Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 119 of 150
Found at i:36688618 original size:127 final size:128
Alignment explanation
Indices: 36688392--36688646 Score: 311
Period size: 127 Copynumber: 2.0 Consensus size: 128
36688382 GAAGATGGCA
* * * *
36688392 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAGCCAATAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCCCTAAAGTTACAGTGAAGCAGAAGAAAGCAAATAATCCTATCTCCCTGAAGTTG
* * * * * *
36688457 CAGTGAAGCGAATTAAAATTAGATATTAT-CTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
66 CAGTGAAGCGAATTAAAATCACATAATATCCTCTCTAAAGTTACAGTAGAGCAGATCACATCC
*
36688519 AGTCTTATCTCCCTGAAGTTACAGTGAAGCAGACAG-AAG-AAAGTAATCCTATCTCCCTGAAGT
1 AGTCTTATCTCCCTAAAGTTACAGTGAAGCAGA-AGAAAGCAAA-TAATCCTATCTCCCTGAAGT
* * * *
36688582 TGCAGTGGAGTGGATTAAAATCACA-AATCTCATCTCTCTAAAGTTACAGTAGAGCAGATCACAT
64 TGCAGTGAAGCGAATTAAAATCACATAATATC--CTCTCTAAAGTTACAGTAGAGCAGATCACAT
36688646 C
127 C
36688647 AGATTTATCT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
126 5 0.05
127 73 0.68
128 1 0.01
129 29 0.27
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (128 bp):
AGTCTTATCTCCCTAAAGTTACAGTGAAGCAGAAGAAAGCAAATAATCCTATCTCCCTGAAGTTG
CAGTGAAGCGAATTAAAATCACATAATATCCTCTCTAAAGTTACAGTAGAGCAGATCACATCC
Found at i:36706253 original size:38 final size:39
Alignment explanation
Indices: 36706211--36706284 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
36706201 TTAAAAGAAA
** *
36706211 TTTAAAATCTAAGTATAAGAATAATAAATAA-ATAAATT
1 TTTAAAAAATAAGTAAAAGAATAATAAATAATATAAATT
* *
36706249 TTTAAAAAATTAGTAAAATAATAATAAATAATATAA
1 TTTAAAAAATAAGTAAAAGAATAATAAATAATATAA
36706285 TAAAGAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 26 0.87
39 4 0.13
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (39 bp):
TTTAAAAAATAAGTAAAAGAATAATAAATAATATAAATT
Found at i:36706286 original size:12 final size:12
Alignment explanation
Indices: 36706269--36706307 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
36706259 TAGTAAAATA
36706269 ATAATAAATAAT
1 ATAATAAATAAT
*
36706281 ATAATAAAGAAT
1 ATAATAAATAAT
*
36706293 A-AATAAATAAA
1 ATAATAAATAAT
36706304 ATAA
1 ATAA
36706308 AAGAGGTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:36706293 original size:19 final size:20
Alignment explanation
Indices: 36706262--36706308 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
36706252 AAAAAATTAG
*
36706262 TAAAAT-AATAATAAAT-AA
1 TAAAATAAAGAATAAATAAA
*
36706280 TATAATAAAGAATAAATAAA
1 TAAAATAAAGAATAAATAAA
36706300 TAAAATAAA
1 TAAAATAAA
36706309 AGAGGTAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.21
19 9 0.38
20 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAATAAAGAATAAATAAA
Found at i:36714419 original size:39 final size:39
Alignment explanation
Indices: 36714365--36714444 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
36714355 TTACCTCAAA
*
36714365 TCGATACCCTAGTGGGCAACACGGCAAGTCATTTACTGT
1 TCGATACCCTAGTGGGCAACACGGCAAGTCATTCACTGT
36714404 TCGATACCCTAGTGGGCAACACGGCAAGTCATTCACTGT
1 TCGATACCCTAGTGGGCAACACGGCAAGTCATTCACTGT
36714443 TC
1 TC
36714445 TCCTTCATGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
TCGATACCCTAGTGGGCAACACGGCAAGTCATTCACTGT
Found at i:36717774 original size:56 final size:56
Alignment explanation
Indices: 36717707--36717818 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
36717697 ATGGATTTGG
36717707 GAAGTTGTGCCCCTAACTTACAGGGTATGATTTATTCTTTAAACTAAAATAATCGA
1 GAAGTTGTGCCCCTAACTTACAGGGTATGATTTATTCTTTAAACTAAAATAATCGA
* *
36717763 GAAGTTGTGCCCCTAACTTACAGGGTATGATTTATTCTTTGAACTGAAATAATCGA
1 GAAGTTGTGCCCCTAACTTACAGGGTATGATTTATTCTTTAAACTAAAATAATCGA
36717819 ACCTCCTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (56 bp):
GAAGTTGTGCCCCTAACTTACAGGGTATGATTTATTCTTTAAACTAAAATAATCGA
Found at i:36724902 original size:17 final size:18
Alignment explanation
Indices: 36724876--36724913 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
36724866 TGTTTTATAT
*
36724876 TTTTTTATTTTCTTTT-A
1 TTTTTCATTTTCTTTTCA
*
36724893 TTTTTCATTTTGTTTTCA
1 TTTTTCATTTTCTTTTCA
36724911 TTT
1 TTT
36724914 AAAATAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCATTTTCTTTTCA
Found at i:36728199 original size:99 final size:99
Alignment explanation
Indices: 36728025--36728223 Score: 299
Period size: 99 Copynumber: 2.0 Consensus size: 99
36728015 CTCAGCATGT
* * * *
36728025 CGTTTTAACTTCATCGCCAGAGGAGGAAACATTATTGCACATGCAATGGTGGCAGAGGGTCTGAA
1 CGTTTTAACTTCATCGCCAAAGGAGGAAACACTACTGCACATGCAATGGCGGCAGAGGGTCTGAA
** *
36728090 AAACACAAAGGACTGGTTCTGGGTTGAAGTCGCG
66 AAACACAAAGGACCAGTTCTGGGTTGAAGACGCG
* *
36728124 CGTTTTAACTTCATCGTCAAAGGAGGAAACACTACTGCACATGCAATGGCGGCAGAGGGTTTGAA
1 CGTTTTAACTTCATCGCCAAAGGAGGAAACACTACTGCACATGCAATGGCGGCAGAGGGTCTGAA
* *
36728189 AAGCAGAAAGGACCAGTTCTGGGTTGAAGACGCG
66 AAACACAAAGGACCAGTTCTGGGTTGAAGACGCG
36728223 C
1 C
36728224 CTTTAGGGGT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (99 bp):
CGTTTTAACTTCATCGCCAAAGGAGGAAACACTACTGCACATGCAATGGCGGCAGAGGGTCTGAA
AAACACAAAGGACCAGTTCTGGGTTGAAGACGCG
Found at i:36731449 original size:9 final size:9
Alignment explanation
Indices: 36731431--36731523 Score: 132
Period size: 9 Copynumber: 10.3 Consensus size: 9
36731421 TCAGTTGAAC
36731431 TAAATCGGT
1 TAAATCGGT
*
36731440 TAAGTCGGT
1 TAAATCGGT
*
36731449 TAAGTCGGT
1 TAAATCGGT
36731458 TAAATCGGT
1 TAAATCGGT
*
36731467 TAAATTGGT
1 TAAATCGGT
*
36731476 TAAGTCGGT
1 TAAATCGGT
*
36731485 TAAATCAGT
1 TAAATCGGT
36731494 TAAATCGGT
1 TAAATCGGT
*
36731503 TAAGTCGGT
1 TAAATCGGT
36731512 TAAATCGGT
1 TAAATCGGT
36731521 TAA
1 TAA
36731524 TTTTTAACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 74 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (9 bp):
TAAATCGGT
Found at i:36731461 original size:27 final size:27
Alignment explanation
Indices: 36731431--36731523 Score: 159
Period size: 27 Copynumber: 3.4 Consensus size: 27
36731421 TCAGTTGAAC
*
36731431 TAAATCGGTTAAGTCGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
*
36731458 TAAATCGGTTAAATTGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
*
36731485 TAAATCAGTTAAATCGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
36731512 TAAATCGGTTAA
1 TAAATCGGTTAA
36731524 TTTTTAACCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (27 bp):
TAAATCGGTTAAATCGGTTAAGTCGGT
Found at i:36732629 original size:5 final size:6
Alignment explanation
Indices: 36732612--36732636 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36732602 GTTGTATTTG
36732612 ACAAAA ACAAAA ACAAAA ACAAAA A
1 ACAAAA ACAAAA ACAAAA ACAAAA A
36732637 AGAAAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:36735146 original size:60 final size:60
Alignment explanation
Indices: 36735066--36735194 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
36735056 TTTGGTCTTA
* * * *
36735066 AATT-TAAAAATTCAACAAATTTAACCTTCAATATTT-TCAAAATTTGT-TATTTAATTTT
1 AATTCTAAAAATTCAACAAATTTAACCTTCAACATTTAT-AAAATTTATCAATTTAATTAT
* ** *
36735124 AATTCTAAAACATTCAATAAATTTAGTCTTGAACATTTATAAAATTTATCAATTTAATTAT
1 AATTCTAAAA-ATTCAACAAATTTAACCTTCAACATTTATAAAATTTATCAATTTAATTAT
36735185 AATTCTAAAA
1 AATTCTAAAA
36735195 GTTAAAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.07
59 5 0.08
60 30 0.51
61 20 0.34
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (60 bp):
AATTCTAAAAATTCAACAAATTTAACCTTCAACATTTATAAAATTTATCAATTTAATTAT
Found at i:36747186 original size:34 final size:34
Alignment explanation
Indices: 36747143--36747225 Score: 157
Period size: 34 Copynumber: 2.4 Consensus size: 34
36747133 CATATAACAA
*
36747143 ATAATCCATGTAAATCATGTATTTCATGTAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
36747177 ATAAACCATGTAAATCATGTATTTCATGTAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
36747211 ATAAACCATGTAAAT
1 ATAAACCATGTAAAT
36747226 TATATAACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (34 bp):
ATAAACCATGTAAATCATGTATTTCATGTAACTT
Found at i:36747188 original size:16 final size:16
Alignment explanation
Indices: 36747167--36747229 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
36747157 TCATGTATTT
36747167 CATGTAACTTATAAAC
1 CATGTAACTTATAAAC
* * ***
36747183 CATGTAAATCATGTATTT
1 CATGT-AA-CTTATAAAC
36747201 CATGTAACTTATAAAC
1 CATGTAACTTATAAAC
*
36747217 CATGTAAATTATA
1 CATGTAACTTATA
36747230 TAACTTTTAT
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
16 21 0.62
17 4 0.12
18 9 0.26
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (16 bp):
CATGTAACTTATAAAC
Found at i:36747470 original size:23 final size:23
Alignment explanation
Indices: 36747428--36747472 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36747418 TATCGAGCTC
*
36747428 AACGGTAAGCTCCGTAGAGTTGA
1 AACGGTAAGCTCCATAGAGTTGA
36747451 AACGGTAAGCT-CATACGAGTTG
1 AACGGTAAGCTCCATA-GAGTTG
36747473 TGGTGAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (23 bp):
AACGGTAAGCTCCATAGAGTTGA
Found at i:36749956 original size:315 final size:315
Alignment explanation
Indices: 36749384--36750017 Score: 1115
Period size: 315 Copynumber: 2.0 Consensus size: 315
36749374 AATACTCGAT
*
36749384 CTCTGACCTGAAACTCTATTTCTTTACGTTTCAAATCCGCGTATGATTTCTGTCTATCTGAAGCT
1 CTCTGACCTGAAACTCTATTTCTTTACGTTTCAAATCCGCATATGATTTCTGTCTATCTGAAGCT
* *
36749449 GCTTTTAAATTGTCTCAAATCACTTTCACTTTTTCTTTAGTTTCTCTGATCAATTCAACCCCGTG
66 GCTTTTAAATTGTCTCAAATCACTTTCACTTTTTCTTCAGTTTCTATGATCAATTCAACCCCGTG
* *
36749514 AATCTTTTTCTCACTCAATTCTGTCCAGTATAACGGTGTCCGACATAAAGCTTCATACGGAGCCA
131 AATCTTTTTCTAACTCAATTCTGTCCAGCATAACGGTGTCCGACATAAAGCTTCATACGGAGCCA
36749579 TTTTCAAACTCGTCTAGAAGCTGTTGTTATATGCAAATTTAATCAGAGGTAAGTGTTTCTCCCAG
196 TTTTCAAACTCGTCTAGAAGCTGTTGTTATATGCAAATTTAATCAGAGGTAAGTGTTTCTCCCAG
36749644 CTACCTTCAAATTCAAGTATGCAACAACGCAACATATCCTCAAATATCTGTATAA
261 CTACCTTCAAATTCAAGTATGCAACAACGCAACATATCCTCAAATATCTGTATAA
* *
36749699 CTCTGACTTGAAACTCTATTTCTTTACGTTTCAAATCCGCATATGATTTCTGTCTATTTGAAGCT
1 CTCTGACCTGAAACTCTATTTCTTTACGTTTCAAATCCGCATATGATTTCTGTCTATCTGAAGCT
* * *
36749764 GCTTTTAAATTGTCTCAAATCACTTTCATTTTTTCTTCGGTTTCTATGATCAATTCAACCCTGTG
66 GCTTTTAAATTGTCTCAAATCACTTTCACTTTTTCTTCAGTTTCTATGATCAATTCAACCCCGTG
* *
36749829 AATCTTTTTCTAACTCAATTCTGTCCAGCATAACGGTGTCTGACATAAAGCTTCGTACGGAGCCA
131 AATCTTTTTCTAACTCAATTCTGTCCAGCATAACGGTGTCCGACATAAAGCTTCATACGGAGCCA
