Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 36 of 325
Found at i:8775788 original size:5 final size:5
Alignment explanation
Indices: 8775778--8775811 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
8775768 TTGTGTGTTC
8775778 TTTAT TTTAT TTTAT TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
8775812 CACAAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:8779511 original size:40 final size:39
Alignment explanation
Indices: 8779466--8779653 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 39
8779456 ATAACCACAA
* * *** *
8779466 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
8779506 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
8779546 GCACGAATGCCTTCGGGTCTTAGCCCGAATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* * *
8779586 GGACGAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
8779626 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
8779654 GTATCATTCA
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 127 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:8786770 original size:40 final size:39
Alignment explanation
Indices: 8786721--8786928 Score: 217
Period size: 40 Copynumber: 5.2 Consensus size: 39
8786711 TCTTCGGAAT
* *
8786721 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
8786760 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
8786800 TTAGCCCGGATATAACAACTCA-CACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACT-AGCAC-AATGCCTTCGGGTC
*
8786840 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
8786880 TTAGCCCGGAT-TGAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AA-CAACTAGCA-CAATGCCTTCGGGTC
8786920 TTAGCCCGG
1 TTAGCCCGG
8786929 GTATCATTCA
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:8790924 original size:13 final size:13
Alignment explanation
Indices: 8790906--8790931 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8790896 ACACTTAATA
8790906 AATAAAAAATCTT
1 AATAAAAAATCTT
8790919 AATAAAAAATCTT
1 AATAAAAAATCTT
8790932 CAAGTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAAAAATCTT
Found at i:8793266 original size:196 final size:195
Alignment explanation
Indices: 8792951--8793316 Score: 498
Period size: 196 Copynumber: 1.9 Consensus size: 195
8792941 AAAAATGTTG
* ** * *
8792951 CAGATAGAATCTACCTATGGTTGTGGGTACATAGTAAGACCATCACAGATGGAATCTGCATATTG
1 CAGATAGAATCTACCGATGGTTGTGGGTACATAACAAGACCATCACAGATGGAATCTACATATGG
* * *
8793016 TTATGAGAACACAAAAAAACAATGCAGATAAACTGTCAATACTTTCTCCATTCATAACGTCCCAC
66 TTATGAGAACACAAAAAAACAATGCAGATAAACTATCAATACTTCCTCCATTCATAACGTCCCAA
** *
8793081 CCCATATGATGCAATATGGTATGCTTAAAATAGATCAACACTTGTAGATGCACAACAAAAACATC
131 CCCATACAATGCAATACGGTATG-TTAAAATAGATCAACACTTGTAGATGCACAACAAAAACATC
8793146 A
195 A
* * * ** *
8793147 CAGATGGAATCTACCGATGGTTGTGGGTTCATAACAAGACCGTCGTAGATGGAATCTACCTATGG
1 CAGATAGAATCTACCGATGGTTGTGGGTACATAACAAGACCATCACAGATGGAATCTACATATGG
* * * *
8793212 TTGTGAGAACACAACAAAATAATGTAGATAAACTATCAATACTTCCTCCATTCATAACGTCCCAA
66 TTATGAGAACACAAAAAAACAATGCAGATAAACTATCAATACTTCCTCCATTCATAACGTCCCAA
* * * *
8793277 GCCATGCAATGCAATACGGTATGTTCAAATATATCAACAC
131 CCCATACAATGCAATACGGTATGTTAAAATAGATCAACAC
8793317 AATAGCATTT
Statistics
Matches: 145, Mismatches: 25, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
195 15 0.10
196 130 0.90
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (195 bp):
CAGATAGAATCTACCGATGGTTGTGGGTACATAACAAGACCATCACAGATGGAATCTACATATGG
TTATGAGAACACAAAAAAACAATGCAGATAAACTATCAATACTTCCTCCATTCATAACGTCCCAA
CCCATACAATGCAATACGGTATGTTAAAATAGATCAACACTTGTAGATGCACAACAAAAACATCA
Found at i:8795754 original size:24 final size:23
Alignment explanation
Indices: 8795727--8795773 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8795717 GAAAAACCAT
*
8795727 TTTTATTCAAATGGCAAAATGTCA
1 TTTTATT-AAACGGCAAAATGTCA
*
8795751 TTTTATTTAACGGCAAAATGTCA
1 TTTTATTAAACGGCAAAATGTCA
8795774 ATCTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (23 bp):
TTTTATTAAACGGCAAAATGTCA
Found at i:8801300 original size:17 final size:17
Alignment explanation
Indices: 8801278--8801319 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
8801268 GTGATCTATA
8801278 AATTTATACATTATT-TT
1 AATTTA-ACATTATTATT
*
8801295 AATTTAATATTATTATT
1 AATTTAACATTATTATT
8801312 AATATTAA
1 AAT-TTAA
8801320 ATATGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAACATTATTATT
Found at i:8801322 original size:19 final size:17
Alignment explanation
Indices: 8801287--8801335 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
8801277 AAATTTATAC
8801287 ATTATTTTAAT-TTAAT
1 ATTATTTTAATATTAAT
8801303 ATTATTATTAATATTAAAT
1 ATTATT-TTAATATT-AAT
8801322 ATGT-TTTTAATATT
1 AT-TATTTTAATATT
8801336 TCTTGTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.21
17 5 0.17
18 10 0.34
19 7 0.24
20 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTATTTTAATATTAAT
Found at i:8807532 original size:7 final size:7
Alignment explanation
Indices: 8807522--8807547 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8807512 ACACTGCGCA
8807522 CTGCAGT
1 CTGCAGT
8807529 CTGCAGT
1 CTGCAGT
8807536 CTGCAGT
1 CTGCAGT
8807543 CTGCA
1 CTGCA
8807548 AGCGCATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (7 bp):
CTGCAGT
Found at i:8808792 original size:30 final size:27
Alignment explanation
Indices: 8808747--8808809 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
8808737 TCGTTAAAAT
*
8808747 TTTAAATTTTTTGTTCATGTTCATTTA
1 TTTAAATTTTTTGTTCATATTCATTTA
* *
8808774 TTTAAATTTATGTGTGTTCATATTCGTTTG
1 TTTAAATTT-T-T-TGTTCATATTCATTTA
8808804 TTTAAA
1 TTTAAA
8808810 ATTCACGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.30
28 1 0.03
29 1 0.03
30 19 0.63
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.59
Consensus pattern (27 bp):
TTTAAATTTTTTGTTCATATTCATTTA
Found at i:8811138 original size:24 final size:26
Alignment explanation
Indices: 8811108--8811168 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
8811098 CTCTCTCAAC
8811108 AAAAATTATAAAAAAAATAA-TTTT-
1 AAAAATTATAAAAAAAATAATTTTTA
* ***
8811132 AAAAATTCTAAAATTTATAATTTTTA
1 AAAAATTATAAAAAAAATAATTTTTA
8811158 AAAAATTATAA
1 AAAAATTATAA
8811169 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 16 0.53
25 4 0.13
26 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAAATTATAAAAAAAATAATTTTTA
Found at i:8811161 original size:17 final size:17
Alignment explanation
Indices: 8811141--8811173 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8811131 TAAAAATTCT
*
8811141 AAAATTTATAATTTTTA
1 AAAAATTATAATTTTTA
8811158 AAAAATTATAATTTTT
1 AAAAATTATAATTTTT
8811174 TTAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAAATTATAATTTTTA
Found at i:8811179 original size:17 final size:18
Alignment explanation
Indices: 8811140--8811179 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8811130 TTAAAAATTC
8811140 TAAAATTTATAATTTTTA
1 TAAAATTTATAATTTTTA
* *
8811158 -AAAAATTATAATTTTTT
1 TAAAATTTATAATTTTTA
8811175 TAAAA
1 TAAAA
8811180 GAAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATTTATAATTTTTA
Found at i:8818477 original size:15 final size:15
Alignment explanation
Indices: 8818453--8818488 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8818443 GGAATGCAAC
8818453 ATCATCATCATCATT
1 ATCATCATCATCATT
* *
8818468 GTCATGATCATCATT
1 ATCATCATCATCATT
8818483 ATCATC
1 ATCATC
8818489 CACTAGGAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (15 bp):
ATCATCATCATCATT
Found at i:8819717 original size:28 final size:27
Alignment explanation
Indices: 8819665--8819736 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
8819655 TTTAATAAAT
* *
8819665 TTAAAAT-AAATAAAAAGTATTTAATA
1 TTAAAATAAAATAATAAGTATATAATA
*
8819691 TTAACAATAAAATAATAATTATATAATA
1 TTAA-AATAAAATAATAAGTATATAATA
* *
8819719 TCAAAATAATAAAAATAA
1 TTAAAATAA-AATAATAA
8819737 AATAGTTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 4 0.11
27 8 0.21
28 26 0.68
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (27 bp):
TTAAAATAAAATAATAAGTATATAATA
Found at i:8819740 original size:22 final size:22
Alignment explanation
Indices: 8819699--8819740 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8819689 TATTAACAAT
** *
8819699 AAAATAATAATTATATAATATC
1 AAAATAATAAAAATAAAATATC
8819721 AAAATAATAAAAATAAAATA
1 AAAATAATAAAAATAAAATA
8819741 GTTGTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAATAAAAATAAAATATC
Found at i:8823030 original size:51 final size:51
Alignment explanation
Indices: 8822939--8823039 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
