Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 117 of 185
Found at i:36686921 original size:33 final size:33
Alignment explanation
Indices: 36686891--36687001 Score: 159
Period size: 33 Copynumber: 3.4 Consensus size: 33
36686881 ACCAATCCTT
* * **
36686891 CCAACACACCAATGCTTATAAAATTTAATCCAA
1 CCAACACACCAATGCTCATAAGAGCTAATCCAA
36686924 CCAACACACCAATGCTCATAAGAGCTAATCCAA
1 CCAACACACCAATGCTCATAAGAGCTAATCCAA
* * *
36686957 CCAACACATCAATGCCCATAAGAGCTAATCCAT
1 CCAACACACCAATGCTCATAAGAGCTAATCCAA
36686990 CCAACACACCAA
1 CCAACACACCAA
36687002 ACAGAGCGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.43, C:0.33, G:0.06, T:0.17
Consensus pattern (33 bp):
CCAACACACCAATGCTCATAAGAGCTAATCCAA
Found at i:36689161 original size:13 final size:13
Alignment explanation
Indices: 36689143--36689174 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36689133 ACGGCCTGGC
36689143 ACACGGGAGTGTG
1 ACACGGGAGTGTG
*
36689156 ACACGGGCGTGTG
1 ACACGGGAGTGTG
36689169 ACACGG
1 ACACGG
36689175 CCATGTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.44, T:0.12
Consensus pattern (13 bp):
ACACGGGAGTGTG
Found at i:36693097 original size:90 final size:90
Alignment explanation
Indices: 36692958--36693121 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 90
36692948 ATTGTTGGAA
* ** *
36692958 ATATAGGTGGATGCTATGTACTGATTTCACCCGATATTAATGAATATAAAGGTGGTTGCTATGTG
1 ATATAGGTGGATGCTATATACTGATTTCACCCGATACCAATGAATATAAAGGTGATTGCTATGTG
36693023 CTGATTTCATTGGATACCAATGGTT
66 CTGATTTCATTGGATACCAATGGTT
* * * * * *
36693048 ATATAGGTGGTTGCTATATGCTGATTTCACCCGGTACCATTGAGTATAAAGGTGATTGTTATGTG
1 ATATAGGTGGATGCTATATACTGATTTCACCCGATACCAATGAATATAAAGGTGATTGCTATGTG
36693113 CTGATTTCA
66 CTGATTTCA
36693122 CCGAGTACTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (90 bp):
ATATAGGTGGATGCTATATACTGATTTCACCCGATACCAATGAATATAAAGGTGATTGCTATGTG
CTGATTTCATTGGATACCAATGGTT
Found at i:36693135 original size:45 final size:45
Alignment explanation
Indices: 36692962--36693123 Score: 175
Period size: 45 Copynumber: 3.6 Consensus size: 45
36692952 TTGGAAATAT
* * * ** *
36692962 AGGTGGATGCTATGTACTGATTTCACCCGATATTAATGAATATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGGTACCAATGAGTATAA
** *
36693007 AGGTGGTTGCTATGTGCTGATTTCA-TTGGATACCAATG-GTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCCGG-TACCAATGAG-TATAA
* *
36693052 AGGTGGTTGCTATATGCTGATTTCACCCGGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGGTACCAATGAGTATAA
* *
36693097 AGGTGATTGTTATGTGCTGATTTCACC
1 AGGTGGTTGCTATGTGCTGATTTCACC
36693124 GAGTACTATT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 92 0.96
46 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACCCGGTACCAATGAGTATAA
Found at i:36702510 original size:43 final size:43
Alignment explanation
Indices: 36702417--36702511 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
36702407 CCTGAGACAT
*
36702417 GGCCGTCTGACTCAACCATGTAAGACACACGGCCTAGCAACAC
1 GGCCGTGTGACTCAACCATGTAAGACACACGGCCTAGCAACAC
* *
36702460 GGCCGTGTGACTCAACCATGTGAGACACACGGCCTGGCAACAC
1 GGCCGTGTGACTCAACCATGTAAGACACACGGCCTAGCAACAC
*
36702503 GGTCGTGTG
1 GGCCGTGTG
36702512 TCATCTGATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.16
Consensus pattern (43 bp):
GGCCGTGTGACTCAACCATGTAAGACACACGGCCTAGCAACAC
Found at i:36713980 original size:22 final size:22
Alignment explanation
Indices: 36713952--36713994 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
36713942 GATTGTTCTG
36713952 CAGTGTCCGATTTAGAGGAATA
1 CAGTGTCCGATTTAGAGGAATA
36713974 CAGTGTCCGATTTAGAGGAAT
1 CAGTGTCCGATTTAGAGGAAT
36713995 TAATCATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (22 bp):
CAGTGTCCGATTTAGAGGAATA
Found at i:36723233 original size:85 final size:85
Alignment explanation
Indices: 36723086--36723256 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
36723076 TCCAATACAA
*
36723086 AGGCGTACGACACTTACGTCCATACAAAGCTTTATAAGAAGCCATCTTCAAACTCGACTGATAAC
1 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
36723151 TATTATTATAGGCAAACTCT
66 TATTATTATAGGCAAACTCT
* *
36723171 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGGAGCCATCTTCAAACTCGATTGATAAC
1 AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
36723236 TATTATTATAGGCAAACTCT
66 TATTATTATAGGCAAACTCT
36723256 A
1 A
36723257 CCAACGACAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (85 bp):
AGGCGTACGACACTTACGTCCATACAAAGCTTCATAAGAAGCCATCTTCAAACTCGACTGATAAC
TATTATTATAGGCAAACTCT
Found at i:36728619 original size:50 final size:50
Alignment explanation
Indices: 36728524--36728714 Score: 177
Period size: 50 Copynumber: 3.7 Consensus size: 50
36728514 ACATGTCAAA
* * ** * * *
36728524 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
* *
36728574 GCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCTTCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCGGTGCCAAC
* * * *
36728624 GCCATGTCCTAGACATGGTCTTAAATGGGACCTCTCATAACCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAAC
* *
36728680 GCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36728715 TTACCCAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 72 0.63
51 1 0.01
53 2 0.02
56 38 0.33
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAAC
Found at i:36729086 original size:30 final size:30
Alignment explanation
Indices: 36729052--36729109 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36729042 CCTCGACTCT
36729052 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * * *
36729082 AACTTTTACATATTTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
36729110 AAAGCTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:36730018 original size:26 final size:26
Alignment explanation
Indices: 36729989--36730042 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
36729979 GAGGGAAGTT
36729989 AGGCATGCATGAAATTTTAAGTCTCA
1 AGGCATGCATGAAATTTTAAGTCTCA
36730015 AGGCATGCATGAAATTTTAAGTCTCA
1 AGGCATGCATGAAATTTTAAGTCTCA
36730041 AG
1 AG
36730043 AATTGGCGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (26 bp):
AGGCATGCATGAAATTTTAAGTCTCA
Found at i:36734432 original size:27 final size:27
Alignment explanation
Indices: 36734410--36734611 Score: 182
Period size: 27 Copynumber: 7.5 Consensus size: 27
36734400 TTGCCATAAG
*
36734410 GGCTTCCTTTACATGGTTAGCCACATAA
1 GGCTTCCTTTACATGGATAGCCACA-AA
*
36734438 -GCTTCCTTTACATAGATAGCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
*
36734464 GGCCTT-TTTTACATAGG-TAGCCACAAA
1 GG-CTTCCTTTACAT-GGATAGCCACAAA
36734491 GGCTTCCTTTACATGGATAGCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
** * * *
36734518 GGCTTATTTTACAAGGGTACCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
* * *
36734545 TGCTTCCTTTTA-ATAGATAGACACAAA
1 GGCTTCC-TTTACATGGATAGCCACAAA
* *
36734572 GGC-T-CTAATTACATAGATTGCCACAAA
1 GGCTTCCT--TTACATGGATAGCCACAAA
*
36734599 GTCTTCCTTTACA
1 GGCTTCCTTTACA
36734612 GAGGTTTTTC
Statistics
Matches: 141, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 11 0.08
27 117 0.83
28 9 0.06
29 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (27 bp):
GGCTTCCTTTACATGGATAGCCACAAA
Found at i:36734475 original size:54 final size:54
Alignment explanation
Indices: 36734417--36734611 Score: 204
Period size: 54 Copynumber: 3.6 Consensus size: 54
36734407 AAGGGCTTCC
36734417 TTTACATGGTTAGCCACATAA-GCTTCCTTTACATAGATAGCCACAAAGGCCTT-T
1 TTTACATGG-TAGCCACA-AAGGCTTCCTTTACATAGATAGCCACAAAGGCCTTAT
*
36734471 TTTACATAGGTAGCCACAAAGGCTTCCTTTACATGGATAGCCACAAAGG-CTTAT
1 TTTACAT-GGTAGCCACAAAGGCTTCCTTTACATAGATAGCCACAAAGGCCTTAT
* * * *
36734525 TTTACAAGGGTACCCACAAATGCTTCCTTTTA-ATAGATAGACACAAAGG-CTCTA-
1 TTTAC-ATGGTAGCCACAAAGGCTTCC-TTTACATAGATAGCCACAAAGGCCT-TAT
* * * *
36734579 ATTACATAGATTGCCACAAAGTCTTCCTTTACA
1 TTTACAT-GGTAGCCACAAAGGCTTCCTTTACA
36734612 GAGGTTTTTC
Statistics
Matches: 120, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
53 10 0.08
54 101 0.84
55 9 0.08
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (54 bp):
TTTACATGGTAGCCACAAAGGCTTCCTTTACATAGATAGCCACAAAGGCCTTAT
Found at i:36742373 original size:5 final size:5
Alignment explanation
Indices: 36742363--36742399 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
36742353 GTTTTAGAAT
*
36742363 AATAA AATAA AATAA CATAA AATAA AAT-A AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT
36742400 TCAAGAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:36742384 original size:15 final size:14
Alignment explanation
Indices: 36742363--36742399 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
36742353 GTTTTAGAAT
36742363 AATAAAATAAAATA
1 AATAAAATAAAATA
36742377 ACATAAAATAAAATA
1 A-ATAAAATAAAATA
36742392 AATAAAAT
1 AATAAAAT
36742400 TCAAGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:36748034 original size:23 final size:24
Alignment explanation
Indices: 36747988--36748035 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36747978 TAAATTAAAC
* *
36747988 TAAGTTAAATAAAACTAACAAAAT
1 TAAGTAAAATAAAACAAACAAAAT
*
36748012 TAAGTAAAATAAAA-AAACCAAAT
1 TAAGTAAAATAAAACAAACAAAAT
36748035 T
1 T
36748036 TCACCAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (24 bp):
TAAGTAAAATAAAACAAACAAAAT
Found at i:36758307 original size:21 final size:21
Alignment explanation
Indices: 36758283--36758323 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36758273 CAAAGTATTG
36758283 ATATCTTTGTAATAAGTATCA
1 ATATCTTTGTAATAAGTATCA
* * *
36758304 ATATTTTTGTATTCAGTATC
1 ATATCTTTGTAATAAGTATC
36758324 GATACCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (21 bp):
ATATCTTTGTAATAAGTATCA
Found at i:36759330 original size:163 final size:164
Alignment explanation
Indices: 36759059--36759384 Score: 485
Period size: 163 Copynumber: 2.0 Consensus size: 164
36759049 CTAATTCCAA
* * *
36759059 AAAACGAGACCTACAAGAAAAAGGAAAAACAACACGAGCAAGCTTTTACGAGTTTAGTAAGTTCA
1 AAAACGAGACCTACAAGAAAAAGGAAAAACAACAAGAGCAAGCTTTTACAAGCTTAGTAAGTTCA
* * * *
36759124 CAGGTTGAAACGTTATAACTTATCGTATAATCATATATTTATAATTAAGAAAATCAGTAGCTAAC
66 CAAGTTGAAACGTTATAACTTATCGTATAATCAAATATTTATAATTAAAAAAATCAATAGCTAAC