* *
36749894 TTTTCAAACTCGTCTGGAAGTTGTTGTTATATGCAAATTTAATCAGAGGTAAGTGTTTCTCCCAG
196 TTTTCAAACTCGTCTAGAAGCTGTTGTTATATGCAAATTTAATCAGAGGTAAGTGTTTCTCCCAG
* * *
36749959 CTACCTTCAAATTTAAGTATGCAACGACGCAACATATCCTCAAGTATCTGTATAA
261 CTACCTTCAAATTCAAGTATGCAACAACGCAACATATCCTCAAATATCTGTATAA
36750014 CTCT
1 CTCT
36750018 TTCGGACTGA
Statistics
Matches: 302, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
315 302 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (315 bp):
CTCTGACCTGAAACTCTATTTCTTTACGTTTCAAATCCGCATATGATTTCTGTCTATCTGAAGCT
GCTTTTAAATTGTCTCAAATCACTTTCACTTTTTCTTCAGTTTCTATGATCAATTCAACCCCGTG
AATCTTTTTCTAACTCAATTCTGTCCAGCATAACGGTGTCCGACATAAAGCTTCATACGGAGCCA
TTTTCAAACTCGTCTAGAAGCTGTTGTTATATGCAAATTTAATCAGAGGTAAGTGTTTCTCCCAG
CTACCTTCAAATTCAAGTATGCAACAACGCAACATATCCTCAAATATCTGTATAA
Found at i:36755034 original size:34 final size:34
Alignment explanation
Indices: 36754991--36755110 Score: 204
Period size: 34 Copynumber: 3.5 Consensus size: 34
36754981 CATATAACAA
* * *
36754991 ATAATCCATGTAAATCATGTATTTCATTTAGCTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
36755025 ATAAACCATGTAAATCATGTATTTCATGTAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
*
36755059 ATAAGCCATGTAAATCATGTATTTCATGTAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
36755093 ATAAACCATGTAAATCAT
1 ATAAACCATGTAAATCAT
36755111 ATAACTTTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (34 bp):
ATAAACCATGTAAATCATGTATTTCATGTAACTT
Found at i:36755130 original size:68 final size:67
Alignment explanation
Indices: 36754979--36755113 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 67
36754969 AATTCATAAA
* * * * *
36754979 TTCATATAACAAATAATCCATGTAAATCATGTATTTCATTTAGCTTATAAACCATGTAAATCATG
1 TTCATATAAC-TATAAGCCATGTAAATCATGTATTTCATGTAACTTATAAACCATGTAAATCATA
36755044 TAT
65 TAT
*
36755047 TTCATGTAACTTATAAGCCATGTAAATCATGTATTTCATGTAACTTATAAACCATGTAAATCATA
1 TTCATATAAC-TATAAGCCATGTAAATCATGTATTTCATGTAACTTATAAACCATGTAAATCATA
36755112 TA
65 TA
36755114 ACTTTTATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (67 bp):
TTCATATAACTATAAGCCATGTAAATCATGTATTTCATGTAACTTATAAACCATGTAAATCATAT
AT
Found at i:36755311 original size:22 final size:22
Alignment explanation
Indices: 36755286--36755344 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
36755276 CTTGAGCCGA
* * *
36755286 TAAACAGTAAGCTCTATCGAGC
1 TAAACGGTAAGCTCCATAGAGC
*
36755308 TAAACGGTAAGCTCCGTAGAGC
1 TAAACGGTAAGCTCCATAGAGC
36755330 TGAAACGGTAAGCTC
1 T-AAACGGTAAGCTC
36755345 ATACAAGCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (22 bp):
TAAACGGTAAGCTCCATAGAGC
Found at i:36755353 original size:23 final size:22
Alignment explanation
Indices: 36755287--36755354 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
36755277 TTGAGCCGAT
*
36755287 AAACAGTAAGCTCTATCGAGCT-
1 AAACGGTAAGCTCTA-CGAGCTG
36755309 AAACGGTAAGCTCCGTA-GAGCTG
1 AAACGGTAAGCT-C-TACGAGCTG
*
36755332 AAACGGTAAGCTCATACAAGCTG
1 AAACGGTAAGCTC-TACGAGCTG
36755355 TGGTAAGTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 19 0.49
23 18 0.46
24 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
AAACGGTAAGCTCTACGAGCTG
Found at i:36772027 original size:20 final size:19
Alignment explanation
Indices: 36772004--36772059 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
36771994 ATCAATAATA
*
36772004 TAAATAAAATATTTTTTAT
1 TAAATAAAATATTTTATAT
36772023 CTAAATGTAAAAT-TTTTATAT
1 -TAAA--TAAAATATTTTATAT
36772044 TAAA-AAAATATTTTAT
1 TAAATAAAATATTTTAT
36772060 TTTAGTCTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
20 8 0.25
21 7 0.22
22 6 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TAAATAAAATATTTTATAT
Found at i:36776970 original size:2 final size:2
Alignment explanation
Indices: 36776963--36777000 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
36776953 CAATATTGAG
*
36776963 AC AC AC AC AC AC AC AC AC AC AC AC AG AC A- ATC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A-C AC AC AC
36777001 GCATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.45, G:0.03, T:0.03
Consensus pattern (2 bp):
AC
Found at i:36779097 original size:18 final size:18
Alignment explanation
Indices: 36779074--36779110 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
36779064 TATAGTTTGG
*
36779074 TATTTGATTTATTCGAAT
1 TATTTGAGTTATTCGAAT
36779092 TATTTGAGTTATTCGAAT
1 TATTTGAGTTATTCGAAT
36779110 T
1 T
36779111 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTCGAAT
Found at i:36780901 original size:84 final size:84
Alignment explanation
Indices: 36780742--36780903 Score: 236
Period size: 84 Copynumber: 1.9 Consensus size: 84
36780732 ACCTAAAAGG
* * *
36780742 GGGATTATCACGATATCGAAGCTTAGAAGTAGTGATACCCTTAACAATACTGAATTGAAAAGGAT
1 GGGAGTATCACGATATCGAAGCCTAAAAGTAGTGATACCCTTAACAATACTGAATTGAAAAGGAT
*
36780807 TAAGGCTAGCTATCTAGAA
66 CAAGGCTAGCTATCTAGAA
**
36780826 GGGAGTATCACGATATC-AGAGCCTAAAAGTAGTGATACCCTTAACAATGTTGAATTGAAAAGGA
1 GGGAGTATCACGATATCGA-AGCCTAAAAGTAGTGATACCCTTAACAATACTGAATTGAAAAGGA
* *
36780890 TCGAGGTTAGCTAT
65 TCAAGGCTAGCTAT
36780904 AATGGTATCG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 1 0.01
84 68 0.99
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (84 bp):
GGGAGTATCACGATATCGAAGCCTAAAAGTAGTGATACCCTTAACAATACTGAATTGAAAAGGAT
CAAGGCTAGCTATCTAGAA
Found at i:36782827 original size:34 final size:34
Alignment explanation
Indices: 36782779--36782852 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
36782769 AATAGAACAG
*
36782779 TATAATAACATTTTAACCTTTAAACATAT-AATAT
1 TATAACAACATTTTAACCTTTAAA-ATATAAATAT
* *
36782813 TATAACAACTTTTTAGCCTTTAAAATATAAATAT
1 TATAACAACATTTTAACCTTTAAAATATAAATAT
36782847 TA-AACA
1 TATAACA
36782853 CTTGCATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (34 bp):
TATAACAACATTTTAACCTTTAAAATATAAATAT
Found at i:36784261 original size:15 final size:16
Alignment explanation
Indices: 36784241--36784270 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36784231 TATCTTAGAT
36784241 TTTTTGGT-ATTTTTC
1 TTTTTGGTAATTTTTC
36784256 TTTTTGGTAATTTTT
1 TTTTTGGTAATTTTT
36784271 TTATTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.03, G:0.13, T:0.73
Consensus pattern (16 bp):
TTTTTGGTAATTTTTC
Found at i:36793401 original size:29 final size:29
Alignment explanation
Indices: 36793360--36793425 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
36793350 TTTAATAATA
* * *
36793360 AAATATATT-ATTATTTTATTATATTAT-
1 AAATAAATTGATTATATTATCATATTATG
36793387 AAATTAAATTGATTATATTATCATATTATG
1 AAA-TAAATTGATTATATTATCATATTATG
36793417 AAATAAATT
1 AAATAAATT
36793426 AAGAAAAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.09
28 5 0.15
29 22 0.67
30 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (29 bp):
AAATAAATTGATTATATTATCATATTATG
Found at i:36793902 original size:16 final size:15
Alignment explanation
Indices: 36793886--36793916 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
36793876 AACAAAAAGA
36793886 AATAGAAAGAAACAG
1 AATAGAAAGAAACAG
36793901 AATAGAAACGAAACAG
1 AATAGAAA-GAAACAG
36793917 GGAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.10, G:0.19, T:0.06
Consensus pattern (15 bp):
AATAGAAAGAAACAG
Found at i:36793906 original size:15 final size:16
Alignment explanation
Indices: 36793873--36793916 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
36793863 AAGCATAAAA
*
36793873 AGAAAC-AAAAAGAAAT
1 AGAAACGAAACAG-AAT
36793889 AGAAA-GAAACAGAAT
1 AGAAACGAAACAGAAT
36793904 AGAAACGAAACAG
1 AGAAACGAAACAG
36793917 GGAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.68, C:0.09, G:0.18, T:0.05
Consensus pattern (16 bp):
AGAAACGAAACAGAAT
Found at i:36793922 original size:26 final size:25
Alignment explanation
Indices: 36793869--36793954 Score: 75
Period size: 26 Copynumber: 3.4 Consensus size: 25
36793859 ATGAAAGCAT
* * **
36793869 AAAAAGAAACAAAAAGAAATAGAAAG
1 AAAAAGAAA-GAAAAGAAAAAGGGAG
* * *
36793895 AAACAGAATAGAAACGAAACAGGGAG
1 AAAAAGAA-AGAAAAGAAAAAGGGAG
36793921 AAAAAGAAAGAAAAGAAAAAGGGA-
1 AAAAAGAAAGAAAAGAAAAAGGGAG
36793945 AAGAAAGAAA
1 AA-AAAGAAA
36793955 TGAGAACTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.04
25 21 0.43
26 25 0.51
27 1 0.02
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (25 bp):
AAAAAGAAAGAAAAGAAAAAGGGAG
Found at i:36803936 original size:43 final size:43
Alignment explanation
Indices: 36803889--36804164 Score: 319
Period size: 43 Copynumber: 6.5 Consensus size: 43
36803879 GTTAAAGGCT
* * * *
36803889 ATGACCCTTAGCGGCGCTTTTGTGATAAACGCCGCTAAAGAAC
1 ATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCTAAAGAAC
* *
36803932 ATGACCTTTAGCGGCGCTTCTGTCACAAACGCCGCTAAAGAAC
1 ATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCTAAAGAAC
* * * *
36803975 A-AACCTTTAGCGACGCTTTT-TGCAAAAACGCCAC-AAAAAAC
1 ATGACCTTTAGCGACGCTTTTGT-CACAAACGCCGCTAAAGAAC
* * *** *
36804016 ATAACATTTAAAAACGCTTCTGTCACAAACGCCGCTAAAGAAC
1 ATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCTAAAGAAC
* *
36804059 ATGACCTTTAGCGGCGCTTTTGTCACAAACGTCGCTAAAGAAC
1 ATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCTAAAGAAC
**
36804102 ATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAAC
1 ATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCTAAAGAAC
36804145 A--ATCCTTTAGCGACGCTTTT
1 ATGA-CCTTTAGCGACGCTTTT
36804165 TGCAAAAACG
Statistics
Matches: 198, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
41 9 0.05
42 67 0.34
43 122 0.62
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGACCTTTAGCGACGCTTTTGTCACAAACGCCGCTAAAGAAC
Found at i:36804098 original size:170 final size:170
Alignment explanation
Indices: 36803889--36804199 Score: 541
Period size: 170 Copynumber: 1.8 Consensus size: 170
36803879 GTTAAAGGCT
* * * *
36803889 ATGACCCTTAGCGGCGCTTTTGTGATAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTG
1 ATGACCCTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTA
*
36803954 TCACAAACGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTTGCAAAAACGCCACAAAAAACATA
66 CCACAAACGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTTGCAAAAACGCCACAAAAAACATA
36804019 ACATTTAAAAACGCTTCTGTCACAAACGCCGCTAAAGAAC
131 ACATTTAAAAACGCTTCTGTCACAAACGCCGCTAAAGAAC
* * *
36804059 ATGACCTTTAGCGGCGCTTTTGTCACAAACGTCGCTAAAGAACATGACCTTTAGCGACGCTTTTA
