Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 44 of 295
Found at i:12642316 original size:81 final size:81
Alignment explanation
Indices: 12642219--12642374 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
12642209 TTCTACCCTA
*
12642219 TAGGGGTATTTCGGTAATTTTACA-AGTC-AGGGGTATTTTAGTAATTTTACAAACCAGGGGTAT
1 TAGGGGTATTTCGGTAATTTTACAGA-TCGA-GGGTATTTTAGTAATTTTACAAACCAAGGGTAT
* *
12642282 TTTAGTAATTTTACAAAC
64 TTCAATAATTTTACAAAC
* * * ** *
12642300 TAGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
1 TAGGGGTATTTCGGTAATTTTACAGATCGAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
12642365 CAATAATTTT
66 CAATAATTTT
12642375 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 62 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
TAGGGGTATTTCGGTAATTTTACAGATCGAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
CAATAATTTTACAAAC
Found at i:12642333 original size:27 final size:26
Alignment explanation
Indices: 12642220--12642347 Score: 150
Period size: 27 Copynumber: 4.8 Consensus size: 26
12642210 TCTACCCTAT
* *
12642220 AGGGGTATTTCGGTAATTTTACAAGTC
1 AGGGGTATTTTGGTAATTTTACAA-AC
*
12642247 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAA-C
*
12642274 AGGGGTATTTTAGTAATTTTACAAAC
1 AGGGGTATTTTGGTAATTTTACAAAC
* *
12642300 TAGGGGTATTTTGGTAATTTTACTGATC
1 -AGGGGTATTTTGGTAATTTTAC-AAAC
12642328 -GAGGGTATTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
12642348 GTAAACTAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
26 2 0.02
27 87 0.96
28 2 0.02
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.41
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTACAAAC
Found at i:12642334 original size:54 final size:54
Alignment explanation
Indices: 12642220--12642374 Score: 170
Period size: 54 Copynumber: 2.9 Consensus size: 54
12642210 TCTACCCTAT
* *
12642220 AGGGGTATTTCGGTAATTTTAC-AAGTCAGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTAGTAATTTTACAAACC
* * ** *
12642274 AGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACC
** * * *
12642328 -GAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAATAATTTT
1 AG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTT
12642375 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 81 0.95
55 3 0.04
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACC
Found at i:12642359 original size:27 final size:27
Alignment explanation
Indices: 12642249--12642379 Score: 120
Period size: 27 Copynumber: 4.9 Consensus size: 27
12642239 TACAAGTCAG
* * *
12642249 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTATAAACTAA
* *
12642276 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTATAAACTAA
* * * *
12642303 GGGTATTTTGGTAATTTTACTGATC-GA
1 GGGTATTTTAGTAATTTTA-TAAACTAA
* *
12642330 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTAGTAATTTTATAAACTAA
* * *
12642357 GGGTATTTCAATAATTTTGTAAA
1 GGGTATTTTAGTAATTTTATAAA
12642380 TCGAGGATAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 83 0.94
28 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAACTAA
Found at i:12642398 original size:27 final size:27
Alignment explanation
Indices: 12642368--12642644 Score: 342
Period size: 27 Copynumber: 10.3 Consensus size: 27
12642358 GGTATTTCAA
* *
12642368 TAATTTTGTAAATCGAGGATAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
*
12642395 TAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
* *
12642422 TAATTTTATAAATCGAGGGTAAAAT-G
1 TAATTCTGTAAATCGAGGGTAAAATAG
* **
12642448 ATAATTCTATAAATCGAGGGTAAAACGG
1 -TAATTCTGTAAATCGAGGGTAAAATAG
*
12642476 TAATTCTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
* * * *
12642503 TAATTCTATAAATTGAAGGTAAAA-CG
1 TAATTCTGTAAATCGAGGGTAAAATAG
*
12642529 ATAATTCTGTAAATCGAGGGTAAAATGG
1 -TAATTCTGTAAATCGAGGGTAAAATAG
* *
12642557 TAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
* *
12642584 TAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
* *
12642611 TAATTCTGCAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATAG
12642638 TAATTCT
1 TAATTCT
12642645 ATCTTATTTC
Statistics
Matches: 222, Mismatches: 24, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 218 0.98
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATAG
Found at i:12642425 original size:81 final size:81
Alignment explanation
Indices: 12642365--12642644 Score: 382
Period size: 81 Copynumber: 3.5 Consensus size: 81
12642355 AAGGGTATTT
* * *
12642365 CAATAATTTTGTAAATCGAGGATAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA
1 CAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA
*
12642430 TAAATCGAGGGTAAAA
66 TAAATCAAGGGTAAAA
** * * * * *
12642446 TGATAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTA
1 CAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA
*
12642511 TAAATTGAA-GGTAAAA
66 TAAA-TCAAGGGTAAAA
* * *
12642527 CGATAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTG
1 CAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA
*
12642592 TAAATCGAGGGTAAAA
66 TAAATCAAGGGTAAAA
* *
12642608 CAGTAATTCTGCAAATCGAGGGTAAAATGGTAATTCT
1 CAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCT
12642645 ATCTTATTTC
Statistics
Matches: 171, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 167 0.98
82 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
CAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA
TAAATCAAGGGTAAAA
Found at i:12642641 original size:54 final size:54
Alignment explanation
Indices: 12642368--12642642 Score: 381
Period size: 54 Copynumber: 5.1 Consensus size: 54
12642358 GGTATTTCAA
* *
12642368 TAATTTTGTAAATCGAGGATAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGG
* *
12642422 TAATTTTATAAATCGAGGGTAAAAT-GATAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTAAAACGG
* * * * * *
12642476 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATTGAAGGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGG
* * * *
12642530 TAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGG
* * *
12642584 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGCAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGG
12642638 TAATT
1 TAATT
12642643 CTATCTTATT
Statistics
Matches: 196, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 194 0.99
55 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGG
Found at i:12642689 original size:27 final size:25
Alignment explanation
Indices: 12642659--12642743 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
12642649 TATTTCAGTG
12642659 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGG-TATTT-GGTA
* *
12642686 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATC-GAGGTA-TTTGGTA
* *
12642713 ATTTTACAAGTCGAAGGTATTTCAGTA
1 ATTTTACAAATCG-AGGTATTT-GGTA
12642740 ATTT
1 ATTT
12642744 GGTAAACTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.08
27 38 0.79
28 6 0.12
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTTACAAATCGAGGTATTTGGTA
Found at i:12647358 original size:17 final size:17
Alignment explanation
Indices: 12647336--12647368 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12647326 GTGACATGCC
12647336 CGTGTGGGCCC-CACACT
1 CGTGT-GGCCCACACACT
12647353 CGTGTGGCCCACACAC
1 CGTGTGGCCCACACAC
12647369 CCAACTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.15, C:0.42, G:0.27, T:0.15
Consensus pattern (17 bp):
CGTGTGGCCCACACACT
Found at i:12651561 original size:18 final size:19
Alignment explanation
Indices: 12651535--12651572 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
12651525 ATACGCGTAT
*
12651535 ATATCTAAAA-AATAAAGA
1 ATATCTAAAATAAAAAAGA
*
12651553 ATATGTAAAATAAAAAAGA
1 ATATCTAAAATAAAAAAGA
12651572 A
1 A
12651573 CTAAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (19 bp):
ATATCTAAAATAAAAAAGA
Found at i:12652200 original size:22 final size:25
Alignment explanation
Indices: 12652175--12652221 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12652165 AGTATTTGTA
12652175 ATATTAAT-TT-TGCT-ATATTATT
1 ATATTAATGTTATGCTCATATTATT
*
12652197 ATATTATTGTTATGCTCATATTATT
1 ATATTAATGTTATGCTCATATTATT
12652222 TATACTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
24 4 0.19
25 8 0.38
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (25 bp):
ATATTAATGTTATGCTCATATTATT
Found at i:12652251 original size:21 final size:21
Alignment explanation
Indices: 12652214--12652268 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
12652204 TGTTATGCTC
*
12652214 ATATTATT-TATACTATACTTA
1 ATATTATTAT-TATTATACTTA
*
12652235 ATATTATTATTATTATATTTA
1 ATATTATTATTATTATACTTA
*
12652256 CTATTATTATTAT
1 ATATTATTATTAT
12652269 AAATATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTATTATTATTATACTTA
Found at i:12652348 original size:15 final size:16
Alignment explanation
Indices: 12652330--12652362 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12652320 TATGGTTTCT
12652330 TTTAATATTAT-TATA
1 TTTAATATTATATATA
*
12652345 TTTACTATTATATATA
1 TTTAATATTATATATA
12652361 TT
1 TT
12652363 ATATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATATTATATATA
Found at i:12652465 original size:13 final size:11
Alignment explanation
Indices: 12652439--12652487 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
12652429 ACTATTATTG