36759189 ATTAACCCTATCAACCACAACCATTCAACAGGTC
131 ATTAACCCTATCAACCACAACCATTCAACAGGTC
* * * *
36759223 AAAACGAGATCTACAAGAAAAAGG-AAAATAACAAGAGTAAGCTTTTACAAGCTTAGTATGTTCA
1 AAAACGAGACCTACAAGAAAAAGGAAAAACAACAAGAGCAAGCTTTTACAAGCTTAGTAAGTTCA
* *
36759287 TAAGTTGAAATGTTATAACTTATCGTATAATCAAA-ATTTTATAATTAAAAAAATCAATAGCTAA
66 CAAGTTGAAACGTTATAACTTATCGTATAATCAAATA-TTTATAATTAAAAAAATCAATAGCTAA
* * *
36759351 CATTAACCCTGTCAACCGCAACCATTCAATAGGT
130 CATTAACCCTATCAACCACAACCATTCAACAGGT
36759385 GAGTTTTGAA
Statistics
Matches: 145, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
162 1 0.01
163 121 0.83
164 23 0.16
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (164 bp):
AAAACGAGACCTACAAGAAAAAGGAAAAACAACAAGAGCAAGCTTTTACAAGCTTAGTAAGTTCA
CAAGTTGAAACGTTATAACTTATCGTATAATCAAATATTTATAATTAAAAAAATCAATAGCTAAC
ATTAACCCTATCAACCACAACCATTCAACAGGTC
Found at i:36760006 original size:12 final size:12
Alignment explanation
Indices: 36759989--36760014 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36759979 CCACACACGC
36759989 CCGTGTGCTAGG
1 CCGTGTGCTAGG
36760001 CCGTGTGCTAGG
1 CCGTGTGCTAGG
36760013 CC
1 CC
36760015 ATGTAACTCA
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:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:36760023 original size:54 final size:54
Alignment explanation
Indices: 36759905--36760028 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
36759895 GTGTCCTCAC
* *
36759905 CCATGTAGCTCACTGAGTTGCCACACACGCCCGTGTGGCAGATCGTGTGCTAGG
1 CCATGTAACTCACTGAGTTGCCACACACGCCCGTGTGGCAGACCGTGTGCTAGG
* * * * *
36759959 TCGTGGAACTCTCTGAGTTGCCACACACGCCCGTGT-GCTAGGCCGTGTGCTAGG
1 CCATGTAACTCACTGAGTTGCCACACACGCCCGTGTGGC-AGACCGTGTGCTAGG
36760013 CCATGTAACTCACTGA
1 CCATGTAACTCACTGA
36760029 CTTGAAACAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (54 bp):
CCATGTAACTCACTGAGTTGCCACACACGCCCGTGTGGCAGACCGTGTGCTAGG
Found at i:36770946 original size:16 final size:16
Alignment explanation
Indices: 36770925--36770955 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36770915 GTTATTATGA
36770925 TTGATTAAAAAACAAC
1 TTGATTAAAAAACAAC
36770941 TTGATTAAAAAACAA
1 TTGATTAAAAAACAA
36770956 GTATTTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
TTGATTAAAAAACAAC
Found at i:36771121 original size:16 final size:17
Alignment explanation
Indices: 36771085--36771119 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36771075 ATTATTTTAA
36771085 ATTTTATTAAAACATAT
1 ATTTTATTAAAACATAT
*
36771102 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAACATAT
36771120 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTATTAAAACATAT
Found at i:36771233 original size:18 final size:17
Alignment explanation
Indices: 36771205--36771239 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36771195 ATTATTAAGA
*
36771205 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36771222 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36771240 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36771395 original size:119 final size:120
Alignment explanation
Indices: 36771084--36771499 Score: 712
Period size: 120 Copynumber: 3.5 Consensus size: 120
36771074 AATTATTTTA
** *
36771084 AATTTTATTAAAACATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
36771148 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
36771204 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
36771269 ATA-TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
36771323 AA-TTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
36771387 ATAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
36771442 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
36771500 ATGATTAAAT
Statistics
Matches: 282, Mismatches: 10, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
118 63 0.22
119 102 0.36
120 109 0.39
121 8 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:36771477 original size:16 final size:16
Alignment explanation
Indices: 36771456--36771497 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36771446 TTATTAAATT
*
36771456 ATATATTTTAATTATA
1 ATATATTTTAATAATA
36771472 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
36771487 AT-TATGTTTAA
1 ATATAT-TTTAA
36771498 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:36771482 original size:15 final size:15
Alignment explanation
Indices: 36771447--36771488 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36771437 TTAAGAATTT
*
36771447 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36771461 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36771475 TATTTAATAATAAT
1 TATTTAATTATAAT
36771489 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36771691 original size:44 final size:44
Alignment explanation
Indices: 36771642--36771731 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
36771632 ACATCTATTC
*
36771642 CATTCAACTAAACACA-AGA-ATACTATTACGCCTCTATTTCATTA
1 CATTCAACT-AACA-ATAGATATACTATTACGCCTCTATTCCATTA
* * *
36771686 CATTCAACTAACAATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACTAACAATAGATATACTATTACGCCTCTATTCCATTA
36771730 CA
1 CA
36771732 CTTCTATTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 1 0.03
43 6 0.15
44 33 0.82
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (44 bp):
CATTCAACTAACAATAGATATACTATTACGCCTCTATTCCATTA
Found at i:36771737 original size:16 final size:16
Alignment explanation
Indices: 36771718--36771756 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
36771708 CTATTACGCC
36771718 TCTATTCCATTACACT
1 TCTATTCCATTACACT
*
36771734 TCTATTCCATTACGCT
1 TCTATTCCATTACACT
36771750 TCTATTC
1 TCTATTC
36771757 TAATAGAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.31, G:0.03, T:0.46
Consensus pattern (16 bp):
TCTATTCCATTACACT
Found at i:36774537 original size:19 final size:20
Alignment explanation
Indices: 36774513--36774556 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
36774503 GATTTCTGCT
36774513 TTTTCTTCTC-GTACATTTC
1 TTTTCTTCTCTGTACATTTC
* *
36774532 TTTTCTTCTCTTTACGTTTC
1 TTTTCTTCTCTGTACATTTC
36774552 TTTTC
1 TTTTC
36774557 ATTTCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.07, C:0.25, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTCTTCTCTGTACATTTC
Found at i:36777453 original size:23 final size:22
Alignment explanation
Indices: 36777413--36777456 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
36777403 AAATTATAAA
*
36777413 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
36777435 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
36777457 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:36778175 original size:22 final size:22
Alignment explanation
Indices: 36778167--36778232 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
36778157 ATATTACAAA
36778167 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
36778189 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
36778211 ATCATA---TCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
36778230 ATC
1 ATC
36778233 CTTGAAGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
19 16 0.36
22 28 0.64
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (22 bp):
ATCATATCTTCTAAGATTGCAT
Found at i:36780304 original size:26 final size:27
Alignment explanation
Indices: 36780275--36780326 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
36780265 AGTTCTTTAA
36780275 TGCTTTTGA-AAAGTAC-TGTGAAAAAG
1 TGCTTTTGAGAAA-TACTTGTGAAAAAG
*
36780301 TGCTTTTGAGAAATACTTTTGAAAAA
1 TGCTTTTGAGAAATACTTGTGAAAAA
36780327 TTTGAGTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (27 bp):
TGCTTTTGAGAAATACTTGTGAAAAAG
Found at i:36780319 original size:13 final size:13
Alignment explanation
Indices: 36780277--36780327 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
36780267 TTCTTTAATG
*
36780277 CTTTTGAAAAGTA
1 CTTTTGAAAAATA
* *
36780290 C-TGTGAAAAAGTG
1 CTTTTGAAAAA-TA
*
36780303 CTTTTGAGAAATA
1 CTTTTGAAAAATA
36780316 CTTTTGAAAAAT
1 CTTTTGAAAAAT
36780328 TTGAGTGTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 7 0.24
13 15 0.52
14 7 0.24
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAATA
Found at i:36784804 original size:16 final size:16
Alignment explanation
Indices: 36784783--36784822 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
36784773 TTGAATTACT
36784783 ATTACAGCTCTATTAA
1 ATTACAGCTCTATTAA
* **
36784799 ATTACACCTCTATTCC
1 ATTACAGCTCTATTAA
36784815 ATTACAGC
1 ATTACAGC
36784823 GAACCAAACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTAA
Found at i:36787217 original size:50 final size:50
Alignment explanation
Indices: 36787158--36787257 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
36787148 AATTACTCGG
36787158 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
1 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
36787208 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
1 TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
36787258 CTCCAAAACC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (50 bp):
TTTTAAGTGTATCTCCCCTAAATAAAGAATATTCAGTAAGCAAGCATGCC
Found at i:36788098 original size:15 final size:15
Alignment explanation
Indices: 36788078--36788126 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
36788068 TCTTTAAAAT
36788078 TTAAAAATATAGAAA
1 TTAAAAATATAGAAA
*
36788093 TTAAAAATGAT-CAAA
1 TTAAAAAT-ATAGAAA
*
36788108 -TAAAAGTATAGAAA
1 TTAAAAATATAGAAA
36788122 TTAAA
1 TTAAA
36788127 TCCATAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (15 bp):
TTAAAAATATAGAAA
Found at i:36788742 original size:19 final size:19
Alignment explanation
Indices: 36788720--36788757 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36788710 GATTTTTGGA
*
36788720 AAATGATTTATTTTTCTGG
1 AAATGATTTACTTTTCTGG
36788739 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
36788758 TGTTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:36793364 original size:17 final size:18
Alignment explanation
Indices: 36793337--36793370 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36793327 GGATGGATGC
36793337 AAATACAATGGATGATTA
