Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 100 of 211
Found at i:31423566 original size:24 final size:24
Alignment explanation
Indices: 31423522--31423567 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
31423512 ACTTTTTTTA
* *
31423522 TTAATTTATAAAATTTTATATATT
1 TTAATTTATAAAATATAATATATT
31423546 TTAATTT-TAAAATAATAATATA
1 TTAATTTATAAAAT-ATAATATA
31423568 AATAACATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAATTTATAAAATATAATATATT
Found at i:31428256 original size:24 final size:24
Alignment explanation
Indices: 31428220--31428272 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
31428210 ACTCCGCTAC
*
31428220 ACTCCACAGTAGGAGTTCCCCAGA
1 ACTCCACAATAGGAGTTCCCCAGA
*
31428244 ACTCCACAATAGGAGTTCCTCAGA
1 ACTCCACAATAGGAGTTCCCCAGA
31428268 ACTCC
1 ACTCC
31428273 TCTACCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (24 bp):
ACTCCACAATAGGAGTTCCCCAGA
Found at i:31428578 original size:45 final size:45
Alignment explanation
Indices: 31428517--31428631 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
31428507 CAAAATGATA
* *
31428517 TGGATAAACC-TCTAAATGGTACAGATAAAAGTTACTAATACGGTG
1 TGGATAAACCAT-TAAATGGTGCAGATAAAAGTTACTAATACGATG
* * *
31428562 TGGATAAACCATTAAATGGTGCGGATAAAAGTTGCTAATATGATG
1 TGGATAAACCATTAAATGGTGCAGATAAAAGTTACTAATACGATG
* * *
31428607 TGGGTAAACCACTAAACGGTGCAGA
1 TGGATAAACCATTAAATGGTGCAGA
31428632 CAAGCTACTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (45 bp):
TGGATAAACCATTAAATGGTGCAGATAAAAGTTACTAATACGATG
Found at i:31434115 original size:34 final size:35
Alignment explanation
Indices: 31434071--31434137 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
31434061 CAGTAAAATG
*
31434071 TTTTCCGTAAAATGATTTA-TGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
31434105 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
31434138 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:31436868 original size:6 final size:6
Alignment explanation
Indices: 31436857--31436907 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
31436847 TGTCAAGGAT
* * *
31436857 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGGGAA AGGGAA
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA
31436905 AGG
1 AGG
31436908 AAAATTTTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:31437741 original size:18 final size:17
Alignment explanation
Indices: 31437718--31437757 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
31437708 TCTTGAATCA
31437718 AATTTTATAACTTTTAAT
1 AATTTTAT-ACTTTTAAT
**
31437736 AATTTTATTTTTTTAAT
1 AATTTTATACTTTTAAT
31437753 AATTT
1 AATTT
31437758 CTTTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTATACTTTTAAT
Found at i:31442783 original size:15 final size:15
Alignment explanation
Indices: 31442755--31442792 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
31442745 ATAAAAAAGG
*
31442755 TTTTTTGTTTTTTTTA
1 TTTTTT-TTATTTTTA
31442771 TTTTTTTTATTTTTA
1 TTTTTTTTATTTTTA
31442786 TTTTTTT
1 TTTTTTT
31442793 CATAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.08, C:0.00, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTTTTATTTTTA
Found at i:31442792 original size:9 final size:9
Alignment explanation
Indices: 31442755--31442784 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31442745 ATAAAAAAGG
*
31442755 TTTTTTGTT
1 TTTTTTATT
31442764 TTTTTTATT
1 TTTTTTATT
31442773 TTTTTTATT
1 TTTTTTATT
31442782 TTT
1 TTT
31442785 ATTTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:31442801 original size:25 final size:24
Alignment explanation
Indices: 31442756--31442807 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
31442746 TAAAAAAGGT
* * *
31442756 TTTTTGTTTTTTTTATTTTTTTTA
1 TTTTTATTTTTTTCATATTTTTTA
31442780 TTTTTATTTTTTTCATAATTTTTTA
1 TTTTTATTTTTTTCAT-ATTTTTTA
31442805 TTT
1 TTT
31442808 CAAATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (24 bp):
TTTTTATTTTTTTCATATTTTTTA
Found at i:31444236 original size:27 final size:27
Alignment explanation
Indices: 31444169--31444408 Score: 179
Period size: 27 Copynumber: 8.9 Consensus size: 27
31444159 TATAAAAACG
* * * * *
31444169 GGGTAGTCCGTCGAGATAGCAAACACG
1 GGGTAGTCCATCGGGACAGTAAACACA
* *
31444196 GGGTAGTCCGTCGGGATAGTAAACACA
1 GGGTAGTCCATCGGGACAGTAAACACA
31444223 GGGTAGTCCATCGGGACAGTAAACACA
1 GGGTAGTCCATCGGGACAGTAAACACA
* * * *
31444250 GAGTAATCCA-CTGGGACAGTAAAAAAAA
1 GGGTAGTCCATC-GGGACAGT-AAACACA
*
31444278 GGGTAGT-C-TGCTGGGATAGTAAACAC-
1 GGGTAGTCCAT-C-GGGACAGTAAACACA
** *
31444304 -GGTAGTCCGCCAGGACAGTAAACACA
1 GGGTAGTCCATCGGGACAGTAAACACA
*
31444330 GGGTAGTCCATCGGGACAGTAAACA-T
1 GGGTAGTCCATCGGGACAGTAAACACA
* ** *
31444356 GAGGTAGTCC-GCTAAGACAATAAACACA
1 G-GGTAGTCCATC-GGGACAGTAAACACA
* *
31444384 GGGTAGTCCAGCGGGACAATAAACA
1 GGGTAGTCCATCGGGACAGTAAACA
31444409 TGTGAATTAT
Statistics
Matches: 173, Mismatches: 28, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
25 18 0.10
26 5 0.03
27 128 0.74
28 22 0.13
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (27 bp):
GGGTAGTCCATCGGGACAGTAAACACA
Found at i:31444271 original size:54 final size:53
Alignment explanation
Indices: 31444169--31444408 Score: 218
Period size: 54 Copynumber: 4.5 Consensus size: 53
31444159 TATAAAAACG
* * * * * * *
31444169 GGGTAGTCCGTCGAGATAGCAAACACGGGGTAGTCCG-TCGGGATAGTAAACACA
1 GGGTAGTCCATCGGGACAGTAAACAC-GAGTAGTCCGCT-AGGACAGTAAACACA
* * * * *
31444223 GGGTAGTCCATCGGGACAGTAAACACAGAGTAATCCACTGGGACAGTAAAAAAAA
1 GGGTAGTCCATCGGGACAGTAAACAC-GAGTAGTCCGCTAGGACAGT-AAACACA
* *
31444278 GGGTAGT-C-TGCTGGGATAGTAAACACG-GTAGTCCGCCAGGACAGTAAACACA
1 GGGTAGTCCAT-C-GGGACAGTAAACACGAGTAGTCCGCTAGGACAGTAAACACA
* * *
31444330 GGGTAGTCCATCGGGACAGTAAACATGAGGTAGTCCGCTAAGACAATAAACACA
1 GGGTAGTCCATCGGGACAGTAAACACGA-GTAGTCCGCTAGGACAGTAAACACA
* *
31444384 GGGTAGTCCAGCGGGACAATAAACA
1 GGGTAGTCCATCGGGACAGTAAACA
31444409 TGTGAATTAT
Statistics
Matches: 153, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
52 25 0.16
53 17 0.11
54 85 0.56
55 26 0.17
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (53 bp):
GGGTAGTCCATCGGGACAGTAAACACGAGTAGTCCGCTAGGACAGTAAACACA
Found at i:31445187 original size:21 final size:20
Alignment explanation
Indices: 31445154--31445192 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31445144 ATGCTTACGA
31445154 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
*
31445174 AAAGAGTCGTTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
31445193 TCCATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:31445346 original size:13 final size:13
Alignment explanation
Indices: 31445328--31445352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31445318 TTATTTATCA
31445328 TTTAAATATATAG
1 TTTAAATATATAG
31445341 TTTAAATATATA
1 TTTAAATATATA
31445353 TAAATTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTAAATATATAG
Found at i:31445377 original size:11 final size:11
Alignment explanation
Indices: 31445356--31445403 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
31445346 ATATATATAA
31445356 ATTAA-AATAT
1 ATTAATAATAT
31445366 ATTAATAATAT
1 ATTAATAATAT
*
31445377 ATAAAT-A-AT
1 ATTAATAATAT
31445386 ATTAATAATAT
1 ATTAATAATAT
*
31445397 AATAATA
1 ATTAATA
31445404 TAGCAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 7 0.22
10 7 0.22
11 18 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAATAATAT
Found at i:31445385 original size:14 final size:14
Alignment explanation
Indices: 31445348--31445405 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
31445338 TAGTTTAAAT
31445348 ATATATAAATTAA-A
1 ATATATAAA-TAATA
31445362 ATATAT---TAATA
1 ATATATAAATAATA
31445373 ATATATAAATAATA
1 ATATATAAATAATA
*
31445387 TTA-ATAATATAATA
1 ATATATAA-ATAATA
31445401 ATATA
1 ATATA
31445406 GCAAGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
10 3 0.08
11 7 0.19
13 4 0.11
14 21 0.58
15 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATAAATAATA
Found at i:31445403 original size:20 final size:20
Alignment explanation
Indices: 31445360--31445397 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31445350 ATATAAATTA
31445360 AAAT-ATATTAATAATATAT
1 AAATAATATTAATAATATAT
31445379 AAATAATATTAATAATATA
1 AAATAATATTAATAATATA
31445398 ATAATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATAATATTAATAATATAT
Found at i:31448769 original size:5 final size:5
Alignment explanation
Indices: 31448755--31448785 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
31448745 GCATTGGAAC
31448755 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
31448786 CTTAGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:31454057 original size:29 final size:28
Alignment explanation
Indices: 31453982--31454055 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 28
31453972 AACCTGACCT
* ** *
31453982 ACAACTTGTGTGAGGAGCCCAAAATGTC
1 ACAACTTGTGTGAGAAATCCAAAATATC
31454010 ACAACTTGTGTGAGCAAATCCAAAATATC
1 ACAACTTGTGTGAG-AAATCCAAAATATC
31454039 ACAACTTGTGTGAGAAA
1 ACAACTTGTGTGAGAAA
31454056 ATTTGAGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 17 0.41
29 24 0.59
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (28 bp):
ACAACTTGTGTGAGAAATCCAAAATATC
Found at i:31455445 original size:2 final size:2
Alignment explanation
Indices: 31455440--31455470 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
31455430 ATTATGCCTA
*
31455440 TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
31455471 TATAAGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:31457037 original size:23 final size:24
Alignment explanation
Indices: 31456995--31457066 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 24
31456985 TAAATTTTCC
* *
31456995 ATATATATATATCATAAATATATTA
1 ATATAT-TATATAATAAATAAATTA
31457020 A-A-ATTATATTAATAAATAAATTA
1 ATATATTATA-TAATAAATAAATTA
*
31457043 ATATATTATATAAT-ATTAAATTA
1 ATATATTATATAATAAATAAATTA
31457066 A
1 A
31457067 AAATTATTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.10
23 24 0.59
24 6 0.15
