Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 83 of 91
Found at i:14037984 original size:15 final size:14
Alignment explanation
Indices: 14037964--14038018 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 14
14037954 GGAATTTTAT
14037964 AATTTTATGAAAATA
1 AATTTT-TGAAAATA
14037979 AATTTTTGAAAAATCA
1 AATTTTTG-AAAAT-A
14037995 TAATTTTTGGAAAATA
1 -AATTTTT-GAAAATA
14038011 AATTTTTG
1 AATTTTTG
14038019 GATCTAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.08
15 18 0.50
16 2 0.06
17 12 0.33
18 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (14 bp):
AATTTTTGAAAATA
Found at i:14038019 original size:15 final size:15
Alignment explanation
Indices: 14037972--14038020 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
14037962 ATAATTTTAT
14037972 GAAAATAAATTTTTG
1 GAAAATAAATTTTTG
*
14037987 AAAAATCATAATTTTTG
1 GAAAAT-A-AATTTTTG
14038004 GAAAATAAATTTTTG
1 GAAAATAAATTTTTG
14038019 GA
1 GA
14038021 TCTAAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.50
16 2 0.07
17 13 0.43
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (15 bp):
GAAAATAAATTTTTG
Found at i:14040182 original size:2 final size:2
Alignment explanation
Indices: 14040175--14040206 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14040165 AGGTATGCAC
14040175 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14040207 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14040211 original size:2 final size:2
Alignment explanation
Indices: 14040206--14040238 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14040196 TCTCTCTCTC
14040206 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14040239 AAGAGATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14042992 original size:66 final size:66
Alignment explanation
Indices: 14042871--14043002 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 66
14042861 CATCTTGTTG
** * **
14042871 AAGGTAATCCATCCAAGTAAAATCACCAGCCCCGGCACCGTTTTCCTGGTGTGTATTC-TCCATT
1 AAGGTAATCCATCCAAGTAAAATCACCAGCCCCAACACCATTTTCCTCATGTGTA-TCATCCATT
14042935 AC
65 AC
* * **
14042937 AAGGTAATCCATCCAAGTAAAATCATCGGCCCCAACTGCATTTTCCTTCAT-TGTATCATCCATT
1 AAGGTAATCCATCCAAGTAAAATCACCAGCCCCAACACCATTTTCC-TCATGTGTATCATCCATT
14043001 AC
65 AC
14043003 TAGTTCATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 2 0.04
66 51 0.93
67 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (66 bp):
AAGGTAATCCATCCAAGTAAAATCACCAGCCCCAACACCATTTTCCTCATGTGTATCATCCATTA
C
Found at i:14045127 original size:2 final size:2
Alignment explanation
Indices: 14045122--14045146 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14045112 TCCCTCCCCC
14045122 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
14045147 AAATCATCAG
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:14045412 original size:20 final size:21
Alignment explanation
Indices: 14045385--14045442 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
14045375 ATTATCAAAA
*
14045385 TAAT-TTTATTATTTTTTATT
1 TAATATTTATTATTTTTTAGT
*
14045405 TAA-ATTTATT-TTATTTAGT
1 TAATATTTATTATTTTTTAGT
* *
14045424 TAATAATTATTAATTTTTA
1 TAATATTTATTATTTTTTA
14045443 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 10 0.33
20 15 0.50
21 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TAATATTTATTATTTTTTAGT
Found at i:14045498 original size:29 final size:29
Alignment explanation
Indices: 14045430--14045498 Score: 68
Period size: 31 Copynumber: 2.3 Consensus size: 29
14045420 TAGTTAATAA
* *
14045430 TTATTAATTTTTAAAAATTAAAAATATTG
1 TTATTTATTATTAAAAATTAAAAATATTG
* *
14045459 TAATTAATATTATTAAAAATTAAATATAGTT-
1 TTATT--TATTATTAAAAATTAAAAATA-TTG
14045490 TTATTTATT
1 TTATTTATT
14045499 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
29 8 0.25
31 22 0.69
32 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
TTATTTATTATTAAAAATTAAAAATATTG
Found at i:14045864 original size:10 final size:9
Alignment explanation
Indices: 14045822--14045877 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 9
14045812 GCAGTGATGT
14045822 TAAATAATA
1 TAAATAATA
*
14045831 TGAATAA-A
1 TAAATAATA
14045839 -AAAT-ATGA
1 TAAATAAT-A
14045847 T-AATAATA
1 TAAATAATA
14045855 TAATATAATA
1 TAA-ATAATA
14045865 TAAAT-ATA
1 TAAATAATA
14045873 TAAAT
1 TAAAT
14045878 TATTAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
6 1 0.03
7 3 0.08
8 15 0.38
9 11 0.28
10 9 0.23
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (9 bp):
TAAATAATA
Found at i:14047250 original size:13 final size:14
Alignment explanation
Indices: 14047230--14047269 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
14047220 TTTTAACTTG
14047230 ATTATTTTATATTT
1 ATTATTTTATATTT
14047244 A-TATTTTAT-TTT
1 ATTATTTTATATTT
14047256 ATTATTTTTATATT
1 ATTA-TTTTATATT
14047270 GTGTCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 7 0.30
15 2 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTATTTTATATTT
Found at i:14049332 original size:59 final size:59
Alignment explanation
Indices: 14049221--14049335 Score: 135
Period size: 59 Copynumber: 1.9 Consensus size: 59
14049211 TTTGAATGGG
* * * *
14049221 ATTATTCAAGGAGTTTTTGATCAAAAACGCCTTAAATAATCTCATTCCATTTTTTTATT
1 ATTATTCAAAGAGTTTTTGATCAAAAACACCTTAAATAATCCCATTCAATTTTTTTATT
* * *
14049280 ATTATTCAAAGTGTTTTT-AGTCAAAAACACCTTTAATAATCCC-CTCTAATTTTTTT
1 ATTATTCAAAGAGTTTTTGA-TCAAAAACACCTTAAATAATCCCATTC-AATTTTTTT
14049336 GGAGATTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
58 3 0.06
59 44 0.94
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (59 bp):
ATTATTCAAAGAGTTTTTGATCAAAAACACCTTAAATAATCCCATTCAATTTTTTTATT
Found at i:14049456 original size:62 final size:64
Alignment explanation
Indices: 14049329--14049456 Score: 165
Period size: 63 Copynumber: 2.0 Consensus size: 64
14049319 TCCCCTCTAA
* * * *
14049329 TTTTTTTGGAGATTATTCAAGGCATTTTCTGGCCAAAAATGCCTTGAATAATCCCCTTTCATTT
1 TTTTTTTGGAGATTATTCAAGGCATTTTCTAGCAAAAAATACATTGAATAATCCCCTTTCATTT
* *
14049393 TTTTTTTTGA-ATTATTCAAGGC-TTTTTTAGCTAAAAAATACATTGAATAAT-CCC-TTCATTT
1 TTTTTTTGGAGATTATTCAAGGCATTTTCTAGC-AAAAAATACATTGAATAATCCCCTTTCATTT
14049454 TTT
1 TTT
14049457 GAAGAATTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 10 0.18
62 10 0.18
63 28 0.49
64 9 0.16
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (64 bp):
TTTTTTTGGAGATTATTCAAGGCATTTTCTAGCAAAAAATACATTGAATAATCCCCTTTCATTT
Found at i:14050053 original size:62 final size:61
Alignment explanation
Indices: 14049932--14050075 Score: 204
Period size: 62 Copynumber: 2.3 Consensus size: 61
14049922 TTTTAAGCCA
14049932 AAAAATACCTTAAATAATCCCTTAAAAAATTGAAAATGATTATTCAATGCGTTTTCTGACC
1 AAAAATACCTTAAATAATCCCTTAAAAAATTGAAAATGATTATTCAATGCGTTTTCTGACC
* *
14049993 AAAAATGCATTAAATAATCCCTTACAAAAAATT-AAATATGATTATTCAA-G-GTGTTTCTGACC
1 AAAAATACCTTAAATAATCCCTT--AAAAAATTGAAA-ATGATTATTCAATGCGT-TTTCTGACC
*
14050055 AAAAATACCTTGAATAATCCC
1 AAAAATACCTTAAATAATCCC
14050076 CTCTAATTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
61 23 0.31
62 31 0.42
63 20 0.27
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (61 bp):
AAAAATACCTTAAATAATCCCTTAAAAAATTGAAAATGATTATTCAATGCGTTTTCTGACC
Found at i:14050406 original size:158 final size:158
Alignment explanation
Indices: 14050118--14050407 Score: 370
Period size: 158 Copynumber: 1.8 Consensus size: 158
14050108 TTTTGATCAA
* * *
14050118 AAATGCCTTGAATAATCTCTTGCTAAAAACACTAGAGTAGTTTAATCGATTAGAGCATAGGGCTA
1 AAATGCCTTGAATAATCTCTTGCTAAAAACACTAGAGCAATTCAATCGATTAGAGCATAGGGCTA
* ** ** * **
14050183 TTAACTATAAGGTTTTAGGTTCGATTCTTCTTTTCAATATTTTAAGGGTTTTTTAAGGAGTGCAA
66 TTAACCATAAAATCCTAGGTTCGATTCTTCTTTTCAACATTTTAAGGAATTTTTAAGGAGTGCAA
14050248 AAATACCTTTTAGTGGCATTTATATTAT
131 AAATACCTTTTAGTGGCATTTATATTAT
* * * *
14050276 AAATGCCTTGAATAATC-CTTTGCTAAAAACATTGGAGCAATTCAGTC-AGTTAGAGCATATGGC
1 AAATGCCTTGAATAATCTC-TTGCTAAAAACACTAGAGCAATTCAATCGA-TTAGAGCATAGGGC
* * *
14050339 TATTAACCATAAAATCCTAGGTTCGA-TCTTTTTTTCTAGCATTTTTAGGAATTTTTAAGGAGTG
64 TATTAACCATAAAATCCTAGGTTCGATTCTTCTTTTC-AACATTTTAAGGAATTTTTAAGGAGTG
14050403 CAAAA
128 CAAAA
14050408 CTGTCCATTT
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
157 11 0.10
158 100 0.90
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (158 bp):
AAATGCCTTGAATAATCTCTTGCTAAAAACACTAGAGCAATTCAATCGATTAGAGCATAGGGCTA
TTAACCATAAAATCCTAGGTTCGATTCTTCTTTTCAACATTTTAAGGAATTTTTAAGGAGTGCAA
AAATACCTTTTAGTGGCATTTATATTAT
Found at i:14051436 original size:3 final size:3
Alignment explanation
Indices: 14051428--14051536 Score: 78
Period size: 3 Copynumber: 38.7 Consensus size: 3
14051418 AAATTACTTT
* *
14051428 ATA ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA A-C ATA A-G ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14051470 ATA AT- ATA AT- ATA AT- ATA ATA ATA AT- ATA CCATA CCATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA --ATA ATA ATA
*
14051514 TTA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
14051537 TGATTCTGAT
Statistics
Matches: 87, Mismatches: 6, Indels: 26
0.73 0.05 0.22
Matches are distributed among these distances:
2 19 0.22
3 60 0.69
5 8 0.09
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14051444 original size:5 final size:5
Alignment explanation
Indices: 14051427--14051498 Score: 83
Period size: 5 Copynumber: 13.8 Consensus size: 5
14051417 AAAATTACTT
* *
14051427 TATAA TAATAA TATAA TA-ATA TAATAA TATAA CATAA GATAA TATAA
1 TATAA T-ATAA TATAA TATA-A T-ATAA TATAA TATAA TATAA TATAA
14051474 TATAA TATAA TATAA TAATAA TATA
1 TATAA TATAA TATAA T-ATAA TATA
14051499 CCATACCATA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
4 1 0.02
5 44 0.75
6 13 0.22
7 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (5 bp):
TATAA
Found at i:14051481 original size:41 final size:42
Alignment explanation
Indices: 14051427--14051536 Score: 147
