Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2227
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: 151494
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
File 1 of 2
Found at i:122 original size:22 final size:22
Alignment explanation
Indices: 88--143 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
78 TTATCATTAA
*
88 AATATTAAAATATTTTT-TAATT
1 AATATTTAAATATTTTTATAA-T
*
110 AATATTTATATATTTTTATAAT
1 AATATTTAAATATTTTTATAAT
*
132 AAAATTTAAATA
1 AATATTTAAATA
144 AAAATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTAAATATTTTTATAAT
Found at i:140 original size:33 final size:34
Alignment explanation
Indices: 103--203 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 34
93 TAAAATATTT
* * *
103 TTTAATTAATATTTATA-TATTTTTATAATAAAA
1 TTTAATTAAAAATAATATTATTTTTATAATAAAA
* *
136 TTTAAATAAAAATAATATTATTTTTATAATAAAG
1 TTTAATTAAAAATAATATTATTTTTATAATAAAA
*
170 TTTAAATTAAAAAATAATATT-TTATT-TAATAAAA
1 TTT-AATT-AAAAATAATATTATTTTTATAATAAAA
204 ATAATCTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
33 13 0.23
34 25 0.44
35 7 0.12
36 12 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (34 bp):
TTTAATTAAAAATAATATTATTTTTATAATAAAA
Found at i:159 original size:34 final size:36
Alignment explanation
Indices: 120--203 Score: 122
Period size: 34 Copynumber: 2.4 Consensus size: 36
110 AATATTTATA
120 TATTTTTATAATAAAATTTAAA-T-AAAAATAATAT
1 TATTTTTATAATAAAATTTAAATTAAAAAATAATAT
*
154 TATTTTTATAATAAAGTTTAAATTAAAAAATAATAT
1 TATTTTTATAATAAAATTTAAATTAAAAAATAATAT
*
190 T-TTATT-TAATAAAA
1 TATTTTTATAATAAAA
204 ATAATCTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
34 28 0.62
35 5 0.11
36 12 0.27
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (36 bp):
TATTTTTATAATAAAATTTAAATTAAAAAATAATAT
Found at i:3481 original size:23 final size:23
Alignment explanation
Indices: 3451--3494 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
3441 GAATCTAACC
*
3451 CAGCCATTGTCATTCAAGGAACG
1 CAGCCATTCTCATTCAAGGAACG
3474 CAGCCATTCTCATTCAAGGAA
1 CAGCCATTCTCATTCAAGGAA
3495 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (23 bp):
CAGCCATTCTCATTCAAGGAACG
Found at i:4100 original size:14 final size:15
Alignment explanation
Indices: 4066--4100 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
4056 TTTCACATAT
4066 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
4081 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
4095 TTTTCA
1 TTTTCA
4101 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:4145 original size:15 final size:15
Alignment explanation
Indices: 4125--4211 Score: 138
Period size: 15 Copynumber: 5.8 Consensus size: 15
4115 CATGCATAAT
*
4125 TTTCATTACATTTCA
1 TTTCATTGCATTTCA
*
4140 TTTCATTTCATTTCA
1 TTTCATTGCATTTCA
*
4155 TTTCATTGCATTGCA
1 TTTCATTGCATTTCA
*
4170 TTTCATTGCATTGCA
1 TTTCATTGCATTTCA
4185 TTTCATTGCATTTCA
1 TTTCATTGCATTTCA
4200 TTTCATTGCATT
1 TTTCATTGCATT
4212 GGTTTCATGC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTCATTGCATTTCA
Found at i:4212 original size:5 final size:5
Alignment explanation
Indices: 4125--4211 Score: 111
Period size: 5 Copynumber: 17.4 Consensus size: 5
4115 CATGCATAAT
* * *
4125 TTTCA TTACA TTTCA TTTCA TTTCA TTTCA TTTCA TTGCA TTGCA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
* * * *
4175 TTGCA TTGCA TTTCA TTGCA TTTCA TTTCA TTGCA TT
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TT
4212 GGTTTCATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.07, T:0.53
Consensus pattern (5 bp):
TTTCA
Found at i:18121 original size:42 final size:42
Alignment explanation
Indices: 18062--18673 Score: 726
Period size: 42 Copynumber: 14.6 Consensus size: 42
18052 TTTTTTTGTT
* *
18062 TTCCCTTAGTCTGCCTGTCGACTTCATCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* *
18104 TTCCCTTGGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * * *
18146 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCCGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * * * *
18188 TACCCTTAATCTGCCTGTCGGCTTCGTTCCTAGAGACTTTCT
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* *
18230 TTCCCTTAGTCTGCCTGTCGACTTCGTCCCTAGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * *
18272 TTCCCTTAGTCTACCTGTCGGCTTTGTCCCTGGAGACTTCCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* *
18314 TTCCCTTAGTCTGCTTGTCGGCTTCGTCCCTGGAGACTTCCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * * *
18356 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCCGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * *
18398 TACCCTTAGTGTGCCTGTCGGCTTCGT-CCTCGGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCT-GGAGACTTTCC
* * * *
18440 TACCCTTAGTCTGCCTGTCGGCTTTGTCCCTAGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* *
18482 TACCCTTAGTCTACCTGTCGGCTTCGTCCCTGGAGACTTTCC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * * * * *
18524 TTCCCTTAGTCTACCTGTCGGCTTTGACCCCGAAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
* * *
18566 TACCCTTAGTCTGCCTGTTGGCTTCGTTCCC-GGAGACTTTTC
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCCTGGAGACTTTCC
* * * **
18608 ATCCCTTAGTCTGCCTGTCGACTTTGAT-CCTGGAGACTTTTA
1 TTCCCTTAGTCTGCCTGTCGGCTTCG-TCCCTGGAGACTTTCC
* * *
18650 TTTCCTCATTCTGCCTGTCGGCTT
1 TTCCCTTAGTCTGCCTGTCGGCTT
18674 TGACCTTAGA
Statistics
Matches: 492, Mismatches: 74, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
41 4 0.01
42 482 0.98
43 6 0.01
ACGTcount: A:0.11, C:0.33, G:0.19, T:0.37
Consensus pattern (42 bp):
TTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCC
Found at i:18690 original size:42 final size:42
Alignment explanation
Indices: 18617--18696 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
18607 CATCCCTTAG
*
18617 TCTGCCTGTCGACTTTGATCCTGGAGACTTTTATTTCCTCAT
1 TCTGCCTGTCGACTTTGATCCTAGAGACTTTTATTTCCTCAT
* * *
18659 TCTGCCTGTCGGCTTTGA-CCTTAGAGGCTTTTCTTTCC
1 TCTGCCTGTCGACTTTGATCC-TAGAGACTTTTATTTCC
18697 CTAAGTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (42 bp):
TCTGCCTGTCGACTTTGATCCTAGAGACTTTTATTTCCTCAT
Found at i:19323 original size:14 final size:15
Alignment explanation
Indices: 19289--19323 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
19279 TTTCACATAT
19289 TTTTCATTTCATGCA
1 TTTTCATTTCATGCA
19304 TTTTCATTTCATGC-
1 TTTTCATTTCATGCA
19318 TTTTCA
1 TTTTCA
19324 CGTAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (15 bp):
TTTTCATTTCATGCA
Found at i:19377 original size:25 final size:25
Alignment explanation
Indices: 19348--19414 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
19338 CATGCATAAT
19348 TTTCATTGCATTGCATTTCATTTCA
1 TTTCATTGCATTGCATTTCATTTCA
19373 TTTCATTGCATTGCATTTCATTTCA
1 TTTCATTGCATTGCATTTCATTTCA
*
19398 TTTCATTTCATTGCATT
1 TTTCATTGCATTGCATT
19415 GGTTTCATGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.54
Consensus pattern (25 bp):
TTTCATTGCATTGCATTTCATTTCA
Found at i:19415 original size:5 final size:5
Alignment explanation
Indices: 19348--19414 Score: 89
Period size: 5 Copynumber: 13.4 Consensus size: 5
19338 CATGCATAAT
* * * *
19348 TTTCA TTGCA TTGCA TTTCA TTTCA TTTCA TTGCA TTGCA TTTCA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
*
19398 TTTCA TTTCA TTGCA TT
1 TTTCA TTTCA TTTCA TT
19415 GGTTTCATGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.54
Consensus pattern (5 bp):
TTTCA
Found at i:20771 original size:16 final size:15
Alignment explanation
Indices: 20750--20780 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
20740 GATTTCCATA
20750 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
20766 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
20781 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:22442 original size:9 final size:9
Alignment explanation
Indices: 22428--22460 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
22418 TTGTTTTTAG
22428 TTATATAAT
1 TTATATAAT
22437 TTATAT-AT
1 TTATATAAT
22445 ATTATATAAT
1 -TTATATAAT
22455 TTATAT
1 TTATAT
22461 CACATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATATAAT
Found at i:23159 original size:12 final size:12
Alignment explanation
Indices: 23135--23178 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
23125 AGATTAATAA
23135 TAAATTATATATT
1 TAAA-TATATATT
* *
23148 TATATTTATATT
1 TAAATATATATT
23160 TAAATATATA-T
1 TAAATATATATT
23171 TAAATATA
1 TAAATATA
23179 AATATCAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 15 0.56
13 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATATATATT
Found at i:23857 original size:18 final size:19
Alignment explanation
Indices: 23834--23871 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23824 TGGTTAAGTT
*
23834 ATTTATTTAA-ATTTAAAA
1 ATTTATTAAATATTTAAAA
23852 ATTTATTAAATATTTAAAA
1 ATTTATTAAATATTTAAAA
23871 A
1 A
23872 AATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTATTAAATATTTAAAA
Found at i:24323 original size:2 final size:2
Alignment explanation
Indices: 24316--24352 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24306 ACATACATAC
24316 AT AT 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 AT AT A
24353 CAAACCTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27998 original size:128 final size:128
Alignment explanation
Indices: 27853--28108 Score: 442
Period size: 128 Copynumber: 2.0 Consensus size: 128
27843 ACCATTTTTA
*
27853 AAGACAAACAAACATGCATTTGACAAAGATGACATGATAAACATATAAAAAAATGATGAATGACA
1 AAGACAAACAAACATGCATTTGACAAAAATGACATGATAAACATATAAAAAAATGATGAATGACA
*
27918 TTCATGGAGATATTGAGCATGCT-GAAAATGCATGAAACATAGTAAAAAAATGCATGATTAAGG
66 TTCATGGAGATATTGAGCAT-ATAGAAAATGCATGAAACATAGTAAAAAAATGCATGATTAAGG
* *
27981 AAGACAAACAAATATGCATTTGACAAAAATGACATGATAAACATATAAGAAAATGATGAATGACA
1 AAGACAAACAAACATGCATTTGACAAAAATGACATGATAAACATATAAAAAAATGATGAATGACA
* *
28046 TTCATGGAGATGTTGGGCATATAGAAAATGCATGAAACATAGTAAAAAAATGCATGATTAAGG
66 TTCATGGAGATATTGAGCATATAGAAAATGCATGAAACATAGTAAAAAAATGCATGATTAAGG
28109 GTTGTCAAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
127 1 0.01
128 120 0.99
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.22
Consensus pattern (128 bp):
AAGACAAACAAACATGCATTTGACAAAAATGACATGATAAACATATAAAAAAATGATGAATGACA
TTCATGGAGATATTGAGCATATAGAAAATGCATGAAACATAGTAAAAAAATGCATGATTAAGG
Found at i:30281 original size:31 final size:33
Alignment explanation
Indices: 30228--30308 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
30218 AGACTAAAAT
* *
30228 AATT-ATCAAATTTATGAGTAATT-TATCT-AA
1 AATTCATCAAATTTATAAATAATTATATCTAAA
* * *
30258 TATTCATCAAATTTATAAATAATTATGTTTAAA
1 AATTCATCAAATTTATAAATAATTATATCTAAA
*
30291 AATTTATCAAATTTATAA
1 AATTCATCAAATTTATAA
30309 TCAATATCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 3 0.07
31 17 0.41
32 3 0.07
33 18 0.44
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (33 bp):
AATTCATCAAATTTATAAATAATTATATCTAAA
Found at i:31668 original size:23 final size:21
Alignment explanation
Indices: 31638--31686 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 21
31628 AATAATATTT
31638 TAAATTTAAATTTAATTATAAT-A
1 TAAATTT-AATTT--TTATAATAA
31661 TAAATTTAATTTTTATAATAA
1 TAAATTTAATTTTTATAATAA
31682 TAAAT
1 TAAAT
31687 AAGTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.28
21 6 0.24
22 5 0.20
23 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATTTAATTTTTATAATAA
Found at i:33847 original size:21 final size:21
Alignment explanation
Indices: 33782--33849 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
33772 GATAATTTTA
** *
33782 AATATAATATAATTATAATTAT
1 AATATAATA-AAAAATAATCAT
* *
33804 -ATAAAATAAAAAATTAAACAT
1 AATATAATAAAAAA-TAATCAT
*
33825 AATATAATAAAAAATAATGAT
1 AATATAATAAAAAATAATCAT
33846 AATA
1 AATA
33850 CACTATAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 3 0.08
21 21 0.58
22 12 0.33
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (21 bp):
AATATAATAAAAAATAATCAT
Found at i:33915 original size:16 final size:16
Alignment explanation
Indices: 33872--33953 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 16
33862 ATAATTTTTT
*
33872 TTAAAATTTATATA-A
1 TTAAAATTTTTATATA
*
33887 TTATAATTATTTATATA
1 TTAAAATT-TTTATATA
*
33904 TTAAAATTTTTATAAA