25 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATTATATAATAAATAAATTA
Found at i:31461052 original size:19 final size:18
Alignment explanation
Indices: 31461015--31461113 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 18
31461005 ACATGTGGCA
**
31461015 AAAAATT-ATAAAAAAAT
1 AAAAATTAATAAAATTAT
31461032 AAAAATTAATAAAAGTTAT
1 AAAAATTAATAAAA-TTAT
*
31461051 AAAAATTACTAAAATTTAAT
1 AAAAATTAATAAAA-TT-AT
*
31461071 AAAAAAT-ATAAAATATATTT
1 AAAAATTAATAAAAT-TA--T
*
31461091 AAAAATTATTAAAAATTAT
1 AAAAATTAAT-AAAATTAT
31461110 AAAA
1 AAAA
31461114 TGCATCAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.11
18 8 0.12
19 28 0.42
20 15 0.23
21 3 0.05
22 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAATTAATAAAATTAT
Found at i:31461080 original size:29 final size:28
Alignment explanation
Indices: 31461014--31461113 Score: 71
Period size: 29 Copynumber: 3.5 Consensus size: 28
31461004 GACATGTGGC
31461014 AAAAAATTATAAAAA--AATAAAAATTAAT
1 AAAAAA-TATAAAAATTAATAAAAATT-AT
** * *
31461042 AAAAGTTATAAAAATTACTAAAATTTAAT
1 AAAAAATATAAAAATTAATAAAAATT-AT
*
31461071 AAAAAATAT-AAAATATATTTAAAAATTATT
1 AAAAAATATAAAAAT-TA-ATAAAAATTA-T
*
31461101 AAAAATTATAAAA
1 AAAAAATATAAAA
31461114 TGCATCAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
27 8 0.14
28 9 0.16
29 21 0.37
30 16 0.28
31 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAAATATAAAAATTAATAAAAATTAT
Found at i:31461081 original size:9 final size:9
Alignment explanation
Indices: 31461015--31461113 Score: 92
Period size: 10 Copynumber: 10.4 Consensus size: 9
31461005 ACATGTGGCA
31461015 AAAAATTAT
1 AAAAATTAT
*
31461024 AAAAA-AAT
1 AAAAATTAT
31461032 AAAAATTAAT
1 AAAAATT-AT
*
31461042 AAAAGTTAT
1 AAAAATTAT
31461051 AAAAATTACT
1 AAAAATTA-T
*
31461061 AAAATTTAAT
1 AAAAATT-AT
*
31461071 AAAAAATAT
1 AAAAATTAT
*
31461080 AAAATATATTT
1 AAAA-AT-TAT
31461091 AAAAATTATT
1 AAAAATTA-T
31461101 AAAAATTAT
1 AAAAATTAT
31461110 AAAA
1 AAAA
31461114 TGCATCAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
8 7 0.10
9 26 0.36
10 33 0.45
11 7 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:31462138 original size:10 final size:10
Alignment explanation
Indices: 31462123--31462147 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31462113 ATTTGTTGTC
31462123 TTTTTTTTAT
1 TTTTTTTTAT
31462133 TTTTTTTTAT
1 TTTTTTTTAT
31462143 TTTTT
1 TTTTT
31462148 GTTGCTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:31463400 original size:20 final size:20
Alignment explanation
Indices: 31463375--31463413 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
31463365 AAATTTTTTA
31463375 TTTTTTTAATTTTAAAATAC
1 TTTTTTTAATTTTAAAATAC
*
31463395 TTTTTTTATTTTTAAAATA
1 TTTTTTTAATTTTAAAATA
31463414 AATTTTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTTAATTTTAAAATAC
Found at i:31463419 original size:20 final size:20
Alignment explanation
Indices: 31463376--31463420 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31463366 AATTTTTTAT
**
31463376 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATAAA
*
31463396 TTTTTTATTTTTAAAATAAA
1 TTTTTTAATTTTAAAATAAA
31463416 TTTTT
1 TTTTT
31463421 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:31466797 original size:46 final size:45
Alignment explanation
Indices: 31466730--31467099 Score: 456
Period size: 46 Copynumber: 8.6 Consensus size: 45
31466720 TGAGTACTTT
*
31466730 TGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
*
31466776 TGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
*
31466822 TGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
*
31466858 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
*
31466904 TGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
*
31466940 TGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
* * *
31466986 TGATCTAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
*
31467032 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
*
31467077 TGATC-AGGGAC-AAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
31467100 ATCATATGTA
Statistics
Matches: 287, Mismatches: 17, Indels: 43
0.83 0.05 0.12
Matches are distributed among these distances:
36 55 0.19
38 2 0.01
39 3 0.01
40 7 0.02
41 1 0.00
42 8 0.03
43 16 0.06
44 7 0.02
45 19 0.07
46 169 0.59
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
Found at i:31466856 original size:36 final size:36
Alignment explanation
Indices: 31466810--31466964 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
31466800 GGTAGCATTA
*
31466810 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
31466846 GCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAA---GT
31466885 AGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GC--TA--T--ACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
31466928 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
31466964 G
1 G
31466965 TTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 62 0.60
38 1 0.01
39 2 0.02
40 4 0.04
42 4 0.04
43 2 0.02
44 1 0.01
46 27 0.26
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:31466862 original size:82 final size:81
Alignment explanation
Indices: 31466764--31467099 Score: 460
Period size: 82 Copynumber: 4.0 Consensus size: 81
31466754 GGTAGCATTA
* *
31466764 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
31466829 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
*
31466846 GCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAA
31466911 GTGAAAAAGTGATAAGT
65 GTGAAAAAGTGATAAGT
* *
31466928 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCTA
1 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAA
*
31466993 GTGAGAAAGTGATAAGTGGT
65 GTGAAAAAGTGATAA---GT
*
31467013 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 -G-C-TA--TA--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
31467078 GATC-AG-GGACAAGTGATAAGT
59 GATCAAGTGAAAAAGTGATAAGT
31467099 G
1 G
31467100 ATCATATGTA
Statistics
Matches: 230, Mismatches: 13, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
82 152 0.66
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 4 0.02
91 20 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAG
TGAAAAAGTGATAAGT
Found at i:31467092 original size:128 final size:126
Alignment explanation
Indices: 31466730--31467099 Score: 427
Period size: 128 Copynumber: 2.9 Consensus size: 126
31466720 TGAGTACTTT
* *
31466730 TGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
* *
31466795 TAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATC
66 TAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTATC
* *
31466858 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
*
31466923 TAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTAC
66 TAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCTAC
31466979 ACTTATC
120 ACTTATC
* * * * *
31466986 TGATCTAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
* *
31467051 TAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 TAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
31467100 ATCATATGTA
Statistics
Matches: 207, Mismatches: 15, Indels: 43
0.78 0.06 0.16
Matches are distributed among these distances:
117 1 0.00
118 23 0.11
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.02
125 3 0.01
126 1 0.00
127 1 0.00
128 137 0.66
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.00
135 8 0.04
136 4 0.02
137 12 0.06
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTATC
Found at i:31467926 original size:3 final size:3
Alignment explanation
Indices: 31467918--31467947 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
31467908 GATCAAGAAC
*
31467918 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31467948 GAAAAGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31469306 original size:33 final size:33
Alignment explanation
Indices: 31469264--31469330 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
31469254 GAGACGTGTC
31469264 AATTTTTAAAGTTGCTAGTAGAATAAAAAAAAT
1 AATTTTTAAAGTTGCTAGTAGAATAAAAAAAAT
*
31469297 AATTTTTAAAGTTGCTTGTAGAATAAAAAAAAT
1 AATTTTTAAAGTTGCTAGTAGAATAAAAAAAAT
31469330 A
1 A
31469331 TATTGTCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (33 bp):
AATTTTTAAAGTTGCTAGTAGAATAAAAAAAAT
Found at i:31469708 original size:18 final size:19
Alignment explanation
Indices: 31469685--31469732 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 19
31469675 CTAGTTCTAT
31469685 ATAAAAATTA-TAAAAAAA
1 ATAAAAATTATTAAAAAAA
31469703 ATAAAAATTATTTTAAAAAAA
1 ATAAAAATTA--TTAAAAAAA
31469724 ATAAAAATT
1 ATAAAAATT
31469733 TTGTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.37
21 17 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAATTATTAAAAAAA
Found at i:31469741 original size:22 final size:22
Alignment explanation
Indices: 31469692--31469743 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
31469682 TATATAAAAA
31469692 TTATAAAAAAAATAAAAATTAT
1 TTATAAAAAAAATAAAAATTAT
31469714 TT-TAAAAAAAATAAAAATT-T
1 TTATAAAAAAAATAAAAATTAT
31469734 TGTATAAAAA
1 T-TATAAAAA
31469744 TTCTAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.07
21 18 0.64
22 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TTATAAAAAAAATAAAAATTAT
Found at i:31473197 original size:14 final size:14
Alignment explanation
Indices: 31473178--31473207 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31473168 TATAAAATGT
31473178 GTTGATATCATTTA
1 GTTGATATCATTTA
31473192 GTTGATATCATTTA
1 GTTGATATCATTTA
31473206 GT
1 GT
31473208 GTCTCATGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (14 bp):
GTTGATATCATTTA
Found at i:31477059 original size:21 final size:21
Alignment explanation
Indices: 31477035--31477096 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
31477025 TTCAAAAGCC
31477035 TGAGGGTTGAACAGAAGCTCA
1 TGAGGGTTGAACAGAAGCTCA
* * * * * *
31477056 TGAGAGCTAAATAGAAACCCA
1 TGAGGGTTGAACAGAAGCTCA
* *
31477077 TAAGGGTTGAACGGAAGCTC
1 TGAGGGTTGAACAGAAGCTC