Period size: 41 Copynumber: 2.7 Consensus size: 42
14051417 AAAATTACTT
*
14051427 TATAATAATAATATAATAAT-ATAATAATATAACATAAGATAA
1 TATAAT-ATAATATAATAATAATAATAATATAACATAACATAA
* *
14051469 TATAATATAATATAAT-ATAATAATAATATACCATACCATAA
1 TATAATATAATATAATAATAATAATAATATAACATAACATAA
14051510 TA-AAT-TAATAATAATAATAATAATAAT
1 TATAATATAAT-ATAATAATAATAATAAT
14051537 TGATTCTGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
39 4 0.06
40 10 0.16
41 42 0.68
42 6 0.10
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.35
Consensus pattern (42 bp):
TATAATATAATATAATAATAATAATAATATAACATAACATAA
Found at i:14052623 original size:3 final size:3
Alignment explanation
Indices: 14052615--14052644 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14052605 GTATATATGC
14052615 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14052645 TGGTCGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14054968 original size:42 final size:42
Alignment explanation
Indices: 14054870--14054952 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
14054860 CTTTTGTTTG
* * *
14054870 GATCATGTCAGGAAAATCATTGATCTGTGGGCTGTTTTAACA
1 GATCATGTAAGGAAAATCATTGATCTGTAGGCTGTTTCAACA
*
14054912 GATCATGTCAGGAAAATCATTGATCTGTAGGCTGTTTCAAC
1 GATCATGTAAGGAAAATCATTGATCTGTAGGCTGTTTCAAC
14054953 GGGATTAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (42 bp):
GATCATGTAAGGAAAATCATTGATCTGTAGGCTGTTTCAACA
Found at i:14057404 original size:59 final size:59
Alignment explanation
Indices: 14057294--14057513 Score: 291
Period size: 59 Copynumber: 3.7 Consensus size: 59
14057284 TTGTGCAGAA
* * * *
14057294 AAAATTTATACTTTTAACTTTTTCTCAAAAATTTATTTTTTTAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAA-ATATTTTTTTAAAAATTTATTTTTAAGG
*
14057354 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTAAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTT-TAAAAATTTATTTTTAAGG
* * * *
14057413 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAACTTTTTTTGAAAATTAATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAATA-TTTTTTTAAAAATTTATTTTTAAGG
* *
14057473 AAAATTAATACTTTCAAC-TTTTCCCCAAAAATATTGTTTTT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAATATT-TTTTT
14057514 TGGATTTTAT
Statistics
Matches: 142, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
58 10 0.07
59 64 0.45
60 62 0.44
61 6 0.04
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTTAAAAATTTATTTTTAAGG
Found at i:14057434 original size:119 final size:120
Alignment explanation
Indices: 14057294--14057512 Score: 343
Period size: 119 Copynumber: 1.8 Consensus size: 120
14057284 TTGTGCAGAA
* * ** *
14057294 AAAATTTATACTTTTAACTTTTTCTCAAAAATTTA-TTTTTTTAAAAATTTATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAA-AAACTTTTTTTAAAAATTAATTTTTAAGGAAAA
*
14057358 TTGATACTTTCAACTTTTCCCAAAAAATATT-TTTTAAAAAAATTTATTTTTAAGG
65 TTAATACTTTCAACTTTTCCCAAAAAATATTGTTTTAAAAAAATTTATTTTTAAGG
*
14057413 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAACTTTTTTTGAAAATTAATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAACTTTTTTTAAAAATTAATTTTTAAGGAAAAT
*
14057478 TAATACTTTCAACTTTTCCCCAAAAATATTGTTTT
66 TAATACTTTCAACTTTTCCCAAAAAATATTGTTTT
14057513 TTGGATTTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
118 1 0.01
119 85 0.94
120 4 0.04
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (120 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAAAAACTTTTTTTAAAAATTAATTTTTAAGGAAAAT
TAATACTTTCAACTTTTCCCAAAAAATATTGTTTTAAAAAAATTTATTTTTAAGG
Found at i:14057515 original size:60 final size:59
Alignment explanation
Indices: 14057294--14057514 Score: 282
Period size: 60 Copynumber: 3.7 Consensus size: 59
14057284 TTGTGCAGAA
* * * *
14057294 AAAATTTATACTTTTAACTTTTTCTC-AAAAATTTATTTTTTTAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATAT-TTTTTTTAAAAATTTATTTTTAAGG
**
14057354 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTAAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTAAAAATTTATTTTTAAGG
* * * * *
14057413 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAACTTTTTTTGAAAATTAATTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTTTAAAAATTTATTTTTAAGG
* *
14057473 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTGTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATATT-TTTTTT
14057515 GGATTTTATT
Statistics
Matches: 140, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
59 60 0.43
60 80 0.57
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTAAAAATTTATTTTTAAGG
Found at i:14057580 original size:15 final size:15
Alignment explanation
Indices: 14057562--14057594 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14057552 TAAAAGTGAG
14057562 AAATAAAA-AAATAAT
1 AAATAAAATAAA-AAT
14057577 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
14057592 AAA
1 AAA
14057595 AGAACATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:14057591 original size:18 final size:18
Alignment explanation
Indices: 14057530--14057593 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
14057520 TTATTTACAG
*
14057530 AAAAT-AAAATAATAAAAC
1 AAAATAAAAATAAT-AAAT
* * *
14057548 AAAATAAAAGTGAGAAAT
1 AAAATAAAAATAATAAAT
14057566 --AA-AAAAATAATAAAT
1 AAAATAAAAATAATAAAT
14057581 AAAATAAAAATAA
1 AAAATAAAAATAA
14057594 AAGAACATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
17 2 0.06
18 16 0.46
19 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAATAAAT
Found at i:14058218 original size:26 final size:25
Alignment explanation
Indices: 14058161--14058212 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
14058151 CCGGAATATG
*
14058161 AAAA-TTTTTCAAAAATTTCCAGAA
1 AAAATTTTTTCAAAAATCTCCAGAA
14058185 AAAATTTTTGTCAAAAATCTCCA-AA
1 AAAATTTTT-TCAAAAATCTCCAGAA
14058210 AAA
1 AAA
14058213 TCTTTTCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 9 0.36
26 12 0.48
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAATTTTTTCAAAAATCTCCAGAA
Found at i:14058525 original size:22 final size:21
Alignment explanation
Indices: 14058497--14058548 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
14058487 CAAAAAAAGG
*
14058497 AAAAAAAAATCTGATAAACGA
1 AAAAAAAAATCAGATAAACGA
14058518 AAAAAAAAATCAGATAAACGA
1 AAAAAAAAATCAGATAAACGA
14058539 AAAAAGAAAA
1 AAAAA-AAAA
14058549 AAAATATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAAAAAATCAGATAAACGA
Found at i:14058576 original size:22 final size:21
Alignment explanation
Indices: 14058545--14058631 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
14058535 ACGAAAAAAG
*
14058545 AAAAAAAAT-ATAACAGATAATT
1 AAAAAAAATAAT-A-AGATAAAT
*
14058567 AAAAATAATAATAAGATAAAT
1 AAAAAAAATAATAAGATAAAT
* * *
14058588 AAAAAATATTACAAGATAAAT
1 AAAAAAAATAATAAGATAAAT
*
14058609 AAAAGAAAAAAAT-A-ATAAAT
1 AAAA-AAAATAATAAGATAAAT
14058629 AAA
1 AAA
14058632 TTATAATAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 9 0.17
21 29 0.55
22 13 0.25
23 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAAAAAATAATAAGATAAAT
Found at i:14058603 original size:21 final size:21
Alignment explanation
Indices: 14058547--14058612 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
14058537 GAAAAAAGAA
14058547 AAAAAATATAAC-AGAT-AAT
1 AAAAAATATAACAAGATAAAT
* *
14058566 TAAAAATAATAATAAGATAAAT
1 AAAAAAT-ATAACAAGATAAAT
*
14058588 AAAAAATATTACAAGATAAAT
1 AAAAAATATAACAAGATAAAT
14058609 AAAA
1 AAAA
14058613 GAAAAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 6 0.15
20 4 0.10
21 20 0.51
22 9 0.23
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAAAATATAACAAGATAAAT
Found at i:14058627 original size:41 final size:41
Alignment explanation
Indices: 14058547--14058631 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
14058537 GAAAAAAGAA
* * *
14058547 AAAAAATATAACAGATAATTAAAAATAATAATAAGATAAAT
1 AAAAAATATAACAGATAAATAAAAAAAAAAATAAGATAAAT
*
14058588 AAAAAATATTACAAGATAAATAAAAGAAAAAAAT-A-ATAAAT
1 AAAAAATATAAC-AGATAAATAAAA-AAAAAAATAAGATAAAT
14058629 AAA
1 AAA
14058632 TTATAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 20 0.53
42 12 0.32
43 6 0.16
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (41 bp):
AAAAAATATAACAGATAAATAAAAAAAAAAATAAGATAAAT
Found at i:14058629 original size:4 final size:4
Alignment explanation
Indices: 14058603--14058759 Score: 56
Period size: 4 Copynumber: 38.0 Consensus size: 4
14058593 ATATTACAAG
* * *
14058603 ATAA ATAAA AGAA AAAA AT-A ATAA ATAA ATTATA AT-A ATAA ATAT ATAA
1 ATAA AT-AA ATAA ATAA ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA
* * *
14058652 CTAG ATAA ATAAA ATACA TATAA ATATTA ACAGA A-AA A-AA ATAA ATAA
1 ATAA ATAA AT-AA ATA-A -ATAA ATA--A ATA-A ATAA ATAA ATAA ATAA
* * * * * *
14058700 ATAA AGAT ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA ATAA ATAA AT-A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA
*
14058748 ATAA ATAC ATAA
1 ATAA ATAA ATAA
14058760 GATACAAAGG
Statistics
Matches: 115, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
3 17 0.15
4 74 0.64
5 14 0.12
6 10 0.09
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:14058639 original size:14 final size:15
Alignment explanation
Indices: 14058620--14058754 Score: 66
Period size: 15 Copynumber: 8.7 Consensus size: 15
14058610 AAAGAAAAAA
14058620 ATAATAAATAAAT-T
1 ATAATAAATAAATAT
14058634 ATAAT-AATAAATAT
1 ATAATAAATAAATAT
*
14058648 ATAACTAGATAAATA-
1 ATAA-TAAATAAATAT
14058663 A-AATACATATAAATAT
1 ATAATA-A-ATAAATAT
* * *
14058679 -TAACAGAAAAAAAAT
1 ATAATA-AATAAATAT
14058694 A-AATAAATAAAGATAT
1 ATAATAAAT-AA-ATAT
* *
14058710 ACATATATTAATACATAGT
1 --ATA-ATAAATAAATA-T
*
14058729 AATAATAAATAAATAA
1 -ATAATAAATAAATAT
14058745 ATAATAAATA
1 ATAATAAATA
14058755 CATAAGATAC
Statistics
Matches: 91, Mismatches: 15, Indels: 29
0.67 0.11 0.21
Matches are distributed among these distances:
13 9 0.10
14 14 0.15
15 30 0.33
16 14 0.15
17 9 0.10