1 TTAAAATTTTTATATA
33920 TATAAAATATTTTAAATATA
1 T-TAAAAT-TTTT--ATATA
*
33940 ATAAATATTTTTAT
1 TTAAA-ATTTTTAT
33954 TTCGATTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.13
16 13 0.24
17 16 0.30
18 4 0.07
19 8 0.15
20 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAATTTTTATATA
Found at i:33932 original size:18 final size:18
Alignment explanation
Indices: 33896--33950 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
33886 ATTATAATTA
*
33896 TTTATATAT-TAAAAT-T
1 TTTATAAATATAAAATAT
33912 TTTATAAATATAAAATA-
1 TTTATAAATATAAAATAT
33929 TTT-TAAATATAATAAATAT
1 TTTATAAATAT-A-AAATAT
33948 TTT
1 TTT
33951 TATTTCGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 15 0.45
17 10 0.30
18 5 0.15
19 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATAAATATAAAATAT
Found at i:34390 original size:33 final size:35
Alignment explanation
Indices: 34347--34431 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 35
34337 AAATAATTCA
*
34347 TATATTTATATTATATTTAT-ATAT-TTTAAAATTT
1 TATA-TTATATTATATTTATAAAATATTTAAAATTT
* * *
34381 TATATTATA-TAAATTT-TAAAATATTTATATTTT
1 TATATTATATTATATTTATAAAATATTTAAAATTT
34414 TATATTATATT-TATTTAT
1 TATATTATATTATATTTAT
34432 TGTTACGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
31 1 0.02
32 9 0.21
33 26 0.62
34 6 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (35 bp):
TATATTATATTATATTTATAAAATATTTAAAATTT
Found at i:34732 original size:18 final size:18
Alignment explanation
Indices: 34709--34743 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34699 CAAGTTCAAT
34709 CTAAAATATT-TTTAATTA
1 CTAAAA-ATTATTTAATTA
34727 CTAAAAATTATTTAATT
1 CTAAAAATTATTTAATT
34744 TAGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
CTAAAAATTATTTAATTA
Found at i:35088 original size:15 final size:15
Alignment explanation
Indices: 35070--35100 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35060 TTTAAAATTA
35070 AATATTTAAAAAAAT
1 AATATTTAAAAAAAT
*
35085 AATATTTAAATAAAT
1 AATATTTAAAAAAAT
35100 A
1 A
35101 CTGAATTATA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATTTAAAAAAAT
Found at i:36303 original size:22 final size:24
Alignment explanation
Indices: 36264--36330 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 24
36254 ATATCTTTAA
*
36264 TATTAAAAATAATAAATA-AA-AT
1 TATTAATAATAATAAATATAATAT
* *
36286 TATTAATAATTATTAATATAATAT
1 TATTAATAATAATAAATATAATAT
* *
36310 TTTTAAT-ATAAAATAATATAA
1 TATTAATAATAATA-AATATAA
36331 AAATGTTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 15 0.43
23 5 0.14
24 15 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TATTAATAATAATAAATATAATAT
Found at i:36397 original size:20 final size:23
Alignment explanation
Indices: 36367--36411 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
36357 TGATTAAAGA
36367 TTTATTATTT-AT-TATTAATTT
1 TTTATTATTTAATATATTAATTT
*
36388 TTTA-TATTTAATATATTACTTT
1 TTTATTATTTAATATATTAATTT
36410 TT
1 TT
36412 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATTATTTAATATATTAATTT
Found at i:39435 original size:2 final size:2
Alignment explanation
Indices: 39423--39457 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
39413 TTTTTATGAA
39423 AT AT CAT AT 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 AT
39458 TTAAAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:39891 original size:18 final size:18
Alignment explanation
Indices: 39870--39913 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
39860 TATAAATATA
* **
39870 TTTAAATTTTTAAAATTT
1 TTTAAATATTTAAAAAAT
*
39888 TTTATATATTTAAAAAAT
1 TTTAAATATTTAAAAAAT
39906 TTTAAATA
1 TTTAAATA
39914 ATAATATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAAATATTTAAAAAAT
Found at i:40299 original size:12 final size:13
Alignment explanation
Indices: 40276--40311 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
40266 AATAAATTTA
*
40276 ATTTTTTAAAAAT
1 ATTTTTTAAAATT
40289 ATTTTTTAAAATT
1 ATTTTTTAAAATT
40302 ATTTTATTAA
1 ATTTT-TTAA
40312 TTCAAAGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTTTTAAAATT
Found at i:41628 original size:29 final size:29
Alignment explanation
Indices: 41584--41643 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
41574 GTTAATGAGG
*
41584 TATTTTAATTACTATATTATTAAA-TTTAA
1 TATTTTAATTACTATATT-TAAAATTTTAA
**
41613 TATTTTAATTTTTATATTTAAAATTTTAA
1 TATTTTAATTACTATATTTAAAATTTTAA
41642 TA
1 TA
41644 AATAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (29 bp):
TATTTTAATTACTATATTTAAAATTTTAA
Found at i:41666 original size:17 final size:18
Alignment explanation
Indices: 41631--41667 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
41621 TTTTTATATT
41631 TAAAATTTTAATAAATAA
1 TAAAATTTTAATAAATAA
*
41649 TAAAATTTT-ATTAATAA
1 TAAAATTTTAATAAATAA
41666 TA
1 TA
41668 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTTTAATAAATAA
Found at i:42087 original size:2 final size:2
Alignment explanation
Indices: 42080--42111 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42070 ACAATTTTAA
42080 AT AT AT 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
42112 GATTTTACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42628 original size:19 final size:20
Alignment explanation
Indices: 42597--42636 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
42587 GTTACGTAAT
42597 ATATATATATATAAATAAAA
1 ATATATATATATAAATAAAA
*
42617 ATATAT-TATATAATTAAAA
1 ATATATATATATAAATAAAA
42636 A
1 A
42637 ATGAGTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATATATATATAAATAAAA
Found at i:44326 original size:15 final size:16
Alignment explanation
Indices: 44259--44324 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 16
44249 TTATATTTTA
44259 AAATAAAT-TAAATTT
1 AAATAAATATAAATTT
44274 AAATAAATATAAA--T
1 AAATAAATATAAATTT
* *
44288 AATATCAATATTATATTT
1 AA-ATAAATA-TAAATTT
44306 AAAATAAATATAAATTT
1 -AAATAAATATAAATTT
44323 AA
1 AA
44325 TATGATGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 3 0.07
15 14 0.34
16 9 0.22
17 6 0.15
18 7 0.17
19 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAAATATAAATTT
Found at i:46246 original size:19 final size:18
Alignment explanation
Indices: 46222--46269 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
46212 TTATTTAAAA
46222 ATATTAAAATATTATTTTT
1 ATATTAAAAT-TTATTTTT
*
46241 ATATTAATATTTATTTTT
1 ATATTAAAATTTATTTTT
46259 A-ATT-AAATTTA
1 ATATTAAAATTTA
46270 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 3 0.11
18 9 0.33
19 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTAAAATTTATTTTT
Found at i:46251 original size:17 final size:17
Alignment explanation
Indices: 46229--46269 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
46219 AAAATATTAA
46229 AATA-TTATTTTTATATT
1 AATATTTATTTTTA-ATT
46246 AATATTTATTTTTAATT
1 AATATTTATTTTTAATT
46263 AA-ATTTA
1 AATATTTA
46270 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATATTTATTTTTAATT
Found at i:46504 original size:5 final size:5
Alignment explanation
Indices: 46494--46518 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46484 TAATTCAAAT
46494 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
46519 AATATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:49942 original size:19 final size:19
Alignment explanation
Indices: 49918--49958 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
49908 TTATTGTCAC
49918 TTTTAGAATGTGTCTCTCT
1 TTTTAGAATGTGTCTCTCT
*
49937 TTTTAGAATGTGTCTTTCT
1 TTTTAGAATGTGTCTCTCT
49956 TTT
1 TTT
49959 CGAACTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (19 bp):
TTTTAGAATGTGTCTCTCT
Found at i:52283 original size:11 final size:11
Alignment explanation
Indices: 52267--52301 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
52257 CAGGAGAATT
52267 TTTCATCTTTC
1 TTTCATCTTTC
52278 TTTCATCTTTC
1 TTTCATCTTTC
*
52289 TTGCAT-TTTC
1 TTTCATCTTTC
52299 TTT
1 TTT
52302 ATTTCTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTCATCTTTC
Found at i:53036 original size:50 final size:50
Alignment explanation
Indices: 52961--53269 Score: 510
Period size: 50 Copynumber: 6.2 Consensus size: 50
52951 AGTTGTTGCC
* * * * *
52961 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAAGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
53011 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
53061 ATTGTTGACGATTCTTCACCAACCTTTGACGATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
53111 ATTGTTGACGATTCTTCAACAACCTTTGACAATAGAGAGAGGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
53161 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
53211 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAAAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
53261 ATTGTTGAC
1 ATTGTTGAC
53270 TCTAAGTATA
Statistics
Matches: 243, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 243 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:53564 original size:19 final size:19
Alignment explanation
Indices: 53521--53557 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53511 GTTGTTGAGG
**
53521 CACTGTTCATGTATACAGA
1 CACTGTTCATACATACAGA
53540 CACTGTTCATACATACAG
1 CACTGTTCATACATACAG
53558 TTACTGTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (19 bp):
CACTGTTCATACATACAGA
Found at i:57079 original size:50 final size:50
Alignment explanation
Indices: 57002--57310 Score: 465
Period size: 50 Copynumber: 6.2 Consensus size: 50
56992 AGTTGTTACC
* * * *
57002 ATTGTTGACTATCCTTCACCAATCTTTGACAATAGAGAGAGGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
57052 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
57102 ATTGTTGACGATTCTTCACCAACCTTTGATAATAGAGAGAGGTAGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* * * *
57152 ATTGTTGACGATTCTTCAACAACTTTTGACAATAGAGAGAAGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* * * *
57202 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAAGTGGCTATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
57252 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAAATGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
57302 ATTGTTGAC
1 ATTGTTGAC
57311 TCTAAGTATA
Statistics
Matches: 236, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 236 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:58825 original size:36 final size:35
Alignment explanation
Indices: 58785--58856 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 35
58775 TCTGATTTTT
*
58785 AATAATTTAATATTTTTTATTAA-ATATTAAAATATA
1 AATAATTTAATATATTTT-TTAATAT-TTAAAATATA
*
58821 AATAATTTAATATATTTTTTAATATTTATAATATA
1 AATAATTTAATATATTTTTTAATATTTAAAATATA
58856 A
1 A
58857 TATTATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 14 0.42
36 19 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
AATAATTTAATATATTTTTTAATATTTAAAATATA
Found at i:59197 original size:14 final size:15
Alignment explanation
Indices: 59180--59211 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
59170 TATTTTTTTA
59180 TTTAAATT-TAATAT
1 TTTAAATTCTAATAT
59194 TTTAAATTCTAATAT
1 TTTAAATTCTAATAT
59209 TTT
1 TTT
59212 TACTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAAATTCTAATAT
Found at i:59629 original size:15 final size:14
Alignment explanation
Indices: 59609--59640 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
59599 AATATAATAA
59609 AAATATTAAATTATT
1 AAATATTAAATT-TT
59624 AAATATTAAATTTT
1 AAATATTAAATTTT
59638 AAA
1 AAA
59641 AAAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATATTAAATTTT
Found at i:59644 original size:33 final size:33
Alignment explanation
Indices: 59537--59646 Score: 100
Period size: 34 Copynumber: 3.2 Consensus size: 33
59527 TTATCATATG
* *
59537 AAAAAATATATATAA-TATTATGATA-TAAATATTA
1 AAAAAATAT-TA-AATTATTA-AATATTAAATTTTA
* * *
59571 AAAAATATGTTAAATTATTTAAAT-TTAAAATATA
1 AAAAA-ATATTAAATTA-TTAAATATTAAATTTTA
59605 ATAAAAATATTAAATTATTAAATATTAAATTTTA
1 A-AAAAATATTAAATTATTAAATATTAAATTTTA
59639 AAAAAATA
1 AAAAAATA
59647 AATTTAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
33 15 0.24
34 37 0.60
35 10 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (33 bp):
AAAAAATATTAAATTATTAAATATTAAATTTTA
Found at i:59662 original size:16 final size:16