31477097 GTAAGAGCTG
Statistics
Matches: 27, Mismatches: 14, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (21 bp):
TGAGGGTTGAACAGAAGCTCA
Found at i:31477096 original size:42 final size:41
Alignment explanation
Indices: 31477037--31477192 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 41
31477027 CAAAAGCCTG
*
31477037 AGGGTTGAACAGAAGCTCATGAGAGCTAAATAGAAACCCATA
1 AGGGTTAAACAGAAGCTCATGAGAGCTAAA-AGAAACCCATA
* * * * **
31477079 AGGGTTGAACGGAAGCTCGTAAGAGCTGAACGGAAACCCATA
1 AGGGTTAAACAGAAGCTCATGAGAGCT-AAAAGAAACCCATA
* * * *
31477121 AAGGTTAAACAGAAGCTCAAT-AGAGCTGAACGAAAACTCATA
1 AGGGTTAAACAGAAGCTC-ATGAGAGCTAAAAG-AAACCCATA
* * *
31477163 TGAGTTAAACAGAAGCTCGTGAGAGCTAAA
1 AGGGTTAAACAGAAGCTCATGAGAGCTAAA
31477193 CGGAAAGTAA
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 3 0.03
42 86 0.93
43 3 0.03
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (41 bp):
AGGGTTAAACAGAAGCTCATGAGAGCTAAAAGAAACCCATA
Found at i:31480037 original size:18 final size:17
Alignment explanation
Indices: 31480004--31480042 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
31479994 TTTTATAAAT
31480004 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
31480022 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
31480039 TGTG
1 TGTG
31480043 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:31480295 original size:23 final size:23
Alignment explanation
Indices: 31480268--31480343 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
31480258 AGTGTTATTG
31480268 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
31480291 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31480314 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31480337 ATCAGTG
1 ATCAGTG
31480344 TGACACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:31488883 original size:20 final size:19
Alignment explanation
Indices: 31488844--31488883 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31488834 GATATTTTTG
* *
31488844 TAAAAAACTATTTAATATA
1 TAAAAAAATATTTAAAATA
31488863 TAAAAAAATATTTATAAATA
1 TAAAAAAATATTTA-AAATA
31488883 T
1 T
31488884 TAAATGAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAAATATTTAAAATA
Found at i:31490201 original size:19 final size:21
Alignment explanation
Indices: 31490166--31490215 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
31490156 ATTTTTTATG
*
31490166 TATATATGTAATTA-TT-TTA
1 TATATATGTAATGATTTATTA
31490185 TATATATGTACA-GATTTATTA
1 TATATATGTA-ATGATTTATTA
31490206 TATATATGTA
1 TATATATGTA
31490216 TATGTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (21 bp):
TATATATGTAATGATTTATTA
Found at i:31493487 original size:35 final size:35
Alignment explanation
Indices: 31493455--31493577 Score: 120
Period size: 35 Copynumber: 3.5 Consensus size: 35
31493445 AACATCATGA
* *
31493455 AAATGATCTATTGGCTTTATGGAGTTGTATCATAG
1 AAATGATCTATTGGCTTTACGGAGTGGTATCATAG
* * * ** *
31493490 AAGTGATCTACTGGCTCTACCAAGCGGTATCATAG
1 AAATGATCTATTGGCTTTACGGAGTGGTATCATAG
* ** *
31493525 GAATGATCTATTGGCTTTACGGAGTGACACCATAG
1 AAATGATCTATTGGCTTTACGGAGTGGTATCATAG
* *
31493560 AAATGGTCTATTGACTTT
1 AAATGATCTATTGGCTTT
31493578 CTAGAGTCGA
Statistics
Matches: 67, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (35 bp):
AAATGATCTATTGGCTTTACGGAGTGGTATCATAG
Found at i:31503846 original size:33 final size:31
Alignment explanation
Indices: 31503805--31503883 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 31
31503795 TGGATTTTGA
*
31503805 AACC-ATTAACTTTTTTTCTTTTTGGTTACATG
1 AACCAATTAACTTTCTTT-TTTTT-GTTACATG
31503837 AACCAATTAA-TTAACTCTTTTTTTTGTTACATG
1 AACCAATTAACTT---TCTTTTTTTTGTTACATG
31503870 AACCAATTAACTTT
1 AACCAATTAACTTT
31503884 AATTCATTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
31 1 0.02
32 6 0.15
33 23 0.56
34 7 0.17
35 4 0.10
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (31 bp):
AACCAATTAACTTTCTTTTTTTTGTTACATG
Found at i:31511972 original size:41 final size:40
Alignment explanation
Indices: 31511922--31512096 Score: 165
Period size: 41 Copynumber: 4.3 Consensus size: 40
31511912 ATTTATAGAA
* **
31511922 CATAGAGCCTTGTATAAAACACCGGCATAAAGCCTGCTAGG
1 CATAAAGCC-TGTATAATTCACCGGCATAAAGCCTGCTAGG
* * *
31511963 CACAAAGCCTG-ATACATTTCACCGGCACAAAGCCTGCTAGA
1 CATAAAGCCTGTATA-A-TTCACCGGCATAAAGCCTGCTAGG
* *
31512004 CATAAAGTCTGATATAATTCACCGGCACT-GAGCCTGCTAGG
1 CATAAAGCCTG-TATAATTCACCGGCA-TAAAGCCTGCTAGG
* * * *
31512045 CATAAAGCCTGATGTAATTCACCGACATCAAGTCTGCTAGG
1 CATAAAGCCTG-TATAATTCACCGGCATAAAGCCTGCTAGG
*
31512086 CATTAAGCCTG
1 CATAAAGCCTG
31512097 AAAATCTCAA
Statistics
Matches: 111, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
39 3 0.03
40 4 0.04
41 100 0.90
42 1 0.01
43 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (40 bp):
CATAAAGCCTGTATAATTCACCGGCATAAAGCCTGCTAGG
Found at i:31512097 original size:41 final size:41
Alignment explanation
Indices: 31511941--31512097 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
31511931 TTGTATAAAA
* * * *
31511941 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
31511982 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
** *
31512023 CACCGGCACTGAGCCTGCTAGGCATAAAGCCTGATGTAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * *
31512064 CACCGACATC-AAGTCTGCTAGGCATTAAGCCTGA
1 CACCGGCA-CAAAGCCTGCTAGGCATAAAGCCTGA
31512098 AAATCTCAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 99 0.99
42 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:31512362 original size:61 final size:63
Alignment explanation
Indices: 31512240--31512390 Score: 207
Period size: 61 Copynumber: 2.4 Consensus size: 63
31512230 ATAATTTACA
* * *** *
31512240 ACATTAAAATTCAGCTCAAAGAATTTGTAGCCTATATTCGAACCAAATATGTATGTGAAATTCAT
1 ACATT-AAATTCAGCTCAAAGAACTTGAAATATATATTCGAACC-AATATGTATGTAAAATTCAT
*
31512305 GCATTAAATTCAGCTC-AAGAACTTGAAATATATATTCGAACC-ATATGTATGTAAAATTCAT
1 ACATTAAATTCAGCTCAAAGAACTTGAAATATATATTCGAACCAATATGTATGTAAAATTCAT
31512366 ACATTAAATTCAGCTCAAAGAACTT
1 ACATTAAATTCAGCTCAAAGAACTT
31512391 ATATCATACA
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
61 33 0.43
62 8 0.10
63 21 0.27
64 11 0.14
65 4 0.05
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (63 bp):
ACATTAAATTCAGCTCAAAGAACTTGAAATATATATTCGAACCAATATGTATGTAAAATTCAT
Found at i:31522909 original size:78 final size:78
Alignment explanation
Indices: 31522807--31522997 Score: 233
Period size: 78 Copynumber: 2.4 Consensus size: 78
31522797 AATTGTATTC
* * * *
31522807 TGTTTCAAATAGAAATTTAATTGAACAATCTTGTTTTAGGAATTTATTCTTGTCGTTTAA-AAGG
1 TGTTTCAAATAGAAAATCAATTGAACAATCCTGTTTTAGGAATTTATTCTTGCCGTTTAACAA-G
31522871 ATTTGTTTGATTTT
65 ATTTGTTTGATTTT
* * *
31522885 TGTTTCAAATTGAAAATCAATTGAATAATCCTGTTTTAGGATTTTATTCTTGCCGTTTAACAAGA
1 TGTTTCAAATAGAAAATCAATTGAACAATCCTGTTTTAGGAATTTATTCTTGCCGTTTAACAAGA
* *
31522950 TTTTTTTTATTTT
66 TTTGTTTGATTTT
* * * *
31522963 TGTTTTAAACAGAAAA-CTTATTGAACAATTCTGTT
1 TGTTTCAAATAGAAAATC-AATTGAACAATCCTGTT
31522998 CAGGATTTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 93 0.97
79 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (78 bp):
TGTTTCAAATAGAAAATCAATTGAACAATCCTGTTTTAGGAATTTATTCTTGCCGTTTAACAAGA
TTTGTTTGATTTT
Found at i:31531817 original size:10 final size:10
Alignment explanation
Indices: 31531787--31531820 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
31531777 TTAGTTTAGG
31531787 TTTAGTTTTC
1 TTTAGTTTTC
*
31531797 TCTAGGTTTTC
1 TTTA-GTTTTC
31531808 TTTAGTTTTC
1 TTTAGTTTTC
31531818 TTT
1 TTT
31531821 CAACTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.68
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:31533648 original size:7 final size:6
Alignment explanation
Indices: 31533618--31533658 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
31533608 GGTTTTCTCC
31533618 AAAATG AAAATG AAAATG AAAATG AAAAATG AAAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG -AAAATG -AAAATG AAA
31533659 TTTACCTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 21 0.62
7 13 0.38
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:31536977 original size:34 final size:34
Alignment explanation
Indices: 31536934--31537001 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
31536924 GATATATATA
31536934 TAGGAATATGGGTCAAGTTGTAAACGGAAAAAAT
1 TAGGAATATGGGTCAAGTTGTAAACGGAAAAAAT
31536968 TAGGAATATGGGTCAAGTTGTAAACGGAAAAAAT
1 TAGGAATATGGGTCAAGTTGTAAACGGAAAAAAT
31537002 ATATATATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (34 bp):
TAGGAATATGGGTCAAGTTGTAAACGGAAAAAAT
Found at i:31542377 original size:42 final size:42
Alignment explanation
Indices: 31542325--31542422 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
31542315 GCTCTCGGTA
*
31542325 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
* *
31542367 TCGCACACTTAGTGCCTATTATTCAACATCATCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
*
31542409 TCACACACTTAGTG
1 TCGCACACTTAGTG
31542423 TCGTTCATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:31554813 original size:13 final size:13
Alignment explanation
Indices: 31554784--31554825 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
31554774 AATGGCATCG
31554784 AAATAATATAAAC-
1 AAATAA-ATAAACA
31554797 AAATAAATAAACA
1 AAATAAATAAACA
* *
31554810 AAATTAATATACA
1 AAATAAATAAACA
31554823 AAA
1 AAA
31554826 AAAAAATCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAACA
Found at i:31555081 original size:20 final size:20
Alignment explanation
Indices: 31555031--31555082 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
31555021 ACAATAAAGA
31555031 AAAATATATAAACATATACAT
1 AAAA-ATATAAACATATACAT
* *
31555052 ATAAATTATAAA-ATATGCATT
1 A-AAAATATAAACATATACA-T
31555073 AAAAATATAA
1 AAAAATATAA
31555083 GTATGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 14 0.54
21 9 0.35
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATATAAACATATACAT
Found at i:31555155 original size:16 final size:17
Alignment explanation
