Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 101 of 297
Found at i:36300161 original size:26 final size:26
Alignment explanation
Indices: 36300132--36300239 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
36300122 TGGTACAAAT
*
36300132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* * *
36300158 TGATAATGGATTAGATAAATATTCAA
1 TGATAATGGGTTAGGTAAATATTCCA
36300184 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
36300210 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
36300236 TGAT
1 TGAT
36300240 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:36302940 original size:47 final size:47
Alignment explanation
Indices: 36302887--36303105 Score: 211
Period size: 47 Copynumber: 4.7 Consensus size: 47
36302877 GGGGTGCTAC
* *
36302887 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-GTCTCATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCGTCTCATGCCG
* *
36302934 ATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCGTCTCAT-GCCG
*
36302982 ATG-CATGTCCCAGACAT-ATCTTACACTAG-TACTCGTCTCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCGTCTC-ATGCCG
* * * * * * *
36303028 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGT-CTCAT-GCCG
36303076 ATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
36303106 CCATAATAAC
Statistics
Matches: 144, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
45 2 0.01
46 37 0.26
47 78 0.54
48 25 0.17
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTCTCATGCCG
Found at i:36303030 original size:94 final size:92
Alignment explanation
Indices: 36302891--36303105 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 92
36302881 TGCTACATGC
* * *
36302891 CATGTCCCAGACACGGTCTTACACTAGCTCATGTCTCATGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACA-TGTCTTACACTAGCTCA-GTCTCATGCCGATGCCATATCCCAGACATGGTC
*
36302956 TTACACTGACTATCAT-CTCGTAGCCGATG
64 TTACACTGACTATCATAAT-GTAGCCGATG
*
36302985 CATGTCCCAGACATATCTTACACTAGTACTC-GTCTCGATGCCGATGCCATATCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAG--CTCAGTCTC-ATGCCGATGCCATATCCCAGACATGGT
* * * *
36303049 CTTACACTGGCTCTCATAATGTGGCTGATG
63 CTTACACTGACTATCATAATGTAGCCGATG
36303079 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
36303106 CCATAATAAC
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
92 1 0.01
93 16 0.15
94 86 0.80
95 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTCAGTCTCATGCCGATGCCATATCCCAGACATGGTCTT
ACACTGACTATCATAATGTAGCCGATG
Found at i:36305555 original size:16 final size:15
Alignment explanation
Indices: 36305518--36305578 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 15
36305508 CTCCCCCCAA
36305518 TTTTTCTGTCGTTCCTTT
1 TTTTTCT-TC-TT-CTTT
36305536 TTTTT-TTCCTTCTTT
1 TTTTTCTT-CTTCTTT
*
36305551 CTTTTTCTTCTTCTTC
1 -TTTTTCTTCTTCTTT
*
36305567 TTCTTCTTCTTC
1 TTTTTCTTCTTC
36305579 CCTCAACCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 15 0.39
16 14 0.37
17 4 0.11
18 5 0.13
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTTCTTCTTCTTT
Found at i:36305561 original size:3 final size:3
Alignment explanation
Indices: 36305544--36305578 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
36305534 TTTTTTTTTC
*
36305544 CTT CTTT CTT TTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
36305579 CCTCAACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:36306777 original size:3 final size:3
Alignment explanation
Indices: 36306769--36306824 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
36306759 TGGGTTGAAG
36306769 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
36306817 GAAA GAA G
1 G-AA GAA G
36306825 GGGGAAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:36310299 original size:30 final size:30
Alignment explanation
Indices: 36310263--36310351 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
36310253 CTTGATCAAC
***
36310263 AGATAGCCACAAAGTTTTCCATACATCATT
1 AGATAGCCACAAAGGCATCCATACATCATT
*
36310293 AGATAGCCATAAAGGCATCCATACATCATT
1 AGATAGCCACAAAGGCATCCATACATCATT
* * * *
36310323 AAATAACCACAAAGGCGTCCAAACATCAT
1 AGATAGCCACAAAGGCATCCATACATCAT
36310352 ACGCTAAACT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (30 bp):
AGATAGCCACAAAGGCATCCATACATCATT
Found at i:36310469 original size:29 final size:29
Alignment explanation
Indices: 36310435--36310505 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
36310425 CAAAAGCTTC
** *
36310435 CACATATAACATATTCTGCCACTAGGGCT
1 CACATATAACATATTCCACCACAAGGGCT
* *
36310464 TACATATAGCATATTCCACCACAAGGGCT
1 CACATATAACATATTCCACCACAAGGGCT
36310493 CACATATAACATA
1 CACATATAACATA
36310506 GAATAGCCAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (29 bp):
CACATATAACATATTCCACCACAAGGGCT
Found at i:36313075 original size:16 final size:17
Alignment explanation
Indices: 36313044--36313077 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36313034 AGATATAATG
36313044 TTAGAAACTAAAAAAAT
1 TTAGAAACTAAAAAAAT
36313061 TTAGAAACTAAAAAAAT
1 TTAGAAACTAAAAAAAT
36313078 AAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
TTAGAAACTAAAAAAAT
Found at i:36313176 original size:33 final size:31
Alignment explanation
Indices: 36313124--36313188 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 31
36313114 ATTATACATG
*
36313124 AAATATATATTTTAAAATTTTAAATATAATGAT
1 AAATATATATTTGAAAA-TTT-AATATAATGAT
36313157 AAATAT-TATTTGAATAATTTAATATAATGAT
1 AAATATATATTTGAA-AATTTAATATAATGAT
36313188 A
1 A
36313189 TTTAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 12 0.40
32 10 0.33
33 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (31 bp):
AAATATATATTTGAAAATTTAATATAATGAT
Found at i:36315538 original size:9 final size:9
Alignment explanation
Indices: 36315438--36315717 Score: 83
Period size: 9 Copynumber: 29.6 Consensus size: 9
36315428 AAAACTAAAA
36315438 AAAAACTTAT
1 AAAAA-TTAT
*
36315448 AAAAAATCAT
1 -AAAAATTAT
*
36315458 AAAAAGTAT
1 AAAAATTAT
*
36315467 CAAAA-TAT
1 AAAAATTAT
36315475 AAAAATTATT
1 AAAAATTA-T
* *
36315485 ATATATTA-
1 AAAAATTAT
36315493 AAAAA-TATT
1 AAAAATTA-T
*
36315502 AAAAAATAT
1 AAAAATTAT
*
36315511 GAAAATTGAT
1 AAAAATT-AT
*
36315521 ATGAAATTAT
1 A-AAAATTAT
36315531 AAAAATTAT
1 AAAAATTAT
*
36315540 -AAAACTAT
1 AAAAATTAT
36315548 ATAAAATCTA-
1 A-AAAAT-TAT
36315558 ATAAAATCTA-
1 A-AAAAT-TAT
36315568 ATAAAATCTA-
1 A-AAAAT-TAT
*
36315578 ATAAATTAT
1 AAAAATTAT
*
36315587 AAAAAATAT
1 AAAAATTAT
* * *
36315596 AGAACTAAT
1 AAAAATTAT
*
36315605 AAAACATTTTT
1 AAAA-A-TTAT
36315616 AAAAATTTTAT
1 AAAAA--TTAT
*
36315627 AAAAA-CAT
1 AAAAATTAT
*
36315635 ACTAAAATTCT
1 A--AAAATTAT
36315646 ATAAAATTAAT
1 A-AAAATT-AT
*
36315657 AAAAAATAT
1 AAAAATTAT
36315666 AAAAA-TAT
1 AAAAATTAT
* *
36315674 TAAAAGTAT
1 AAAAATTAT
*
36315683 TAAAATTGAT
1 AAAAATT-AT
**
36315693 ATAAGCTTAT
1 A-AAAATTAT
36315703 AAAAATTATT
1 AAAAATTA-T
36315713 AAAAA
1 AAAAA
36315718 GTCATTATAA
Statistics
Matches: 207, Mismatches: 40, Indels: 45
0.71 0.14 0.15
Matches are distributed among these distances:
7 2 0.01
8 29 0.14
9 71 0.34
10 70 0.34
11 35 0.17
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:36315563 original size:20 final size:20
Alignment explanation
Indices: 36315538--36315582 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
36315528 TATAAAAATT
36315538 ATAAAA-CTATATAAAATCTA
1 ATAAAATCTA-ATAAAATCTA
36315558 ATAAAATCTAATAAAATCTA
1 ATAAAATCTAATAAAATCTA
36315578 ATAAA
1 ATAAA
36315583 TTATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATCTAATAAAATCTA
Found at i:36316152 original size:9 final size:9
Alignment explanation
Indices: 36316135--36316362 Score: 78
Period size: 9 Copynumber: 24.6 Consensus size: 9
36316125 TTTATGATTT
36316135 TTTTATATAA
1 TTTT-TATAA
36316145 TTTTTATAA
1 TTTTTATAA
*
36316154 GTTTATATCAA
1 -TTTTTAT-AA
* *
36316165 TTTTAATAT
1 TTTTTATAA
*
36316174 TTTTTATTAT
1 TTTTTA-TAA
*
36316184 TTTTTAAGAA
1 TTTTT-ATAA
* *
36316194 TTCTAATACA
1 TTTTTATA-A
36316204 TTTTT-TAA
1 TTTTTATAA
*
36316212 TTTTGACT-A
1 TTTTTA-TAA
*
36316221 TTTTAAATAA
1 TTTT-TATAA
*
36316231 GTTTTATTAA
1 TTTTTA-TAA
*
36316241 -ATTTATAA
1 TTTTTATAA
* *
36316249 TTTATTAGAT
1 TTT-TTATAA
36316259 TTTTTAT-A
1 TTTTTATAA
36316267 TTTTTATAA
1 TTTTTATAA
*
36316276 TATTTATAA
1 TTTTTATAA
36316285 GTTTTTTTATAA
1 ---TTTTTATAA
*
36316297 TTTTGATAA
1 TTTTTATAA
*
36316306 GTTTATATTAA
1 -TTTTTA-TAA
* *
36316317 ATTTAAT-A
1 TTTTTATAA
36316325 -TTTTATAA
1 TTTTTATAA
*
36316333 TATTTA-ATA
1 TTTTTATA-A
36316342 TTTTTAT--
1 TTTTTATAA
36316349 TTTTTATAA
1 TTTTTATAA
36316358 TTTTT
1 TTTTT
36316363 TTCTTATTTT
Statistics
Matches: 161, Mismatches: 33, Indels: 49
0.66 0.14 0.20
Matches are distributed among these distances:
7 12 0.07
8 18 0.11
9 63 0.39
10 54 0.34
11 6 0.04
12 8 0.05
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36316160 original size:19 final size:19
Alignment explanation
Indices: 36316136--36316313 Score: 58
Period size: 19 Copynumber: 9.4 Consensus size: 19
36316126 TTATGATTTT
36316136 TTTATATAATTTTTATAAG
1 TTTATATAATTTTTATAAG
* *
36316155 TTTATATCAATTTTAAT-AT
1 TTTATAT-AATTTTTATAAG
* *
36316174 TTTTTATTATTTTT-TAAG
1 TTTATATAATTTTTATAAG
36316192 AATTCTA-ATACATTTTT-TAA-
1 --TT-TATATA-ATTTTTATAAG
*
36316212 TTT-TGACT-ATTTTAAATAAG
1 TTTAT-A-TAATTTT-TATAAG
*
36316232 TTT-TATTAA-ATTTATAA-
1 TTTATA-TAATTTTTATAAG
36316249 TTTAT-TAGATTTTT-TATA-
1 TTTATATA-ATTTTTATA-AG
* *
36316267 TTTTTATAATATTTATAAG
1 TTTATATAATTTTTATAAG
* *
36316286 TTTTTTTATAATTTTGATAAG
1 --TTTATATAATTTTTATAAG
36316307 TTTATAT
1 TTTATAT
36316314 TAAATTTAAT
Statistics