8822929 TTATTCCAAT
*
8822939 ATTTGGTAATACAAAATTAGTCAAAAGCTTCAAAAGAGTTAATATATCAAC
1 ATTTGGTAATACAAAATTAGTCAAAAGCTCCAAAAGAGTTAATATATCAAC
** ** ** * *
8822990 ATTTGGTTGTACAAAATTAGTTGAAAGCTCCGGAATAGTTAATATGTCAA
1 ATTTGGTAATACAAAATTAGTCAAAAGCTCCAAAAGAGTTAATATATCAA
8823040 TATCTAAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (51 bp):
ATTTGGTAATACAAAATTAGTCAAAAGCTCCAAAAGAGTTAATATATCAAC
Found at i:8827033 original size:2 final size:2
Alignment explanation
Indices: 8827026--8827065 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
8827016 GTATAATAAC
*
8827026 AT AT AT AT AT AT AT A- AT A- AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8827066 TCATTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8827042 original size:20 final size:20
Alignment explanation
Indices: 8827017--8827060 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
8827007 AACTAAATTG
8827017 TATAATAACATATATATATA
1 TATAATAACATATATATATA
8827037 TATAATAACATATATATATA
1 TATAATAACATATATATATA
8827057 TATA
1 TATA
8827061 TATATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAATAACATATATATATA
Found at i:8833932 original size:26 final size:26
Alignment explanation
Indices: 8833902--8833972 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
8833892 ATACATATTT
8833902 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
8833928 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
8833957 AATTATTTAATATTTA
1 AATTATTT-ATATTTA
8833973 AATTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 7 0.18
27 6 0.16
28 7 0.18
29 18 0.47
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:8833941 original size:16 final size:16
Alignment explanation
Indices: 8833920--8833969 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
8833910 ATATTTAGTC
8833920 ATATAATAAATTATTA
1 ATATAATAAATTATTA
8833936 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
8833949 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
8833966 ATAT
1 ATAT
8833970 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:8833945 original size:29 final size:30
Alignment explanation
Indices: 8833912--8833969 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
8833902 AATTATTTAT
8833912 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
8833941 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
8833970 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:8837348 original size:26 final size:26
Alignment explanation
Indices: 8837277--8837351 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 26
8837267 TAAAATTTTT
* **
8837277 TAAAAATATATTAAATAATCAAATACATT
1 TAAAAATATATT-AA-AA-CAAAAACAAA
*
8837306 TAAAACAAATATTAAAACAAAAACAAA
1 TAAAA-ATATATTAAAACAAAAACAAA
8837333 TAAAAATATATTAAAACAA
1 TAAAAATATATTAAAACAA
8837352 TTTTTAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 13 0.32
27 12 0.30
28 2 0.05
29 7 0.17
30 6 0.15
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (26 bp):
TAAAAATATATTAAAACAAAAACAAA
Found at i:8837359 original size:38 final size:40
Alignment explanation
Indices: 8837305--8837388 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 40
8837295 TCAAATACAT
8837305 TTAAAACAAATATTAAAACAA-AAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAATAAACAAATTAAAAATATA
* * *
8837343 TTAAAACAATTTTTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAATAAACAAATTAAAAATATA
*
8837383 ATAAAA
1 TTAAAA
8837389 ATTAATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 19 0.47
39 6 0.15
40 15 0.38
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAATAAACAAATTAAAAATATA
Found at i:8837415 original size:27 final size:29
Alignment explanation
Indices: 8837371--8837438 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 29
8837361 CAATACACAA
* * *
8837371 ATTAAAAATATAATAAAAAT-TAATTAT-
1 ATTAAAAATAAAAAAAAAATATAAATATG
*
8837398 ATT-AAAATTAAAAAAAAATATAAATATG
1 ATTAAAAATAAAAAAAAAATATAAATATG
8837426 ATTAAAAATAAAA
1 ATTAAAAATAAAA
8837439 TTTATATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 13 0.39
27 9 0.27
28 3 0.09
29 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (29 bp):
ATTAAAAATAAAAAAAAAATATAAATATG
Found at i:8837437 original size:28 final size:26
Alignment explanation
Indices: 8837371--8837438 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
8837361 CAATACACAA
* *
8837371 ATTAAAAATATAATAAAAATTAATTAT
1 ATTAAAAATA-AAAAAAAATTAAATAT
*
8837398 ATTAAAATTAAAAAAAAATATAAATAT
1 ATTAAAAATAAAAAAAAAT-TAAATAT
8837425 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
8837439 TTTATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.23
27 15 0.43
28 12 0.34
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (26 bp):
ATTAAAAATAAAAAAAAATTAAATAT
Found at i:8840464 original size:26 final size:26
Alignment explanation
Indices: 8840428--8840511 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
8840418 TGATACAAAT
8840428 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8840454 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
8840480 TGGTAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8840506 TGATAA
1 TGATAA
8840512 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8842171 original size:27 final size:26
Alignment explanation
Indices: 8842131--8842271 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
8842121 AGGAAGCGTC
*
8842131 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
8842158 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
8842185 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
8842212 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
8842239 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
8842266 CTGGTG
1 CTGGTG
8842272 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:8842213 original size:54 final size:53
Alignment explanation
Indices: 8842131--8842271 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
8842121 AGGAAGCGTC
8842131 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
8842185 CTGGTGGCTATGCCACGATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
8842239 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
8842272 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:8842282 original size:27 final size:26
Alignment explanation
Indices: 8842131--8842288 Score: 147
Period size: 27 Copynumber: 5.9 Consensus size: 26
8842121 AGGAAGCGTC
* * *
8842131 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
8842158 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * * *
8842185 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
* *
8842212 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
8842239 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
8842266 CTGGTGACT-TCGTCACAATATCT
1 CTGGTGACTCT-GCCACAATATCT
8842289 AGCAGCCTCG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:8848531 original size:20 final size:20
Alignment explanation
Indices: 8848493--8848531 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8848483 TTTTCTTTAT
*
8848493 TTTTATTTTAAATTTTAATA
1 TTTTATTTTAAATTATAATA
* *
8848513 TTTTGTTTTACATTATAAT
1 TTTTATTTTAAATTATAAT
8848532 CTTCTAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATTTTAAATTATAATA
Found at i:8850379 original size:21 final size:20
Alignment explanation
Indices: 8850350--8850388 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8850340 GATACATGGT
*
8850350 AAAAGGTATCGATAATTTTTA
1 AAAAAGTATCGAT-ATTTTTA
8850371 AAAAAGTATCGATATTTT
1 AAAAAGTATCGATATTTT
8850389 GTGTGATTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (20 bp):
AAAAAGTATCGATATTTTTA
Found at i:8850715 original size:21 final size:19
Alignment explanation
Indices: 8850672--8850715 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
8850662 TTTTGAATTT
*
8850672 TGTTCAAAAATTTTCTAAG
1 TGTTCAAAAATTTTCTAAA
*
8850691 TGTTCAAAACATTTTTTAAAA
1 TGTTCAAAA-ATTTTCT-AAA
8850712 TGTT
1 TGTT
8850716 TGGAAGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 6 0.29
21 6 0.29
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (19 bp):
TGTTCAAAAATTTTCTAAA
Found at i:8850965 original size:24 final size:24
Alignment explanation
Indices: 8850937--8850983 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8850927 AAGTTAACTT
8850937 AAATAAT-TATATATTTAAAATTAA
1 AAATAATATAT-TATTTAAAATTAA
*
8850961 AAATAATATATTATTTATAATTA
1 AAATAATATATTATTTAAAATTA
8850984 TGTAAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATAATATATTATTTAAAATTAA
Found at i:8853305 original size:30 final size:29
Alignment explanation