1 AAATACAATGGATGATTA
*
36793355 AAAT-CAATGGTTGATT
1 AAATACAATGGATGATT
36793371 CAGAGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (18 bp):
AAATACAATGGATGATTA
Found at i:36797464 original size:49 final size:49
Alignment explanation
Indices: 36797392--36797495 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
36797382 AGAAAAAAAC
* * *
36797392 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
36797441 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
36797490 AAATTA
1 AAATTA
36797496 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:36799550 original size:45 final size:45
Alignment explanation
Indices: 36799499--36799738 Score: 239
Period size: 45 Copynumber: 5.6 Consensus size: 45
36799489 TTTGTAATGT
* *
36799499 TAATTATAATTGTTGTAGCATTTCATTAGTTTTTAGTGTTAATTA
1 TAATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
36799544 TAATTATAA-TGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
1 TAATTATAATTG-TTGTAGCATTTGATTAATTTTTAGTGTTAATTA
* *
36799589 TAAGTT-T--TAGTTTTA--A-TT-A-TAATTTTTAGTGTTAAATT-
1 TAA-TTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTT-AATTA
*
36799627 TAATTATAATTGTTGTAGCACTTGATTAATTTTTAGTGTTAATTA
1 TAATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
* *
36799672 TAAATT-TTAGTG-T-TA--A-TT-A-TAATTTTTAGTGTTAATTA
1 T-AATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
36799710 TAATTATAA-TGTTTGTAGCATTTGATTAA
1 TAATTATAATTG-TTGTAGCATTTGATTAA
36799739 AAAACTTTTT
Statistics
Matches: 163, Mismatches: 9, Indels: 46
0.75 0.04 0.21
Matches are distributed among these distances:
37 8 0.05
38 40 0.25
39 7 0.04
40 12 0.07
41 2 0.01
42 2 0.01
43 10 0.06
44 10 0.06
45 66 0.40
46 6 0.04
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (45 bp):
TAATTATAATTGTTGTAGCATTTGATTAATTTTTAGTGTTAATTA
Found at i:36799598 original size:19 final size:19
Alignment explanation
Indices: 36799468--36799714 Score: 160
Period size: 19 Copynumber: 12.1 Consensus size: 19
36799458 TTACTTTCTT
*
36799468 TTTTTAGTGATAATTATAA
1 TTTTTAGTGTTAATTATAA
*
36799487 TTTTTGTAATGTTAATTATAA
1 -TTTT-TAGTGTTAATTATAA
* *
36799508 TTGTTGTAGCAT-TTCA-T-TAG
1 TT-TT-TAG--TGTTAATTATAA
36799528 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
* * *
36799547 TTATAATGTTTGTAGCATTTGATTAA
1 TTTTTA-GTGT-TA--A-TT-A-TAA
36799573 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
* *
36799592 GTTTTAGTTTTAATTATAA
1 TTTTTAGTGTTAATTATAA
36799611 TTTTTAGTGTTAAATT-TAA
1 TTTTTAGTGTT-AATTATAA
* * *
36799630 TTATAATTGTTGTAGCACTTGATTAA
1 TTTTTAGTG-T-TA--A-TT-A-TAA
36799656 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
*
36799675 ATTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
36799694 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
36799713 TT
1 TT
36799715 ATAATGTTTG
Statistics
Matches: 179, Mismatches: 25, Indels: 47
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.01
17 3 0.02
18 4 0.02
19 87 0.49
20 21 0.12
21 26 0.15
22 6 0.03
23 4 0.02
24 6 0.03
25 5 0.03
26 16 0.09
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
TTTTTAGTGTTAATTATAA
Found at i:36799611 original size:25 final size:25
Alignment explanation
Indices: 36799583--36799637 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
36799573 TTTTTAGTGT
* **
36799583 TAATTATAAGTTTTAGTTTTAATTA
1 TAATTATAAGTGTTAAATTTAATTA
* *
36799608 TAATTTTTAGTGTTAAATTTAATTA
1 TAATTATAAGTGTTAAATTTAATTA
36799633 TAATT
1 TAATT
36799638 GTTGTAGCAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (25 bp):
TAATTATAAGTGTTAAATTTAATTA
Found at i:36799631 original size:83 final size:83
Alignment explanation
Indices: 36799528--36799738 Score: 363
Period size: 83 Copynumber: 2.5 Consensus size: 83
36799518 ATTTCATTAG
*
36799528 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTATAAG
1 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTATAAA
*
36799593 TTTTAGTTTTAATTATAA
66 TTTTAGTGTTAATTATAA
*
36799611 TTTTTAGTGTTAAATT-TAATTATAAT-TGTTGTAGCACTTGATTAATTTTTAGTGTTAATTATA
1 TTTTTAGTGTT-AATTATAATTATAATGT-TTGTAGCATTTGATTAATTTTTAGTGTTAATTATA
36799674 AATTTTAGTGTTAATTATAA
64 AATTTTAGTGTTAATTATAA
36799694 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAA
36799739 AAAACTTTTT
Statistics
Matches: 120, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
82 5 0.04
83 110 0.92
84 5 0.04
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (83 bp):
TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAATTTTTAGTGTTAATTATAAA
TTTTAGTGTTAATTATAA
Found at i:36799846 original size:48 final size:48
Alignment explanation
Indices: 36799792--36799883 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
36799782 TAGTGTTAAT
* *
36799792 TATAATTTTTTATC-AAACAATATAAGTAATATAAAAACATTGTTCAAA
1 TATAATTTTTAATCAAAAAAATATAAGTAATAT-AAAACATTGTTCAAA
*
36799840 TATAATTTTTAATCAAAAAAATTTAAGTAATATAAAACATTGTT
1 TATAATTTTTAATCAAAAAAATATAAGTAATATAAAACATTGTT
36799884 TGAAGACCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 24 0.60
49 16 0.40
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (48 bp):
TATAATTTTTAATCAAAAAAATATAAGTAATATAAAACATTGTTCAAA
Found at i:36800289 original size:10 final size:10
Alignment explanation
Indices: 36800274--36800322 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
36800264 GATACCATCA
36800274 AGAAACATAC
1 AGAAACATAC
36800284 AGAAACATAC
1 AGAAACATAC
36800294 --AAA-AT--
1 AGAAACATAC
36800299 AGAAACATAC
1 AGAAACATAC
*
36800309 AGAGACATAC
1 AGAAACATAC
36800319 AGAA
1 AGAA
36800323 TATAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
7 5 0.16
8 5 0.16
10 22 0.69
ACGTcount: A:0.61, C:0.16, G:0.12, T:0.10
Consensus pattern (10 bp):
AGAAACATAC
Found at i:36800293 original size:25 final size:26
Alignment explanation
Indices: 36800274--36800339 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
36800264 GATACCATCA
36800274 AGAAACATACAGAAACATA-CAAAAT
1 AGAAACATACAGAAACATACCAAAAT
* *
36800299 AGAAACATACAGAGACATA-CAGAAT
1 AGAAACATACAGAAACATACCAAAAT
* *
36800324 ATAAACATACGGAAAC
1 AGAAACATACAGAAAC
36800340 GTAAATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (26 bp):
AGAAACATACAGAAACATACCAAAAT
Found at i:36800367 original size:15 final size:15
Alignment explanation
Indices: 36800347--36800379 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
36800337 AACGTAAATT
36800347 GAATATAAACATACA
1 GAATATAAACATACA
36800362 GAATATAAACATACA
1 GAATATAAACATACA
36800377 GAA
1 GAA
36800380 ACTATTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.09, T:0.18
Consensus pattern (15 bp):
GAATATAAACATACA
Found at i:36801992 original size:12 final size:12
Alignment explanation
Indices: 36801975--36802027 Score: 74
Period size: 12 Copynumber: 4.5 Consensus size: 12
36801965 CAAAATAATT
36801975 ACAAAGATGCAA
1 ACAAAGATGCAA
36801987 ACAAAGATGCAA
1 ACAAAGATGCAA
*
36801999 ACAAACCAT-C-A
1 ACAAA-GATGCAA
36802010 ACAAAGATGCAA
1 ACAAAGATGCAA
36802022 ACAAAG
1 ACAAAG
36802028 CTGATGTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
10 2 0.06
11 7 0.19
12 25 0.69
13 2 0.06
ACGTcount: A:0.58, C:0.21, G:0.13, T:0.08
Consensus pattern (12 bp):
ACAAAGATGCAA
Found at i:36804707 original size:7 final size:7
Alignment explanation
Indices: 36804695--36804728 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
36804685 TCCTAAATTC
36804695 TCAATCT
1 TCAATCT
36804702 TCAATCT
1 TCAATCT
36804709 TCAATCT
1 TCAATCT
*
36804716 TCAATAT
1 TCAATCT
36804723 TCAATC
1 TCAATC
36804729 CCCAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (7 bp):
TCAATCT
Found at i:36804734 original size:21 final size:20
Alignment explanation
Indices: 36804690--36804739 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36804680 TTTTTTCCTA
* **
36804690 AATTCTCAATCTTCAATCTTC
1 AATT-TCAATATTCAATCCCC
36804711 AATCTTCAATATTCAATCCCC
1 AAT-TTCAATATTCAATCCCC
36804732 AATTTCAA
1 AATTTCAA
36804740 ATTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTCAATATTCAATCCCC
Found at i:36804766 original size:21 final size:20
Alignment explanation
Indices: 36804731--36804785 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
36804721 ATTCAATCCC
*
36804731 CAATTTCAAATTTTATATTTT
1 CAATTTCAAA-TTTAAATTTT
36804752 CAATCTTCAAATTTAAATTTT
1 CAAT-TTCAAATTTAAATTTT
*
36804773 CAATTTCGAATTT
1 CAATTTCAAATTT
36804786 TTAATCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 8 0.26
21 17 0.55
22 6 0.19
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.51
Consensus pattern (20 bp):
CAATTTCAAATTTAAATTTT
Found at i:36804847 original size:15 final size:15
Alignment explanation
Indices: 36804829--36804858 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36804819 ATTTTTTTGA
36804829 ATTTTATTCTCTTCG
1 ATTTTATTCTCTTCG
*
36804844 ATTTTATTCTTTTCG
1 ATTTTATTCTCTTCG
36804859 TATAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTTATTCTCTTCG
Found at i:36809654 original size:41 final size:41
Alignment explanation
Indices: 36809594--36809701 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
36809584 AATTATACCT
**
36809594 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
*
36809635 TGAATTGCACATACATGCCCCTGTTTGTACTTCCGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
*
36809676 TGAATAGCACATACGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCCTGTTT
36809702 ACACTCTGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
Found at i:36809657 original size:21 final size:21
Alignment explanation
Indices: 36809594--36809698 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
36809584 AATTATACCT
36809594 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
* * * ** *
36809615 TG-TTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCC
*
36809635 TGAATTGCACATACATGCCCC
1 TGAATTGCACATACGTGCCCC
* * * * *
36809656 TG-TTTGTACTTCCGTACCCC
1 TGAATTGCACATACGTGCCCC
*
36809676 TGAATAGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
36809697 TG
1 TG
36809699 TTTACACTCT
Statistics
Matches: 57, Mismatches: 25, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
20 28 0.49
21 29 0.51