Indices: 31555134--31555180 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
31555124 ATATATGTAT
31555134 ATATATAAATATAAAAA
1 ATATATAAATATAAAAA
* * *
31555151 A-ATATTCATTAGAAAAA
1 ATATA-TAAATATAAAAA
31555168 ATATATAAATATA
1 ATATATAAATATA
31555181 TACATGTACA
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
ATATATAAATATAAAAA
Found at i:31555195 original size:24 final size:24
Alignment explanation
Indices: 31555168--31555222 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
31555158 ATTAGAAAAA
* *
31555168 ATATATAAATAT-ATACATGTACAT
1 ATATATAAAAATAAT-CATCTACAT
* *
31555192 ATATAAAAAAATAATTATCTACAT
1 ATATATAAAAATAATCATCTACAT
31555216 ATATATA
1 ATATATA
31555223 GATTATAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
ATATATAAAAATAATCATCTACAT
Found at i:31555630 original size:7 final size:7
Alignment explanation
Indices: 31555611--31555640 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
31555601 AAATCAAATT
31555611 TAATAAA
1 TAATAAA
31555618 -AATAAA
1 TAATAAA
31555624 TAATAAA
1 TAATAAA
31555631 TAATAAA
1 TAATAAA
31555638 TAA
1 TAA
31555641 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:31555958 original size:19 final size:19
Alignment explanation
Indices: 31555911--31556006 Score: 129
Period size: 19 Copynumber: 4.8 Consensus size: 19
31555901 AAATTAAATC
*
31555911 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
31555931 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
31555953 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
31555972 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
31555991 TCTAAGATTACATATC
1 TCTAAGATTACATATC
31556007 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 51 0.75
22 7 0.10
23 10 0.15
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:31555983 original size:38 final size:39
Alignment explanation
Indices: 31555911--31556006 Score: 149
Period size: 38 Copynumber: 2.4 Consensus size: 39
31555901 AAATTAAATC
*
31555911 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA--TTCTAAGATTGCATATCATA
31555953 TCTAAGATTACATATCATA-TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
31555991 TCTAAGATTACATATC
1 TCTAAGATTACATATC
31556007 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
38 35 0.66
41 7 0.13
42 11 0.21
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (39 bp):
TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
Found at i:31556446 original size:15 final size:16
Alignment explanation
Indices: 31556426--31556458 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
31556416 TCCATGTCTT
31556426 TTGTTTATT-TTATTA
1 TTGTTTATTATTATTA
31556441 TTGTTTATTATTATTA
1 TTGTTTATTATTATTA
31556457 TT
1 TT
31556459 ATGATAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TTGTTTATTATTATTA
Found at i:31557989 original size:20 final size:20
Alignment explanation
Indices: 31557964--31558002 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31557954 ACAGATGTGC
31557964 CAGAATTTTCATATTTTTTT
1 CAGAATTTTCATATTTTTTT
31557984 CAGAATTTTCATATTTTTT
1 CAGAATTTTCATATTTTTT
31558003 CACCCGATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (20 bp):
CAGAATTTTCATATTTTTTT
Found at i:31558092 original size:18 final size:17
Alignment explanation
Indices: 31558069--31558105 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
31558059 GATCAGTGAC
31558069 TTTATTTAGTTTTATGTT
1 TTTATTTAGTTTTAT-TT
*
31558087 TTTATTTATTTTTATTT
1 TTTATTTAGTTTTATTT
31558104 TT
1 TT
31558106 AGTTTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTATTTAGTTTTATTT
Found at i:31558111 original size:7 final size:6
Alignment explanation
Indices: 31558073--31558135 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
31558063 AGTGACTTTA
* * * * *
31558073 TTTAGT TTTATGT TTT-TA TTTATT TTTATT TTTAGT TTTACT TTCATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
31558121 TTTATT GTTATT TTT
1 TTTATT TTTATT TTT
31558136 TTCGAATTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
5 3 0.07
6 38 0.84
7 4 0.09
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:31559706 original size:16 final size:16
Alignment explanation
Indices: 31559668--31559713 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
31559658 TGCATTAATA
*
31559668 ATAATATTATTAATTT
1 ATAATTTTATTAATTT
*
31559684 ATGATTTTATGTAATTT
1 ATAATTTTAT-TAATTT
31559701 -TAATTTTA-TAATT
1 ATAATTTTATTAATT
31559714 GATATTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATAATTTTATTAATTT
Found at i:31570605 original size:101 final size:100
Alignment explanation
Indices: 31570429--31570686 Score: 360
Period size: 101 Copynumber: 2.6 Consensus size: 100
31570419 TTATTCAAAT
* * *
31570429 GTAAGACCATGGTTGGGACCATGGCAGTGTATATATGTAAGACCATAGCTGGGATATGGAATTCT
1 GTAAGACCATGGTT-AGACCATGGCAGTGT-TATATGTAAGACCATAGTTGGGTTATGGAATTCT
31570494 GATGATAAGACCATAACTGGGTTATGGCACTAT-AGAC
64 GATGATAAGACCATAACTGGGTTATGGCACTATGA-AC
*
31570531 GTAAGACCATGGTTAGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGTTATGGCATTCTG
1 GTAAGACCATGGTTAGACCATGGCAGTG-TTATATGTAAGACCATAGTTGGGTTATGGAATTCTG
*
31570596 ATGATAAGACCATAATTGGGTTATGGCACTATGAAC
65 ATGATAAGACCATAACTGGGTTATGGCACTATGAAC
* * * * *
31570632 GTAAGACCATGG-TAGGGCCATGACAATG-CATATGTAAGACCATAGTTGGATTATG
1 GTAAGACCATGGTTA-GACCATGGCAGTGTTATATGTAAGACCATAGTTGGGTTATG
31570687 ACACAATAGG
Statistics
Matches: 143, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
99 25 0.17
100 2 0.01
101 100 0.70
102 16 0.11
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (100 bp):
GTAAGACCATGGTTAGACCATGGCAGTGTTATATGTAAGACCATAGTTGGGTTATGGAATTCTGA
TGATAAGACCATAACTGGGTTATGGCACTATGAAC
Found at i:31570609 original size:33 final size:33
Alignment explanation
Indices: 31570427--31570623 Score: 128
Period size: 33 Copynumber: 5.8 Consensus size: 33
31570417 AATTATTCAA
* ** * *
31570427 ATGTAAGACCATGGTTGGGACCATGGCAGTGTATAT
1 ATGTAAGACCATAGTTGGG-TTATGGCA-T-TCTAG
* * *
31570463 ATGTAAGACCATAGCTGGGATATGGAATTCT-G
1 ATGTAAGACCATAGTTGGGTTATGGCATTCTAG
** * *
31570495 ATGATAAGACCATAACTGGGTTATGGCACTATAG
1 ATG-TAAGACCATAGTTGGGTTATGGCATTCTAG
* * * *** * *
31570529 ACGTAAGACCATGGTTAGACCATGGCAGTGTTTAT
1 ATGTAAGACCATAGTTGGGTTATGGCA-T-TCTAG
31570564 ATGTAAGACCATAGTTGGGTTATGGCATTCT-G
1 ATGTAAGACCATAGTTGGGTTATGGCATTCTAG
*
31570596 ATGATAAGACCATAATTGGGTTATGGCA
1 ATG-TAAGACCATAGTTGGGTTATGGCA
31570624 CTATGAACGT
Statistics
Matches: 124, Mismatches: 32, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.05
33 67 0.54
34 5 0.04
35 29 0.23
36 17 0.14
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (33 bp):
ATGTAAGACCATAGTTGGGTTATGGCATTCTAG
Found at i:31570637 original size:33 final size:34
Alignment explanation
Indices: 31570499--31570641 Score: 105
Period size: 33 Copynumber: 4.3 Consensus size: 34
31570489 ATTCTGATGA
*
31570499 TAAGACCATAACTGGGTTATGGCACTAT-AGACG
1 TAAGACCATAATTGGGTTATGGCACTATGAGACG
** * *** * * * * *
31570532 TAAGACCATGGTTAGACCATGGCAGTGTTTATATG
1 TAAGACCATAATTGGGTTATGGCACT-ATGAGACG
* * *
31570567 TAAGACCATAGTTGGGTTATGGCATTCTGATGA--
1 TAAGACCATAATTGGGTTATGGCACTATGA-GACG
31570600 TAAGACCATAATTGGGTTATGGCACTATGA-ACG
1 TAAGACCATAATTGGGTTATGGCACTATGAGACG
31570633 TAAGACCAT
1 TAAGACCAT
31570642 GGTAGGGCCA
Statistics
Matches: 82, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
31 1 0.01
33 54 0.66
34 3 0.04
35 24 0.29
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (34 bp):
TAAGACCATAATTGGGTTATGGCACTATGAGACG
Found at i:31570688 original size:33 final size:33
Alignment explanation
Indices: 31570562--31570689 Score: 102
Period size: 33 Copynumber: 3.9 Consensus size: 33
31570552 GGCAGTGTTT
* *
31570562 ATATGTAAGACCATAGTTGGGTTATGGC-ATTC
1 ATATGTAAGACCATAGTTGGGTTATGACAATGC
* *
31570594 -TGATGATAAGACCATAATTGGGTTATGGCACTATG-
1 AT-ATG-TAAGACCATAGTTGGGTTAT-G-ACAATGC
* * * **
31570629 A-ACGTAAGACCATGGTAGGGCCATGACAATGC
1 ATATGTAAGACCATAGTTGGGTTATGACAATGC
*
31570661 ATATGTAAGACCATAGTTGGATTATGACA
1 ATATGTAAGACCATAGTTGGGTTATGACA
31570690 CAATAGGAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
31 6 0.08
32 5 0.07
33 55 0.76
34 3 0.04
35 1 0.01
36 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (33 bp):
ATATGTAAGACCATAGTTGGGTTATGACAATGC
Found at i:31574888 original size:4 final size:4
Alignment explanation
Indices: 31574879--31574912 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
31574869 TTTTCGAACT
31574879 TTAA TTAA TTAA TTAA TTAA TTAA TTAA -TAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
31574913 GGAAAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:31576253 original size:9 final size:9
Alignment explanation
Indices: 31576239--31576275 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
31576229 TATAGTTTGA
31576239 TATTCGAAT
1 TATTCGAAT
31576248 TATTCGAAT
1 TATTCGAAT
*
31576257 TATTCGAGT
1 TATTCGAAT
31576266 TATTCGAAT
1 TATTCGAAT
31576275 T
1 T
31576276 CGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31581436 original size:45 final size:43
Alignment explanation
Indices: 31581373--31581965 Score: 252
Period size: 44 Copynumber: 13.7 Consensus size: 43
31581363 TCGGCTTTAA
* *
31581373 TCTGCTCCACTGCAACTTCAGTGAGATAAGATTTTCC-ATCTTCAG
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGCCTA-CTT-AG
31581418 TCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCCTACTTAG
* * * *
31581462 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGCCTACTTAG
* * * * * *
31581503 TTTGCT-CTCTGCAACTTTAGAGAGATAAGATCTAAGGCT--TTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGA-CT-TGCCTACTTAG
* * * *** *
31581546 TCCGCT-CACTACAACTTCAGCAAGATAAGAC-TAAATA-TGA-
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGCCTACTTAG
* * * * * * *
31581586 TCTGCT-CTCTGCAACTTCAGACAGATGAGA-TCTACGGT-TTTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACT-TGC-CTACTTAG
* * * ** *
31581629 TCCGCT-CACTGCAACTTCAGCGAGATAGGA-TTACCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGCCTAC-TTAG
*
