-AT
115149752 TTTTATAGA-
1 TTTTATA-AT
115149761 -TTT-TAAT
1 TTTTATAAT
115149768 TTTTATAAT
1 TTTTATAAT
115149777 TTTT
1 TTTT
115149781 TTTATAATTT
Statistics
Matches: 122, Mismatches: 28, Indels: 29
0.68 0.16 0.16
Matches are distributed among these distances:
6 1 0.01
7 2 0.02
8 31 0.25
9 63 0.52
10 19 0.16
11 6 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:115152789 original size:18 final size:19
Alignment explanation
Indices: 115152766--115152801 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
115152756 ATATAAAGAT
115152766 ATAAAA-AAATTAAAATTA
1 ATAAAAGAAATTAAAATTA
*
115152784 ATAAAAGAATTTAAAATT
1 ATAAAAGAAATTAAAATT
115152802 CTATAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
ATAAAAGAAATTAAAATTA
Found at i:115152852 original size:10 final size:9
Alignment explanation
Indices: 115152839--115152894 Score: 53
Period size: 10 Copynumber: 5.9 Consensus size: 9
115152829 AAATCATAAC
115152839 AAATTATTGA
1 AAATTATT-A
115152849 AAATTA-TA
1 AAATTATTA
115152857 AAATTTATTA
1 AAA-TTATTA
115152867 AAATTAATATA
1 AAATT-AT-TA
115152878 AAATTA-TA
1 AAATTATTA
115152886 TAAATTATT
1 -AAATTATT
115152895 TTTACAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 6 0.15
9 12 0.30
10 15 0.38
11 7 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
AAATTATTA
Found at i:115152869 original size:18 final size:20
Alignment explanation
Indices: 115152828--115152872 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
115152818 AAATTCTTTA
*
115152828 AAAATCATAACAAATTATTG
1 AAAATTATAACAAATTATTG
*
115152848 AAAATTATAA-AATTTATT-
1 AAAATTATAACAAATTATTG
115152866 AAAATTA
1 AAAATTA
115152873 ATATAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTATAACAAATTATTG
Found at i:115152892 original size:9 final size:10
Alignment explanation
Indices: 115152839--115152893 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
115152829 AAATCATAAC
115152839 AAATTAT-TGA
1 AAATTATAT-A
115152849 AAATTATA-A
1 AAATTATATA
*
115152858 AATTTAT-TA
1 AAATTATATA
115152867 AAATTAATATA
1 AAATT-ATATA
115152878 AAATTATAT-
1 AAATTATATA
115152887 AAATTAT
1 AAATTAT
115152894 TTTTACAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 19 0.49
10 13 0.33
11 7 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
AAATTATATA
Found at i:115153669 original size:26 final size:26
Alignment explanation
Indices: 115153624--115153677 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
115153614 TAAGTTTATA
115153624 TTAATTTTAATAATTATTTA-AATATT
1 TTAATTTTAATAATTATTTATAAT-TT
*
115153650 TTAATTTTAAATTATT-TTTATAATTT
1 TTAATTTT-AATAATTATTTATAATTT
115153676 TT
1 TT
115153678 CTGATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTAATTTTAATAATTATTTATAATTT
Found at i:115153677 original size:9 final size:9
Alignment explanation
Indices: 115153599--115153689 Score: 60
Period size: 9 Copynumber: 9.9 Consensus size: 9
115153589 TAGATTTATT
115153599 TTTTTATAA
1 TTTTTATAA
*
115153608 TATTTATAA
1 TTTTTATAA
*
115153617 GTTTATATTAA
1 -TTTTTA-TAA
*
115153628 TTTTAATAA
1 TTTTTATAA
115153637 TTATTTA-AA
1 TT-TTTATAA
*
115153646 TATTT-TAA
1 TTTTTATAA
* *
115153654 TTTTAAATTA
1 TTTT-TATAA
115153664 TTTTTATAA
1 TTTTTATAA
* *
115153673 TTTTTCTGA
1 TTTTTATAA
115153682 TTTTTATA
1 TTTTTATA
115153690 TATATTTTTT
Statistics
Matches: 60, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
8 8 0.13
9 32 0.53
10 17 0.28
11 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:115153698 original size:22 final size:19
Alignment explanation
Indices: 115153664--115153716 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
115153654 TTTTAAATTA
115153664 TTTTTATA-ATTTTTCTGAT
1 TTTTTATATATTTTT-TGAT
115153683 TTTTATATATATTTTTTGAT
1 TTTT-TATATATTTTTTGAT
115153703 TTTTTA-ATATTTTT
1 TTTTTATATATTTTT
115153717 ATGGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.25
19 6 0.19
20 12 0.38
21 6 0.19
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTTATATATTTTTTGAT
Found at i:115153716 original size:18 final size:19
Alignment explanation
Indices: 115153663--115153716 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
115153653 ATTTTAAATT
*
115153663 ATTTTTATAAT-TTTTCTG
1 ATTTTTATAATATTTTTTG
115153681 ATTTTTATATATATTTTTTG
1 ATTTTTATA-ATATTTTTTG
115153701 ATTTTT-TAATATTTTT
1 ATTTTTATAATATTTTT
115153717 ATGGGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 17 0.52
19 4 0.12
20 12 0.36
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (19 bp):
ATTTTTATAATATTTTTTG
Found at i:115155990 original size:39 final size:39
Alignment explanation
Indices: 115155936--115156013 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
115155926 AACATCTGAT
115155936 TTTGAAAATAACAAAATTTAACAATTATAGTTTAGTGAG
1 TTTGAAAATAACAAAATTTAACAATTATAGTTTAGTGAG
*
115155975 TTTGAAGATAACAAAATTTAACAATTATAGTTTAGTGAG
1 TTTGAAAATAACAAAATTTAACAATTATAGTTTAGTGAG
115156014 GATTGAAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (39 bp):
TTTGAAAATAACAAAATTTAACAATTATAGTTTAGTGAG
Found at i:115170396 original size:17 final size:17
Alignment explanation
Indices: 115170374--115170406 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
115170364 TAATAAAAAA
115170374 TAAATTATT-TATTTTTC
1 TAAATT-TTATATTTTTC
115170391 TAAATTTTATATTTTT
1 TAAATTTTATATTTTT
115170407 TCTCAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TAAATTTTATATTTTTC
Found at i:115176993 original size:24 final size:24
Alignment explanation
Indices: 115176966--115177022 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
115176956 TTTTCTATGG
*
115176966 AAAATTTTATTGTACAATAAAGTT
1 AAAATTTTATTATACAATAAAGTT
* *
115176990 AAAA-ATTATTTATATAATAAAGTT