Matches: 119, Mismatches: 18, Indels: 44
0.66 0.10 0.24
Matches are distributed among these distances:
16 2 0.02
17 13 0.11
18 28 0.24
19 32 0.27
20 17 0.14
21 27 0.23
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTATATAATTTTTATAAG
Found at i:36316283 original size:17 final size:17
Alignment explanation
Indices: 36316261--36316348 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 17
36316251 TATTAGATTT
36316261 TTTATATTTTTATAATA
1 TTTATATTTTTATAATA
36316278 TTTATAAGTTTTTTTATAAT-
1 TTTAT-A---TTTTTATAATA
*
36316298 TTTGATAAGTTTATATTAA-A
1 TTT-AT-A-TTTTTA-TAATA
36316318 TTTA-ATATTTTATAATA
1 TTTATAT-TTTTATAATA
36316335 TTTAATATTTTTAT
1 TTT-ATATTTTTAT
36316349 TTTTTATAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 21
0.70 0.04 0.26
Matches are distributed among these distances:
16 4 0.07
17 14 0.25
18 8 0.14
19 8 0.14
20 9 0.16
21 14 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTATATTTTTATAATA
Found at i:36316290 original size:29 final size:30
Alignment explanation
Indices: 36316248--36316305 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
36316238 TAAATTTATA
* *
36316248 ATTTATTAGATTTTTTAT-ATTTTTATAAT
1 ATTTATAAGATTTTTTATAATTTTGATAAT
*
36316277 ATTTATAAGTTTTTTTATAATTTTGATAA
1 ATTTATAAGATTTTTTATAATTTTGATAA
36316306 GTTTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTTATAAGATTTTTTATAATTTTGATAAT
Found at i:36316293 original size:21 final size:21
Alignment explanation
Indices: 36316267--36316309 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
36316257 ATTTTTTATA
36316267 TTTTTATAATATTT-ATAAGTT
1 TTTTTATAAT-TTTGATAAGTT
36316288 TTTTTATAATTTTGATAAGTT
1 TTTTTATAATTTTGATAAGTT
36316309 T
1 T
36316310 ATATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTTATAATTTTGATAAGTT
Found at i:36316319 original size:21 final size:21
Alignment explanation
Indices: 36316270--36316320 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
36316260 TTTTATATTT
*
36316270 TTATAATATTT-ATAAGTTTTT
1 TTATAAT-TTTGATAAGTTTTA
36316291 TTATAATTTTGATAAGTTTATA
1 TTATAATTTTGATAAGTTT-TA
36316313 TTA-AATTT
1 TTATAATTT
36316321 AATATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 20 0.74
22 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
TTATAATTTTGATAAGTTTTA
Found at i:36319557 original size:22 final size:22
Alignment explanation
Indices: 36319529--36319584 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
36319519 AATATTAGCT
*
36319529 TCCATTG-ATGCCCCAAAAGAAC
1 TCCATTGCA-GCCACAAAAGAAC
36319551 TCCATTGCAGCCACAAAAGAAC
1 TCCATTGCAGCCACAAAAGAAC
36319573 TCCATTGCAGCC
1 TCCATTGCAGCC
36319585 TTTCACTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (22 bp):
TCCATTGCAGCCACAAAAGAAC
Found at i:36322562 original size:37 final size:37
Alignment explanation
Indices: 36322521--36322601 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
36322511 TTGGTAACGG
*** *
36322521 TAACAATATCAGTGGTGTGCTTAACATGCTTTCGGTT
1 TAACAATATCAGTGACATGCTTAACATGCTTTCGATT
* * * *
36322558 TAACAATTTTAGTGACATGTTTAACATGCTTTTGATT
1 TAACAATATCAGTGACATGCTTAACATGCTTTCGATT
36322595 TAACAAT
1 TAACAAT
36322602 TTTTGTATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (37 bp):
TAACAATATCAGTGACATGCTTAACATGCTTTCGATT
Found at i:36326064 original size:12 final size:13
Alignment explanation
Indices: 36326041--36326069 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36326031 CAAATGAATT
36326041 ATTTCTCATTTTC
1 ATTTCTCATTTTC
36326054 ATTTC-CATTTTC
1 ATTTCTCATTTTC
36326066 ATTT
1 ATTT
36326070 TTAAGAGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTCTCATTTTC
Found at i:36327385 original size:31 final size:31
Alignment explanation
Indices: 36327347--36327405 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
36327337 GTGCAATTCA
36327347 TATTCGAGTTAAACCAAAAAACTTAATTTTT
1 TATTCGAGTTAAACCAAAAAACTTAATTTTT
* * * *
36327378 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCAAAAAACTTAATT
36327406 AACTCAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCAAAAAACTTAATTTTT
Found at i:36334680 original size:33 final size:31
Alignment explanation
Indices: 36334643--36334720 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
36334633 CCATGTTAAT
* * *
36334643 TGTCCTAGTGGACTATCTTTTTTCTGTGTTTAC
1 TGTCCTAGTAGACTATC--TCTTCTGTGATTAC
*
36334676 TGTCCTTGTAGACTATCTCTTCTGTGATTAC
1 TGTCCTAGTAGACTATCTCTTCTGTGATTAC
*
36334707 TGTCCTAGCAGACT
1 TGTCCTAGTAGACT
36334721 GTCTTTGTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 24 0.62
33 15 0.38
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (31 bp):
TGTCCTAGTAGACTATCTCTTCTGTGATTAC
Found at i:36340781 original size:21 final size:21
Alignment explanation
Indices: 36340751--36340799 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
36340741 TTTGTGGTTA
*
36340751 ATGTTGAGTAATATGCAAATT
1 ATGTTTAGTAATATGCAAATT
36340772 ATGTTTAGTAATATGCAAATT
1 ATGTTTAGTAATATGCAAATT
36340793 ATGTTTA
1 ATGTTTA
36340800 CTACTTGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (21 bp):
ATGTTTAGTAATATGCAAATT
Found at i:36340997 original size:46 final size:46
Alignment explanation
Indices: 36340943--36341115 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
36340933 TGGTTGAGCA
*
36340943 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
36340989 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
36341036 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
36341082 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36341116 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:36341099 original size:93 final size:93
Alignment explanation
Indices: 36340940--36341110 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
36340930 GGATGGTTGA
* *
36340940 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
36341005 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
36341033 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
*
36341098 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
36341111 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36341377 original size:19 final size:20
Alignment explanation
Indices: 36341340--36341377 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36341330 ATAAGGTGGT
36341340 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
36341360 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
36341378 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:36344879 original size:26 final size:26
Alignment explanation
Indices: 36344823--36344884 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
36344813 TTTACCTTCA
*
36344823 GTAAAATTTTGATGATTTTAACATCG
1 GTAAAATTTTGACGATTTTAACATCG
* *
36344849 ATAAAATTTTGACGATTTTATATAT-G
1 GTAAAATTTTGACGATTTTA-ACATCG
36344875 GTAAAATTTT
1 GTAAAATTTT
36344885 TTGAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (26 bp):
GTAAAATTTTGACGATTTTAACATCG
Found at i:36346601 original size:40 final size:40
Alignment explanation
Indices: 36346511--36346588 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
36346501 TTTTCCAAGT
* *
36346511 TAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGC
1 TAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGC
* * *
36346551 TAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCCGA
1 TAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGA
36346589 ATCTAGTTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGC
Found at i:36346742 original size:40 final size:40
Alignment explanation
Indices: 36346693--36346933 Score: 405
Period size: 40 Copynumber: 6.1 Consensus size: 40
36346683 CGGATGTAAC
* *
36346693 AACCAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
36346733 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
36346773 AACCCGCACGAATGCCTTCGGGAC-TAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
36346812 AACCCACACGAATGCCTTTGGGACTTAAACCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
36346852 AACCCGCACGAATGCCTTCGGGAC-TAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
36346891 AACCCACACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
36346931 AAC
1 AAC
36346934 TAGCAAAATT
Statistics
Matches: 189, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 74 0.39
40 115 0.61
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:36346950 original size:79 final size:79
Alignment explanation
Indices: 36346693--36346933 Score: 419
Period size: 79 Copynumber: 3.0 Consensus size: 79
36346683 CGGATGTAAC
* * *
36346693 AACCAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAATAACCCGCACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCGGGAC-TAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACT
36346758 TAACCCGGTTATAAT
65 TAACCCGGTTATAAT
*
36346773 AACCCGCACGAATGCCTTCGGGACTAACCCGGTTATAATAACCCACACGAATGCCTTTGGGACTT
1 AACCCGCACGAATGCCTTCGGGACTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTT
*
36346838 AAACCGGTTATAAT
66 AACCCGGTTATAAT
36346852 AACCCGCACGAATGCCTTCGGGACTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTT
1 AACCCGCACGAATGCCTTCGGGACTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTT
*
36346917 AACCCGATTATAAT
66 AACCCGGTTATAAT
36346931 AAC
1 AAC
36346934 TAGCAAAATT
Statistics
Matches: 153, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 130 0.85
80 23 0.15
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (79 bp):
AACCCGCACGAATGCCTTCGGGACTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTT
AACCCGGTTATAAT
Found at i:36354554 original size:40 final size:40
Alignment explanation
Indices: 36354494--36354674 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