31581672 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCCT-CTTCAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTG-CCTACTT-AG
*
31581717 TCCG-TCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCCTACTTAG
* * * *
31581761 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGCCTACTTAG
* ** * * ** *
31581802 TTTGCT-CTTTGAAACTTCAGCGAGATAGGA-TT-ATTGACTTTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGCCT-AC-TTAG
* *
31581845 TCTGCTCCACT-CAACTTCAGGGAGATAAGA-TTTCCCATCTTCAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGCCTA-CTT-AG
* * *
31581889 TCTAC-CTCACCGCAACTTCAGGAGGATAAGACTTGCGTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCCTACTTAG
*
31581933 TCTGCTCCACTGCAACTTCAGGGCGATAAGACT
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACT
31581966 CGATCTGTTA
Statistics
Matches: 423, Mismatches: 79, Indels: 93
0.71 0.13 0.16
Matches are distributed among these distances:
39 4 0.01
40 64 0.15
41 16 0.04
42 13 0.03
43 88 0.21
44 134 0.32
45 97 0.23
46 7 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGAGATAAGACTTGCCTACTTAG
Found at i:31581574 original size:83 final size:83
Alignment explanation
Indices: 31581469--31581655 Score: 266
Period size: 83 Copynumber: 2.3 Consensus size: 83
31581459 TAGTCTGCTC
* * * * * *
31581469 CACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTTAGAGAGATAAGAT
1 CACTGCAACTTCAGCGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGACAGATAAGAT
31581534 CTAAGGCTTTAATCCGCT
66 CTAAGGCTTTAATCCGCT
* * * *
31581552 CACTACAACTTCAGCAAGATAAGACTAAATATGATCTGCTCTCTGCAACTTCAGACAGATGAGAT
1 CACTGCAACTTCAGCGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGACAGATAAGAT
* *
31581617 CTACGGTTTTAATCCGCT
66 CTAAGGCTTTAATCCGCT
31581635 CACTGCAACTTCAGCGAGATA
1 CACTGCAACTTCAGCGAGATA
31581656 GGATTACCGG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (83 bp):
CACTGCAACTTCAGCGAGATAAGACTAAATACGATCTGCTCTCTGCAACTTCAGACAGATAAGAT
CTAAGGCTTTAATCCGCT
Found at i:31581575 original size:43 final size:43
Alignment explanation
Indices: 31581289--31581703 Score: 167
Period size: 44 Copynumber: 9.7 Consensus size: 43
31581279 AATATGATCT
* * ** * *
31581289 GCTCTCTGCAGCTTCAGGGAGATAAGATCCAAGGTTTTAATCC
1 GCTCACTGCAACTTCAGCAAGATAAGATCTAAGGCTTTAATCC
* * * * * *
31581332 ACTCCTCTGCAACTTCAGGAAGATAGGAT-TATCGGCTTTAATCT
1 GCT-CACTGCAACTTCAGCAAGATAAGATCTA-AGGCTTTAATCC
** * * * * * *
31581376 GCTCCACTGCAACTTCAGTGAGATAAGATTTTCCA-TCTTCAGTCT
1 GCT-CACTGCAACTTCAGCAAGATAAGA-TCT-AAGGCTTTAATCC
* * * * * *
31581421 GCCTCACTGCAACTTCAGGAGGATAAGA-CT-TGCCTACTTAGTCT
1 G-CTCACTGCAACTTCAGCAAGATAAGATCTAAGGCT--TTAATCC
** * *
31581465 GCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATT--T--
1 GCT-CACTGCAACTTCAGCAAGATAAGATCTA-AGGC-TTTAATCC
* *
31581506 GCTCTCTGCAACTTTAG-AGAGATAAGATCTAAGGCTTTAATCC
1 GCTCACTGCAACTTCAGCA-AGATAAGATCTAAGGCTTTAATCC
* * * * *
31581549 GCTCACTACAACTTCAGCAAGATAAGA-CTAA--ATATGATCT
1 GCTCACTGCAACTTCAGCAAGATAAGATCTAAGGCTTTAATCC
* * * *
31581589 GCTCTCTGCAACTTCAG-ACAGATGAGATCTACGGTTTTAATCC
1 GCTCACTGCAACTTCAGCA-AGATAAGATCTAAGGCTTTAATCC
* * * *
31581632 GCTCACTGCAACTTCAGCGAGATAGGAT-TACCGGCTTTAATCT
1 GCTCACTGCAACTTCAGCAAGATAAGATCTA-AGGCTTTAATCC
**
31581675 GCTCCACTGCAACTTCAGGGAGATAAGAT
1 GCT-CACTGCAACTTCAGCAAGATAAGAT
31581704 TTGCCCTCTT
Statistics
Matches: 286, Mismatches: 59, Indels: 53
0.72 0.15 0.13
Matches are distributed among these distances:
39 3 0.01
40 50 0.17
41 10 0.03
42 8 0.03
43 70 0.24
44 109 0.38
45 32 0.11
46 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GCTCACTGCAACTTCAGCAAGATAAGATCTAAGGCTTTAATCC
Found at i:31581605 original size:40 final size:39
Alignment explanation
Indices: 31581462--31581611 Score: 111
Period size: 40 Copynumber: 3.6 Consensus size: 39
31581452 GCCTACTTAG
* * **
31581462 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
1 TCTGCT-CACTGCAACTTCA-GAAGATAAGACTAAATATGA
* * * * * *
31581503 TTTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGCTTTAA
1 TCTGCTCACTGCAACTTCAGA-AGATAAGA-CTAA--ATATGA
* *
31581546 TCCGCTCACTACAACTTCAGCAAGATAAGACTAAATATGA
1 TCTGCTCACTGCAACTTCAG-AAGATAAGACTAAATATGA
*
31581586 TCTGCTCTCTGCAACTTCAGACAGAT
1 TCTGCTCACTGCAACTTCAGA-AGAT
31581612 GAGATCTACG
Statistics
Matches: 83, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.02
40 43 0.52
41 8 0.10
42 4 0.05
43 25 0.30
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (39 bp):
TCTGCTCACTGCAACTTCAGAAGATAAGACTAAATATGA
Found at i:31581733 original size:89 final size:89
Alignment explanation
Indices: 31581629--31581963 Score: 297
Period size: 89 Copynumber: 3.8 Consensus size: 89
31581619 ACGGTTTTAA
* *
31581629 TCCG-CTCACTGCAACTTCAGCGA-GATAGGA-TTACCGGCTTTAATCTGCTCCACTGCAACTTC
1 TCCGTCTCACTGCAACTTCAG-GAGGATAAGACTTACCGAC-TTAATCTGCTCCACTGCAACTTC
31581691 AGGGAGATAAGATTTGCCCTCTTCAG
64 AGGGAGATAAGATTTGCCCTCTTCAG
* * *
31581717 TCCGTCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCACTGCAACTTCAG
1 TCCGTCTCACTGCAACTTCAGGAGGATAAGACTTACCGACTTAATCTGCTCCACTGCAACTTCAG
* **
31581782 GGAGATAAGACTAGATGCGAT-TT--G
66 GGAGATAAGA-T--TTGCCCTCTTCAG
* * * **
31581806 --C-TCT--TTGAAACTTCAGCGA-GATAGGA-TTATTGACTTTAATCTGCTCCACT-CAACTTC
1 TCCGTCTCACTGCAACTTCAG-GAGGATAAGACTTACCGAC-TTAATCTGCTCCACTGCAACTTC
31581863 AGGGAGATAAGATTT-CCCATCTTCAG
64 AGGGAGATAAGATTTGCCC-TCTTCAG
*** * * *
31581889 TCTACCTCACCGCAACTTCAGGAGGATAAGACTT-GCGTACTTAGTCTGCTCCACTGCAACTTCA
1 TCCGTCTCACTGCAACTTCAGGAGGATAAGACTTACCG-ACTTAATCTGCTCCACTGCAACTTCA
*
31581953 GGGCGATAAGA
65 GGGAGATAAGA
31581964 CTCGATCTGT
Statistics
Matches: 197, Mismatches: 29, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
79 1 0.01
80 2 0.01
81 2 0.01
82 1 0.01
83 24 0.12
84 30 0.15
85 2 0.01
86 5 0.03
87 3 0.02
88 36 0.18
89 79 0.40
90 6 0.03
91 2 0.01
92 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (89 bp):
TCCGTCTCACTGCAACTTCAGGAGGATAAGACTTACCGACTTAATCTGCTCCACTGCAACTTCAG
GGAGATAAGATTTGCCCTCTTCAG
Found at i:31581735 original size:172 final size:170
Alignment explanation
Indices: 31581546--31581953 Score: 439
Period size: 172 Copynumber: 2.4 Consensus size: 170
31581536 AAGGCTTTAA
* * * *
31581546 TCCGCTCACTACAACTTCAGCAAGATAAGACTAAATA-TGA-TCTGCT-CTCTGCAACTTCAGAC
1 TCCGCTCACTGCAACTTCAGGAGGATAAGACTAAATACTGAGTCTGCTCCACTGCAACTTCAGAC
* * ** * *
31581608 AGATGAGATCTACGGTTTTAATCCGCTCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAAT
66 AGATAAGA-CTA--GATGCAATCCGCTCACTGAAACTTCAGCGAGATAGGATTACCGACTTTAAT
31581673 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCC-TCTTCAG
128 CTGCTCCACT-CAACTTCAGGGAGATAAGATTT-CCCATCTTCAG
*** *
31581717 TCCGTCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCACTGCAACTTCAG
1 TCCG-CTCACTGCAACTTCAGGAGGATAAGAC-TAAATACTGAGTCTGCTCCACTGCAACTTCAG
** * ** ** **
31581782 GGAGATAAGACTAGATGCGATTTGCTCTTTGAAACTTCAGCGAGATAGGATTATTGACTTTAATC
64 ACAGATAAGACTAGATGCAATCCGCTCACTGAAACTTCAGCGAGATAGGATTACCGACTTTAATC
31581847 TGCTCCACTCAACTTCAGGGAGATAAGATTTCCCATCTTCAG
129 TGCTCCACTCAACTTCAGGGAGATAAGATTTCCCATCTTCAG
* *** *
31581889 TCTAC-CTCACCGCAACTTCAGGAGGATAAGACTTGCGTACTTAGTCTGCTCCACTGCAACTTCA
1 TC--CGCTCACTGCAACTTCAGGAGGATAAGAC-TAAATACTGAGTCTGCTCCACTGCAACTTCA
31581953 G
63 G
31581954 GGCGATAAGA
Statistics
Matches: 204, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
171 7 0.03
172 113 0.55
173 52 0.25
174 3 0.01
175 9 0.04
176 20 0.10
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (170 bp):
TCCGCTCACTGCAACTTCAGGAGGATAAGACTAAATACTGAGTCTGCTCCACTGCAACTTCAGAC
AGATAAGACTAGATGCAATCCGCTCACTGAAACTTCAGCGAGATAGGATTACCGACTTTAATCTG
CTCCACTCAACTTCAGGGAGATAAGATTTCCCATCTTCAG
Found at i:31581796 original size:299 final size:300
Alignment explanation
Indices: 31581268--31581874 Score: 943
Period size: 299 Copynumber: 2.0 Consensus size: 300
31581258 AACTTCAAGG
* **
31581268 AGATAAGACTAAATATGATCTGCTCTCTGCAGCTTCAGGGAGATAAGATCCAAGGTTTTAATCCA
1 AGATAAGACTAAATATGATCTGCTCTCTGCAACTTCAGACAGATAAGATCCAAGGTTTTAATCCA
* * *
31581333 CTCCTCTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGTGAG
66 CTCCACTGCAACTTCAGGAAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
31581398 ATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGT
131 ATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGT
* *
31581463 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTTAGAGAGA
196 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGAAACTTCAGAGAGA
*
31581528 TAAGATCTA-AGGCTTTAATCCGCT-CACTACAACTTCAGCA
261 TAAGAT-TATAGACTTTAATCCGCTCCACT-CAACTTCAGCA
* * * *
31581568 AGATAAGACTAAATATGATCTGCTCTCTGCAACTTCAGACAGATGAGATCTACGGTTTTAATCCG
1 AGATAAGACTAAATATGATCTGCTCTCTGCAACTTCAGACAGATAAGATCCAAGGTTTTAATCCA
31581633 CT-CACTGCAACTTCAGCG-AGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
66 CTCCACTGCAACTTCAG-GAAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* *
31581696 GATAAGATTTGCCCTCTTCAGTCCGTCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
130 GATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAG
* *
31581761 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTTTGAAACTTCAGCGAG
195 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGAAACTTCAGAGAG
* * * **
31581826 ATAGGATTATTGACTTTAATCTGCTCCACTCAACTTCAGGG
260 ATAAGATTATAGACTTTAATCCGCTCCACTCAACTTCAGCA
31581867 AGATAAGA
1 AGATAAGA
31581875 TTTCCCATCT
Statistics
Matches: 280, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
298 2 0.01
299 213 0.76
300 65 0.23
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (300 bp):
AGATAAGACTAAATATGATCTGCTCTCTGCAACTTCAGACAGATAAGATCCAAGGTTTTAATCCA
CTCCACTGCAACTTCAGGAAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTCTGAAACTTCAGAGAGA
TAAGATTATAGACTTTAATCCGCTCCACTCAACTTCAGCA
Found at i:31581954 original size:172 final size:173
Alignment explanation
Indices: 31581641--31581965 Score: 546
Period size: 172 Copynumber: 1.9 Consensus size: 173
31581631 CGCTCACTGC
*