1 ATGACCCTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTA
*
36804124 CCACAAACGCCGCTAAAGAACAATCCTTTAGCGACGCTTTTTGCAAAAACGCCACAAAAAACATA
66 CCACAAACGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTTGCAAAAACGCCACAAAAAACATA
36804189 ACATTTAAAAA
131 ACATTTAAAAA
36804200 AATATATTTT
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 132 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (170 bp):
ATGACCCTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTA
CCACAAACGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTTGCAAAAACGCCACAAAAAACATA
ACATTTAAAAACGCTTCTGTCACAAACGCCGCTAAAGAAC
Found at i:36804187 original size:127 final size:127
Alignment explanation
Indices: 36803896--36804176 Score: 352
Period size: 127 Copynumber: 2.2 Consensus size: 127
36803886 GCTATGACCC
* *
36803896 TTAGCGGCGCTTTTGTG-ATAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCACAA
1 TTAGCGACGCTTTT-TGCAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCACAA
**
36803960 ACGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTTGCAAAAACGCCACAAAAAACATAACAT
65 ACGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTACCAAAAACGCCACAAAAAACATAACAT
*** * * *
36804023 TTAAAAACGC-TTCTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCACAA
1 TTAGCGACGCTTTTTG-CAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCACAA
* * * * * * *
36804087 ACGTCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACA-ATCCT
65 ACGCCGCTAAAGAACA-AACCTTTAGCGACGCTTTTACCAAAAACGCCAC-AAAAAACATAACAT
36804151 TTAGCGACGCTTTTTGCAAAAACGCC
1 TTAGCGACGCTTTTTGCAAAAACGCC
36804177 ACAAAAAACA
Statistics
Matches: 128, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
125 2 0.02
126 2 0.02
127 66 0.52
128 47 0.37
129 11 0.09
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (127 bp):
TTAGCGACGCTTTTTGCAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCACAAA
CGCCGCTAAAGAACAAACCTTTAGCGACGCTTTTACCAAAAACGCCACAAAAAACATAACAT
Found at i:36807750 original size:22 final size:21
Alignment explanation
Indices: 36807720--36807775 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
36807710 AAACGCCGCA
*
36807720 AAAAATTATTTTATTTTTG-T
1 AAAAATTATTTTATTTCTGTT
36807740 AAAAATCTTATATTT-TTTCTGTT
1 AAAAA--TTAT-TTTATTTCTGTT
36807763 AAAAATTATTTTA
1 AAAAATTATTTTA
36807776 AAGTAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
20 8 0.27
21 4 0.13
22 9 0.30
23 9 0.30
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
AAAAATTATTTTATTTCTGTT
Found at i:36808013 original size:42 final size:42
Alignment explanation
Indices: 36807967--36808053 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 42
36807957 TTATATGGAT
*
36807967 AAATTTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCCA
1 AAATTTTTTATATGGACAAGCCCGTATAACAAAGTCGGCCCA
*
36808009 AAA-TTTTTATATGGACATGCCCGTATAACAAAGTCGGCCCA
1 AAATTTTTTATATGGACAAGCCCGTATAACAAAGTCGGCCCA
36808050 AAAT
1 AAAT
36808054 CGTAGAACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 39 0.93
42 3 0.07
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (42 bp):
AAATTTTTTATATGGACAAGCCCGTATAACAAAGTCGGCCCA
Found at i:36808406 original size:75 final size:76
Alignment explanation
Indices: 36808283--36808440 Score: 214
Period size: 75 Copynumber: 2.1 Consensus size: 76
36808273 TTTATAAATT
* * *
36808283 AATT-TTCTTGCGGCGTTTTTATGAAAACGCCACTAAATGTTTTTCTATATAAAATGG-CTA-TT
1 AATTATTCTTGCGGCGTTTTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGGACTATTT
36808345 TTTTAAAGAAA
66 TTTTAAAGAAA
* * *
36808356 AATTATTCTTGTGGCGTTTTTTATAAAAACGCCGCTAAATATTTTGCTATATGAAATGGCACTAT
1 AATTATTCTTGCGGCG-TTTTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGG-ACTAT
*
36808421 TTTTTTAAAGTAA
64 TTTTTTAAAGAAA
36808434 AATTATT
1 AATTATT
36808441 TTACTATCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
73 4 0.05
74 10 0.14
75 37 0.51
77 3 0.04
78 19 0.26
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (76 bp):
AATTATTCTTGCGGCGTTTTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGGACTATTT
TTTTAAAGAAA
Found at i:36809204 original size:82 final size:82
Alignment explanation
Indices: 36809108--36809269 Score: 247
Period size: 82 Copynumber: 2.0 Consensus size: 82
36809098 TAACCCCAAA
* * *
36809108 CCCCAAACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAA-AGCACTAATTAATCTAAA
1 CCCCAAACCACTAACCCCTAAACATTATGTAATATAGAAATTAAAACA-CACTAATTAATCTAAA
*
36809172 TCATAAACCCTAACCTGG
65 CCATAAACCCTAACCTGG
*
36809190 CCCCAAATCC-CTAACCCCTAAACATTATGTAATATATAAATTAAAACACACTAATTAATCTAAA
1 CCCCAAA-CCACTAACCCCTAAACATTATGTAATATAGAAATTAAAACACACTAATTAATCTAAA
36809254 CCATAAACCCTAACCT
65 CCATAAACCCTAACCT
36809270 AACACTAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 70 0.96
83 3 0.04
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.25
Consensus pattern (82 bp):
CCCCAAACCACTAACCCCTAAACATTATGTAATATAGAAATTAAAACACACTAATTAATCTAAAC
CATAAACCCTAACCTGG
Found at i:36809291 original size:82 final size:82
Alignment explanation
Indices: 36809120--36809293 Score: 224
Period size: 82 Copynumber: 2.1 Consensus size: 82
36809110 CCAAACCACT
* * *
36809120 AACCTCTAAACCTTATTTAATATAGAAATTAAAAAGCACTAATTAATCTAAATCATAAACCCTAA
1 AACC-CTAAACATTATGTAATATAGAAATTAAAAAGCACTAATTAATCTAAACCATAAACCCTAA
** * *
36809185 CCTGGCCCCAAATCCCTA
65 CCTAACACCAAATCCATA
* *
36809203 ACCCCTAAACATTATGTAATATATAAATTAAAACA-CACTAATTAATCTAAACCATAAACCCTAA
1 AACCCTAAACATTATGTAATATAGAAATTAAAA-AGCACTAATTAATCTAAACCATAAACCCTAA
* *
36809267 CCTAACACTAAATCTATA
65 CCTAACACCAAATCCATA
36809285 AACCCTAAA
1 AACCCTAAA
36809294 TCTCTAACTC
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
82 74 0.95
83 4 0.05
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.26
Consensus pattern (82 bp):
AACCCTAAACATTATGTAATATAGAAATTAAAAAGCACTAATTAATCTAAACCATAAACCCTAAC
CTAACACCAAATCCATA
Found at i:36809311 original size:14 final size:14
Alignment explanation
Indices: 36809285--36809321 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
36809275 TAAATCTATA
*
36809285 AACCCTAAATCTCT
1 AACCCTTAATCTCT
*
36809299 AACTCTTAATCTCT
1 AACCCTTAATCTCT
36809313 AACCCTTAA
1 AACCCTTAA
36809322 CCCCTATCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (14 bp):
AACCCTTAATCTCT
Found at i:36809386 original size:14 final size:15
Alignment explanation
Indices: 36809369--36809400 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
36809359 CTTAAATCAG
36809369 AATCCCTAATT-CAT
1 AATCCCTAATTCCAT
36809383 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
36809398 AAT
1 AAT
36809401 TTATAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:36809972 original size:42 final size:41
Alignment explanation
Indices: 36809777--36810018 Score: 358
Period size: 41 Copynumber: 5.9 Consensus size: 41
36809767 AAATGTTTTT
* **
36809777 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
36809818 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
36809859 GTGGCGCTTTTTTAAAAACGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
36809900 GCGGCGCTTTATCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
36809941 GTGGCGCTTTCTCAAAAAATGCCGCAAAAGATCTGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGATCTGAGCATTA
*
36809983 GCGGCGCTTTTTTTAAAAACGCCGCTAAAGATCTGA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGATCTGA
36810019 AAGGTACAAA
Statistics
Matches: 180, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
41 124 0.69
42 52 0.29
43 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:36810100 original size:40 final size:40
Alignment explanation
Indices: 36810050--36810185 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
36810040 GGACTTAGAC
*
36810050 TTTTT-GCGGCGTTTTTTCGAAAAACGCCGCTAATGCT-AA
1 TTTTTAGCGGCG-TTTTTCGAAAAACGCCGCTAATGCTCGA
* * * * * *
36810089 TTTTTAGCGGCGCTTTCCTAGAAACACCGCTAACGCTCGA
1 TTTTTAGCGGCGTTTTTCGAAAAACGCCGCTAATGCTCGA
* * * *
36810129 TCTTTAGCGGCGTTTTACGTAAAACGCCGCTATTGCTCGA
1 TTTTTAGCGGCGTTTTTCGAAAAACGCCGCTAATGCTCGA
*
36810169 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
36810186 TATCCAAACG
Statistics
Matches: 76, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
39 24 0.32
40 52 0.68
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCGAAAAACGCCGCTAATGCTCGA
Found at i:36814103 original size:50 final size:50
Alignment explanation
Indices: 36813975--36814169 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 50
36813965 GATAATAACA
* * ** * * *
36813975 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
36814024 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
36814074 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
36814124 TGCCAACGGCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
36814170 ATCTCAATGA
Statistics
Matches: 119, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.31
50 81 0.68
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:36822482 original size:29 final size:28
Alignment explanation
Indices: 36822421--36822487 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
36822411 CTATATGTTT
* * **
36822421 ATATTTTATAATTTTTTTAATAATTTTCT
1 ATATTTT-TAATTTTTTAAATAAATTTAA
36822450 ATATTTTTAATTTTTTAAATAAAATTTAA
1 ATATTTTTAATTTTTTAAAT-AAATTTAA
36822479 ATATTTTTA
1 ATATTTTTA
36822488 TTGAGTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (28 bp):
ATATTTTTAATTTTTTAAATAAATTTAA
Found at i:36825093 original size:3 final size:3
Alignment explanation
Indices: 36825085--36825110 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36825075 AAAGAACATA
36825085 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
36825111 AAGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36838755 original size:40 final size:41
Alignment explanation
Indices: 36838700--36838898 Score: 170
Period size: 40 Copynumber: 4.8 Consensus size: 41
36838690 GATTTTTTCC
*
36838700 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAGATGCA
* * **
36838740 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAGTTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TAGATGCA
* * * ** * * * *
36838783 ATCCGTTCCACTGCAACTTCAGGGAGATAGGA-TTAGTTTCCTTT
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGACTTAG-ATGC--A
* *
36838827 GTCTGCTCCACTACTTCTTAGGGAGATAAGACTT-GATGCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAGATGCA