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACGTGCCCC
Found at i:36809677 original size:20 final size:20
Alignment explanation
Indices: 36809605--36809677 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
36809595 GAATTGCACA
*
36809605 TACGTGCCCCTGTTTGTACT
1 TACGTACCCCTGTTTGTACT
** * * *
36809625 TTGGTACCCCTGAATTGCACA
1 TACGTACCCCTG-TTTGTACT
* *
36809646 TACATGCCCCTGTTTGTACT
1 TACGTACCCCTGTTTGTACT
*
36809666 TCCGTACCCCTG
1 TACGTACCCCTG
36809678 AATAGCACAT
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (20 bp):
TACGTACCCCTGTTTGTACT
Found at i:36813857 original size:29 final size:29
Alignment explanation
Indices: 36813791--36813848 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
36813781 GACTAATATA
* *
36813791 GAAACCTTTGAATAGTTTGGTGATTAATT
1 GAAAACTTTGAATAGTTTAGTGATTAATT
36813820 GAAAACTTTCGAATAGTTTAGTGA-TAATT
1 GAAAACTTT-GAATAGTTTAGTGATTAATT
36813849 TGTAACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (29 bp):
GAAAACTTTGAATAGTTTAGTGATTAATT
Found at i:36818669 original size:24 final size:26
Alignment explanation
Indices: 36818642--36818691 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36818632 CTTGATATAT
36818642 GTATAT-ATG-TATAT-GTATGTTTGA
1 GTATATAATGATATATAGTA-GTTTGA
36818666 GTATATAATGATATATAGTAGTTTGA
1 GTATATAATGATATATAGTAGTTTGA
36818692 CACATATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.26
25 3 0.13
26 11 0.48
27 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (26 bp):
GTATATAATGATATATAGTAGTTTGA
Found at i:36820313 original size:25 final size:25
Alignment explanation
Indices: 36820285--36820542 Score: 90
Period size: 25 Copynumber: 10.4 Consensus size: 25
36820275 ATCTGGGAAA
*
36820285 CCTTTGTGGCTAATCTTCTGAAAAT
1 CCTTTGTGGCTAATCTTCTGAAAAG
* *
36820310 CCTTTGTGGCTAATATTGTGAAAAG
1 CCTTTGTGGCTAATCTTCTGAAAAG
* *
36820335 CCCTTGTTGTG-T-AT-TATCT-AGGAA-
1 CCTTTG-TG-GCTAATCT-TCTGA-AAAG
* * *
36820359 CCATTGTGGCTAATCTTGTGAAAAA
1 CCTTTGTGGCTAATCTTCTGAAAAG
** * * **
36820384 CCTTTGTCACATATTATT-TGGGAAG
1 CCTTTGTGGC-TAATCTTCTGAAAAG
* * *
36820409 CCTTTGTAGCTAATTTTTTGAAAAG
1 CCTTTGTGGCTAATCTTCTGAAAAG
* * * *
36820434 CATTTGT-GCCATAT-TATCTGATAAT
1 CCTTTGTGGCTA-ATCT-TCTGAAAAG
* *
36820459 CCTTTGTGACTAATCTTGTGAAAAG
1 CCTTTGTGGCTAATCTTCTGAAAAG
* *
36820484 CCCTTGTGGC-ATAT-TATCTAGGAAA-
1 CCTTTGTGGCTA-ATCT-TCT-GAAAAG
* *
36820509 CCTTTGTGGCTAATCTT-TTAAGAAT
1 CCTTTGTGGCTAATCTTCTGAA-AAG
36820534 CCTTTGTGG
1 CCTTTGTGG
36820543 AGAAGTATAA
Statistics
Matches: 170, Mismatches: 41, Indels: 44
0.67 0.16 0.17
Matches are distributed among these distances:
22 1 0.01
23 4 0.02
24 27 0.16
25 120 0.71
26 17 0.10
27 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (25 bp):
CCTTTGTGGCTAATCTTCTGAAAAG
Found at i:36820410 original size:74 final size:75
Alignment explanation
Indices: 36820274--36820525 Score: 192
Period size: 74 Copynumber: 3.4 Consensus size: 75
36820264 AACATGACAC
* * * **
36820274 TATCTGGGAAACCTTTGTGGCTAATCTTCTGAAAATCCTTTGTGGCTAATATTGTGAAAAGCCCT
1 TATCTAGGAAACCATTGTGGCTAATCTTCTGAAAAACCTTTGTCACTAATATTGTGAAAAGCCCT
36820339 TGTTGTGTAT
66 TGTTGTGTAT
* * ** *
36820349 TATCTAGG-AACCATTGTGGCTAATCTTGTGAAAAACCTTTGTCACATATTATT-TGGGAAGCCT
1 TATCTAGGAAACCATTGTGGCTAATCTTCTGAAAAACCTTTGTCAC-TAATATTGTGAAAAGCCC
* *
36820412 TTGTAGCT-AAT
65 TTGTTG-TGTAT
* * * * * * * * *
36820423 T-TTTTGAAAAGCATT-TGTGCCATAT-TATCTGATAATCCTTTGTGACTAATCTTGTGAAAAGC
1 TATCTAGGAAACCATTGTG-GCTA-ATCT-TCTGAAAAACCTTTGTCACTAATATTGTGAAAAGC
* **
36820485 CCTTGTGGCATAT
63 CCTTGTTGTGTAT
*
36820498 TATCTAGGAAACCTTTGTGGCTAATCTT
1 TATCTAGGAAACCATTGTGGCTAATCTT
36820526 TTAAGAATCC
Statistics
Matches: 131, Mismatches: 35, Indels: 22
0.70 0.19 0.12
Matches are distributed among these distances:
73 5 0.04
74 62 0.47
75 49 0.37
76 13 0.10
77 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (75 bp):
TATCTAGGAAACCATTGTGGCTAATCTTCTGAAAAACCTTTGTCACTAATATTGTGAAAAGCCCT
TGTTGTGTAT
Found at i:36820541 original size:50 final size:50
Alignment explanation
Indices: 36820310--36820542 Score: 222
Period size: 50 Copynumber: 4.7 Consensus size: 50
36820300 TTCTGAAAAT
* * * **
36820310 CCTTTGTGGCTAATATTGTGAAAAGCCCTTGTTGTGTATTATCTAGG-AA
1 CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
* * ** * * *
36820359 CCATTGTGGCTAATCTTGTGAAAAACCTTTGTCACATATTATTTGGGAAG
1 CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
* * * * *
36820409 CCTTTGTAGCTAATTTTTTGAAAAGCATTTGTGCCATATTATCT--GATAA
1 CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGA-AA
* *
36820458 TCCTTTGTGACTAATCTTGTGAAAAGCCCTTGTGGCATATTATCTAGGAAA
1 -CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
* *
36820509 CCTTTGTGGCTAATCTT-TTAAGAATCCTTTGTGG
1 CCTTTGTGGCTAATCTTGTGAA-AAGCCTTTGTGG
36820543 AGAAGTATAA
Statistics
Matches: 146, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
48 2 0.01
49 41 0.28
50 99 0.68
51 2 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (50 bp):
CCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCATATTATCTAGGAAA
Found at i:36825925 original size:25 final size:25
Alignment explanation
Indices: 36825895--36826044 Score: 94
Period size: 25 Copynumber: 5.9 Consensus size: 25
36825885 CTTGGAAGTT
36825895 TTTGTGGCTAATCTTGTGAAAAGCC
1 TTTGTGGCTAATCTTGTGAAAAGCC
*
36825920 TTTGTGGCGT-AT-TATCT-AAGAAGCC
1 TTTGTGGC-TAATCT-TGTGAA-AAGCC
* * *
36825945 TGTATGGCTAATCTTGTGAAAAACAC
1 TTTGTGGCTAATCTTGTGAAAAGC-C
* *
36825971 -TTGTGGTGTATTATCTTGTGAAAAGAC
1 TTTGTGG-CTA--ATCTTGTGAAAAGCC
* * **
36825998 TTTGTGGCGTATTATT-TGGGAAGCC
1 TTTGTGGC-TAATCTTGTGAAAAGCC
*
36826023 TTTGTGGCTACTCTTGTGAAAA
1 TTTGTGGCTAATCTTGTGAAAA
36826045 TCTCTAGTGG
Statistics
Matches: 92, Mismatches: 20, Indels: 26
0.67 0.14 0.19
Matches are distributed among these distances:
24 9 0.10
25 52 0.57
26 10 0.11
27 1 0.01
28 20 0.22
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (25 bp):
TTTGTGGCTAATCTTGTGAAAAGCC
Found at i:36826002 original size:28 final size:28
Alignment explanation
Indices: 36825955--36826012 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
36825945 TGTATGGCTA
*
36825955 ATCTTGTGAAAAACACTTGTGGTGTATT
1 ATCTTGTGAAAAACACTTGTGGCGTATT
*
36825983 ATCTTGTGAAAAGAC-TTTGTGGCGTATT
1 ATCTTGTGAAAA-ACACTTGTGGCGTATT
36826011 AT
1 AT
36826013 TTGGGAAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (28 bp):
ATCTTGTGAAAAACACTTGTGGCGTATT
Found at i:36826038 original size:78 final size:78
Alignment explanation
Indices: 36825905--36826069 Score: 224
Period size: 78 Copynumber: 2.1 Consensus size: 78
36825895 TTTGTGGCTA
*
36825905 ATCTTGTGAAAAGCCTTTGTGGCGTATTATCTAAGAAGCCTGTATGGCTAATCTTGTGAAAAACA
1 ATCTTGTGAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTATGGCTAATCTTGTGAAAAACA
* *
36825970 CTTGTGGTGTATT
66 CTAGTGGCGTATT
* ** * * * * *
36825983 ATCTTGTGAAAAGACTTTGTGGCGTATTATTTGGGAAGCCTTTGTGGCTACTCTTGTGAAAATCT
1 ATCTTGTGAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTATGGCTAATCTTGTGAAAAACA
36826048 CTAGTGGCGTATT
66 CTAGTGGCGTATT
36826061 ATC-TGTGAA
1 ATCTTGTGAA
36826070 GCCTTTGTCG
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 6 0.08
78 70 0.92
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (78 bp):
ATCTTGTGAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTATGGCTAATCTTGTGAAAAACA
CTAGTGGCGTATT
Found at i:36831354 original size:11 final size:12
Alignment explanation
Indices: 36831338--36831370 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
36831328 ACTTCACAGA
36831338 AAAATTTCG-TG
1 AAAATTTCGTTG
36831349 AAAATTTCGTTTG
1 AAAATTTCG-TTG
36831362 AAAATTTCG
1 AAAATTTCG
36831371 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
13 11 0.55
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (12 bp):
AAAATTTCGTTG
Found at i:36832745 original size:102 final size:100
Alignment explanation
Indices: 36832569--36832912 Score: 413
Period size: 102 Copynumber: 3.4 Consensus size: 100
36832559 TATCAATGAA
* *
36832569 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* * *
36832634 TAAGTGAAGGCAACAATGTGTACCGAGAAGCTTCGGT
66 TAAGTGAAGGCTACTATATGTACCGA-AAGCTT-GGT
*
36832671 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* * *
36832736 TAAGTGAAGGCTACTGTCTGTACCGAAAAGTTTTGGT
66 TAAGTGAAGGCTACTATATGTACCG-AAAG-CTTGGT
** * * * *
36832773 CACGTGTGTAGTACTATGTGAAGGCTACTATATGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * * *
36832836 CTATGTGAAGGCTACTACATGAACCGTAAAACTTGAT
65 CTAAGTGAAGGCTACTATATGTACCG-AAAGCTTGGT
* * *
36832873 CACGTGTGTACTACTACGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
36832913 ATGATAAAAG
Statistics
Matches: 208, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
100 37 0.18
101 43 0.21
102 125 0.60
103 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATATGTACCGAAAGCTTGGT
Found at i:36832839 original size:50 final size:50
Alignment explanation
Indices: 36832569--36832906 Score: 333
Period size: 51 Copynumber: 6.7 Consensus size: 50
36832559 TATCAATGAA
* * * *
36832569 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGT
* * * * * * *
36832620 CACATGTGTAGTACTAAGTGAAGGCAACAATGTGTACCG-AGAAGCTTCGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAACTT-GGT
* ***
36832671 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * *
36832722 CACATGTGTAGTACTAAGTGAAGGCTACTGTC-TGTACCG-AAAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAACCGTAAAA--CTTGGT
** *
36832773 CACGTGTGTAGTACTATGTGAAGGCTACTATATGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
36832823 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
36832873 CACGTGTGTACTACTACGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
36832907 TATCGAATGA
Statistics
Matches: 239, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
49 4 0.02
50 87 0.36
51 139 0.58
52 8 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:36840524 original size:50 final size:50
Alignment explanation
Indices: 36840351--36840584 Score: 290
Period size: 50 Copynumber: 4.6 Consensus size: 50
36840341 TATCGATGAA
* * * *** *
36840351 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* * * * *