1 AAAATTTTA-TTATACAATAAAGTT
115177014 -AAATTTTAT
1 AAAATTTTAT
115177023 ATTTTTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (24 bp):
AAAATTTTATTATACAATAAAGTT
Found at i:115177453 original size:2 final size:2
Alignment explanation
Indices: 115177441--115177469 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
115177431 AAATCTTGTA
115177441 AT AT A- 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
115177470 TTATTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115178679 original size:5 final size:5
Alignment explanation
Indices: 115178669--115178700 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
115178659 AACCTGTGAA
115178669 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
115178701 GAACACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:115178694 original size:9 final size:9
Alignment explanation
Indices: 115178670--115178700 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
115178660 ACCTGTGAAA
115178670 AAATAAAAT
1 AAATAAAAT
115178679 AAAATAAAAT
1 -AAATAAAAT
115178689 AAATAAAAT
1 AAATAAAAT
115178698 AAA
1 AAA
115178701 GAACACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:115185721 original size:2 final size:2
Alignment explanation
Indices: 115185703--115185740 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
115185693 ACAAAGGCAA
*
115185703 AT AT A- AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115185741 AAATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:115186613 original size:30 final size:31
Alignment explanation
Indices: 115186572--115186642 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 31
115186562 ATGTTAATAG
*
115186572 ATTATATTTTTATAATTTTTAA-AAGA-TAAA
1 ATTAAATTTTTAT-ATTTTTAAGAAGACTAAA
115186602 ATTAAATTTTTATATTTTTAAGAAGACTAAA
1 ATTAAATTTTTATATTTTTAAGAAGACTAAA
115186633 A-TATAATTTT
1 ATTA-AATTTT
115186643 ATCTTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 8 0.22
30 18 0.49
31 11 0.30
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (31 bp):
ATTAAATTTTTATATTTTTAAGAAGACTAAA
Found at i:115186643 original size:30 final size:28
Alignment explanation
Indices: 115186574--115186653 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
115186564 GTTAATAGAT
*
115186574 TATATTTTTATAATTTTTAAAAGATAAAA
1 TATAATTTTAT-ATTTTTAAAAGATAAAA
115186603 T-TAAATTTTTATATTTTTAAGAAGACTAAAA
1 TAT-AA-TTTTATATTTTTAA-AAGA-TAAAA
*
115186634 TATAATTTTATCTTTATTAA
1 TATAATTTTATATTT-TTAA
115186654 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
28 1 0.02
29 10 0.23
30 19 0.44
31 12 0.28
32 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (28 bp):
TATAATTTTATATTTTTAAAAGATAAAA
Found at i:115187690 original size:19 final size:19
Alignment explanation
Indices: 115187648--115187703 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
115187638 AAAATTTCAA
* *
115187648 ATAAAAAATTAGAAAAAAT
1 ATAAAAAATTACAAAAAAG
*
115187667 TTAAAAAATTACAAAAAAG
1 ATAAAAAATTACAAAAAAG
115187686 ATAAAAAAATTATCAAAA
1 AT-AAAAAATTA-CAAAA
115187704 TTATTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.55
20 9 0.29
21 5 0.16
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
ATAAAAAATTACAAAAAAG
Found at i:115187703 original size:10 final size:10
Alignment explanation
Indices: 115187648--115187720 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 10
115187638 AAAATTTCAA
115187648 ATAAAAAATT
1 ATAAAAAATT
*
115187658 AGAAAAAATT
1 ATAAAAAATT
115187668 -TAAAAAATT
1 ATAAAAAATT
* *
115187677 ACAAAAAA-G
1 ATAAAAAATT
115187686 ATAAAAAAATT
1 AT-AAAAAATT
*
115187697 AT-CAAAATT
1 ATAAAAAATT
* *
115187706 ATTAAATATT
1 ATAAAAAATT
115187716 ATAAA
1 ATAAA
115187721 TAATACGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
9 17 0.35
10 30 0.61
11 2 0.04
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:115193178 original size:16 final size:16
Alignment explanation
Indices: 115193157--115193188 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
115193147 GAAAATTTTA
115193157 AAAGACAATAAAATGT
1 AAAGACAATAAAATGT
115193173 AAAGACAATAAAATGT
1 AAAGACAATAAAATGT
115193189 GAATTGGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAGACAATAAAATGT
Found at i:115194501 original size:45 final size:45
Alignment explanation
Indices: 115194413--115194510 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
115194403 TGGTGGCTAA
* *
115194413 AATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTTC
1 AATCTGCTCCATAACCGATACATAGAGATAAGACTCGCAATTTTC
* *
115194458 AATCTGCTCCATAACCGATACATGGAGATAAGA-TCTGTAATTTTC
1 AATCTGCTCCATAACCGATACATAGAGATAAGACTC-GCAATTTTC
*
115194503 AGTCTGCT
1 AATCTGCT
115194511 TCCTGCAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCATAACCGATACATAGAGATAAGACTCGCAATTTTC
Found at i:115194511 original size:176 final size:176
Alignment explanation
Indices: 115194189--115194680 Score: 743
Period size: 176 Copynumber: 2.8 Consensus size: 176
115194179 TAATGTTTGA
* * * **
115194189 CTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGGTCT-GTGGCTAAAATCTGCTCCATAGTT
1 CTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGG-CTGGTGGCTAAAATCTGCTCCATAGCC
* ** * *
115194253 GATACATAGAGATAAGACTCGTCATTTTTTATCTGCTCCATAGCCAATACATAGAGATAAGATAT
64 GATACATAGAGATAAGACTCGCCATTTTCAATCTGCTCCATAGCCGATACATAGAGATAAGATCT
*
115194318 GTAATTTTCAGTCTGCTTGCTGCAACTTCAGGAAGATAAGACTTGTAT
129 GTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTAT
* *
115194366 CTTCAACCTGCTCTCTACAACTTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
1 CTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* *
115194431 TACATAGAGATAAGACTCGCCATTTTCAATCTGCTCCATAACCGATACATGGAGATAAGATCTGT