18 7 0.08
19 3 0.03
20 5 0.05
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAATAAATAAATAT
Found at i:14058659 original size:53 final size:49
Alignment explanation
Indices: 14058567--14058665 Score: 128
Period size: 53 Copynumber: 1.9 Consensus size: 49
14058557 ACAGATAATT
*
14058567 AAAAATAATAATAAGATAAATAAAAAATATTACAAGATAAATAAAAGAA
1 AAAAATAATAATAAGATAAATAAAAAATATAACAAGATAAATAAAAGAA
*
14058616 AAAAATAATAAATAA-ATTATAATAATAAATATATAACTAGATAAATAAAA
1 AAAAATAAT-AATAAGA-TA-AATAA-AAA-ATATAACAAGATAAATAAAA
14058666 TACATATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
49 10 0.23
50 7 0.16
51 5 0.12
52 3 0.07
53 18 0.42
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (49 bp):
AAAAATAATAATAAGATAAATAAAAAATATAACAAGATAAATAAAAGAA
Found at i:14058667 original size:25 final size:25
Alignment explanation
Indices: 14058580--14058673 Score: 63
Period size: 25 Copynumber: 3.8 Consensus size: 25
14058570 AATAATAATA
*
14058580 AGATAAAT-AAA-AAATAT-T-ACA
1 AGATAAATAAAATAAATATATAACT
* * *
14058601 AGATAAATAAAAGAAAAAAATAA-T
1 AGATAAATAAAATAAATATATAACT
*
14058625 AAATAAATTATAATAATAAATATATAACT
1 AGAT-AA--ATAA-AATAAATATATAACT
*
14058654 AGATAAATAAAATACATATA
1 AGATAAATAAAATAAATATA
14058674 AATATTAACA
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
21 8 0.15
22 3 0.05
23 4 0.07
24 4 0.07
25 12 0.22
26 4 0.07
27 4 0.07
28 12 0.22
29 4 0.07
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (25 bp):
AGATAAATAAAATAAATATATAACT
Found at i:14058806 original size:32 final size:31
Alignment explanation
Indices: 14058735--14058806 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 31
14058725 TAGTAATAAT
* *
14058735 AAATAAATAAATAATAAATACATAAGATACA
1 AAATAAAAAAATAATAAATACATAAAATACA
** *
14058766 AAGGAAAAAAAT-ATAAAATAATATAAAATACA
1 AAATAAAAAAATAAT-AAAT-ACATAAAATACA
14058798 AAATAAAAA
1 AAATAAAAA
14058807 CCAAATTGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
30 2 0.06
31 13 0.41
32 17 0.53
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (31 bp):
AAATAAAAAAATAATAAATACATAAAATACA
Found at i:14059055 original size:43 final size:41
Alignment explanation
Indices: 14058989--14059245 Score: 293
Period size: 41 Copynumber: 6.1 Consensus size: 41
14058979 TTTGATCAAA
* *
14058989 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-GAAA-ATAAATT
* * *
14059032 GCTCATCTAATCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTG-GAAA-ATAAATT
* *
14059075 GCTCATCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGG-AAAATAAATT
* * * *
14059117 GCTCCTCTAAGCAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATT
* *
14059158 GCTCCTCTAAACAGAGG-TACCACGAC-TTCGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCT-CAACGACTTTGGAAAA-TAAATT
* * *
14059199 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATT
14059240 GCTCCT
1 GCTCCT
14059246 TGACAATCAT
Statistics
Matches: 194, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
40 6 0.03
41 74 0.38
42 40 0.21
43 74 0.38
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATT
Found at i:14060526 original size:16 final size:16
Alignment explanation
Indices: 14060507--14060541 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14060497 TTTTCATTCA
14060507 TTCATTCAT-TTTTTTT
1 TTCA-TCATCTTTTTTT
14060523 TTCATCATCTTTTTTT
1 TTCATCATCTTTTTTT
14060539 TTC
1 TTC
14060542 TTTTTTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCATCATCTTTTTTT
Found at i:14060526 original size:20 final size:19
Alignment explanation
Indices: 14060491--14060540 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
14060481 TTCTCTTTTT
**
14060491 TTCATTTTTTCATTCATTCA
1 TTCATTTTTTTTTTCA-TCA
14060511 TTCATTTTTTTTTTCATCA
1 TTCATTTTTTTTTTCATCA
14060530 -TC-TTTTTTTTT
1 TTCATTTTTTTTT
14060541 CTTTTTTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 3 0.11
20 14 0.50
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (19 bp):
TTCATTTTTTTTTTCATCA
Found at i:14060535 original size:15 final size:16
Alignment explanation
Indices: 14060507--14060539 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14060497 TTTTCATTCA
*
14060507 TTCATTCATTTTTTTT
1 TTCATTCATCTTTTTT
14060523 TTCA-TCATCTTTTTT
1 TTCATTCATCTTTTTT
14060538 TT
1 TT
14060540 TCTTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCATTCATCTTTTTT
Found at i:14064494 original size:17 final size:16
Alignment explanation
Indices: 14064459--14064497 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14064449 CTTTTCTTCA
**
14064459 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAGG
14064475 AAAATTTATTTTTAAGG
1 AAAATTTATTTTT-AGG
14064492 AAAATT
1 AAAATT
14064498 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTTAGG
Found at i:14064537 original size:16 final size:16
Alignment explanation
Indices: 14064518--14064555 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14064508 ACTTTTCTCC
14064518 AAAAATAT-TTTTTAA
1 AAAAATATATTTTTAA
*
14064533 AAAAATTTATTTTTAA
1 AAAAATATATTTTTAA
14064549 GAAAAAT
1 -AAAAAT
14064556 TGATACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATATATTTTTAA
Found at i:14064612 original size:61 final size:59
Alignment explanation
Indices: 14064430--14064652 Score: 308
Period size: 61 Copynumber: 3.7 Consensus size: 59
14064420 TTTTATGCAG
* **
14064430 GAAAAATTAATACTTTCAACTTTTCTTCAAAAATTTATTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTC-TCAAAAAAATATTTTTTTGAAAATTTATTTTTAA
* * **
14064490 GGAAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTAAAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCTCAAAAAAATATTTTTT-TGAAAATTTATTTTTAA
*
14064549 GAAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAACTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCTCAAAAAAATA-TTTTTTTGAAAATTTATTTTTAA
14064610 GAAAAATTGATACTTTCAACTTCTT-TCAAAAAAAT-TTTTTTTG
1 GAAAAATTGATACTTTCAACTT-TTCTCAAAAAAATATTTTTTTG
14064653 GATTTTATTT
Statistics
Matches: 145, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
58 19 0.13
59 36 0.25
60 41 0.28
61 43 0.30
62 6 0.04
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCTCAAAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:14064650 original size:120 final size:119
Alignment explanation
Indices: 14064430--14064649 Score: 338
Period size: 120 Copynumber: 1.8 Consensus size: 119
14064420 TTTTATGCAG
*** *
14064430 GAAAAATTAATACTTTCAACTTTTCTTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGGAAA
1 GAAAAATTAATACTTTCAACTTTTCTTCAAAAAAAAATTTTTTTGAAAATTTATTTTTAAGAAAA
*
14064495 ATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTAAAAAAATTTATTTTTAA
66 ATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTAAAAAAATTTATTTTTAA
*
14064549 GAAAAATTGATACTTTCAACTTTT-TCTCAAAAAAAAACTTTTTTTGAAAATTTATTTTTAAGAA
1 GAAAAATTAATACTTTCAACTTTTCT-TCAAAAAAAAA-TTTTTTTGAAAATTTATTTTTAAGAA
14064613 AAATTGATACTTTCAACTTCTT-TCAAAAAA-ATTTTTT
64 AAATTGATACTTTCAACTT-TTCTCAAAAAATATTTTTT
14064650 TTGGATTTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
118 1 0.01
119 38 0.41
120 51 0.55
121 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (119 bp):
GAAAAATTAATACTTTCAACTTTTCTTCAAAAAAAAATTTTTTTGAAAATTTATTTTTAAGAAAA
ATTGATACTTTCAACTTTTCTCAAAAAATATTTTTTAAAAAAATTTATTTTTAA
Found at i:14064733 original size:24 final size:23
Alignment explanation
Indices: 14064677--14064751 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
14064667 AAAATAAAAT
* *
14064677 AATAAAAC-AAAATAAAAGTGAGA
1 AATAAAACAAAAATAAAA-AGAAA
14064700 AAT-AAA-AAAAATAATAAAGAAA
1 AATAAAACAAAAATAA-AAAGAAA
* *
14064722 AGTAAAACAAAAATAAAAATAAA
1 AATAAAACAAAAATAAAAAGAAA
14064745 AATAAAA
1 AATAAAA
14064752 ATAAAAAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 15 0.35
23 20 0.47
24 8 0.19
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (23 bp):
AATAAAACAAAAATAAAAAGAAA
Found at i:14064734 original size:6 final size:6
Alignment explanation
Indices: 14064667--14064758 Score: 64
Period size: 6 Copynumber: 14.7 Consensus size: 6
14064657 TTATTTACAG
* *
14064667 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTGA GAAATA AAAA-A AATAATA
1 AAAATA AAAATA A-AAATA -AAAATA AAAAT-A AAAATA AAAATA AA-AATA
* *
14064716 AAGAAAA GTAAAACA AAAATA AAAATA AAAATA AAAATA AAAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
14064759 AACATTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
5 8 0.11
6 42 0.60
7 15 0.21
8 3 0.04
9 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:14064769 original size:33 final size:33
Alignment explanation
Indices: 14064699--14064771 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
14064689 TAAAAGTGAG
*
14064699 AAATAAAAAAAATAATAAAGAAAAGTAAAACAA
1 AAATAAAAAAAATAATAAAGAAAAGAAAAACAA
*
14064732 AAATAAAAATAAA-AATAAA-AATAA-AAAAACATT
1 AAATAAAAA-AAATAATAAAGAA-AAGAAAAACA-A
14064765 AAATAAA
1 AAATAAA
14064772 CCTAATCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 8 0.23
33 24 0.69
34 3 0.09
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (33 bp):
AAATAAAAAAAATAATAAAGAAAAGAAAAACAA
Found at i:14065697 original size:22 final size:21
Alignment explanation
Indices: 14065666--14065744 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
14065656 ACAAAAAAAG
*
14065666 AAAAAAAAT-ATAACTGATAATT
1 AAAAAAAATAATAA--GATAAAT
*
14065688 AAAAATAATAATAAGATAAAT
1 AAAAAAAATAATAAGATAAAT
* * *
14065709 AAAAAATATTACAAGATAAAT
1 AAAAAAAATAATAAGATAAAT
*
14065730 AAAAGAAAAAAATAA
1 AAAA-AAAATAATAA
14065745 TAAATTAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 27 0.60
22 14 0.31
23 4 0.09
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAAAAATAATAAGATAAAT
Found at i:14065731 original size:25 final size:25
Alignment explanation
Indices: 14065698--14065825 Score: 62
Period size: 27 Copynumber: 4.7 Consensus size: 25
14065688 AAAAATAATA
14065698 ATAAGATAAATAAAAAATATTACAAG