Alignment explanation
Indices: 59624--59662 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
59614 TTAAATTATT
* *
59624 AAATATTAAATTTTAA
1 AAATAATAAATTTAAA
59640 AAA-AATAAATTTAAA
1 AAATAATAAATTTAAA
59655 AAATAATA
1 AAATAATA
59663 TAAATAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATAATAAATTTAAA
Found at i:60258 original size:14 final size:14
Alignment explanation
Indices: 60236--60279 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
60226 TTTTTTATAA
60236 AAATA-TTATATTT
1 AAATATTTATATTT
*
60249 ATATATTTATATTT
1 AAATATTTATATTT
60263 AAATA--TATA-TT
1 AAATATTTATATTT
60274 AAATAT
1 AAATAT
60280 ACATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 7 0.26
12 4 0.15
13 4 0.15
14 12 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATATTTATATTT
Found at i:61203 original size:19 final size:18
Alignment explanation
Indices: 61179--61226 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
61169 TTATTTAAAA
61179 ATATTAAAATATTATTTTT
1 ATATTAAAAT-TTATTTTT
*
61198 ATATTAATATTTATTTTT
1 ATATTAAAATTTATTTTT
61216 A-ATT-AAATTTA
1 ATATTAAAATTTA
61227 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 6 0.22
17 3 0.11
18 9 0.33
19 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTAAAATTTATTTTT
Found at i:61208 original size:17 final size:17
Alignment explanation
Indices: 61186--61226 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
61176 AAAATATTAA
61186 AATA-TTATTTTTATATT
1 AATATTTATTTTTA-ATT
61203 AATATTTATTTTTAATT
1 AATATTTATTTTTAATT
61220 AA-ATTTA
1 AATATTTA
61227 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATATTTATTTTTAATT
Found at i:61463 original size:10 final size:10
Alignment explanation
Indices: 61434--61487 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
61424 ATTAAAGTTG
*
61434 TTAATTTTAA
1 TTAAATTTAA
61444 TTCAAATTTAA
1 TT-AAATTTAA
*
61455 TTTAATTTAA
1 TTAAATTTAA
61465 TTAAA-TTAA
1 TTAAATTTAA
* *
61474 TAAAAATTAA
1 TTAAATTTAA
61484 TTAA
1 TTAA
61488 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 8 0.22
10 20 0.54
11 9 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
TTAAATTTAA
Found at i:61493 original size:14 final size:14
Alignment explanation
Indices: 61440--61495 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
61430 GTTGTTAATT
*
61440 TTAATTCAAATTTAA
1 TTAATT-AAAATTAA
*
61455 TTTAATT-TAATTAAA
1 -TTAATTAAAATT-AA
*
61470 TTAATAAAAATTAA
1 TTAATTAAAATTAA
61484 TTAATTAAAATT
1 TTAATTAAAATT
61496 TATATTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 21 0.64
15 6 0.18
16 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTAAAATTAA
Found at i:65053 original size:164 final size:164
Alignment explanation
Indices: 64737--65149 Score: 455
Period size: 164 Copynumber: 2.5 Consensus size: 164
64727 TGTTGAATTA
* * * *
64737 TTTTTC-GG-GGATTTTTCTTGATTTTTAATTTTTTAAATTCATAAAATATTATTATTTATTTCA
1 TTTTTCGGGAGGATTTTTCTTG-GTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCCA
* * * **
64800 TATTAAATTAGTTTTCAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTTTGAAATTTTTC
65 TATTAAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTTTGAAATTTCCC
* * *
64865 TATTTTTAAAATACAGAGTTTTCTACTTT-GTAAAT
130 TATTTTGAAAATACAGAATTTTCTA-TTTCATAAAT
64900 TTTTTCGGGAGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCCAT
1 TTTTTCGGGAGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCCAT
*
64965 ATTAAATCATTTTTCAAAAATTCATTCATTTT-ATGAGTTTTTGATTTTCTTTCTTGAAATTTCC
66 ATTAAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTT-TTT-TTGAAATTTCC
* *
65029 CT-TTTATGAAAA-ACATAATTTTCTATTTCATATAT
129 CTATTT-TGAAAATACAGAATTTTCTATTTCATAAAT
* * * ** * * * * * *
65064 ATTTTCGAGAAGA-TTTTCTTTGGTCTAAAATTTTTAAAATGCATCTAATATTGTCATTGAACTC
1 TTTTTCGGGAGGATTTTTC-TTGGT-TTTAATTTTTAAAATTCATCAAATATTATTATT-TATTC
*
65128 C-TATTAAATCATTTTTGAAAAA
63 CATATTAAATCATTTTTCAAAAA
65150 GTCAAATTAT
Statistics
Matches: 214, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
163 28 0.13
164 107 0.50
165 75 0.35
166 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (164 bp):
TTTTTCGGGAGGATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCCAT
ATTAAATCATTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTTTGAAATTTCCCT
ATTTTGAAAATACAGAATTTTCTATTTCATAAAT
Found at i:73528 original size:35 final size:35
Alignment explanation
Indices: 73472--73730 Score: 306
Period size: 35 Copynumber: 7.4 Consensus size: 35
73462 CTCTCAAGCT
*
73472 CATCATCATTTGACT-TATCTGGTCAAACTCTTTC
1 CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
* * * * *
73506 CATCATCGTTTAATTGTATCTGGTCAAAATCTTTT
1 CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
* *
73541 CATCATCGTTTGACTATATCTGGTCAAACACTTTT
1 CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
* *
73576 CATCATCGTTTGACTATATTTGGTCAAACTTTTTC
1 CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
* *
73611 CATCATCGTTTGACTGTATCTGGTCAAAC-CTTTTT
1 CATCATCGTTTGACTATATCTGGTCAAACTC-TTTC
* * *
73646 CATCATCGTTTGACTGTATATGGTCAAACCCTTTC
1 CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
* * * * *
73681 CGTCATCATTTGACTATAACAGGTCAAACTATTTC
1 CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
*
73716 CATCATCATTTGACT
1 CATCATCGTTTGACT
73731 GTACTCGATC
Statistics
Matches: 193, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
34 12 0.06
35 180 0.93
36 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.41
Consensus pattern (35 bp):
CATCATCGTTTGACTATATCTGGTCAAACTCTTTC
Found at i:73614 original size:105 final size:105
Alignment explanation
Indices: 73471--73733 Score: 359
Period size: 105 Copynumber: 2.5 Consensus size: 105
73461 GCTCTCAAGC
* *
73471 TCATCATCATTTGACT-TATCTGGTCAAACTCTTTCCATCATCGTTTAATTGTATCTGGTCAAA-
1 TCATCATCATTTGACTATATCTGGTCAAACTATTTCCATCATCGTTTAACTGTATCTGGTCAAAC
* *
73534 ATCTTTTCATCATCGTTTGACTATATCTGGTCAAACACTTT
66 CT-TTTTCATCATCGTTTGACTATATATGGTCAAACACTTT
* * * *
73575 TCATCATCGTTTGACTATATTTGGTCAAACTTTTTCCATCATCGTTTGACTGTATCTGGTCAAAC
1 TCATCATCATTTGACTATATCTGGTCAAACTATTTCCATCATCGTTTAACTGTATCTGGTCAAAC
* *
73640 CTTTTTCATCATCGTTTGACTGTATATGGTCAAACCCTTT
66 CTTTTTCATCATCGTTTGACTATATATGGTCAAACACTTT
* * * * * *
73680 CCGTCATCATTTGACTATAACAGGTCAAACTATTTCCATCATCATTTGACTGTA
1 TCATCATCATTTGACTATATCTGGTCAAACTATTTCCATCATCGTTTAACTGTA
73734 CTCGATCACA
Statistics
Matches: 140, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
104 15 0.11
105 124 0.89
106 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (105 bp):
TCATCATCATTTGACTATATCTGGTCAAACTATTTCCATCATCGTTTAACTGTATCTGGTCAAAC
CTTTTTCATCATCGTTTGACTATATATGGTCAAACACTTT
Found at i:73929 original size:60 final size:59
Alignment explanation
Indices: 73721--74106 Score: 352
Period size: 60 Copynumber: 6.4 Consensus size: 59
73711 ATTTCCATCA
* * * *
73721 TCATTTGACTGTACTCGATCACATCTT-A-CCTCTCTTGACTATATTTCATCAAGCCTTCC
1 TCATTTGACTGTACTCGATCAAAT-TTCACCCT-TCTTGACTGTATTTGATCAAGACTTCC
* * * * *
73780 TTATTTGACTGTACTCGGTCAAATCTCA-CCTCTCTTGATTGTATTCTG-TCAAGACTATCT
1 TCATTTGACTGTACTCGATCAAATTTCACCCT-TCTTGACTGTATT-TGATCAAGACT-TCC
* * * * *
73840 TCATTTGACCGTTCT-TAGTCAAATCTCACCCTTCTTGATTGTATTTGATCAAGACTATCC
1 TCATTTGACTGTACTCGA-TCAAATTTCACCCTTCTTGACTGTATTTGATCAAGACT-TCC
* * * * * *
73900 TCATTTGACTGTATTCGATTAAATTTCACCCCTGCTTGACTATATTTGGTCAAGTCTTTCC
1 TCATTTGACTGTACTCGATCAAATTTCA-CCCTTCTTGACTGTATTTGATCAAGAC-TTCC
* * * *
73961 TTATTTAACTGTACTCGATCAAATCTCACCCTTCTTGACTGTATTCGATCAAGACCTTCC
1 TCATTTGACTGTACTCGATCAAATTTCACCCTTCTTGACTGTATTTGATCAAGA-CTTCC
* * * **
74021 TCATTTGAATGTATTCGATCAAATTTCACCCTTGCTTGATTGTATTT-AGTCAAGTTTTTCC
1 TCATTTGACTGTACTCGATCAAATTTCACCCTT-CTTGACTGTATTTGA-TCAAG-ACTTCC
74082 TCATTTGACTGTACTCGATCAAATT
1 TCATTTGACTGTACTCGATCAAATT
74107 AGCCTCTTTT
Statistics
Matches: 267, Mismatches: 47, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
58 1 0.00
59 46 0.17
60 123 0.46
61 96 0.36
62 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (59 bp):
TCATTTGACTGTACTCGATCAAATTTCACCCTTCTTGACTGTATTTGATCAAGACTTCC
Found at i:73984 original size:121 final size:119
Alignment explanation
Indices: 73723--74105 Score: 441
Period size: 121 Copynumber: 3.2 Consensus size: 119
73713 TTCCATCATC
* * * * * *
73723 ATTTGACTGTACTCGATCACATCTTA-CCTCTCTTGACTATATTTCATCAAGCCTTCCTTATTTG
1 ATTTGACTGTACTCGATCAAATCTCACCCT-TCTTGACTGTATTTGATCAAGACTTCCTCATTTG
* * * * * *
73787 ACTGTACTCGGTCAAATCTCACCTCT-CTTGATTGTATTCTGTCAAGACTAT-CTT
65 ACTGTATTCGATCAAATTTCACCCCTGCTTGATTGTATT-TGTCAAGTCTTTCCTT
* * * *
73841 CATTTGACCGTTCT-TAGTCAAATCTCACCCTTCTTGATTGTATTTGATCAAGACTATCCTCATT
1 -ATTTGACTGTACTCGA-TCAAATCTCACCCTTCTTGACTGTATTTGATCAAGACT-TCCTCATT
* * *
73905 TGACTGTATTCGATTAAATTTCACCCCTGCTTGACTATATTTGGTCAAGTCTTTCCTT
63 TGACTGTATTCGATCAAATTTCACCCCTGCTTGATTGTATTT-GTCAAGTCTTTCCTT
* *
73963 ATTTAACTGTACTCGATCAAATCTCACCCTTCTTGACTGTATTCGATCAAGACCTTCCTCATTTG
1 ATTTGACTGTACTCGATCAAATCTCACCCTTCTTGACTGTATTTGATCAAGA-CTTCCTCATTTG
* * * *
74028 AATGTATTCGATCAAATTTCACCCTTGCTTGATTGTATTTAGTCAAGTTTTTCCTC
65 ACTGTATTCGATCAAATTTCACCCCTGCTTGATTGTATTT-GTCAAGTCTTTCCTT
74084 ATTTGACTGTACTCGATCAAAT
1 ATTTGACTGTACTCGATCAAAT
74106 TAGCCTCTTT
Statistics
Matches: 222, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
118 1 0.00
119 39 0.18
120 34 0.15
121 142 0.64
122 6 0.03
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (119 bp):
ATTTGACTGTACTCGATCAAATCTCACCCTTCTTGACTGTATTTGATCAAGACTTCCTCATTTGA
CTGTATTCGATCAAATTTCACCCCTGCTTGATTGTATTTGTCAAGTCTTTCCTT
Found at i:74009 original size:30 final size:30
Alignment explanation
Indices: 73858--74066 Score: 115
Period size: 30 Copynumber: 6.9 Consensus size: 30
73848 CCGTTCTTAG
* *
73858 TCAAATCTCACCCTTCTTGATTGTATTTGA
1 TCAAATCTCACCCTTCTTGACTGTATTCGA
*
73888 TCAAGA-CT-ATCC-TCATTTGACTGTATTCGA
1 TCAA-ATCTCACCCTTC--TTGACTGTATTCGA
* * * * * *
73918 TTAAATTTCACCCCTGCTTGACTATATTTGG
1 TCAAATCTCA-CCCTTCTTGACTGTATTCGA
* ** * * *
73949 TCAAGTCT-TTCCTTATTTAACTGTACTCGA
1 TCAAATCTCACCCTT-CTTGACTGTATTCGA
73979 TCAAATCTCACCCTTCTTGACTGTATTCGA
1 TCAAATCTCACCCTTCTTGACTGTATTCGA
* * * *
74009 TCAAGACCTTC-CTCAT-TTGAATGTATTCGA
1 TCAA-ATC-TCACCCTTCTTGACTGTATTCGA
* *
74039 TCAAATTTCACCCTTGCTTGATTGTATT
1 TCAAATCTCACCCTT-CTTGACTGTATT
74067 TAGTCAAGTT
Statistics
Matches: 128, Mismatches: 37, Indels: 27
0.67 0.19 0.14
Matches are distributed among these distances:
28 4 0.03
29 11 0.09
30 71 0.55
31 37 0.29
32 4 0.03
33 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (30 bp):
TCAAATCTCACCCTTCTTGACTGTATTCGA
Found at i:74166 original size:44 final size:43
Alignment explanation
Indices: 74117--74501 Score: 190
Period size: 44 Copynumber: 8.8 Consensus size: 43
74107 AGCCTCTTTT
* *
74117 CTGTCTGATGTATGGTTACCACCCTAGTCAAATCTACTTCATTC
1 CTGTCTGACGTATGGTTACCACCTTAGTCAAATCT-CTTCATTC
* * * * *
74161 CTGTCTGACATAAGGTTACCACCTTAGTCAGATTCTTTTCATTT
1 CTGTCTGACGTATGGTTACCACCTTAGTCA-AATCTCTTCATTC
* * * * * * *
74205 C-GATTTGATGTATGGTTACCACTTTAGTCAAATCAGCCTCTTTT
1 CTG-TCTGACGTATGGTTACCACCTTAGTCAAATC-TCTTCATTC
* * * *
74249 CTGTCTGACGTATGGTTACCACCTTGGTCAGATTCTTTTTATT-
1 CTGTCTGACGTATGGTTACCACCTTAGTCA-AATCTCTTCATTC
* * * * *
74292 TTAATTTGACATATGGTTACCA-CTCTAGTCAAATCTGCTTCCTTC
1 CT-GTCTGACGTATGGTTACCACCT-TAGTCAAATCT-CTTCATTC
* * * * *
74337 CTATCTGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTT
1 CTGTCTGACGTATGGTTACCACCTTAGTCA-AATCTCTTCATTC
* * ** * * *
74381 C-GATTTGACATATGGTTGTCACCTTGGTCAAATCTGCCTCTTTC
1 CTG-TCTGACGTATGGTTACCACCTTAGTCAAATCT-CTTCATTC
* * * * * *
74425 TTATTTGGCGTATGGTTACCA-CTCTAGTCAGATTCTTTTCATT-
1 CTGTCTGACGTATGGTTACCACCT-TAGTCA-AATCTCTTCATTC
* **
74468 CTGATTTGGTGTATGGTTACCA-CTCTAGTCAAAT
1 CTG-TCTGACGTATGGTTACCACCT-TAGTCAAAT
74502 GATTTGCACT
Statistics
Matches: 255, Mismatches: 69, Indels: 35
0.71 0.19 0.10
Matches are distributed among these distances:
43 20 0.08
44 216 0.85
45 19 0.07
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (43 bp):
CTGTCTGACGTATGGTTACCACCTTAGTCAAATCTCTTCATTC
Found at i:74271 original size:88 final size:87
Alignment explanation
Indices: 74122--74501 Score: 417
Period size: 88 Copynumber: 4.3 Consensus size: 87