66 TACATAGAGATAAGACTCGCCATTTTCAATCTGCTCCATAGCCGATACATAGAGATAAGATCTGT
115194496 AATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTAT
131 AATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTAT
*
115194542 CTTCAACCTGCTCTCTGTAACTTCAGAGAGATAAGGCTTGGTGGCTAAAATCTGCTCCATAGCCG
1 CTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGC-TGGTGGCTAAAATCTGCTCCATAGCCG
* * * * * * *
115194607 ATACATGGAGATAAGACTCGCCATTTCCGATCTACTCTATAGTCGATACATAGAGATAATATCTG
65 ATACATAGAGATAAGACTCGCCATTTTCAATCTGCTCCATAGCCGATACATAGAGATAAGATCTG
115194672 TAATTTTCA
130 TAATTTTCA
115194681 CCGATGTCGC
Statistics
Matches: 286, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
175 2 0.01
176 181 0.63
177 103 0.36
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (176 bp):
CTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
TACATAGAGATAAGACTCGCCATTTTCAATCTGCTCCATAGCCGATACATAGAGATAAGATCTGT
AATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTAT
Found at i:115199817 original size:46 final size:44
Alignment explanation
Indices: 115199717--115199824 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
115199707 TGTCTTTGAC
** * * * *
115199717 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
*
115199761 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATA--TATAAT
115199807 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
115199825 TTTCGTTCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
Found at i:115215747 original size:23 final size:22
Alignment explanation
Indices: 115215721--115215763 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
115215711 AGAACCAAAT
115215721 TATACATAAATAAATTTAAAAAA
1 TATACATAAA-AAATTTAAAAAA
* *
115215744 TATATATATAAAATTTAAAA
1 TATACATAAAAAATTTAAAA
115215764 GAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TATACATAAAAAATTTAAAAAA
Found at i:115221957 original size:47 final size:46
Alignment explanation
Indices: 115221900--115222076 Score: 180
Period size: 47 Copynumber: 3.8 Consensus size: 46
115221890 TGGTTGAGCA
* *
115221900 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAA-G
* * ** ** *
115221947 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATTTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGT-GGAAG
*
115221994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAA-G
* *
115222040 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115222077 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 18, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
46 39 0.37
47 57 0.54
48 5 0.05
49 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAAG
Found at i:115228302 original size:18 final size:19
Alignment explanation
Indices: 115228279--115228315 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
115228269 TGATGATTTG
*
115228279 AATATATCATTT-TTTTAA
1 AATATATAATTTATTTTAA
115228297 AATATATAATTTATTTTAA
1 AATATATAATTTATTTTAA
115228316 TATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATATAATTTATTTTAA
Found at i:115228958 original size:2 final size:2
Alignment explanation
Indices: 115228951--115228983 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
115228941 GTATTTGGAA
115228951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115228984 AATTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115229380 original size:22 final size:22
Alignment explanation
Indices: 115229355--115229398 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
115229345 TTGTCATATA
115229355 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
115229377 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
115229399 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:115229458 original size:16 final size:15
Alignment explanation
Indices: 115229418--115229458 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
115229408 TTTTAATTTT
115229418 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
115229432 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
115229446 ATTTTAAATAATA
1 ATTTTAAATAATA
115229459 TTATTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:115229964 original size:14 final size:14
Alignment explanation
Indices: 115229942--115229979 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
115229932 CTAGAAAAAT
115229942 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
115229956 AAATTATTTTTCA-
1 AAATCATTTTTCAG
115229969 AAAGTCATTTT
1 AAA-TCATTTT
115229980 CAGTAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:115230061 original size:2 final size:2
Alignment explanation
Indices: 115230054--115230096 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
115230044 GTCTATTCTG
115230054 AT AT AT AT AT AT AT AT AT AT -T 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 AT AT AT AT AT
115230095 AT
1 AT
115230097 TTTATCCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:115240116 original size:46 final size:50
Alignment explanation
Indices: 115240033--115240225 Score: 168
Period size: 53 Copynumber: 3.9 Consensus size: 50
115240023 TTGCATATAG
* *
115240033 TCACA-TATCACA-CACCGAAGCCATAGCCCTG-TCATGGTCTTACACGG-A
1 TCACATTAT-ACATCACCGATGCCATAGCCCAGAT-ATGGTCTTACACGGAA
* *
115240081 TCACA-TAT-CAT-ACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATTATACATCACCGATGCCATAGCCCAGATATGGTCTTACACGGAA
* * *
115240128 TCACATTATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAA
1 TCACATTAT-ACAT--CACCGATGCCATAGCCCAGATATGGTCTTACACGGAA
* * *
115240181 ACACA-TATCACATTGCACCGATGCCATAGCTCAGCTATGGTCTTA
1 TCACATTAT-ACA-T-CACCGATGCCATAGCCCAGATATGGTCTTA
115240226 TACAGAAGCA
Statistics
Matches: 125, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