1 ATAA-ATAAATAAAAAATATTACAAG
* *
14065724 ATAAATAAAAGAAAAAAATAATA-AA-
1 ATAAAT-AAA-TAAAAAATATTACAAG
* * * *
14065749 TTAATTATAATAATAAATATATAACTAG
1 ATAAATA-AATAA-AAA-ATATTACAAG
*
14065777 ATAAATAAAATACATATAAATATTAACAAA
1 ATAAAT-AAATA-A-A-AAATATT-ACAAG
*
14065807 AAAAATAAATAAATAAATA
1 ATAAATAAATAAA-AAATA
14065826 AAGAAATACA
Statistics
Matches: 77, Mismatches: 14, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
24 3 0.04
25 11 0.14
26 13 0.17
27 18 0.23
28 9 0.12
29 13 0.17
30 10 0.13
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (25 bp):
ATAAATAAATAAAAAATATTACAAG
Found at i:14065767 original size:4 final size:4
Alignment explanation
Indices: 14065724--14065882 Score: 69
Period size: 4 Copynumber: 39.0 Consensus size: 4
14065714 ATATTACAAG
* * * *
14065724 ATAA ATAAA AGAA AAAA AT-A ATAA ATTAA TTATA AT-A ATAA ATAT ATAA
1 ATAA AT-AA ATAA ATAA ATAA ATAA A-TAA ATA-A ATAA ATAA ATAA ATAA
* * * *
14065773 CTAG ATAA ATAAA ATACA TATAA AT-A TTAA CA-AA AAAA ATAA ATAA
1 ATAA ATAA AT-AA ATA-A -ATAA ATAA ATAA -ATAA ATAA ATAA ATAA
* * * * *
14065819 ATAA ATAA AGAA ATAC ATAT ATTA ATAC ATAGTA AT-A ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA
*
14065868 AT-A ATAA ATAC ATAA
1 ATAA ATAA ATAA ATAA
14065883 GATACAAAGG
Statistics
Matches: 115, Mismatches: 25, Indels: 30
0.68 0.15 0.18
Matches are distributed among these distances:
3 15 0.13
4 81 0.70
5 14 0.12
6 5 0.04
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:14065838 original size:45 final size:44
Alignment explanation
Indices: 14065777--14065881 Score: 110
Period size: 45 Copynumber: 2.4 Consensus size: 44
14065767 ATATAACTAG
*
14065777 ATAAAT-A-AAATACATATAAATATTAACA-A-AAAAAATAAATAA
1 ATAAATAAGAAATACATAT-AATAAT-ACATAGAAAAAATAAATAA
* * *
14065819 ATAAATAAAGAAATACATATATTAATACATAGTAATAATAAATAA
1 ATAAAT-AAGAAATACATATAATAATACATAGAAAAAATAAATAA
*
14065864 ATAAATAATAAATACATA
1 ATAAATAAGAAATACATA
14065882 AGATACAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 6 0.11
43 3 0.06
44 17 0.32
45 27 0.51
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (44 bp):
ATAAATAAGAAATACATATAATAATACATAGAAAAAATAAATAA
Found at i:14065931 original size:28 final size:30
Alignment explanation
Indices: 14065894--14065954 Score: 99
Period size: 28 Copynumber: 2.1 Consensus size: 30
14065884 ATACAAAGGG
14065894 AAAAAAAATATAAAATA-AAAATAAAAA-T
1 AAAAAAAATATAAAATACAAAATAAAAACT
*
14065922 AAAAATAATATAAAATACAAAATAAAAACT
1 AAAAAAAATATAAAATACAAAATAAAAACT
14065952 AAA
1 AAA
14065955 TTGGGCTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 16 0.53
29 10 0.33
30 4 0.13
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (30 bp):
AAAAAAAATATAAAATACAAAATAAAAACT
Found at i:14065954 original size:7 final size:6
Alignment explanation
Indices: 14065897--14065954 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
14065887 CAAAGGGAAA
*
14065897 AAAAAT ATAAAAT AAAAAT AAAAAT AAAAAT -AATAT -AAAAT ACAAAAT
1 AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
14065945 AAAAACT AAA
1 AAAAA-T AAA
14065955 TTGGGCTTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
5 8 0.17
6 22 0.48
7 16 0.35
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:14068355 original size:125 final size:125
Alignment explanation
Indices: 14068202--14068449 Score: 496
Period size: 125 Copynumber: 2.0 Consensus size: 125
14068192 ATTCATCTTC
14068202 ACCTGCCACCTGGTATATTTGTATCAGCTTTTACTAGCACATAGTCATATAGTTAATCAAAATTC
1 ACCTGCCACCTGGTATATTTGTATCAGCTTTTACTAGCACATAGTCATATAGTTAATCAAAATTC
14068267 CGTAGCGGAAAAGAACAGGCCAACTATTTTGGTTTATTTACTATATATATATATATATAT
66 CGTAGCGGAAAAGAACAGGCCAACTATTTTGGTTTATTTACTATATATATATATATATAT
14068327 ACCTGCCACCTGGTATATTTGTATCAGCTTTTACTAGCACATAGTCATATAGTTAATCAAAATTC
1 ACCTGCCACCTGGTATATTTGTATCAGCTTTTACTAGCACATAGTCATATAGTTAATCAAAATTC
14068392 CGTAGCGGAAAAGAACAGGCCAACTATTTTGGTTTATTTACTATATATATATATATAT
66 CGTAGCGGAAAAGAACAGGCCAACTATTTTGGTTTATTTACTATATATATATATATAT
14068450 TCTTTTCTTC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (125 bp):
ACCTGCCACCTGGTATATTTGTATCAGCTTTTACTAGCACATAGTCATATAGTTAATCAAAATTC
CGTAGCGGAAAAGAACAGGCCAACTATTTTGGTTTATTTACTATATATATATATATATAT
Found at i:14075796 original size:11 final size:11
Alignment explanation
Indices: 14075780--14075805 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14075770 ATAATTTATA
14075780 TATTTATTTTT
1 TATTTATTTTT
14075791 TATTTATTTTT
1 TATTTATTTTT
14075802 TATT
1 TATT
14075806 AAATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:14076421 original size:27 final size:26
Alignment explanation
Indices: 14076358--14076422 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
14076348 AATTATAATT
* *
14076358 TATTAATATATTATTTTTTGTTAAAA
1 TATTAAAATATTATTTTTTATTAAAA
* *
14076384 -ATTATATTATT-TTATTTTATTAAAAA
1 TATTAAAATATTATT-TTTTATT-AAAA
14076410 TATTAAAATATTA
1 TATTAAAATATTA
14076423 ATAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
24 2 0.07
25 14 0.48
26 4 0.14
27 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TATTAAAATATTATTTTTTATTAAAA
Found at i:14076449 original size:24 final size:24
Alignment explanation
Indices: 14076414--14076459 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
14076404 TAAAAATATT
*
14076414 AAAATATTAATAATTAT-TTTACA
1 AAAATATAAATAATTATGTTTACA
*
14076437 AAAATTATAAATATTTATGTTTA
1 AAAA-TATAAATAATTATGTTTA
14076460 ATTTTTTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AAAATATAAATAATTATGTTTACA
Found at i:14077723 original size:31 final size:31
Alignment explanation
Indices: 14077677--14077762 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
14077667 TTATTATATC
14077677 CAAATAAG-CTTTTAACTTTTAATTTACATT
1 CAAATAAGTCTTTTAACTTTTAATTTACATT
**
14077707 CAAATAAGTCTTTTAACTTTTAATTTGTATT
1 CAAATAAGTCTTTTAACTTTTAATTTACATT
* *
14077738 TAAATAAGT-TTTTAATTTTTAATTT
1 CAAATAAGTCTTTTAACTTTTAATTT
14077763 GTACTTAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 23 0.45
31 28 0.55
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (31 bp):
CAAATAAGTCTTTTAACTTTTAATTTACATT
Found at i:14077763 original size:30 final size:30
Alignment explanation
Indices: 14077678--14077774 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
14077668 TATTATATCC
* ** *
14077678 AAATAAGCTTTTAACTTTTAATTTACATTC
1 AAATAAGTTTTTAACTTTTAATTTGTATTT
14077708 AAATAAGTCTTTTAACTTTTAATTTGTATTT
1 AAATAAGT-TTTTAACTTTTAATTTGTATTT
* *
14077739 AAATAAGTTTTTAATTTTTAATTTGTACTT
1 AAATAAGTTTTTAACTTTTAATTTGTATTT
14077769 AAATAA
1 AAATAA
14077775 ACTATTAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
30 33 0.55
31 27 0.45
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (30 bp):
AAATAAGTTTTTAACTTTTAATTTGTATTT
Found at i:14077783 original size:30 final size:30
Alignment explanation
Indices: 14077719--14077783 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
14077709 AATAAGTCTT
* * ** *
14077719 TTAACTTTTAATTTGTATTTAAATAAGTTT
1 TTAATTTTTAATTTGTACTTAAATAAACTA
14077749 TTAATTTTTAATTTGTACTTAAATAAACTA
1 TTAATTTTTAATTTGTACTTAAATAAACTA
14077779 TTAAT
1 TTAAT
14077784 ATAAAATCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (30 bp):
TTAATTTTTAATTTGTACTTAAATAAACTA
Found at i:14078992 original size:22 final size:22
Alignment explanation
Indices: 14078966--14079008 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
14078956 CCCATAAATT
* *
14078966 TTTTTTTTTTTTACAAATATACG
1 TTTTTTTATGTTA-AAATATACG
14078989 TTTTTTTATGTTAAAATATA
1 TTTTTTTATGTTAAAATATA
14079009 AAAATAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTTTTTATGTTAAAATATACG
Found at i:14079458 original size:14 final size:14
Alignment explanation
Indices: 14079414--14079469 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
14079404 GGATCTAAGA
14079414 TTTGAATAATAAAT
1 TTTGAATAATAAAT
* *
14079428 AATTTCAA-AAAAAAT
1 --TTTGAATAATAAAT
14079443 TTTGAATAATAAAT
1 TTTGAATAATAAAT
14079457 TTGTG-ATAATAAA
1 TT-TGAATAATAAA
14079470 GATATGAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.15
14 16 0.47
15 8 0.24
16 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (14 bp):
TTTGAATAATAAAT
Found at i:14079931 original size:81 final size:81
Alignment explanation
Indices: 14079837--14079995 Score: 273
Period size: 81 Copynumber: 2.0 Consensus size: 81
14079827 AAAATTTTAC
*
14079837 GTGATAATAATTTTAAATTATTATGATAATAACATAACTTTTTTGATGAGTGATATGATTTTTAT
1 GTGATAATAATTTTAAATTATTAGGATAATAACATAACTTTTTTGATGAGTGATATGATTTTTAT
*
14079902 TTAAAAAGATGAATAT
66 CTAAAAAGATGAATAT
* *
14079918 GTGATAATAATTTTAAATTATTAGGATAATAACATAATTTTTTTGATGAGTGATCTGATTTTTAT
1 GTGATAATAATTTTAAATTATTAGGATAATAACATAACTTTTTTGATGAGTGATATGATTTTTAT
*
14079983 CTAAAACGATGAA
66 CTAAAAAGATGAA
14079996 AAAAATTTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (81 bp):
GTGATAATAATTTTAAATTATTAGGATAATAACATAACTTTTTTGATGAGTGATATGATTTTTAT
CTAAAAAGATGAATAT
Found at i:14085268 original size:2 final size:2
Alignment explanation
Indices: 14085261--14085302 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14085251 CACTTAATCA
14085261 AT AT AT AT 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 AT AT AT AT
14085303 TGCTGACATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14091534 original size:30 final size:30
Alignment explanation
Indices: 14091498--14091556 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
14091488 TATTTTAAAG
*
14091498 AATTATTTGAAT-TTTATATTATTAAATTTA
1 AATTATTT-AATATTTAAATTATTAAATTTA
*
14091528 AATTATTTTATATTTAAATTATTAAATTT
1 AATTATTTAATATTTAAATTATTAAATTT
14091557 TAAAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
AATTATTTAATATTTAAATTATTAAATTTA
Found at i:14091560 original size:37 final size:38
Alignment explanation
Indices: 14091501--14091587 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
14091491 TTTAAAGAAT