*
36838867 ATCTACTCCACTACTGCTTAGGGAGATAAGAC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAC
36838899 ATGTGGTTTT
Statistics
Matches: 123, Mismatches: 28, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
40 59 0.48
41 5 0.04
42 6 0.05
43 27 0.22
44 26 0.21
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTAGATGCA
Found at i:36838876 original size:127 final size:125
Alignment explanation
Indices: 36838650--36838972 Score: 452
Period size: 127 Copynumber: 2.5 Consensus size: 125
36838640 ATGAGATTTG
* * *
36838650 GTTTTAATCCGCTCCACTGCAAATTCAGGGAGATAGTATTGATTT-TTTCCATCTGCTCCACTAC
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTG-TTTCTTT--GTCTGCTCCACTAC
* * *
36838714 TGCTTAGGGAGATAAGACTTGATGCGATTTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTA
63 TGCTTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTGCTTAGGGAGATAAGA-CATGTA
*
36838777 GTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCCTTTGTCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-GTTT-CTTTGTCTGCTCCACTACT
* *
36838842 TCTTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTGCTTAGGGAGATAAGACATGTG
64 GCTTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTGCTTAGGGAGATAAGACATGTA
* * *
36838904 GTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTGGTTTCTCTCGTCTGCTCCACTACT
1 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-GTTTCT-TTGTCTGCTCCACTACT
36838969 GCTT
64 GCTT
36838973 CTGCTTAGGG
Statistics
Matches: 176, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
126 3 0.02
127 169 0.96
128 1 0.01
129 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (125 bp):
GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTTTCTTTGTCTGCTCCACTACTGC
TTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTGCTTAGGGAGATAAGACATGTA
Found at i:36838969 original size:87 final size:87
Alignment explanation
Indices: 36838872--36839078 Score: 342
Period size: 93 Copynumber: 2.3 Consensus size: 87
36838862 ATGCAATCTA
36838872 CTCCACTACTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
36838937 TAGGATTGGTTTCTCTCGTCTG
66 TAGGATTGGTTTCTCTCGTCTG
36838959 CTCCACTACTGCTTCTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCA
1 CTCCACTA------CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCA
*
36839024 GGGAGATAGGATTGGTTTCTCTCGTCTG
60 GGAAGATAGGATTGGTTTCTCTCGTCTG
*
36839052 CTCCACTACTGCCTAGGGAGATAAGAC
1 CTCCACTACTGCTTAGGGAGATAAGAC
36839079 TTGTTGCGAT
Statistics
Matches: 112, Mismatches: 2, Indels: 12
0.89 0.02 0.10
Matches are distributed among these distances:
87 26 0.23
93 86 0.77
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGA
TAGGATTGGTTTCTCTCGTCTG
Found at i:36839025 original size:93 final size:93
Alignment explanation
Indices: 36838880--36839063 Score: 359
Period size: 93 Copynumber: 2.0 Consensus size: 93
36838870 TACTCCACTA
36838880 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTG
1 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTG
36838945 GTTTCTCTCGTCTGCTCCACTACTGCTT
66 GTTTCTCTCGTCTGCTCCACTACTGCTT
*
36838973 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTG
1 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTG
36839038 GTTTCTCTCGTCTGCTCCACTACTGC
66 GTTTCTCTCGTCTGCTCCACTACTGC
36839064 CTAGGGAGAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (93 bp):
CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTG
GTTTCTCTCGTCTGCTCCACTACTGCTT
Found at i:36839096 original size:40 final size:41
Alignment explanation
Indices: 36839048--36839243 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 41
36839038 GTTTCTCTCG
*
36839048 TCTGCTCCACTACTGCCTAGGGAGATAAGACTT-GTTGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
* ***
36839088 TCTGCTCCACTACTGCTTACGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTGCGA
** * *
36839131 TCTGCTCCACTACAACTTCAGGGAGATAGGA-TTGGTTTCCTTTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TTGC---GA
*
36839175 TCTGCTCCACTACTGCTTAGGGAGATCAGACTTGAG--GCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTTGCGA
36839215 TCTGCTCCACTACTGCTTAGGGAGATAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAG
36839244 GCATGTGGTT
Statistics
Matches: 127, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
39 1 0.01
40 56 0.44
41 5 0.04
42 5 0.04
43 30 0.24
44 29 0.23
45 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
Found at i:36839124 original size:127 final size:127
Alignment explanation
Indices: 36838973--36839253 Score: 447
Period size: 127 Copynumber: 2.2 Consensus size: 127
36838963 ACTACTGCTT
*
36838973 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTG
1 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTG
**
36839038 GTTT-CTCTCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTA
66 GTTTCCT-TCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTA
* * **
36839100 CTGCTTACGGAGATAAGACCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTG
1 CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTG
* * *
36839165 GTTTCCTTTGTCTGCTCCACTACTGCTTAGGGAGATCAGACTTGAGGCGATCTGCTCCACTA
66 GTTTCCTTCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTA
*
36839227 CTGCTTAGGGAGATAAGGCATGTGGTT
1 CTGCTTAGGGAGATAAGACATGTGGTT
36839254 CTGTCTGCTC
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
127 138 0.99
128 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (127 bp):
CTGCTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTG
GTTTCCTTCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTA
Found at i:36839141 original size:220 final size:220
Alignment explanation
Indices: 36838753--36839192 Score: 679
Period size: 220 Copynumber: 2.0 Consensus size: 220
36838743 TGCTCCACTA
**
36838753 CTGCTTAGGGAGATAAGATCTGTAGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTA
1 CTGCTTAGGGAGATAAGATCTGTAGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTA
* * *
36838818 GTTTCCTTTGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTG
66 GTTTCCTTCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTG
* *
36838883 CTTAGGGAGATAAGACATGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTGGTT
131 CTTACGGAGATAAGACATGTGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTGGTT
36838948 T-CTCTCGTCTGCTCCACTACTGCTT
196 TCCT-TCGTCTGCTCCACTACTGCTT
*
36838973 CTGCTTAGGGAGATAAGA-CATGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATT
1 CTGCTTAGGGAGATAAGATC-TGTAGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATT
* * * *
36839037 GGTTT-CTCTCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTAC
65 AGTTTCCT-TCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGATGCAATCTACTCCACTAC
* ** *
36839101 TGCTTACGGAGATAAGACCTGTGGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTGG
129 TGCTTACGGAGATAAGACATGTGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTGG
*
36839166 TTTCCTTTGTCTGCTCCACTACTGCTT
194 TTTCCTTCGTCTGCTCCACTACTGCTT
36839193 AGGGAGATCA
Statistics
Matches: 200, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
219 3 0.01
220 195 0.98
221 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (220 bp):
CTGCTTAGGGAGATAAGATCTGTAGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTA
GTTTCCTTCGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGATGCAATCTACTCCACTACTG
CTTACGGAGATAAGACATGTGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTGGTT
TCCTTCGTCTGCTCCACTACTGCTT
Found at i:36847527 original size:5 final size:5
Alignment explanation
Indices: 36847517--36847541 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36847507 AACTTAATGC
36847517 ATGTA ATGTA ATGTA ATGTA ATGTA
1 ATGTA ATGTA ATGTA ATGTA ATGTA
36847542 GATGCATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGTA
Found at i:36852293 original size:16 final size:16
Alignment explanation
Indices: 36852272--36852315 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
36852262 AAAAGAAGGA
36852272 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
*
36852288 AAAATAAGATAACAAAT
1 AAAATAAAATAA-AAAT
36852305 -AAAT-AAATAAA
1 AAAATAAAATAAA
36852316 TAAGGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 5 0.20
16 15 0.60
17 4 0.16
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:36852780 original size:2 final size:2
Alignment explanation
Indices: 36852773--36852966 Score: 279
Period size: 2 Copynumber: 99.0 Consensus size: 2
36852763 AATAGATACG
36852773 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36852815 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
36852857 TA TA TG TA CA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
36852898 TT TA TT TA TA TA TT TA TA T- TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
36852938 TA TA TA -A CA TA TA TG TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36852967 GANNNNNNNN
Statistics
Matches: 172, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
1 4 0.02
2 168 0.98
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36853212 original size:3 final size:3
Alignment explanation
Indices: 36853204--36853273 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
36853194 TATAGAAATG
* * *
36853204 ATA ATA ATAA ATA ATA ACA AGA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
36853250 ATA ATA TTA ACA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
36853274 ATAAATAATG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:36853276 original size:12 final size:11
Alignment explanation
Indices: 36853232--36853282 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
36853222 AAGAATGATA
36853232 ATAATAATAAT
1 ATAATAATAAT
36853243 AATAATAATAAT
1 -ATAATAATAAT
*
36853255 ATTAACAATAAT
1 A-TAATAATAAT
36853267 ATAATAAATAA-
1 ATAAT-AATAAT
36853278 ATAAT
1 ATAAT
36853283 GGTATAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:36856191 original size:29 final size:29
Alignment explanation
Indices: 36856156--36856267 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
36856146 AAAATTAAAA
*
36856156 TTAATAAAAGCTAT-AAATATTATAAAATT
1 TTAATAAAA-ATATCAAATATTATAAAATT
36856185 TTAATAAAAAT-TCAAATATTA-AAAA-T
1 TTAATAAAAATATCAAATATTATAAAATT
* * * *
36856211 TTATTAAAAATATGAAAAAATATAAAATT
1 TTAATAAAAATATCAAATATTATAAAATT
* * *
36856240 TT-ATAAAAATCATAAAAAATTTTAAAAT
1 TTAATAAAAAT-ATCAAATATTATAAAAT