46 30 0.24
47 7 0.06
48 11 0.09
50 3 0.02
52 36 0.29
53 38 0.30
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (50 bp):
TCACATTATACATCACCGATGCCATAGCCCAGATATGGTCTTACACGGAA
Found at i:115240162 original size:53 final size:52
Alignment explanation
Indices: 115240087--115240246 Score: 221
Period size: 52 Copynumber: 3.1 Consensus size: 52
115240077 CGGATCACAT
* * * *
115240087 ATCATACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACACA-TATCAC
*
115240140 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGAAAACACATATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACACATATCAC
** * * *
115240192 ATTGCACCGATGCCATAGCTCAGCTATGGTCTTATACAGAAGCACATATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACACATATCAC
115240244 ATC
1 ATC
115240247 TTTTCCATCA
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 54 0.57
53 41 0.43
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (52 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAACACATATCAC
Found at i:115254062 original size:17 final size:17
Alignment explanation
Indices: 115254036--115254068 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
115254026 ATTATATTTA
*
115254036 AAAAATTAATTTTAAAT
1 AAAAACTAATTTTAAAT
115254053 AAAAACTAATTTTAAA
1 AAAAACTAATTTTAAA
115254069 AAATTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAACTAATTTTAAAT
Found at i:115256682 original size:8 final size:8
Alignment explanation
Indices: 115256669--115256694 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
115256659 TCATAGATTT
115256669 TTTTCATG
1 TTTTCATG
115256677 TTTTCATG
1 TTTTCATG
115256685 TTTTCATG
1 TTTTCATG
115256693 TT
1 TT
115256695 CGAACCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTTCATG
Found at i:115266391 original size:5 final size:6
Alignment explanation
Indices: 115266375--115266399 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
115266365 CAAGTACATC
115266375 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
115266400 TCGAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:115273947 original size:29 final size:29
Alignment explanation
Indices: 115273914--115273972 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
115273904 TTTAAAAAAG
*
115273914 AAAGATTTGGATTTAA-TCTAAAAACAAAC
1 AAAGATTTAGATTTAACT-TAAAAACAAAC
*
115273943 AAAGATTTAGATTTGACTTAAAAACAAAC
1 AAAGATTTAGATTTAACTTAAAAACAAAC
115273972 A
1 A
115273973 TCTAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (29 bp):
AAAGATTTAGATTTAACTTAAAAACAAAC
Found at i:115279190 original size:29 final size:26
Alignment explanation
Indices: 115279138--115279191 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
115279128 TTATTAATAC
*
115279138 TAATAATAATTAAATTGTGAAATAAT
1 TAATAATAATTAAAATGTGAAATAAT
115279164 TAATAATAATTATAAATGTAGAGAATAA
1 TAATAATAATTA-AAATGT-GA-AATAA
115279192 GGATGGTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 12 0.50
27 5 0.21
28 2 0.08
29 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (26 bp):
TAATAATAATTAAAATGTGAAATAAT
Found at i:115282036 original size:19 final size:22
Alignment explanation
Indices: 115281990--115282036 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
115281980 ATTGAGTGAT
115281990 TAATTAGACTTTAATTAAGTAG
1 TAATTAGACTTTAATTAAGTAG
*
115282012 -ATTTAG-C-TTAATTAAG-AG
1 TAATTAGACTTTAATTAAGTAG
115282030 TAATTAG
1 TAATTAG
115282037 TGGAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 1 0.05
21 5 0.23
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (22 bp):
TAATTAGACTTTAATTAAGTAG
Found at i:115282391 original size:13 final size:13
Alignment explanation
Indices: 115282373--115282415 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
115282363 TTTAATAATA
115282373 AAATAAAGAAATG
1 AAATAAAGAAATG
115282386 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
115282398 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
115282412 AAAT
1 AAAT
115282416 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:115282403 original size:17 final size:18
Alignment explanation
Indices: 115282369--115282415 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
115282359 ATAGTTTAAT
* *
115282369 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
115282387 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
115282404 AATAAAAGAAAT
1 AATAAAAGAAAT
115282416 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:115282407 original size:9 final size:9
Alignment explanation
Indices: 115282381--115282415 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
115282371 TAAAATAAAG
115282381 AAATGAAAT
1 AAATGAAAT
115282390 AAA-GAAAT
1 AAATGAAAT
115282398 AAATGAAAT
1 AAATGAAAT
*
115282407 AAAAGAAAT
1 AAATGAAAT
115282416 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:115283642 original size:5 final size:5
Alignment explanation
Indices: 115283624--115283680 Score: 69
Period size: 5 Copynumber: 11.2 Consensus size: 5
115283614 AGTGGAAAAG
* * *
115283624 TGAATT TGAAT TGAGT TGAAT TGAAT TGAAT TGAAT TTAAT TGAAT CGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
*
115283675 GGAAT T
1 TGAAT T
115283681 ATGATTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:115284155 original size:45 final size:45
Alignment explanation
Indices: 115284089--115284328 Score: 345
Period size: 45 Copynumber: 5.3 Consensus size: 45
115284079 CTGTTAACGC
* *
115284089 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * *
115284134 TACTGCTACTGTTATCAATTCGGCACTTTGTGTGTCGAGTATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
115284179 TACTGTTACCGTTATCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