74112 CTTTTCTGTC
* * * * *
74122 TGATGTATGGTTACCACCCTAGTCAAATCTA-CTTCATTCCTGTCTGACATAAGGTTACCACCTT
1 TGATGTATGGTTACCACTCTAGTCAAATC-AGCCTC-TTCCTATCTGACGTATGGTTACCACCTT
74186 AGTCAGATTCTTTTCATTTCGATT
64 AGTCAGATTCTTTTCATTTCGATT
* * * *
74210 TGATGTATGGTTACCACTTTAGTCAAATCAGCCTCTTTTCTGTCTGACGTATGGTTACCACCTTG
1 TGATGTATGGTTACCACTCTAGTCAAATCAGCCTC-TTCCTATCTGACGTATGGTTACCACCTTA
* **
74275 GTCAGATTCTTTTTATTTTAATT
65 GTCAGATTCTTTTCATTTCGATT
** * * *
74298 TGACATATGGTTACCACTCTAGTCAAATCTGCTTCCTTCCTATCTGACGTATGGTTACCACCTTG
1 TGATGTATGGTTACCACTCTAGTCAAATCAGCCT-CTTCCTATCTGACGTATGGTTACCACCTTA
74363 GTCAGATTCTTTTCATTTCGATT
65 GTCAGATTCTTTTCATTTCGATT
** ** * * * * *
74386 TGACATATGGTTGTCAC-CTTGGTCAAATCTGCCTCTTTCTTATTTGGCGTATGGTTACCA-CTC
1 TGATGTATGGTTACCACTC-TAGTCAAATCAGCCTC-TTCCTATCTGACGTATGGTTACCACCT-
74449 TAGTCAGATTCTTTTCA-TTCTGATT
63 TAGTCAGATTCTTTTCATTTC-GATT
*
74474 TGGTGTATGGTTACCACTCTAGTCAAAT
1 TGATGTATGGTTACCACTCTAGTCAAAT
74502 GATTTGCACT
Statistics
Matches: 250, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
87 8 0.03
88 240 0.96
89 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (87 bp):
TGATGTATGGTTACCACTCTAGTCAAATCAGCCTCTTCCTATCTGACGTATGGTTACCACCTTAG
TCAGATTCTTTTCATTTCGATT
Found at i:74350 original size:132 final size:132
Alignment explanation
Indices: 74100--74358 Score: 292
Period size: 132 Copynumber: 2.0 Consensus size: 132
74090 CTGTACTCGA
* * *
74100 TCAAATTAGCCTCTTTTCTGTCTGATGTATGGTTACCACCCTAGTCAAATCTACTTCATTCCTGT
1 TCAAATCAGCCTCTTTTCTGTCTGACGTATGGTTACCACCCTAGTCAAATCTACTTCATTCCTAT
* * * * *
74165 CTGACATAAGGTTACCACCTTAGTCAGATTCTTTTCATTTCGATTTGATGTATGGTTACCACTTT
66 CTGACATAAGGTTACCACCTTAGTCAGAATCTCTTCATTCCGATCTGACGTATGGTTACCACTTT
74230 AG
131 AG
* * * * * *
74232 TCAAATCAGCCTCTTTTCTGTCTGACGTATGGTTACCACCTTGGTCAGATTCT-TTTTATT-TTA
1 TCAAATCAGCCTCTTTTCTGTCTGACGTATGGTTACCACCCTAGTCA-AATCTACTTCATTCCT-
* * * *
74295 ATTTGACATATGGTTACCA-CTCTAGTCA-AATCTGCTTCCTTCCTATCTGACGTATGGTTACCA
64 ATCTGACATAAGGTTACCACCT-TAGTCAGAATCT-CTTCATTCCGATCTGACGTATGGTTACCA
74358 C
127 C
74359 CTTGGTCAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
131 7 0.07
132 94 0.90
133 4 0.04
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (132 bp):
TCAAATCAGCCTCTTTTCTGTCTGACGTATGGTTACCACCCTAGTCAAATCTACTTCATTCCTAT
CTGACATAAGGTTACCACCTTAGTCAGAATCTCTTCATTCCGATCTGACGTATGGTTACCACTTT
AG
Found at i:74422 original size:176 final size:176
Alignment explanation
Indices: 74127--74501 Score: 502
Period size: 176 Copynumber: 2.1 Consensus size: 176
74117 CTGTCTGATG
* *
74127 TATGGTTACCACCCTAGTCAAATCTACTTCATTCCTGTCTGACATAAGGTTACCACCTTAGTCAG
1 TATGGTTACCACTCTAGTCAAATCTACTTCATTCCTATCTGACATAAGGTTACCACCTTAGTCAG
** * *
74192 ATTCTTTTCATTTCGATTTGATGTATGGTTACCACTTTAGTCAAATCAGCCTCTTT-TCTGTCTG
66 ATTCTTTTCATTTCGATTTGACATATGGTTACCACCTTAGTCAAATCAGCCTCTTTCT-TATCTG
* * *
74256 ACGTATGGTTACCAC-CTTGGTCAGATTCTTTTTATTTTAATTTGACA
130 ACGTATGGTTACCACTC-TAGTCAGATTCTTTTCATTCTAATTTGACA
* * * * *
74303 TATGGTTACCACTCTAGTCAAATCTGCTTCCTTCCTATCTGACGTATGGTTACCACCTTGGTCAG
1 TATGGTTACCACTCTAGTCAAATCTACTTCATTCCTATCTGACATAAGGTTACCACCTTAGTCAG
** * * * *
74368 ATTCTTTTCATTTCGATTTGACATATGGTTGTCACCTTGGTCAAATCTGCCTCTTTCTTATTTGG
66 ATTCTTTTCATTTCGATTTGACATATGGTTACCACCTTAGTCAAATCAGCCTCTTTCTTATCTGA
* ***
74433 CGTATGGTTACCACTCTAGTCAGATTCTTTTCATTCTGATTTGGTG
131 CGTATGGTTACCACTCTAGTCAGATTCTTTTCATTCTAATTTGACA
74479 TATGGTTACCACTCTAGTCAAAT
1 TATGGTTACCACTCTAGTCAAAT
74502 GATTTGCACT
Statistics
Matches: 173, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
176 171 0.99
177 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (176 bp):
TATGGTTACCACTCTAGTCAAATCTACTTCATTCCTATCTGACATAAGGTTACCACCTTAGTCAG
ATTCTTTTCATTTCGATTTGACATATGGTTACCACCTTAGTCAAATCAGCCTCTTTCTTATCTGA
CGTATGGTTACCACTCTAGTCAGATTCTTTTCATTCTAATTTGACA
Found at i:75912 original size:171 final size:163
Alignment explanation
Indices: 75692--76203 Score: 555
Period size: 167 Copynumber: 3.0 Consensus size: 163
75682 TGATTCTCTT
* * * * *
75692 TTGAAATTTCTCATATTTTCAAATTACGAGATTTTTTTCTCTGTAAATTTTTTGAGAGGATTCTC
1 TTGAAA-TTCTC-TATTTTCAAA-TATGAAATTTTCTACTCTGTAAATTTTTTGAGAGGATTTTC
* **
75757 ATGGGTTTAAAATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATTTTTTT
63 -TTGGTTTTTAATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAA----TTT
*
75822 TAAAAAAATTCCTTCATTTTCATTAGTTTTTGAATTTTTTCC
123 T-AAAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCC
*
75864 TTGAAATTCCTCTATTTTCGAAATATGAAATTTTCTACTCCGTAAATTTTTTTGAGA-GATTTTT
1 TTGAAATT-CTCTATTTTC-AAATATGAAATTTTCTACTCTGTAAA-TTTTTTGAGAGGA-TTTT
* *
75928 CTTGGTTTTTAATTTTTTAAATTCATAAAATATTATTATTTATTTTATATTAAATCAATTTTCAA
62 CTTGGTTTTTAATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATTTTAAA
* *
75993 AAATTCATTCATTTTCATTAGTTTTTGATTTTTTTTC
127 AAATTCATTCATTTTCATTAGTTTTTGAATTTTTTCC
* * * * * * * *
76030 TTGAAATTTTCCTATTTCTAAAATA-CAGAGTTTTCTACTTTGTAAATTATTTAGAGGGGTTTTT
1 TTGAAATTCT-CTATTT-TCAAATATGA-AATTTTCTACTCTGTAAATT-TTTTGAGAGG-ATTT
* * * *
76094 TCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCCATATTAAATC-ATTCTTC
61 TCTTGGTTTTTAATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATT-TTA
* **
76158 AAAAATTCATTCATTTTTAAGAGTTTTTG-ATTTTTTCCC
125 AAAAATTCATTCATTTTCATTAGTTTTTGAATTTTTT-CC
76197 TTGAAAT
1 TTGAAAT
76204 GTCCCTTTTC
Statistics
Matches: 296, Mismatches: 32, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
165 4 0.01
166 85 0.29
167 99 0.33
171 82 0.28
172 26 0.09
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (163 bp):
TTGAAATTCTCTATTTTCAAATATGAAATTTTCTACTCTGTAAATTTTTTGAGAGGATTTTCTTG
GTTTTTAATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATTTTAAAAAAT
TCATTCATTTTCATTAGTTTTTGAATTTTTTCC
Found at i:76132 original size:167 final size:167
Alignment explanation
Indices: 75767--76203 Score: 562
Period size: 167 Copynumber: 2.6 Consensus size: 167
75757 ATGGGTTTAA
*
75767 AATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATTTTTTTTAAAAAAATT
1 AATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAA----TTTT-CAAAAATT
* *
75832 CCTTCATTTTCATTAGTTTTTGAATTTTTTCCTTGAAA-TTCCTCTATTTTCGAAATATGAAATT
61 CATTCATTTTCATTAGTTTTTGATTTTTTTCCTTGAAATTTCCTCTATTTTCGAAATATGAAATT
* *
75896 TTCTACTCCGTAAATTTTTTTGAGAGATTTTTCTTGGTTTTT
126 TTCTACTCCGTAAATTATTTAGAGAGATTTTTCTTGGTTTTT
*
75938 AATTTTTTAAATTCATAAAATATTATTATTTATTTTATATTAAATCAATTTTCAAAAATTCATTC
1 AATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATTTTCAAAAATTCATTC
* * *
76003 ATTTTCATTAGTTTTTGATTTTTTTTCTTGAAATTTTC-CTA-TTTCTAAA-AT-ACAGAGTTTT
66 ATTTTCATTAGTTTTTGATTTTTTTCCTTGAAATTTCCTCTATTTTCGAAATATGA-A-A-TTTT
** * *
76064 CTACTTTGTAAATTATTTAGAGGGGTTTTTTCTTGGTTTTT
128 CTACTCCGTAAATTATTTAGA-GAGATTTTTCTTGGTTTTT
* * *
76105 AATTTTTAAAATTCATCAAATATTATTATTTATTCCATATTAAATC-ATTCTTCAAAAATTCATT
1 AATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATT-TTCAAAAATTCATT
* ** *
76169 CATTTTTAAGAGTTTTTGATTTTTTCCCTTGAAAT
65 CATTTTCATTAGTTTTTGATTTTTTTCCTTGAAAT
76204 GTCCCTTTTC
Statistics
Matches: 238, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
163 1 0.00
164 3 0.01
165 8 0.03
166 69 0.29
167 110 0.46
171 47 0.20
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (167 bp):
AATTTTTTAAATTCATAAAATATTATTATTTATTTCATATTAAATCAATTTTCAAAAATTCATTC
ATTTTCATTAGTTTTTGATTTTTTTCCTTGAAATTTCCTCTATTTTCGAAATATGAAATTTTCTA
CTCCGTAAATTATTTAGAGAGATTTTTCTTGGTTTTT
Found at i:78088 original size:13 final size:13
Alignment explanation
Indices: 78070--78111 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
78060 ATAAAATTTT
78070 TAATAATAAAAAA
1 TAATAATAAAAAA
*
78083 TAATAATAAGATAA
1 TAATAATAA-AAAA
78097 -AATAATAAATAAA
1 TAATAATAAA-AAA
78110 TA
1 TA
78112 TTTTTGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 19 0.79
14 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
TAATAATAAAAAA
Found at i:78089 original size:16 final size:16
Alignment explanation
Indices: 78070--78104 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
78060 ATAAAATTTT
*
78070 TAATAATAAAAAATAA
1 TAATAAGAAAAAATAA
*
78086 TAATAAGATAAAATAA
1 TAATAAGAAAAAATAA
78102 TAA
1 TAA
78105 ATAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
TAATAAGAAAAAATAA
Found at i:81895 original size:17 final size:18
Alignment explanation
Indices: 81883--81926 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
81873 AATAATTTAA
81883 TTATTATTTTAATATAAT
1 TTATTATTTTAATATAAT
* *
81901 TTTTTATTTTATATATTAT
1 TTATTATTTTA-ATATAAT
81920 TT-TTATT
1 TTATTATT
81927 GAATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTATTTTAATATAAT
Found at i:81909 original size:18 final size:19
Alignment explanation
Indices: 81886--81923 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
81876 AATTTAATTA
81886 TTATTTTA-ATATAATTTT
1 TTATTTTATATATAATTTT
*
81904 TTATTTTATATATTATTTT
1 TTATTTTATATATAATTTT
81923 T
1 T
81924 ATTGAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTATATATAATTTT
Found at i:82284 original size:2 final size:2
Alignment explanation
Indices: 82277--82330 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
82267 GTGGTCGTTG
82277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T GAT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
*
82318 AT A- AT AT TT AT AT
1 AT AT AT AT AT AT AT
82331 TTGATGTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
1 3 0.07
2 42 0.91
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:82363 original size:21 final size:22
Alignment explanation
Indices: 82324--82366 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
82314 TATTATAATA
82324 TTTATATTTGATGTTTTAAGTT
1 TTTATATTTGATGTTTTAAGTT
82346 TTTATTATTT-AT-TTTTAAGTT
1 TTTA-TATTTGATGTTTTAAGTT
82367 ACGTGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (22 bp):
TTTATATTTGATGTTTTAAGTT
Found at i:87410 original size:20 final size:20
Alignment explanation
Indices: 87385--87462 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
87375 GTAAAAACAC
87385 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
87405 AGAATGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
* *
87425 TA-CATATATCGATACATTGA
1 -AGAATGTATCGATACATTGA
87445 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
87463 TGGGTACTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:87994 original size:31 final size:32
Alignment explanation
Indices: 87958--88051 Score: 131
Period size: 31 Copynumber: 3.0 Consensus size: 32
87948 CACGATTCAG
*
87958 AACAAAAACTACTATT-TTAATTCGGTGGCAC
1 AACAAAAACCACTATTCTTAATTCGGTGGCAC
*
87989 AACAAAAACCACTATTCTT-ATTCGATGGCAC
1 AACAAAAACCACTATTCTTAATTCGGTGGCAC
**
88020 GGCAAAAACCACTATTCTTAA-TCGGTGGCAC
1 AACAAAAACCACTATTCTTAATTCGGTGGCAC
88051 A
1 A
88052 GTTTGAAACT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
31 52 0.95
32 3 0.05
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (32 bp):
AACAAAAACCACTATTCTTAATTCGGTGGCAC
Found at i:93710 original size:31 final size:31
Alignment explanation
Indices: 93594--93710 Score: 144
Period size: 31 Copynumber: 3.8 Consensus size: 31
93584 ATATAACAGC
* **
93594 AACCACTATTCTTATCCAGTGGCAAGACGAA
1 AACCACTATTCTTATCCAGTGGCACGGTGAA
* *
93625 AATCACTATTCTTATCCGGTGGCACGGTGAA
1 AACCACTATTCTTATCCAGTGGCACGGTGAA
* * *
93656 AACTACTATTCTTATCCGGTGGCACGGTAAA
1 AACCACTATTCTTATCCAGTGGCACGGTGAA
* *
93687 AACCACTATTCTTAACCATTGGCA
1 AACCACTATTCTTATCCAGTGGCA
93711 TGGTTTGAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (31 bp):
AACCACTATTCTTATCCAGTGGCACGGTGAA
Found at i:96135 original size:17 final size:17
Alignment explanation
Indices: 96102--96140 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
96092 ATAATTAAAA
*
96102 TTAAAAAATATATTATT
1 TTAAAAAATATACTATT
96119 TTAATAAAAT-TACTATT
1 TTAA-AAAATATACTATT
96136 TTAAA
1 TTAAA
96141 TTACTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.70
18 5 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAAAAATATACTATT
Found at i:96272 original size:27 final size:28
Alignment explanation
Indices: 96233--96364 Score: 89
Period size: 27 Copynumber: 4.7 Consensus size: 28
96223 TTACAATATT
96233 AAATATAATTATATAAATAAA-ATAATTA