36354484 CGAATGTAAC
* * *
36354494 AACCAGCACGAATGCCTTTGGGACTTAGCCCGATTATAAT
1 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
36354534 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
* *
36354574 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTGATAAT
1 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
** **
36354614 AACTAGCAC-AATTGCCTTT-GGATCTTAGTCCGGTTATAAT
1 AACCCGCACGAA-TGCCTTTGGGA-CTTAACCCGGTTATAAT
36354654 AACCCGCACGAATGCCTTTGG
1 AACCCGCACGAATGCCTTTGG
36354675 ATCTTAGTCC
Statistics
Matches: 124, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 5 0.04
40 116 0.94
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
Found at i:36357380 original size:110 final size:110
Alignment explanation
Indices: 36357182--36357406 Score: 432
Period size: 110 Copynumber: 2.0 Consensus size: 110
36357172 ATTTCATCTT
* *
36357182 CATTACTAGAACTCAAGCACAAGACACTTATCAACCATTCCCATTTTTGGCTCAATAGCCACCTA
1 CATTTCTAGAACTCAAGCACAAGACACTTATCAACCATTCCCATTTTCGGCTCAATAGCCACCTA
36357247 CAAAGAGCATGATTTCGATTTGCTTTATAACATGATCTCTATACA
66 CAAAGAGCATGATTTCGATTTGCTTTATAACATGATCTCTATACA
36357292 CATTTCTAGAACTCAAGCACAAGACACTTATCAACCATTCCCATTTTCGGCTCAATAGCCACCTA
1 CATTTCTAGAACTCAAGCACAAGACACTTATCAACCATTCCCATTTTCGGCTCAATAGCCACCTA
36357357 CAAAGAGCATGATTTCGATTTGCTTTATAACATGATCTCTATACA
66 CAAAGAGCATGATTTCGATTTGCTTTATAACATGATCTCTATACA
36357402 CATTT
1 CATTT
36357407 GGCTACCAGT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 113 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (110 bp):
CATTTCTAGAACTCAAGCACAAGACACTTATCAACCATTCCCATTTTCGGCTCAATAGCCACCTA
CAAAGAGCATGATTTCGATTTGCTTTATAACATGATCTCTATACA
Found at i:36357733 original size:68 final size:68
Alignment explanation
Indices: 36357624--36357758 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
36357614 TCTAAGCTCT
*
36357624 TGAGCTAAATCAAACAATTTACTTCCCAAATCAAACATAGTCTTTC-AGCATCCATATACATTTT
1 TGAGCTAAATCAAACAATTTACTTCCCAAATCAAACATAGTCATTCGA-CATCCATATACATTTT
36357688 AGAG
65 AGAG
36357692 TGAGCTAAATCAAACAATTTACTTCCCAAATCAAACATAGTCATTCGACATCCATATACATTTTA
1 TGAGCTAAATCAAACAATTTACTTCCCAAATCAAACATAGTCATTCGACATCCATATACATTTTA
36357757 GA
66 GA
36357759 ACCAATTCAC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
68 64 0.98
69 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (68 bp):
TGAGCTAAATCAAACAATTTACTTCCCAAATCAAACATAGTCATTCGACATCCATATACATTTTA
GAG
Found at i:36357879 original size:59 final size:59
Alignment explanation
Indices: 36357807--36357923 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
36357797 ATCATTTCAT
* *
36357807 TTTCAAATTTGTATATTTGGTAAGTCACATTAAACAATTATACATATCGCTTTAATACC
1 TTTCAAATTTGTATATTTGGTAAGTCACATTAAACAATTATAAATATAGCTTTAATACC
36357866 TTTCAAATTTGTATATTTGGTAAGTCACATTAAACAATTATAAATATAGCTTTAATAC
1 TTTCAAATTTGTATATTTGGTAAGTCACATTAAACAATTATAAATATAGCTTTAATAC
36357924 ATTTTATACT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (59 bp):
TTTCAAATTTGTATATTTGGTAAGTCACATTAAACAATTATAAATATAGCTTTAATACC
Found at i:36358955 original size:13 final size:13
Alignment explanation
Indices: 36358939--36358966 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36358929 TTTATTATTT
36358939 TTAACACAAAATA
1 TTAACACAAAATA
36358952 TTAACACAAAATA
1 TTAACACAAAATA
36358965 TT
1 TT
36358967 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:36362637 original size:46 final size:46
Alignment explanation
Indices: 36362570--36362663 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
36362560 TCATCAAATA
*
36362570 TATATTTCCCACCTCGATCAGATTGAAGTGCCTTTATGGGTAAACT
1 TATATTTCCCACCTCAATCAGATTGAAGTGCCTTTATGGGTAAACT
36362616 TATATTTCCCACCTCAATCAGATTGAAGTGCCTTTATGGGTAAACT
1 TATATTTCCCACCTCAATCAGATTGAAGTGCCTTTATGGGTAAACT
36362662 TA
1 TA
36362664 GTTGTTTCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (46 bp):
TATATTTCCCACCTCAATCAGATTGAAGTGCCTTTATGGGTAAACT
Found at i:36366763 original size:42 final size:42
Alignment explanation
Indices: 36366704--36366821 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
36366694 TGAGATTACG
*
36366704 TGTAAGACTATATCTGGGATATGGCATCGATATAAGATTTCC
1 TGTAAGACTATATCTGGGATATGGCATCGATATAAGATTTCA
* * * * * *
36366746 TTTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATTTCA
1 TGTAAGACTATATCTGGGATA-TGGCATCGATATAAGATTTCA
* *
36366789 TGTAAGACTATATCTAGGATATGGCATTGATAT
1 TGTAAGACTATATCTGGGATATGGCATCGATAT
36366822 GGTACTATGT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
TGTAAGACTATATCTGGGATATGGCATCGATATAAGATTTCA
Found at i:36367560 original size:15 final size:15
Alignment explanation
Indices: 36367532--36367565 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36367522 GTAATTGATG
*
36367532 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
36367547 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
36367562 TGTG
1 TGTG
36367566 TGCATATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:36373869 original size:26 final size:26
Alignment explanation
Indices: 36373840--36373947 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
36373830 TGGTACAAAT
36373840 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
36373866 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36373892 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
36373918 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
36373944 TGAT
1 TGAT
36373948 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:36375633 original size:53 final size:53
Alignment explanation
Indices: 36375543--36375685 Score: 223
Period size: 53 Copynumber: 2.7 Consensus size: 53
36375533 TGGAGGAAGC
*
36375543 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATAGCT
1 GTCCTGGTGGCTATGCCA-AATTATCTGATCTGGTGGCTCTGCCACATATAGCT
*
36375597 GTCCTGGTGGCTATGCCAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCAAATTATCTGATCTGGTGGCTCTGCCACATATAGCT
* * *
36375650 GTTCTGGTGGCTCTGCCAAAATATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCAAATTATCTG-ATCTGGTG
36375686 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 57 0.69
54 26 0.31
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCAAATTATCTGATCTGGTGGCTCTGCCACATATAGCT
Found at i:36375681 original size:32 final size:27
Alignment explanation
Indices: 36375546--36375685 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
36375536 AGGAAGCGTC
* *
36375546 CTGGTGGCTATGCCACAAT-TATCTAAT
1 CTGGTGGCTCTGCCA-AATATATCTGAT
* *
36375573 CTGGTGGCTCTGCCACATATAGCTG-T
1 CTGGTGGCTCTGCCAAATATATCTGAT
*
36375599 CCTGGTGGCTATGCCAAAT-TATCTGAT
1 -CTGGTGGCTCTGCCAAATATATCTGAT
* *
36375626 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAATATATCTGAT
36375653 CTGGTGGCTCTGCCAAA-ATATCTGTAT
1 CTGGTGGCTCTGCCAAATATATCTG-AT
36375680 CTGGTG
1 CTGGTG
36375686 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
26 31 0.32
27 65 0.68
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCAAATATATCTGAT
Found at i:36377215 original size:42 final size:42
Alignment explanation
Indices: 36377106--36377216 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
36377096 TGAGATTACG
* * ** *
36377106 TGTAAGACCACATTTGAGATATGGCATCAGTATGAGATTTCG
1 TGTAAGACCATATTTGGGATATGGCATCAGTATGAGATCCCA
* **
36377148 TGTAAGATCATAGCTGGGCAT-TGGCATC-GATATGAGATCCCA
1 TGTAAGACCATATTTGGG-ATATGGCATCAG-TATGAGATCCCA
36377190 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATATTTGGGATATGGCAT
36377217 TGGTATGGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
41 3 0.05
42 50 0.91
43 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATTTGGGATATGGCATCAGTATGAGATCCCA
Found at i:36389631 original size:94 final size:91
Alignment explanation
Indices: 36389418--36389749 Score: 327
Period size: 94 Copynumber: 3.6 Consensus size: 91
36389408 GCAATCTATT
* *
36389418 AGGACATTAAACATGGGGCTACATGTGTAAGACCATA-TTTCAGCTATGGCAACATGGGGAGTT-
1 AGGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTT-AGCTATGGCAACATGGGGAGTTC
* * * *
36389481 -TA-CAA-TAAACAATGGATAGTCTATC
65 ATAGGAAGTAAA-AATGGGTAGTCCACC
* * * * *
36389506 AGGACCTTAAACATGAGGTTACATGTGTAAGACCATATCTTAGTTATGGCAACATGGAGAGTTCG
1 AGGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTTAGCTATGGCAACATGGGGAGTTC-
*
36389571 ATAGGATAGTAAATATGGGGTAGTCCACC
65 ATAGGA-AGTAAAAAT-GGGTAGTCCACC
* * *
36389600 AGGACATTAAACATGTGGTTACATGTGTAAGACTATAGCTT-GACTATGACAACATGGGGAG-TC
1 AGGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTTAG-CTATGGCAACATGGGGAGTTC
* * *
36389663 TATCGAGACAGTAAACATAAGGTAGTCCACC
65 -ATAG-GA-AGTAAAAAT-GGGTAGTCCACC
* * * *
36389694 AAGACATTAAATAAGGGGTTACATGTGTAAGACCATAGCTTAGCTATGGCAGCATG
1 AGGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTTAGCTATGGCAACATG
36389750 TGATGACCGC
Statistics
Matches: 202, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
88 54 0.27
89 2 0.01
91 2 0.01
92 1 0.00
93 9 0.04
94 133 0.66
95 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (91 bp):
AGGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTTAGCTATGGCAACATGGGGAGTTCA
TAGGAAGTAAAAATGGGTAGTCCACC
Found at i:36390388 original size:17 final size:17
Alignment explanation
Indices: 36390366--36390399 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36390356 GTATGGGTCC
36390366 ACCAAAGAAATGAGTGT
1 ACCAAAGAAATGAGTGT
36390383 ACCAAAGAAATGAGTGT
1 ACCAAAGAAATGAGTGT
36390400 GTTATTCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.18
Consensus pattern (17 bp):
ACCAAAGAAATGAGTGT
Found at i:36394694 original size:80 final size:80
Alignment explanation
Indices: 36394600--36394902 Score: 351