36840402 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
* *
36840453 CACGTGTGTAGTGCTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
36840503 CACTTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
*
36840553 CACGTGTGTACTACTATGTGAAGGCTACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
36840585 CGTATCGAAT
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
49 3 0.02
50 81 0.51
51 72 0.45
52 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:36850643 original size:14 final size:14
Alignment explanation
Indices: 36850624--36850654 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36850614 ATGAAGAAAG
36850624 ATGTAATGGTTACT
1 ATGTAATGGTTACT
*
36850638 ATGTAATGGTTATT
1 ATGTAATGGTTACT
36850652 ATG
1 ATG
36850655 AGATACAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (14 bp):
ATGTAATGGTTACT
Found at i:36851060 original size:4 final size:4
Alignment explanation
Indices: 36851051--36851080 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
36851041 ATGACTTGGA
36851051 AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
36851081 AGTTTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:36851228 original size:17 final size:16
Alignment explanation
Indices: 36851206--36851250 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
36851196 TGAAATTGGG
*
36851206 TTGAGAAAATTATTTAA
1 TTGAG-AAATTAATTAA
36851223 TTGAGAAATTAATTAA
1 TTGAGAAATTAATTAA
36851239 TT-A-AAATTAATT
1 TTGAGAAATTAATT
36851251 TATGATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 12 0.44
17 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TTGAGAAATTAATTAA
Found at i:36855331 original size:13 final size:14
Alignment explanation
Indices: 36855309--36855341 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36855299 TCCACTAAAC
*
36855309 AAGTTTAGTT-ATT
1 AAGTTAAGTTAATT
36855322 AAGTTAAGTTAATT
1 AAGTTAAGTTAATT
36855336 AAGTTA
1 AAGTTA
36855342 TGTTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (14 bp):
AAGTTAAGTTAATT
Found at i:36868832 original size:29 final size:32
Alignment explanation
Indices: 36868779--36868851 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
36868769 TACGCTGCCA
* *
36868779 TCGTGTCACTGTCGTGCTACCACTG-C-ATCG
1 TCGTGTCACCGTCGTACTACCACTGCCTATCG
*
36868809 TCGTGTCACCGTCG-ACTACCACTGCCCTGTCG
1 TCGTGTCACCGTCGTACTACCACTG-CCTATCG
36868841 TCGTGTCACCG
1 TCGTGTCACCG
36868852 CCATGCTGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 9 0.24
30 13 0.35
31 1 0.03
32 14 0.38
ACGTcount: A:0.12, C:0.37, G:0.23, T:0.27
Consensus pattern (32 bp):
TCGTGTCACCGTCGTACTACCACTGCCTATCG
Found at i:36869684 original size:20 final size:20
Alignment explanation
Indices: 36869659--36869722 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
36869649 TTGTTCGCAT
*
36869659 AATTCTAGTAGTTTATCTGC
1 AATTCTGGTAGTTTATCTGC
* ***
36869679 AATTCTGGTGGTTTATAAAC
1 AATTCTGGTAGTTTATCTGC
36869699 ATATTTCTGGTAGTTTATCTGC
1 A-A-TTCTGGTAGTTTATCTGC
36869721 AA
1 AA
36869723 ATATTTGTGG
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
22 15 0.45
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (20 bp):
AATTCTGGTAGTTTATCTGC
Found at i:36878845 original size:11 final size:11
Alignment explanation
Indices: 36878829--36878860 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
36878819 ACTTGATTCT
36878829 TTCTTATTTCA
1 TTCTTATTTCA
36878840 TTCTTATTTCA
1 TTCTTATTTCA
36878851 TTCTCTATTT
1 TTCT-TATTT
36878861 TTTGTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.66
Consensus pattern (11 bp):
TTCTTATTTCA
Found at i:36886460 original size:137 final size:138
Alignment explanation
Indices: 36886236--36886551 Score: 483
Period size: 137 Copynumber: 2.3 Consensus size: 138
36886226 ATTTTTATAA
*
36886236 ATACAATTAATA-TTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAACGAATATTA
1 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAAAGAATATTA
*
36886300 ATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAG
66 ATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
36886365 TAAAATAT
131 TAAAATAT
* *** * * *
36886373 ATACAATTAACATTTTTTATGAATTGGA-TCATATATTAATTATATTCTTTCCAAAAGAATATTA
1 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAAAGAATATTA
* *
36886437 ATTTCTATGTCTTTTATATTTTGACCGAAATTATTTAATATAACTGCTTATATTAATAAATTCAG
66 ATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
36886502 TAAAATAT
131 TAAAATAT
* * * *
36886510 ATACAATTAATATTTTGTATGACTCAAAATCATATATTAATT
1 ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATT
36886552 TTATCTATGT
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 135 0.84
138 25 0.16
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (138 bp):
ATACAATTAATATTTTTTATGAATCAAATTCACATATTAATTACATTCTTCCCAAAAGAATATTA
ATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
TAAAATAT
Found at i:36886637 original size:17 final size:17
Alignment explanation
Indices: 36886617--36886649 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36886607 TTTAACTATC
36886617 AAATTAAATT-AATTCAA
1 AAATT-AATTCAATTCAA
36886634 AAATTAATTCAATTCA
1 AAATTAATTCAATTCA
36886650 TGTGACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAATTCAATTCAA
Found at i:36888801 original size:19 final size:19
Alignment explanation
Indices: 36888777--36888820 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
36888767 GCCATGTGGG
*
36888777 CCACACGGGCGTGTGGACC
1 CCACACGGGCGTATGGACC
*
36888796 CCACACGGGTGTATGGACC
1 CCACACGGGCGTATGGACC
36888815 CCACAC
1 CCACAC
36888821 AGGTGAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.30, T:0.11
Consensus pattern (19 bp):
CCACACGGGCGTATGGACC
Found at i:36888807 original size:17 final size:18
Alignment explanation
Indices: 36888777--36888826 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
36888767 GCCATGTGGG
36888777 CCACACGGGCGTG-TGGACC
1 CCACAC-GG-GTGATGGACC
36888796 CCACACGGGTGTATGGACC
1 CCACACGGGTG-ATGGACC
*
36888815 CCACACAGGTGA
1 CCACACGGGTGA
36888827 ACCACATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.11
18 3 0.11
19 22 0.79
ACGTcount: A:0.22, C:0.34, G:0.32, T:0.12
Consensus pattern (18 bp):
CCACACGGGTGATGGACC
Found at i:36892939 original size:137 final size:139
Alignment explanation
Indices: 36892779--36893054 Score: 425
Period size: 137 Copynumber: 2.0 Consensus size: 139
36892769 TGAATACAAC
*
36892779 AATATTTTGTATGAATCAAATTCATATACTAATTATACTC-TTCTCAAAAGAATATTAATTTCCA
1 AATATTTTGTATGAATCAAATTCATACACTAATTATACTCTTTC-CAAAAGAATATTAATTTCCA
*
36892843 TG-TCTTTTATATTTTGAA-CGAAATT-ATTAATATAACTGTTTATATTAATAAATTTAGTAAAA
65 TGTTCTTTTATATTTT-AACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAA
36892905 TATATACAATT
129 TATATACAATT
* *
36892916 AATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCCAAAAGAATATTAATTTCCAT
1 AATATTTTGTATGAATCAAATTCATACACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
* ** * *
36892981 GTTTTTTTATATTTTAACCGAAATTAATTGCTATAATTGTTTATATTAATAAATTCGGTAAAATA
66 GTTCTTTTATATTTTAACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATA
36893046 TATACAATT
131 TATACAATT
36893055 TTTATTAATA
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
137 61 0.48
138 22 0.17
139 43 0.34
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (139 bp):
AATATTTTGTATGAATCAAATTCATACACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
GTTCTTTTATATTTTAACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATA
TATACAATT
Found at i:36893712 original size:22 final size:24
Alignment explanation
Indices: 36893660--36893713 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
36893650 TTTTTTATGA
36893660 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
36893685 TGAAATTATT-TTATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
36893707 TTAAATT
1 TTAAATT
36893714 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 5 0.19
25 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:36896214 original size:18 final size:18
Alignment explanation
Indices: 36896173--36896214 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
36896163 AAGAGTTGAG
36896173 AGTTAGTGGATTAGTGGA
1 AGTTAGTGGATTAGTGGA
*
36896191 ATTTAGTGGA-TAGTAGGA
1 AGTTAGTGGATTAGT-GGA
*
36896209 GGTTAG
1 AGTTAG
36896215 GATAGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (18 bp):
AGTTAGTGGATTAGTGGA
Found at i:36908250 original size:17 final size:17
Alignment explanation
Indices: 36908230--36908262 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36908220 TTTAACTATC
36908230 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
36908247 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
36908263 TGTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:36909499 original size:50 final size:49
Alignment explanation
Indices: 36909441--36909535 Score: 118
Period size: 50 Copynumber: 1.9 Consensus size: 49
36909431 AAAACCGTAG
* *
36909441 CTAGGGGCTATGACATCATATGGAAAGACCAGATCATGTAAGACCCTAC
1 CTAGGGGCTATGACATCATATGGAAACACCAGATCATATAAGACCCTAC
* * * * *
36909490 CTAGTGGGCTATGGCGTTATATGGAAACACCATATCGTATAAGACC
1 CTAG-GGGCTATGACATCATATGGAAACACCAGATCATATAAGACC
36909536 ATAATTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 4 0.11
50 34 0.89
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (49 bp):
CTAGGGGCTATGACATCATATGGAAACACCAGATCATATAAGACCCTAC
Found at i:36909769 original size:58 final size:56
Alignment explanation
Indices: 36909702--36909816 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 56
36909692 GCTGAATCTA
* * *
36909702 TGAAGGAAAGCCTTCGTGGCGA-GTACTGAAAGAAGAGGATGCCTTTGTGGCAAACATC
1 TGAAGGAAAGCCTTCGTGGCAAGGT-CTGAAAGAAAAGAATGCCTTTGTGG-AAA-ATC
36909760 TGAAGGAAAGCCTTCGTGGCAAGGTCTGAAAGAAAAGAATGCCTTTGTGGAAAATC
1 TGAAGGAAAGCCTTCGTGGCAAGGTCTGAAAGAAAAGAATGCCTTTGTGGAAAATC
36909816 T
1 T
36909817 CTAAAAGGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 4 0.08
57 3 0.06
58 44 0.83
59 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.22
Consensus pattern (56 bp):
TGAAGGAAAGCCTTCGTGGCAAGGTCTGAAAGAAAAGAATGCCTTTGTGGAAAATC