Indices: 8853270--8853354 Score: 80
Period size: 31 Copynumber: 2.9 Consensus size: 29
8853260 TATTAAATCA
* *
8853270 AAATTAAAGTTCAAATATATATTTGTACC
1 AAATTAAAGTTCAAATATATAATTATACC
** **
8853299 ATAATTAGACTTTCAGGTATATAATTATACC
1 A-AATTA-AAGTTCAAATATATAATTATACC
* *
8853330 AAATTAAAGTTCATATTTATAATTA
1 AAATTAAAGTTCAAATATATAATTA
8853355 CACAATAAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
29 15 0.35
30 10 0.23
31 18 0.42
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (29 bp):
AAATTAAAGTTCAAATATATAATTATACC
Found at i:8853780 original size:26 final size:26
Alignment explanation
Indices: 8853751--8853858 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
8853741 TGATACAAAT
*
8853751 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
8853777 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
8853803 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
8853829 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
8853855 TGAT
1 TGAT
8853859 GGGAATTTCA
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:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:8858104 original size:18 final size:17
Alignment explanation
Indices: 8858081--8858174 Score: 75
Period size: 18 Copynumber: 5.4 Consensus size: 17
8858071 GTATGATAAA
8858081 AATAATAGTAACAAAAAT
1 AATAATA-TAACAAAAAT
*
8858099 AAT-A-ATAACAAATAT
1 AATAATATAACAAAAAT
* *
8858114 AACAAATATAACAAATAT
1 AA-TAATATAACAAAAAT
* *
8858132 AATAATAATAATAATAAT
1 AATAAT-ATAACAAAAAT
* *
8858150 AATAATAATAATAATAAT
1 AATAAT-ATAACAAAAAT
8858168 AATAATA
1 AATAATA
8858175 ATAATAATGA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 6 0.09
18 48 0.73
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (17 bp):
AATAATATAACAAAAAT
Found at i:8858117 original size:9 final size:9
Alignment explanation
Indices: 8858103--8858133 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
8858093 AAAAATAATA
8858103 ATAACAAAT
1 ATAACAAAT
8858112 ATAACAAAT
1 ATAACAAAT
8858121 ATAACAAAT
1 ATAACAAAT
8858130 ATAA
1 ATAA
8858134 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAACAAAT
Found at i:8858138 original size:3 final size:3
Alignment explanation
Indices: 8858130--8858264 Score: 136
Period size: 3 Copynumber: 45.3 Consensus size: 3
8858120 TATAACAAAT
8858130 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * **
8858178 ATA ATG ATA GTA ATA ATA CA-A ATA A-A ACA ATA GTA ATA GCA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
8858222 ATA GA-A ATA ATA ATA CTCA A-A ATA ATA ATA A-A CATA ATA ATA A
1 ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA A
8858265 ATATAAGACT
Statistics
Matches: 110, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
2 7 0.06
3 99 0.90
4 4 0.04
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:8858260 original size:15 final size:14
Alignment explanation
Indices: 8858079--8858264 Score: 114
Period size: 15 Copynumber: 12.9 Consensus size: 14
8858069 TAGTATGATA
* *
8858079 AAAATAATAGTAACA
1 AAAATAATAATAA-T
*
8858094 AAAATAATAATAAC
1 AAAATAATAATAAT
*
8858108 AAATATAACAA-ATAT
1 AAA-ATAATAATA-AT
*
8858123 AACA-AAT-ATAAT
1 AAAATAATAATAAT
8858135 AATAATAATAATAAT
1 AA-AATAATAATAAT
8858150 AATAATAATAATAAT
1 AA-AATAATAATAAT
8858165 AATAATAATAATAAT
1 AA-AATAATAATAAT
* *
8858180 AATGATAGTAATAAT
1 AA-AATAATAATAAT
*
8858195 ACAAATAA-AACAAT
1 A-AAATAATAATAAT
* **
8858209 AGTAATAGCAATAAT
1 A-AAATAATAATAAT
*
8858224 AGAAATAATAATACT
1 A-AAATAATAATAAT
8858239 CAAAATAATAAT-A-
1 -AAAATAATAATAAT
*
8858252 AACATAATAATAA
1 AAAATAATAATAA
8858265 ATATAAGACT
Statistics
Matches: 139, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.11
13 5 0.04
14 18 0.13
15 99 0.71
16 2 0.01
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:8858265 original size:12 final size:11
Alignment explanation
Indices: 8858094--8858270 Score: 97
Period size: 12 Copynumber: 14.6 Consensus size: 11
8858084 AATAGTAACA
8858094 AAAATAATAAT
1 AAAATAATAAT
*
8858105 AACAA-ATATAAC
1 AA-AATA-ATAAT
*
8858117 AAATATAACAAAT
1 AAA-ATAA-TAAT
*
8858130 ATAATAATAAT
1 AAAATAATAAT
8858141 AATAATAATAAT
1 AA-AATAATAAT
8858153 AATAATAATAAT
1 AA-AATAATAAT
8858165 AATAATAATAAT
1 AA-AATAATAAT
* *
8858177 AATAATGATAGT
1 AA-AATAATAAT
8858189 AATAATACA-AAT
1 AA-AATA-ATAAT
* *
8858201 AAAACAATAGT
1 AAAATAATAAT
**
8858212 AATAGCAATAAT
1 AA-AATAATAAT
8858224 AGAAATAATAATACT
1 A-AAATAAT-A-A-T
8858239 CAAAATAATAAT
1 -AAAATAATAAT
8858251 AAACATAATAAT
1 AAA-ATAATAAT
8858263 AAATATAA
1 AAA-ATAA
8858271 GACTCAAATT
Statistics
Matches: 134, Mismatches: 17, Indels: 29
0.74 0.09 0.16
Matches are distributed among these distances:
10 1 0.01
11 18 0.13
12 95 0.71
13 9 0.07
14 2 0.01
15 8 0.06
16 1 0.01
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:8859807 original size:88 final size:87
Alignment explanation
Indices: 8859536--8859812 Score: 219
Period size: 88 Copynumber: 3.1 Consensus size: 87
8859526 TACTGCAACT
* *
8859536 TTAGGGAGA-AAAGGCTGATGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCC
1 TTAGGGAGATAAA-GCTGATGGCTTAGATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGTC
* *
8859600 ATCTTCAATCTACTCCACTACTAC
65 ATCTTCGATCTGCTCCACTACT-C
* * * * * ** * **
8859624 TTAGGGAGATAAGATCTACAAT--TTTCAG-TCTGCTCTACTGCAACTTCGGGGAGATAAGACTT
1 TTAGGGAGATAA-AGCT--GATGGCTT-AGATCTGCTCCATTGCCGCTACATGGAGATAAGA-TT
* *
8859686 -GT-ATCTT-GAACCTGCTCTACTGTAACTC
61 CGTCATCTTCG-ATCTGCTCCAC--T-ACTC
* * *
8859714 -CAGGGAGATAAAGCTGGTGGCTTAGATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGTCG
1 TTAGGGAGATAAAGCTGATGGCTTAGATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGTCA
8859778 TCTTCGATCTGCTCCACTACTGC
66 TCTTCGATCTGCTCCACTACT-C
8859801 TTAGGGAGATAA
1 TTAGGGAGATAA
8859813 GATCTGTAAT
Statistics
Matches: 139, Mismatches: 32, Indels: 36
0.67 0.15 0.17
Matches are distributed among these distances:
86 4 0.03
87 6 0.04
88 63 0.45
89 54 0.39
90 7 0.05
91 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
TTAGGGAGATAAAGCTGATGGCTTAGATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGTCA
TCTTCGATCTGCTCCACTACTC
Found at i:8859809 original size:44 final size:44
Alignment explanation
Indices: 8859761--8860343 Score: 235
Period size: 44 Copynumber: 13.2 Consensus size: 44
8859751 GCCGCTACAT
*
8859761 GGAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAG
1 GGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAG
** * * * ** * *
8859805 GGAGATAAGA-TCTGTAATTTTCAGTTTGCTCCACTACAACTCAA
1 GGAGATAAGATTC-GTCGTCTTCAATCTGCTCCACTACTGCTTAG
* ** * * * * * * *
8859849 GGAGATGAGGCTAGT-GGCCTAAATCTGCTTCC-CTACTACCTCG
1 GGAGATAAGATTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAG
* * * * *
8859892 AGAAGATAAGATTTGCCGTCTTTAATTTGCTCCACTACTGCTTAG
1 -GGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAG
* * *
8859937 GGAGATAAGA-TC-TGCAATCATCAA-CTCGCTCCACTACTGCTTAA
1 GGAGATAAGATTCGT-C-GTCTTCAATCT-GCTCCACTACTGCTTAG
* ** * * * * * * *
8859981 AGAGATAAGGCTAGT-GGCTTAAATCTGCTTCC-CTAATACCTCG
1 GGAGATAAGATTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAG
* * **
8860024 AGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAG
1 -GGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAG
** * *
8860069 GGAGATAAGA-TCTGTAATCATC-AGCTCGCTCCACTACTGCTTAG
1 GGAGATAAGATTC-GTCGTCTTCAATCT-GCTCCACTACTGCTTAG
** * * * * *
8860113 GGAGATAAGGCTAGTGGT-TTAAATCTGCTTCC-CTACTACTTCG
1 GGAGATAAGATTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAG
** * *
8860156 GGAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTGCTTAG
1 GG-AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAG
* **
8860201 GGAGATAAGA-TC-TACAATCTTCAGCCTGCTCCACTACTGCTTAG
1 GGAGATAAGATTCGT-C-GTCTTCAATCTGCTCCACTACTGCTTAG
** ** ** * * * * *
8860245 GGAGATAAGGCTAAT-GGATTAAATCTGCTTCC-CTATTACCTCG
1 GGAGATAAGATTCGTCGTCTTCAATCTGC-TCCACTACTGCTTAG
** * *
8860288 GGAAGATAAGATTCACCGTCTTCGATCTGCTTCACTACTGCTTAG
1 GG-AGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAG
8860333 GGAGATAAGAT
1 GGAGATAAGAT
8860344 CTGCAATTTT
Statistics
Matches: 378, Mismatches: 129, Indels: 64
0.66 0.23 0.11
Matches are distributed among these distances:
43 67 0.18
44 234 0.62
45 75 0.20
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
GGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTTAG
Found at i:8859809 original size:177 final size:177
Alignment explanation
Indices: 8859507--8859845 Score: 518
Period size: 177 Copynumber: 1.9 Consensus size: 177
8859497 GAGAACAGAT
**
8859507 TTGTAGCTTGAACCTGCTCTACTGCAACTTTAGGGAGAAAAGGCTGATGGCTTAAATCTGCTCCA