36856268 ATATAGAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
26 11 0.16
27 12 0.17
28 20 0.29
29 26 0.38
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.36
Consensus pattern (29 bp):
TTAATAAAAATATCAAATATTATAAAATT
Found at i:36856246 original size:28 final size:27
Alignment explanation
Indices: 36856144--36856282 Score: 99
Period size: 28 Copynumber: 5.1 Consensus size: 27
36856134 ACTTTTATAA
* *
36856144 AAAAAAT-TAAAA-TTAATAAAAGCTAT
1 AAAAAATATAAAATTTTATAAAA-ATAT
* *
36856170 AAATATTATAAAATTTTAATAAAAAT-T
1 AAAAAATATAAAATTTT-ATAAAAATAT
* * *
36856197 CAAATAT-TAAAAATTTATTAAAAATAT
1 AAAAAATATAAAATTTTA-TAAAAATAT
36856224 GAAAAAATATAAAATTTTATAAAAATCAT
1 -AAAAAATATAAAATTTTATAAAAAT-AT
* * *
36856253 AAAAAATTTTAAAA-TATATAGAAATAT
1 AAAAAA-TATAAAATTTTATAAAAATAT
36856280 AAA
1 AAA
36856283 CTTTTATAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
25 1 0.01
26 20 0.22
27 15 0.17
28 30 0.34
29 23 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAAAATATAAAATTTTATAAAAATAT
Found at i:36856541 original size:17 final size:17
Alignment explanation
Indices: 36856521--36856565 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
36856511 GATTTTTATA
36856521 AAAAATTTAATTTTAAT
1 AAAAATTTAATTTTAAT
*
36856538 AAAATTTTAATTTTTAAT
1 AAAAATTTAA-TTTTAAT
36856556 -AAAATTTAAT
1 AAAAATTTAAT
36856566 CATTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAAATTTAATTTTAAT
Found at i:36856560 original size:18 final size:18
Alignment explanation
Indices: 36856512--36856562 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
36856502 TTTTTTTATG
*
36856512 ATTTTT-ATAAAAAATTTA
1 ATTTTTAAT-AAAATTTTA
36856530 A-TTTTAATAAAATTTTA
1 ATTTTTAATAAAATTTTA
36856547 ATTTTTAATAAAATTT
1 ATTTTTAATAAAATTT
36856563 AATCATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTAATAAAATTTTA
Found at i:36856576 original size:19 final size:18
Alignment explanation
Indices: 36856522--36856581 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
36856512 ATTTTTATAA
36856522 AAAATTT-A-ATTTTAAT
1 AAAATTTAATATTTTAAT
36856538 AAAATTTTAAT-TTTTAAT
1 AAAA-TTTAATATTTTAAT
*
36856556 AAAATTTAATCATTTTTAT
1 AAAATTTAAT-ATTTTAAT
*
36856575 AATATTT
1 AAAATTT
36856582 TTTTATCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 12 0.32
19 12 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTTAATATTTTAAT
Found at i:36856612 original size:21 final size:20
Alignment explanation
Indices: 36856569--36856614 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
36856559 ATTTAATCAT
*
36856569 TTTTATAATATTTTTTTATC
1 TTTTATAATATTTTTTTAAC
*
36856589 TTTTATAATTTTTTTTCTAAC
1 TTTTATAATATTTTTT-TAAC
36856610 TTTTA
1 TTTTA
36856615 ATAAGAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATAATATTTTTTTAAC
Found at i:36861308 original size:2 final size:2
Alignment explanation
Indices: 36861301--36861330 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36861291 CTATAAACTA
36861301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36861331 CATTGTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36861459 original size:2 final size:2
Alignment explanation
Indices: 36861452--36861488 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36861442 CTAACCATTA
36861452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36861489 GCTTCTTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36864771 original size:20 final size:20
Alignment explanation
Indices: 36864746--36864792 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
36864736 GATATTTGTC
36864746 TTTATATTGATATT-ACTA-TA
1 TTTATATT-ATATTGA-TATTA
36864766 TTTATATTATATTGATATTA
1 TTTATATTATATTGATATTA
36864786 TTTATAT
1 TTTATAT
36864793 CCTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTATATTGATATTA
Found at i:36865112 original size:16 final size:16
Alignment explanation
Indices: 36865093--36865123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36865083 ATATACATAC
*
36865093 TTATATTTTTTATATT
1 TTATAATTTTTATATT
36865109 TTATAATTTTTATAT
1 TTATAATTTTTATAT
36865124 ACATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATAATTTTTATATT
Found at i:36872119 original size:67 final size:67
Alignment explanation
Indices: 36871976--36872108 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 67
36871966 ATTTGAGTCA
* ** *
36871976 GCTAATTTAATATCACAACTCCAAACAGTTCACTGATTTAAGATCGCAACTAATATATTTAAGGT
1 GCTAATTTAAGATCACAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATATTTAAGGT
36872041 TT
66 TT
* ** * * *
36872043 GCTAATTTAAGATCACAAGTCCAAACAACTCGTTGATTTAATATCACGACTGATAT-TGTTAAGG
1 GCTAATTTAAGATCACAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATAT-TTAAGG
36872107 TT
65 TT
36872109 CTCTGATTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 1 0.02
67 54 0.98
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (67 bp):
GCTAATTTAAGATCACAACTCCAAACAACTCACTGATTTAAGATCACAACTAATATATTTAAGGT
TT
Found at i:36872180 original size:64 final size:63
Alignment explanation
Indices: 36872112--36872323 Score: 169
Period size: 64 Copynumber: 3.3 Consensus size: 63
36872102 TAAGGTTCTC
* *
36872112 TGATTTAATATCGTAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAAA
1 TGATTTAATATCGCAACCTAAGTTCATT-GATTTAATATCATGAACAATCTTATTTGAGTTAAA
* * * * ***
36872176 TGATTTAAGATCGCAACTCCAAATAGCTCATTGATTTAATATCGTAGTTGATATC--A-TTGAGG
1 TGATTTAATATCGCAA--CC-TA-AGTTCATTGATTTAATATCAT-GAACA-ATCTTATTTGA-G
***
36872238 TTCGT
59 TTAAA
* * * **
36872243 TGATTTAATATCACAACCTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACC
1 TGATTTAATATCGCAACCTAAGTTCA-TTGATTTAATATCATGAACAATCTTATTTGAGTTAAA
36872307 TGATTTAATATCGCAAC
1 TGATTTAATATCGCAAC
36872324 TCCAAACAAC
Statistics
Matches: 111, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
62 3 0.03
63 7 0.06
64 47 0.42
65 6 0.05
66 6 0.05
67 30 0.27
68 9 0.08
69 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (63 bp):
TGATTTAATATCGCAACCTAAGTTCATTGATTTAATATCATGAACAATCTTATTTGAGTTAAA
Found at i:36872247 original size:131 final size:131
Alignment explanation
Indices: 36872047--36872575 Score: 596
Period size: 131 Copynumber: 4.0 Consensus size: 131
36872037 AGGTTTGCTA
* * ** * **
36872047 ATTTAAGATCACAAGTCCAAACAACTCGTTGATTTAATATCAC-GACTGATATTGTTAAGGTTC-
1 ATTTAAGATCGCAACTCCAAACAACTCACTGATTTAATATCGCAG-CTGATATCATTAAGGTTCG
** *
36872110 TCTGATTTAATATCGTAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAA
65 T-TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAA
*
36872175 ATG
129 CTG
* * * * * *
36872178 ATTTAAGATCGCAACTCCAAATAGCTCATTGATTTAATATCGTAGTTGATATCATTGAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCACTGATTTAATATCGCAGCTGATATCATTAAGGTTCGT
* * * * *
36872243 TGATTTAATATCACAACCTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
36872308 G
131 G
* * *
36872309 ATTTAATATCGCAACTCCAAACAACT-AGCTGATTTAATATCGCAGTTGATATCATTAAGGTTCA
1 ATTTAAGATCGCAACTCCAAACAACTCA-CTGATTTAATATCGCAGCTGATATCATTAAGGTTCG
* * * * *
36872373 TTGATTTAATATCGCAACGTAAGTTCATTCGATTTAATTTCATGAACAATCCTATTTGAATTAGC
65 TTGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAAC
36872438 TG
130 TG
* * * * * * * * * *
36872440 ATTCAAGATCGCATCTCAAAACAACTCGCTGATTAAAAATCACAGCTAATATCGTTAAGGTTTGT
1 ATTTAAGATCGCAACTCCAAACAACTCACTGATTTAATATCGCAGCTGATATCATTAAGGTTCGT
* * * ** *
36872505 TGATTTAATATCACAATCTAAGTTAATTCGATTTAATATCATGAACAATCTCATTTGTGTTAGCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
36872570 G
131 G
36872571 ATTTA
1 ATTTA
36872576 CTAATCACTA
Statistics
Matches: 336, Mismatches: 58, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
130 1 0.00
131 333 0.99
132 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (131 bp):
ATTTAAGATCGCAACTCCAAACAACTCACTGATTTAATATCGCAGCTGATATCATTAAGGTTCGT
TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
G
Found at i:36872509 original size:262 final size:262
Alignment explanation
Indices: 36872047--36872575 Score: 666
Period size: 262 Copynumber: 2.0 Consensus size: 262
36872037 AGGTTTGCTA
* * * **
36872047 ATTTAAGATCACAAGTCCAAACAACTCGTTGATTTAATATCACGACTGATATTGTTAAGGTTCTC
1 ATTTAAGATCACAACTCCAAACAACTAGCTGATTTAATATCACGACTGATATCATTAAGGTTCTC
* * *
36872112 TGATTTAATATCGTAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAAAT
66 TGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCCTATTTGAATTAAAT
* * * * * * * ** * * *
36872177 GATTTAAGATCGCAACTCCAAATAGCTCATTGATTTAATATCGTAGTTGATATCATTGAGGTTCG
131 GATTCAAGATCGCAACTCAAAACAACTCACTGATTAAAAATCACAGCTAATATCATTAAGGTTCG
* * **
36872242 TTGATTTAATATCACAACCTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACC
196 TTGATTTAATATCACAACCTAAGTTAATTCGATTTAATACCATGAACAATCTCATTTGAGTTACC
36872307 TG
261 TG
* * * *
36872309 ATTTAATATCGCAACTCCAAACAACTAGCTGATTTAATATCGC-AGTTGATATCATTAAGGTTCA
1 ATTTAAGATCACAACTCCAAACAACTAGCTGATTTAATATCACGA-CTGATATCATTAAGGTTC-
* * *
36872373 T-TGATTTAATATCGCAACGTAAGTTCATTCGATTTAATTTCATGAACAATCCTATTTGAATTAG
64 TCTGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCCTATTTGAATTAA
* * * *
36872437 CTGATTCAAGATCGCATCTCAAAACAACTCGCTGATTAAAAATCACAGCTAATATCGTTAAGGTT
129 ATGATTCAAGATCGCAACTCAAAACAACTCACTGATTAAAAATCACAGCTAATATCATTAAGGTT
* * * *
36872502 TGTTGATTTAATATCACAATCTAAGTTAATTCGATTTAATATCATGAACAATCTCATTTGTGTTA
194 CGTTGATTTAATATCACAACCTAAGTTAATTCGATTTAATACCATGAACAATCTCATTTGAGTTA
*
36872567 GCTG
259 CCTG
36872571 ATTTA
1 ATTTA
36872576 CTAATCACTA
Statistics
Matches: 225, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
261 1 0.00
262 223 0.99
263 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (262 bp):
ATTTAAGATCACAACTCCAAACAACTAGCTGATTTAATATCACGACTGATATCATTAAGGTTCTC
TGATTTAATATCGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCCTATTTGAATTAAAT
GATTCAAGATCGCAACTCAAAACAACTCACTGATTAAAAATCACAGCTAATATCATTAAGGTTCG
TTGATTTAATATCACAACCTAAGTTAATTCGATTTAATACCATGAACAATCTCATTTGAGTTACC
TG
Found at i:36887354 original size:3 final size:3
Alignment explanation
Indices: 36887346--36887372 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
36887336 GGAGCCAAAT
36887346 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
36887373 AGCTTGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:36888094 original size:23 final size:23
Alignment explanation