115284224 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
115284269 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
115284314 TATTGTTACTGTTAC
1 TACTGTTACCGTTAC
115284329 TATTCCAGAT
Statistics
Matches: 180, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 180 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:115284527 original size:18 final size:18
Alignment explanation
Indices: 115284506--115284698 Score: 155
Period size: 18 Copynumber: 10.7 Consensus size: 18
115284496 AATAACTTAT
115284506 TATTACTGAATAATTGAC
1 TATTACTGAATAATTGAC
* *
115284524 TATTACCGGATAATTGAC
1 TATTACTGAATAATTGAC
* *
115284542 TGTTACTGGAT-ATTAGAC
1 TATTACTGAATAATT-GAC
* *
115284560 TATTACTGAATAACTGAA
1 TATTACTGAATAATTGAC
115284578 TATTACTGAATAATTGA-
1 TATTACTGAATAATTGAC
*
115284595 TCATTACTGAATAATTGAT
1 T-ATTACTGAATAATTGAC
* *
115284614 TGTCACTGAATGAA-TGAC
1 TATTACTGAAT-AATTGAC
** *
115284632 TGCTACTGAATAACTT-AA
1 TATTACTGAATAA-TTGAC
115284650 TAGTTACTGAAT-ATCTGA-
1 TA-TTACTGAATAAT-TGAC
*
115284668 TTTTACTGAATAATTGAC
1 TATTACTGAATAATTGAC
* *
115284686 TGTTACTGGATAA
1 TATTACTGAATAA
115284699 CCGATCAATT
Statistics
Matches: 143, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
17 19 0.13
18 109 0.76
19 15 0.10
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TATTACTGAATAATTGAC
Found at i:115284587 original size:72 final size:70
Alignment explanation
Indices: 115284496--115284698 Score: 246
Period size: 72 Copynumber: 2.8 Consensus size: 70
115284486 AAAGGTAGAA
* * * *
115284496 AATAACTTATTATTACTGAATAATTGACTATTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACTTAATATTACTGAATAATTGA-TATTACTGAATAATTGACTGTTACTGGATAAT-GACT
*
115284561 ATTACTG
64 ACTACTG
* * * *
115284568 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTCACTGAATGAATGACT
1 AATAACTTAATATTACTGAATAATTGAT-ATTACTGAATAATTGACTGTTACTGGAT-AATGACT
*
115284633 GCTACTG
64 ACTACTG
*
115284640 AATAACTTAATAGTTACTGAAT-ATCTGATTTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTTAATA-TTACTGAATAAT-TGATATTACTGAATAATTGACTGTTACTGGATAA
115284699 CCGATCAATT
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
71 3 0.03
72 94 0.84
73 15 0.13
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (70 bp):
AATAACTTAATATTACTGAATAATTGATATTACTGAATAATTGACTGTTACTGGATAATGACTAC
TACTG
Found at i:115284777 original size:18 final size:18
Alignment explanation
Indices: 115284736--115284778 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
115284726 TGGTTATTAT
*
115284736 TGAATAATTGATTGTTAC
1 TGAATAATTGACTGTTAC
** *
115284754 CAAATAACTGACTGTTAC
1 TGAATAATTGACTGTTAC
115284772 TGAATAA
1 TGAATAA
115284779 ATAATTATTC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAATAATTGACTGTTAC
Found at i:115287204 original size:46 final size:44
Alignment explanation
Indices: 115287145--115287259 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
115287135 ACAGGACAGA
* *
115287145 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
115287191 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
115287235 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
115287260 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:115287240 original size:44 final size:45
Alignment explanation
Indices: 115287145--115287278 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
115287135 ACAGGACAGA
* *
115287145 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
115287191 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
115287235 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
115287279 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:115293340 original size:46 final size:44
Alignment explanation
Indices: 115293281--115293395 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
115293271 ACAGGACAGA
* *
115293281 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
115293327 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
115293371 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
115293396 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:115293376 original size:44 final size:45
Alignment explanation
Indices: 115293281--115293414 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
115293271 ACAGGACAGA
* *
115293281 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
115293327 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
115293371 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
115293415 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:115297025 original size:5 final size:5
Alignment explanation
Indices: 115297015--115297041 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
115297005 ACCAATTTGT
115297015 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
115297042 GAACACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:115309829 original size:31 final size:32
Alignment explanation
Indices: 115309774--115309834 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
115309764 TCAATCATTT
** *
115309774 AATTTGATCAATTTTAGTTTCTGTACTTTTTG
1 AATTTGATCAATTTTAGTCCCTGTAATTTTTG
115309806 AATTTG-TCAATTTTAGTCCCTGTAATTTT
1 AATTTGATCAATTTTAGTCCCTGTAATTTT
115309835 CAAATTCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (32 bp):
AATTTGATCAATTTTAGTCCCTGTAATTTTTG
Found at i:115313930 original size:24 final size:24
Alignment explanation
Indices: 115313903--115313949 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
115313893 ACTTATTACT
*
115313903 ATTTTTTTATCATTGAATTAAGCA
1 ATTTTTTAATCATTGAATTAAGCA
115313927 ATTTTTTAATCATTGAATTAAGC
1 ATTTTTTAATCATTGAATTAAGC
115313950 TTAAATGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTTTTAATCATTGAATTAAGCA
Found at i:115314474 original size:14 final size:15
Alignment explanation
Indices: 115314444--115314475 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
115314434 TTGGGGCGAT
115314444 CATTTGATAATTATC
1 CATTTGATAATTATC
115314459 CATTTGATAA-TATC
1 CATTTGATAATTATC
115314473 CAT
1 CAT
115314476 CTAAATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (15 bp):
CATTTGATAATTATC
Found at i:115315658 original size:22 final size:22
Alignment explanation
Indices: 115315633--115315674 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
115315623 GACCTAATTG
115315633 ATATAACTT-GAATAATTTAATA
1 ATATAA-TTAGAATAATTTAATA
*
115315655 ATATAATTAGAATATTTTAA
1 ATATAATTAGAATAATTTAA
115315675 ATTTCAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATAATTAGAATAATTTAATA
Found at i:115317559 original size:14 final size:14
Alignment explanation
Indices: 115317542--115317568 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
115317532 TGTCTTTCCT
115317542 TTATTTTTTTTCAC
1 TTATTTTTTTTCAC
115317556 TTATTTTTTTTCA
1 TTATTTTTTTTCA
115317569 GTATATAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTTTTTCAC
Found at i:115320642 original size:43 final size:43
Alignment explanation
Indices: 115320581--115320665 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
115320571 TCTCCTCCTC
*
115320581 CTATTCCATTTGAACAATTAAATTAATGTTGGTTTCTATATGT
1 CTATTCCATCTGAACAATTAAATTAATGTTGGTTTCTATATGT
*
115320624 CTATTCCATCTGAACAATTAAATTAATGTTGGTTTGTATATG
1 CTATTCCATCTGAACAATTAAATTAATGTTGGTTTCTATATG
115320666 CAGATTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (43 bp):
CTATTCCATCTGAACAATTAAATTAATGTTGGTTTCTATATGT
Found at i:115325181 original size:16 final size:16
Alignment explanation
Indices: 115325134--115325181 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
115325124 AACCTATAAC
*
115325134 ATTAAAACACAAATTA
1 ATTAAAACACAAATCA
*
115325150 ATTCAAATTC-CAAATCA
1 ATT-AAA-ACACAAATCA
115325167 ATTAAAACACAAATC
1 ATTAAAACACAAATC
115325182 CTGTCATGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 12 0.46
18 1 0.04
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAAAACACAAATCA
Found at i:115325209 original size:2 final size:2
Alignment explanation
Indices: 115325202--115325234 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
115325192 GTAACTATAA
115325202 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
115325235 AAACACGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:115328710 original size:22 final size:22
Alignment explanation
Indices: 115328648--115328712 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
115328638 CTCCGATTGT
* * *
115328648 TAGCACATTAGTGTTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
*
115328670 TAGCACATTCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
115328692 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
115328713 TCAATAGTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:115328923 original size:28 final size:28
Alignment explanation
Indices: 115328882--115328938 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
115328872 AACTTGTATG
*
115328882 TGTGTAAATCTGTATTAGTTGAATAAGT
1 TGTGTAAATATGTATTAGTTGAATAAGT
*
115328910 TGTGTAAATATGTATTTGTTGAATAAGT
1 TGTGTAAATATGTATTAGTTGAATAAGT
115328938 T
1 T
115328939 TAAAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (28 bp):
TGTGTAAATATGTATTAGTTGAATAAGT
Found at i:115331296 original size:46 final size:44
Alignment explanation
Indices: 115331192--115331299 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
115331182 TGTCTTTGAC
** * * *
115331192 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
115331236 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
115331282 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
115331300 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:115337438 original size:46 final size:44
Alignment explanation
Indices: 115337334--115337441 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
115337324 TGTCTTTGAC
** * * *
115337334 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
115337378 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
115337424 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
115337442 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:115339141 original size:21 final size:20
Alignment explanation
Indices: 115339092--115339149 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
115339082 TTTACATCTA
*
115339092 AAAAAAATTATTAAAAAAACT
1 AAAAAAA-TATAAAAAAAACT
*
115339113 -AAAGAATATAAAAAAAACTT
1 AAAAAAATATAAAAAAAAC-T
115339133 AAAAAAATATAGAAAAA
1 AAAAAAATATA-AAAAA
115339150 CCTCGAACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 11 0.35
20 6 0.19
21 9 0.29
22 5 0.16
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (20 bp):
AAAAAAATATAAAAAAAACT
Found at i:115340281 original size:29 final size:29
Alignment explanation
Indices: 115340245--115340301 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
115340235 TAAAAGTTTT
*
115340245 AAAAAAGG-GAAATACTAAAAAAAAAATC
1 AAAAAAGGTCAAATACTAAAAAAAAAATC
* *
115340273 AAAATAAGGTCAAATATTTAAAAAAAAAT
1 AAAA-AAGGTCAAATACTAAAAAAAAAAT
115340302 TATTAACCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (29 bp):
AAAAAAGGTCAAATACTAAAAAAAAAATC
Found at i:115348780 original size:21 final size:21
Alignment explanation
Indices: 115348756--115348819 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
115348746 GCTTCACCTC
*
115348756 TTTTTACATTAAAATATTATT
1 TTTTTAAATTAAAATATTATT
* * *
115348777 TTTTAAAATTAATTATTTTATT
1 TTTTTAAATTAA-AATATTATT
*
115348799 TATTTT-TATTAAAATATTATT