* * * * *
14091501 TATTTGAATT-TTATATTATTAAATTTAAATTATTTTA
1 TATTTAAATTATTAAATTATTAAAATCAAATTAATTTA
14091538 TATTTAAATTATTAAATT-TTAAAATCAAATTAATTTA
1 TATTTAAATTATTAAATTATTAAAATCAAATTAATTTA
14091575 -ATATTAAATTATT
1 TAT-TTAAATTATT
14091588 TTGAATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
36 2 0.05
37 35 0.81
38 6 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
TATTTAAATTATTAAATTATTAAAATCAAATTAATTTA
Found at i:14091562 original size:16 final size:15
Alignment explanation
Indices: 14091507--14091560 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 15
14091497 GAATTATTTG
*
14091507 AATTTTATATTATTA
1 AATTTTAAATTATTA
*
14091522 AA-TTTAAATTATTT
1 AATTTTAAATTATTA
*
14091536 TATATTTAAATTATTA
1 AAT-TTTAAATTATTA
14091552 AATTTTAAA
1 AATTTTAAA
14091561 ATCAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 11 0.34
15 8 0.25
16 13 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTAAATTATTA
Found at i:14091598 original size:16 final size:16
Alignment explanation
Indices: 14091553--14091612 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
14091543 AAATTATTAA
* *
14091553 ATTTTAAAATCAAATT
1 ATTTTAATATTAAATT
*
14091569 AATTTAATATTAAATT
1 ATTTTAATATTAAATT
*
14091585 ATTTTGAATA-TAAATC
1 ATTTT-AATATTAAATT
14091601 ATTTTAA-ATTAA
1 ATTTTAATATTAA
14091613 TTCATTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 5 0.14
16 27 0.73
17 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (16 bp):
ATTTTAATATTAAATT
Found at i:14092069 original size:21 final size:20
Alignment explanation
Indices: 14092018--14092078 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
14092008 CAAACATGTG
*
14092018 TAAAATATAAAATTTTTTATA
1 TAAAATATATAATTTTTTA-A
*
14092039 TAAAAAATATAATTTTTTAA
1 TAAAATATATAATTTTTTAA
14092059 TAAATTTATATATAATTTTT
1 TAAA---ATATATAATTTTT
14092079 ATTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.15
21 17 0.50
23 12 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAATATATAATTTTTTAA
Found at i:14097549 original size:29 final size:31
Alignment explanation
Indices: 14097492--14097556 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
14097482 TAAATGAATT
14097492 TTAAATTATAATACAATATTTAATATGATAA
1 TTAAATTATAATACAATATTTAATATGATAA
* * * *
14097523 TTAAATTTTAA-A-AATCTTTAATTTGATAC
1 TTAAATTATAATACAATATTTAATATGATAA
14097552 TTAAA
1 TTAAA
14097557 ATATGAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 19 0.63
30 1 0.03
31 10 0.33
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (31 bp):
TTAAATTATAATACAATATTTAATATGATAA
Found at i:14098089 original size:2 final size:2
Alignment explanation
Indices: 14098078--14098112 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14098068 GATATGTATT
14098078 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14098113 ATTATCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14099421 original size:29 final size:29
Alignment explanation
Indices: 14099388--14099443 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
14099378 ATTCATGAGT
*
14099388 TTAATTAAAACTATAGATTCAAAATATCA
1 TTAATGAAAACTATAGATTCAAAATATCA
**
14099417 TTAATGCTAACTATAGATTCAAAATAT
1 TTAATGAAAACTATAGATTCAAAATAT
14099444 ACTTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (29 bp):
TTAATGAAAACTATAGATTCAAAATATCA
Found at i:14100734 original size:2 final size:2
Alignment explanation
Indices: 14100727--14100759 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14100717 ATACCACCAA
14100727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14100760 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14100764 original size:2 final size:2
Alignment explanation
Indices: 14100759--14100807 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14100749 ATATATATAT
14100759 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14100801 AG AG AG A
1 AG AG AG A
14100808 TCAAATAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14102215 original size:26 final size:26
Alignment explanation
Indices: 14102186--14102241 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
14102176 TGGACCCATC
* * *
14102186 TTGGTCTGGACTCGACTAGGCCAATT
1 TTGGTATGGACCCAACTAGGCCAATT
* *
14102212 TTGGTATGGGCCCAACTAGGCCCATT
1 TTGGTATGGACCCAACTAGGCCAATT
14102238 TTGG
1 TTGG
14102242 GTAAGCCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (26 bp):
TTGGTATGGACCCAACTAGGCCAATT
Found at i:14102328 original size:14 final size:13
Alignment explanation
Indices: 14102306--14102357 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
14102296 TACATTATTA
14102306 TTTTT-TTTTCATT
1 TTTTTCTTTTC-TT
14102319 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
*
14102332 TTCTTTCTTTACTT
1 TT-TTTCTTTTCTT
* *
14102346 CTTTCCTTTTCT
1 TTTTTCTTTTCT
14102358 GTTCTGATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 17 0.52
14 16 0.48
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:14102805 original size:13 final size:13
Alignment explanation
Indices: 14102787--14102811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14102777 TGAAGAACAT
14102787 TTGAATTTTTTGG
1 TTGAATTTTTTGG
14102800 TTGAATTTTTTG
1 TTGAATTTTTTG
14102812 ACAAAGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (13 bp):
TTGAATTTTTTGG
Found at i:14103182 original size:18 final size:19
Alignment explanation
Indices: 14103159--14103198 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
14103149 CAAGTTTTCC
14103159 TTTTTTGA-TTTTATTTTA
1 TTTTTTGATTTTTATTTTA
14103177 TTTTTTGATTTTTATTTTA
1 TTTTTTGATTTTTATTTTA
14103196 TTT
1 TTT
14103199 ATTTTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTTGATTTTTATTTTA
Found at i:14103189 original size:14 final size:15
Alignment explanation
Indices: 14103172--14103205 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
14103162 TTTGATTTTA
14103172 TTTTATTTT-TTGAT
1 TTTTATTTTATTGAT
*
14103186 TTTTATTTTATTTAT
1 TTTTATTTTATTGAT
14103201 TTTTA
1 TTTTA
14103206 CCCATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTATTTTATTGAT
Found at i:14103309 original size:14 final size:16
Alignment explanation
Indices: 14103290--14103323 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14103280 GGATTTTCCT
14103290 AAAAAAT-AA-AAATA
1 AAAAAATGAATAAATA
14103304 AAAAAATGAATAAATA
1 AAAAAATGAATAAATA
14103320 AAAA
1 AAAA
14103324 CCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 2 0.11
16 9 0.50
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAAATGAATAAATA
Found at i:14103365 original size:20 final size:21
Alignment explanation
Indices: 14103342--14103384 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14103332 AAACAAAAGC
14103342 AAAAA-AAAGAAAAAAAGGGA
1 AAAAAGAAAGAAAAAAAGGGA
* *
14103362 AAAAAGAAAGGAAAAAGGGGA
1 AAAAAGAAAGAAAAAAAGGGA
14103383 AA
1 AA
14103385 GTATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAGAAAAAAAGGGA
Found at i:14113825 original size:1 final size:1
Alignment explanation
Indices: 14113819--14113848 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
14113809 AAGGCTGACC
*
14113819 AAAAAAAAAAATAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14113849 GACTTCCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:14114359 original size:89 final size:88
Alignment explanation
Indices: 14114290--14114695 Score: 351
Period size: 89 Copynumber: 4.6 Consensus size: 88
14114280 TTCTGTCTCA
* * *
14114290 GTCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACATCGACTCGATCCTGGTCGTCTC
1 GTCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACCTCGACTCGATCCTAGTCGCCTC
*
14114355 ATTTTGACT-GTGGTTTCATCTCG
66 ATTTTGACTCGTGGTTTCATC-CC
* * * * * * **
14114378 GTCACATAATTTATGGTTTCATCTCGATCA-TT-TTTTT-ATCTCAACTCTG-TCTTAGTCGTTT
1 GTCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACCTCGACTC-GATCCTAGTCGCCT
* *
14114439 TATTTTAACTCGTGGTTTCATCCC
65 CATTTTGACTCGTGGTTTCATCCC
* * * * * * *
14114463 GGTCACATGATTTGTGGTTTCATTTTGATCATTTATTTTTCACCTTGACTCGGTCCTAGTCACCT
1 -GTCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACCTCGACTCGATCCTAGTCGCCT
* *
14114528 TATTTTGACTCGTAGTTTCATCCC
65 CATTTTGACTCGTGGTTTCATCCC
* * * *
14114552 GATCACATGATTCGTGGTTTCGTA-C-CAATCATTTATTTTTGACCTCGACTC-AGTCTTGGTCG
1 G-TCACATGATTTGTGGTTT--TATCTCGATCATTTATTTTTGACCTCGACTCGA-TCCTAGTCG
* **
14114614 CCTCATTTCGACTCGTGGTTTTGTCCC
62 CCTCATTTTGACTCGTGGTTTCATCCC
* * * * * * *
14114641 GATCACATGATTCGTGGTTTTGTCCCCATCATTTATTTTCGACCTTGACACGATC
1 G-TCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACCTCGACTCGATC
14114696 TTGGTTGCTT
Statistics
Matches: 258, Mismatches: 46, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
85 25 0.10
86 43 0.17
87 5 0.02
88 35 0.14
89 148 0.57
90 1 0.00
91 1 0.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (88 bp):
GTCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACCTCGACTCGATCCTAGTCGCCTC
ATTTTGACTCGTGGTTTCATCCC
Found at i:14114688 original size:178 final size:174
Alignment explanation
Indices: 14114291--14114695 Score: 418
Period size: 178 Copynumber: 2.3 Consensus size: 174
14114281 TCTGTCTCAG
* * * * **
14114291 TCACATGATTTGTGGTTTTATCTCGATCATTTATTTTTGACATCGACTCGATCCTGGTCGTCTCA
1 TCACATGATTTGTGGTTTTATCTCGATCATTTATTTTCGACCTTGACTCGATCCTAGTCACCTCA
* * * * * *
14114356 TTTTGACTGTGGTTTCATCTCGGTCACATAATTTATGGTTTCATCTCGATCATTTTTTTATCTCA
66 TTTTGACTGTAGTTTCATCCCGATCACATAATTCATGGTTTCATCTCAATCATTTTTTTACCTCA
* ** * * *
14114421 ACTCTGTCTTAGTCGTTTTATTTTAACTCGTGGTTTCATCCCGG
131 ACTCAGTCTTAGTCGCCTCATTTCAACTCGTGGTTTCATCCCGA
* * * * *
14114465 TCACATGATTTGTGGTTTCATTTTGATCATTTATTTTTC-ACCTTGACTCGGTCCTAGTCACCTT
1 TCACATGATTTGTGGTTTTATCTCGATCATTTA-TTTTCGACCTTGACTCGATCCTAGTCACCTC
* * *
14114529 ATTTTGACTCGTAGTTTCATCCCGATCACATGATTCGTGGTTTCGTAC-CAATCATTTATTTTTG
65 ATTTTGACT-GTAGTTTCATCCCGATCACATAATTCATGGTTTCAT-CTCAATCA-TT-TTTTT-