Indices: 36888051--36888109 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
36888041 CGTACTTCGG
* *
36888051 TGTTGTCCCGTTACACGCTTTGA
1 TGTTGTCTCGTTACACACTTTGA
* *
36888074 TGTTGTCTCGTTACGCACTTTGG
1 TGTTGTCTCGTTACACACTTTGA
* *
36888097 TATTGTCTTGTTA
1 TGTTGTCTCGTTA
36888110 TACGCTTCGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (23 bp):
TGTTGTCTCGTTACACACTTTGA
Found at i:36892477 original size:19 final size:20
Alignment explanation
Indices: 36892436--36892477 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
36892426 ATTTCTATGC
* *
36892436 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
36892456 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
36892475 CAT
1 CAT
36892478 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:36909785 original size:17 final size:16
Alignment explanation
Indices: 36909759--36909795 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
36909749 GACGAAAATC
*
36909759 AAAAAGAAAAAAAATGG
1 AAAAACAAAAAAAA-GG
36909776 AAAAACAAAAAAAAGG
1 AAAAACAAAAAAAAGG
36909792 AAAA
1 AAAA
36909796 TAAGTAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAAACAAAAAAAAGG
Found at i:36910107 original size:8 final size:8
Alignment explanation
Indices: 36910094--36910131 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
36910084 AGAATAGGGG
*
36910094 AAAAAAGC
1 AAAAAAGA
36910102 AAAAAA-A
1 AAAAAAGA
36910109 AAAAAA-A
1 AAAAAAGA
36910116 AAAAAAGA
1 AAAAAAGA
36910124 AAAAAAGA
1 AAAAAAGA
36910132 GGGAGAGACG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 13 0.46
8 15 0.54
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:36910173 original size:3 final size:3
Alignment explanation
Indices: 36910165--36910223 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
36910155 ATGAAAGGAA
36910165 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36910213 AAT AAT AAT AA
1 AAT AAT AAT AA
36910224 AAGAATTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36911683 original size:17 final size:18
Alignment explanation
Indices: 36911642--36911683 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36911632 CAATCACTGT
*
36911642 ATATCAAATATTAATTAA
1 ATATTAAATATTAATTAA
36911660 ATATTAAATA-TAA-TAA
1 ATATTAAATATTAATTAA
36911676 ATACTTAA
1 ATA-TTAA
36911684 TAAATTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATTAAATATTAATTAA
Found at i:36913096 original size:30 final size:31
Alignment explanation
Indices: 36913045--36913107 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
36913035 AGTTTATATC
* *
36913045 TTTATAATTTTTAATACGTTAAATTA-AATT
1 TTTATAATTTTTAAAACGTTAAAATATAATT
*
36913075 TTTAT-ATTTTTAAAAAGGTTAAAATATAATT
1 TTTATAATTTTT-AAAACGTTAAAATATAATT
36913106 TT
1 TT
36913108 ATTTTTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.21
30 16 0.57
31 6 0.21
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTTAAAACGTTAAAATATAATT
Found at i:36919290 original size:43 final size:43
Alignment explanation
Indices: 36919183--36919292 Score: 102
Period size: 43 Copynumber: 2.6 Consensus size: 43
36919173 CTCGTACAAT
* * * *
36919183 GCCAACGTCCCTGACGTGGACTTACATGTAATCACATATTGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATTGAA
* *
36919226 GAC-ACTGTCCCAAACAG-GGTCTTACACGTATAT-ACA-ATTCGAA
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTA-ATCACATATT-GAA
36919269 GCCAACGTCCCAGACGTGGTCTTA
1 GCCAACGTCCCAGACGTGGTCTTA
36919293 TACGAAAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
42 6 0.11
43 42 0.79
44 5 0.09
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATTGAA
Found at i:36921395 original size:15 final size:16
Alignment explanation
Indices: 36921371--36921407 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
36921361 TTTATATATT
36921371 AAAT-ATAAAAGT-TA
1 AAATAATAAAAGTATA
36921385 AAATAATAAAAGTATA
1 AAATAATAAAAGTATA
*
36921401 ATATAAT
1 AAATAAT
36921408 GTTATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AAATAATAAAAGTATA
Found at i:36922256 original size:28 final size:28
Alignment explanation
Indices: 36922224--36922295 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
36922214 TAATGAGATT
* *
36922224 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* *
36922252 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
36922280 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
36922296 ACTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Found at i:36922301 original size:24 final size:24
Alignment explanation
Indices: 36922224--36922304 Score: 63
Period size: 28 Copynumber: 3.0 Consensus size: 24
36922214 TAATGAGATT
* *
36922224 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGA----AATTATTA
36922252 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGA-A---ATTATTA
*
36922280 AGCACTAAGTGTGCGAACTTATTA
1 AGCACTAAGTGTGCGAAATTATTA
36922304 A
1 A
36922305 ATATTTTCGA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
24 7 0.15
25 1 0.02
27 1 0.02
28 37 0.80
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (24 bp):
AGCACTAAGTGTGCGAAATTATTA
Found at i:36924117 original size:25 final size:25
Alignment explanation
Indices: 36924083--36924145 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
36924073 GAATGATATG
36924083 TATATATATGTATCATGTTCGAAAA
1 TATATATATGTATCATGTTCGAAAA
36924108 TATATATATGTATCATGTTCGAAAA
1 TATATATATGTATCATGTTCGAAAA
36924133 TATATATATGTAT
1 TATATATATGTAT
36924146 AAATTCTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (25 bp):
TATATATATGTATCATGTTCGAAAA
Found at i:36924849 original size:41 final size:41
Alignment explanation
Indices: 36924787--36925013 Score: 409
Period size: 41 Copynumber: 5.5 Consensus size: 41
36924777 GACTTTAAGT
* *
36924787 CTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGTTACAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
36924828 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
36924869 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
36924910 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
36924951 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
36924992 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
36925014 ATATGTTAAA
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 180 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:36925994 original size:23 final size:23
Alignment explanation
Indices: 36925965--36926304 Score: 277
Period size: 23 Copynumber: 14.5 Consensus size: 23
36925955 TGATGCTTAA
36925965 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
36925988 ATACTGCTCAATTTGTTGCATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
36926011 ATGCTGTCCAATTT-TTGATGCTTAA
1 ATGCTGCCCAATTTGTTG-T--ATAT
*
36926036 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
* ** *
36926059 ATGCTACCCAAAGTGTTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
36926082 ATGCTGCCTAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* * * *
36926107 ATGATGCTCAATTTGTTGTTTTT
1 ATGCTGCCCAATTTGTTGTATAT
*
36926130 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
36926153 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * *
36926177 ATGCTGCTCAATTTGGTATATAA
1 ATGCTGCCCAATTTGTTGTATAT
*
36926200 ATGCTGCCCAATTCGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
36926223 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
*
36926248 ATGCTGCTCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
36926271 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
36926294 ATGCTGTCCAA
1 ATGCTGCCCAA
36926305 ATTTTGGTGT
Statistics
Matches: 241, Mismatches: 67, Indels: 18
0.74 0.21 0.06
Matches are distributed among these distances:
22 3 0.01
23 171 0.71
24 17 0.07
25 47 0.20
26 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.42
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:36926053 original size:71 final size:71
Alignment explanation
Indices: 36925963--36926324 Score: 471
Period size: 71 Copynumber: 5.1 Consensus size: 71
36925953 TTTGATGCTT
* * * * *
36925963 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
*
36926028 ATGCT-T
66 ATG-TAA
* * * * *
36926034 AAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAAGTGTTATATATATGCTG-CCTAATTTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCC-AATTTTT
*
36926098 GGTGTAA
65 GATGTAA
* * *
36926105 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAAATTGTTGTATATATGCTGTCCAA-TTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
36926169 ATGTAA
66 ATGTAA
* * *
36926175 AAATGCTGCTCAATTTGGTATATAAATGCTGCCC-AATTCGTTGTATATATGCTGTCCAATTTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATT-GTTGTATATATGCTGTCCAATTTTT
*
36926239 GGTGTAA
65 GATGTAA
*
36926246 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
* *
36926311 GTGTGA
66 ATGTAA
36926317 AAATGCTG
1 AAATGCTG
36926325 TCTTGTTTGG
Statistics
Matches: 256, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
69 4 0.02
70 61 0.24
71 185 0.72
72 6 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (71 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAATTTTTG
ATGTAA
Found at i:36926323 original size:48 final size:45
Alignment explanation
Indices: 36925962--36926304 Score: 184
Period size: 48 Copynumber: 7.3 Consensus size: 45
36925952 TTTTGATGCT
* * * * * *
36925962 TAAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCA
1 TAAATGCTG-CCAATTTGTTGTATAAATGCTGCCCAAATTGGTGTA
* * * *
36926008 TATATGCTGTCCAATTT-TTGATGCTTAAATGCTGCCCAATTTGTTGTA
1 TAAATGCTG-CCAATTTGTTG-T--ATAAATGCTGCCCAAATTGGTGTA
** * ** * * * *
36926056 TTTATGCTACCCAAAGTGTTATATATATGCTGCCTAATTTTTGGTGTA
1 TAAATGCT-GCCAATTTGTTGTATAAATGCTGCCCAA--ATTGGTGTA
* * * ** *
36926104 AAAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAAATTGTTGTA
1 TAAATGCTGC-CAATTTGTTGTATAAATGCTGCCCAAATTGGTGTA
* * * * * *
36926150 TATATGCTGTCCAATTTTGATGTAAAAATGCTGCTCAATTTGGTATA
1 TAAATGCTG-CCAA-TTTGTTGTATAAATGCTGCCCAAATTGGTGTA
* * * *
36926197 TAAATGCTGCCCAATTCGTTGTATATATGCTGTCCAATTTTTGGTGTA
1 TAAATGCTG-CCAATTTGTTGTATAAATGCTGCCCAA--ATTGGTGTA
* * *
36926245 AAAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTA
1 TAAATGCTGC-CAATTTGTTGTATAAATGCTGCCCAAATTGGTGTA
*
36926291 TATATGCTGTCCAA
1 TAAATGCTG-CCAA
36926305 ATTTTGGTGT
Statistics
Matches: 226, Mismatches: 57, Indels: 28
0.73 0.18 0.09