Found at i:36909796 original size:27 final size:26
Alignment explanation
Indices: 36909708--36909796 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 26
36909698 TCTATGAAGG
*
36909708 AAAGCCTTCGTGGCGAGTACTGAAAGA
1 AAAGCCTTCGTGGCAAGT-CTGAAAGA
* * *
36909735 AGAGGATGCCTTTGTGGCAAACATCTG-AAGG
1 A-A--A-GCCTTCGTGGC-AA-GTCTGAAAGA
36909766 AAAGCCTTCGTGGCAAGGTCTGAAAGA
1 AAAGCCTTCGTGGCAA-GTCTGAAAGA
36909793 AAAG
1 AAAG
36909797 AATGCCTTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
26 6 0.13
27 18 0.38
28 2 0.04
30 2 0.04
31 14 0.30
32 4 0.09
33 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (26 bp):
AAAGCCTTCGTGGCAAGTCTGAAAGA
Found at i:36912867 original size:45 final size:46
Alignment explanation
Indices: 36912803--36912890 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
36912793 ACGAATGATG
* * *
36912803 TTATGTATTTAATATATTGTT-GAAAAATGGAATGTTGTTAAACTA
1 TTATGTATTTAATATATTGTTAAAAAAATGAAATATTGTTAAACTA
*
36912848 TTATGTATTTACCT-TATTGTTAAAAAAATGAAATATTGTTAAA
1 TTATGTATTTA-ATATATTGTTAAAAAAATGAAATATTGTTAAA
36912891 TTACGAATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.44
Consensus pattern (46 bp):
TTATGTATTTAATATATTGTTAAAAAAATGAAATATTGTTAAACTA
Found at i:36913109 original size:21 final size:21
Alignment explanation
Indices: 36913085--36913157 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
36913075 TGTTAACTCA
36913085 TATGAGTTTTAGTTTAACCCT
1 TATGAGTTTTAGTTTAACCCT
* * * *
36913106 TATGGGTTTCT-GTTCATCTCT
1 TATGAGTTT-TAGTTTAACCCT
* * *
36913127 TTTGAGCTTCAGTTTAACCCT
1 TATGAGTTTTAGTTTAACCCT
*
36913148 TATGGGTTTT
1 TATGAGTTTT
36913158 CTTTTAGCTC
Statistics
Matches: 35, Mismatches: 15, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.49
Consensus pattern (21 bp):
TATGAGTTTTAGTTTAACCCT
Found at i:36913143 original size:42 final size:42
Alignment explanation
Indices: 36913095--36913262 Score: 180
Period size: 42 Copynumber: 4.0 Consensus size: 42
36913085 TATGAGTTTT
*
36913095 AGTTTAACCCTTATGGGTTTCTGTTCATCTCTTTTGAGCTTC
1 AGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTC
*
36913137 AGTTTAACCCTTATGGGTTTTCT-TTTAGCTCTTTTGTA-CTTC
1 AGTTTAACCCTTATGGG-TTTCTGTTCAGCTCTTTTG-AGCTTC
* * * * **
36913179 ATTTTATCCTTTATGGGTTTCCGTTCAGCTCTTACGAGCTTTC
1 AGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGC-TTC
* * * *
36913222 -GTTCAACCCTTATGGGTTTCTGTTTAGCACTTATGAGCTTC
1 AGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTC
36913263 TGTGCAGCCT
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
41 8 0.08
42 87 0.84
43 9 0.09
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
AGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTC
Found at i:36919603 original size:40 final size:40
Alignment explanation
Indices: 36919534--36919610 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
36919524 TTAACAATTA
* *
36919534 TAATAATTAAAATATGGTTTAAAGTAACTAAGAATCTATG
1 TAATAATTAAAATATGGTTCAAAGCAACTAAGAATCTATG
* * *
36919574 TAATAATTCAAATATTGTTCATAGCAACTAAGAATCT
1 TAATAATTAAAATATGGTTCAAAGCAACTAAGAATCT
36919611 GTAAAGCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (40 bp):
TAATAATTAAAATATGGTTCAAAGCAACTAAGAATCTATG
Found at i:36920211 original size:130 final size:130
Alignment explanation
Indices: 36919951--36920214 Score: 302
Period size: 130 Copynumber: 2.0 Consensus size: 130
36919941 TGATGGTGAG
* * * * * *
36919951 TGGTGACCTAGTGGATGCCGGACGATGGTGAGTGTGTCGGGATATTTGTCGTTAGGCGGAAGAGA
1 TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGGGATATTCGCCGTCAGGCGGAAGAGA
** * * * * **
36920016 GCTAAAGCTTGAAGTTGAAGGTGTGTTGGGTTAATGTGTGAAAAACGATGGAGAACGAATGATGA
66 GCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAAGGTGTGAAAAACAATGGAGAACAAACAATGA
* *
36920081 TGGTGACCTAGTGGACGTCAGACGGTGGTGAGTGTATCGGG-T-TGTCGACCGTCAGGCGGAAGA
1 TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGGGATAT-TCG-CCGTCAGGCGGAAGA
* *
36920144 GAGCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAGGGTGT-AAAAGACAATGGCAG-TCAAACA
64 GAGCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAAGGTGTGAAAA-ACAATGG-AGAACAAACA
36920207 ATGA
127 ATGA
36920211 TGGT
1 TGGT
36920215 AACTTGGTGG
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 7 0.06
130 102 0.91
131 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.38, T:0.24
Consensus pattern (130 bp):
TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGGGATATTCGCCGTCAGGCGGAAGAGA
GCTAAAGCTTGAAGCCGAAGGTGCGTTGGGTTAAGGTGTGAAAAACAATGGAGAACAAACAATGA
Found at i:36920786 original size:14 final size:14
Alignment explanation
Indices: 36920740--36920779 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
36920730 ATTGAGTTGA
*
36920740 AAAATTATTTAATT
1 AAAATTAATTAATT
36920754 GGAAAATTAATTAATT
1 --AAAATTAATTAATT
36920770 AAAATTAATT
1 AAAATTAATT
36920780 TAATAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:36926809 original size:18 final size:17
Alignment explanation
Indices: 36926782--36926815 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36926772 TATTACTAAA
*
36926782 ATCACTAATTAAATTAAT
1 ATCACGAATT-AATTAAT
36926800 ATCACGAATTAATTAA
1 ATCACGAATTAATTAA
36926816 ACATTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
ATCACGAATTAATTAAT
Found at i:36930851 original size:23 final size:23
Alignment explanation
Indices: 36930824--36930869 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36930814 TAACTTCTGC
36930824 ATTTTTTA-TTTTTAAAATTTTA
1 ATTTTTTACTTTTTAAAATTTTA
* *
36930846 ATTTTTTACTTTTTCAGATTTTA
1 ATTTTTTACTTTTTAAAATTTTA
36930869 A
1 A
36930870 AATTTAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTTTACTTTTTAAAATTTTA
Found at i:36931586 original size:18 final size:19
Alignment explanation
Indices: 36931565--36931626 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
36931555 TAAAAAAATA
*
36931565 TAAAAATA-AAAAATATTT
1 TAAAAATATATAAATATTT
* *
36931583 TAAAAATATATAATTAATT
1 TAAAAATATATAAATATTT
36931602 TAAAAGATATATAAA-ATTT
1 TAAAA-ATATATAAATATTT
36931621 TAAAAA
1 TAAAAA
36931627 ATTATTGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 9 0.24
19 20 0.54
20 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATATATAAATATTT
Found at i:36934281 original size:23 final size:22
Alignment explanation
Indices: 36934255--36934324 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
36934245 TTCATTTAAC
36934255 TTAATCGAACATGTTCACAAACA
1 TTAAT-GAACATGTTCACAAACA
**
36934278 TTAAATGAACATGTTCATGAACA
1 TT-AATGAACATGTTCACAAACA
* *
36934301 TATAATTGAACATATTAACAAACA
1 T-TAA-TGAACATGTTCACAAACA
36934325 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (22 bp):
TTAATGAACATGTTCACAAACA
Found at i:36938559 original size:98 final size:98
Alignment explanation
Indices: 36938437--36938631 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
36938427 AAAAATCATA
* * *
36938437 AAGGAAATTTTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
36938502 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTG
66 AAATCTTGGATAAATGGATGTTCCTTTAAAGTG
36938535 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
36938600 AAATCTTGGATAAATGGATGTTCCTTTAAAGT
66 AAATCTTGGATAAATGGATGTTCCTTTAAAGT
36938632 TTTTCATTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAATGGATGTTCCTTTAAAGTG
Found at i:36945390 original size:21 final size:22
Alignment explanation
Indices: 36945349--36945390 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36945339 ATATTCTTTC
* *
36945349 ATTCTTTCATATGCCTAAATAT
1 ATTCTTTCATATACATAAATAT
36945371 ATTCTTTCAT-TACATAAATA
1 ATTCTTTCATATACATAAATA
36945391 ATTGTACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTCTTTCATATACATAAATAT
Found at i:36949935 original size:44 final size:44
Alignment explanation
Indices: 36949835--36950407 Score: 336
Period size: 44 Copynumber: 13.7 Consensus size: 44
36949825 AGATCGCATC
*
36949835 AGTCTTATCT-CCTGAAGTT-CAGTGGAGCAGACT-A-ATAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGCA
*
36949875 AGTCTTATC-CTCCTGAAGTTGCAGTGG-GCAGACTGAAGATGGGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGATGGCA
* * *
36949919 AGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAA-A-GCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGC-A
* * *
36949962 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-A-GCCGA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGC-A
* * * *
36950006 TAATC-TAT-TCCCTGAAGTTGCATTGGAGCGGATTAA-ACCTCGG--
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA--T-GGCA
* * * *
36950049 A-TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCA--GCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-ATGGCA
* *
36950088 AGTCTTATCTCCCTGAAGTTACAGT-GAGCAGACTAAG-TAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAT-GGCA
* *
36950131 AGTCTTATC-CTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGATGGCA
*
36950176 A-TCTTATCT-CCTGAAGTT-TAGTGGAGCAGA-TAA-A--GCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGC-A
* * * ***
36950214 A-TC-TATCTCCCTGAAGTTGCA-T-GAGCGGATTAAAACCTC-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGCA
* * * * *
36950253 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACAT--CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGCA
** *
36950294 A-TCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAG-TAAGC-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAT-GGCA
* * *
36950336 AGTC-TATC-CTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGATGGCA
36950379 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
36950408 AAATTAAAGT
Statistics
Matches: 428, Mismatches: 49, Indels: 107
0.73 0.08 0.18
Matches are distributed among these distances:
37 14 0.03
38 17 0.04
39 24 0.06
40 47 0.11
41 48 0.11
42 86 0.20
43 64 0.15
44 95 0.22
45 31 0.07
46 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGATGGCA
Found at i:36950023 original size:86 final size:85
Alignment explanation
Indices: 36949840--36950432 Score: 321
Period size: 86 Copynumber: 7.1 Consensus size: 85
36949830 GCATCAGTCT
* *