Period size: 80 Copynumber: 3.8 Consensus size: 80
36394590 AATAATATCC
* * * * *
36394600 GTTTCGAGATTGATTCCTGCCGTACAACAAGTTTACTCCAAATTTTGATTTTATTTCCAAAAACG
1 GTTTCGAGATTGATTCCTGCTGTTCAACGATTTTATTCCAAATTTTGATTTTATTTCCAAAAACG
* *
36394665 AGTAAATTC-AAATTT
66 AGTAAA-ACAAAATCT
* *
36394680 GTTTCGAGATTGATTCCTGTTGTTCAACGATTTTATTCCAAATTTTGATTTTATTTCCAAAAATG
1 GTTTCGAGATTGATTCCTGCTGTTCAACGATTTTATTCCAAATTTTGATTTTATTTCCAAAAACG
36394745 AGTAAAACAAAATCT
66 AGTAAAACAAAATCT
* * * * *
36394760 GTTAC-AGGATTGATTTCTGCTGTTCAATGATTTTATTTCGAATTTTGATTTTATTTCCAAAAAC
1 GTTTCGA-GATTGATTCCTGCTGTTCAACGATTTTATTCCAAATTTTGATTTTATTTCCAAAAAC
* * *
36394824 AAGTAAAATAAAATCC
65 GAGTAAAACAAAATCT
* * * ** *
36394840 GTTTTGGGATTGACTCCTATTGTTCCACGATTTTATTCCAAATTTTGATTTT-TTTGCCAAAAA
1 GTTTCGAGATTGATTCCTGCTGTTCAACGATTTTATTCCAAATTTTGATTTTATTT-CCAAAAA
36394903 TGAAAACTTA
Statistics
Matches: 189, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 5 0.03
80 184 0.97
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (80 bp):
GTTTCGAGATTGATTCCTGCTGTTCAACGATTTTATTCCAAATTTTGATTTTATTTCCAAAAACG
AGTAAAACAAAATCT
Found at i:36401585 original size:22 final size:22
Alignment explanation
Indices: 36401560--36401605 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
36401550 TATCCAAACA
36401560 ATAACAACAAAATAATAGCAAC
1 ATAACAACAAAATAATAGCAAC
* ** *
36401582 ATAATAGTAAAATAGTAGCAAC
1 ATAACAACAAAATAATAGCAAC
36401604 AT
1 AT
36401606 GGGGAGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.13, G:0.09, T:0.20
Consensus pattern (22 bp):
ATAACAACAAAATAATAGCAAC
Found at i:36415238 original size:16 final size:17
Alignment explanation
Indices: 36415207--36415238 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36415197 CCAAGCTATA
36415207 ATCTTGGTGAATTTTGC
1 ATCTTGGTGAATTTTGC
36415224 ATCTTGGTG-ATTTTG
1 ATCTTGGTGAATTTTG
36415239 TGAAAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.16, C:0.09, G:0.25, T:0.50
Consensus pattern (17 bp):
ATCTTGGTGAATTTTGC
Found at i:36415689 original size:42 final size:44
Alignment explanation
Indices: 36415626--36415774 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 44
36415616 TCTATGACAT
*
36415626 CGTGTAAGACCGTGTCTGGGACACAGGC-TCGAT-TGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATCTGAGATTTA
*
36415668 CGTATAAGACCATGTCTGGGACATCA-GCATCGTATCT--GATTT-
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGAGATTTA
* * *
36415710 TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGA-A-TTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGAT-CTGAGATTTA
* *
36415753 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
36415775 GTCGGCATTG
Statistics
Matches: 88, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
41 3 0.03
42 53 0.60
43 29 0.33
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGATCTGAGATTTA
Found at i:36417268 original size:6 final size:6
Alignment explanation
Indices: 36417257--36417287 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
36417247 ATAATTGGTT
36417257 AATAAA AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
36417288 TTTAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:36418736 original size:34 final size:34
Alignment explanation
Indices: 36418667--36418743 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
36418657 GTGGTGTTGT
* *
36418667 TATATATAATATATATGCCTCTATGGTTCTGTTA
1 TATATATAATATATATGCCTCTAGGGTTCTATTA
* **
36418701 TATATATACTATATATGTGTCTAGGGATT-TATTA
1 TATATATAATATATATGCCTCTAGGG-TTCTATTA
36418735 TAATATATA
1 T-ATATATA
36418744 TGCGTTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 27 0.75
35 9 0.25
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.47
Consensus pattern (34 bp):
TATATATAATATATATGCCTCTAGGGTTCTATTA
Found at i:36422096 original size:11 final size:11
Alignment explanation
Indices: 36422080--36422107 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36422070 GTGAGATATT
36422080 TTATTATTTTA
1 TTATTATTTTA
36422091 TTATTATTTTA
1 TTATTATTTTA
36422102 TTATTA
1 TTATTA
36422108 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:36424156 original size:46 final size:46
Alignment explanation
Indices: 36424060--36424240 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
36424050 AGTGTGCTCT
* *
36424060 CTGATATGAAATGTGTAGGACCAT-GTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
36424105 CTGATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
36424151 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
36424197 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
36424241 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
45 24 0.20
46 97 0.80
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:36431711 original size:22 final size:22
Alignment explanation
Indices: 36431680--36431721 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
36431670 TTTAACTTAA
*
36431680 TATTTTTTCTT-TTTCTTTTTT
1 TATTTTTTCTTCCTTCTTTTTT
36431701 TATTTTGTTCTTCCTTCTTTT
1 TATTTT-TTCTTCCTTCTTTT
36431722 CTCGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (22 bp):
TATTTTTTCTTCCTTCTTTTTT
Found at i:36433728 original size:22 final size:22
Alignment explanation
Indices: 36433697--36433738 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
36433687 GAATGACTCG
36433697 CCCTTGTATTTATACTAGGGCA
1 CCCTTGTATTTATACTAGGGCA
*
36433719 CCCTTTTATTTATACTAGGG
1 CCCTTGTATTTATACTAGGG
36433739 TTGCCACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (22 bp):
CCCTTGTATTTATACTAGGGCA
Found at i:36433992 original size:26 final size:27
Alignment explanation
Indices: 36433927--36433993 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
36433917 TTTACTTTAG
*
36433927 TAAAATTTTGACGATTTTACCCTTCGA
1 TAAAATTTTGACAATTTTACCCTTCGA
*
36433954 TAAAATTTTGACAATTTTACCC-TCTA
1 TAAAATTTTGACAATTTTACCCTTCGA
*
36433980 TAAAATTTCGACAA
1 TAAAATTTTGACAA
36433994 AATTCGTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 16 0.43
27 21 0.57
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (27 bp):
TAAAATTTTGACAATTTTACCCTTCGA
Found at i:36438059 original size:30 final size:29
Alignment explanation
Indices: 36438016--36438076 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
36438006 CAAGTAACTG
36438016 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
36438045 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
36438075 AA
1 AA
36438077 ACTTCCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:36444524 original size:21 final size:20
Alignment explanation
Indices: 36444486--36444534 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36444476 ATATTAGTTT
*
36444486 ATAATTAATAATAATTAACC
1 ATAATTAATAATAATTAAAC
*
36444506 ATTAATTAATTAAT-CTTAAAC
1 A-TAATTAA-TAATAATTAAAC
36444527 ATAATTAA
1 ATAATTAA
36444535 CAAGTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATTAATAATAATTAAAC
Found at i:36446214 original size:40 final size:40
Alignment explanation
Indices: 36446155--36446570 Score: 547
Period size: 40 Copynumber: 10.2 Consensus size: 40
36446145 GGGATTTAGT
* * *
36446155 CGGATATAGCAACTCGCACACATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCC
36446195 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCC
* *
36446235 CGGGTATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCC
1 CGGATATAGCAACTA---GCACAAATGCCTTCGGGACTTAGCC
36446278 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCC
* *
36446318 CGGGTATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCC
1 CGGATATAGCAACTA---GCACAAATGCCTTCGGGACTTAGCC
36446361 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCC
* *
36446401 CGGATATAGCAACTCA-CACACATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACT-AGCACAAATGCCTTCGGGACTTAGCC
*
36446441 CGGATATAGTC-ACTAGCACAGATGCCTTCGGGACTTAGCC
1 CGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCC
* *
36446481 CGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCC
1 CGGATATAGCAACTA---GCACAAATGCCTTCGGGACTTAGCC
36446524 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCC
36446564 CGGATAT
1 CGGATAT
36446571 CATCCGAATA
Statistics
Matches: 336, Mismatches: 20, Indels: 40
0.85 0.05 0.10
Matches are distributed among these distances:
39 5 0.01
40 218 0.65
41 3 0.01
43 107 0.32
44 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCC
Found at i:36446268 original size:83 final size:82
Alignment explanation
Indices: 36446159--36446566 Score: 680
Period size: 83 Copynumber: 5.0 Consensus size: 82
36446149 TTTAGTCGGA
* * *
36446159 TATAGCAACT-C-GCACACATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCT
1 TATAGCAACTACTGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCT
36446222 TCGGGACTTAGCCCGGG
66 TCGGGACTTAGCCCGGG
36446239 TATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCC
1 TATAGCAACTAC-TGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCC
36446304 TTCGGGACTTAGCCCGGG
65 TTCGGGACTTAGCCCGGG
36446322 TATAGCAACTACTTGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCC
1 TATAGCAACTAC-TGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCC
*
36446387 TTCGGGACTTAGCCCGGA
65 TTCGGGACTTAGCCCGGG
* * * * *
36446405 TATAGCAACT-C-ACACACATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGATGCCT
1 TATAGCAACTACTGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCT
36446468 TCGGGACTTAGCCCGGG
66 TCGGGACTTAGCCCGGG
36446485 TATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCC
1 TATAGCAACTACT-GCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCC
36446550 TTCGGGACTTAGCCCGG
65 TTCGGGACTTAGCCCGG
36446567 ATATCATCCG
Statistics