12652439 TTATTATTATA
1 TTATTATTATA
*
12652450 TTATTATTACA
1 TTATTATTATA
12652461 -TATTATTATA
1 TTATTATTATA
*
12652471 TT-TATATAATA
1 TTAT-TATTATA
12652482 TTATTA
1 TTATTA
12652488 ATAGGTACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 10 0.31
11 21 0.66
12 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTATTATA
Found at i:12652472 original size:29 final size:29
Alignment explanation
Indices: 12652422--12652487 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
12652412 CTTTCTTTTG
* * *
12652422 TATTTTTACTATTATTGTTA-TTATTATAT
1 TATTATTACTATTATTGATATTTA-TATAA
12652451 TATTATTACATATTATT-ATATTTATATAA
1 TATTATTAC-TATTATTGATATTTATATAA
12652480 TATTATTA
1 TATTATTA
12652488 ATAGGTACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
TATTATTACTATTATTGATATTTATATAA
Found at i:12653266 original size:21 final size:20
Alignment explanation
Indices: 12653241--12653310 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 20
12653231 TGTATTGTGC
*
12653241 ATGTATTTTTAACACTATATT
1 ATGTATTTTTAATA-TATATT
12653262 ATGTATATACTCTTAATAT-TATT
1 ATGTAT-T--T-TTAATATATATT
12653285 ATGTATTTTTAATATATATGT
1 ATGTATTTTTAATATATAT-T
12653306 ATGTA
1 ATGTA
12653311 CATACTTATC
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.17
20 4 0.10
21 12 0.29
22 2 0.05
23 10 0.24
24 2 0.05
25 5 0.12
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (20 bp):
ATGTATTTTTAATATATATT
Found at i:12665617 original size:67 final size:72
Alignment explanation
Indices: 12665526--12665706 Score: 192
Period size: 75 Copynumber: 2.5 Consensus size: 72
12665516 GAGAAATTAT
* * * *
12665526 TTGAGCCTCAAGAGACGTTGAGGTATTTTCAATTTCTGTCTTTT-AAAAAA-AAATCA-A-CT-C
1 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATCTTTTCAAAAAACAAATCATATCTAC
*
12665586 ATGTGAG
66 AGGTGAG
* * * * * *
12665593 TTGAGCCTTAGGACACGCTGAGGTAGTTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGT
1 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATCTTTTCAAAAAA-CAAATCATA-TCT
*
12665658 GAGAGGTGAG
64 -ACAGGTGAG
12665668 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTAT
1 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTAT
12665707 TTTCTTTTCA
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
67 36 0.40
68 6 0.07
70 5 0.05
71 1 0.01
73 1 0.01
75 42 0.46
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (72 bp):
TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTATCTTTTCAAAAAACAAATCATATCTAC
AGGTGAG
Found at i:12665716 original size:18 final size:18
Alignment explanation
Indices: 12665693--12665727 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12665683 CGCTGAGGTA
*
12665693 TTTTCAATTTCTATTTTC
1 TTTTCAATTTATATTTTC
12665711 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
12665728 TCAAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTCAATTTATATTTTC
Found at i:12665776 original size:167 final size:163
Alignment explanation
Indices: 12665591--12665973 Score: 452
Period size: 167 Copynumber: 2.3 Consensus size: 163
12665581 AACTCATGTG
** *
12665591 AGTTGAGCCTTAGGACACGCTGAGGTAGTTTCAATTTATATTTTTTCAAAAAATCAACTCATATT
1 AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTAT-TTTTTTCAAAAAATCAACTCATATT
* * * *
12665656 GTGAGAGGTGAGTTGAGCCTC-AG-GACACG-CTGAGGTATTTTCAATTTCTATTTTCTTTTCAA
65 GCGAGAGATGAGTTGAGCCTCGAGCCACACGTC-GAGGTATTTTCAA--TC----GT-TTTTCAA
*
12665718 TTTATATTT-T-TCAAAAAATCAACTCATATTGCAAGAGGTA
122 TTTATATTTCTCCCAAAAAATCAACTCATATTGCAAGAGGTA
* *
12665758 AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATT
1 AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTATTTTTTTC-AAAAAATCAACTCATATT
* *
12665823 GCGAGAGATGAGTTGAGCCTCGAGCCACATGTCGAGGTATTTTCAATCGTTTTTCAATTTCTATT
65 GCGAGAGATGAGTTGAGCCTCGAGCCACACGTCGAGGTATTTTCAATCGTTTTTCAATTTATATT
* * *
12665888 TCTCCCCAAAAAATCAACTTATATTGCGAGAGGTG
130 TCT-CCCAAAAAATCAACTCATATTGCAAGAGGTA
* *
12665923 AGTTGAGCCTCGGCTTACATGCTGAGGTATTTTCAATTTATGTTTTTTCAA
1 AGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTTAT-TTTTTTCAA
12665974 TTTATACTTT
Statistics
Matches: 187, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
162 15 0.08
163 2 0.01
165 39 0.21
166 6 0.03
167 99 0.53
168 8 0.04
169 17 0.09
170 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (163 bp):
AGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTATTTTTTTCAAAAAATCAACTCATATTG
CGAGAGATGAGTTGAGCCTCGAGCCACACGTCGAGGTATTTTCAATCGTTTTTCAATTTATATTT
CTCCCAAAAAATCAACTCATATTGCAAGAGGTA
Found at i:12665777 original size:92 final size:93
Alignment explanation
Indices: 12665619--12665801 Score: 314
Period size: 92 Copynumber: 2.0 Consensus size: 93
12665609 GCTGAGGTAG
** *
12665619 TTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGACAC
12665684 GCTGAGGTATTTTCAATTTCTATTTTCT
66 GCTGAGGTATTTTCAATTTCTATTTTCT
*
12665712 TTTCAATTTATA-TTTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGGACAC
1 TTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGACAC
*
12665776 GCTGAGGTATTTTCAATTTCTGTTTT
66 GCTGAGGTATTTTCAATTTCTATTTT
12665802 TCAAAAAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
92 73 0.86
93 12 0.14
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (93 bp):
TTTCAATTTATATTTTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTCTATTTTCT
Found at i:12665943 original size:90 final size:89
Alignment explanation
Indices: 12665785--12666138 Score: 309
Period size: 90 Copynumber: 3.9 Consensus size: 89
12665775 CGCTGAGGTA
* ** * *
12665785 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGC-C
1 TTTTCAATTTATACTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCG-GCTC
12665849 ACATGTCGAGGTATTTTCAA-T-CG-T
64 ACATG-CGAGGTATTTTCAATTACGTT
*
12665873 TTTTCAATTTCTA-TTTCTCCCCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGC
1 TTTTCAATTTATACTTT-T---CAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGC
* *
12665937 TTACATGCTGAGGTATTTTCAATTTATGTT
62 TCACATGC-GAGGTATTTTCAA-TTACGTT
* *
12665967 TTTTCAATTTATACTTTTCAAAAAATCAA-TTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATACTTTTCAAAAAATCAACTT-ATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
12666031 CATGCCGAGGTATTTTCAAATT-C-TGT
65 CATG-CGAGGTATTTTC-AATTACGT-T
* * * * * * * *
12666057 TTTGCAAATTT-T--GTTTC-AAAAGTCAACTCATATTGCGAGAAGTGAGTTAAGTCTTGGCTCA
1 TTTTC-AATTTATACTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* *
12666118 CGTGCTGAGCTATTTTCAATT
65 CATGC-GAGGTATTTTCAATT
12666139 TTTGTTTTTA
Statistics
Matches: 226, Mismatches: 22, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
86 5 0.02
87 50 0.22
88 18 0.08
89 4 0.02
90 64 0.28
91 63 0.28
92 4 0.02
93 1 0.00
94 14 0.06
95 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (89 bp):
TTTTCAATTTATACTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
ATGCGAGGTATTTTCAATTACGTT
Found at i:12666018 original size:181 final size:179
Alignment explanation
Indices: 12665785--12666147 Score: 439
Period size: 178 Copynumber: 2.0 Consensus size: 179
12665775 CGCTGAGGTA
* ** *
12665785 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGCCA
1 TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
* * * *
12665850 CATGTCGAGGTATTTTC-AA-TC-GTTTTTC-AATTTCTATTTCTCCCCAAAAAATCAACTTATA
66 CATGCCGAGGTATTTTCAAATTCTGTTTTGCAAATTT-T-GTT-T---C-AAAAATCAACTCATA
* * * *
12665911 TTGCGAGAGGTGAGTTGAGCCTCGGCTTACATGCTGAGGTATTTTCAATTTATGTT
124 TTGCGAGAAGTGAGTTAAGCCTCGGCTCACATGCTGAGCTATTTTCAATTTATGTT
* * * *
12665967 TTTTCAATTTATACTTTTC-AAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
*
12666031 CATGCCGAGGTATTTTCAAATTCTGTTTTGCAAATTTTGTTTCAAAAGTCAACTCATATTGCGAG
66 CATGCCGAGGTATTTTCAAATTCTGTTTTGCAAATTTTGTTTCAAAAATCAACTCATATTGCGAG
* * * *
12666096 AAGTGAGTTAAGTCTTGGCTCACGTGCTGAGCTATTTTCAATTTTTGTT
131 AAGTGAGTTAAGCCTCGGCTCACATGCTGAGCTATTTTCAATTTATGTT
12666145 TTT
1 TTT
12666148 AATGTCTAGT
Statistics
Matches: 156, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
178 64 0.41
179 1 0.01
181 56 0.36
182 19 0.12
183 4 0.03
184 7 0.04
185 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (179 bp):
TTTTCAATTTATACTTTTCAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGAGCCA
CATGCCGAGGTATTTTCAAATTCTGTTTTGCAAATTTTGTTTCAAAAATCAACTCATATTGCGAG
AAGTGAGTTAAGCCTCGGCTCACATGCTGAGCTATTTTCAATTTATGTT
Found at i:12666024 original size:91 final size:88
Alignment explanation
Indices: 12665785--12666180 Score: 378
Period size: 91 Copynumber: 4.4 Consensus size: 88
12665775 CGCTGAGGTA
* *
12665785 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGC-C
1 TTTTCAATTTCT-ATTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTC
*
12665849 ACATG-TCGAGGTATTTTCAA--TCGT
63 ACATGCT-GAGGTATTTTCAATTTTGT
*
12665873 TTTTCAATTTCTATTTCTCCCCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGCT
1 TTTTCAATTTCTATTT-T---CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
*
12665938 TACATGCTGAGGTATTTTCAATTTATGTT
62 CACATGCTGAGGTATTTTCAATTT-TG-T
* * * *
12665967 TTTTCAATTTATACTTTTCAAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTCTA-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
* *
12666032 ATGCCGAGGTATTTTCAAATTCTGT
65 ATGCTGAGGTATTTTC-AATTTTGT
* * * * * * *
12666057 TTTGCAAATTT-T-GTTTC-AAAAGTCAACTCATATTGCGAGAAGTGAGTTAAGTCTTGGCTCAC