36949840 TATCT-CCTGAAGTT-CAGTGGAGCAGACTAATAGC-AAGTCTTATC-CTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AGCGAAATCTTATCTC-CCTGAAGTTGCAGTG
* ** **
36949901 G-GCAGACTGAAGATGGGAAGTC
64 GAGCAGACTAAAGCCGACAA-TC
*
36949923 TTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTTATCTCCCTGAAGTTGCAGT
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CGA-AATCTTATCTCCCTGAAGTTGCAGT
* *
36949988 GGAGCAGATTAAAGCCGATAATC
63 GGAGCAGACTAAAGCCGACAATC
* * * * * *
36950011 TAT-TCCCTGAAGTTGCATTGGAGCGGATTAAACCTCG-GATCTTATCTCTCTGAAGTTGCAG-A
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--GCGAAATCTTATCTCCCTGAAGTTGCAGTG
* * *
36950073 GAGCAGA-T--CGCAG-CTAGTC
64 GAGCAGACTAAAGCCGAC-AATC
* * * *
36950092 TTATCTCCCTGAAGTTACAGT-GAGCAGACTAAGTAAGC-AAGTCTTATC-CTTCTGAAGTTGCA
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCGAAATCTTATCTC-CCTGAAGTTGCA
* * ** *
36950154 GTGGGGCAGACTGAAGATGGCAATC
61 GTGGAGCAGACTAAAGCCGACAATC
*
36950179 TTATCT-CCTGAAGTT-TAGTGGAGCAGA-TAAAGCG-AATC-TATCTCCCTGAAGTTGCA-T-G
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
36950237 AGCGGATTAAAACC-TCAGATC
65 AGCAGACTAAAGCCGACA-ATC
* * * * * * **
36950258 TTATCTCTCTGAAGTTGCAG-AGAGCAGATCACATC--TATCTTATCTCCCTGAAGTTATAGTGG
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGAAATCTTATCTCCCTGAAGTTGCAGTGG
** *
36950320 AGCAGACT-AAG-TAAGCAGTC
65 AGCAGACTAAAGCCGA-CAATC
* * *
36950340 TATC-CTCTGAAGTTGCAGTGGGGCAGACTGAAGATG-GAAAGTCTTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCGAAA-TCTTATCTCCCTGAAGTTGCAG
* * *
36950403 TGGAG-AAATTAAAGTCGACAATC
62 TGGAGCAGACTAAAGCCGACAATC
36950426 TATCTCC
1 TATCTCC
36950433 TAAATATAGT
Statistics
Matches: 392, Mismatches: 73, Indels: 85
0.71 0.13 0.15
Matches are distributed among these distances:
78 2 0.01
79 17 0.04
80 33 0.08
81 52 0.13
82 25 0.06
83 48 0.12
84 18 0.05
85 43 0.11
86 95 0.24
87 19 0.05
88 27 0.07
89 13 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGAAATCTTATCTCCCTGAAGTTGCAGTGGA
GCAGACTAAAGCCGACAATC
Found at i:36950275 original size:206 final size:212
Alignment explanation
Indices: 36949833--36950488 Score: 772
Period size: 206 Copynumber: 3.2 Consensus size: 212
36949823 ACAGATCGCA
* * * *
36949833 TCAG-TCTTATCTC-CTGAAGTT-CAGTGGAGCAGACTAATAGCAAGTCTTATC-CTCCTGAAGT
1 TCAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACAGCTAGTCTTATCTC-CCTGAAGT
* * * * * * *
36949894 TGCAGTGGGCAGACTGAAG-ATGGGAAGTCTTAT--TTCCCTGAAGTTGCAGTGGAGCAGATTAA
63 TACAGTGAGCAGACT-AAGTA-AGCAAGTCTTATCCTT--CTGAAGTTGCAGTGGGGCAGACTGA
**
36949956 AG-CCGATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTAT-TCCCT
124 AGATGGA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-AATCTATCTCCCT
*
36950019 GAAGTTGCATTGGAGCGGATT-AAACC
187 GAAGTTGCAGT-GAGCGGATTAAAACC
* *
36950045 TCGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAGCTAGTCTTATCTCCCTGAAGTTAC
1 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACAGCTAGTCTTATCTCCCTGAAGTTAC
*
36950110 AGTGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
66 AGTGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGA
*
36950175 AATCTTATCT-CCTGAAGTT-TAGTGGAGCAGA-TAAAG-CG-AATCTATCTCCCTGAAGTTGCA
131 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAAATCTATCTCCCTGAAGTTGCA
36950235 -TGAGCGGATTAAAACC
196 GTGAGCGGATTAAAACC
* *
36950251 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTA-TCTTATCTCCCTGAAGTTAT
1 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACAGCTAGTCTTATCTCCCTGAAGTTAC
36950315 AGTGGAGCAGACTAAGTAAGC-AGTC-TATCC-TCTGAAGTTGCAGTGGGGCAGACTGAAGATGG
66 AGT-GAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGG
* * *
36950377 AAAGTCTTATCTCCCTGAAGTTGCAGTGGAG-AAATTAAAGTCGACAATCTATCT-CCT-AAATA
130 AAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-AATCTATCTCCCTGAAGT-
*
36950439 T--AGTGAGTGGA-TAAAACC
192 TGCAGTGAGCGGATTAAAACC
*
36950457 TCAAATC-TATCTCTCTGAAGTTGCAGAGAGCA
1 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCA
36950489 ATCGCNNNNN
Statistics
Matches: 397, Mismatches: 27, Indels: 47
0.84 0.06 0.10
Matches are distributed among these distances:
203 34 0.09
204 13 0.03
205 71 0.18
206 97 0.24
207 26 0.07
208 6 0.02
209 14 0.04
210 11 0.03
211 9 0.02
212 50 0.13
213 45 0.11
214 18 0.05
215 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (212 bp):
TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACAGCTAGTCTTATCTCCCTGAAGTTAC
AGTGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGA
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAAATCTATCTCCCTGAAGTTGCA
GTGAGCGGATTAAAACC
Found at i:36961572 original size:117 final size:117
Alignment explanation
Indices: 36961399--36961976 Score: 936
Period size: 117 Copynumber: 5.0 Consensus size: 117
36961389 TTAATCATAT
36961399 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAA-ATAATTATTATTAAATAT-ATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
36961464 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
64 AAATATTCTTATATGAATTTACTAAAATCATAATATAT-ATACTATAAAATATAA
36961519 TTTAAATAATTATTATTAAATATATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAA
1 TTTAAATAATTATTATTAAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAA
*
36961583 ATATTC-T-TATGAATTTAATAAAATCATAATATATA-ACTATAAAATATAA
66 ATATTCTTATATGAATTTACTAAAATCATAATATATATACTATAAAATATAA
36961632 TTTAAAATAATTATTATT-AA-ATATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-TA
1 TTT-AAATAATTATTATTAAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
36961694 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AATATTCTTATATGAATTTACTAAAATCATAATATAT-ATACTATAAAATATAA
36961748 TTTAAAATAATTATTATT-AATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTT-AAATAATTATTATTAAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
36961812 AATATTCTTATATGAATTTACTAAAATCATAATATATATACTAT-AAATATAA
65 AATATTCTTATATGAATTTACTAAAATCATAATATATATACTATAAAATATAA
36961864 TTTAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATA-TA
1 TTTAAATAATTATTATTAAATAT-ATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
* *
36961927 AATA----TATATGAATTTACTAAAAT-ATAATATATATAATATAATAAAATAA
65 AATATTCTTATATGAATTTACTAAAATCATAATATATATACTATAA-AATATAA
36961976 T
1 T
36961977 ATATTAAATA
Statistics
Matches: 441, Mismatches: 5, Indels: 32
0.92 0.01 0.07
Matches are distributed among these distances:
110 15 0.03
111 20 0.05
112 25 0.06
113 50 0.11
114 41 0.09
115 46 0.10
116 81 0.18
117 94 0.21
118 46 0.10
119 18 0.04
120 5 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (117 bp):
TTTAAATAATTATTATTAAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAA
ATATTCTTATATGAATTTACTAAAATCATAATATATATACTATAAAATATAA
Found at i:36961598 original size:36 final size:36
Alignment explanation
Indices: 36961434--36961949 Score: 269
Period size: 37 Copynumber: 13.6 Consensus size: 36
36961424 ATTTAATAAA
36961434 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATA-T
** ** *
36961471 CTTATATGAATTTTCTAAAA-TCATAATATATAATACTAT
1 AATATAT-AATTTAATAAAATTCTTAATAT-TAA-A-TAT
* * * * *
36961510 AAAATATAATTTAAATAATTATTATTAAATATATTTAATAA
1 AATATATAATTT-AATAA-AATTCTT--A-ATATTAAATAT
36961551 AATATATAATTTAATAAAATTCTTAATATTAAATAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATAT
** * *
36961587 TCT-TATGAATTTAATAAAA-TCATAATATATAACTAT
1 AATATAT-AATTTAATAAAATTCTTAATAT-TAAATAT
* * * * *
36961623 AAAATATAATTTAAAATAATTATTATTAAATATTTAATAAA
1 AATATATAATTT--AATAA-AATTCTT-AATATTAAAT-AT
36961664 AATATATAATTTAATAAAATTCTTAATA-TAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATA-T
** * *
36961700 CTTATATGAATTTACTAAAA-TCATAATATATAATACTAT
1 AATATAT-AATTTAATAAAATTCTTAATAT-TAA-A-TAT
* * * * *
36961739 AAAATATAATTTAAAATAATTATTATTAATATATTTAATAAA
1 AATATATAATTT--AATAA-AATTCTT-A-ATATTAAAT-AT
36961781 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAATTCTTAATATTAAATA-T
** * * *
36961818 CTTATATGAATTTACTAAAA-TCATAATATATATACTAT
1 AATATAT-AATTTAATAAAATTCTTAATAT-TA-AATAT
* * * *
36961856 AA-ATATAATTTAAATAATTATTATTAAATATAATTTAATAA
1 AATATATAATTT-AATAA-AATTCTT--A-AT-ATTAAATAT
36961897 AATATATAATTTAATAAAATTCTTAATA-TAAATAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
36961932 -ATAT-GAATTTACTAAAAT
1 AATATATAATTTAATAAAAT
36961950 ATAATATATA
Statistics
Matches: 359, Mismatches: 76, Indels: 92
0.68 0.14 0.17
Matches are distributed among these distances:
33 12 0.03
34 4 0.01
35 17 0.05
36 56 0.16
37 63 0.18
38 53 0.15
39 36 0.10
40 29 0.08
41 45 0.13
42 28 0.08
43 8 0.02
44 8 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (36 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATAT
Found at i:36961758 original size:230 final size:234
Alignment explanation
Indices: 36961399--36961976 Score: 961
Period size: 230 Copynumber: 2.5 Consensus size: 234
36961389 TTAATCATAT
*
36961399 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-T
*
36961464 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTAAATAAT
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAATAAT
36961529 TATTATTAAATATATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAAATATTC-T-T
130 TATTATT-AATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAT
36961591 ATGAATTTAATAAAATCATAATATATA-ACTATAAAATATAA
194 ATGAATTTAATAAAATCATAATATATATACTAT-AAATATAA
36961632 TTTAAAATAATTATTATT-AA-AT-ATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
36961694 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT-AAATAAT
36961759 TATTATTAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATA
130 TATTATTAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATA
*
36961824 TGAATTTACTAAAATCATAATATATATACTATAAATATAA
195 TGAATTTAATAAAATCATAATATATATACTATAAATATAA
36961864 TTT-AAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
* *
36961927 AATA----TATATGAATTTACTAAAAT-ATAATATAT-ATAATATAATAAAATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA-AATATAAT
36961977 ATATTAAATA
Statistics
Matches: 331, Mismatches: 5, Indels: 23
0.92 0.01 0.06
Matches are distributed among these distances:
227 8 0.02
228 16 0.05
229 89 0.27
230 92 0.28
231 17 0.05
232 42 0.13
233 60 0.18