1 TTGTAGCTTGAACCTGCTCTACTGCAACTCCAGGGAGAAAAGGCTGATGGCTTAAATCTGCTCCA
8859572 TTGCCGCTACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAG
66 TTGCCGCTACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAG
* *
8859637 ATCTACAATTTTCAGTCTGCTCTACTGCAACTTCGGGGAGATAAGAC
131 ATCTACAATTTTCAGTCTGCTCCACTACAACTTCGGGGAGATAAGAC
* * * *
8859684 TTGTATCTTGAACCTGCTCTACTGTAACTCCAGGGAGATAAA-GCTGGTGGCTTAGATCTGCTCC
1 TTGTAGCTTGAACCTGCTCTACTGCAACTCCAGGGAGA-AAAGGCTGATGGCTTAAATCTGCTCC
* * * * *
8859748 ATTGCCGCTACATGGAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
65 ATTGCCGCTACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGGGAGATAA
** *
8859813 GATCTGTAATTTTCAGTTTGCTCCACTACAACT
130 GATCTACAATTTTCAGTCTGCTCCACTACAACT
8859846 CAAGGAGATG
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
177 142 0.98
178 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (177 bp):
TTGTAGCTTGAACCTGCTCTACTGCAACTCCAGGGAGAAAAGGCTGATGGCTTAAATCTGCTCCA
TTGCCGCTACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAG
ATCTACAATTTTCAGTCTGCTCCACTACAACTTCGGGGAGATAAGAC
Found at i:8859875 original size:132 final size:131
Alignment explanation
Indices: 8859761--8860355 Score: 796
Period size: 132 Copynumber: 4.5 Consensus size: 131
8859751 GCCGCTACAT
* * *
8859761 GGAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
1 GGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
* * ** * * *
8859826 CAGTTTGCTCCACTACAACTCAAGGAGATGAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTC
66 CAGCTCGCTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
8859891 GA
131 -A
* * ** * *
8859893 GAAGATAAGATTTGCCGTCTTTAATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCAT
1 GGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
* * *
8859958 CAACTCGCTCCACTACTGCTTAAAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTAATACCTC
66 CAGCTCGCTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
8860023 GA
131 -A
* * * *
8860025 GAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCAT
1 GGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
* * *
8860090 CAGCTCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGTTTAAATCTGCTTCCCTACTACTTC
66 CAGCTCGCTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
*
8860155 G
131 A
* * *
8860156 GGAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCT
1 GG-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT
* * * *
8860221 TCAGC-CTGCTCCACTACTGCTTAGGGAGATAAGGCTAATGGATTAAATCTGCTTCCCTATTACC
65 TCAGCTC-GCTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
*
8860285 TCG
129 TCA
* * *
8860288 GGAAGATAAGATTCACCGTCTTCGATCTGCTTCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 GG-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT
8860353 TCA
65 TCA
8860356 CTGGTGTTAC
Statistics
Matches: 416, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
131 2 0.00
132 414 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
GGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
CAGCTCGCTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
A
Found at i:8861996 original size:7 final size:7
Alignment explanation
Indices: 8861986--8862024 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
8861976 TTTTGTTTTT
8861986 TTTTTAC
1 TTTTTAC
8861993 TTTTTAC
1 TTTTTAC
8862000 TTTTTAC
1 TTTTTAC
*
8862007 -TTTTAT
1 TTTTTAC
*
8862013 TTTTTCC
1 TTTTTAC
8862020 TTTTT
1 TTTTT
8862025 GGCTTCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAC
Found at i:8862005 original size:14 final size:14
Alignment explanation
Indices: 8861986--8862024 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
8861976 TTTTGTTTTT
8861986 TTTTTACTTTTTAC
1 TTTTTACTTTTTAC
*
8862000 TTTTTAC-TTTTAT
1 TTTTTACTTTTTAC
*
8862013 TTTTTCCTTTTT
1 TTTTTACTTTTT
8862025 GGCTTCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTACTTTTTAC
Found at i:8862010 original size:20 final size:20
Alignment explanation
Indices: 8861987--8862024 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8861977 TTTGTTTTTT
8861987 TTTTACTTTTTACTTTTTAC
1 TTTTACTTTTTACTTTTTAC
* *
8862007 TTTTATTTTTTCCTTTTT
1 TTTTACTTTTTACTTTTT
8862025 GGCTTCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTACTTTTTACTTTTTAC
Found at i:8867060 original size:24 final size:24
Alignment explanation
Indices: 8867020--8867073 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
8867010 TAATAGTATG
*
8867020 ATAATAATAATAGTAACAAAAAAA
1 ATAATAAAAATAGTAACAAAAAAA
* *
8867044 ATAATAACAAATA-TAACAAATATA
1 ATAATAA-AAATAGTAACAAAAAAA
8867068 ATAATA
1 ATAATA
8867074 GTTGCAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (24 bp):
ATAATAAAAATAGTAACAAAAAAA
Found at i:8867096 original size:12 final size:12
Alignment explanation
Indices: 8867079--8867104 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8867069 TAATAGTTGC
8867079 AACAACAACAAT
1 AACAACAACAAT
8867091 AACAACAACAAT
1 AACAACAACAAT
8867103 AA
1 AA
8867105 TAATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.08
Consensus pattern (12 bp):
AACAACAACAAT
Found at i:8867141 original size:29 final size:30
Alignment explanation
Indices: 8867100--8867166 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
8867090 TAACAACAAC
* **
8867100 AATAATAATAATAATGACAGTAATAATACA
1 AATAATAACAATAATGACAAAAATAATACA
* *
8867130 AATAA-AACAATAGTGACAAAAATAATAGA
1 AATAATAACAATAATGACAAAAATAATACA
8867159 AATAATAA
1 AATAATAA
8867167 TACTCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.64, C:0.06, G:0.07, T:0.22
Consensus pattern (30 bp):
AATAATAACAATAATGACAAAAATAATACA
Found at i:8867168 original size:15 final size:14
Alignment explanation
Indices: 8867150--8867205 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
8867140 TAGTGACAAA
8867150 AATAATAGAAATAAT
1 AATAATA-AAATAAT
*
8867165 AATACTCAAAATAAT
1 AATAAT-AAAATAAT
*
8867180 AAT-A-AACATAAT
1 AATAATAAAATAAT
8867192 AATAATAAATATAA
1 AATAATAAA-ATAA
8867206 GTCTCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 10 0.30
13 1 0.03
14 2 0.06
15 19 0.58
16 1 0.03
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:8883793 original size:30 final size:30
Alignment explanation
Indices: 8883757--8883820 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
8883747 CCTTCAAAAC
8883757 ACATTCAAAACATGCTTGAAACATACCAAA
1 ACATTCAAAACATGCTTGAAACATACCAAA
8883787 ACATTCAAAACATGCTTGAAACATACCAAA
1 ACATTCAAAACATGCTTGAAACATACCAAA
8883817 ACAT
1 ACAT
8883821 CCAACCTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.20
Consensus pattern (30 bp):
ACATTCAAAACATGCTTGAAACATACCAAA
Found at i:8885278 original size:26 final size:26
Alignment explanation
Indices: 8885249--8885316 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
8885239 CCCGATATAT
8885249 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTCGTGAGCTTCCTGATTAAA
* ** *
8885275 GGCTCTTTGTGAAATTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCTGATTAAA
*
8885301 GGCTC-TCTTGAGCTTC
1 GGCTCTTCGTGAGCTTC
8885317 TCGATATGAC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 7 0.21
26 27 0.79
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTGATTAAA
Found at i:8885424 original size:24 final size:24
Alignment explanation
Indices: 8885392--8885437 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8885382 AGAACTACCC
8885392 ATTATTGGCTCGTATGAGCTTTCTG
1 ATTATTGGCTCGTATGAG-TTTCTG
*
8885417 ATTA-TGGCTCTTATGAGTTTC
1 ATTATTGGCTCGTATGAGTTTC
8885438 CCGTTATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (24 bp):
ATTATTGGCTCGTATGAGTTTCTG
Found at i:8890825 original size:19 final size:20
Alignment explanation
Indices: 8890790--8890828 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8890780 ATTTTATGAT
8890790 AAATTATTTATCTTTTTAAA
1 AAATTATTTATCTTTTTAAA
8890810 AAATTATTTA-CTTTTTAAA
1 AAATTATTTATCTTTTTAAA
8890829 GAGTATCCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTATTTATCTTTTTAAA
Found at i:8895421 original size:20 final size:20
Alignment explanation
Indices: 8895393--8895431 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8895383 GACCACACGG
*
8895393 CCAACCCACACGGGTGTGTC
1 CCAACCCACACGGGCGTGTC
*
8895413 CCAAGCCACACGGGCGTGT
1 CCAACCCACACGGGCGTGT
8895432 GACCCTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.13
Consensus pattern (20 bp):
CCAACCCACACGGGCGTGTC
Found at i:8901125 original size:12 final size:12
Alignment explanation
Indices: 8901108--8901133 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8901098 AGTACAAGCA
8901108 ATCGTGGAGGAT
1 ATCGTGGAGGAT
8901120 ATCGTGGAGGAT