1 TTTTC-AATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
* *
12666119 GTGCTGAGCTATTTTCAATTTTTGT
65 ATGCTGAGGTATTTTCAA-TTTTGT
* * * *
12666144 TTTT-AATGTCTAGTTTT-AAAGAGTCAATTCATATTGC
1 TTTTCAATTTCTA-TTTTCAAAAAATCAACTCATATTGC
12666181 AAGAAATGAG
Statistics
Matches: 258, Mismatches: 32, Indels: 36
0.79 0.10 0.11
Matches are distributed among these distances:
85 4 0.02
86 3 0.01
87 61 0.24
88 37 0.14
89 2 0.01
90 62 0.24
91 66 0.26
92 5 0.02
93 1 0.00
94 14 0.05
95 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (88 bp):
TTTTCAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
TGCTGAGGTATTTTCAATTTTGT
Found at i:12667848 original size:21 final size:22
Alignment explanation
Indices: 12667811--12667891 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 22
12667801 TGTTATGCAC
*
12667811 ATATTATT-TATACTATACTTA
1 ATATTATTATATATTATACTTA
*
12667832 ATATTATTAT-TATTATATTTA
1 ATATTATTATATATTATACTTA
* * *
12667853 CTATTA-TATATATTTTATTTA
1 ATATTATTATATATTATACTTA
12667874 ATA-TATTAT-TATT-TACTT
1 ATATTATTATATATTATACTT
12667892 TCCTTGCCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.08
20 9 0.18
21 37 0.73
22 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTATTATATATTATACTTA
Found at i:12667877 original size:16 final size:15
Alignment explanation
Indices: 12667829--12667888 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 15
12667819 TATACTATAC
12667829 TTAATATTATTATTA-
1 TTAATA-TATTATTAT
*
12667844 TT-ATAT-TTACTA-
1 TTAATATATTATTAT
12667856 TTATATATATT-TTAT
1 TTA-ATATATTATTAT
12667871 TTAATATATTATTAT
1 TTAATATATTATTAT
12667886 TTA
1 TTA
12667889 CTTTCCTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.18
13 1 0.03
14 16 0.42
15 14 0.37
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATATATTATTAT
Found at i:12667960 original size:11 final size:11
Alignment explanation
Indices: 12667944--12667994 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
12667934 CTATAATTGT
12667944 TATTATTATTA
1 TATTATTATTA
12667955 TATTATTATTA
1 TATTATTATTA
*
12667966 CA-TATTATTA
1 TATTATTATTA
*
12667976 TATT-TATATAA
1 TATTAT-TATTA
12667987 TATTATTA
1 TATTATTA
12667995 ATAGGTACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 10 0.29
11 23 0.68
12 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTATTATTA
Found at i:12668112 original size:26 final size:26
Alignment explanation
Indices: 12668083--12668145 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
12668073 ATTATCTTAG
* * * *
12668083 GTATATATTTTTTAATACTATATTGT
1 GTATATATTTTTCAACACCATATTAT
* *
12668109 GTATGTATTTTTCAACGCCATATTAT
1 GTATATATTTTTCAACACCATATTAT
12668135 GTATATATTTT
1 GTATATATTTT
12668146 AATACGACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.54
Consensus pattern (26 bp):
GTATATATTTTTCAACACCATATTAT
Found at i:12681627 original size:50 final size:51
Alignment explanation
Indices: 12681449--12681629 Score: 165
Period size: 50 Copynumber: 3.6 Consensus size: 51
12681439 ATCTGATACG
** * ** *
12681449 CATAGTAGCCTGCACTTAGTACTACACACATGACCTCA-CCATCTGA-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCAT-TGAGTACA
** * * *
12681499 TGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCATTGAGTACA
* * * *
12681550 CATACTAGCCTGCACTTAGTACTACACATGCGACTTAATAGT-A-TG-GTATA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-TCAA-AGTCATTGAGTACA
12681600 CATAGTAGCCTGCACTTAGTACTACACACG
1 CATAGTAGCCTGCACTTAGTACTACACACG
12681630 TGTATTCACA
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 66 0.61
51 36 0.33
52 3 0.03
53 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTCATTGAGTACA
Found at i:12682973 original size:15 final size:15
Alignment explanation
Indices: 12682953--12683021 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
12682943 GTATCTTGGG
12682953 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
12682968 TCTCTTTGTTCTGGA
1 TTTCTTTATCCTGGA
* *
12682983 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
12682998 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
12683013 TTTCTTTAT
1 TTTCTTTAT
12683022 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:12683013 original size:30 final size:30
Alignment explanation
Indices: 12682944--12683031 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
12682934 CATAGTATCG
* * * *
12682944 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
12682974 TGT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
12683004 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
12683032 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:12683032 original size:14 final size:14
Alignment explanation
Indices: 12682953--12683032 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
12682943 GTATCTTGGG
*
12682953 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
12682968 TCTCTTTGTTCTGGA
1 TTTCTTTATTC-GGA
*
12682983 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
12682998 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
12683013 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
12683027 TTTCTT
1 TTTCTT
12683033 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.09, C:0.17, G:0.15, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:12689607 original size:93 final size:93
Alignment explanation
Indices: 12689448--12689619 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
12689438 CGTCCATAAG
* *
12689448 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAGGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
12689513 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
12689541 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
12689606 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
12689620 TCAACTATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:12689616 original size:46 final size:46
Alignment explanation
Indices: 12689440--12689616 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
12689430 ATGTAACCCG
* *
12689440 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
* * * *
12689486 TCCATAGGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA
* *
12689536 T--TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
* *
12689579 TCCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
12689617 TGCTCAACTA
Statistics
Matches: 106, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.26
48 1 0.01
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TCCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
Found at i:12702041 original size:23 final size:23
Alignment explanation
Indices: 12702013--12702058 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
12702003 ATATTCCGGT
12702013 TGATCAATAAAATATGCTCTCTC
1 TGATCAATAAAATATGCTCTCTC
*
12702036 TGATCAATAAAATATGTTCTCTC
1 TGATCAATAAAATATGCTCTCTC
12702059 ATTCTCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (23 bp):
TGATCAATAAAATATGCTCTCTC
Found at i:12705685 original size:12 final size:11
Alignment explanation
Indices: 12705668--12705697 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
12705658 CAAAATATTC
12705668 AAAATTTTCATA
1 AAAATTTTCA-A
12705680 AAAATTTTCAA
1 AAAATTTTCAA
12705691 AAAATTT
1 AAAATTT
12705698 CTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAATTTTCAA
Found at i:12705702 original size:21 final size:20
Alignment explanation
Indices: 12705654--12705703 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
12705644 ATCAAAATCA
* *
12705654 TTCTCAAAATATTCAAAATT
1 TTCTAAAAATATTCAAAAAT
*
12705674 TTCATAAAAATTTTCAAAAAAT
1 TTC-TAAAAATATTC-AAAAAT
12705696 TTCTAAAA
1 TTCTAAAA
12705704 TTTATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 14 0.56
22 8 0.32
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
TTCTAAAAATATTCAAAAAT
Found at i:12706558 original size:17 final size:17
Alignment explanation
Indices: 12706536--12706569 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12706526 CTCTCACCCC
12706536 ACTTATGTATTATATGG
1 ACTTATGTATTATATGG
12706553 ACTTATGTATTATATGG
1 ACTTATGTATTATATGG
12706570 GAAAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
ACTTATGTATTATATGG
Found at i:12710120 original size:13 final size:13
Alignment explanation
Indices: 12710102--12710128 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12710092 CTGAATTAGT
12710102 TTTACTAACCACC
1 TTTACTAACCACC
12710115 TTTACTAACCACC
1 TTTACTAACCACC
12710128 T
1 T
12710129 GATCATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:12713966 original size:19 final size:19
Alignment explanation
Indices: 12713942--12713988 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
12713932 ATTTCTTCTC
12713942 TGTTTCGTTTCAACTC-TTT
1 TGTTTC-TTTCAACTCTTTT
* *
12713961 TGTTTCTTTTAATTCTTTT
1 TGTTTCTTTCAACTCTTTT
12713980 TGTTTCTTT
1 TGTTTCTTT
12713989 TATTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.09, C:0.15, G:0.09, T:0.68
Consensus pattern (19 bp):
TGTTTCTTTCAACTCTTTT
Found at i:12714528 original size:27 final size:27
Alignment explanation
Indices: 12714492--12714544 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
12714482 TGATGCCACA
12714492 TTACAGTAGAAGAATCAGAAGAAACAT
1 TTACAGTAGAAGAATCAGAAGAAACAT
* * *