1 AAATATAATTATA-AAATAAATATAATTA
* * *
96261 AAATATGA-TATAATATAAATATATTTA
1 AAATATAATTATAAAATAAATATAATTA
*
96288 AAATTTATATTATATAAATTATTAATAT-ATTA
1 AAATATA-ATTATA-AAA-TA--AATATAATTA
*
96320 AAAT-TTA-TATAAATATAAA-ATATATT-
1 AAATATAATTATAAA-ATAAATATA-ATTA
*
96346 TAATATAATTATAAAATAA
1 AAATATAATTATAAAATAA
96365 TAAAATATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
25 2 0.02
26 11 0.13
27 24 0.29
28 18 0.22
29 9 0.11
30 3 0.04
31 3 0.04
32 7 0.09
33 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (28 bp):
AAATATAATTATAAAATAAATATAATTA
Found at i:96278 original size:26 final size:26
Alignment explanation
Indices: 96239--96306 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
96229 TATTAAATAT
96239 AATT-ATATAA-ATAAA-ATAATTAA
1 AATTGATATAATATAAATATAATTAA
*
96262 AATATGATATAATATAAATATATTTAA
1 AAT-TGATATAATATAAATATAATTAA
* *
96289 AATTTATATTATATAAAT
1 AATTGATATAATATAAAT
96307 TATTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 3 0.08
24 1 0.03
25 6 0.16
26 18 0.47
27 10 0.26
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (26 bp):
AATTGATATAATATAAATATAATTAA
Found at i:96334 original size:20 final size:19
Alignment explanation
Indices: 96273--96352 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 19
96263 ATATGATATA
96273 ATATAAATATATTTAAAATTT
1 ATAT-AATATA-TTAAAATTT
96294 ATAT--TATA-T-AAA-TT
1 ATATAATATATTAAAATTT
96308 AT-TAATATATTAAAATTT
1 ATATAATATATTAAAATTT
*
96326 ATATAA-ATA-TAAAATAT
1 ATATAATATATTAAAATTT
*
96343 ATTTAATATA
1 ATATAATATA
96353 ATTATAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
13 1 0.02
14 4 0.08
15 7 0.14
16 2 0.04
17 15 0.30
18 14 0.28
19 3 0.06
21 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATATATTAAAATTT
Found at i:96336 original size:33 final size:36
Alignment explanation
Indices: 96278--96362 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 36
96268 ATATAATATA
*
96278 AATATATTTAAAATTTATATTATAT-AAAT-TA-TT
1 AATATATTTAAAATTTATATAATATAAAATATATTT
96311 AATATA-TTAAAATTTATATAAATATAAAATATATTT
1 AATATATTTAAAATTTATAT-AATATAAAATATATTT
96347 AATATAATTATAAAAT
1 AATAT-ATT-TAAAAT
96363 AATAAAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
32 13 0.30
33 10 0.23
34 4 0.09
35 2 0.05
36 7 0.16
37 1 0.02
38 1 0.02
39 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
AATATATTTAAAATTTATATAATATAAAATATATTT
Found at i:96353 original size:22 final size:21
Alignment explanation
Indices: 96322--96363 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
96312 ATATATTAAA
96322 ATTTATATAAATATAAAATAT
1 ATTTATATAAATATAAAATAT
*
96343 ATTTAATATAATTATAAAATA
1 ATTT-ATATAAATATAAAATA
96364 ATAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTATATAAATATAAAATAT
Found at i:100738 original size:18 final size:18
Alignment explanation
Indices: 100701--100741 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100691 TCATAATAAT
*
100701 AAAAAATCAAAAAATTAA
1 AAAAAATCAAAAAATCAA
**
100719 AAAAAATCAATGAATCAA
1 AAAAAATCAAAAAATCAA
100737 AAAAA
1 AAAAA
100742 TAAAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAAAATCAAAAAATCAA
Found at i:100753 original size:18 final size:18
Alignment explanation
Indices: 100695--100751 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
100685 ATAAAATCAT
100695 AATAATAAAAAATCAAAAA
1 AATAA-AAAAAATCAAAAA
* **
100714 ATTAAAAAAAATC-AATG
1 AATAAAAAAAATCAAAAA
* *
100731 AATCAAAAAAATAAAAAA
1 AATAAAAAAAATCAAAAA
100749 AAT
1 AAT
100752 CATCAAATCA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 12 0.41
18 13 0.45
19 4 0.14
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (18 bp):
AATAAAAAAAATCAAAAA
Found at i:100760 original size:26 final size:26
Alignment explanation
Indices: 100704--100800 Score: 92
Period size: 26 Copynumber: 3.7 Consensus size: 26
100694 TAATAATAAA
*
100704 AAATCAAAAAATTAAAAAAAATCAAT
1 AAATCAAAAAAATAAAAAAAATCAAT
*
100730 GAATCAAAAAAATAAAAAAAATC-AT
1 AAATCAAAAAAATAAAAAAAATCAAT
** *
100755 CAAATCAAAAAGCTAAAAGCAAAAT-AAA
1 -AAATCAAAAAAATAAAA--AAAATCAAT
*
100783 AAAT-AATAAAATAAAAAA
1 AAATCAAAAAAATAAAAAA
100801 TGATGATGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 44 0.76
27 4 0.07
28 6 0.10
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.15
Consensus pattern (26 bp):
AAATCAAAAAAATAAAAAAAATCAAT
Found at i:101343 original size:35 final size:35
Alignment explanation
Indices: 101286--101363 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
101276 AGTAGCAAAA
* *
101286 AAAGAAGCAA-CATCGAAGAGCAGCATGGAGCTGC
1 AAAGAAACAAGCATCGAACAGCAGCATGGAGCTGC
* *
101320 AAAGCAACAAGCATCGAACAGCAGCATGGAGTTGC
1 AAAGAAACAAGCATCGAACAGCAGCATGGAGCTGC
101355 AAAGAAACA
1 AAAGAAACA
101364 GGAAAACAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
34 8 0.21
35 30 0.79
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.09
Consensus pattern (35 bp):
AAAGAAACAAGCATCGAACAGCAGCATGGAGCTGC
Found at i:102999 original size:69 final size:69
Alignment explanation
Indices: 102926--103060 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
102916 TCCAATCTTA
* * *
102926 TTTTTAAACTTATCCAAATTTAAATTTTATTTTATCCAAATTATCATTGTTGGGGATACTCCAAC
1 TTTTTAAACTCATCCAAATTTAAATCTTATTTTATCCAAATTATCATTGTCGGGGATACTCCAAC
102991 CCCG
66 CCCG
* * *
102995 TTTTTAAACTCATCGAAATTTAAGTCTTATTTTGTCCAAATTATCATTGTCGGGGATACTCCAAC
1 TTTTTAAACTCATCCAAATTTAAATCTTATTTTATCCAAATTATCATTGTCGGGGATACTCCAAC
103060 C
66 C
103061 TCATTCTTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (69 bp):
TTTTTAAACTCATCCAAATTTAAATCTTATTTTATCCAAATTATCATTGTCGGGGATACTCCAAC
CCCG
Found at i:104747 original size:62 final size:62
Alignment explanation
Indices: 104639--104762 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 62
104629 TGGTAATGCC
* * *
104639 TAATTCGGGGCAATTATCAAGGTTCATTCTGTACCTTTACTTTTTTATTCTTTGCAATTGTT
1 TAATTCGGGGCAAATATCAAGGTTCATTCTGTACCCTTACTTTTTTATTCTTTACAATTGTT
* *
104701 TAATTTGGGGCAAATATCAAGGTTCATTTTGTACCCTTA-TTCTTTTATTCTTTACAATTGTT
1 TAATTCGGGGCAAATATCAAGGTTCATTCTGTACCCTTACTT-TTTTATTCTTTACAATTGTT
104763 CGTATGCAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 2 0.04
62 54 0.96
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (62 bp):
TAATTCGGGGCAAATATCAAGGTTCATTCTGTACCCTTACTTTTTTATTCTTTACAATTGTT
Found at i:105727 original size:36 final size:36
Alignment explanation
Indices: 105680--105752 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
105670 CAAGAGATAG
105680 TTTCTCAGTTCACAAGGCGGTGATTGAAATAAGAAA
1 TTTCTCAGTTCACAAGGCGGTGATTGAAATAAGAAA
*
105716 TTTCTTAGTTCACAAGGCGGTGATTGAAATAAGAAA
1 TTTCTCAGTTCACAAGGCGGTGATTGAAATAAGAAA
105752 T
1 T
105753 GACATTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (36 bp):
TTTCTCAGTTCACAAGGCGGTGATTGAAATAAGAAA
Found at i:106022 original size:21 final size:21
Alignment explanation
Indices: 105976--106044 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
105966 CAAAATGACT
* *
105976 AAAAAATCAAAAGCAAAAGCAT
1 AAAAAATGAAAAGCAAAAG-AA
*
105998 AAAAAATGAAAAGAAAAAG-A
1 AAAAAATGAAAAGCAAAAGAA
* *
106018 AAAAACTGTAAAAGCAAAATAA
1 AAAAAATG-AAAAGCAAAAGAA
106040 AAAAA
1 AAAAA
106045 GAGAAACAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.18
21 9 0.23
22 23 0.59
ACGTcount: A:0.74, C:0.07, G:0.10, T:0.09
Consensus pattern (21 bp):
AAAAAATGAAAAGCAAAAGAA
Found at i:107320 original size:29 final size:28
Alignment explanation
Indices: 107270--108971 Score: 1251
Period size: 29 Copynumber: 58.4 Consensus size: 28
107260 TCTTTTTCTG
* *
107270 TTTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
107299 TTTTAAAGCCCACAAGTCAGTGGTATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
107328 TTTCAAAGCCTACAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
** *
107357 TTTCAAAGTTCACAAGTCAGTGGCATCAT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
107386 TTTCAAAACTCACAAGTCAGTGGTACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
107415 TTT-AAAGCCCACAAGTAAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
107442 TTTCAAGAGCCCATAAGTCAGTGGTACCT
1 TTTCAA-AGCCCACAAGTCAGTGGCACCT
107471 TTT-AAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
107498 TTT-AAAGCTCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
107526 TTTCAAAGCTCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
107554 TTTCAAAAGCCCACAAATCAATGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCT
* * *
107583 TTTCAAAG-TCAAAAGTTAGTGGCATCCTTTCAAT
1 TTTCAAAGCCCACAAGTCAGTGGCA--C---C--T
* * *
107617 CCTTTCAAAAGCCCAAAAGTCAGTGGTACCCA
1 --TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* *
107649 TTTCAAAGCCCACAAGTCACTAGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
107677 TTT-AAAGCCCATAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * **
107704 TTTCAAAGCCTACAAGTCAGTGGTATTTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
** *
107733 TTTCAAAGCCCATGAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * ** * *
107761 TTTCAAAACCTATGAGTTAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
107789 TTTCAAAGCCCACGAGTCATTGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
107817 TTTCAAAAGCCCACGAGTTAGTGGCATCCC
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* *
107847 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * * *
107875 TTTCAAAAGCCCACGAGTTATTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCT
* *
107904 TTTCAAAGCCCACAAGTTAGTAGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
107932 TTTCAAAACCCACAAGTTAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * * *
107961 TTTCGAAGTCCATAAGTCAGTGGAACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
107989 TTTCAAAGTCCACAAGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
108018 TTT-AAAACCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
108045 TTTCAAAAGCCCACAAGTTAGTGGTACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
108075 TTT-AAAGCCCACAAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
* *
108103 TTTCAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
108131 TTTCAAAAGCCCACTAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCT
* *
108160 TTTCAAAACCCACAAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
108189 TTCAATCCTTTTAAAGCCCACAAGTCAGTGGCACCAT
1 TT---T-C----AAAGCCCACAAGTCAGTGGCACC-T
* *
108226 TTT-AAAGCTCACAAGTCTGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
108254 TTTCAAAGCCCACAAGTTAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
108283 TTTCAAAGCCCATAAATCAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
** *
108311 TTTCAAAATCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
108339 TTTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCT
*
108368 TTTCAAAAGCTCACAAGTCAGTGGCACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* *
108398 TTT-AAAGCCCACAAGTCAATAGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
108426 TTCAATCCTTTTAAAGCCTACAAGTCAGTGGCACCCT
1 TT---T-C----AAAGCCCACAAGTCAGTGGCA-CCT
108463 TTT-AAAGCCCACAAGTCAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
* *
108491 TTTCAAAGCCCATAAGTTAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
108518 CTTTCAAAAGCCCACAAATCAGTGGTACCC
1 -TTTC-AAAGCCCACAAGTCAGTGGCACCT
* *
108548 TTTCAAAGCCCACAAGTTAGTGGTATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
108577 TTCAATCTTTTTAAAATCCCACAAGTTAGTGGCACCCT
1 TT---TC------AAAGCCCACAAGTCAGTGGCA-CCT
* *
108615 TTT-AAAGCCCATAAGTCAGTGACACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
108643 TTT-AAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCT
**
108671 TTTCAAAAACCACAAG-CTAGTGGCA-CT
1 TTTCAAAGCCCACAAGTC-AGTGGCACCT
* *
108698 CTTTCAAAAGCCTACAAGTCAGTGGCACCA
1 -TTTC-AAAGCCCACAAGTCAGTGGCACCT
108728 TTTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC-T
* * * * *
108758 TCAATTCTTTTAAAAGCCTATACGT-TGTAGCACCCT
1 T---TTC-----AAAGCCCACAAGTCAGTGGCA-CCT
* *
108794 TTT-AAAGCCCACAAGTCAATGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
108821 TTTTAAAGCCCATAAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
* *
108850 TTTCAAAG-CCATAAGTCAATGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
108876 ATTTAAAAAACCCACAAGTTAGTGGCACCT