1 ATCGTGGAGGAT
8901132 AT
1 AT
8901134 AGAGGCAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.38, T:0.27
Consensus pattern (12 bp):
ATCGTGGAGGAT
Found at i:8904459 original size:9 final size:9
Alignment explanation
Indices: 8904435--8904471 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8904425 TTAGTTTTCA
*
8904435 AATTCGAAT
1 AATTCAAAT
*
8904444 AACTCAAAT
1 AATTCAAAT
8904453 AATTCAAAT
1 AATTCAAAT
8904462 AATTCAAAT
1 AATTCAAAT
8904471 A
1 A
8904472 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.30
Consensus pattern (9 bp):
AATTCAAAT
Found at i:8904737 original size:17 final size:16
Alignment explanation
Indices: 8904703--8904733 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8904693 AATTTTACTC
*
8904703 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
8904719 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
8904734 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:8908764 original size:6 final size:7
Alignment explanation
Indices: 8908747--8908775 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8908737 CGCCGGCCGA
8908747 CCCCCTT
1 CCCCCTT
8908754 CCCCCTT
1 CCCCCTT
8908761 -CCCCTT
1 CCCCCTT
8908767 CCCCCTT
1 CCCCCTT
8908774 CC
1 CC
8908776 TTTTCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.72, G:0.00, T:0.28
Consensus pattern (7 bp):
CCCCCTT
Found at i:8908764 original size:13 final size:13
Alignment explanation
Indices: 8908748--8908775 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8908738 GCCGGCCGAC
8908748 CCCCTTCCCCCTT
1 CCCCTTCCCCCTT
8908761 CCCCTTCCCCCTT
1 CCCCTTCCCCCTT
8908774 CC
1 CC
8908776 TTTTCTTTTC
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:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (13 bp):
CCCCTTCCCCCTT
Found at i:8912534 original size:15 final size:16
Alignment explanation
Indices: 8912512--8912554 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
8912502 CATGGTATGT
8912512 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
8912528 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
8912543 ATGATATG-TATG
1 ATGATATGATATG
8912555 ATATGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:8912557 original size:9 final size:9
Alignment explanation
Indices: 8912507--8912559 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
8912497 ATAAACATGG
8912507 TATGTATGA
1 TATGTATGA
8912516 TATGCATATGA
1 TATG--TATGA
*
8912527 CATGTATGA
1 TATGTATGA
*
8912536 TATGCACATGA
1 TATG--TATGA
8912547 TATGTATGA
1 TATGTATGA
8912556 TATG
1 TATG
8912560 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:8912567 original size:20 final size:20
Alignment explanation
Indices: 8912501--8912567 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
8912491 ATTTTGATAA
*
8912501 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
8912521 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
8912541 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
8912561 ACATGAT
1 ACATGAT
8912568 GTATTCGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:8912675 original size:24 final size:24
Alignment explanation
Indices: 8912616--8912736 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
8912606 GGAGAAAGTG
8912616 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
8912640 GATAAAGGGCTTATGCCCCAATTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
8912665 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
8912689 TAAAAGGGC-TCTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
8912712 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
8912737 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 19 0.22
24 38 0.44
25 30 0.34
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:8912688 original size:49 final size:48
Alignment explanation
Indices: 8912616--8912754 Score: 165
Period size: 49 Copynumber: 2.8 Consensus size: 48
8912606 GGAGAAAGTG
8912616 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGC-TATGCCCCAATTAT
* * *
8912665 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTCTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTATGCCCCAATTAT
* *
8912712 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAGCAGCTATGC
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG-GGCTATGC
8912755 TGCCAGTGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
47 23 0.30
48 14 0.18
49 26 0.34
50 4 0.05
51 4 0.05
52 6 0.08
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTATGCCCCAATTAT
Found at i:8912965 original size:31 final size:31
Alignment explanation
Indices: 8912930--8912993 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
8912920 TGTTTACAGT
8912930 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
8912961 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
8912992 AA
1 AA
8912994 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:8922083 original size:17 final size:18
Alignment explanation
Indices: 8922063--8922103 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
8922053 ATAAACATAA
8922063 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
8922080 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
8922098 ATCATT
1 ATCATT
8922104 TTCATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:8922560 original size:24 final size:25
Alignment explanation
Indices: 8922533--8922581 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
8922523 TAACTGGTAA
8922533 CTCCGAAAAGCTAT-TATCAGGAAG
1 CTCCGAAAAGCTATATATCAGGAAG
* *
8922557 CTCCGAATAGCTATATATTAGGAAG
1 CTCCGAAAAGCTATATATCAGGAAG
8922582 TTCAAGCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
CTCCGAAAAGCTATATATCAGGAAG
Found at i:8922722 original size:64 final size:65
Alignment explanation
Indices: 8922617--8922746 Score: 190
Period size: 64 Copynumber: 2.0 Consensus size: 65
8922607 CGTGAAGAGC
* * * *
8922617 CATATATCGGGACACTCATAAAGAGCTGCAGTATGTCCGCAATATATGCAGGATC-AATACCGAT
1 CATATAACAGGACACTCATAAAGAGCTGCAGTATGTCCGCAACACATGCAGGATCAAATACCGAT
* * *
8922681 CATATAACAGGACGCTCATAAAGAGCTGCAGTATGTTCGCAACACATGTAGGATCAAATACCGAT
1 CATATAACAGGACACTCATAAAGAGCTGCAGTATGTCCGCAACACATGCAGGATCAAATACCGAT
8922746 C
1 C
8922747 GGGATGCTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 48 0.83
65 10 0.17
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (65 bp):
CATATAACAGGACACTCATAAAGAGCTGCAGTATGTCCGCAACACATGCAGGATCAAATACCGAT
Found at i:8929023 original size:50 final size:49
Alignment explanation
Indices: 8928757--8929074 Score: 200
Period size: 46 Copynumber: 6.7 Consensus size: 49
8928747 TCATTTGTGT
* * * ** **
8928757 GAGCTAGTGTAAGA-CATGTCTGGGACA-AGCATCGACC-ACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAAGATGA
* * * *
8928803 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATGGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAAGATGA
* * * * * *
8928851 GTGCTAGTGTAAGA-CATGTCTGGGAC-TTGCATCAGCCTCG-AGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAAGATG-A
* * * *
8928898 -AGCCAGTATAAGA-CATGTCTGGGACAT-GAATC-GAC-T-ACGA-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAAGATGA
* * * * * *
8928940 TGTGTCAATGTAACACCATGTCTGGGACATGGCATCGGCACGGTT-ATG-TTA
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C--TTGAAGATGA
* * *
8928991 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTTGAAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAAGATGA
*
8929040 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
8929075 AGCAGTTTAC
Statistics
Matches: 208, Mismatches: 45, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 10 0.05
45 16 0.08
46 54 0.26
47 34 0.16
48 23 0.11
49 34 0.16
50 31 0.15
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAAGATGA
Found at i:8931079 original size:57 final size:56
Alignment explanation
Indices: 8930979--8931106 Score: 175
Period size: 57 Copynumber: 2.3 Consensus size: 56
8930969 ACATTACCAA
* *
8930979 TTTATACCAATTTCATATAACTCATTCAATGTCATATTCTATCACCAATCCATAAG
1 TTTATACCAATTTCACACAACTCATTCAATGTCATATTCTATCACCAATCCATAAG
* * * ** *
8931035 TTTAAACCAATTTCACACAATTCATTTAAGTGTCATATTCTATCATTAATCGATAAG
1 TTTATACCAATTTCACACAACTCATTCAA-TGTCATATTCTATCACCAATCCATAAG
8931092 TTTATACCAATTTCA
1 TTTATACCAATTTCA
8931107 AGTGAATTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
56 24 0.39
57 38 0.61
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (56 bp):
TTTATACCAATTTCACACAACTCATTCAATGTCATATTCTATCACCAATCCATAAG
Found at i:8931767 original size:2 final size:2
Alignment explanation
Indices: 8931760--8931793 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8931750 ATACTCAAAC