12714519 TTACATTAGAGGAATTAGAAGAAACA
1 TTACAGTAGAAGAATCAGAAGAAACA
12714545 CCATTAGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (27 bp):
TTACAGTAGAAGAATCAGAAGAAACAT
Found at i:12719165 original size:24 final size:24
Alignment explanation
Indices: 12719138--12719189 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
12719128 AATCAAATTC
* *
12719138 AAATATATTATACTTATAAATGCT
1 AAATATATTATACTCATAAATACT
12719162 AAATATATTATACTCATAAATACT
1 AAATATATTATACTCATAAATACT
12719186 AAAT
1 AAAT
12719190 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTCATAAATACT
Found at i:12721069 original size:13 final size:13
Alignment explanation
Indices: 12721051--12721077 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12721041 CTAAAGTAGT
12721051 TTTACTAACCACC
1 TTTACTAACCACC
12721064 TTTACTAACCACC
1 TTTACTAACCACC
12721077 T
1 T
12721078 GATCGTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:12723220 original size:400 final size:402
Alignment explanation
Indices: 12722473--12723273 Score: 1462
Period size: 400 Copynumber: 2.0 Consensus size: 402
12722463 ATCATCGTCA
12722473 AAACACCATACAATATTTGTTTTTTTTTAATCCATTTTCCAAAAGTCATTTTTGAAAGTTTTTAG
1 AAACACCATACAATATTTGTTTTTTTTTAATCCATTTTCCAAAAGTCATTTTTGAAAGTTTTTAG
12722538 CGAAACAAACGCAACATAAATGAAATTTCCTTTTAATGAGGGGTTGGGTTTGTAGAAATTTTTTA
66 CGAAACAAACGCAACATAAATGAAATTTCCTTTTAATGAGGGGTTGGGTTTGTAGAAATTTTTTA
* *
12722603 TATAATGCCTAAACAACTTATAAACCTCAAATCCTTGACATGAAAGATTTTATACATTAATTTGA
131 TATAATGCCTAAACAACTTATAAAACTCAAATCCTTGACATGAAAGATTTTATACACTAATTTGA
*
12722668 ACCTTACAAGTTGTTGCAACAACAATAATATCAATCGAATTAAGACTCAATTGATATTCGTATAT
196 ACCTTACAAGTTGTTGCAACAACAATAATACCAATCGAATTAAGACTCAATTGATATTCGTATAT
**
12722733 GGATTTTATAGTTTGAAAAAAAATAAAGTAAAAGATTTGGTTGTAAAAAGAGAGTGTTTGCTTGA
261 GGATTTTATAGTTTGAAAAAAAATAAAGTAAAAGATTTGGTTCCAAAAAGAGAGTGTTTGCTTGA
12722798 TTGATCACCGAAAATAGCCAAGA-GGGGATAAATTGGCCTTTTAAAAATTTGTGGAAGCAAAGAG
326 TTGATCACCGAAAATAGCCAAGAGGGGGATAAATTGGCCTTTTAAAAATTTGTGGAAGCAAAGAG
12722862 AATAAATAGACT
391 AATAAATAGACT
*
12722874 AAACACCATACAATATTTGTTTTTTTTTAATCCATTTTCCAAAAGTCATTTTTGGAAGTTTTTAG
1 AAACACCATACAATATTTGTTTTTTTTTAATCCATTTTCCAAAAGTCATTTTTGAAAGTTTTTAG
*
12722939 CGAAACAAACGCAACATTAATGAAATTTCCTTTTAATGAGGGGTTGGGTTTGTAGAAATTTTTTA
66 CGAAACAAACGCAACATAAATGAAATTTCCTTTTAATGAGGGGTTGGGTTTGTAGAAATTTTTTA
12723004 TATAAT-CCTAAACAACTTATAAAACTCAAATCCTTGACATGAAAGATTTTATACACTAATTTGA
131 TATAATGCCTAAACAACTTATAAAACTCAAATCCTTGACATGAAAGATTTTATACACTAATTTGA
*
12723068 ACCTTACAATTTGTTGCAACAACAATAATACCAATCGAATTAAGACTCAATTGATATTCGTATAT
196 ACCTTACAAGTTGTTGCAACAACAATAATACCAATCGAATTAAGACTCAATTGATATTCGTATAT
* *
12723133 GGATTTTATAGTTTGAAAAGAAATACAGTAAAAGATTTGGTTCCAAAAAGAGAGTGTTTGCTTGA
261 GGATTTTATAGTTTGAAAAAAAATAAAGTAAAAGATTTGGTTCCAAAAAGAGAGTGTTTGCTTGA
* * *
12723198 TTGATCACCGAAAATGGCCAAGAGGGGGGGTGAATTGGCCTTTTAAAAATTTGTGGAAGCAAAGA
326 TTGATCACCGAAAATAGCCAAGA-GGGGGATAAATTGGCCTTTTAAAAATTTGTGGAAGCAAAGA
12723263 GAATAAATAGA
390 GAATAAATAGA
12723274 GACAATGAAT
Statistics
Matches: 385, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
400 202 0.52
401 134 0.35
402 49 0.13
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (402 bp):
AAACACCATACAATATTTGTTTTTTTTTAATCCATTTTCCAAAAGTCATTTTTGAAAGTTTTTAG
CGAAACAAACGCAACATAAATGAAATTTCCTTTTAATGAGGGGTTGGGTTTGTAGAAATTTTTTA
TATAATGCCTAAACAACTTATAAAACTCAAATCCTTGACATGAAAGATTTTATACACTAATTTGA
ACCTTACAAGTTGTTGCAACAACAATAATACCAATCGAATTAAGACTCAATTGATATTCGTATAT
GGATTTTATAGTTTGAAAAAAAATAAAGTAAAAGATTTGGTTCCAAAAAGAGAGTGTTTGCTTGA
TTGATCACCGAAAATAGCCAAGAGGGGGATAAATTGGCCTTTTAAAAATTTGTGGAAGCAAAGAG
AATAAATAGACT
Found at i:12724102 original size:19 final size:18
Alignment explanation
Indices: 12724068--12724131 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 18
12724058 ATTTTAAAAC
*
12724068 AATTTTAATTTTGATTGAA
1 AATTTTAA-CTTGATTGAA
12724087 AATATTTAACTTGATTGAA
1 AAT-TTTAACTTGATTGAA
12724106 ACCATTTTAACTTGATT-AA
1 A--ATTTTAACTTGATTGAA
*
12724125 AAGTTTA
1 AATTTTA
12724132 TCCAAAAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.12
19 16 0.40
20 17 0.43
21 2 0.05
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (18 bp):
AATTTTAACTTGATTGAA
Found at i:12725388 original size:24 final size:24
Alignment explanation
Indices: 12725359--12725407 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
12725349 TTACCAAGCC
* *
12725359 ACAAACCAGAAA-TAATTAAAAATT
1 ACAAACCA-AAACCAATAAAAAATT
12725383 ACAAACCAAAACCAATAAAAAATT
1 ACAAACCAAAACCAATAAAAAATT
12725407 A
1 A
12725408 ATAATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.16
Consensus pattern (24 bp):
ACAAACCAAAACCAATAAAAAATT
Found at i:12734109 original size:30 final size:30
Alignment explanation
Indices: 12734073--12734139 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
12734063 GGCCCAGATT
12734073 CCCACACGCTCGTGTGGTGCACCCGTGTGA
1 CCCACACGCTCGTGTGGTGCACCCGTGTGA
*
12734103 CCCACACGCTCGTGTGGTGCACCCGTGTGG
1 CCCACACGCTCGTGTGGTGCACCCGTGTGA
12734133 CCCACAC
1 CCCACAC
12734140 AACCCATTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.13, C:0.40, G:0.28, T:0.18
Consensus pattern (30 bp):
CCCACACGCTCGTGTGGTGCACCCGTGTGA
Found at i:12740502 original size:56 final size:57
Alignment explanation
Indices: 12740404--12740596 Score: 182
Period size: 56 Copynumber: 3.4 Consensus size: 57
12740394 CATACAATAG
* * * **
12740404 GATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCT-AAGAGTTTTGTC-A
1 GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAGAGCTTAATCTA
* * * *
12740459 TGATTACCAGTCTAGGCTAAATCCTTTTTGTGACAAATACTCTAAAGAGCTTAATCTA
1 -GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAGAGCTTAATCTA
* * * * *
12740517 GATTACCAGTCCAGGCTAAATCC-AGACTTTAACATATGCTC-AAAG-GCTCAAT-TA
1 GATTACCAGTCCAGGCTAAATCCTA-TCTGTAACAAATACTCTAAAGAGCTTAATCTA
*
12740571 GGATTACCAATCCAGGCTAAATCCTA
1 -GATTACCAGTCCAGGCTAAATCCTA
12740597 ATTGCAACAT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
54 2 0.02
55 28 0.25
56 41 0.36
57 41 0.36
58 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (57 bp):
GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAAGAGCTTAATCTA
Found at i:12740533 original size:57 final size:56
Alignment explanation
Indices: 12740404--12740650 Score: 180
Period size: 57 Copynumber: 4.4 Consensus size: 56
12740394 CATACAATAG
* * * **
12740404 GATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCTAAGAGTTTTGTCAT
1 GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAGAGCTTAATCAT
* * * *
12740460 GATTACCAGTCTAGGCTAAATCCTTTTTGTGACAAATACTCTAAAGAGCTTAATC-T
1 GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCT-AAGAGCTTAATCAT
* * * * * * * *
12740516 AGATTACCAGTCCAGGCTAAATCC-AGACTTTAACATATGCTCAAAG-GCTCAATTAG
1 -GATTACCAGTCCAGGCTAAATCCTA-TCTGTAACAAATACTCTAAGAGCTTAATCAT
* * * * * * *
12740572 GATTACCAATCCAGGCTAAATCCTAAT-TGCAACATATGCTC-GAGAGGCTTGTATCAG
1 GATTACCAGTCCAGGCTAAATCCT-ATCTGTAACAAATACTCTAAGA-GCTT-AATCAT
*
12740629 GATTACTAGTCCAGGCTAAATC
1 GATTACCAGTCCAGGCTAAATC
12740651 GTTTCGATAA
Statistics
Matches: 151, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
54 2 0.01
55 40 0.26
56 43 0.28
57 66 0.44
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (56 bp):
GATTACCAGTCCAGGCTAAATCCTATCTGTAACAAATACTCTAAGAGCTTAATCAT
Found at i:12755462 original size:28 final size:28
Alignment explanation
Indices: 12755421--12755499 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
12755411 GCAATCAAAT
* * *
12755421 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
12755449 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
12755477 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
12755500 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:12757492 original size:28 final size:28
Alignment explanation
Indices: 12757461--12757725 Score: 198
Period size: 28 Copynumber: 9.5 Consensus size: 28
12757451 GTGAACATAG
* * *
12757461 GCACTGTGTGTGTGAGTTCCATAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
* ** *
12757489 GCACTGTGTGTGCGAGAT-CGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
*
12757516 GGCA---TGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
* * ** *
12757542 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
* *
12757570 GGCACTGTGTGTGCGAGTTTCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
* ** *
12757599 GCACTGTGTGTGCGAGAT-CGATTGTTGA
1 GCACTGTGTGTGCGAGTTCCG-TAATCGA
*
12757627 GGCACTGTGTGTGCGAGTTTCGTAATCGA
1 -GCACTGTGTGTGCGAGTTCCGTAATCGA
* * ** *
12757656 GCACTGTGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAATCGA
* * *
12757684 GACACTGTGTGTGTGAGTTCCGTAACCAA
1 G-CACTGTGTGTGCGAGTTCCGTAATCGA
12757713 GCACTGTGTGTGC
1 GCACTGTGTGTGC
12757726 AAGATCGGTT
Statistics
Matches: 178, Mismatches: 49, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
25 14 0.08
26 5 0.03
27 6 0.03
28 89 0.50
29 62 0.35
30 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAATCGA
Found at i:12757756 original size:57 final size:57
Alignment explanation
Indices: 12757459--12757755 Score: 440
Period size: 57 Copynumber: 5.2 Consensus size: 57
12757449 AAGTGAACAT
* *
12757459 AGGCACTGTGTGTGTGAGTTCCATAACCGAGCACTGTGTGTGCGAGATC-GTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