Matches: 307, Mismatches: 15, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
80 83 0.27
81 2 0.01
82 1 0.00
83 221 0.72
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (82 bp):
TATAGCAACTACTGCACAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGCCT
TCGGGACTTAGCCCGGG
Found at i:36451196 original size:40 final size:41
Alignment explanation
Indices: 36451137--36451288 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 41
36451127 CATTTGAATG
* * *
36451137 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
36451177 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
36451217 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
36451257 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
36451289 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:36451300 original size:80 final size:80
Alignment explanation
Indices: 36451137--36451308 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
36451127 CATTTGAATG
* * * * *
36451137 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
36451202 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
36451217 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
36451281 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
36451297 ATATCC-GGCTAA
1 ATATCCGGGCTAA
36451309 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 71 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:36459445 original size:79 final size:80
Alignment explanation
Indices: 36459342--36459511 Score: 229
Period size: 79 Copynumber: 2.1 Consensus size: 80
36459332 GGACTAAGAT
* *
36459342 CCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTGGTGCGAGATACTAAATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACT
*
36459406 A-ATTCCGGGCTAAG-C
65 ATA-ACCGGGCTAAGTC
* ** *
36459421 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTGGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
36459486 TAACCGGGCTATGTC
66 TAACCGGGCTAAGTC
36459501 CCGAAGGCATT
1 CCGAAGGCATT
36459512 TGAACGAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 66 0.82
80 13 0.16
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTGGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTA
TAACCGGGCTAAGTC
Found at i:36459520 original size:40 final size:39
Alignment explanation
Indices: 36459290--36459513 Score: 215
Period size: 40 Copynumber: 5.6 Consensus size: 39
36459280 CGAATGATGT
* * *
36459290 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCGT-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTA-C-TAAA
* * * *
36459330 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * *
36459370 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
36459410 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36459448 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36459489 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
36459514 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
38 1 0.01
39 35 0.22
40 116 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36459535 original size:79 final size:79
Alignment explanation
Indices: 36459342--36459546 Score: 202
Period size: 79 Copynumber: 2.6 Consensus size: 79
36459332 GGACTAAGAT
* ** * * **
36459342 CCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACT
*
36459406 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
36459421 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
36459485 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
36459501 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
36459547 TACGTGATTC
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 80 0.75
80 24 0.22
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:36463451 original size:206 final size:206
Alignment explanation
Indices: 36463090--36463645 Score: 871
Period size: 206 Copynumber: 2.7 Consensus size: 206
36463080 AAATTTGCTT
* *
36463090 CTTCGATTTGTTCTCTGACAATACACAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
36463155 GCGAAAACTAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * * * * *
36463220 GGATCTGCTTCAGTCTAATCATCTGAAGGATAGATCTGCTATGTGTCTGCCCTCCGTTGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGACAGATCTACTATGTATCTGCCCTCCGTCGAATATG
36463285 GAGACGCCAAA
196 GAGACGCCAAA
* * *
36463296 CTTCGATTTGTTCTCTGGCAATACAGAAATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
36463361 GTGAAAGCTAAATTAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATACCAAATCATCT
66 GTGAAAGCTAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCT
* * *
36463425 TGGATCTGCTTTAGTATAAACATCTGAAGGCCAGATCTACTATGTATCTGCTCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGACAGATCTACTATGTATCTGCCCTCCGTCGAATAT
36463490 GGAGACGCCAAA
195 GGAGACGCCAAA
*
36463502 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
36463567 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
36463632 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
36463646 CCAGATCTGC
Statistics
Matches: 316, Mismatches: 31, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
205 1 0.00
206 307 0.97
207 8 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGACAGATCTACTATGTATCTGCCCTCCGTCGAATATG
GAGACGCCAAA
Found at i:36464562 original size:12 final size:12
Alignment explanation
Indices: 36464547--36464585 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
36464537 TCTTTTTTTC
*
36464547 TTTTTTTATTTG
1 TTTTTTGATTTG
36464559 TTTTTTGATTTG
1 TTTTTTGATTTG
36464571 TTTTTTGATTT-
1 TTTTTTGATTTG
36464582 TTTT
1 TTTT
36464586 CTTTTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (12 bp):
TTTTTTGATTTG
Found at i:36475421 original size:16 final size:15
Alignment explanation
Indices: 36475349--36475423 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 15
36475339 AATATCAATT
36475349 TAATATGAA-AATAA
1 TAATATGAATAATAA
36475363 TAATATGAATAATAA
1 TAATATGAATAATAA
*
36475378 T-ATACCTGAAAATATATA
1 TAATA--TGAATA-ATA-A
36475396 TAATA-G-ATAATAA
1 TAATATGAATAATAA
36475409 TAATATGAAATAATA
1 TAATATG-AATAATA
36475424 TATTGTTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
13 6 0.12
14 16 0.32
15 8 0.16
16 12 0.24
17 3 0.06
18 2 0.04
19 3 0.06
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.32
Consensus pattern (15 bp):
TAATATGAATAATAA
Found at i:36475453 original size:8 final size:8
Alignment explanation
Indices: 36475440--36475633 Score: 60
Period size: 8 Copynumber: 25.1 Consensus size: 8
36475430 TAAAATGTAA
36475440 AATAATAT
1 AATAATAT
36475448 AATAATAT
1 AATAATAT
36475456 -ATAA-AT
1 AATAATAT
36475462 ATATAA-AT
1 A-ATAATAT
* *
36475470 -ATTATGT
1 AATAATAT
* *
36475477 GATAAAACT
1 AATAATA-T
36475486 -ATAATAT
1 AATAATAT
36475493 AATAA-AT
1 AATAATAT
*
36475500 AATAA-GT
1 AATAATAT
*
36475507 AATGATAT
1 AATAATAT
** *
36475515 -ATGTTAA
1 AATAATAT
36475522 AAT-ATAT
1 AATAATAT
*
36475529 ATTAATAT
1 AATAATAT
* *
36475537 GATAATAG
1 AATAATAT
*
36475545 AAAAATAT
1 AATAATAT
36475553 GAAGT-A-AT
1 -AA-TAATAT
36475561 -ATAATAT
1 AATAATAT
36475568 AATAAATAT
1 AAT-AATAT
36475577 AAGTAA-AT
1 AA-TAATAT
36475585 AATAATAT
1 AATAATAT
36475593 AA-AATAT
1 AATAATAT
*
36475600 -ATAATAC
1 AATAATAT
36475607 ATATATATATT
1 A-ATA-ATA-T
*
36475618 AA-AATAA
1 AATAATAT
36475625 AATAATAT
1 AATAATAT
36475633 A
1 A
36475634 TATGCAATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 46
0.66 0.12 0.22
Matches are distributed among these distances:
5 1 0.01
6 8 0.06
7 43 0.31
8 63 0.46
9 17 0.12
10 5 0.04
11 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (8 bp):
AATAATAT
Found at i:36475471 original size:6 final size:7
Alignment explanation
Indices: 36475391--36475635 Score: 57
Period size: 7 Copynumber: 36.0 Consensus size: 7
36475381 ACCTGAAAAT
36475391 ATATATA
1 ATATATA
*
36475398 ATAGATA
1 ATATATA
36475405 ATA-ATA
1 ATATATA
36475411 ATATGA-A
1 ATAT-ATA
36475418 ATAATATA
1 AT-ATATA
* *
36475426 TTGT-TA
1 ATATATA
* *
36475432 AAATGTA
1 ATATATA
36475439 A-A-ATA
1 ATATATA
36475444 ATATAATA
1 ATAT-ATA
36475452 ATATATAA
1 ATATAT-A
36475460 ATATATA
1 ATATATA
*
36475467 A-ATATT
1 ATATATA
*
36475473 ATGTGATA
1 ATAT-ATA
*
36475481 AAACTAT-
1 ATA-TATA
36475488 A-ATATA
1 ATATATA
*
36475494 ATAAATA
1 ATATATA
36475501 ATA-AGTA
1 ATATA-TA
36475508 ATGATAT-
1 AT-ATATA
*
36475515 ATGT-TA
1 ATATATA
*
36475521 AAATAT-
1 ATATATA
36475527 ATAT-TA
1 ATATATA
36475533 ATATGATA
1 ATAT-ATA
*
36475541 ATAGA-A
1 ATATATA
*
36475547 AAATATGA
1 ATATAT-A
36475555 AGTAATATA
1 A-T-ATATA
36475564 ATATAATA
1 ATAT-ATA
36475572 A-ATATA
1 ATATATA
*
36475578 A-GTA-A
1 ATATATA
36475583 ATA-ATA
1 ATATATA
*
36475589 ATATAAA
1 ATATATA
36475596 ATATATA
1 ATATATA
*
36475603 ATACATA
1 ATATATA
36475610 TATATATTA
1 -ATATA-TA
36475619 A-A-ATA
1 ATATATA
36475624 A-A-ATA
1 ATATATA
36475629 ATATATA
1 ATATATA
36475636 TGCAATTTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 68
0.65 0.10 0.25
Matches are distributed among these distances:
5 19 0.11
6 45 0.25
7 60 0.34
8 43 0.24
9 6 0.03
10 4 0.02
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.36
Consensus pattern (7 bp):
ATATATA
Found at i:36475567 original size:5 final size:5
Alignment explanation
Indices: 36475557--36475633 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
36475547 AAATATGAAG
*
36475557 TAATA TAATA TAATA -AATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
* * *
36475606 -CATA TATATA TTAAAA TAAAA TAATA TA
1 TAATA TA-ATA -TAATA TAATA TAATA TA
36475634 TATGCAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
4 11 0.19
5 35 0.60
6 10 0.17