8931760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8931794 CTCAAAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8932375 original size:17 final size:18
Alignment explanation
Indices: 8932353--8932386 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8932343 AGTTGAACTG
8932353 AAATTG-CAAAATTAAAT
1 AAATTGTCAAAATTAAAT
*
8932370 AAATTGTGAAAATTAAA
1 AAATTGTCAAAATTAAA
8932387 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (18 bp):
AAATTGTCAAAATTAAAT
Found at i:8933134 original size:20 final size:20
Alignment explanation
Indices: 8933111--8933154 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8933101 TTAAATTCTA
8933111 AAAGATAATTACAA-ATAAAT
1 AAAGATAATTA-AAGATAAAT
8933131 AAAGATAATTAAAGATAAAT
1 AAAGATAATTAAAGATAAAT
8933151 AAAG
1 AAAG
8933155 TTAAATCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (20 bp):
AAAGATAATTAAAGATAAAT
Found at i:8933138 original size:10 final size:10
Alignment explanation
Indices: 8933111--8933160 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
8933101 TTAAATTCTA
*
8933111 AAAGATAATT
1 AAAGATAAAT
8933121 ACAA-ATAAAT
1 A-AAGATAAAT
*
8933131 AAAGATAATT
1 AAAGATAAAT
8933141 AAAGATAAAT
1 AAAGATAAAT
*
8933151 AAAGTTAAAT
1 AAAGATAAAT
8933161 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:8937863 original size:6 final size:7
Alignment explanation
Indices: 8937829--8937863 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
8937819 TTAAAATGTC
8937829 TTAT-TT
1 TTATATT
8937835 TTATATT
1 TTATATT
8937842 TTATATT
1 TTATATT
8937849 TTATATT
1 TTATATT
8937856 TT-TATT
1 TTATATT
8937862 TT
1 TT
8937864 GATTTGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTATATT
Found at i:8941724 original size:26 final size:24
Alignment explanation
Indices: 8941684--8941743 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
8941674 TTATTTCATT
* * *
8941684 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
8941708 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
8941734 AAATAAATAT
1 AAATAAATAT
8941744 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:8941755 original size:22 final size:22
Alignment explanation
Indices: 8941714--8941772 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
8941704 ATAATAAATC
* *
8941714 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
8941734 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
8941756 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
8941773 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:8942337 original size:3 final size:3
Alignment explanation
Indices: 8942329--8942354 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8942319 TAGCTTGCAA
8942329 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
8942355 CAGTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8947142 original size:30 final size:30
Alignment explanation
Indices: 8947106--8947166 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
8947096 AATTTAATAC
* *
8947106 AAACTTTTGCAAAATTCCATTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
*
8947136 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
8947166 A
1 A
8947167 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:8949323 original size:63 final size:63
Alignment explanation
Indices: 8949224--8949383 Score: 221
Period size: 63 Copynumber: 2.5 Consensus size: 63
8949214 AAGATATACG
**
8949224 GTGTAAGACCATGGATGAAAGACTCCATGGTATCAAAAGATAGTGCACCAAGATGGCGAATCA
1 GTGTAAGACCATGGATGAAAGACTCCATGACATCAAAAGATAGTGCACCAAGATGGCGAATCA
* * *** ** *
8949287 GTGTAAGACCATTGATGAAAGACTCCGTGACATCAAAAGATAGTGTGTCTGGATGGTGAATCA
1 GTGTAAGACCATGGATGAAAGACTCCATGACATCAAAAGATAGTGCACCAAGATGGCGAATCA
*
8949350 GTGTAAAACCATGGATGAAAGACTCCATGACATC
1 GTGTAAGACCATGGATGAAAGACTCCATGACATC
8949384 CATAGAGATA
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 84 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (63 bp):
GTGTAAGACCATGGATGAAAGACTCCATGACATCAAAAGATAGTGCACCAAGATGGCGAATCA
Found at i:8951316 original size:45 final size:44
Alignment explanation
Indices: 8951174--8951317 Score: 193
Period size: 45 Copynumber: 3.2 Consensus size: 44
8951164 GTATCTTGTT
* * *
8951174 TGCTAGGCTCGAACCCCG-ATA-TCATTTCACCGGCATTATAGCC
1 TGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGGCATTATAGCC
* *
8951217 TGCTAGGCTTGAAAGCTCGAATAGTATCTCACCGGCATTATAGCC
1 TGCTAGGC-TCAAAGCCCGAATAGTATCTCACCGGCATTATAGCC
*
8951262 TGCTGGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAGCC
1 TGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATAGCC
8951307 TGCTAGGCTCA
1 TGCTAGGCTCA
8951318 TAGGTTCGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
43 8 0.09
44 10 0.11
45 69 0.78
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (44 bp):
TGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATAGCC
Found at i:8952187 original size:47 final size:47
Alignment explanation
Indices: 8952131--8952319 Score: 335
Period size: 47 Copynumber: 4.0 Consensus size: 47
8952121 AAAATTTTCT
* *
8952131 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
8952178 TTAACTAAGTAACTTATCCGAAAATATTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
8952225 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
8952272 TTAACTAAGTAACTTATCCGGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
8952318 TT
1 TT
8952320 TAAATTCAAC
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 14 0.10
47 122 0.90
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:8958939 original size:45 final size:44
Alignment explanation
Indices: 8958776--8958938 Score: 215
Period size: 45 Copynumber: 3.7 Consensus size: 44
8958766 CTGAATTCAT
* * * * *
8958776 TCACCGGTATT-TCGCCTGTTAGGCTCGAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATC
* *
8958818 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCTCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
8958863 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
8958908 TCACCGGCATTATAGCCTGCTAGGCTCAAAG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAG
8958939 GTTCGAATAA
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
42 10 0.09
43 13 0.12
44 9 0.08
45 74 0.69
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:8958946 original size:45 final size:45
Alignment explanation
Indices: 8958818--8958947 Score: 217
Period size: 45 Copynumber: 2.9 Consensus size: 45
8958808 CGATATCATT
*
8958818 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCTCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCTCGAATAGTATC
*
8958863 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
*
8958908 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGTTCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATA
8958948 ATACTGTGTG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 3 0.04
45 77 0.96
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
Found at i:8959477 original size:2 final size:2
Alignment explanation
Indices: 8959470--8959494 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8959460 TATCATATTT
8959470 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8959495 CTTTACCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8959828 original size:47 final size:47
Alignment explanation
Indices: 8959772--8959960 Score: 299
Period size: 47 Copynumber: 4.0 Consensus size: 47
8959762 AAAATTTTCT
* *
8959772 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* * *
8959819 TTAACTAAGTAACTTATCTGGAAATATTAAGAACAAATTTAACAAGA
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
8959866 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* * *
8959913 TTAACTAAGTAACTTATCCGGATATGTTAAGAG-TAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
8959959 TT
1 TT
8959961 TAAAATCAAC
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
46 14 0.11
47 117 0.89
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:8964689 original size:34 final size:34
Alignment explanation
Indices: 8964646--8964722 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 34
8964636 CCCAAAGCAA
**
8964646 CCCTAAAGTCGTCGCCATTAGTGGTGGTTGGCGC
1 CCCTAAAGTCGTCGCCATTAGTGGTGGTTGAAGC
* * *
8964680 CCCTAAAGTCGTTGCCTTTGGTGGTGGTTGAAGC
1 CCCTAAAGTCGTCGCCATTAGTGGTGGTTGAAGC
8964714 CCCTAAAGT
1 CCCTAAAGT
8964723 TGATTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.29
Consensus pattern (34 bp):
CCCTAAAGTCGTCGCCATTAGTGGTGGTTGAAGC
Found at i:8970751 original size:18 final size:18
Alignment explanation