* * * **
14114593 ACCTCGACTCAGTCTTGGTCGCCTCATTTCGACTCGTGGTTTTGTCCCGA
125 ACCTCAACTCAGTCTTAGTCGCCTCATTTCAACTCGTGGTTTCATCCCGA
* * * * *
14114643 TCACATGATTCGTGGTTTTGTCCCCATCATTTATTTTCGACCTTGACACGATC
1 TCACATGATTTGTGGTTTTATCTCGATCATTTATTTTCGACCTTGACTCGATC
14114696 TTGGTTGCTT
Statistics
Matches: 184, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
174 57 0.31
175 38 0.21
176 3 0.02
177 10 0.05
178 76 0.41
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (174 bp):
TCACATGATTTGTGGTTTTATCTCGATCATTTATTTTCGACCTTGACTCGATCCTAGTCACCTCA
TTTTGACTGTAGTTTCATCCCGATCACATAATTCATGGTTTCATCTCAATCATTTTTTTACCTCA
ACTCAGTCTTAGTCGCCTCATTTCAACTCGTGGTTTCATCCCGA
Found at i:14115200 original size:3 final size:3
Alignment explanation
Indices: 14115188--14115218 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
14115178 ATTATATCAC
14115188 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14115219 ATTTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14116281 original size:21 final size:21
Alignment explanation
Indices: 14116257--14116301 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14116247 CGAATAAACA
14116257 AAAAAAAAACAAAAAAAAGGG
1 AAAAAAAAACAAAAAAAAGGG
* ** *
14116278 AAAAAGAAAGGAAAAAAGGGG
1 AAAAAAAAACAAAAAAAAGGG
14116299 AAA
1 AAA
14116302 GTATAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (21 bp):
AAAAAAAAACAAAAAAAAGGG
Found at i:14116664 original size:22 final size:21
Alignment explanation
Indices: 14116639--14116679 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14116629 CCTATACACT
*
14116639 ATTAATAAAATTTAAAAATTTC
1 ATTAAT-AAACTTAAAAATTTC
*
14116661 ATTACTAAACTTAAAAATT
1 ATTAATAAACTTAAAAATT
14116680 GTGGTATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAATAAACTTAAAAATTTC
Found at i:14117320 original size:22 final size:22
Alignment explanation
Indices: 14117271--14117320 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
14117261 TATTTTTTTT
* *
14117271 TTATTTTTTTCAAATTTATATA
1 TTATTTTTTTAAAATTTATAAA
*
14117293 TAATTTTTATTAAAATTT-TAAA
1 TTATTTTT-TTAAAATTTATAAA
14117315 TTATTT
1 TTATTT
14117321 GTCTTTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTTTTTTAAAATTTATAAA
Found at i:14119165 original size:2 final size:2
Alignment explanation
Indices: 14119160--14119199 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14119150 ATATATATAC
14119160 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14119200 TAATAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14121464 original size:5 final size:5
Alignment explanation
Indices: 14121456--14121524 Score: 66
Period size: 5 Copynumber: 12.4 Consensus size: 5
14121446 CTTTCTCTTC
*
14121456 ATTTT ATTTTT ATTTT ATTTT ATTTT ATTTTT TTTTGT ATTTT ACATTTTT
1 ATTTT A-TTTT ATTTT ATTTT ATTTT A-TTTT ATTT-T ATTTT --A-TTTT
14121507 ATTTT ATTATT ATTTT AT
1 ATTTT ATT-TT ATTTT AT
14121525 ATATGTATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
5 31 0.56
6 19 0.35
7 1 0.02
8 4 0.07
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:14121498 original size:7 final size:6
Alignment explanation
Indices: 14121457--14121569 Score: 67
Period size: 6 Copynumber: 19.0 Consensus size: 6
14121447 TTTCTCTTCA
*
14121457 TTTTAT TTTTA- TTTTA- TTTTA- TTTTAT TTTT-T TTTGTAT TTTACAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTT-TAT
* * * * * *
14121503 TTTTA- TTTTAT TATTAT TTTATAT ATGTAT ATATAT TTTTTT CTTTTAT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT -TTTTAT
*
14121552 TATTAT TATTT-T TTTTAT
1 TTTTAT T-TTTAT TTTTAT
14121570 CTTAGGTATT
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
5 27 0.32
6 38 0.45
7 20 0.24
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:14121544 original size:38 final size:36
Alignment explanation
Indices: 14121468--14121558 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 36
14121458 TTTATTTTTA
* * *
14121468 TTTTATTTTATT-TTATTTTTTTTTGTATTTTACAT
1 TTTTATTTTATTATTATTTTTATATGTATTATACAT
**
14121503 TTTTATTTTATTATTATTTTATATATGTATATATATTT
1 TTTTATTTTATTATTATTTT-TATATGTAT-TATACAT
*
14121541 TTTTCTTTTATTATTATT
1 TTTTATTTTATTATTATT
14121559 ATTTTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 12 0.26
36 7 0.15
37 7 0.15
38 21 0.45
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (36 bp):
TTTTATTTTATTATTATTTTTATATGTATTATACAT
Found at i:14121550 original size:51 final size:53
Alignment explanation
Indices: 14121425--14121550 Score: 125
Period size: 51 Copynumber: 2.4 Consensus size: 53
14121415 TGGGTAACTC
* * * *
14121425 TATATATTTTTTTTCTTTTTCCTTTCTCTTCATTTTATTTTTATTTTATTTTAT
1 TATATATTTTTTTTC-TTTTACATTCTCTTCATTTTATTATTATTTTATTATAT
* * *
14121479 TTTATTTTTTTTTGTATTTTACATT-T-TT-ATTTTATTATTATTTTA-TATAT
1 TATATATTTTTTT-TCTTTTACATTCTCTTCATTTTATTATTATTTTATTATAT
14121529 GTATATATATTTTTTTCTTTTA
1 -TATATAT-TTTTTTTCTTTTA
14121551 TTATTATTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
50 4 0.07
51 27 0.46
52 8 0.14
53 1 0.02
54 18 0.31
55 1 0.02
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (53 bp):
TATATATTTTTTTTCTTTTACATTCTCTTCATTTTATTATTATTTTATTATAT
Found at i:14121674 original size:21 final size:22
Alignment explanation
Indices: 14121648--14121691 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
14121638 TATTATCTGA
14121648 TTTTAATTTATCTG-TTAATTT
1 TTTTAATTTATCTGATTAATTT
*
14121669 TTTTAATTTATCTGATTTATTT
1 TTTTAATTTATCTGATTAATTT
14121691 T
1 T
14121692 CGTTTGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTAATTTATCTGATTAATTT
Found at i:14122553 original size:12 final size:12
Alignment explanation
Indices: 14122533--14122709 Score: 69
Period size: 12 Copynumber: 13.8 Consensus size: 12
14122523 TTTTTTTTGA
*
14122533 ATTTATTTATTT
1 ATTTTTTTATTT
*
14122545 ATTTGTTTATTT
1 ATTTTTTTATTT
14122557 ATATTTTTTATTT
1 AT-TTTTTTATTT
*
14122570 GTTTTTTTATTT
1 ATTTTTTTATTT
14122582 ATTAGATTATGTTTATTT
1 A-T---TT-T-TTTATTT
* *
14122600 AATATTCTT-TTT
1 -ATTTTTTTATTT
* *
14122612 ATCTTTAT-TTT
1 ATTTTTTTATTT
14122623 ATTTTTATT-TTT
1 ATTTTT-TTATTT
14122635 ACTTTTCTTTATTT
1 A-TTTT-TTTATTT
*
14122649 ATTTTATT-TTT
1 ATTTTTTTATTT
14122660 ATTTTTATT-TTT
1 ATTTTT-TTATTT
*
14122672 TTTCATTTTTATTT
1 ATT--TTTTTATTT
14122686 -TGTTTTATTATTTT
1 AT-TTTT-TTA-TTT
14122700 ATTTTCTTTA
1 ATTTT-TTTA
14122710 AAAATAAAAT
Statistics
Matches: 130, Mismatches: 14, Indels: 40
0.71 0.08 0.22
Matches are distributed among these distances:
11 21 0.16
12 43 0.33
13 29 0.22
14 22 0.17
15 3 0.02
16 2 0.02
17 1 0.01
18 8 0.06
19 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (12 bp):
ATTTTTTTATTT
Found at i:14122567 original size:25 final size:26
Alignment explanation
Indices: 14122533--14122583 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
14122523 TTTTTTTTGA
14122533 ATTTATTTATTTATTTGTTTATTTAT
1 ATTTATTTATTTATTTGTTTATTTAT
* *
14122559 ATTT-TTTATTTGTTTTTTTATTTAT
1 ATTTATTTATTTATTTGTTTATTTAT
14122584 TAGATTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (26 bp):
ATTTATTTATTTATTTGTTTATTTAT
Found at i:14122600 original size:4 final size:4
Alignment explanation
Indices: 14122533--14122584 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
14122523 TTTTTTTTGA
* * * *
14122533 ATTT ATTT ATTT ATTT GTTT ATTT ATATT TTTT ATTT GTTT TTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT
14122582 ATT
1 ATT
14122585 AGATTATGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
4 37 0.93
5 3 0.08
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:14122605 original size:25 final size:22
Alignment explanation
Indices: 14122536--14122605 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 22
14122526 TTTTTGAATT
14122536 TATTTATTTATTTGTTTATTTA
1 TATTTATTTATTTGTTTATTTA
14122558 TATTT-TTTATTTGTTT-TTT-
1 TATTTATTTATTTGTTTATTTA
*
14122577 TATTTATTAGATTATGTTTATTTAA
1 TATTTATT-TATT-TGTTTATTT-A
14122602 TATT
1 TATT
14122606 CTTTTTATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
19 5 0.12
20 5 0.12
21 14 0.34
22 10 0.24
23 3 0.07
25 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (22 bp):
TATTTATTTATTTGTTTATTTA
Found at i:14122640 original size:7 final size:6
Alignment explanation
Indices: 14122607--14122704 Score: 84
Period size: 6 Copynumber: 16.7 Consensus size: 6
14122597 TTTAATATTC
*
14122607 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTA CTTTTCT- TTATTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TT-TTTA TTTTTA
*
14122655 TTTTTA TTTTTA -TTTT- TTTTCA TTTTTA TTTTGT- TTTATTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTT-TTA TTTTTA
14122701 TTTT
1 TTTT
14122705 CTTTAAAAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
5 18 0.24
6 49 0.64
7 8 0.11
8 1 0.01
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:14122653 original size:31 final size:31
Alignment explanation
Indices: 14122628--14122709 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 31
14122618 ATTTTATTTT
14122628 TATTTTTACTTTTCTTTA-TTTATTTTATTTT
1 TATTTTTA-TTTTCTTTATTTTATTTTATTTT
* *
14122659 TATTTTTATTTTTTTTCATTTTTATTTT-GTTT
1 TATTTTTATTTTCTTT-A-TTTTATTTTATTTT
14122691 TATTATTTTATTTTCTTTA
1 TA-T-TTTTATTTTCTTTA
14122710 AAAATAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
30 7 0.16
31 9 0.21
32 5 0.12
33 10 0.23
34 12 0.28
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (31 bp):
TATTTTTATTTTCTTTATTTTATTTTATTTT
Found at i:14122679 original size:10 final size:9
Alignment explanation
Indices: 14122615--14122709 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 9
14122605 TCTTTTTATC
*
14122615 TTTATTTTA
1 TTTATTTTT
*
14122624 TTT-TTATT
1 TTTATTTTT
*
14122632 TTTACTTTTC
1 TTTA-TTTTT
*
14122642 TTTATTTAT
1 TTTATTTTT
14122651 TTTATTTTT
1 TTTATTTTT
14122660 ATTT-TTATTT
1 -TTTATT-TTT
*
14122670 TTT-TTCATT
1 TTTATT-TTT
14122679 TTTATTTTGT
1 TTTATTTT-T