1 T-TTTTAAATTAAAATATTATT
115348820 GTTTAAGTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 17 0.52
22 13 0.39
23 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTAAATTAAAATATTATT
Found at i:115352042 original size:136 final size:137
Alignment explanation
Indices: 115351805--115352079 Score: 525
Period size: 136 Copynumber: 2.0 Consensus size: 137
115351795 AAGCCATTCA
*
115351805 GGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
115351870 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
115351934 CCATTTG
131 CCATTTG
115351941 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
*
115352006 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
115352071 CCATTTG
131 CCATTTG
115352078 GG
1 GG
115352080 GAGACTACTC
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 114 0.84
137 22 0.16
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
CCATTTG
Found at i:115352364 original size:25 final size:26
Alignment explanation
Indices: 115352327--115352378 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
115352317 TCAAACATGC
115352327 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAA-TTAACTCCTAGGGGT
* *
115352353 ATTTCGGT-AATTATCTCCTAGGGGT
1 ATTTAGGTCAATTAACTCCTAGGGGT
115352378 A
1 A
115352379 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 12 0.52
26 7 0.30
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTAACTCCTAGGGGT
Found at i:115353896 original size:25 final size:26
Alignment explanation
Indices: 115353862--115353969 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
115353852 CATGAAATTC
115353862 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
115353887 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
115353913 TTATCATGGAATATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
115353938 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
115353964 TTATCA
1 TTATCA
115353970 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 46 0.59
26 32 0.41
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:115353938 original size:51 final size:51
Alignment explanation
Indices: 115353862--115353969 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
115353852 CATGAAATTC
115353862 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* * *
115353913 TTATCATGGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
115353964 TTATCA
1 TTATCA
115353970 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:115359724 original size:26 final size:26
Alignment explanation
Indices: 115359688--115359797 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
115359678 CATGAAATTC
*
115359688 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
115359714 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
115359740 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
115359766 TTATCATGGAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
115359792 TTATCA
1 TTATCA
115359798 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:115360339 original size:136 final size:138
Alignment explanation
Indices: 115360112--115360425 Score: 436
Period size: 136 Copynumber: 2.3 Consensus size: 138
115360102 TTATCTTCGA
* * * *
115360112 CATGATGCTATAGTGTCTTTCAACTATGGTCTTACTCATTCTCTATCAGGTTGCCATGGTATCTT
1 CATGTTGCCATAGTATCTTTCAACTATGGTCTTACTCATTCTCCATCAGGTTGCCATGGTATCTT
* **
115360177 TCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTATTCATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
115360242 -TTCCCGT
131 TTTCACAT
* * * *
115360249 CATGTTGCCATGGTATCTTTCAA-TCATGGTCTTATTCATTC-CCGTCATGTTGCCATGGTATCT
1 CATGTTGCCATAGTATCTTTCAACT-ATGGTCTTACTCATTCTCCATCAGGTTGCCATGGTATCT
* *
115360312 TTCAACCATGGTCTTATTCTTTTCATGTTACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
65 TTCAACCATGGTCTTATTCATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTACAC
*
115360377 ATTTCATAT
130 ATTTCACAT
* *
115360386 CATGTTGCCATAGTGTCTTTCAACTATGGTCTTACACATT
1 CATGTTGCCATAGTATCTTTCAACTATGGTCTTACTCATT
115360426 TCATTTCAGA
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
136 81 0.53
137 72 0.47
138 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (138 bp):
CATGTTGCCATAGTATCTTTCAACTATGGTCTTACTCATTCTCCATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:115360420 original size:46 final size:46
Alignment explanation
Indices: 115360127--115360429 Score: 360
Period size: 46 Copynumber: 6.6 Consensus size: 46
115360117 TGCTATAGTG
* * * *
115360127 TCTTTCAACTATGGTCTTACTCATTCTC-TATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATT-TCATGTCATGTTGCCATGGTA
* * **
115360173 TCTTTCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
**
115360219 TCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* **
115360264 TCTTTCAATCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* * *
115360309 TCTTTCAACCATGGTCTTATTCTTTTCATGTTACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
** * * *
115360355 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATAGTG
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
* **
115360401 TCTTTCAACTATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTATTCATTTCAT
115360430 TTCAGAAAGC
Statistics
Matches: 226, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 84 0.37
46 142 0.63
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTA
Found at i:115371154 original size:16 final size:16
Alignment explanation
Indices: 115371135--115371165 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
115371125 CTTCTTCACT
115371135 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
115371151 TACTTACTTACTTAA
1 TACTCACTTACTTAA