Indices: 8970728--8970763 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8970718 TCGTTGAAAG
8970728 AGGATTTTTACACGATTT
1 AGGATTTTTACACGATTT
8970746 AGGATTTTTACACGATTT
1 AGGATTTTTACACGATTT
8970764 TCTTTGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
AGGATTTTTACACGATTT
Found at i:8972649 original size:40 final size:41
Alignment explanation
Indices: 8972605--8972691 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
8972595 TCAAATACAT
8972605 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * *
8972645 TTAAAACAATTCTTAAAACAATACACAAATTAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
8972686 ATAAAA
1 TTAAAA
8972692 ATTGATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 25 0.61
41 16 0.39
ACGTcount: A:0.67, C:0.09, G:0.01, T:0.23
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:8972735 original size:23 final size:23
Alignment explanation
Indices: 8972707--8972751 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8972697 TTATATTAAA
* *
8972707 ATTAAAATTAAAATATAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
8972730 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
8972752 TTATTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:8977896 original size:40 final size:40
Alignment explanation
Indices: 8977841--8977923 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
8977831 GACATATCGA
* * * *
8977841 CTAAATATGGCACTTAGTGTGCGGTTCAATATAGCTTCGG
1 CTAAATATGACACTTAATGTGCGATTCAAGATAGCTTCGG
* **
8977881 CTAAATTTGACACTTAATGTGCGATTTGAGATAGCTTCGG
1 CTAAATATGACACTTAATGTGCGATTCAAGATAGCTTCGG
8977921 CTA
1 CTA
8977924 TGTACAGCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
CTAAATATGACACTTAATGTGCGATTCAAGATAGCTTCGG
Found at i:8980606 original size:66 final size:68
Alignment explanation
Indices: 8980530--8980716 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
8980520 TAGTACCACT
*
8980530 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
8980592 CACG
65 CACG
8980596 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
8980661 ATCACG
63 ATCACG
8980667 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
8980717 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:8980641 original size:71 final size:71
Alignment explanation
Indices: 8980553--8980716 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
8980543 CGATTTGTCT
8980553 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
8980618 CTTTCA
66 CTTTCA
8980624 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
8980689 CTTTCA
66 CTTTCA
8980695 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
8980717 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:8980754 original size:71 final size:70
Alignment explanation
Indices: 8980553--8980750 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
8980543 CGATTTGTCT
* * * *
8980553 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
8980618 CTTTCA
65 CTTTCA
* * * *
8980624 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
8980689 CTTTCA
65 CTTTCA
* *
8980695 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
8980751 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:8988175 original size:66 final size:68
Alignment explanation
Indices: 8988099--8988285 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
8988089 TAGTACCACT
*
8988099 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
8988161 CACG
65 CACG
8988165 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
8988230 ATCACG
63 ATCACG
8988236 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
8988286 GCGATACTAT
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:8988210 original size:71 final size:71
Alignment explanation
Indices: 8988122--8988285 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
8988112 CGATTTGTCT
8988122 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
8988187 CTTTCA
66 CTTTCA
8988193 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
8988258 CTTTCA
66 CTTTCA
8988264 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
8988286 GCGATACTAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:8993758 original size:6 final size:6
Alignment explanation
Indices: 8993749--8993781 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
8993739 AATAAAATTG
8993749 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
8993782 GATAAGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:8998534 original size:14 final size:13
Alignment explanation
Indices: 8998507--8998540 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8998497 AAAAAAAAGT
8998507 AAATTAATAAATA
1 AAATTAATAAATA
*
8998520 ATATTAATGAAATA
1 AAATTAAT-AAATA
8998534 AAATTAA
1 AAATTAA
8998541 ATTGCAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
AAATTAATAAATA
Found at i:8998847 original size:13 final size:13
Alignment explanation
Indices: 8998826--8998858 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8998816 GGTTGTTTAT
*
8998826 TAAACTAATTAAC
1 TAAATTAATTAAC
8998839 TAAATTAATTAAC
1 TAAATTAATTAAC
8998852 T-AATTAA
1 TAAATTAA
8998859 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATTAATTAAC
Found at i:9010246 original size:47 final size:45
Alignment explanation
Indices: 9010173--9010343 Score: 147
Period size: 47 Copynumber: 3.7 Consensus size: 45
9010163 GGTATAATGC
*
9010173 CGATGGCATGTCCC-GACATGGTCTTACACTGGTTTATCCATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG-TTATCC-TCAAGT
* * * *
9010219 CGATGCCATGTCCCAGACATGGTCTTACATTGACG-CAT-CTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG--GTTATCCTC-AAGT
* * *
9010265 CGATG-CATGTCCCAGACGT-GTCTTACACTAGTTCTCGTCTCAA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGTTATC--CTCAAGT
9010309 GCTGATGCCATGTCCCAGACATGGTCTTACACTGG
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTGG
9010344 CTTTGATAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 9 0.09
45 17 0.17
46 28 0.28
47 31 0.31
48 11 0.11
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (45 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGTTATCCTCAAGT
Found at i:9010269 original size:46 final size:48
Alignment explanation
Indices: 9010168--9010341 Score: 152
Period size: 46 Copynumber: 3.8 Consensus size: 48
9010158 CATAGGGTAT
* *
9010168 AATGCCGATGGCATGTCCC-GACATGGTCTTACACTGGTTTATC-CA--TC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG--TA-CGCATCTC
* *
9010215 AA-GTCGATGCCATGTCCCAGACATGGTCTTACA-TTG-ACGCATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTACGCATCTC
* * * * *
9010260 -GTAGCCGATG-CATGTCCCAGACGT-GTCTTACACTAGTTCTCGTCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTACGCATCTC
*
9010306 AATGCTGATGCCATGTCCCAGACATGGTCTTACACT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT
9010342 GGCTTTGATA
Statistics
Matches: 103, Mismatches: 13, Indels: 21
0.75 0.09 0.15
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 8 0.08
45 17 0.17
46 34 0.33
47 30 0.29
48 10 0.10
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTACGCATCTC
Found at i:9012477 original size:45 final size:45
Alignment explanation
Indices: 9012403--9012517 Score: 212
Period size: 45 Copynumber: 2.6 Consensus size: 45
9012393 GAACTAAGAA
* *
9012403 ATCCAAACTCATTGAGTTGGTCTGGGTTCGTGATATATAAGTGGC
1 ATCCGAACTCATTGAGTTGGTCTGAGTTCGTGATATATAAGTGGC
9012448 ATCCGAACTCATTGAGTTGGTCTGAGTTCGTGATATATAAGTGGC
1 ATCCGAACTCATTGAGTTGGTCTGAGTTCGTGATATATAAGTGGC
9012493 ATCCGAACTCATTGAGTTGGTCTGA
1 ATCCGAACTCATTGAGTTGGTCTGA
9012518 TGGATGCGAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
ATCCGAACTCATTGAGTTGGTCTGAGTTCGTGATATATAAGTGGC
Found at i:9037707 original size:43 final size:43
Alignment explanation
Indices: 9037587--9037749 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 43
9037577 AGCTCGTACA
* * *
9037587 ATGCCGACATCCCAGATGAGGTCTTACA-AGT-AATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACA-TAAATCAAATA-CG
* * *
9037630 ATGCC-ACTGTCCCAAACAG-GGTCTTACAC-GAAATCAAATACG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACATAAATCAAATACG
9037672 ATGCCAACATCCCAGACGTGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACATCCCAGACGTGGTCTTACACATAAATCA-AA-TACG
* *
9037716 ATGCCAACGTCCCAGATGTGGTCTTACACGATAA
1 ATGCCAACATCCCAGACGTGGTCTTACAC-ATAA
9037750 CACATATCGG
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 37 0.37
44 32 0.32
45 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACATAAATCAAATACG
Found at i:9040981 original size:20 final size:21
Alignment explanation
Indices: 9040956--9041002 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
9040946 GCATAGGAGA