12757515 AGGCA---TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
12757569 AGGCACTGTGTGTGCGAGTTTCGTAACCGAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
12757626 AGGCACTGTGTGTGCGAGTTTCGTAATCGAGCACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * * *
12757683 AGACACTGTGTGTGTGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
12757740 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
12757756 AAATGAGATC
Statistics
Matches: 219, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
53 39 0.18
54 12 0.05
56 5 0.02
57 156 0.71
59 7 0.03
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:12762734 original size:28 final size:28
Alignment explanation
Indices: 12762694--12762772 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
12762684 GCAATCAAAT
* * *
12762694 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
12762722 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
12762750 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
12762773 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:12767564 original size:3 final size:3
Alignment explanation
Indices: 12767558--12767590 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12767548 CCACCACCAC
12767558 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
12767591 AAGAATCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:12770719 original size:19 final size:19
Alignment explanation
Indices: 12770688--12770748 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
12770678 TTAAAACAAT
12770688 TTTAACTTTGATTGAAAATG
1 TTTAAC-TTGATTGAAAATG
12770708 TTTAACTTGATTGAAACCAT-
1 TTTAACTTGATTGAAA--ATG
12770728 TTTAACTTGATT-AAAA-G
1 TTTAACTTGATTGAAAATG
12770745 TTTA
1 TTTA
12770749 TTCAAAAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.13
19 13 0.34
20 18 0.47
21 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (19 bp):
TTTAACTTGATTGAAAATG
Found at i:12771562 original size:2 final size:2
Alignment explanation
Indices: 12771555--12771581 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12771545 CTTGAAAATA
12771555 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 A
12771582 ATTTCTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12783684 original size:24 final size:24
Alignment explanation
Indices: 12783656--12783705 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
12783646 TTATCCTATT
12783656 AGGATATCTCAAAACTTTATTTGC
1 AGGATATCTCAAAACTTTATTTGC
12783680 AGGATATCTCAAAACTTTATTTGC
1 AGGATATCTCAAAACTTTATTTGC
12783704 AG
1 AG
12783706 CTCTCCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (24 bp):
AGGATATCTCAAAACTTTATTTGC
Found at i:12786954 original size:18 final size:18
Alignment explanation
Indices: 12786814--12786960 Score: 52
Period size: 18 Copynumber: 8.2 Consensus size: 18
12786804 ATCTTTGCGA
*
12786814 AGCTCGCATGTTT-GATG
1 AGCTCGCAAGTTTGGATG
* * * *
12786831 AGCTCGTAATTTTGGTTA
1 AGCTCGCAAGTTTGGATG
*
12786849 AGCTCGC-AGCTTTCGATG
1 AGCTCGCAAG-TTTGGATG
* * **
12786867 AACTTGCAA-TTATGTTTG
1 AGCTCGCAAGTT-TGGATG
** * *
12786885 AGCTCATAACTTTGAATG
1 AGCTCGCAAGTTTGGATG
* *
12786903 AGCTCG-TAGTTTTCGATG
1 AGCTCGCAAG-TTTGGATG
* *
12786921 AGCTCACATA-TCTGGATG
1 AGCTCGCA-AGTTTGGATG
*
12786939 AGCTCGCAAGTTTGGATA
1 AGCTCGCAAGTTTGGATG
12786957 AGCT
1 AGCT
12786961 AACAACTTTG
Statistics
Matches: 88, Mismatches: 33, Indels: 17
0.64 0.24 0.12
Matches are distributed among these distances:
17 15 0.17
18 69 0.78
19 3 0.03
20 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (18 bp):
AGCTCGCAAGTTTGGATG
Found at i:12789852 original size:30 final size:32
Alignment explanation
Indices: 12789818--12789877 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
12789808 CAAAATATTA
*
12789818 TTTTAGTTTTT-CATTTA-ATTTTTTTGTCTC
1 TTTTAGTTTTTAAATTTATATTTTTTTGTCTC
*
12789848 TTTTAGTTTTTAAATTTATGTTTTTTTGTC
1 TTTTAGTTTTTAAATTTATATTTTTTTGTC
12789878 AAATCACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 11 0.42
31 5 0.19
32 10 0.38
ACGTcount: A:0.15, C:0.07, G:0.08, T:0.70
Consensus pattern (32 bp):
TTTTAGTTTTTAAATTTATATTTTTTTGTCTC
Found at i:12794213 original size:19 final size:18
Alignment explanation
Indices: 12794191--12794233 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
12794181 TTTTAATTTA
12794191 TTTTTAATTCTTTTAGAATTT
1 TTTTTAA-T-TTTTAGAA-TT
*
12794212 TTTTTAATTTTTAGGATT
1 TTTTTAATTTTTAGAATT
12794230 TTTT
1 TTTT
12794234 AAAGTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 1 0.05
21 7 0.33
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTTTAATTTTTAGAATT
Found at i:12794222 original size:10 final size:10
Alignment explanation
Indices: 12794181--12794223 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
12794171 ATTTTTATTA
12794181 TTTTAATTTAT
1 TTTTAATTT-T
12794192 TTTTAATTCTT
1 TTTTAATT-TT
**
12794203 TTAGAATTTT
1 TTTTAATTTT
12794213 TTTTAATTTT
1 TTTTAATTTT
12794223 T
1 T
12794224 AGGATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 11 0.41
11 15 0.56
12 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:12794654 original size:20 final size:22
Alignment explanation
Indices: 12794620--12794660 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
12794610 ACAACAGCCT
12794620 TCTCACAATTCTCTCTAAATTC
1 TCTCACAATTCTCTCTAAATTC
*
12794642 TCTC-CAATT-TCTCTCAATT
1 TCTCACAATTCTCTCTAAATT
12794661 TTTGTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (22 bp):
TCTCACAATTCTCTCTAAATTC
Found at i:12794683 original size:22 final size:22
Alignment explanation
Indices: 12794657--12794709 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
12794647 AATTTCTCTC
*
12794657 AATTTTTGTC-AAAGCTCTCTTT
1 AATTTTTG-CAAAAGCTCTATTT
12794679 AATTTTTGCAAAAAAGCTCTATTT
1 AATTTTTGC--AAAAGCTCTATTT
12794703 AATTTTT
1 AATTTTT
12794710 TTTGAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
24 18 0.67
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (22 bp):
AATTTTTGCAAAAGCTCTATTT
Found at i:12795271 original size:14 final size:16
Alignment explanation
Indices: 12795240--12795273 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
12795230 AGTCTTTGTG
12795240 TATTATTTTTATATTA
1 TATTATTTTTATATTA
12795256 TATTA-TTTTA-ATTA
1 TATTATTTTTATATTA
12795270 TATT
1 TATT
12795274 GTAATGACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTATTTTTATATTA
Found at i:12795425 original size:15 final size:16
Alignment explanation
Indices: 12795397--12795434 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
12795387 GTTGCATTGG
*
12795397 AATTATTATTTTAAAT
1 AATTATTATATTAAAT
12795413 AATT-TTATATTAAAT
1 AATTATTATATTAAAT
*
12795428 ATTTATT
1 AATTATT
12795435 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTATATTAAAT
Found at i:12797074 original size:3 final size:3
Alignment explanation
Indices: 12797066--12797135 Score: 61
Period size: 3 Copynumber: 23.7 Consensus size: 3
12797056 TAATTTTAAC
* * * * *
12797066 ATT ATT ATT TTT ATT ATT ACT ATT -TT TTT ACT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
12797113 ACT ACT ATT ATT ATA ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
12797136 AGTATTTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12797095 original size:17 final size:18
Alignment explanation
Indices: 12797068--12797109 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
12797058 ATTTTAACAT
*
12797068 TATTATTTTTATTATTAC
1 TATTATTTTTACTATTAC
*
12797086 TATT-TTTTTACTATTAT
1 TATTATTTTTACTATTAC
12797103 TATTATT
1 TATTATT
12797110 ATCACTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATTTTTACTATTAC
Found at i:12798033 original size:155 final size:155
Alignment explanation
Indices: 12797572--12798033 Score: 836
Period size: 154 Copynumber: 3.0 Consensus size: 155
12797562 AATTTTATTA
* *
12797572 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCACTGGTTATTTTAAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCATTAGTTATTTTAAAA
12797637 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
66 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
*
12797702 TTCGTTCTCGTTTTCCTTGTTATAT
131 TTCGTTCTCGTTTTCCTTGTTGTAT
* * *
12797727 TTGTTAAACCCTTTTTTTCACATGATTGTTATTTTTTTACTTGATTACCATTAGTTATTTTAAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCATTAGTTATTTTAAAA
*
12797792 -TTTGAATTTCTTAGCTTGCTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
66 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
*
12797856 TTCGTTCTCGTTTTCCTCGTTGTAT
131 TTCGTTCTCGTTTTCCTTGTTGTAT
*
12797881 TTGTTAAACCATTTTTTTCACATGATCGTTATTTATTTACTCGATTACCATTAGTTATTTTAAAA
1 TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCATTAGTTATTTTAAAA
12797946 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
66 TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
12798011 TTCGTTCTCGTTTTCCTTGTTGT
131 TTCGTTCTCGTTTTCCTTGTTGT
12798034 TGCTTAACGC
Statistics
Matches: 292, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
154 147 0.50
155 145 0.50
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.56
Consensus pattern (155 bp):
TTGTTAAACCCTTTTTTTCACATGATCGTTATTTATTTACTCGATTACCATTAGTTATTTTAAAA
TTTTGAATTTCTTAGCTTACTTATTATTTTTTCCTTTTTATGATTAATTTGATTCATTTTATTCG
TTCGTTCTCGTTTTCCTTGTTGTAT