115371166 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:115371171 original size:20 final size:20
Alignment explanation
Indices: 115371132--115371171 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
115371122 AAACTTCTTC
* *
115371132 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
115371152 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
115371172 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:115371486 original size:53 final size:53
Alignment explanation
Indices: 115371357--115371611 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
115371347 ACACGGGTAC
* * * *
115371357 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* * *
115371406 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * *
115371459 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AA
* * * * **
115371514 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
*
115371567 CCTTACCAATGGCCATGCCTT-AGCATGGTCTTACACGGTATCCTT
1 -CTTACCAAT-GCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
115371612 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 48 0.28
54 12 0.07
55 69 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:115371548 original size:108 final size:110
Alignment explanation
Indices: 115371404--115371601 Score: 301
Period size: 108 Copynumber: 1.8 Consensus size: 110
115371394 ATCCTTTTGA
* * **
115371404 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAA-CTCACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAAAAACCTCACCAAT
*
115371468 -GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 GGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
115371512 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAAAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAAAAACCTCACCAAT
115371577 GGCCATGCCTTAGCATGGTCTTACA
66 GGCCATGCCTTAGCATGGTCTTACA
115371602 CGGTATCCTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 48 0.61
109 8 0.10
110 23 0.29
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAAAAACCTCACCAAT
GGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:115384403 original size:44 final size:45
Alignment explanation
Indices: 115384297--115384430 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
115384287 ACAGGACAGA
* * * *
115384297 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTAGAG
* * *
115384343 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTAGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
* ** * * *
115384387 ATAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTAG
115384431 CAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 34 0.47
45 1 0.01
46 37 0.51
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
Found at i:115389891 original size:46 final size:44
Alignment explanation
Indices: 115389832--115389946 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
115389822 ACAGGACAGA
* *
115389832 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
115389878 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
115389922 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
115389947 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:115389927 original size:44 final size:45
Alignment explanation
Indices: 115389832--115389965 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
115389822 ACAGGACAGA
* *
115389832 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
115389878 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
115389922 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
115389966 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:115391913 original size:35 final size:34
Alignment explanation
Indices: 115391874--115391946 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
115391864 TACACGGTTA
* *
115391874 ACCATCCAACAC-ACTAGATGCTCATAAGAGCCAG
1 ACCATCCAACACAAC-AAATGCACATAAGAGCCAG
* *
115391908 TACCATCCAGCACAACAAATGCACATACGAGCCAG
1 -ACCATCCAACACAACAAATGCACATAAGAGCCAG
115391943 ACCA
1 ACCA
115391947 ACCGGTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 4 0.12
35 27 0.82
36 2 0.06
ACGTcount: A:0.40, C:0.34, G:0.14, T:0.12
Consensus pattern (34 bp):
ACCATCCAACACAACAAATGCACATAAGAGCCAG
Found at i:115392644 original size:21 final size:21
Alignment explanation
Indices: 115392619--115392683 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
115392609 TATAATGATT
115392619 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
115392640 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
115392660 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
115392680 ATTA
1 ATTA
115392684 CTATTATTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 3 0.09
19 10 0.30
20 3 0.09
21 14 0.42
22 3 0.09
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:115393055 original size:14 final size:14
Alignment explanation
Indices: 115393019--115393055 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
115393009 AAGAATTAAG
115393019 GAAACAAAGAAACA
1 GAAACAAAGAAACA
115393033 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
115393047 GAAACAAAG
1 GAAACAAAG
115393056 CAGGGAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 13 0.62
15 4 0.19
ACGTcount: A:0.73, C:0.14, G:0.14, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:115399787 original size:20 final size:19
Alignment explanation
Indices: 115399742--115399785 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
115399732 GTGGACAATT
115399742 ATTTTTAAAAATATAGTAA
1 ATTTTTAAAAATATAGTAA
115399761 ATTTTTAAAAATATAGTAA
1 ATTTTTAAAAATATAGTAA
115399780 ATTTTT
1 ATTTTT
115399786 TAGAAGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
ATTTTTAAAAATATAGTAA
Done.