234 7 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (234 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAATAATT
ATTATTAATATATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATAT
GAATTTAATAAAATCATAATATATATACTATAAATATAA
Found at i:36961923 original size:17 final size:17
Alignment explanation
Indices: 36961883--36961916 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36961873 TTATTATTAA
36961883 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36961900 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36961917 TCTTAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36961957 original size:5 final size:5
Alignment explanation
Indices: 36961840--36961988 Score: 59
Period size: 5 Copynumber: 30.6 Consensus size: 5
36961830 TACTAAAATC
* * *
36961840 ATAAT AT-AT ATACT ATAAAT ATAAT TTAA- ATAAT -TATT ATTAAAT
1 ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT A-T-AAT
* * * *
36961885 ATAAT TTAAT A-AA- AT-AT ATAAT TTAAT AAAATT CTTAAT ATAA- ATATAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T -ATAAT ATAAT ATA-AT
* * * *
36961934 ATGAAT TTACT AAAAT ATAAT AT-AT ATAAT ATAAT A-AA- ATAAT ATATT
1 AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
36961982 A-AAT ATA
1 ATAAT ATA
36961989 TTTATAATCT
Statistics
Matches: 104, Mismatches: 22, Indels: 36
0.64 0.14 0.22
Matches are distributed among these distances:
3 3 0.03
4 28 0.27
5 54 0.52
6 13 0.12
7 6 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:36961978 original size:22 final size:25
Alignment explanation
Indices: 36961921--36961988 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 25
36961911 TAAAATTCTT
* * *
36961921 AATATAAATATATATGAATTTACTAA
1 AATAT-AATATATATAAATATAATAA
36961947 AATATAATATATAT-AATATAAT-A
1 AATATAATATATATAAATATAATAA
36961970 AA-ATAATATAT-TAAATATA
1 AATATAATATATATAAATATA
36961989 TTTATAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.03
22 15 0.38
23 3 0.08
24 6 0.15
25 9 0.23
26 5 0.13
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (25 bp):
AATATAATATATATAAATATAATAA
Found at i:36963427 original size:49 final size:49
Alignment explanation
Indices: 36963355--36963459 Score: 183
Period size: 49 Copynumber: 2.1 Consensus size: 49
36963345 TTAAGAAAAA
* * *
36963355 AAAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTAT
1 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
36963404 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
1 AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
36963453 AAAATTA
1 AAAATTA
36963460 TAACACATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.31
Consensus pattern (49 bp):
AAAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTAT
Found at i:36965024 original size:1 final size:1
Alignment explanation
Indices: 36965018--36965048 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
36965008 AATAAACCAG
36965018 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
36965049 GAATGTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:36965357 original size:88 final size:84
Alignment explanation
Indices: 36965252--36965469 Score: 214
Period size: 88 Copynumber: 2.5 Consensus size: 84
36965242 TTTCATTAGG
*
36965252 TTTTTAGTGGTAGATTATAATTATAATTTGTAGCATTTGATTAATTTTAGTGTTAAT-TA-T-TA
1 TTTTTAGTGTTA-ATTATAATTATAATTTGTAGCATTTGATTAATTTTAGTGTTAATATATTATA
*
36965314 AGTTTTATGTATATTTAATTTATTAA
65 ATTTTTA-G-AT-TTTAA-TTA-T-A
* ** *
36965340 TTTTTTAGTGTTAATTATGAAATTGTTGTTT-T-GCAACTTGATT-ATTTTAGTGTTAATATATT
1 -TTTTTAGTGTTAATTAT--AATTATAATTTGTAGC-ATTTGATTAATTTTAGTGTTAATATATT
*
36965402 ATAATTTTTAGCTTTTAATTATA
62 ATAATTTTTAGATTTTAATTATA
36965425 TTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAATTATAA--TTTGTAGCATTTGATTAA
36965470 AAAAACTTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
82 5 0.05
84 20 0.19
85 9 0.08
86 4 0.04
87 3 0.03
88 26 0.24
89 22 0.21
90 10 0.09
91 8 0.07
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.55
Consensus pattern (84 bp):
TTTTTAGTGTTAATTATAATTATAATTTGTAGCATTTGATTAATTTTAGTGTTAATATATTATAA
TTTTTAGATTTTAATTATA
Found at i:36965437 original size:18 final size:19
Alignment explanation
Indices: 36965399--36965442 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
36965389 GTGTTAATAT
*
36965399 ATTATAATTTTTAGCTTTTA
1 ATTAT-ATTTTTAGCTGTTA
36965419 ATTATATTTTTAG-TGTTA
1 ATTATATTTTTAGCTGTTA
36965437 ATTATA
1 ATTATA
36965443 ATTATAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (19 bp):
ATTATATTTTTAGCTGTTA
Found at i:36965595 original size:45 final size:48
Alignment explanation
Indices: 36965523--36965611 Score: 132
Period size: 46 Copynumber: 1.9 Consensus size: 48
36965513 TAGTGTTAAT
*
36965523 TATAATTTTTTATCAAACAATAATAAGTAATAT-AAACATTGTTCAAA
1 TATAATTTTTAATCAAACAATAATAAGTAATATAAAACATTGTTCAAA
36965570 TATAA-TTTTAATCAAA-AA-AATTAAGTAATATAAAACATTGTT
1 TATAATTTTTAATCAAACAATAA-TAAGTAATATAAAACATTGTT
36965612 GAAGACCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
44 2 0.05
45 12 0.31
46 20 0.51
47 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (48 bp):
TATAATTTTTAATCAAACAATAATAAGTAATATAAAACATTGTTCAAA
Found at i:36967555 original size:12 final size:12
Alignment explanation
Indices: 36967538--36967588 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
36967528 CAAAATAATT
36967538 ACAAAGATGCAA
1 ACAAAGATGCAA
36967550 ACAAAGATGCAA
1 ACAAAGATGCAA
*
36967562 ACAAACCAT-C-A
1 ACAAA-GATGCAA
36967573 ACAAAGATGCAA
1 ACAAAGATGCAA
36967585 ACAA
1 ACAA
36967589 GCTGATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 2 0.06
11 7 0.21
12 23 0.68
13 2 0.06
ACGTcount: A:0.59, C:0.22, G:0.12, T:0.08
Consensus pattern (12 bp):
ACAAAGATGCAA
Found at i:36970243 original size:7 final size:7
Alignment explanation
Indices: 36970231--36970264 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
36970221 TCCTAAATTC
36970231 TCAATCT
1 TCAATCT
36970238 TCAATCT
1 TCAATCT
36970245 TCAATCT
1 TCAATCT
*
36970252 TCAATAT
1 TCAATCT
36970259 TCAATC
1 TCAATC
36970265 CCCAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (7 bp):
TCAATCT
Found at i:36970270 original size:21 final size:20
Alignment explanation
Indices: 36970226--36970275 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36970216 TTTTTTCCTA
* **
36970226 AATTCTCAATCTTCAATCTTC
1 AATT-TCAATATTCAATCCCC
36970247 AATCTTCAATATTCAATCCCC
1 AAT-TTCAATATTCAATCCCC
36970268 AATTTCAA
1 AATTTCAA
36970276 ATTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTCAATATTCAATCCCC
Found at i:36970302 original size:21 final size:20
Alignment explanation
Indices: 36970267--36970321 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
36970257 ATTCAATCCC
*
36970267 CAATTTCAAATTTTATATTTT
1 CAATTTCAAA-TTTAAATTTT
36970288 CAATCTTCAAATTTAAATTTT
1 CAAT-TTCAAATTTAAATTTT
*
36970309 CAATTTCGAATTT
1 CAATTTCAAATTT
36970322 TTAATCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 8 0.26
21 17 0.55
22 6 0.19
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.51
Consensus pattern (20 bp):
CAATTTCAAATTTAAATTTT
Found at i:36970383 original size:15 final size:15
Alignment explanation
Indices: 36970365--36970394 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36970355 ATTTTTTTGA
36970365 ATTTTATTCTCTTCG
1 ATTTTATTCTCTTCG
*
36970380 ATTTTATTCTTTTCG
1 ATTTTATTCTCTTCG
36970395 TATAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTTATTCTCTTCG
Found at i:36972907 original size:21 final size:21
Alignment explanation
Indices: 36972883--36972922 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36972873 AAATACATTC
* *
36972883 TAAAAAATTCAAAAAATTATA
1 TAAAAAAGTAAAAAAATTATA
36972904 TAAAAAAGTAAAAAAATTA
1 TAAAAAAGTAAAAAAATTA
36972923 AAAAAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAAAAAGTAAAAAAATTATA
Found at i:36975198 original size:41 final size:41
Alignment explanation
Indices: 36975138--36975245 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
36975128 AATTATACCT
**
36975138 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
*
36975179 TGAATTGCACATACATGCCCCTGTTTGTACTTCCGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
*
36975220 TGAATAGCACATACGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCCTGTTT
36975246 ACACTCTGAC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCCGTACCCC
Found at i:36975201 original size:21 final size:21
Alignment explanation
Indices: 36975138--36975242 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
36975128 AATTATACCT
36975138 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
* * * ** *
36975159 TG-TTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCC
*
36975179 TGAATTGCACATACATGCCCC
1 TGAATTGCACATACGTGCCCC
* * * * *
36975200 TG-TTTGTACTTCCGTACCCC
1 TGAATTGCACATACGTGCCCC
*
36975220 TGAATAGCACATACGTGCCCC
1 TGAATTGCACATACGTGCCCC
36975241 TG
1 TG
36975243 TTTACACTCT
Statistics
Matches: 57, Mismatches: 25, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
20 28 0.49
21 29 0.51
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACGTGCCCC
Found at i:36975221 original size:20 final size:20
Alignment explanation
Indices: 36975149--36975221 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
36975139 GAATTGCACA
*
36975149 TACGTGCCCCTGTTTGTACT
1 TACGTACCCCTGTTTGTACT
** * * *
36975169 TTGGTACCCCTGAATTGCACA
1 TACGTACCCCTG-TTTGTACT
* *
36975190 TACATGCCCCTGTTTGTACT
1 TACGTACCCCTGTTTGTACT
*
36975210 TCCGTACCCCTG
1 TACGTACCCCTG
36975222 AATAGCACAT
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (20 bp):
TACGTACCCCTGTTTGTACT
Found at i:36984250 original size:24 final size:26
Alignment explanation
Indices: 36984223--36984272 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36984213 CTTGATATAT
36984223 GTATAT-ATG-TATAT-GTATGTTTGA
1 GTATATAATGATATATAGTA-GTTTGA
36984247 GTATATAATGATATATAGTAGTTTGA
1 GTATATAATGATATATAGTAGTTTGA
36984273 CACATATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.26
25 3 0.13
26 11 0.48
27 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (26 bp):
GTATATAATGATATATAGTAGTTTGA
Done.