Found at i:12799717 original size:11 final size:11
Alignment explanation
Indices: 12799703--12799742 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
12799693 ATTTTCTCCC
12799703 TATTTTGCTAT
1 TATTTTGCTAT
*
12799714 TATTTTACTAT
1 TATTTTGCTAT
* *
12799725 TATGTTGCTAC
1 TATTTTGCTAT
12799736 TATTTTG
1 TATTTTG
12799743 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:12799979 original size:12 final size:12
Alignment explanation
Indices: 12799958--12799991 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12799948 TATATATTTT
*
12799958 AAAATTATATAA
1 AAAATAATATAA
12799970 AAAATAATATAA
1 AAAATAATATAA
*
12799982 AAATTAATAT
1 AAAATAATAT
12799992 GGGCGGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:12800357 original size:45 final size:45
Alignment explanation
Indices: 12800262--12800473 Score: 223
Period size: 45 Copynumber: 4.7 Consensus size: 45
12800252 AGGTAGAGGG
* * * *
12800262 TATATATAACAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACA
1 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACAT--A
* * *
12800309 TATATATAATATTTGTCGGTTTCACCAACTAGTGTTGGGCACATA
1 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
* * * * *
12800354 TATATAGT-A-A-TTGTCGATTTTACCGACCAGTGCTGGGCACAAA
1 TATATA-TAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
* **
12800397 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTTGGCACACG
1 TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
* *
12800442 TATATGTAATATTTGTTGGTTTCACCAACTAG
1 TATATATAATATTTGTTGGTTTCACCGACTAG
12800474 CGCTAGGTGC
Statistics
Matches: 139, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 34 0.24
44 2 0.01
45 64 0.46
46 1 0.01
47 37 0.27
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (45 bp):
TATATATAATATTTGTTGGTTTCACCGACTAGTGCTGGGCACATA
Found at i:12800366 original size:90 final size:89
Alignment explanation
Indices: 12800262--12800467 Score: 265
Period size: 90 Copynumber: 2.3 Consensus size: 89
12800252 AGGTAGAGGG
*
12800262 TATATATAACAATTGTTAGTTTCACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCG
1 TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACA-A-ATATATATAATATTTGTCG
12800327 GTTTCACCAACTAGTG-TTGGGCACA-
64 GTTTCACCAACTAGTGCTT-GGCACAC
* * * *
12800352 TATATATAGTAATTG-TCGATTTTACCGACCAGTGCTGGGCACAAATATATATAATATTTGTTGG
1 TATATATAATAATTGTTAG-TTTCACCGACCAGTGCTGGGCACAAATATATATAATATTTGTCGG
*
12800416 TTTCACCGACTAGTGCTTGGCACAC
65 TTTCACCAACTAGTGCTTGGCACAC
* * *
12800441 GTATATGTAATATTTGTTGGTTTCACC
1 -TATATATAATAATTGTTAGTTTCACC
12800468 AACTAGCGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
88 39 0.39
89 5 0.05
90 54 0.54
91 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (89 bp):
TATATATAATAATTGTTAGTTTCACCGACCAGTGCTGGGCACAAATATATATAATATTTGTCGGT
TTCACCAACTAGTGCTTGGCACAC
Found at i:12800446 original size:88 final size:89
Alignment explanation
Indices: 12800285--12800451 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 89
12800275 TGTTAGTTTC
12800285 ACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCGGTTTCACCAACTAGTGTTGGGCA
1 ACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCGGTTTCACCAACTAGTGTTGGGCA
*
12800350 CATATATATAGTAATTGTCGATTTT
66 CACATATAT-GTAATTGTCGATTTT
* *
12800375 ACCGACCAGTGCTGGGCACA-A-ATATATATAATATTTGTTGGTTTCACCGACTAGTGCTT-GGC
1 ACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCGGTTTCACCAACTAGTG-TTGGGC
*
12800437 ACACGTATATGTAAT
65 ACACATATATGTAAT
12800452 ATTTGTTGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
87 5 0.07
88 44 0.61
89 3 0.04
90 20 0.28
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (89 bp):
ACCGACCAGTGCTGGGCACATACATATATATAATATTTGTCGGTTTCACCAACTAGTGTTGGGCA
CACATATATGTAATTGTCGATTTT
Found at i:12804273 original size:51 final size:52
Alignment explanation
Indices: 12804170--12804274 Score: 176
Period size: 51 Copynumber: 2.0 Consensus size: 52
12804160 AAAAAAAAAA
12804170 GATAAAATTGAGTTTTGACTAAATTTTGTGAAAAGGCCATTCCAGTAAGCTTG
1 GATAAAATTGAGTTTTGACTAAA-TTTGTGAAAAGGCCATTCCAGTAAGCTTG
* *
12804223 GATAAAATTGAGTTTTGACTAAA-TTGTGAAAGGGCCATTCCAGTAGGCTTG
1 GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
12804274 G
1 G
12804275 CTTGCCAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 27 0.54
53 23 0.46
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (52 bp):
GATAAAATTGAGTTTTGACTAAATTTGTGAAAAGGCCATTCCAGTAAGCTTG
Found at i:12806438 original size:49 final size:47
Alignment explanation
Indices: 12806371--12806481 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 47
12806361 AGTGATAATT
*
12806371 TTAAATTTTCAATACTATTCGATATTTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATA-TTTTATTAATTTATGC-AATTATAA
* * *
12806420 TTAAATTTGCAATTCTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
12806468 TTAAAATTTCAATA
1 TT-AAATTTCAATA
12806482 TTGCTTGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
47 4 0.07
48 26 0.48
49 24 0.44
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:12806490 original size:48 final size:46
Alignment explanation
Indices: 12806396--12806504 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 46
12806386 TATTCGATAT
* *
12806396 TTTTTTTAATTTATGCAAATTTAATTAAATTTGCAATTCTATTTGA
1 TTTTTTTCATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGA
*
12806442 TATTTTATTCATTTATGC-AATTATAATTAAAATTT-CAATAT-TGCTTGA
1 T-TTTT-TTCATTTATGCAAATT-TAATT-AAATTTGCAAT-TCTACTTGA
*
12806490 TTTTTTTTATTTATG
1 TTTTTTTCATTTATG
12806505 ATGTTTGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
46 10 0.19
47 12 0.22
48 25 0.46
49 7 0.13
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (46 bp):
TTTTTTTCATTTATGCAAATTTAATTAAATTTGCAATTCTACTTGA
Found at i:12808951 original size:34 final size:30
Alignment explanation
Indices: 12808891--12808992 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 30
12808881 TATTATGTAA
* *
12808891 TATTTCTATTTTAAAATTT-TCTTTATACAT
1 TATTTTTATTTTAAAATTTAT-ATTATACAT
*
12808921 GTATTTTTGTTTTCAAAATTTATACATTATACAT
1 -TATTTTTATTTT-AAAATTTAT--ATTATACAT
*
12808955 TATATATTATTTTAAAATTTATATTATACAT
1 TAT-TTTTATTTTAAAATTTATATTATACAT
12808986 TATTTTT
1 TATTTTT
12808993 TATATATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.05
31 22 0.36
32 7 0.11
33 13 0.21
34 16 0.26
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTTATTTTAAAATTTATATTATACAT
Found at i:12809029 original size:14 final size:14
Alignment explanation
Indices: 12808955--12809029 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
12808945 CATTATACAT
12808955 TATATATTATTTTA
1 TATATATTATTTTA
* *
12808969 -AAAT-TTATATTA
1 TATATATTATTTTA
*
12808981 TACATTATT-TTTTA
1 TATA-TATTATTTTA
*
12808995 TATATATTA-TTGA
1 TATATATTATTTTA
*
12809008 TTTCATATTATTTTA
1 TAT-ATATTATTTTA
*
12809023 TGTATAT
1 TATATAT
12809030 ATCACTTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
12 7 0.15
13 14 0.30
14 18 0.39
15 7 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (14 bp):
TATATATTATTTTA
Found at i:12813792 original size:19 final size:18
Alignment explanation
Indices: 12813752--12813799 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
12813742 AAAGGCATCC
12813752 AAAAAGAAAAAAAGTACAA
1 AAAAAGAAAAAAAGTA-AA
*
12813771 AAATAGAAAAAAAG-AAA
1 AAAAAGAAAAAAAGTAAA
12813788 GAAAAAGGAAAA
1 -AAAAA-GAAAA
12813800 GCAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 5 0.20
19 18 0.72
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAAAAGTAAA
Found at i:12814369 original size:14 final size:14
Alignment explanation
Indices: 12814342--12814422 Score: 67
Period size: 14 Copynumber: 5.5 Consensus size: 14
12814332 TTGAGACCTA
**
12814342 AAAAAAATTGAAAT
1 AAAAAAATAAAAAT
12814356 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
*
12814370 CAAAACAAA-AAAATGT
1 -AAAA-AAATAAAA-AT
12814386 AAAAAAA-AGGGAAAAT
1 AAAAAAATA---AAAAT
12814402 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
12814416 AAAAAAA
1 AAAAAAA
12814423 AGAGGAAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
14 28 0.50
15 12 0.21
16 12 0.21
17 4 0.07
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:12815480 original size:16 final size:16
Alignment explanation
Indices: 12815459--12815494 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
12815449 ATACCTTAAG
*
12815459 CATTTAAAAAAAAGAT
1 CATTTAAAAAAAAGAA
12815475 CATTTAAAAAAAAGAA
1 CATTTAAAAAAAAGAA
12815491 CATT
1 CATT
12815495 CTCATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (16 bp):
CATTTAAAAAAAAGAA
Found at i:12815604 original size:64 final size:64
Alignment explanation
Indices: 12815525--12815715 Score: 276
Period size: 63 Copynumber: 3.0 Consensus size: 64
12815515 TCATTCATAA
*
12815525 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
* * * *
12815589 CACATCTAGTTAGGAGCATTTGATTCATTTTGA-CATTGCGTCCTAATTATTTAACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
* * * * * *
12815652 CACATCTGGTTAGGAGTATTGGATTTATTTTGATCACAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
12815716 GATACATGAA
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
63 56 0.50
64 55 0.50
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
Found at i:12815935 original size:45 final size:44