9040956 GCCAAAGGAAC-GAG-AAATGG
1 GCCAAA-GAACGGAGAAAATGG
9040976 GCCAAA-AACGGAGAAAATGG
1 GCCAAAGAACGGAGAAAATGG
9040996 GCCAAAG
1 GCCAAAG
9041003 TATGAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 18 0.75
ACGTcount: A:0.47, C:0.17, G:0.32, T:0.04
Consensus pattern (21 bp):
GCCAAAGAACGGAGAAAATGG
Found at i:9044103 original size:64 final size:65
Alignment explanation
Indices: 9043952--9044115 Score: 172
Period size: 65 Copynumber: 2.5 Consensus size: 65
9043942 GCTTAGTGTG
** * * * * * * *
9043952 GATAAACCACCAATAACAGTTTGCAAACAAGCTATTGGTAATATGGACGAGCCACTAGAAATGTA
1 GATAAACTGCCAATAACAATTTGCAGACAAGCTGTCGATAATATGGACGAACCACTAGAAATGCA
* * * *
9044017 GATAAACTGCCAATAATC-ATTTGCAGACAAGCTGTCGATAGTGTGGATGAACCACTAGATAT-C
1 GATAAACTGCCAATAA-CAATTTGCAGACAAGCTGTCGATAATATGGACGAACCACTAGAAATGC
9044080 A
65 A
9044081 GATAAACTGCCAATAACAATTTGC-GAACAAGCTGT
1 GATAAACTGCCAATAACAATTTGCAG-ACAAGCTGT
9044116 TAGTATTGCG
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
63 2 0.02
64 32 0.39
65 48 0.58
66 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (65 bp):
GATAAACTGCCAATAACAATTTGCAGACAAGCTGTCGATAATATGGACGAACCACTAGAAATGCA
Found at i:9051983 original size:27 final size:27
Alignment explanation
Indices: 9051953--9052146 Score: 244
Period size: 27 Copynumber: 7.2 Consensus size: 27
9051943 TACTGAAATG
*
9051953 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
9051980 CCCTCAATTTATAGGATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
9052007 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
9052034 CTATCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
9052061 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
9052088 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
9052115 CCCTCAATTTACAAAATTGCCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
9052142 CCCTC
1 CCCTC
9052147 AATTGTGAAA
Statistics
Matches: 146, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:9052071 original size:81 final size:81
Alignment explanation
Indices: 9051956--9052150 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 81
9051946 TGAAATGCCC
* * *
9051956 TCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGGATTACCGTTTCACCCTCGATTTACAA
1 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTCGATTTACAA
* *
9052021 AATTACCGTTTTACTA
66 AATTACCATTTTACCA
* *
9052037 TCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAA
1 TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTCGATTTACAA
*
9052102 AATTACCATTTTACCC
66 AATTACCATTTTACCA
* * * *
9052118 TCAATTTACAAAATTGCCATTTTACCCTCAATT
1 TCGATTTATAGAATTACCATTTTACCCTCAATT
9052151 GTGAAATTAC
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTCGATTTACAA
AATTACCATTTTACCA
Found at i:9052212 original size:27 final size:27
Alignment explanation
Indices: 9052182--9052278 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
9052172 TGTAGGATAG
9052182 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
9052209 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
9052236 AATTACCGAAATACCACTGGTTTCTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
9052263 AATTACCAAAATACCC
1 AATTACCAAAATACCC
9052279 TTGATTTACA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:9052221 original size:54 final size:54
Alignment explanation
Indices: 9052149--9052278 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
9052139 TTACCCTCAA
** * *
9052149 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* ** * *
9052203 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
*
9052257 TTCTGAAATTACCAAAATACCC
1 TTGTGAAATTACCAAAATACCC
9052279 TTGATTTACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 61 0.95
55 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:9052292 original size:27 final size:27
Alignment explanation
Indices: 9052182--9052391 Score: 119
Period size: 27 Copynumber: 7.7 Consensus size: 27
9052172 TGTAGGATAG
* *
9052182 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGCAA
* *
9052209 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGCAA
* * *
9052236 AATTACCGAAATACCAC-TGGTTT-CTGA
1 AATTACCAAAATACC-CTTGATTTGC-AA
*
9052263 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGCAA
9052290 AATTA-CAGAAATACCCTTGACTTT-CTAAA
1 AATTACCA-AAATACCCTTGA-TTTGC--AA
* * * *
9052319 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGATTTGCAA
** * * *
9052346 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGCAA
* *
9052373 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
9052392 TAGGATGAAA
Statistics
Matches: 153, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
26 3 0.02
27 121 0.79
28 9 0.06
29 20 0.13
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGCAA
Found at i:9052292 original size:54 final size:54
Alignment explanation
Indices: 9052182--9052391 Score: 192
Period size: 54 Copynumber: 3.9 Consensus size: 54
9052172 TGTAGGATAG
* * * * * **
9052182 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTCTAAAATTACCAAAATACCCTTGA-TTTACAA
*
9052236 AATTACCGAAATACCAC-TGGTTTCTGAAATTACCAAAATACCCTTGATTTACAA
1 AATTACCGAAATACC-CTTGGTTTCTAAAATTACCAAAATACCCTTGATTTACAA
* * * * *
9052290 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTG-GTTTCT-AAAATTACCA-AAATACCCTTGATTTACAA
* * * * *
9052346 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTGGTTTCTAAAATTACCAAAATACCCTTG
9052392 TAGGATGAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
53 1 0.01
54 73 0.57
55 13 0.10
56 41 0.32
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGGTTTCTAAAATTACCAAAATACCCTTGATTTACAA
Found at i:9052329 original size:29 final size:27
Alignment explanation
Indices: 9052262--9052364 Score: 120
Period size: 27 Copynumber: 3.7 Consensus size: 27
9052252 CTGGTTTCTG
9052262 AAATTACCA-AAATACCCTTGATTTACA
1 AAATTA-CAGAAATACCCTTGATTTACA
9052289 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACAGAAATACCCTTGA-TTTAC--A
* * *
9052318 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGATTTACA
*
9052345 AAATTACTGAAATACCCTTG
1 AAATTACAGAAATACCCTTG
9052365 GTTTGTAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.03
27 37 0.57
28 6 0.09
29 20 0.31
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:9052452 original size:27 final size:27
Alignment explanation
Indices: 9052409--9052482 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
9052399 AAATGACTAA
*
9052409 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
9052436 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
9052463 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
9052483 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:9052486 original size:27 final size:27
Alignment explanation
Indices: 9052422--9052486 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
9052412 ACCCCTAATA
*
9052422 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
9052449 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
9052476 GGTAAAATGAC
1 GGTAAAATGAC
9052487 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:9053552 original size:42 final size:42
Alignment explanation
Indices: 9053488--9053621 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
9053478 TAGTCTCCCC
*
9053488 AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
9053530 AAATAGGCTTGCATACATTCATTGACATTACATTTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
9053572 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
9053614 AAATGGGC
1 AAATGGGC
9053622 CTAAGGGCCA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:9054620 original size:27 final size:27
Alignment explanation
Indices: 9054572--9054677 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
9054562 GCGAGGCTGC
* *
9054572 CAGATATTGTGAC-GAAGTCACCAGGTA
1 CAGATATTGTGGCAG-AGCCACCAGGTA
*
9054599 CAGATATTGTGGCAGAGCCACCA-GAA
1 CAGATATTGTGGCAGAGCCACCAGGTA
*
9054625 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGGTA
* *
9054652 CAGATAATTGTAGCATAGCCACCAGG
1 CAGAT-ATTGTGGCAGAGCCACCAGG
9054678 ACGCTTACTC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 9 0.13
27 55 0.82
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGGTA
Found at i:9060201 original size:20 final size:20
Alignment explanation
Indices: 9060176--9060217 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9060166 GACACTCCGT
9060176 ATCAATGACAACTCTTTATC
1 ATCAATGACAACTCTTTATC
9060196 ATCAATGACAACTCTTTATC
1 ATCAATGACAACTCTTTATC
9060216 AT
1 AT
9060218 AAATCACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (20 bp):
ATCAATGACAACTCTTTATC
Done.