Matches are distributed among these distances:
45 3 0.01
46 78 0.35
47 39 0.17
48 104 0.46
49 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (45 bp):
TAAATGCTGCCAATTTGTTGTATAAATGCTGCCCAAATTGGTGTA
Found at i:36926325 original size:25 final size:24
Alignment explanation
Indices: 36926130--36926376 Score: 147
Period size: 23 Copynumber: 10.5 Consensus size: 24
36926120 TGTTGTTTTT
* * *
36926130 ATGCTGCCCAAA-TTGTTGTATAT
1 ATGCTGTCCAAATTTGGTGTATAA
* * *
36926153 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAAATTTGGTGTATAA
*
36926177 ATGCTG-CTC-AATTTGGTATATAA
1 ATGCTGTC-CAAATTTGGTGTATAA
* * * *
36926200 ATGCTG-CCCAATTCGTTGTATAT
1 ATGCTGTCCAAATTTGGTGTATAA
* *
36926223 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA-ATTTGGTGTATAA
* *
36926248 ATGCTG-CTC-AATTTGTTGTATAT
1 ATGCTGTC-CAAATTTGGTGTATAA
* * *
36926271 ATGCTGCCCAAA-TTGTTGTATAT
1 ATGCTGTCCAAATTTGGTGTATAA
36926294 ATGCTGTCCAAATTTTGGTGTGA-AA
1 ATGCTGTCCAAA-TTTGGTGT-ATAA
*** *
36926319 ATGCTGT-CTTGTTTGGTATATAA
1 ATGCTGTCCAAATTTGGTGTATAA
* *
36926342 ATGATGTCCAAA-TTGATGTATAA
1 ATGCTGTCCAAATTTGGTGTATAA
36926365 GA-GCTGTCCAAA
1 -ATGCTGTCCAAA
36926377 CAGGGTAGAT
Statistics
Matches: 173, Mismatches: 37, Indels: 28
0.73 0.16 0.12
Matches are distributed among these distances:
22 2 0.01
23 115 0.66
24 26 0.15
25 29 0.17
26 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (24 bp):
ATGCTGTCCAAATTTGGTGTATAA
Found at i:36926353 original size:71 final size:70
Alignment explanation
Indices: 36925963--36926376 Score: 370
Period size: 71 Copynumber: 5.8 Consensus size: 70
36925953 TTTGATGCTT
* * * * * * * *
36925963 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGGTATATAAATGCTGC-CAAATTGTTGTATATATGCTGTCCAAATTTTG
* *
36926028 ATGCT-T
65 GTG-TAA
* * * ** * * * *
36926034 AAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAAGTGTTATATATATGCTG-CCTAATTTTT
1 AAATGCTGCTCAATTTGGTATATAAATGCT-GCCAAATTGTTGTATATATGCTGTCC-AAATTTT
36926098 GGTGTAA
64 GGTGTAA
* * * * **
36926105 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAAATTGTTGTATATATGCTGTCC-AATTTTG
1 AAATGCTGCTCAATTTGGTATATAAATGCTG-CCAAATTGTTGTATATATGCTGTCCAAATTTTG
*
36926169 ATGTAA
65 GTGTAA
* *
36926175 AAATGCTGCTCAATTTGGTATATAAATGCTGCCCAATTCGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGGTATATAAATGCTGCCAAATT-GTTGTATATATGCTGTCCAAATTTTG
36926240 GTGTAA
65 GTGTAA
* * *
36926246 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTG
1 AAATGCTGCTCAATTTGGTATATAAATGCTG-CCAAATTGTTGTATATATGCTGTCCAAATTTTG
*
36926311 GTGTGA
65 GTGTAA
** * * *
36926317 AAATGCTG-TCTTGTTTGGTATATAAATGATGTCCAAATTGATGTATA-AGAGCTGTCCAAA
1 AAATGCTGCTC-AATTTGGTATATAAATGCTG-CCAAATTGTTGTATATA-TGCTGTCCAAA
36926377 CAGGGTAGAT
Statistics
Matches: 292, Mismatches: 41, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
69 6 0.02
70 60 0.21
71 217 0.74
72 9 0.03
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (70 bp):
AAATGCTGCTCAATTTGGTATATAAATGCTGCCAAATTGTTGTATATATGCTGTCCAAATTTTGG
TGTAA
Found at i:36926355 original size:212 final size:212
Alignment explanation
Indices: 36925963--36926363 Score: 502
Period size: 212 Copynumber: 1.9 Consensus size: 212
36925953 TTTGATGCTT
* * * * *
36925963 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTG
1 AAATGCTGCCCAATTTGGTATATAAATACTGCCCAATTCGTTGCATATATGCTGTCCAATTTTTG
* *
36926028 ATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTACCCAAAGTGTTATATATATGCTGCCTAA
66 ATGCTAAAATGCTGCCCAATTTGTTGTATATATGCTACCCAAAGTGTTATATATATGCTGCCTAA
* * * * ** * *
36926093 TTTTTGGTGTAAAAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAAATTGTTGTATATATGCT
131 ATTTTGGTGTAAAAATGATGCTCAATTTGGTATATAAATGATGCCCAAATTGATGTATATATGCT
36926158 GTCCAATTTTGATGTAA
196 GTCCAATTTTGATGTAA
* * *
36926175 AAATGCTGCTCAATTTGGTATATAAATGCTGCCCAATTCGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCCCAATTTGGTATATAAATACTGCCCAATTCGTTGCATATATGCTGTCCAATTTTTG
* * * * *
36926240 GTG-TAAAAATGCTGCTCAATTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCC-
66 ATGCT-AAAATGCTGCCCAATTTGTTGTATATATGCTACCCAAAGTGTTATATATATGCTG-CCT
* * ** *
36926303 AAATTTTGGTGTGAAAATGCTG-TCTTGTTTGGTATATAAATGATGTCCAAATTGATGTATA
129 AAATTTTGGTGTAAAAATGATGCTC-AATTTGGTATATAAATGATGCCCAAATTGATGTATA
36926364 AGAGCTGTCC
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
211 3 0.02
212 153 0.97
213 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (212 bp):
AAATGCTGCCCAATTTGGTATATAAATACTGCCCAATTCGTTGCATATATGCTGTCCAATTTTTG
ATGCTAAAATGCTGCCCAATTTGTTGTATATATGCTACCCAAAGTGTTATATATATGCTGCCTAA
ATTTTGGTGTAAAAATGATGCTCAATTTGGTATATAAATGATGCCCAAATTGATGTATATATGCT
GTCCAATTTTGATGTAA
Found at i:36931178 original size:13 final size:14
Alignment explanation
Indices: 36931159--36931192 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
36931149 AAGGACTAAT
36931159 TTATAAAATATATA
1 TTATAAAATATATA
36931173 -TAT-AAATATATA
1 TTATAAAATATATA
36931185 TTATAAAA
1 TTATAAAA
36931193 AATTGGACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.50
13 6 0.33
14 3 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTATAAAATATATA
Found at i:36931414 original size:15 final size:16
Alignment explanation
Indices: 36931394--36931435 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36931384 ATCCCAAAGA
36931394 TATTTTATTTTTT-TC
1 TATTTTATTTTTTGTC
36931409 TATTTT-TTTTTTGTC
1 TATTTTATTTTTTGTC
*
36931424 TTTTTTACTTTT
1 TATTTTA-TTTT
36931436 AGAATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.26
15 13 0.57
17 4 0.17
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (16 bp):
TATTTTATTTTTTGTC
Found at i:36934777 original size:4 final size:4
Alignment explanation
Indices: 36934768--36934832 Score: 89
Period size: 4 Copynumber: 16.2 Consensus size: 4
36934758 GGGCAGAAGG
*
36934768 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGGAGA GGAA AGAA AG-A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA
36934817 A-AA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA A
36934833 AGGAAAGGNN
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
3 4 0.07
4 46 0.84
5 4 0.07
6 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:36934969 original size:22 final size:22
Alignment explanation
Indices: 36934944--36935029 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 22
36934934 NNNNNNNAAA
*
36934944 GAAAGAAAGAAG-GAAAGAAAAG
1 GAAAG-AAGAAGAGAAAAAAAAG
*
36934966 GAAAGGAGAAGAGAAAAAAAA-
1 GAAAGAAGAAGAGAAAAAAAAG
** **
36934987 G-AAGAAGAAGAGGGAAGGAAG
1 GAAAGAAGAAGAGAAAAAAAAG
* *
36935008 GAAAAAAAAAGA-AAAAAAAAG
1 GAAAGAAGAAGAGAAAAAAAAG
36935029 G
1 G
36935030 TAATTTTATT
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
20 14 0.29
21 13 0.27
22 21 0.44
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
GAAAGAAGAAGAGAAAAAAAAG
Found at i:36934992 original size:17 final size:18
Alignment explanation
Indices: 36934945--36934994 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
36934935 NNNNNNAAAG
36934945 AAAG-AAAGAAGGAA-AGA
1 AAAGAAAAGAA-GAAGAGA
* *
36934962 AAAGGAAAGGAGAAGAGA
1 AAAGAAAAGAAGAAGAGA
36934980 AAA-AAAAGAAGAAGA
1 AAAGAAAAGAAGAAGA
36934995 AGAGGGAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGAAGAAGAGA
Found at i:36939655 original size:18 final size:18
Alignment explanation
Indices: 36939634--36939679 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 18
36939624 TGATCGCCAC
*
36939634 CACCTTCTTCTTCGCCGG
1 CACCTTCTTCTTCGCCGA
36939652 CA-C--CTTCTTCGCCGA
1 CACCTTCTTCTTCGCCGA
36939667 CACCTTCTTCTTC
1 CACCTTCTTCTTC
36939680 ACCACCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 13 0.54
16 1 0.04
17 1 0.04
18 9 0.38
ACGTcount: A:0.09, C:0.46, G:0.11, T:0.35
Consensus pattern (18 bp):
CACCTTCTTCTTCGCCGA
Found at i:36939660 original size:15 final size:15
Alignment explanation
Indices: 36939640--36939676 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
36939630 CCACCACCTT
*
36939640 CTTCTTCGCCGGCAC
1 CTTCTTCGCCGACAC
36939655 CTTCTTCGCCGACAC
1 CTTCTTCGCCGACAC
36939670 CTTCTTC
1 CTTCTTC
36939677 TTCACCACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.46, G:0.14, T:0.32
Consensus pattern (15 bp):
CTTCTTCGCCGACAC
Found at i:36940348 original size:36 final size:35
Alignment explanation
Indices: 36940308--36940423 Score: 119
Period size: 36 Copynumber: 3.6 Consensus size: 35
36940298 CTTAAAAAAT
36940308 ATTTTATACTCAAAATAATACACGCTAAAATTATTA
1 ATTTTATACTCAAAATAATACAC-CTAAAATTATTA
*
36940344 ATTTTATACTC--AA-AATA-A--T---ATTAATA
1 ATTTTATACTCAAAATAATACACCTAAAATTATTA
36940370 ATTTTATACTCAAAATAATACACACTAAAATTATTA
1 ATTTTATACTCAAAATAATACAC-CTAAAATTATTA
*
36940406 A-TTT-TACTAAAAATAATA
1 ATTTTATACTCAAAATAATA
36940424 ACTAACTAAC
Statistics
Matches: 67, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
26 17 0.25
28 2 0.03
29 5 0.07
30 1 0.01
32 1 0.01
33 5 0.07
34 15 0.22
35 3 0.04
36 18 0.27
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (35 bp):
ATTTTATACTCAAAATAATACACCTAAAATTATTA
Found at i:36940371 original size:26 final size:26
Alignment explanation
Indices: 36940337--36940389 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
36940327 ACACGCTAAA
*
36940337 ATTATTAATTTTATACTCAAAATAAT
1 ATTAATAATTTTATACTCAAAATAAT
36940363 ATTAATAATTTTATACTCAAAATAAT
1 ATTAATAATTTTATACTCAAAATAAT
36940389 A
1 A
36940390 CACACTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAATAATTTTATACTCAAAATAAT
Found at i:36940405 original size:62 final size:60
Alignment explanation
Indices: 36940308--36940423 Score: 196
Period size: 62 Copynumber: 1.9 Consensus size: 60
36940298 CTTAAAAAAT
* *
36940308 ATTTTATACTCAAAATAATACACGCTAAAATTATTAATTTTATACTCAAAATAATATTAATA
1 ATTTTATACTCAAAATAATACACACTAAAATTATTAA-TTT-TACTAAAAATAATATTAATA
36940370 ATTTTATACTCAAAATAATACACACTAAAATTATTAATTTTACTAAAAATAATA
1 ATTTTATACTCAAAATAATACACACTAAAATTATTAATTTTACTAAAAATAATA
36940424 ACTAACTAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 13 0.25
61 3 0.06
62 36 0.69
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (60 bp):
ATTTTATACTCAAAATAATACACACTAAAATTATTAATTTTACTAAAAATAATATTAATA
Found at i:36940587 original size:3 final size:3
Alignment explanation
Indices: 36940579--36940628 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
36940569 TCTTAATACT