7 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:36475603 original size:17 final size:18
Alignment explanation
Indices: 36475439--36475613 Score: 60
Period size: 18 Copynumber: 9.1 Consensus size: 18
36475429 TTAAAATGTA
36475439 AAATAATATAATAATATAT
1 AAAT-ATATAATAATATAT
*
36475458 AAATATATAAATATTATGTGAT
1 AAATATAT-AATA--ATAT-AT
36475480 AAA-ACTATAAT-ATA-AT
1 AAATA-TATAATAATATAT
*
36475496 AAATAATAAGTAATGATATATGTT
1 AAAT-AT-A-TAAT-A-ATAT-AT
*
36475520 AAAATATATATTAATATGAT
1 -AAATATATAATAATAT-AT
*
36475540 -AATAGA-AA-AATATGAAGT
1 AAATATATAATAATAT--A-T
36475558 AATATAATATAATAA-ATAT
1 AA-AT-ATATAATAATATAT
* *
36475577 AAGTAAATAATAATATA-
1 AAATATATAATAATATAT
36475594 AAATATATAATACATATAT
1 AAATATATAATA-ATATAT
36475613 A
1 A
36475614 TATTAAAATA
Statistics
Matches: 118, Mismatches: 13, Indels: 50
0.65 0.07 0.28
Matches are distributed among these distances:
16 10 0.08
17 21 0.18
18 23 0.19
19 17 0.14
20 9 0.08
21 10 0.08
22 18 0.15
23 3 0.03
24 3 0.03
25 4 0.03
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (18 bp):
AAATATATAATAATATAT
Found at i:36481663 original size:28 final size:27
Alignment explanation
Indices: 36481606--36481702 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
36481596 TAAATTGTGC
*
36481606 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
36481633 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGAATATGT
* *
36481661 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
36481688 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36481703 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGAATATGT
Found at i:36489880 original size:28 final size:28
Alignment explanation
Indices: 36489798--36490002 Score: 272
Period size: 28 Copynumber: 7.4 Consensus size: 28
36489788 GAGATTGGCG
* * * *
36489798 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
36489827 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
36489854 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
36489882 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
36489910 CTAAGTGTGCGAG-TTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
36489937 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
36489965 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
36489992 CTGAGTGTGCG
1 CTAAGTGTGCG
36490003 GACTTAATAT
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 67 0.43
28 79 0.50
29 11 0.07
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:36489888 original size:55 final size:55
Alignment explanation
Indices: 36489823--36490002 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
36489813 TAAATTGTGC
* *
36489823 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
36489878 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* *
36489933 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
36489988 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36490003 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 94 0.79
56 25 0.21
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:36489938 original size:83 final size:82
Alignment explanation
Indices: 36489823--36490002 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
36489813 TAAATTGTGC
*
36489823 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
36489888 GTGCGAGTATGATTATGT
66 GTGCGAGT-TGATTATAT
* * *
36489906 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
36489971 GTGCGAGTTGATTATAT
66 GTGCGAGTTGATTATAT
*
36489988 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36490003 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGTTGATTATAT
Found at i:36498439 original size:54 final size:54
Alignment explanation
Indices: 36498237--36498439 Score: 230
Period size: 54 Copynumber: 3.8 Consensus size: 54
36498227 AGCTTACCAT
* * * * *
36498237 TGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTA-TGAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTACAGAACTCATCAA
* ** * **
36498290 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTACCTTACAGAACTCATCAA
* * *
36498344 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTACAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTACAGAACTCATCAA
* * *
36498398 TGCCATGCCTTGGCATGGTCTTACATGATATGCTTATCTTAC
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTAC
36498440 TAAATGCCAT
Statistics
Matches: 126, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
52 2 0.02
53 33 0.26
54 89 0.71
55 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTACAGAACTCATCAA
Found at i:36498466 original size:47 final size:47
Alignment explanation
Indices: 36498411--36498534 Score: 187
Period size: 47 Copynumber: 2.6 Consensus size: 47
36498401 CATGCCTTGG
* *
36498411 CATGGTCTTACATGATATGCTTATCTTACTAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACTAAATGCCATGTTCCAAA
* *
36498458 CATGGTCTTACAT-AGTATCCTTGTCTTTCCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGA-TATCCTTGTCTTACTAAATGCCATGTTCCAAA
*
36498505 CATGGTCTTACATGGTATCCTTGTCTTACT
1 CATGGTCTTACATGATATCCTTGTCTTACT
36498535 GCCAATGCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 67 0.99
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACTAAATGCCATGTTCCAAA
Found at i:36498795 original size:44 final size:44
Alignment explanation
Indices: 36498674--36498782 Score: 164
Period size: 44 Copynumber: 2.5 Consensus size: 44
36498664 CTAAACCGTT
* * *
36498674 AATTCCTCCTTAAATGCCATGTTATGAACATTGACTTTTTCGTC
1 AATTCCTCCTTAATTGCCATGTTATGAACATGGAATTTTTCGTC
* *
36498718 AATTCTTCCTTAATTGCCATGTTATGAAGATGGAATTTTTCGTC
1 AATTCCTCCTTAATTGCCATGTTATGAACATGGAATTTTTCGTC
*
36498762 AATTCGTCCTTAATTGCCATG
1 AATTCCTCCTTAATTGCCATG
36498783 GTACAACCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (44 bp):
AATTCCTCCTTAATTGCCATGTTATGAACATGGAATTTTTCGTC
Found at i:36507112 original size:29 final size:29
Alignment explanation
Indices: 36506958--36507111 Score: 211
Period size: 29 Copynumber: 5.3 Consensus size: 29
36506948 AAGTCTACAT
* *
36506958 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
36506986 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
36507015 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
36507044 ACATTCATATGGCCGATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* **
36507073 ACATTCCTATTTCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
36507102 ACTTTCATAT
1 ACATTCATAT
36507112 TCATGCTTTC
Statistics
Matches: 110, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 21 0.19
29 89 0.81
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:36511409 original size:29 final size:29
Alignment explanation
Indices: 36511376--36511431 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
36511366 ATCCAATTCA
*
36511376 TATGGCCGATTAGGCCCAAATCACATTTG
1 TATGGCCCATTAGGCCCAAATCACATTTG
36511405 TATGGCCCATTAGGCCCAAATCACATT
1 TATGGCCCATTAGGCCCAAATCACATT
36511432 CATATTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTTG
Found at i:36511673 original size:16 final size:16
Alignment explanation
Indices: 36511654--36511688 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36511644 ACTTTCTGCT
*
36511654 TTTTGGCATTTCGATA
1 TTTTGGCATTTCGACA
*
36511670 TTTTGGCTTTTCGACA
1 TTTTGGCATTTCGACA
36511686 TTT
1 TTT
36511689 CGGGATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTGGCATTTCGACA
Found at i:36511696 original size:24 final size:24
Alignment explanation
Indices: 36511651--36511696 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
36511641 CAAACTTTCT
* * *
36511651 GCTTTTTGGCATTTCGATATTTTG
1 GCTTTTCGACATTTCGAGATTTTG
*
36511675 GCTTTTCGACATTTCGGGATTT
1 GCTTTTCGACATTTCGAGATTT
36511697 GTCGATCTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.13, C:0.15, G:0.22, T:0.50
Consensus pattern (24 bp):
GCTTTTCGACATTTCGAGATTTTG
Found at i:36513167 original size:43 final size:42
Alignment explanation
Indices: 36513120--36513201 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
36513110 CCTTATGTGA
* * **
36513120 TCTTACATGTAATCAAATATCGATGCCTCTGTCCCAGACAAGG
1 TCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACAAGG
* *
36513163 TCTTACACGAAATCAGATACGATGTCAATGTCCCAGACA
1 TCTTACACGAAATCAAATACGATGCCAATGTCCCAGACA
36513202 TATGTCAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAAGG
Found at i:36532941 original size:48 final size:48
Alignment explanation
Indices: 36532807--36533036 Score: 214
Period size: 48 Copynumber: 4.8 Consensus size: 48
36532797 ATCTCACATT
* * * ** * *
36532807 GATGCCAATAGCCCAGCTATGGTCTTACAC-GAAGTCTCATAAGGGTGCT
1 GATGCC-ATATCCCAGATATGGTCTTACACGGGA-TCTCATATCGATGCC
* * * *
36532856 GATGCCATGTCCC-GACATGGTCTTATACGGGACCTCATATCGATGCC
1 GATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGATGCC
* * *
36532903 AATGCCATATCCCAGCTATGGTCTTACATGGGATCTCATA-CTGATGCC
1 GATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATC-GATGCC
* * * * * *
36532951 GATGTCATATCCAAAATATGGTCTTACACAGGATCTCATTTCGATGTC
1 GATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGATGCC
* *
36532999 GATGCTATATCCCAGATATGGTCTTATACGGGATCTCA
1 GATGCCATATCCCAGATATGGTCTTACACGGGATCTCA
36533037 ACACTCACAT
Statistics
Matches: 144, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
47 34 0.24
48 103 0.72
49 7 0.05
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCGATGCC
Found at i:36538369 original size:27 final size:27
Alignment explanation
Indices: 36538329--36538447 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
36538319 TGGATAAGTT
*
36538329 GTAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
36538356 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