31581641 AACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 AACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
** *
31581706 GCCCTCTTCAGTCCGTCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCAC
66 GCCCTCTTCAGTCCACCTCACCGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCAC
31581771 TGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTTTGA
131 TGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTTTGA
**
31581814 AACTTCAGCGAGATAGGATTATTGACTTTAATCTGCTCCACT-CAACTTCAGGGAGATAAGATTT
1 AACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
* *
31581878 -CCCATCTTCAGTCTACCTCACCGCAACTTCAGGAGGATAAGACTTGCGTACTTAGTCTGCTCCA
66 GCCC-TCTTCAGTCCACCTCACCGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCA
*
31581942 CTGCAACTTCAGGGCGATAAGACT
130 CTGCAACTTCAGGGAGATAAGACT
31581966 CGATCTGTTA
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
171 3 0.02
172 100 0.70
173 39 0.27
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (173 bp):
AACTTCAGCGAGATAGGATTACCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
GCCCTCTTCAGTCCACCTCACCGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCAC
TGCAACTTCAGGGAGATAAGACTAGATGCGATTTGCTCTTTGA
Found at i:31594880 original size:37 final size:37
Alignment explanation
Indices: 31594821--31594929 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
31594811 AGCTCAGACG
* * *
31594821 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
31594858 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31594895 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31594930 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:31595200 original size:47 final size:47
Alignment explanation
Indices: 31595138--31595771 Score: 809
Period size: 47 Copynumber: 13.1 Consensus size: 47
31595128 ACACGTTTCG
* * *
31595138 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
31595185 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
31595232 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
31595279 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* *
31595332 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
31595379 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
*
31595430 CATTGGCCATTCGGCCTTATCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
31595477 CATTGGCCATTCGGCTTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * **
31595524 CATTGGCCATTCGACCTTATCACACATGCGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
31595571 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* *
31595624 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
31595671 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * *
31595722 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
31595769 CAT
1 CAT
31595772 AAAATCCTAA
Statistics
Matches: 512, Mismatches: 55, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
47 336 0.66
49 14 0.03
51 80 0.16
53 82 0.16
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:31595422 original size:245 final size:238
Alignment explanation
Indices: 31595138--31595771 Score: 830
Period size: 245 Copynumber: 2.6 Consensus size: 238
31595128 ACACGTTTCG
*
31595138 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATC--GTTCACATTCATCACATTGGCCATTCGGC
* *
31595200 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
64 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
* * * *
31595265 GTTCACATTTATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCAT
129 GTTCACATTCATCACATTGGCCATTCGACCTTATCA--C----ACATACACAGGTTCACATTCAT
* *
31595330 CACATTGGCCATTCGGCCTTATCA-C-ACATACGCATGTTCACATTCATCA
188 CACATTGGCCATTCGGCCTTATCACCAACATACACAGGTTCACATTCATCA
31595379 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-C--GTTCACATTCATCACATTGGCCATTCGG
* * * * *
31595444 CCTTATCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCTTTATCTCATATATGCA
63 CCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
* * *
31595509 TGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATGCGCATGTTCACATTCATCACAT
128 TGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACACAGGTTCACATTCATCACAT
* *
31595574 TGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
193 TGGCCATTCGGCCTTATCAC-C--A-ACATACACAGGTTCACATTCATCA
***
31595624 CATTGGCCATTCGGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
**
31595688 TATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
66 TAT--CAC--ATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
*
31595753 ATGTTCACATCCATCACAT
127 ATGTTCACATTCATCACAT
31595772 AAAATCCTAA
Statistics
Matches: 348, Mismatches: 31, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
239 41 0.12
241 53 0.15
242 1 0.00
243 13 0.04
244 1 0.00
245 239 0.69
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (238 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCACATTGGCCATTCGACCTTATCACACATACACAGGTTCACATTCATCACATTGG
CCATTCGGCCTTATCACCAACATACACAGGTTCACATTCATCA
Found at i:31595499 original size:292 final size:292
Alignment explanation
Indices: 31595138--31595771 Score: 1178
Period size: 292 Copynumber: 2.2 Consensus size: 292
31595128 ACACGTTTCG
* *
31595138 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
31595203 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACGCATGTT
*
31595268 CACATTTATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCAC
131 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCAC
31595333 ATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
196 ATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
31595398 TCACACATATATATACGGGTTCACATTCATCA
261 TCACACATATATATACGGGTTCACATTCATCA
*
31595430 CATTGGCCATTCGGCCTTATCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCTTT
1 CATTGGCCATTCGGCCTTATCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
31595495 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATGCGCATGTT
66 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACGCATGTT
31595560 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCAC
131 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCAC
31595625 ATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
196 ATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
31595690 TCACACATATATATACGGGTTCACATTCATCA
261 TCACACATATATATACGGGTTCACATTCATCA
* ** *
31595722 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACATATATTCATGTTCACATTCATCACAT
31595772 AAAATCCTAA
Statistics
Matches: 332, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
292 332 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (292 bp):
CATTGGCCATTCGGCCTTATCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCACACATACGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCAC
ATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
TCACACATATATATACGGGTTCACATTCATCA
Found at i:31600014 original size:51 final size:51
Alignment explanation
Indices: 31599949--31600149 Score: 230
Period size: 51 Copynumber: 4.0 Consensus size: 51
31599939 ATTAATGATA
* *
31599949 CCGGTTCACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACTAT
* * *
31600000 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * *
31600051 CCGGTACGCATAGTAGCCTACACATAGTACAACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACC-ATCACTAT
* * *
31600101 CTGGTACACGTAGTAGCTTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACT
31600150 TTCACTTTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 77 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACTAT
Found at i:31600137 original size:101 final size:102
Alignment explanation
Indices: 31599959--31600141 Score: 298
Period size: 101 Copynumber: 1.8 Consensus size: 102
31599949 CCGGTTCACG
* *
31599959 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCACA
1 TAGTAGCCTACACATAGTACAACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCACA
31600024 TAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
66 TAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
* * *
31600061 TAGTAGCCTACACATAGTACAACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCTTGCAC
1 TAGTAGCCTACACATAGTACAACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGCAC
31600124 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
31600142 CCATCACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
101 39 0.52
102 32 0.43
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (102 bp):
TAGTAGCCTACACATAGTACAACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
Found at i:31601874 original size:36 final size:36
Alignment explanation
Indices: 31601833--31601932 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
31601823 TCGAAAATAA
31601833 TTGTGCCTTGCACTGGTCAGG-TAAACCAACGATGTT
1 TTGTGCCTTGCACTGGTC-GGATAAACCAACGATGTT
* * *
31601869 TTGTGCCCTGCACTGGTCGGATAAATCGACGATGTT
1 TTGTGCCTTGCACTGGTCGGATAAACCAACGATGTT
** * *
31601905 TTGCACCTAGCACTGGTCGAATAAACCA
1 TTGTGCCTTGCACTGGTCGGATAAACCA
31601933 CAATAATTGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 2 0.04
36 51 0.96
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (36 bp):
TTGTGCCTTGCACTGGTCGGATAAACCAACGATGTT
Found at i:31605945 original size:28 final size:27
Alignment explanation
Indices: 31605911--31606013 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 27
31605901 GTGACAGTAT
31605911 AGTGTGGGCCTTACCCTAATATAGTAAC
1 AGTGTGGGCCTTACCC-AATATAGTAAC
*
31605939 AGTGTGGGCCTTACCCCAATACAGTAAC
1 AGTGTGGGCCTTA-CCCAATATAGTAAC
*
31605967 AATGTGGGCCTTAACCCAATATAG-AATC
1 AGTGTGGGCCTT-ACCCAATATAGTAA-C
31605995 AGTGTGGGCCTTAGCCCAA
1 AGTGTGGGCCTTA-CCCAA
31606014 GACAGAAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.04
28 60 0.90
29 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (27 bp):
AGTGTGGGCCTTACCCAATATAGTAAC
Found at i:31605988 original size:56 final size:56
Alignment explanation
Indices: 31605913--31606018 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
31605903 GACAGTATAG
*
31605913 TGTGGGCCTTACCCTAATATAGTAA-CAGTGTGGGCCTTACCCCAATACAGTAACAA