Alignment explanation
Indices: 12815784--12816084 Score: 130
Period size: 44 Copynumber: 6.7 Consensus size: 44
12815774 AAGTCAGATT
* * ** * * *
12815784 TTATATCCCTGAAGTTGTAGTGGAATAGA-TCGAAGATTAAAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-ATGACAAATC
* ** ** *
12815829 TTATGTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATGACAGGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGACAAATC
* *
12815873 TTATCTCCCTGGAGTTGCAATGGAGCAGACTGTAAAT-AGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AAATGA-CAAATC
* * * * *
12815918 TTATTTCCCTGAAGTTGCAGTGGAACAGACCGAATCTATAAATAAACAGATC
1 TTATCTCCCTGAAGTTGCAGTGG---AG-CAG-A-CT-GAAAT-GACAAATC
** * * * * * *
12815970 TTATCTTTCTGAAGTTGCAATAGAGTAGA-TCATA-G-CAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGACAAATC
* **
12816011 TTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGA-GACAGGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAA-ATGACAAATC
* *
12816055 TTATTTCCCTGAAGTTTCAGTGGAGCAGAC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGAC
12816085 CAAAGACGGC
Statistics
Matches: 189, Mismatches: 50, Indels: 35
0.69 0.18 0.13
Matches are distributed among these distances:
40 1 0.01
41 26 0.14
42 2 0.01
43 2 0.01
44 62 0.33
45 56 0.30
46 1 0.01
47 1 0.01
48 3 0.02
49 4 0.02
50 1 0.01
51 6 0.03
52 23 0.12
53 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGACAAATC
Found at i:12816367 original size:177 final size:177
Alignment explanation
Indices: 12816073--12816841 Score: 978
Period size: 177 Copynumber: 4.4 Consensus size: 177
12816063 CTGAAGTTTC
* * * * * * *
12816073 AGTGGAGCAGACCAAAGACGGCAAATCTTGTCTACATGTATCGACAATTGAGCAGATTT-TGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* ** *
12816137 CTGGCCTTATCTCTCTGAGGTAACAAGAGAGCATATTGGC-AGTTGTAGTCTTATCTTCCTGAGG
66 CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGA-TTGTAGTCTTATCTTCCTGAGG
12816201 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAAT
130 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAAT
* * * *
12816249 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTCTATGTATTGGCAATGGAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * *
12816314 CTAGCCTTATCTGC-CTGAGTTAGCAAGAGAGCAGTTTGACGATTATAGTCTTATCTTCCTGAGG
66 CTAGCCTTATCT-CTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGG
* *
12816378 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCAAAGCAGT
130 TAGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAAT
* * *
12816426 AGTGGAGCGGATCAAAGATGGCAAATCTTATCTCCATGTATCGACAATGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * * *
12816491 C-AGCCTTATCTCTCTGAGGCAGCAAGAGAGTAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGT
66 CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
* * *
12816554 AGCAAA-AAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGT
131 AG-AAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAAT
* * ** *
12816601 AGTGGAGCAAATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
* * * * * *
12816666 CCAGCCTTATCTTTCTAAGGTAACAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGAT
66 CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
** * * *
12816731 ATCAAGGAAGCAGATTGAAGATTGAATATC-TATTTCCCTAAGCAAT
131 AGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAAT
* * ** *
12816777 AGTGGGGCAGATCAAGGATGG-AAATCTTATCTCTGTGTATCGGCAATGGAGCAAATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
12816841 C
66 C
12816842 CAGTCCTATT
Statistics
Matches: 515, Mismatches: 70, Indels: 17
0.86 0.12 0.03
Matches are distributed among these distances:
175 156 0.30
176 157 0.30
177 200 0.39
178 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (177 bp):
AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCA
CTAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGACGATTGTAGTCTTATCTTCCTGAGGT
AGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAAT
Found at i:12816655 original size:352 final size:352
Alignment explanation
Indices: 12816073--12816841 Score: 1028
Period size: 352 Copynumber: 2.2 Consensus size: 352
12816063 CTGAAGTTTC
* * * * *
12816073 AGTGGAGCAGACCAAAGACGGCAAATCTTGTCTACATGTATCGACAATTGAGCAGATTT-TGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGACAA-TGAGCAGATTTAAGCCA
* * * *
12816137 CTGGCCTTATCTCTCTGAGGTAACAAGAGAGCATATTGGCAGTTGTAGTCTTATCTTCCTGAGGT
65 CTAGCCTTATCTCTCTGAGGCAACAAGAGAGCAGATTGGAAGTTGTAGTCTTATCTTCCTGAGGT
* * *
12816202 AGAAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGA
130 AGAAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAAGA
* * * *
12816267 TGGCGAATCTTATCTCTATGTATTGGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTGCCTGA
195 TGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTGCCTAA
* * * *
12816332 GTTAGCAAGAGAGCAGTTTGACGATTATAGTCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGA
260 GGTAACAAGAGAGCAGGTTGACGATTATAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGA
*
12816397 AGATTGAAGATCTTATCTCCCAAAGCAGT
325 AGATTGAAGATC-TATCTCCCAAAGCAAT
*
12816426 AGTGGAGCGGATCAAAGATGGCAAATCTTATCTCCATGTATCGACAATGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGACAATG-AGCAGATTTAAGCCA
* * * *
12816491 C-AGCCTTATCTCTCTGAGGCAGCAAGAGAGTAGGTT-GAAGATTG-AGTCTTATCTTTCTGAGG
65 CTAGCCTTATCTCTCTGAGGCAACAAGAGAGCAGATTGGAAG-TTGTAGTCTTATCTTCCTGAGG
*
12816553 TAGCAAA-AAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAA
129 TAG-AAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAA
* * **
12816617 GATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTTTCT
193 GATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTGCCT
* * * ** *
12816682 AAGGTAACAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGATATCAAGGAAGCAGATT
258 AAGGTAACAAGAGAGCAGGTTGACGATTATAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACT
* * *
12816747 GAAGATTGAATATCTATTTCCCTAAGCAAT
323 GAAGATTGAAGATCTATCTCCCAAAGCAAT
* * ** * *
12816777 AGTGGGGCAGATCAAGGATGG-AAATCTTATCTCTGTGTATCGGCAATGGAGCAAATTTAAGCCA
1 AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGACAAT-GAGCAGATTTAAGCCA
12816841 C
65 C
12816842 CAGTCCTATT
Statistics
Matches: 364, Mismatches: 47, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
350 38 0.10
351 32 0.09
352 203 0.56
353 86 0.24
354 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (352 bp):
AGTGGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGACAATGAGCAGATTTAAGCCAC
TAGCCTTATCTCTCTGAGGCAACAAGAGAGCAGATTGGAAGTTGTAGTCTTATCTTCCTGAGGTA
GAAAGAAAGCAGACTAAAGATTGAAGATCTTATCTCCCTAAGCAATAGTGGAGCAAATCGAAGAT
GGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTGCCTAAG
GTAACAAGAGAGCAGGTTGACGATTATAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAA
GATTGAAGATCTATCTCCCAAAGCAAT
Found at i:12818407 original size:31 final size:30
Alignment explanation
Indices: 12818372--12818477 Score: 110
Period size: 31 Copynumber: 3.4 Consensus size: 30
12818362 TATTATGTAA
*
12818372 TATTTCTATTTTAAAATTT-TCTTTATACAT
1 TATTT-TATTTTAAAATTTATCATTATACAT
*
12818402 GTATTTTTGTTTTCAAAATTTATACATTATACAT
1 -TA-TTTTATTTT-AAAATTTAT-CATTATACAT
12818436 TATATATTATTTTAAAATTTAT-ATTATACAT
1 TAT-T-TTATTTTAAAATTTATCATTATACAT
12818467 TATTTT-TTTTA
1 TATTTTATTTTA
12818478 TATATATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
28 5 0.08
29 2 0.03
30 1 0.02
31 19 0.29
32 11 0.17
33 13 0.20
34 15 0.23
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTATTTTAAAATTTATCATTATACAT
Found at i:12824545 original size:7 final size:7
Alignment explanation
Indices: 12824533--12824565 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
12824523 TAATCGTTTC
12824533 GTATTTA
1 GTATTTA
12824540 GTATTTA
1 GTATTTA
12824547 GTATTTA
1 GTATTTA
12824554 GTATTTA
1 GTATTTA
12824561 GTATT
1 GTATT
12824566 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:12825182 original size:18 final size:18
Alignment explanation
Indices: 12825159--12825197 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12825149 ATGCCAGGTG
*
12825159 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
12825177 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
12825195 TGT
1 TGT
12825198 TTCATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:12828991 original size:125 final size:126
Alignment explanation
Indices: 12828663--12829042 Score: 600
Period size: 126 Copynumber: 3.0 Consensus size: 126
12828653 TTATATCCTC
*
12828663 ATTTTTCTACGAACCACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * * *
12828728 ACAGTGCATCCTACTTGAAGAGTTTTCGACACTATTTGTTCAGAAATGTCTACTTATAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * *
12828789 ATTTTTCTACAAACAACTGTAGCAAAAGAGCGTCCATGTGGAAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
12828854 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTATTCAGAAA-GTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* * * * *
12828914 ATTTTCCTACGAACTACTATAGCAAAAGAGTGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTA
1 ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
12828979 ACAGTGCATCCTGCTTGAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
12829040 ATT
1 ATT
12829043 CTTGCAGAAA
Statistics
Matches: 232, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 112 0.48