1 -TTT-CAAAGCCCACAAGTCAGTGGCACCT
* *
108906 TTTTAAAG-CCATAAGAT-AGTGGCACCTT
1 TTTCAAAGCCCACAAG-TCAGTGGCACC-T
108934 TTTCAAAGCCCACAAG-CAAGTGGCACCCT
1 TTTCAAAGCCCACAAGTC-AGTGGCA-CCT
108963 TTT-AAAGCC
1 TTTCAAAGCC
108972 TGTCGTAACA
Statistics
Matches: 1376, Mismatches: 197, Indels: 201
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.00
27 126 0.09
28 508 0.37
29 587 0.43
30 26 0.02
31 1 0.00
32 4 0.00
33 6 0.00
34 3 0.00
35 1 0.00
36 8 0.01
37 58 0.04
38 47 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:107460 original size:57 final size:56
Alignment explanation
Indices: 107270--108971 Score: 1232
Period size: 57 Copynumber: 29.2 Consensus size: 56
107260 TCTTTTTCTG
* ** * **
107270 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTTTAAAGCCCACAAGTCAGTGGTATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTTAAAGCCCACAAGTCAGTGGCA-CCC
* * ** **
107328 TTTCAAAGCCTACAAGTCAGTGGCATCCTTTTCAAAGTTCACAAGTCAGTGGCATCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCA-CCC
* * * *
107386 TTTCAAAACTCACAAGTCAGTGGTACCCTTTTAAAGCCCACAAGTAAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* *
107442 TTTCAAGAGCCCATAAGTCAGTGGTA-CCTTTTAAAGCCCACAAGTCAGTGGCA-CC
1 TTTCAA-AGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
107497 TTTTAAAGCTCACAAGTCAGTGGCACCCTTTTCAAAGCTCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * * * *
107554 TTTCAAAAGCCCACAAATCAATGGCACCCTTTCAAAG-TCAAAAGTTAGTGGCATCCTTTCAATC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA------C---C
107618 C
56 C
* * * * *
107619 TTTCAAAAGCCCAAAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCACTAGCA-CC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC-TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * * ***
107676 TTTTAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCTACAAGTCAGTGGTATTTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA-CCC
** * * * ** * **
107733 TTTCAAAGCCCATGAGTCAGTGGCA-TCTTTTCAAAACCTATGAGTTAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * * * *
107789 TTTCAAAGCCCACGAGTCATTGGCATCCTTTCAAAAGCCCACGAGTTAGTGGCATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCA-CCC
* * * * *
107847 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACGAGTTATTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCC
* * * * * * * *
107904 TTTCAAAGCCCACAAGTTAGTAGCATCCTTTCAAAACCCACAAGTTAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA-CCC
* * * * * *
107961 TTTCGAAGTCCATAAGTCAGTGG-AACCTTTTCAAAGTCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * * * *
108017 TTTTAAAACCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCC
* * *
108074 TTTTAAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * * *
108131 TTTCAAAAGCCCACTAGTTAGTGGCACCCTTTCAAAACCCACAAGTTAGTGGCATCCTTTCAATC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA------C---C
108196 C
56 C
* * * *
108197 TTTTAAAGCCCACAAGTCAGTGGCACCATTTTAAAGCTCACAAGTCTGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
108253 TTTTCAAAGCCCACAAGTTAATGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACCA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCC
** *
108311 TTTCAAAATCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCC
* * *
108368 TTTCAAAAGCTCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAATAGCATCCTTTCAATC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA------C---C
108433 C
56 C
* * *
108434 TTTTAAAGCCTACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACC-C
* * * * * *
108491 TTTCAAAGCCCATAAGTTAGTGGCACTCTTTCAAAAGCCCACAAATCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCC
* * * *
108548 TTTCAAAGCCCACAAGTTAGTGGTATCCTTTCAATCTTTTTAAAATCCCACAAGTTAGTGGCACC
1 TTTCAAAGCCCACAAGTCAGTGGCA--C---C---C-TTTT-AAAGCCCACAAGTCAGTGGCACC
108613 C
56 C
* * *
108614 TTTTAAAGCCCATAAGTCAGTGACACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
** * * * *
108670 TTTTCAAAAACCACAAG-CTAGTGGCACTCTTTCAAAAGCCTACAAGTCAGTGGCACCA
1 -TTTCAAAGCCCACAAGTC-AGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCC
* * * * *
108728 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAATTCTTTTAAAAGCCTATACGT-TGTAGCACC
1 TTTCAAAGCCCACAAGTCAGTGGCA--C---C----CTTTT-AAAGCCCACAAGTCAGTGGCACC
108792 C
56 C
* * ** * *
108793 TTTTAAAGCCCACAAGTCAATGGCACTTTTTTAAAGCCCATAAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACC-C
* * ** * * * *
108850 TTTCAAAG-CCATAAGTCAATGGCACTATTTAAAAAACCCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCC
* * *
108906 TTTTAAAG-CCATAAGAT-AGTGGCACCTTTTTCAAAGCCCACAAG-CAAGTGGCACCC
1 TTTCAAAGCCCACAAG-TCAGTGGCACCCTTTT-AAAGCCCACAAGTC-AGTGGCACCC
*
108962 TTTTAAAGCC
1 TTTCAAAGCC
108972 TGTCGTAACA
Statistics
Matches: 1331, Mismatches: 229, Indels: 169
0.77 0.13 0.10
Matches are distributed among these distances:
54 16 0.01
55 45 0.03
56 268 0.20
57 504 0.38
58 257 0.19
59 4 0.00
61 1 0.00
62 1 0.00
63 3 0.00
64 1 0.00
65 144 0.11
66 76 0.06
67 11 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCC
Found at i:107698 original size:94 final size:93
Alignment explanation
Indices: 107526--107709 Score: 237
Period size: 94 Copynumber: 2.0 Consensus size: 93
107516 GTGGCACCCT
* * *
107526 TTTCAAAGCTCATAAGTCAGTGGCACCCTTTCAAAAGCCCACAAATCAATGGCACCCTTTCAAAG
1 TTTCAAAGCCCAAAAGTCAGTGGCACCCTTTCAAAAGCCCACAAATCAATAGCACCCTTTCAAAG
* *
107591 TCAAAAGTTAGTGGCATCCTTTCAATCC
66 CCAAAAGTCAGTGGCATCCTTTCAATCC
* * * *
107619 TTTCAAAAGCCCAAAAGTCAGTGGTACCCATTTC-AAAGCCCACAAGTCACTAGCA-CCTTTTAA
1 TTTC-AAAGCCCAAAAGTCAGTGGCACCC-TTTCAAAAGCCCACAAATCAATAGCACCCTTTCAA
*
107682 AGCCCATAAGTCAGTGGCATCCTTTCAA
64 AG-CCAAAAGTCAGTGGCATCCTTTCAA
107710 AGCCTACAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
93 13 0.17
94 61 0.78
95 4 0.05
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (93 bp):
TTTCAAAGCCCAAAAGTCAGTGGCACCCTTTCAAAAGCCCACAAATCAATAGCACCCTTTCAAAG
CCAAAAGTCAGTGGCATCCTTTCAATCC
Found at i:108571 original size:28 final size:28
Alignment explanation
Indices: 108432--108581 Score: 174
Period size: 28 Copynumber: 5.3 Consensus size: 28
108422 TCCTTTCAAT
* *
108432 CCTTTTAAAGCCTACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
108460 CCTTTTAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
108488 CATTTTCAAAGCCCATAAGTTAGTGGCAC
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
108517 TCTTTCAAAAGCCCACAAATCAGTGGTAC
1 CCTTTC-AAAGCCCACAAGTCAGTGGCAC
* * *
108546 CCTTTCAAAGCCCACAAGTTAGTGGTAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
108574 CCTTTCAA
1 CCTTTCAA
108582 TCTTTTTAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
28 59 0.56
29 46 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:108635 original size:28 final size:28
Alignment explanation
Indices: 108585--108971 Score: 271
Period size: 28 Copynumber: 13.4 Consensus size: 28
108575 CTTTCAATCT
* *
108585 TTTTAAAATCCCACAAGTTAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
108614 TTTTAAAGCCCATAAGTCAGTGACACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
108642 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
** *
108670 TTTTCAAAAACCACAAG-CTAGTGGCACTC
1 TTTT-AAAGCCCACAAGTC-AGTGGCACCC
* * *
108699 TTTCAAAAGCCTACAAGTCAGTGGCACCA
1 TTT-TAAAGCCCACAAGTCAGTGGCACCC
* *
108728 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* ** ** * *
108756 TTTCAATTCTTTTAAAAGCCTATACGTTGTAGCACCC
1 TTTTAAAGC--CCACAAG--T-CA-G-TG--GCACCC
* **
108793 TTTTAAAGCCCACAAGTCAATGGCACTT
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
108821 TTTTAAAGCCCATAAGTCAGTGGCACCT
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * **
108849 TTTTCAAAG-CCATAAGTCAATGGCACTA
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
108877 TTTAAAAAACCCACAAGTTAGTGGCACCT
1 TTT-TAAAGCCCACAAGTCAGTGGCACCC
* *
108906 TTTTAAAG-CCATAAGAT-AGTGGCACCT
1 TTTTAAAGCCCACAAG-TCAGTGGCACCC
108933 TTTTCAAAGCCCACAAG-CAAGTGGCACCC
1 TTTT-AAAGCCCACAAGTC-AGTGGCACCC
108962 TTTTAAAGCC
1 TTTTAAAGCC
108972 TGTCGTAACA
Statistics
Matches: 283, Mismatches: 54, Indels: 43
0.74 0.14 0.11
Matches are distributed among these distances:
27 20 0.07
28 148 0.52
29 86 0.30
30 7 0.02
32 2 0.01
33 2 0.01
34 1 0.00
35 6 0.02
37 11 0.04
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (28 bp):
TTTTAAAGCCCACAAGTCAGTGGCACCC
Found at i:108734 original size:180 final size:170
Alignment explanation
Indices: 107270--108971 Score: 1197
Period size: 180 Copynumber: 9.7 Consensus size: 170
107260 TCTTTTTCTG
* ** * **
107270 TTTCAAAGCCCACAAGTTAGTGGCA-TCTTTTTTAAAGCCCACAAGTCAGTGGTATCTTTTTCAA
1 TTTCAAAACCCACAAG-TAGTGGCACTC-TTTCAAAAGCCCACAAGTCAGTGGCA-CCATTTCAA
* * ** * * * * *
107334 AGCCTACAAGTCAGTGGCATCC-TTTTCAAAGTTCACAAGTCAGTGGCATCATTTTCAAAACTCA
63 AGCCCACAAGTCAGTGGCA-CCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGCCCA
* *
107398 CAAGTCAGTGGTACCCTTTTAAAGCCCACAAGTAAGTGGCACCC-
126 CAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
107442 TTTCAAGAGCCCATAAGTCAGTGGTAC-CTTT-TAAAGCCCACAAGTCAGTGGCACC-TTTTAAA
1 TTTCAA-AACCCACAAGT-AGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCACCATTTCAAA
* * * * * * *
107504 GCTCACAAGTCAGTGGCACCCTTTTCAAAGCTCATAAGTCAGTGGCACCCTTTCAAAAGCCCACA
64 GCCCACAAGTCAGTGGCACCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTT-TAAAGCCCACA
* * * * * *
107569 AATCAATGGCACCCTTTCAAAG-TCAAAAGTTAGTGGCATCCTTTCAAT
128 AGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA-CC---C--T
* * * * * *
107617 CCTTTCAAAAGCCCAAAAGTCAGTGGTACCCATTTC-AAAGCCCACAAGTCACTAGCACC-TTTT
1 --TTTCAAAA-CCCACAAGT-AGTGGCACTC-TTTCAAAAGCCCACAAGTCAGTGGCACCATTTC
* * * * * ***
107680 AAAGCCCATAAGTCAGTGGCATCC--TTTCAAAGCCTACAAGTCAGTGGTATTTTTTTCAAAGCC
61 AAAGCCCACAAGTCAGTGGCA-CCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGCC
** * * * ** * *
107743 CATGAGTCAGTGGCA-TCTTTTCAAAACCTATGAGTTAGTGGCA-CTT
124 CACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCT
* * * * * *
107789 TTTCAAAGCCCACGAGTCATTGGCA-TCCTTTCAAAAGCCCACGAGTTAGTGGCATCCCTTTCAA
1 TTTCAAAACCCACAAGT-AGTGGCACT-CTTTCAAAAGCCCACAAGTCAGTGGCA-CCATTTCAA
* * * * * *
107853 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACGAGTTATTGGCACCCTTTCAAAGCCCACA
63 AGCCCACAAGTCAGTGGCACCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACA
* * * * * * **
107918 AGTTAGTAGCATCCTTTCAAAACCCACAAGTTAGTGGCATTCT
128 AGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
* ** * * * * * *
107961 TTTCGAAGTCCATAAGTCAGTGGAAC-CTTTTC-AAAGTCCACAAGTTAGTGGCACCCTTTTAAA
1 TTTCAAAACCCACAAGT-AGTGGCACTC-TTTCAAAAGCCCACAAGTCAGTGGCACCATTTCAAA
* * * * *
108024 ACCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTTAGTGGTACCCTTTTAAAGCCCACAA
64 GCCCACAAGTCAGTGGCACCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAA
* *
108089 GTCAGTGGCACCTTTTTCAAAGCCTACAAGTCAGTGGCACCC-
129 GTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCT
* * *
108131 TTTCAAAAGCCCACTAGTTAGTGGCACCCTTTCAAAA-CCCACAAGTTAGTGGCATCCTTTCAAT
1 TTTCAAAA-CCCACAAG-TAGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCA--C---C-A-
* *
108195 CCTTTTAAAGCCCACAAGTCAGTGGCACCATTTT-AAAGCTCACAAGTCT-GTGGCACCCTTTTC
57 --TTTCAAAGCCCACAAGTCAGTGGCACCATTTTAAAAGCCCACAAGT-TAGTGGCACCCTTTT-
* * * * * *
108258 AAAGCCCACAAGTTAATGGCACTCTTTTCAAAGCCCATAAATCAGTGGCA-CCA
118 AAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCT
* * *
108311 TTTCAAAATCCACAAGTCAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAA
1 TTTCAAAACCCACAAGT-AGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCACCATTTC-AAA
* * ** *
108376 GCTCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAATAGCATCCTTTCAATCCTTTTAA
64 GCCCACAAGTCAGTGGCACCATTTTAAAAGCCCACAAGT---TAG-----TGGC-ACCCTTTTAA
* *
108440 AGCCTACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCAT
120 AGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
108491 TTTCAAAGCCCATAAGTTAGTGGCACTCTTTCAAAAGCCCACAAATCAGTGGTACCCTTTCAAAG
1 TTTCAAAACCCACAAG-TAGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCACCATTTCAAAG
* * *
108556 CCCACAAGTTAGTGGTATCCTTTCAATCTTTTTAAAATCCCACAAGTTAGTGGCACCCTTTTAAA
65 CCCACAAGTCAGTGGCA--C---C-A---TTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTAAA
* *
108621 GCCCATAAGTCAGTGACACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
121 GCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
* *
108671 TTTCAAAAACCACAAGCTAGTGGCACTCTTTCAAAAGCCTACAAGTCAGTGGCACCATTTCAAAG
1 TTTCAAAACCCACAAG-TAGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCACCATTTCAAAG
* * * *
108736 CCCACAAGTCAGTGGCATCCTTTCAATTCTTTTAAAAGCCTATACGTT-GTAGCACCCTTTTAAA
65 CCCACAAGTCAGTGGCA--C---C-A---TTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTAAA
* ** * *
108800 GCCCACAAGTCAATGGCACTTTTTTAAAGCCCATAAGTCAGTGGCACCTT
121 GCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
* * * * * * * * *
108850 TTTC-AAAGCCATAAGTCAATGGCACTATTTAAAAAACCCACAAGTTAGTGGCACCTTTTTAAAG
1 TTTCAAAACCCACAAGT-AGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCACCATTTCAAAG
* * * **
108914 -CCATAAGAT-AGTGGCACCTTTTTCAAAGCCCACAAGCAAGTGGCACCCTTTTAAAGCC
65 CCCACAAG-TCAGTGGCACCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCC
108972 TGTCGTAACA
Statistics
Matches: 1246, Mismatches: 208, Indels: 155
0.77 0.13 0.10
Matches are distributed among these distances:
168 32 0.03
169 127 0.10
170 99 0.08
171 152 0.12
172 105 0.08
173 17 0.01
174 1 0.00
175 3 0.00
176 2 0.00
177 42 0.03
178 96 0.08
179 208 0.17
180 331 0.27
181 11 0.01
184 1 0.00
186 3 0.00
188 4 0.00
189 12 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (170 bp):
TTTCAAAACCCACAAGTAGTGGCACTCTTTCAAAAGCCCACAAGTCAGTGGCACCATTTCAAAGC
CCACAAGTCAGTGGCACCATTTTAAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGT
CAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCT
Found at i:112835 original size:49 final size:49
Alignment explanation
Indices: 112677--113165 Score: 478
Period size: 49 Copynumber: 9.8 Consensus size: 49
112667 AAAAGGATGT
* * * * * * *
112677 CAATGTGCTGATTCACGGTCAGCGACATTAGATTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** * * * * *
112724 CAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * * *
112776 CAATATGCTGATTCAAGGCCAGTGATACTAGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
112825 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * **
112877 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
112926 CAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * ** * *
112975 CATTATGTTGATTCAAGGTTAGCGACATTGGACTTAAAGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
113024 CAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
113073 CAATGTGCTGATTCAAAGTCAACGACATTGGACTTAAAGATGAAAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
113125 CAATATGCTAATTCAAGGCCAGTGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
113166 AGATGCCACC
Statistics
Matches: 366, Mismatches: 64, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
47 27 0.07
49 221 0.60
50 5 0.01
52 109 0.30
53 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:112842 original size:101 final size:98
Alignment explanation
Indices: 112668--113165 Score: 489
Period size: 101 Copynumber: 5.0 Consensus size: 98
112658 AACATGAGAA
* * * * * * * *
112668 AAAGGATGTCAATGTGCTGATTCACGGTCAGCGACATTAGATTTGAAGA-AGAA--TGCCAATGT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA-AAGGTGCCAATAT
** * * *
112730 GCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTT
64 GCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GAT
* * * * * *
112768 AAAGATGCCAATATGCTGATTCAAGGCCAGTGATACTAGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGC
112833 TGATTCAAGGCCAGCGACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGAT
* * * *
112866 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGACAAAGGTGCCAATA
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATA
* *
112931 TGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGT
63 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
* * * ** *
112967 AAATGTGCCATTATGTTGATTCAAGGTTAGCGACATTGGACTTAAAGGTAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
113032 TGATTCAAGGTCAGCGATATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGAT
* * * * * *
113065 GAAGGTGCCAATGTGCTGATTCAAAGTCAACGACATTGGACTTAAAGATGAAAAAGGCGCCAATA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---AAAGGTGCCAATA
* * *
113130 TGCTAATTCAAGGCCAGTGATATTGGACTTAGAAGA
63 TGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
113166 AGATGCCACC
Statistics
Matches: 336, Mismatches: 52, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
98 126 0.38
99 38 0.11
100 4 0.01
101 164 0.49
102 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (98 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGACATTGGACTTAAAGAT
Found at i:113101 original size:147 final size:149
Alignment explanation
Indices: 112768--113165 Score: 467
Period size: 150 Copynumber: 2.7 Consensus size: 149
112758 TAGGAATGTT
* * *** * * * *
112768 AAAGATGCCAATATGCTGATTCAAGGCCAGTGATACTAGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGATAAAGGTGCCAATATGC
112833 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGA-GACAAAGGCGCCAATATGCTGATTCAAGGCCA
*
112898 GTGATATTGGACTTAAAGAC
130 GCGATATTGGACTTAAAGAC
* * * * * *
112918 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAATGTGCCATTATGT
1 AAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGATAAAGGTGCCAATATGC
** * * *
112983 TGATTCAAGGTTAGCGACATTGGACTTAAAG-G-TAAAGGTGCCAATATGCTGATTCAAGGTCAG
66 TGATTCAAGGCCAGCGACATTGGACTTAAAGAGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
*
113046 CGATATTGGACTTAAAGAT
131 CGATATTGGACTTAAAGAC
* * * * *
113065 GAAGGTGCCAATGTGCTGATTCAAAGTCAACGACATTGGACTTAAAGATGAAAAAGGCGCCAATA
1 AAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGAT---AAAGGTGCCAATA
* * *
113130 TGCTAATTCAAGGCCAGTGATATTGGACTTAGAAGA
63 TGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
113166 AGATGCCACC
Statistics
Matches: 209, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
147 87 0.42
148 1 0.00
150 118 0.56
151 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (149 bp):
AAAGGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGACATTGGACTTAAAGAGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
CGATATTGGACTTAAAGAC
Found at i:113210 original size:31 final size:31
Alignment explanation
Indices: 113169--113478 Score: 111
Period size: 29 Copynumber: 10.5 Consensus size: 31
113159 TAGAAGAAGA
113169 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
113201 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
113228 TGCCACTGAC-T-TGTGGGCTTTTGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
* ** * *
113257 TACCACTGAC-T-TGTGGGCTTTGGAAAAGGA
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
* * * *
113287 TGCCACTAAC-T-TGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
113316 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
* * * *
113346 TGCCACTAAC-T-TGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
113375 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
** * * *
113405 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
113434 TGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTTG-AAAGGT
**
113464 TGCCACTGACTTGTG
1 TGCCACCAACTTGTG
113479 GGCTTTGAAA
Statistics
Matches: 245, Mismatches: 23, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.01
27 6 0.02
28 14 0.06
29 111 0.45
30 93 0.38
31 14 0.06
32 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:113270 original size:29 final size:29
Alignment explanation
Indices: 113228--113577 Score: 497
Period size: 29 Copynumber: 12.0 Consensus size: 29
113218 TTTTGAAGGT
*
113228 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
113257 TACCACTGACTTGTGGGCTTTGGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
113287 TGCCACTAACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
113316 TGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
113346 TGCCACTAACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
113375 TGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
113405 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
113434 TGCCACTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
113464 TGCCACTGACTTGTGGGCTTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
113493 TGCCGCTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
*** * *
113523 TGCCACTGACTTGTGGGCTTT-TCTAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
113551 TGCCACTAACTTGTGGGCTTT-GAAAAG
1 TGCCACTGACTTGTGGGCTTTGGAAAAG
113578 GAAAAGGTAC
Statistics
Matches: 288, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
28 23 0.08
29 135 0.47
30 130 0.45
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:113299 original size:59 final size:59
Alignment explanation
Indices: 113223--113578 Score: 572
Period size: 59 Copynumber: 6.1 Consensus size: 59
113213 TGTGCTTTTG
* * *
113223 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
* *
113282 AAGGATGCCACTAACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*
113341 AAGGGTGCCACTAACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
113400 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
* *
113459 AAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCGCTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
*** * * *
113518 AAGGGTGCCACTGACTTGTGGGCTTT-TCTAGGTTGCCACTAACTTGTGGGCTTT-GAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
113575 AAGG
1 AAGG
113579 AAAAGGTACC
Statistics
Matches: 282, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
57 7 0.02
58 21 0.07
59 254 0.90
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (59 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
Found at i:113604 original size:34 final size:33
Alignment explanation
Indices: 113561--113679 Score: 157
Period size: 34 Copynumber: 3.5 Consensus size: 33
113551 TGCCACTAAC
*
113561 TTGTGGGCTTTGAAAAGGAAAAGGTACCACGGAG
1 TTGTGGGCTTT-AAAAGGAAAAGGTGCCACGGAG
* **
113595 TTGTGGGCTTTAAAAGGGAAAAGATGCCACAAAG
1 TTGTGGGCTTTAAAA-GGAAAAGGTGCCACGGAG
* *
113629 TTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGGG
1 TTGTGGGCTTT-AAAAGGAAAAGGTGCCACGGAG
113663 TTGTGGGCTTTAAAAGG
1 TTGTGGGCTTTAAAAGG
113680 GTGAGGAATG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
33 9 0.12
34 60 0.82
35 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.23
Consensus pattern (33 bp):
TTGTGGGCTTTAAAAGGAAAAGGTGCCACGGAG
Found at i:113637 original size:68 final size:68
Alignment explanation
Indices: 113551--113680 Score: 215
Period size: 68 Copynumber: 1.9 Consensus size: 68
113541 TTTTCTAGGT
* *
113551 TGCCACTAACTTGTGGGCTTTGAAAAGGAAAAGGTACCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 TGCCACAAACTTGTGGGCTTTGAAAAGAAAAAGGTACCACGGAGTTGTGGGCTTTAAAAGGGAAA
113616 AGA
66 AGA
* * *
113619 TGCCACAAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGGGTTGTGGGCTTTAAAAGGG
1 TGCCACAAACTTGTGGGCTTTGAAAAGAAAAAGGTACCACGGAGTTGTGGGCTTTAAAAGGG
113681 TGAGGAATGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (68 bp):
TGCCACAAACTTGTGGGCTTTGAAAAGAAAAAGGTACCACGGAGTTGTGGGCTTTAAAAGGGAAA
AGA
Found at i:115131 original size:1 final size:1
Alignment explanation
Indices: 115127--115232 Score: 68
Period size: 1 Copynumber: 106.0 Consensus size: 1
115117 TTTGTTGTTG
* * * * * * * * * * *
115127 TTTTTTTTCTTTTTTGTTTGTTTGTGTTTTTTGTTTGTTTTTTTCTTTTTCTTTTTTTTGTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
115192 TTTTTTTTGTTTTGTTTGTTTGTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
115233 GTAGAGGACG
Statistics
Matches: 73, Mismatches: 32, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:115147 original size:23 final size:22
Alignment explanation
Indices: 115115--115234 Score: 108
Period size: 23 Copynumber: 5.5 Consensus size: 22
115105 ATCCGAACCC
115115 TTTTTG-TTGTTGTTTTTTTTCT
1 TTTTTGTTTGTTGTTTTTTTT-T
*
115137 TTTTTGTTTGTTTGTGTTTTTTGT
1 TTTTTGTTTG-TTGT-TTTTTTTT
* * *
115161 TTGTT-TTT-TTCTTTTTCTTT
1 TTTTTGTTTGTTGTTTTTTTTT
115181 TTTTTGTTTGTT-TTTTTTTGTT
1 TTTTTGTTTGTTGTTTTTTT-TT
*
115203 TTGTTTGTTTGTT-TTTTTTTGT
1 TT-TTTGTTTGTTGTTTTTTTTT
115225 TTTTT-TTTGT
1 TTTTTGTTTGT
115235 AGAGGACGCC
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
20 15 0.18