1 TGTGGGCCTTACCCTAATATAG-AATCAGTGTGGGCCTTACCCCAAGACAGTAACAA
*
31605969 TGTGGGCCTTAACCC-AATATAGAATCAGTGTGGGCCTTAGCCCAAGACAG
1 TGTGGGCCTT-ACCCTAATATAGAATCAGTGTGGGCCTTACCCCAAGACAG
31606019 AAATAGTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
55 2 0.04
56 40 0.87
57 4 0.09
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (56 bp):
TGTGGGCCTTACCCTAATATAGAATCAGTGTGGGCCTTACCCCAAGACAGTAACAA
Found at i:31606541 original size:80 final size:81
Alignment explanation
Indices: 31606442--31606803 Score: 443
Period size: 80 Copynumber: 4.5 Consensus size: 81
31606432 AGTATAACAT
* * * *
31606442 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
31606507 TAT-GGGATATTTCAG
66 TATAGGGATATTTCAG
* * *
31606522 TCATTTTACTCTATAGGGGTACTTT-AGTTATTTTACCTTATAGGGGTATTTC-GATCATTTTAC
1 TCATTTTACCCTATAGGGGTA-TTTCAGTCATTTTACCCTATAGGGGTATTTCAG-TCATTTTAC
*
31606585 CCTATAGGGGTATTTCAG
64 CCTATAGGGATATTTCAG
* * * *
31606603 TTATTTTATCCTAT-GGGGTATTTCAGTCATTTTACCTTAT-GAGGGTATTTCGGTCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAG-GGGTATTTCAGTCATTTTACC
**
31606666 CTATAGGGATATTTTGG
65 CTATAGGGATATTTCAG
* * *
31606683 TCATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTATAGGGGTGTTCCAGTCATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCAG-TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACC
*
31606747 CTATGAGGG-TA-TTCAA
65 CTAT-AGGGATATTTCAG
* *
31606763 TCATTTTACCCTATAGGGATATTTCAGTTATTTTACCCTAT
1 TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTAT
31606804 TTTGGGGTCT
Statistics
Matches: 244, Mismatches: 27, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
79 5 0.02
80 160 0.66
81 74 0.30
82 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCC
TATAGGGATATTTCAG
Found at i:31606580 original size:107 final size:106
Alignment explanation
Indices: 31606442--31606803 Score: 446
Period size: 107 Copynumber: 3.4 Consensus size: 106
31606432 AGTATAACAT
* * * *
31606442 TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTATAGGGATATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
*
31606507 TATGGGATATTTCAGTCATTTTACTCTATAG-GGGTACTTTAG
66 TATGGGGTATTTCAGTCATTTTAC-CTATAGAGGGTA-TTTAG
* * * * * *
31606549 TTATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCAGTTATTTTATCC
1 TCATTTTACCCTATAGGGATATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
*
31606614 TATGGGGTATTTCAGTCATTTTACCT-TATGAGGGTATTTCGG
66 TATGGGGTATTTCAGTCATTTTACCTATA-GAGGGTATTT-AG
* *
31606656 TCATTTTACCCTATAGGGATATTTTGGTCATTTTACCCTATGGGGGTATTTC-GATCATTTTACC
1 TCATTTTACCCTATAGGGATATTTCGATCATTTTACCCTATGGGGGTATTTCAG-TCATTTTACC
* * * *
31606720 CTATAGGGGTGTTCCAGTCATTTTACCCTAT-GAGGGTATTCAA
65 CTAT-GGGGTATTTCAGTCATTTTA-CCTATAGAGGGTATTTAG
*
31606763 TCATTTTACCCTATAGGGATATTTC-AGTTATTTTACCCTAT
1 TCATTTTACCCTATAGGGATATTTCGA-TCATTTTACCCTAT
31606804 TTTGGGGTCT
Statistics
Matches: 223, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
105 2 0.01
106 7 0.03
107 183 0.82
108 27 0.12
109 3 0.01
110 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (106 bp):
TCATTTTACCCTATAGGGATATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCC
TATGGGGTATTTCAGTCATTTTACCTATAGAGGGTATTTAG
Found at i:31606800 original size:27 final size:27
Alignment explanation
Indices: 31606442--31606803 Score: 434
Period size: 27 Copynumber: 13.5 Consensus size: 27
31606432 AGTATAACAT
* * *
31606442 TCATTTTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
31606469 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
31606496 TCATTTTACCCTAT-GGGATATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
31606522 TCATTTTACTCTATAGGGGTACTTT-AG
1 TCATTTTACCCTATAGGGGTA-TTTCAG
* *
31606549 TTATTTTACCTTATAGGGGTATTTC-G
1 TCATTTTACCCTATAGGGGTATTTCAG
31606575 ATCATTTTACCCTATAGGGGTATTTCAG
1 -TCATTTTACCCTATAGGGGTATTTCAG
* *
31606603 TTATTTTATCCTAT-GGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
* *
31606629 TCATTTTACCTTAT-GAGGGTATTTCGG
1 TCATTTTACCCTATAG-GGGTATTTCAG
* **
31606656 TCATTTTACCCTATAGGGATATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
31606683 TCATTTTACCCTATGGGGGTATTTC-G
1 TCATTTTACCCTATAGGGGTATTTCAG
* *
31606709 ATCATTTTACCCTATAGGGGTGTTCCAG
1 -TCATTTTACCCTATAGGGGTATTTCAG
*
31606737 TCATTTTACCCTAT-GAGGGTA-TTCAA
1 TCATTTTACCCTATAG-GGGTATTTCAG
*
31606763 TCATTTTACCCTATAGGGATATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
31606790 TTATTTTACCCTAT
1 TCATTTTACCCTAT
31606804 TTTGGGGTCT
Statistics
Matches: 292, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
26 75 0.26
27 211 0.72
28 6 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCAG
Found at i:31611748 original size:24 final size:25
Alignment explanation
Indices: 31611701--31611748 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
31611691 ACAGTATATA
*
31611701 AACATAAAAAATTAATAATCTAAAC
1 AACATAAAAAATTAACAATCTAAAC
* *
31611726 AACAT-AATAATTAACAATTTAAA
1 AACATAAAAAATTAACAATCTAAA
31611749 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (25 bp):
AACATAAAAAATTAACAATCTAAAC
Found at i:31611899 original size:14 final size:15
Alignment explanation
Indices: 31611874--31611902 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31611864 CTAAGAGAAT
31611874 AAAATTTAAAAAAAA
1 AAAATTTAAAAAAAA
31611889 AAAATTTAAAAAAA
1 AAAATTTAAAAAAA
31611903 TATTTGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATTTAAAAAAAA
Found at i:31612858 original size:3 final size:3
Alignment explanation
Indices: 31612845--31612876 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
31612835 AGATGTCACC
31612845 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
31612877 TCAATTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:31612997 original size:14 final size:14
Alignment explanation
Indices: 31612978--31613004 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31612968 CATGATAAAA
31612978 TAAAATACAAGTGG
1 TAAAATACAAGTGG
31612992 TAAAATACAAGTG
1 TAAAATACAAGTG
31613005 TTCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:31614308 original size:20 final size:22
Alignment explanation
Indices: 31614273--31614313 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31614263 CTTTATTTTA
*
31614273 TTTTATTTTATAATATGTTATT
1 TTTTATTTTATAATATATTATT
31614295 TTTTATTTT-T-ATATATTAT
1 TTTTATTTTATAATATATTAT
31614314 GTAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTTATAATATATTATT
Found at i:31614314 original size:25 final size:22
Alignment explanation
Indices: 31614273--31614320 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 22
31614263 CTTTATTTTA
*
31614273 TTTTATTTTATAATATGTTATT
1 TTTTATTTTATAATATGTAATT
31614295 TTTTATTTTTATATATTATGTAATT
1 TTTTA-TTTTATA-A-TATGTAATT
31614320 T
1 T
31614321 ATATTGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 7 0.32
24 1 0.05
25 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTATTTTATAATATGTAATT
Found at i:31615715 original size:55 final size:55
Alignment explanation
Indices: 31615656--31615766 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 55
31615646 GTGTGTTCAC
* * *
31615656 CCATGT-GAGTATTCGA-GATAGGGTCACATGGTCATGTCGCAGGCCGTGTGCCAGA
1 CCATGTAG-GTATTCGATG-TAGGGTCACACGGCCATGTCGCAGGCCATGTGCCAGA
* *
31615711 CCATGTAGGTATTCGATGTTGGGTCACACGGCCATGTCGCAGGCTATGTGCCAGA
1 CCATGTAGGTATTCGATGTAGGGTCACACGGCCATGTCGCAGGCCATGTGCCAGA
31615766 C
1 C
31615767 TTTGCTCGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 47 0.96
56 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (55 bp):
CCATGTAGGTATTCGATGTAGGGTCACACGGCCATGTCGCAGGCCATGTGCCAGA
Found at i:31624190 original size:24 final size:24
Alignment explanation
Indices: 31624163--31624241 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 24
31624153 AGTAGATAAT
31624163 AACTTATATTTACAGTAAAGATCA
1 AACTTATATTTACAGTAAAGATCA
31624187 AACTTATATTTACAGCCACTACAATAGATCA
1 AACTTATATTTACAG----T--AA-AGATCA
*
31624218 AACTTATATTTACAGTAAATATCA
1 AACTTATATTTACAGTAAAGATCA
31624242 GAGAAAGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
24 20 0.43
25 2 0.04
27 1 0.02
28 1 0.02
30 2 0.04
31 21 0.45
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (24 bp):
AACTTATATTTACAGTAAAGATCA
Found at i:31625383 original size:43 final size:43
Alignment explanation
Indices: 31625304--31625406 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
31625294 GGTGTGATTT
* * * *
31625304 CATGTAAGACCATGTCTAGGACATTGGCATCAATATGCGATTA
1 CATGTAAGACCATATCTAGGACAGTGGCATCAATATGCAATAA
* * * ** *
31625347 CGTGTAAGACCCTATCTAGGACGGTGGCATTGATATGTAATAA
1 CATGTAAGACCATATCTAGGACAGTGGCATCAATATGCAATAA
31625390 CATGTAAGACCATATCT
1 CATGTAAGACCATATCT
31625407 GGGATATGGC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCATATCTAGGACAGTGGCATCAATATGCAATAA
Found at i:31628145 original size:28 final size:28
Alignment explanation
Indices: 31628092--31628147 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
31628082 CCTGAACATG
*
31628092 CATGAATGTCCAGCCGAATTTAAGACAA
1 CATGAATGTCCAGCCGAACTTAAGACAA
*
31628120 CATGAATG-CCAGCCGAACCTTGAGACAA
1 CATGAATGTCCAGCCGAA-CTTAAGACAA
31628148 TCTCTAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.18
Consensus pattern (28 bp):
CATGAATGTCCAGCCGAACTTAAGACAA
Found at i:31628797 original size:39 final size:38
Alignment explanation
Indices: 31628742--31628840 Score: 126
Period size: 39 Copynumber: 2.6 Consensus size: 38
31628732 AAATATAATT
* * *
31628742 ATTATAATTACCATAATTATAATAATGTTTGACCAAAAA
1 ATTATAATTACAATAATTATAATAATATTCGACC-AAAA
* * **
31628781 ATTACAATTACAATAATTATAATAATATTCGATCGTAA
1 ATTATAATTACAATAATTATAATAATATTCGACCAAAA
31628819 ATTATAATTACAATAATTATAA
1 ATTATAATTACAATAATTATAA
31628841 CAAGGGTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 23 0.44
39 29 0.56
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.37
Consensus pattern (38 bp):
ATTATAATTACAATAATTATAATAATATTCGACCAAAA
Found at i:31654801 original size:35 final size:35
Alignment explanation
Indices: 31654750--31654840 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