36538383 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
36538410 GTAGGATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
36538437 GTAAAATTACC
1 GTAGAATTACC
36538448 ATTTTTCCCC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:36539988 original size:20 final size:20
Alignment explanation
Indices: 36539963--36540003 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36539953 ACATAAACTC
36539963 TAATTCAATTCAGTAGACTT
1 TAATTCAATTCAGTAGACTT
**
36539983 TAATTCAATTTTGTAGACTT
1 TAATTCAATTCAGTAGACTT
36540003 T
1 T
36540004 CAAATCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATTCAATTCAGTAGACTT
Found at i:36547985 original size:40 final size:40
Alignment explanation
Indices: 36547929--36548028 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
36547919 CGGAATTTAA
* * ** *
36547929 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACATAAC
*
36547969 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACATAAC
*
36548009 CCGGATT-TAGTAACTCGCAC
1 CCGG-TTATAGCAACTCGCAC
36548029 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:36553160 original size:40 final size:40
Alignment explanation
Indices: 36553068--36553162 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
36553058 TGACTATGTT
*
36553068 TGGCACTAAGTGAGCGGTTCGAAATAGCTTTGGCTATAAA
1 TGGCACTAAGTGTGCGGTTCGAAATAGCTTTGGCTATAAA
* *
36553108 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTTGGCTATATGA
1 TGGCACTAAGTGTGCG-GTTCGAAATAGCTTTGGCTATA-AA
36553149 -GGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36553163 AATACCAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGGTTCGAAATAGCTTTGGCTATAAA
Found at i:36557968 original size:15 final size:15
Alignment explanation
Indices: 36557940--36557973 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36557930 TGGACCCACT
36557940 ACATAATAAAAATTA
1 ACATAATAAAAATTA
* *
36557955 ACATATTAATAATTA
1 ACATAATAAAAATTA
36557970 ACAT
1 ACAT
36557974 GAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (15 bp):
ACATAATAAAAATTA
Found at i:36564197 original size:13 final size:13
Alignment explanation
Indices: 36564179--36564206 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36564169 ACATATTATA
36564179 AATATTTTGTGTT
1 AATATTTTGTGTT
36564192 AATATTTTGTGTT
1 AATATTTTGTGTT
36564205 AA
1 AA
36564207 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:36565669 original size:40 final size:40
Alignment explanation
Indices: 36565621--36565866 Score: 449
Period size: 40 Copynumber: 6.2 Consensus size: 40
36565611 GGACTAAGAT
*
36565621 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36565661 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36565701 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36565741 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36565781 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
36565821 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
36565860 CCGAAGG
1 CCGAAGG
36565867 TACTTGGGTT
Statistics
Matches: 202, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 15 0.07
40 187 0.93
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:36567894 original size:43 final size:43
Alignment explanation
Indices: 36567725--36567895 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
36567715 ATAGGATTTA
* *
36567725 GATATGTGATTTCATGTAAGACCACATCTGGGACATTGGCATC
1 GATATTTGATTACATGTAAGACCACATCTGGGACATTGGCATC
* * * * ** * *
36567768 GAT-TTGAGATTTACGTATAAAACCATGTCTGGGACATCGACATC
1 GATATT-TGA-TTACATGTAAGACCACATCTGGGACATTGGCATC
* * * *
36567812 G-TATTTGATTTCATGTAAGACC-CTATCTAGGATAGTGGCATC
1 GATATTTGATTACATGTAAGACCAC-ATCTGGGACATTGGCATC
* *
36567854 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATTTGATTACATGTAAGACCACATCTGGGACATTGGCAT
36567896 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 24 0.26
43 40 0.43
44 30 0.32
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACATCTGGGACATTGGCATC
Found at i:36576126 original size:29 final size:28
Alignment explanation
Indices: 36576100--36576155 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
36576090 ATATTTATGT
36576100 GGCCCATTAGGCCCAAATCACCATTATAC
1 GGCCCATTAGGCCCAAATCACC-TTATAC
*
36576129 GGCCCGTTAGGCCCAAATCACCTTATA
1 GGCCCATTAGGCCCAAATCACCTTATA
36576156 TTCATGCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (28 bp):
GGCCCATTAGGCCCAAATCACCTTATAC
Found at i:36578776 original size:93 final size:93
Alignment explanation
Indices: 36578664--36578835 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
36578654 CGCCCATAAG
* *
36578664 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36578729 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
36578757 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
36578822 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
36578836 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:36578832 original size:46 final size:46
Alignment explanation
Indices: 36578657--36578832 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
36578647 TGTAACCCGC
* * *
36578657 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
36578703 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
36578753 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
36578796 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
36578833 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:36586299 original size:46 final size:46
Alignment explanation
Indices: 36586232--36586406 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
36586222 TGTAACCCGC
* * * *
36586232 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36586278 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36586324 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
36586370 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36586407 TGCTCAACCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:36593888 original size:26 final size:28
Alignment explanation
Indices: 36593846--36593901 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
36593836 TTTATTTATC
36593846 TTCTTTAAGTACTTTTT-ATTTTA-TTT
1 TTCTTTAAGTACTTTTTAATTTTAGTTT
*
36593872 TTCTTTAA-TATTATTTTAATTTTAGTTT
1 TTCTTTAAGTACT-TTTTAATTTTAGTTT
36593900 TT
1 TT
36593902 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 3 0.12
26 12 0.46
27 6 0.23
28 5 0.19
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (28 bp):
TTCTTTAAGTACTTTTTAATTTTAGTTT
Found at i:36597836 original size:22 final size:21
Alignment explanation
Indices: 36597776--36597837 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
36597766 CACTAGAAAT
36597776 AGGGGCACACGCCCGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
**
36597797 AGGGGCACATTCCCGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
36597818 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
36597838 ACCAATTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.19, C:0.27, G:0.40, T:0.13
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGA
Found at i:36599139 original size:99 final size:96
Alignment explanation
Indices: 36598960--36599141 Score: 249
Period size: 99 Copynumber: 1.9 Consensus size: 96
36598950 GGGGTTGAAT
* * *
36598960 GCCAACACCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCAACACCACGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
36599025 ACATGGACTTACACTGACTTTCGTCATCGAG
66 ACATGGACTTACACTGACTTTCGTCATCGAG
* * *
36599056 GCCAACGCCACGTCCCAGACATGGTCTTACACTAGCTGTGACATATCT-ATGCCGATGCCATGTC
1 GCCAACACCACGTCCCAAACATGGTCTTACACTAGC--T--CATATCTCAAGCCGATGCCATGTC
* *
36599120 CCAGACTTGGTCTTACACTGAC
62 CCAGACATGGACTTACACTGAC
36599142 ACATCTCGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
96 32 0.43
98 1 0.01
99 34 0.46
100 7 0.09
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (96 bp):
GCCAACACCACGTCCCAAACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
ACATGGACTTACACTGACTTTCGTCATCGAG
Found at i:36599211 original size:46 final size:46
Alignment explanation
Indices: 36599155--36599281 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 46
36599145 TCTCGTAGCC
* * *
36599155 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCAAGGGT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAGAGT
* *
36599201 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATATT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGAGT
*
36599247 GATGCCATGTCCCAAACATGGTCTTACACTAGCTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
36599282 ATGATAACCC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 43 0.60
47 14 0.19
48 15 0.21
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAGAGT
Found at i:36605500 original size:22 final size:22
Alignment explanation
Indices: 36605475--36605553 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
36605465 ACACAGTGGC
36605475 ACACGCCCGTGTGGAAGGGGCA
1 ACACGCCCGTGTGGAAGGGGCA
36605497 ACACGCCCGTGTTGG-AGGGGCA
1 ACACGCCCGTG-TGGAAGGGGCA
*
36605519 ACACGCCTGTGTGGAAGGGGCA
1 ACACGCCCGTGTGGAAGGGGCA
36605541 ACACGCCCGTGTG
1 ACACGCCCGTGTG
36605554 ACCAATTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
21 3 0.06
22 47 0.89
23 3 0.06
ACGTcount: A:0.20, C:0.28, G:0.39, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGGAAGGGGCA
Found at i:36618655 original size:13 final size:13
Alignment explanation
Indices: 36618637--36618665 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36618627 TTTAGTTTAA
36618637 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36618650 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36618663 TTA