21 15 0.18
22 15 0.18
23 23 0.28
24 9 0.11
25 6 0.07
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (22 bp):
TTTTTGTTTGTTGTTTTTTTTT
Found at i:115151 original size:27 final size:26
Alignment explanation
Indices: 115115--115226 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 26
115105 ATCCGAACCC
*
115115 TTTTTG-TTGTTGTTTTTTTTCTTTT
1 TTTTTGTTTGTTGTTTTTTTTGTTTT
115140 TTGTTTGTTTG-TGTTTTTTGTTTGTTTT
1 TT-TTTGTTTGTTG-TTTTT-TTTGTTTT
* *
115168 TTTCTT-TTTCTTTTTTTTGTTTGTTTT
1 TTT-TTGTTTGTTGTTTTT-TTTGTTTT
*
115195 TTTTTG-TT-TTG-TTTGTTTGTTTT
1 TTTTTGTTTGTTGTTTTTTTTGTTTT
115218 TTTTTGTTT
1 TTTTTGTTT
115227 TTTTTTGTAG
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
23 14 0.19
24 5 0.07
25 4 0.05
26 10 0.14
27 29 0.39
28 12 0.16
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (26 bp):
TTTTTGTTTGTTGTTTTTTTTGTTTT
Found at i:115161 original size:13 final size:13
Alignment explanation
Indices: 115115--115232 Score: 106
Period size: 13 Copynumber: 9.5 Consensus size: 13
115105 ATCCGAACCC
*
115115 TTTTTGTTG-TTG
1 TTTTTTTTGTTTG
*
115127 TTTTTTTT-CTT-
1 TTTTTTTTGTTTG
*
115138 TTTTGTTTGTTTG
1 TTTTTTTTGTTTG
*
115151 TGTTTTTTGTTTG
1 TTTTTTTTGTTTG
* *
115164 TTTTTTTCTTTTTC
1 TTTTTTT-TGTTTG
115178 TTTTTTTTGTTTG
1 TTTTTTTTGTTTG
115191 --TTTTTT-TTTG
1 TTTTTTTTGTTTG
*
115201 TTTTGTTTGTTTG
1 TTTTTTTTGTTTG
115214 TTTTTTTTTGTTT-
1 -TTTTTTTTGTTTG
115227 TTTTTT
1 TTTTTT
115233 GTAGAGGACG
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
10 4 0.05
11 13 0.15
12 22 0.26
13 25 0.29
14 22 0.26
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:115205 original size:63 final size:63
Alignment explanation
Indices: 115114--115232 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
115104 CATCCGAACC
*
115114 CTTTTTGTTGTTGTTTTTTTTCTTTTTTGTTTGTTTG-TGTTTTTTGTTTGTTTTTTTCTTTTT
1 CTTTTTGTTGTTGTTTTTTTTCTGTTTTGTTTGTTTGTTGTTTTTTGTTT-TTTTTTTCTTTTT
* *
115177 CTTTTTTTTGTTTGTTTTTTTT-TGTTTTGTTTGTTTGTTTTTTTTTGTTTTTTTTT
1 CTTTTTGTTG-TTGTTTTTTTTCTGTTTTGTTTGTTTGTTGTTTTTTGTTTTTTTTT
115233 GTAGAGGACG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
63 29 0.57
64 22 0.43
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.83
Consensus pattern (63 bp):
CTTTTTGTTGTTGTTTTTTTTCTGTTTTGTTTGTTTGTTGTTTTTTGTTTTTTTTTTCTTTTT
Found at i:115231 original size:27 final size:27
Alignment explanation
Indices: 115136--115234 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 27
115126 GTTTTTTTTC
115136 TTTTTTGTTTGTTTGTGTTTTTTGTTTGTT
1 TTTTTTGTTTG-TT-TGTTTTTT-TTTGTT
* * *
115166 TTTTTCTTTTTCTTT-TTTTTGTTTGTTT
1 TTTTT-TGTTTGTTTGTTTTTTTTTG-TT
115194 TTTTTTGTTTTGTTTGTTTGTTTTTT-TT
1 TTTTTTG-TTTGTTTGTTT-TTTTTTGTT
*
115222 TGTTTTTTTTTGT
1 T-TTTTTGTTTGT
115235 AGAGGACGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
27 5 0.09
28 26 0.46
29 9 0.16
30 12 0.21
31 4 0.07
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (27 bp):
TTTTTTGTTTGTTTGTTTTTTTTTGTT
Found at i:129096 original size:13 final size:13
Alignment explanation
Indices: 129078--129103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129068 ATTTGCCTGC
129078 ATGTATCGATACA
1 ATGTATCGATACA
129091 ATGTATCGATACA
1 ATGTATCGATACA
129104 TTTGAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:129561 original size:28 final size:28
Alignment explanation
Indices: 129458--129568 Score: 91
Period size: 28 Copynumber: 4.0 Consensus size: 28
129448 GCGGTGTCTA
** *
129458 CAAAGCCCACGAGTCAATGGCA-CCTTTT
1 CAAAGCCCATAAGTCAGTGGCATCC-TTT
* * *
129486 TAAAGCCCATGAGCCAGTGGCATCCTTT
1 CAAAGCCCATAAGTCAGTGGCATCCTTT
* * *
129514 CAAAGCCCGTGAGTCGGTGGCATCCTTT
1 CAAAGCCCATAAGTCAGTGGCATCCTTT
** *
129542 CAAAGCTTATAAGTTAGTGGCA-CCTTT
1 CAAAGCCCATAAGTCAGTGGCATCCTTT
129569 TTAAAAGCTC
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 5 0.07
28 61 0.90
29 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (28 bp):
CAAAGCCCATAAGTCAGTGGCATCCTTT
Found at i:129577 original size:29 final size:30
Alignment explanation
Indices: 129537--129611 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
129527 TCGGTGGCAT
* *
129537 CCTTTC-AAAGCTTATAAGTTAGTGGC-AC
1 CCTTTCAAAAGCTCACAAGTTAGTGGCAAC
* * *
129565 CTTTTTAAAAGCTCACAAGTTGGTGGCAAC
1 CCTTTCAAAAGCTCACAAGTTAGTGGCAAC
129595 CCTTTCAAAAGCTCACA
1 CCTTTCAAAAGCTCACA
129612 CAAGTTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.11
29 17 0.45
30 17 0.45
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (30 bp):
CCTTTCAAAAGCTCACAAGTTAGTGGCAAC
Found at i:129619 original size:32 final size:32
Alignment explanation
Indices: 129578--129754 Score: 171
Period size: 32 Copynumber: 5.6 Consensus size: 32
129568 TTTAAAAGCT
* *
129578 CACAAGTTGGTGGCAACCCTTTCAAAAGCTCA
1 CACAAGTTGGTGGCAACCATTTCAAAAGCCCA
* *
129610 CACAAGTTGGTGGCATCTATTTCTAAAA-CCCA
1 CACAAGTTGGTGGCAACCATTTC-AAAAGCCCA
* *
129642 CACAAGTTGGTGGCATCTATTTCTAAAA-CCCA
1 CACAAGTTGGTGGCAACCATTTC-AAAAGCCCA
* * * *
129674 CACAAGCTGGTGGCAACC-CTTCTAAATCCCA
1 CACAAGTTGGTGGCAACCATTTCAAAAGCCCA
** *
129705 CACAAGTTGGTGGCAACCATTTTTAAAGTCCA
1 CACAAGTTGGTGGCAACCATTTCAAAAGCCCA
* **
129737 CATAAGTCAGTGGCAACC
1 CACAAGTTGGTGGCAACC
129755 CTTCTAAGCC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
30 3 0.02
31 24 0.19
32 94 0.75
33 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (32 bp):
CACAAGTTGGTGGCAACCATTTCAAAAGCCCA
Found at i:129652 original size:64 final size:63
Alignment explanation
Indices: 129578--129731 Score: 193
Period size: 64 Copynumber: 2.4 Consensus size: 63
129568 TTTAAAAGCT
* * * * *
129578 CACAAGTTGGTGGCAACCCTTTC-AAAAGCTCACACAAGTTGGTGGCATCTATTTCTAAAACCCA
1 CACAAGTTGGTGGCAACCATTTCTAAAA-CCCACACAAGCTGGTGGCAAC-ACTTCTAAAACCCA
* * * *
129642 CACAAGTTGGTGGCATCTATTTCTAAAACCCACACAAGCTGGTGGCAACCCTTCTAAATCCCA
1 CACAAGTTGGTGGCAACCATTTCTAAAACCCACACAAGCTGGTGGCAACACTTCTAAAACCCA
*
129705 CACAAGTTGGTGGCAACCATTTTTAAA
1 CACAAGTTGGTGGCAACCATTTCTAAA
129732 GTCCACATAA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
63 35 0.45
64 38 0.49
65 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (63 bp):
CACAAGTTGGTGGCAACCATTTCTAAAACCCACACAAGCTGGTGGCAACACTTCTAAAACCCA
Found at i:129738 original size:63 final size:61
Alignment explanation
Indices: 129578--129761 Score: 197
Period size: 63 Copynumber: 2.9 Consensus size: 61
129568 TTTAAAAGCT
* * * **
129578 CACAAGTTGGTGGCAACCCTTTCAAAAGCTCACACAAGTTGGTGGCATCTATTTCTAAAACCCA
1 CACAAGTTGGTGGCAACCATTTCTAAAGC-CACACAAG-TGGTGGCAAC-CCTTCTAAAACCCA
* * * *
129642 CACAAGTTGGTGGCATCTATTTCTAAAACCCACACAAGCTGGTGGCAACCCTTCTAAATCCCA
1 CACAAGTTGGTGGCAACCATTTCT-AAAGCCACACAAG-TGGTGGCAACCCTTCTAAAACCCA
* * *
129705 CACAAGTTGGTGGCAACCATTTTTAAAGTCCACATAAGTCAGTGGCAACCCTTCTAA
1 CACAAGTTGGTGGCAACCATTTCTAAAG-CCACACAAGT-GGTGGCAACCCTTCTAA
129762 GCCCAATGTC
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
62 4 0.04
63 56 0.55
64 37 0.37
65 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (61 bp):
CACAAGTTGGTGGCAACCATTTCTAAAGCCACACAAGTGGTGGCAACCCTTCTAAAACCCA
Found at i:129750 original size:95 final size:96
Alignment explanation
Indices: 129578--129751 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 96
129568 TTTAAAAGCT
* * * *
129578 CACAAGTTGGTGGCAACCCTTTCAAAAGCTCACACAAGTTGGTGGCATCTATTTCTAAAACCCAC
1 CACAAGCTGGTGGCAACCCTTTCAAAAGCCCACACAAGTTGGTGGCAACCATTTCTAAAACCCAC
**
129643 ACAAGTTGGTGGCATCTATTTCTAAAACCCA
66 ACAAGTCAGTGGCATCTATTTCTAAAACCCA
* * * **
129674 CACAAGCTGGTGGCAACCC-TTCTAAATCCCACACAAGTTGGTGGCAACCATTTTTAAAGTCCAC
1 CACAAGCTGGTGGCAACCCTTTCAAAAGCCCACACAAGTTGGTGGCAACCATTTCTAAAACCCAC
*
129738 ATAAGTCAGTGGCA
66 ACAAGTCAGTGGCA
129752 ACCCTTCTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 48 0.73
96 18 0.27
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (96 bp):
CACAAGCTGGTGGCAACCCTTTCAAAAGCCCACACAAGTTGGTGGCAACCATTTCTAAAACCCAC
ACAAGTCAGTGGCATCTATTTCTAAAACCCA
Found at i:129891 original size:52 final size:52
Alignment explanation
Indices: 129813--129917 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
129803 TAAATATTTT
* * * *
129813 TCTTTAAGTCCGATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATTTATCA
129865 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATTTATCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATTTATCA
129917 T
1 T
129918 TTTTCTCATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (52 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACATTTATCA
Found at i:130072 original size:61 final size:60
Alignment explanation
Indices: 129862--130289 Score: 224
Period size: 61 Copynumber: 7.2 Consensus size: 60
129852 GGCACCTTTA
* * * *
129862 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-AGCACATTTATCATTTTTC
1 TCATCTTTAAGTTCAATATCGCTGGCCTTGAATCAACACATTGA-CAC-TTTATCATTCTTC
* * * * * * * * * *
129923 TCATCCTTAAGCTCGATGTCGTTGGTCTTGAATCAACACATTGGCA-GTTGTCAAATCTTC
1 TCATCTTTAAGTTCAATATCGCTGGCCTTGAATCAACACATTGACACTTTATC-ATTCTTC
* * * * *
129983 T-TTCTTTCAAGCTCGATA-CGCTGGCCTTGAATCAACATATCGACACCTTTATCATTCTTC
1 TCATCTTT-AAGTTCAATATCGCTGGCCTTGAATCAACACATTGACA-CTTTATCATTCTTC
* * * * *
130043 TCATCTTTAAGTTCAATATCGCTGACCTTGAATCAACACATTGGCACTCTTCTCATCCTTA
1 TCATCTTTAAGTTCAATATCGCTGGCCTTGAATCAACACATTGACACT-TTATCATTCTTC
* * *
130104 TCATCTTTAAGTCCAA-A-------CCTTGAATCAACACATT-AGCACTTGT-TAAATCTTC
1 TCATCTTTAAGTTCAATATCGCTGGCCTTGAATCAACACATTGA-CACTT-TATCATTCTTC
* ** * * * * *
130156 T-TTCTTTCAAGCCCAATACCACTGGCCTTGAATCAGCATATCGACACTTTTATCATTCTTC
1 TCATCTTT-AAGTTCAATATCGCTGGCCTTGAATCAACACATTGACAC-TTTATCATTCTTC
* * * ** * * * *
130217 GCATCTTTAAG-TCTAGTGTCGCTTACCTTGAATCAGCACATTGGCACTCTCATCA-TCTTTA
1 TCATCTTTAAGTTC-AATATCGCTGGCCTTGAATCAACACATTGACACT-TTATCATTC-TTC
130278 TCATCTTTAAGT
1 TCATCTTTAAGT
130290 CCAGGCCTTG
Statistics
Matches: 277, Mismatches: 63, Indels: 53
0.70 0.16 0.13
Matches are distributed among these distances:
51 5 0.02
52 14 0.05
53 23 0.08
59 30 0.11
60 55 0.20
61 145 0.52
62 5 0.02
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (60 bp):
TCATCTTTAAGTTCAATATCGCTGGCCTTGAATCAACACATTGACACTTTATCATTCTTC
Found at i:130214 original size:174 final size:173
Alignment explanation
Indices: 129949--130303 Score: 525
Period size: 174 Copynumber: 2.0 Consensus size: 173
129939 TGTCGTTGGT
* * * * *
129949 CTTGAATCAACACATTGGCAGTTGTCAAATCTTCTTTCTTTCAAGCTCGATACGCTGGCCTTGAA
1 CTTGAATCAACACATTAGCACTTGTCAAATCTTCTTTCTTTCAAGCCCAATACACTGGCCTTGAA
*
130014 TCAACATATCGACACCTTTATCATTCTTCTCATCTTTAAGT-TCAATATCGCTGACCTTGAATCA
66 TCAACATATCGACACCTTTATCATTCTTCGCATCTTTAAGTCT-AATATCGCTGACCTTGAATCA
130078 ACACATTGGCACTCTTC-TCATCCTTATCATCTTTAAGTCCAAAC
130 ACACATTGGCACTC-TCATCATCCTTATCATCTTTAAGTCCAAAC
*
130122 CTTGAATCAACACATTAGCACTTGTTAAATCTTCTTTCTTTCAAGCCCAATACCACTGGCCTTGA
1 CTTGAATCAACACATTAGCACTTGTCAAATCTTCTTTCTTTCAAGCCCAATA-CACTGGCCTTGA
* * * * *
130187 ATCAGCATATCGACACTTTTATCATTCTTCGCATCTTTAAGTCTAGTGTCGCTTACCTTGAATCA
65 ATCAACATATCGACACCTTTATCATTCTTCGCATCTTTAAGTCTAATATCGCTGACCTTGAATCA
* * **
130252 GCACATTGGCACTCTCATCATCTTTATCATCTTTAAGTCCAGGC
130 ACACATTGGCACTCTCATCATCCTTATCATCTTTAAGTCCAAAC
130296 CTTGAATC
1 CTTGAATC
130304 TGCGCACTAG
Statistics
Matches: 163, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
173 49 0.30
174 113 0.69
175 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (173 bp):
CTTGAATCAACACATTAGCACTTGTCAAATCTTCTTTCTTTCAAGCCCAATACACTGGCCTTGAA
TCAACATATCGACACCTTTATCATTCTTCGCATCTTTAAGTCTAATATCGCTGACCTTGAATCAA
CACATTGGCACTCTCATCATCCTTATCATCTTTAAGTCCAAAC
Found at i:131039 original size:20 final size:20
Alignment explanation
Indices: 131001--131103 Score: 63
Period size: 20 Copynumber: 5.1 Consensus size: 20
130991 TATAATAATG
*
131001 AAAAATCAAAAAATTAAAAA
1 AAAAATCAAAAAATCAAAAA
**
131021 AAAAATCAATGAATCAAAAA
1 AAAAATCAAAAAATCAAAAA
*
131041 AATAAA--AAAAAATCATTAAATC
1 AA-AAATCAAAAAATCA--AAA-A
* *
131063 AAAGAT-ATAAAATCAAAATA
1 AAAAATCAAAAAATCAAAA-A
131083 AAAAAT-AATAAAAT-AAAAA
1 AAAAATCAA-AAAATCAAAAA
131102 AA
1 AA
131104 TGATGATAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
19 10 0.15
20 33 0.50
21 13 0.20
22 10 0.15
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAATCAAAAAATCAAAAA
Done.