31654740 TGTCTCGGTT
31654750 GGACTAGCTCTGATGAGCATTGGTGCGTTTCGGAA
1 GGACTAGCTCTGATGAGCATTGGTGCGTTTCGGAA
* * * *
31654785 GGACTAGCTCTTATGAGTATTGGTGTGTTTCGGAG
1 GGACTAGCTCTGATGAGCATTGGTGCGTTTCGGAA
* *
31654820 GGATTGGCTCGTG-TGAGCATT
1 GGACTAGCTC-TGATGAGCATT
31654841 TGATGTGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 46 0.98
36 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.35, T:0.33
Consensus pattern (35 bp):
GGACTAGCTCTGATGAGCATTGGTGCGTTTCGGAA
Found at i:31659149 original size:20 final size:20
Alignment explanation
Indices: 31659042--31659151 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
31659032 CATAACAGGA
* *
31659042 GCACCGAAGTGTAGACAGAG
1 GCACCGAAGTGCAAACAGAG
* * *
31659062 GCA-CAAATGTGCAAAAAGGG
1 GCACCGAA-GTGCAAACAGAG
*
31659082 GCACC-ATAGTGCGAACAG-G
1 GCACCGA-AGTGCAAACAGAG
* * * *
31659101 ACATCGAAGTGTATACAGAG
1 GCACCGAAGTGCAAACAGAG
* *
31659121 GCGCTGAAGTGCAAACAGAG
1 GCACCGAAGTGCAAACAGAG
31659141 GCACCGAAGTG
1 GCACCGAAGTG
31659152 AAAATCCCAT
Statistics
Matches: 65, Mismatches: 20, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
19 15 0.23
20 48 0.74
21 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (20 bp):
GCACCGAAGTGCAAACAGAG
Found at i:31670400 original size:35 final size:34
Alignment explanation
Indices: 31670361--31670442 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
31670351 TAATTACCCA
31670361 CAATTTAAAACATACAT-AATTGATCAAATACATAC
1 CAATTTAAAA-ATA-ATAAATTGATCAAATACATAC
* * * *
31670396 CAATTCTAAAAGTATTAAATTGATCATATCCATAC
1 CAATT-TAAAAATAATAAATTGATCAAATACATAC
31670431 CATATTTAAAAA
1 CA-ATTTAAAAA
31670443 CCAAACACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
34 1 0.03
35 30 0.77
36 8 0.21
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.32
Consensus pattern (34 bp):
CAATTTAAAAATAATAAATTGATCAAATACATAC
Found at i:31670887 original size:20 final size:20
Alignment explanation
Indices: 31670831--31670887 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
31670821 AGCAAAATGT
*
31670831 AAATAGGG-CACGTAAATAC
1 AAATAGGGACACGTAAGTAC
*
31670850 AATTAGGGGTAC-CG-AAGTAC
1 AAATA-GGG-ACACGTAAGTAC
31670870 AAATAGGGACACGTAAGT
1 AAATAGGGACACGTAAGT
31670888 GCAATCAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
18 2 0.07
19 9 0.30
20 16 0.53
21 2 0.07
22 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (20 bp):
AAATAGGGACACGTAAGTAC
Found at i:31670903 original size:40 final size:39
Alignment explanation
Indices: 31670831--31670934 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 39
31670821 AGCAAAATGT
* * * * * *
31670831 AAATAGGGCACGTAAATACAATTAGGGGTACCGAAGTAC
1 AAATAGGGCACGTAAGTGCAATCAAGGATACCGAAATAC
31670870 AAATAGGGACACGTAAGTGCAATCAAGGATACCGAAATAC
1 AAATAGGG-CACGTAAGTGCAATCAAGGATACCGAAATAC
*
31670910 AAATAGGGGCACATAAGTGCAATCA
1 AAATA-GGGCACGTAAGTGCAATCA
31670935 GGGGTACTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 8 0.14
40 45 0.80
41 3 0.05
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (39 bp):
AAATAGGGCACGTAAGTGCAATCAAGGATACCGAAATAC
Found at i:31675216 original size:17 final size:18
Alignment explanation
Indices: 31675187--31675221 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31675177 TTCTCCTAAA
*
31675187 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTGAATT
31675205 TTTCAA-TTTATTGAATT
1 TTTCAATTTTATTGAATT
31675222 GTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTCAATTTTATTGAATT
Found at i:31675873 original size:3 final size:3
Alignment explanation
Indices: 31675865--31675896 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
31675855 CGGGGATCTC
*
31675865 GAA GAA GAA GAA GAA GAA GAA GGA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
31675897 TCCCACAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31679956 original size:43 final size:45
Alignment explanation
Indices: 31679901--31680003 Score: 101
Period size: 43 Copynumber: 2.4 Consensus size: 45
31679891 TGCCTACGTT
* *
31679901 CCAGA-AGAGGTCTTACATGT-AATC-AAATATCGATGCCATTATC
1 CCAGACAGAGGTCTTACAAGTAAATCTAAA-ATCGATGCCAATATC
* * *
31679944 CCAGACAG-GGTC-TACAAGTAAATCTCAAATCGATGTCAATGTC
1 CCAGACAGAGGTCTTACAAGTAAATCTAAAATCGATGCCAATATC
*
31679987 CCAGAC-GTGGTCTTACA
1 CCAGACAGAGGTCTTACA
31680004 CAAAATCACA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
42 7 0.14
43 35 0.70
44 8 0.16
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (45 bp):
CCAGACAGAGGTCTTACAAGTAAATCTAAAATCGATGCCAATATC
Found at i:31684458 original size:12 final size:12
Alignment explanation
Indices: 31684441--31684466 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31684431 TTAACGACAC
31684441 TATAAAAATATT
1 TATAAAAATATT
31684453 TATAAAAATATT
1 TATAAAAATATT
31684465 TA
1 TA
31684467 CGGCTCGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAAAATATT
Found at i:31685325 original size:6 final size:6
Alignment explanation
Indices: 31685311--31685366 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
31685301 GATTGCAAGC
* * *
31685311 TTCCAT TTTCAT TTTCAT TTTCAT TTCCAT TTCCAT TTCCAT TTCCAT
1 TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT TTCCAT
31685359 TTCCAT TT
1 TTCCAT TT
31685367 TTTGGAAACC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (6 bp):
TTCCAT
Found at i:31686805 original size:22 final size:21
Alignment explanation
Indices: 31686780--31686820 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31686770 CACTTCACAT
31686780 TTTTTTCATCTTTTCTCTCATC
1 TTTTTTCATC-TTTCTCTCATC
*
31686802 TTTTTTCCTCTTTCTCTCA
1 TTTTTTCATCTTTCTCTCA
31686821 CGCATAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTCATCTTTCTCTCATC
Found at i:31695044 original size:50 final size:50
Alignment explanation
Indices: 31694929--31695160 Score: 232
Period size: 50 Copynumber: 4.7 Consensus size: 50
31694919 ATGCCAAATA
** * * * * *
31694929 CATGTCCCAGACATGGTCTTACATGGGATTTTTCTTGT-ACTGTCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGT
* * * ** * *
31694978 CATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCAGTGCCCATGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGT
* ** * *
31695028 CATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGT
* * * * *
31695078 CATGTCCCAGACATGGTCTTACATGGTACCTCTTATCTCGGTGCTAATAT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGT
*
31695128 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
31695161 TTACCAAAAT
Statistics
Matches: 150, Mismatches: 32, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 31 0.21
50 119 0.79
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAATGT
Found at i:31699036 original size:16 final size:17
Alignment explanation
Indices: 31699011--31699043 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31699001 TTCATCACAC
*
31699011 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
31699027 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
31699044 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:31700171 original size:28 final size:27
Alignment explanation
Indices: 31700127--31700179 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
31700117 AGGCTACTGT
* *
31700127 CTAAAAAAAAGAGAAAAAACCTAAAGC
1 CTAAAAAAAAGAAAAAAAAACTAAAGC
31700154 CTAAAAAAAGAGAAAAAAAAACTAAA
1 CTAAAAAAA-AGAAAAAAAAACTAAA
31700180 TACTAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.72, C:0.11, G:0.09, T:0.08
Consensus pattern (27 bp):
CTAAAAAAAAGAAAAAAAAACTAAAGC
Found at i:31700185 original size:28 final size:27
Alignment explanation
Indices: 31700127--31700186 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
31700117 AGGCTACTGT
* * *
31700127 CTAAAAAAAAGAGAAAAAACCTAAAGC
1 CTAAAAAAAAGAAAAAAAAACTAAAGA
*
31700154 CTAAAAAAAGAGAAAAAAAAACTAAATA
1 CTAAAAAAA-AGAAAAAAAAACTAAAGA
31700182 CTAAA
1 CTAAA
31700187 TCCAAGAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.70, C:0.12, G:0.08, T:0.10
Consensus pattern (27 bp):
CTAAAAAAAAGAAAAAAAAACTAAAGA
Found at i:31703013 original size:14 final size:14
Alignment explanation
Indices: 31702994--31703020 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31702984 AATAAGTTTC
31702994 TTCTATAAAATATT
1 TTCTATAAAATATT
31703008 TTCTATAAAATAT
1 TTCTATAAAATAT
31703021 AGCAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
TTCTATAAAATATT
Found at i:31705135 original size:14 final size:14
Alignment explanation
Indices: 31705116--31705148 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
31705106 GATTCAGTTA
31705116 CCTCTCTTTTATAT
1 CCTCTCTTTTATAT
31705130 CCTCTCTTTTATAT
1 CCTCTCTTTTATAT
*
31705144 TCTCT
1 CCTCT
31705149 TTCAAGCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (14 bp):
CCTCTCTTTTATAT
Found at i:31711872 original size:14 final size:14
Alignment explanation
Indices: 31711850--31711885 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
31711840 TTTTACCCTC
*
31711850 TCACAATATCGGTA
1 TCACGATATCGGTA
31711864 TCACGATATCGGTA
1 TCACGATATCGGTA
*
31711878 TCATGATA
1 TCACGATA
31711886 CTAAGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (14 bp):
TCACGATATCGGTA
Found at i:31721141 original size:48 final size:48
Alignment explanation
Indices: 31721065--31721159 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
31721055 TTTGCTTTTC
* *
31721065 ATTTATTACTAACTTATGAGATTTCTTGCGA-GAAATTCTATCAAGTGG
1 ATTTATTACCAACTTATGAGATTACTTGC-ATGAAATTCTATCAAGTGG
*
31721113 ATTTATTACCAACTTATGAGATTACTTGCATGAAATTCTATCTAGTG
1 ATTTATTACCAACTTATGAGATTACTTGCATGAAATTCTATCAAGTG
31721160 TTCATTTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (48 bp):
ATTTATTACCAACTTATGAGATTACTTGCATGAAATTCTATCAAGTGG
Found at i:31747646 original size:3 final size:3
Alignment explanation
Indices: 31747638--31747662 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31747628 AAAAAGTTAT
31747638 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
31747663 AAATAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Done.