*
14122689 TTTA-TTAT
1 TTTATTTTT
*
14122697 TTTATTTTC
1 TTTATTTTT
14122706 TTTA
1 TTTA
14122710 AAAATAAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
8 11 0.17
9 35 0.53
10 20 0.30
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTATTTTT
Found at i:14122684 original size:64 final size:64
Alignment explanation
Indices: 14122550--14122709 Score: 159
Period size: 64 Copynumber: 2.5 Consensus size: 64
14122540 TATTTATTTG
* *
14122550 TTTATTTATATTTTT-TATTTGTTTT-TTTATTTATTAGATTATGTTTATTTAATATTCTTTTTA
1 TTTATTT-TATTTTTATTTTTATTTTCTTTATTTATT--ATTATGTTTATTTAATATTCTTTTTA
14122613 TC
63 TC
* * *
14122615 TTTATTTTATTTTTATTTTTACTTTTCTTTATTTATT-TTATTTTTATTT-TTATTTTTTTTCAT
1 TTTATTTTATTTTTATTTTTA-TTTTCTTTATTTATTATTATGTTTATTTAATATTCTTTTT-AT
*
14122678 T
64 C
*
14122679 TTTATTTT-GTTTTATTATTTTATTTTCTTTA
1 TTTATTTTATTTTTA-T-TTTTATTTTCTTTA
14122710 AAAATAAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
63 14 0.17
64 38 0.46
65 16 0.20
66 4 0.05
67 10 0.12
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.76
Consensus pattern (64 bp):
TTTATTTTATTTTTATTTTTATTTTCTTTATTTATTATTATGTTTATTTAATATTCTTTTTATC
Found at i:14122807 original size:59 final size:57
Alignment explanation
Indices: 14122735--14123118 Score: 445
Period size: 59 Copynumber: 6.5 Consensus size: 57
14122725 AAAAAAAAGG
* * *
14122735 TTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAAAATA
1 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTCAAAAAATA
*
14122794 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAAA
1 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAAAAATA
* * *
14122853 GTTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAA-A
1 -TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
* * * * *
14122910 GGTTTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAAAATA
1 --TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC---AAAAAATA
* **
14122974 TTTTTGGGGAAAAGTTGAAAGTATCTTTTTTCCTTAAAAATAAATTTTCAAAAAATA
1 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
*
14123031 -TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCAAAAAATCAA
1 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAT--A
14123088 TTTTT-GAGGAAAAGTTGAAAGTATCAATTTT
1 TTTTTGGA-GAAAAGTTGAAAGTATCAATTTT
14123119 TCCTGCACAA
Statistics
Matches: 286, Mismatches: 24, Indels: 31
0.84 0.07 0.09
Matches are distributed among these distances:
55 11 0.04
56 41 0.14
57 16 0.06
58 42 0.15
59 77 0.27
60 58 0.20
61 28 0.10
62 6 0.02
63 6 0.02
64 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATA
Found at i:14122869 original size:119 final size:115
Alignment explanation
Indices: 14122700--14123118 Score: 529
Period size: 120 Copynumber: 3.5 Consensus size: 115
14122690 TTATTATTTT
* * *
14122700 ATTTTCTTTAAAAATAAAATTTAAAAAAAAAAAGGTTTTTGAA-AAAAAGTTGAAAGTATCAATT
1 ATTTTCCTTAAAAAT-AAATTTCAAAAAAAAAA--TTTTT-AAGGAAAAGTTGAAAGTATCAATT
*
14122764 TTCCTTGAAAATCAAAGTTTTCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCA
62 TTCCTTAAAAAT-AAA-TTTTCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCA
14122820 ATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 ATTTTCCTTAAAAATAAA-TTTCAAAAAAAAAA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTT
* * * * *
14122885 TCTTAAAAATAAAATTTCAAAAAA-AGGTTTTTTGAGGAAAAGTTAAAAATATCA
64 CCTTAAAAATAAATTTTCAAAAAATA--TTTTTGGA-GAAAAGTTGAAAGTATCA
* ** **
14122939 ATTTTCCTTGAAAATCAAAGTTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCTTTTT
1 ATTTTCCTTAAAAAT-AAA-TTTCAAAAAAAAA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTT
*
14123004 TCCTTAAAAATAAATTTTCAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCA
63 TCCTTAAAAATAAATTTTCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCA
** *
14123056 ATTTTCCTTAAAAATAAATTTCAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 ATTTTCCTTAAAAATAAATTTCAAAAAAAAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
14123119 TCCTGCACAA
Statistics
Matches: 264, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
114 29 0.11
115 11 0.04
116 4 0.02
117 40 0.15
118 17 0.06
119 69 0.26
120 92 0.35
121 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (115 bp):
ATTTTCCTTAAAAATAAATTTCAAAAAAAAAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCC
TTAAAAATAAATTTTCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCA
Found at i:14131952 original size:57 final size:57
Alignment explanation
Indices: 14131705--14132096 Score: 504
Period size: 59 Copynumber: 6.6 Consensus size: 57
14131695 TTTTTTGGAG
*
14131705 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTT--ATTTCT-AA
* *
14131765 GGAAAATTGATACTTTCAACTTTT-CCTCAGAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-A-AAA--ATATTTTTTGGAAATTTATTTCTAA
* *
14131824 GAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTA--TTTC---TAA
14131888 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
* * *
14131945 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTATTTCTAA
* *
14132004 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
14132061 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
14132097 ATATTTTTTG
Statistics
Matches: 296, Mismatches: 19, Indels: 37
0.84 0.05 0.11
Matches are distributed among these distances:
56 1 0.00
57 92 0.31
58 3 0.01
59 97 0.33
60 31 0.10
61 20 0.07
62 15 0.05
63 1 0.00
64 36 0.12
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:14131978 original size:27 final size:27
Alignment explanation
Indices: 14131890--14131978 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
14131880 TCTTTTAAGG
*
14131890 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTTCCTA
** * * *
14131917 AAAA-T-ATTTTTTGGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TTCCT-A
14131945 GGAAAATTGATACTTTCAACTTTTTCCTA
1 --AAAATTGATACTTTCAACTTTTTCCTA
14131974 AAAAT
1 AAAAT
14131979 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.14
27 12 0.27
28 1 0.02
29 1 0.02
30 8 0.18
31 6 0.14
32 5 0.11
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCCTA
Found at i:14131996 original size:180 final size:174
Alignment explanation
Indices: 14131705--14132096 Score: 576
Period size: 180 Copynumber: 2.2 Consensus size: 174
14131695 TTTTTTGGAG
*
14131705 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTC-ATTTTCAAGGAAA
* *
14131770 ATTGATACTTTCAACTTTTCCTCAGAAACCCTTTTTTTGAAAATTTATTTCTAAGAAAAATTGAT
64 ATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAAATTTATTTCTAAGAAAAATTGAT
**
14131835 ACTTTCAACTTTTCCTTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
129 ACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTA--TTTC---TAA
14131888 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT-ATTCTT-AAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCATT-TTCAAGGAAAA
** *
14131951 TTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTTG-AAATTTATTTCTGAGAAAAATTGA
65 TTGATACTTTCAAC-TTTTCCTCAAAAA-ACCTTTTTTTGAAAATTTATTTCTAAGAAAAATTGA
14132014 TACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
128 TACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
14132061 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
14132097 ATATTTTTTG
Statistics
Matches: 198, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
173 39 0.20
176 4 0.02
178 15 0.08
180 75 0.38
181 17 0.09
182 14 0.07
183 34 0.17
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (174 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTGAAAATTTATTTCTAAGAAAAATTGATAC
TTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:14132062 original size:116 final size:116
Alignment explanation
Indices: 14131705--14132109 Score: 557
Period size: 116 Copynumber: 3.4 Consensus size: 116
14131695 TTTTTTGGAG
*
14131705 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTCGATTT-TCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTT--ATTTCT-AAGGA
* * *
14131768 AAATTGATACTTTCAACTTTTCCTCAGAAACCCT-TTTTTTGAAAATTTATTTCTAA
63 AAATTGATACTTTCAACTTTTCCCCA-AAA--ATATTTTTTGGAAATTTATTTCTAA
* *
14131824 GAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTA--TTTC---TAAG
*
14131889 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
61 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTC-TAA
* * * *
14131945 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGAAATTTATTTCTGAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
14132010 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
66 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
14132061 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTTGGAA
14132110 TTTTTTATTT
Statistics
Matches: 258, Mismatches: 16, Indels: 25
0.86 0.05 0.08
Matches are distributed among these distances:
116 88 0.34
117 4 0.02
118 10 0.04
119 36 0.14
120 22 0.09
121 65 0.25
122 3 0.01
123 29 0.11
124 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:14132156 original size:11 final size:11
Alignment explanation
Indices: 14132140--14132168 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
14132130 AAAATAGAAT
14132140 AATAAAAAATA
1 AATAAAAAATA
14132151 AAT-AAAAATA
1 AATAAAAAATA
14132161 AATAAAAA
1 AATAAAAA
14132169 GAATATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:14132157 original size:24 final size:23
Alignment explanation
Indices: 14132125--14132173 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
14132115 TATTTTTATT
14132125 TAAAG-AAAATAGAATAATAAAAAA
1 TAAAGAAAAATA-AATAA-AAAAAA
* *
14132149 TAAATAAAAATAAATAAAAAGAA
1 TAAAGAAAAATAAATAAAAAAAA
14132172 TA
1 TA
14132174 TTACATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 9 0.41
25 6 0.27
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (23 bp):
TAAAGAAAAATAAATAAAAAAAA
Found at i:14132687 original size:20 final size:19
Alignment explanation