1 TTA
36618666 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:36625223 original size:13 final size:13
Alignment explanation
Indices: 36625205--36625233 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36625195 TTTATTTTAA
36625205 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36625218 TTAGTTAATTAGT
1 TTAGTTAATTAGT
36625231 TTA
1 TTA
36625234 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:36628090 original size:9 final size:9
Alignment explanation
Indices: 36628021--36628225 Score: 75
Period size: 9 Copynumber: 22.3 Consensus size: 9
36628011 AAGAAATATT
36628021 AAAATATATA
1 AAAAT-TATA
*
36628031 AAAGTTCA-A
1 AAAATT-ATA
36628040 AAAATTAT-
1 AAAATTATA
*
36628048 TAAATTATTA
1 AAAATTA-TA
36628058 TAAAATTATA
1 -AAAATTATA
* *
36628068 GAAAACTACAA
1 -AAAATTA-TA
36628079 AAAATTATA
1 AAAATTATA
*
36628088 AAAATCATA
1 AAAATTATA
* *
36628097 TAAATTGTA
1 AAAATTATA
*
36628106 AAAAGTATA
1 AAAATTATA
**
36628115 TGAATTATGA
1 AAAATTAT-A
*
36628125 AGAA-TA-A
1 AAAATTATA
*
36628132 AAAA-TGTA
1 AAAATTATA
36628140 AAAATTATAA
1 AAAATTAT-A
* *
36628150 AAAAATATTT
1 AAAATTA-TA
36628160 AAAA-TA-A
1 AAAATTATA
36628167 AAAA-TATTA
1 AAAATTA-TA
*
36628176 AATATTAATA
1 AAAATT-ATA
* *
36628186 AAATTTACA
1 AAAATTATA
36628195 AAATATTATA
1 AAA-ATTATA
**
36628205 AAAAGCATA
1 AAAATTATA
36628214 AAAATTATA
1 AAAATTATA
36628223 AAA
1 AAA
36628226 CAAACTAAAA
Statistics
Matches: 143, Mismatches: 36, Indels: 33
0.67 0.17 0.16
Matches are distributed among these distances:
7 11 0.08
8 12 0.08
9 63 0.44
10 48 0.34
11 9 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:36628099 original size:39 final size:38
Alignment explanation
Indices: 36628020--36628100 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 38
36628010 AAAGAAATAT
* * * * *
36628020 TAAAATATATAAAAGTTCAAAAAATTATTAAATTATTA
1 TAAAATATAGAAAACTACAAAAAATTATAAAATCATTA
36628058 TAAAATTATAGAAAACTACAAAAAATTATAAAAATCA-TA
1 TAAAA-TATAGAAAACTACAAAAAATTAT-AAAATCATTA
36628097 TAAA
1 TAAA
36628101 TTGTAAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 5 0.14
39 26 0.72
40 5 0.14
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (38 bp):
TAAAATATAGAAAACTACAAAAAATTATAAAATCATTA
Found at i:36628251 original size:21 final size:19
Alignment explanation
Indices: 36628194--36628251 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
36628184 TAAAATTTAC
**
36628194 AAAATATTATAAAAAGCA-T
1 AAAA-ATTATAAAAAAAACT
*
36628213 AAAAATTATAAAACAAACT
1 AAAAATTATAAAAAAAACT
36628232 AAAAATATATGAAAAAAAAC
1 AAAAAT-TAT-AAAAAAAAC
36628252 ATTTTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 10 0.31
19 11 0.34
20 3 0.09
21 8 0.25
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAATTATAAAAAAAACT
Found at i:36628469 original size:11 final size:11
Alignment explanation
Indices: 36628448--36628493 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
36628438 ATTTTAAATA
36628448 TTTTTAT-TTT
1 TTTTTATATTT
*
36628458 TTTTTGTA-TT
1 TTTTTATATTT
* *
36628468 TTTATATAATT
1 TTTTTATATTT
36628479 TTTTTATATTT
1 TTTTTATATTT
36628490 TTTT
1 TTTT
36628494 CACTTTTCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 14 0.48
11 15 0.52
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTATATTT
Found at i:36628544 original size:17 final size:16
Alignment explanation
Indices: 36628518--36628552 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
36628508 TTATAATAAC
*
36628518 TTTAATAATTTTCTATA
1 TTTAAAAATTTTC-ATA
36628535 TTTAAAAATTTTCATA
1 TTTAAAAATTTTCATA
36628551 TT
1 TT
36628553 CTTTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAAATTTTCATA
Found at i:36628629 original size:20 final size:20
Alignment explanation
Indices: 36628606--36628643 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36628596 TATTTTCATA
36628606 ATTTAT-ATATATTTTTATTC
1 ATTTATAATA-ATTTTTATTC
36628626 ATTTATAATAATTTTTAT
1 ATTTATAATAATTTTTAT
36628644 AGTTTTGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTATAATAATTTTTATTC
Found at i:36628649 original size:29 final size:28
Alignment explanation
Indices: 36628603--36628670 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
36628593 TCCTATTTTC
* * *
36628603 ATAATTTATATATATTTTTATTCATTTATA
1 ATAATTT-T-TATATTTTGAGTAATTTATA
36628633 ATAATTTTTATAGTTTTGAGTAATTTATA
1 ATAATTTTTATA-TTTTGAGTAATTTATA
36628662 ATAATTTTT
1 ATAATTTTT
36628671 TATAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 7 0.21
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
ATAATTTTTATATTTTGAGTAATTTATA
Found at i:36632224 original size:24 final size:24
Alignment explanation
Indices: 36632192--36632256 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
36632182 GAAAAATAAT
* *
36632192 AAAAGGAATAAATTTGTGTACAAA
1 AAAATGAATAAATTTGTCTACAAA
* * *
36632216 AAAATGAATGAACTTGTCTACATA
1 AAAATGAATAAATTTGTCTACAAA
36632240 AAAATGAATAAATTTGT
1 AAAATGAATAAATTTGT
36632257 TAACGAGGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (24 bp):
AAAATGAATAAATTTGTCTACAAA
Found at i:36634883 original size:64 final size:64
Alignment explanation
Indices: 36634802--36634985 Score: 210
Period size: 67 Copynumber: 2.8 Consensus size: 64
36634792 AGACATTATG
* * *
36634802 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
36634866 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
36634931 AA
63 AA
* * * *
36634933 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTATACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAGACAAGAGAGC
36634986 CGAACTATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
63 20 0.20
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:36638076 original size:24 final size:25
Alignment explanation
Indices: 36638049--36638100 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
36638039 GCCTAGCCTC
*
36638049 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
*
36638073 TTTTGATAAACTGAGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
36638098 TTT
1 TTT
36638101 CGGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGAGGCAAAGCCCT
Found at i:36638084 original size:25 final size:25
Alignment explanation
Indices: 36638056--36638125 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
36638046 CTCTTTTAAT
*
36638056 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
36638081 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
36638106 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
36638126 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:36638995 original size:27 final size:27
Alignment explanation
Indices: 36638936--36638997 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
36638926 CATATTCGTT
36638936 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGGTATTACGGTC
* *
36638963 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAGGGG-TATTACGGTC
*
36638990 TTTTTACC
1 ATTTTACC
36638998 TATTAGGGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTC
Found at i:36639118 original size:54 final size:52
Alignment explanation
Indices: 36639036--36639208 Score: 159
Period size: 54 Copynumber: 3.2 Consensus size: 52
36639026 TACAAGAGTG
* * * *
36639036 TTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTTTAAATCAGAGGTA
1 TTTTGGTAATTTTACAAAT-TAGGGTATTTCTGTAATTTTATAAA-CAGAGGTA
* * * *
36639090 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAATT-AGGGTATTTCTGTAATTTTATAAAC-AGAGGTA
* * * *
36639144 TTTTGGTAATTTTAAAAACTAGGGGTATTT-TGGTAATTTTGTAAACCAAAGGTA
1 TTTTGGTAATTTTACAAATTA-GGGTATTTCT-GTAATTTTATAAA-CAGAGGTA
*
36639198 TTTTAGTAATT
1 TTTTGGTAATT
36639209 CTGTAAATCG
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
53 2 0.02
54 94 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (52 bp):
TTTTGGTAATTTTACAAATTAGGGTATTTCTGTAATTTTATAAACAGAGGTA
Found at i:36639189 original size:27 final size:27
Alignment explanation
Indices: 36639058--36639208 Score: 128
Period size: 27 Copynumber: 5.6 Consensus size: 27
36639048 TACAAATCAA
*
36639058 GGGTATTTCT-GTAATTTTTTAAA-TCAG
1 GGGTATTT-TGGTAATTTTATAAACT-AG
* * *
36639085 AGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTATAAACTAG
* * *
36639111 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACTAG
* *
36639139 TGGTATTTTGGTAATTTTAAAAACTAG
1 GGGTATTTTGGTAATTTTATAAACTAG
* * *
36639166 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACTAG
* *
36639193 AGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
36639209 CTGTAAATCG
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.02
27 98 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACTAG
Found at i:36639224 original size:27 final size:27
Alignment explanation
Indices: 36639166--36639251 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
36639156 TAAAAACTAG
* * * *
36639166 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTCTGTAAATCGA
*
36639193 AGGTATTTTAGTAATTCTGTAAATCGA
1 GGGTATTTTAGTAATTCTGTAAATCGA
*** *
36639220 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTCTGTAAATCGA
36639247 GGGTA
1 GGGTA
36639252 AAACGGTAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (27 bp):
GGGTATTTTAGTAATTCTGTAAATCGA
Found at i:36639252 original size:27 final size:27
Alignment explanation
Indices: 36639201--36639269 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
36639191 AAAGGTATTT
36639201 TAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
36639228 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
36639255 CGGTAATTCTGTAAA
1 TAGTAATTCTGTAAA
36639270 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Done.