36940579 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
36940627 AA
1 AA
36940629 TAATAATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:36940864 original size:11 final size:11
Alignment explanation
Indices: 36940848--36940885 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
36940838 AAAAATACCT
*
36940848 TCTTTTTTTCC
1 TCTTTTTCTCC
36940859 TCTTTTTCT-C
1 TCTTTTTCTCC
*
36940869 TCTTTTTCTCT
1 TCTTTTTCTCC
36940880 TCTTTT
1 TCTTTT
36940886 CCGCAGCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTTTTTCTCC
Found at i:36940886 original size:10 final size:10
Alignment explanation
Indices: 36940852--36940885 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
36940842 ATACCTTCTT
36940852 TTTTTC-CTC
1 TTTTTCTCTC
36940861 TTTTTCTCTC
1 TTTTTCTCTC
36940871 TTTTTCTCTTC
1 TTTTTCTC-TC
36940882 TTTT
1 TTTT
36940886 CCGCAGCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 11 0.48
11 6 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:36941012 original size:27 final size:26
Alignment explanation
Indices: 36940966--36941030 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 26
36940956 AATACGAGTA
36940966 GTGCCGCCAATTAGTATGGCACCATTG
1 GTGCCGCCAA-TAGTATGGCACCATTG
* *
36940993 GTTCCGCCAATGGTATTGGCACCATTG
1 GTGCCGCCAATAGTA-TGGCACCATTG
36941020 GTGCCGCCAAT
1 GTGCCGCCAAT
36941031 CCCATTGGCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (26 bp):
GTGCCGCCAATAGTATGGCACCATTG
Found at i:36941037 original size:27 final size:27
Alignment explanation
Indices: 36940982--36941039 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
36940972 CCAATTAGTA
* ***
36940982 TGGCACCATTGGTTCCGCCAATGGTAT
1 TGGCACCATTGGTGCCGCCAATCCCAT
36941009 TGGCACCATTGGTGCCGCCAATCCCAT
1 TGGCACCATTGGTGCCGCCAATCCCAT
36941036 TGGC
1 TGGC
36941040 GTGACCAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATCCCAT
Found at i:36941123 original size:21 final size:22
Alignment explanation
Indices: 36941099--36941141 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36941089 TTAGTTTTTT
36941099 TATA-TATTTTGGTAAATAAAA
1 TATATTATTTTGGTAAATAAAA
*
36941120 TATATTTTTTTGGTAAATAAAA
1 TATATTATTTTGGTAAATAAAA
36941142 AAAGTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (22 bp):
TATATTATTTTGGTAAATAAAA
Found at i:36942010 original size:5 final size:5
Alignment explanation
Indices: 36942002--36942031 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
36941992 ATAATATAAA
36942002 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
36942032 TACTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:36942099 original size:23 final size:20
Alignment explanation
Indices: 36942053--36942102 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 20
36942043 TTTTTTCTTC
*
36942053 TTTCATTTTCCTTCTCTTTTG
1 TTTC-TTTTCCTTCTCTTTCG
36942074 TTTCTTTTCCTACTCTCCTTTCG
1 TTTCTTTTCCT--TCT-CTTTCG
36942097 TTTCTT
1 TTTCTT
36942103 CACTAGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 4 0.16
22 3 0.12
23 11 0.44
ACGTcount: A:0.04, C:0.28, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTCTTTTCCTTCTCTTTCG
Found at i:36950116 original size:16 final size:17
Alignment explanation
Indices: 36950095--36950132 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36950085 TTATAATTCT
36950095 TTTAAGTAT-AATATAA
1 TTTAAGTATAAATATAA
36950111 TTTAAGTATAAATATAA
1 TTTAAGTATAAATATAA
*
36950128 ATTAA
1 TTTAA
36950133 ATTATTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAGTATAAATATAA
Found at i:36951229 original size:15 final size:16
Alignment explanation
Indices: 36951209--36951243 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
36951199 TCGTAATTAT
36951209 AAATTATTTGAC-AAA
1 AAATTATTTGACTAAA
*
36951224 AAATTATTTTACTAAA
1 AAATTATTTGACTAAA
36951240 AAAT
1 AAAT
36951244 ACCTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (16 bp):
AAATTATTTGACTAAA
Found at i:36951537 original size:22 final size:22
Alignment explanation
Indices: 36951511--36951553 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
36951501 TTTTGAGAAT
*
36951511 AAACCTTTATAAAGGTTCAAAG
1 AAACCTTTATAAAAGTTCAAAG
36951533 AAACCTTTATAAAAGTTCAAA
1 AAACCTTTATAAAAGTTCAAA
36951554 TTGACAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (22 bp):
AAACCTTTATAAAAGTTCAAAG
Found at i:36952506 original size:15 final size:15
Alignment explanation
Indices: 36952476--36952504 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36952466 ACTATTAGTA
36952476 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
36952491 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
36952505 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:36954433 original size:128 final size:129
Alignment explanation
Indices: 36954204--36954452 Score: 340
Period size: 128 Copynumber: 1.9 Consensus size: 129
36954194 AGAGAATTTT
* * * *
36954204 GTTCTTTGTTTTGAAGGGTTTTTTCTTGTGGAGCTTCAGGTTTTTCTTTTAATTCTCTCCATCTT
1 GTTCTTTGTTTCGAAGGGTTTTTTCTTGTGGAGCTTCAAGTTTTTCTTTTAATGCTCTCCATATT
*
36954269 TTGTACTCTAATTTATTATAGCAAAATCTTCTTTTGTCCATAGTTTTTAATCCTCTCTTTAGGA
66 TTGTACTCTAACTTATTATAGCAAAATCTTCTTTTGTCCATAGTTTTTAATCCTCTCTTTAGGA
* * *
36954333 GTTCTTTGTTTCGAAGGG-TTTTTCTTGTGGGGTTTTAAGTTTTTCTTTTAATGCTCTCCATATT
1 GTTCTTTGTTTCGAAGGGTTTTTTCTTGTGGAGCTTCAAGTTTTTCTTTTAATGCTCTCCATATT
* * ** ** *
36954397 TTGTTCTCTCACTTATTATAGTGAAAT-TTCCTTTTGTCTGTAGTTTTTTATCCTCT
66 TTGTACTCTAACTTATTATAGCAAAATCTT-CTTTTGTCCATAGTTTTTAATCCTCT
36954453 TTTGAGAAGT
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
127 2 0.02
128 85 0.82
129 17 0.16
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.53
Consensus pattern (129 bp):
GTTCTTTGTTTCGAAGGGTTTTTTCTTGTGGAGCTTCAAGTTTTTCTTTTAATGCTCTCCATATT
TTGTACTCTAACTTATTATAGCAAAATCTTCTTTTGTCCATAGTTTTTAATCCTCTCTTTAGGA
Found at i:36958474 original size:29 final size:26
Alignment explanation
Indices: 36958426--36958479 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
36958416 AAGCCCTTTT
*
36958426 TAAAAAAAATTACTGAAATGGACCCAG
1 TAAAAAAAATTACCGAAAT-GACCCAG
*
36958453 TAAAAAATTAATTACCGGAATGACCCA
1 TAAAAAA--AATTACCGAAATGACCCA
36958480 AATCCCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (26 bp):
TAAAAAAAATTACCGAAATGACCCAG
Found at i:36959030 original size:126 final size:126
Alignment explanation
Indices: 36958881--36959421 Score: 895
Period size: 126 Copynumber: 4.3 Consensus size: 126
36958871 TTTAAAAAAA
** *
36958881 CTCCCACGTGGACGCTTTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTA
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
* *
36958946 AGCAAATAGTGTCAAGAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACACTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* *
36959007 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGACAAAATAATTTCGAGAAGATGTTTCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
* *
36959072 AGCAAATAGTGTCAAAAACACTTTAAGCAGGATACTTTGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACACTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* *
36959133 CTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTTCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
36959198 AGCAAATAGTGTCAAAAA-AGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
66 AGCAAATAGTGTCAAAAACA-CTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* * *
36959259 CTCCTACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACATTTCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
* * *
36959324 AGCAAATAGTTTCAAAAACACCTTAAGTAGGATGCTTTGTCAGCAAAAGTACTAAAAGAAG
66 AGCAAATAGTGTCAAAAACACTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
* *
36959385 TTCCCACGTGGACGCGCTTTTGCTACAGTAGTTCCTG
1 CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
36959422 TTTGGCCTGA
Statistics
Matches: 389, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
125 1 0.00
126 387 0.99
127 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
CTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
AGCAAATAGTGTCAAAAACACTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAGAAG
Found at i:36962303 original size:7 final size:7
Alignment explanation
Indices: 36962293--36962325 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
36962283 CATAATACAT
36962293 AATACTA
1 AATACTA
36962300 AATACTA
1 AATACTA
36962307 AATACTA
1 AATACTA
36962314 AATACTA
1 AATACTA
36962321 AATAC
1 AATAC
36962326 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:36963546 original size:11 final size:11
Alignment explanation
Indices: 36963532--36963623 Score: 91
Period size: 11 Copynumber: 8.4 Consensus size: 11
36963522 GATTTTTTAA
36963532 AGAGGAAATTG
1 AGAGGAAATTG
*
36963543 AGAGAAAATTG
1 AGAGGAAATTG
*
36963554 AGAGGAATTTG
1 AGAGGAAATTG
36963565 AGA-GAAATTTG
1 AGAGGAAA-TTG
* *
36963576 AAAGGAATTTG
1 AGAGGAAATTG
*
36963587 AGAGGAATTTG
1 AGAGGAAATTG
36963598 AGA-GAATATTG
1 AGAGGAA-ATTG
36963609 -GAGAGAAATTG
1 AGAG-GAAATTG
36963620 AGAG
1 AGAG
36963624 AAAGGATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.12
11 50 0.75
12 9 0.13
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:36963621 original size:33 final size:32
Alignment explanation
Indices: 36963536--36963623 Score: 115
Period size: 33 Copynumber: 2.7 Consensus size: 32
36963526 TTTTAAAGAG
36963536 GAAATT-GAGAGAAAATTGAGAGGAATTTGAGA
1 GAAATTGGAGAG-AAATTGAGAGGAATTTGAGA
* * *
36963568 GAAATTTGAAAGGAATTTGAGAGGAATTTGAGA
1 GAAATTGGAGA-GAAATTGAGAGGAATTTGAGA
36963601 GAATATTGGAGAGAAATTGAGAG
1 GAA-ATTGGAGAGAAATTGAGAG
36963624 AAAGGATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
32 6 0.12
33 35 0.73
34 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (32 bp):
GAAATTGGAGAGAAATTGAGAGGAATTTGAGA
Found at i:36963625 original size:22 final size:21
Alignment explanation
Indices: 36963532--36963623 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 21
36963522 GATTTTTTAA
*
36963532 AGAGGAAATTGAGAGAAAATTG
1 AGAGGAATTTGAGAG-AAATTG
36963554 AGAGGAATTTGAGAGAAATTTG
1 AGAGGAATTTGAGAGAAA-TTG
* *
36963576 AAAGGAATTTGAGAGGAATTTG
1 AGAGGAATTTGAGA-GAAATTG
36963598 AGA-GAATATTGGAGAGAAATTG
1 AGAGGAAT-TT-GAGAGAAATTG
36963620 AGAG
1 AGAG
36963624 AAAGGATTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.12
22 46 0.77
23 7 0.12
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
AGAGGAATTTGAGAGAAATTG
Done.