Indices: 14132664--14132704 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
14132654 TCACCGGTTT
14132664 CTGGGATTCCTCGCCGGAAA
1 CTGGG-TTCCTCGCCGGAAA
**
14132684 CTGGGTTGGTCGCCGGAAA
1 CTGGGTTCCTCGCCGGAAA
14132703 CT
1 CT
14132705 TCAAGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.27, G:0.34, T:0.22
Consensus pattern (19 bp):
CTGGGTTCCTCGCCGGAAA
Found at i:14133172 original size:17 final size:18
Alignment explanation
Indices: 14133150--14133183 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14133140 TAGATAAGCA
*
14133150 AAAATACAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
14133167 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
14133184 AAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:14133228 original size:71 final size:69
Alignment explanation
Indices: 14133161--14133291 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 69
14133151 AAATACAAAA
* * *
14133161 ATAAATAA-AATAAAAAAGATA-AAAAATATATATACATATTAGTAATA-ATACATAAATAATAA
1 ATAAATAATAACAAAAAATAAATAAAAATATATATACATA-TAGTAATACATA-AT-AATAATAA
14133223 AATACAC
63 AATACAC
* * *
14133230 ATAAATATTAACAAAAAATAAATAAATATATATATACATATATTAATACATAATAATAATAA
1 ATAAATAATAACAAAAAATAAATAAAAATATATATACATATAGTAATACATAATAATAATAA
14133292 TAAATAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
69 15 0.28
70 19 0.36
71 19 0.36
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (69 bp):
ATAAATAATAACAAAAAATAAATAAAAATATATATACATATAGTAATACATAATAATAATAAAAT
ACAC
Found at i:14133293 original size:9 final size:10
Alignment explanation
Indices: 14133263--14133316 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
14133253 AAATATATAT
14133263 ATACATATATTA
1 ATACATA-A-TA
14133275 ATACATAATA
1 ATACATAATA
14133285 ATA-ATAATAA
1 ATACATAAT-A
14133295 ATA-AT-ATA
1 ATACATAATA
14133303 ATACATAA-A
1 ATACATAATA
14133312 ATACA
1 ATACA
14133317 AAAGAAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.10
9 15 0.38
10 12 0.31
11 1 0.03
12 7 0.18
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
ATACATAATA
Found at i:14135704 original size:8 final size:8
Alignment explanation
Indices: 14135691--14135773 Score: 78
Period size: 8 Copynumber: 9.9 Consensus size: 8
14135681 ACTATGCTTG
14135691 AAAAAAAT
1 AAAAAAAT
*
14135699 AAAAAAAC
1 AAAAAAAT
*
14135707 AGAGAAAAAA
1 A-A-AAAAAT
14135717 ATAAAAAAT
1 A-AAAAAAT
14135726 AAAAAAAT
1 AAAAAAAT
14135734 AAAAAAA-
1 AAAAAAAT
*
14135741 ATGAAAAAT
1 A-AAAAAAT
14135750 AAAAAAAT
1 AAAAAAAT
*
14135758 GAAAAAAT
1 AAAAAAAT
14135766 GAAAAAAA
1 -AAAAAAA
14135774 AAGAAAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
7 1 0.02
8 40 0.65
9 14 0.23
10 7 0.11
ACGTcount: A:0.83, C:0.01, G:0.06, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:14135738 original size:24 final size:24
Alignment explanation
Indices: 14135692--14135783 Score: 94
Period size: 24 Copynumber: 3.6 Consensus size: 24
14135682 CTATGCTTGA
*
14135692 AAAAAATAAAAAAACAGAGAAAAAAAT
1 AAAAAAT-AAAAAA-ATA-AAAAAAAT
14135719 AAAAAATAAAAAAATAAAAAAAAT
1 AAAAAATAAAAAAATAAAAAAAAT
* *
14135743 GAAAAATAAAAAAATGAAAAAATGAAA
1 AAAAAATAAAAAAAT-AAAAAA--AAT
*
14135770 AAAAAAGAAAAAAA
1 AAAAAATAAAAAAA
14135784 GTGAATGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 22 0.39
25 8 0.14
26 6 0.11
27 21 0.37
ACGTcount: A:0.84, C:0.01, G:0.07, T:0.09
Consensus pattern (24 bp):
AAAAAATAAAAAAATAAAAAAAAT
Found at i:14135795 original size:1 final size:1
Alignment explanation
Indices: 14135691--14135783 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
14135681 ACTATGCTTG
* * * * * * * ** *
14135691 AAAAAAATAAAAAAACAGAGAAAAAAATAAAAAATAAAAAAATAAAAAAAATGAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** *
14135756 ATGAAAAAATGAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
14135784 GTGAATGAAA
Statistics
Matches: 65, Mismatches: 27, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.84, C:0.01, G:0.06, T:0.09
Consensus pattern (1 bp):
A
Found at i:14135795 original size:32 final size:32
Alignment explanation
Indices: 14135692--14135781 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 32
14135682 CTATGCTTGA
* *
14135692 AAAAAATAAAAAAACAGAGAAAAAAATAAAAAATA
1 AAAAAATAAAAAAA-A-AGAAAAATA-AAAAAATG
*
14135727 AAAAAATAAAAAAAATGAAAAATAAAAAAATG
1 AAAAAATAAAAAAAAAGAAAAATAAAAAAATG
14135759 AAAAAATGAAAAAAAAAGAAAAA
1 AAAAAAT-AAAAAAAAAGAAAAA
14135782 AAGTGAATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 14 0.28
33 21 0.42
34 1 0.02
35 14 0.28
ACGTcount: A:0.83, C:0.01, G:0.07, T:0.09
Consensus pattern (32 bp):
AAAAAATAAAAAAAAAGAAAAATAAAAAAATG
Found at i:14136841 original size:41 final size:41
Alignment explanation
Indices: 14136796--14137242 Score: 578
Period size: 41 Copynumber: 10.8 Consensus size: 41
14136786 GATTGTCAAT
*
14136796 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGCA-
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG-AG
* *
14136837 GAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
14136878 GAGCAATCTACTTTTCAAAAGTCGTGGTGCCTCTATTTAGAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAG
*
14136920 GAGCAATTTACTTTTCAAAGTCTTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
14136961 GAGCAATTTACTTTTCAAAGAT-GTGGTGCCTCTGTTTAAAG
1 GAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAG
* * * *
14137002 GAGCAATTTATTTTTTAAAGTCGTGGTGCCTCTATTTAGAT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
14137043 GAGCAATTTACTTTTCAAAATCGTTGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
** *
14137084 GAGCAATTTACTCTCCCAAAGTCGTGGTGCCTCTATTTAGAG
1 GAGCAATTTACT-TTTCAAAGTCGTGGTGCCTCTGTTTAGAG
*
14137126 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
14137167 GAGCAATTTATTTTTCCAAAGTCGT--TGACCTCTGATTAGAT
1 GAGCAATTTACTTTT-CAAAGTCGTGGTG-CCTCTGTTTAGAG
* * * *
14137208 GAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCT
1 GAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCT
14137243 AAAAAGTCGT
Statistics
Matches: 358, Mismatches: 37, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
40 4 0.01
41 251 0.70
42 96 0.27
43 6 0.02
44 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:14136924 original size:83 final size:82
Alignment explanation
Indices: 14136796--14137242 Score: 580
Period size: 83 Copynumber: 5.4 Consensus size: 82
14136786 GATTGTCAAT
* *
14136796 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGCA-GAGCAATTTATTTTTCAAAGTCA
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG-AGGAGCAATTTATTTTTCAAAGTCG
*
14136860 TGGTGCCTCTGTTTAGAG
65 TGGTGCCTCTATTTAGAG
* * * *
14136878 GAGCAATCTACTTTTCAAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCT
1 GAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCG
*
14136943 TGGTGCCTCTGTTTAGAG
65 TGGTGCCTCTATTTAGAG
* *
14136961 GAGCAATTTACTTTTCAAAGAT-GTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTTAAAGTCG
1 GAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCG
*
14137025 TGGTGCCTCTATTTAGAT
65 TGGTGCCTCTATTTAGAG
* * * **
14137043 GAGCAATTTACTTTTCAAAATCGTTGTGCCTCTGTTTAGAGGAGCAATTTACTCTCCCAAAGTCG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCG
14137108 TGGTGCCTCTATTTAGAG
65 TGGTGCCTCTATTTAGAG
*
14137126 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAGTCG
*
14137191 T--TGACCTCTGA-TTAGAT
65 TGGTG-CCTCT-ATTTAGAG
* * * *
14137208 GAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCT
1 GAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCT
14137243 AAAAAGTCGT
Statistics
Matches: 324, Mismatches: 31, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
81 3 0.01
82 140 0.43
83 165 0.51
84 16 0.05
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (82 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT
GGTGCCTCTATTTAGAG
Found at i:14137106 original size:165 final size:164
Alignment explanation
Indices: 14136796--14137243 Score: 609
Period size: 165 Copynumber: 2.7 Consensus size: 164
14136786 GATTGTCAAT
* * *
14136796 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGCA-GAGCAATTTATTTTTCAAAGTCA
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA-AAGGAGCAATTTATTTTTCAAAGTCG
* * * *
14136860 TGGTGCCTCTGTTTAGAGGAGCAATCTACTTTTCAAAAGTCGTGGTGCCTCTATTTAGAGGAGCA
65 TGGTGCCTCTATTTAGATGAGCAATTTACTTTTCAAAA-TCGTTGTGCCTCTATTTAGAGGAGCA
** * *
14136925 ATTTACTTTTCAAAGTCTTGGTGCCTCTGTTTAGAG
129 ATTTACTTCCCAAAGTCGTGGTGCCTCTATTTAGAG
*
14136961 GAGCAATTTACTTTTCAAAGAT-GTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTTAAAGTCG
1 GAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTCAAAGTCG
*
14137025 TGGTGCCTCTATTTAGATGAGCAATTTACTTTTCAAAATCGTTGTGCCTCTGTTTAGAGGAGCAA
65 TGGTGCCTCTATTTAGATGAGCAATTTACTTTTCAAAATCGTTGTGCCTCTATTTAGAGGAGCAA
14137090 TTTACTCTCCCAAAGTCGTGGTGCCTCTATTTAGAG
130 TTTACT-TCCCAAAGTCGTGGTGCCTCTATTTAGAG
* *
14137126 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTT-CAAAGTCG
* * * *
14137191 T--TGACCTCTGA-TTAGATGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTA
65 TGGTG-CCTCT-ATTTAGATGAGCAATTTA-CTTT-TCAAAATCGTTGTGCCTCTA
14137244 AAAAGTCGTG
Statistics
Matches: 253, Mismatches: 21, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
164 35 0.14
165 188 0.74
166 13 0.05
167 17 0.07
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (164 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTATTTTTCAAAGTCGT
GGTGCCTCTATTTAGATGAGCAATTTACTTTTCAAAATCGTTGTGCCTCTATTTAGAGGAGCAAT
TTACTTCCCAAAGTCGTGGTGCCTCTATTTAGAG
Found at i:14137250 original size:19 final size:19
Alignment explanation
Indices: 14137226--14137262 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14137216 TATGTTTCTC
*
14137226 AAAGTCGTTGAGCCTCTAA
1 AAAGTCGTGGAGCCTCTAA
*
14137245 AAAGTCGTGGTGCCTCTA
1 AAAGTCGTGGAGCCTCTA
14137263 TTTAGAGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (19 bp):
AAAGTCGTGGAGCCTCTAA
Done.