126 120 0.52
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACGAACAACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:12829596 original size:19 final size:19
Alignment explanation
Indices: 12829574--12829655 Score: 107
Period size: 19 Copynumber: 4.4 Consensus size: 19
12829564 ACCATTATGT
12829574 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
12829593 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAA-TTA
* *
12829613 ATCAATTAACCTTAATTTA
1 ATCAATTAACCCTAAATTA
*
12829632 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAAATTA
12829648 ATCAATTA
1 ATCAATTA
12829656 TTCTTAATAC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
16 14 0.25
17 1 0.02
18 1 0.02
19 24 0.42
20 17 0.30
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:12829653 original size:35 final size:38
Alignment explanation
Indices: 12829574--12829655 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 38
12829564 ACCATTATGT
12829574 ATCAATTAACCCTAAATTAATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTAATCAATT-ACCCTAAATTTA
* *
12829613 ATCAATTAACCTTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAAATTAATCAATTACCCTAAATTTA
12829648 ATCAATTA
1 ATCAATTA
12829656 TTCTTAATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 14 0.34
36 4 0.10
38 1 0.02
39 22 0.54
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (38 bp):
ATCAATTAACCCTAAATTAATCAATTACCCTAAATTTA
Found at i:12829786 original size:22 final size:22
Alignment explanation
Indices: 12829753--12829802 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
12829743 ACCTTAAACT
* *
12829753 TAAACCCTAAAAACCCT-AGCC
1 TAAATCCTAAAAACCCTAACCC
*
12829774 TAAATCCTAAAAAACTCTAACCC
1 TAAATCCT-AAAAACCCTAACCC
12829797 TAAATC
1 TAAATC
12829803 AATTAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.29
22 8 0.33
23 9 0.38
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAATCCTAAAAACCCTAACCC
Found at i:12837567 original size:12 final size:12
Alignment explanation
Indices: 12837536--12837560 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12837526 TTGTGTGTTC
12837536 TTTATTTTATTT
1 TTTATTTTATTT
12837548 TTTATTTTATTT
1 TTTATTTTATTT
12837560 T
1 T
12837561 ATTTTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:12847426 original size:26 final size:22
Alignment explanation
Indices: 12847363--12847408 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
12847353 CTAGGAGTCA
12847363 TTAATTTGATCAATTAAGCTTG
1 TTAATTTGATCAATTAAGCTTG
12847385 TTAATTTGATCAATTAAGCTTG
1 TTAATTTGATCAATTAAGCTTG
12847407 TT
1 TT
12847409 TTAAATGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (22 bp):
TTAATTTGATCAATTAAGCTTG
Found at i:12848540 original size:24 final size:22
Alignment explanation
Indices: 12848491--12848532 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
12848481 TATTTAAACT
12848491 TATTTTTTTCATAAATGGTACC
1 TATTTTTTTCATAAATGGTACC
12848513 TATTTTTTTC-TCAAATGGTA
1 TATTTTTTTCAT-AAATGGTA
12848533 GCTCTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (22 bp):
TATTTTTTTCATAAATGGTACC
Found at i:12850326 original size:47 final size:47
Alignment explanation
Indices: 12850267--12850389 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
12850257 GCATTGGCAC
*
12850267 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
12850314 TAAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
12850361 TAAGACAAGGATATCATGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
12850390 CAAGGCATGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:12850431 original size:54 final size:54
Alignment explanation
Indices: 12850367--12850584 Score: 235
Period size: 54 Copynumber: 4.0 Consensus size: 54
12850357 TTGGTAAGAC
* *
12850367 AAGGATATCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
* * * *
12850421 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTATTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGG-A
* * * * * *
12850477 AAGG-TCCCATGTAAGACCAT-TCTAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATAAGTTCTATAAGGA
* * * * *
12850529 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
12850583 AA
1 AA
12850585 AGGTTCCCGA
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.03
53 38 0.28
54 53 0.38
55 38 0.28
56 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
Found at i:12856938 original size:40 final size:40
Alignment explanation
Indices: 12856877--12857123 Score: 309
Period size: 40 Copynumber: 6.2 Consensus size: 40
12856867 CGGAATTTAG
* * * *
12856877 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
12856917 CCGGGT-ATAGCAACTCGCACAAATGCCTTCAGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
12856957 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
12856997 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
12857037 CCGGATAAAATCACTAGCATAAATGCCTTCAGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
12857077 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
12857117 CCGGATA
1 CCGGATA
12857124 TCATTCAAAT
Statistics
Matches: 184, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 178 0.97
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:12857097 original size:120 final size:120
Alignment explanation
Indices: 12856864--12857123 Score: 346
Period size: 120 Copynumber: 2.2 Consensus size: 120
12856854 ACCCAAGTTT
* * * * * *
12856864 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAGC
* * * *
12856928 AACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTAGCACAAATGCCTTCAGGTCTTAACCCGGATAAATCAACTAGCACAAATGC
* * * *
12856983 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGAT-AAAG
*
12857048 C-ACTAGCATAAATGCCTTCAGGTCTTAACCCGGATAAAATC-ACTAGCACAAATGC
65 CAACTAGCACAAATGCCTTCAGGTCTTAACCCGGAT-AAATCAACTAGCACAAATGC
12857103 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
12857124 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
119 10 0.08
120 105 0.86
121 7 0.06
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAGC
AACTAGCACAAATGCCTTCAGGTCTTAACCCGGATAAATCAACTAGCACAAATGC
Found at i:12860014 original size:40 final size:38
Alignment explanation
Indices: 12859923--12860018 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 38
12859913 CCAACTCTGA
* *
12859923 CCAACCCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCATATGGGGATAAAATCGACCCAC
* * * * *
12859961 CCATCTCTGCACACCGTATATGGGGATACAATCGACCCAT
1 CCAACCCTACACACC--ATATGGGGATAAAATCGACCCAC
12860001 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
12860019 AAGTACCGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
38 14 0.30
40 32 0.70
ACGTcount: A:0.33, C:0.38, G:0.14, T:0.16
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAAAATCGACCCAC
Found at i:12867173 original size:40 final size:37
Alignment explanation
Indices: 12867081--12867177 Score: 95
Period size: 40 Copynumber: 2.5 Consensus size: 37
12867071 ACCAACTCCG
* *
12867081 ACCAACCCAACACACCATGTGAGGATAAAATCGACCC
1 ACCAACCCTACACACCATATGAGGATAAAATCGACCC
* * * * *
12867118 ACTCATCCTTGCACACCGTATATGGGGATATAATCGACCC
1 AC-CAACCCTACACACC--ATATGAGGATAAAATCGACCC
12867158 ATCCAACCCTACACACCATA
1 A-CCAACCCTACACACCATA
12867178 AAGTATCGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 2 0.04
38 13 0.28
40 30 0.65
41 1 0.02
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.18
Consensus pattern (37 bp):
ACCAACCCTACACACCATATGAGGATAAAATCGACCC
Found at i:12868181 original size:19 final size:19
Alignment explanation
Indices: 12868138--12868178 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
12868128 ACTAGCAATC
12868138 GAAGAAGAAGAAAAATAGA
1 GAAGAAGAAGAAAAATAGA
12868157 GAAGAAG-AGAAAAATA-A
1 GAAGAAGAAGAAAAATAGA
12868174 GAAGA
1 GAAGA
12868179 GAATTTCGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (19 bp):
GAAGAAGAAGAAAAATAGA
Found at i:12870017 original size:26 final size:26
Alignment explanation
Indices: 12869988--12870097 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
12869978 TGGTACAAAT
*
12869988 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATAGGTTAGGTAAATGTTCCA
12870014 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
12870040 TGATAGTGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
12870066 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
12870092 TGATAA
1 TGATAA
12870098 AAATTCCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:12871819 original size:27 final size:26
Alignment explanation
Indices: 12871715--12871829 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
12871705 TGGAGGAAGC
* *
12871715 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
12871742 GATCTGGTGGCTTTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
*
12871769 GTTTTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
12871796 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
12871823 GTTCTGG
1 GTTCTGG
12871830 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:12886907 original size:18 final size:18
Alignment explanation
Indices: 12886884--12886931 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
12886874 ATGAAAAAGG
12886884 TTATTTATATTAATATTT
1 TTATTTATATTAATATTT
*
12886902 TTATTT-TTTATAATATTT
1 TTATTTATAT-TAATATTT
*
12886920 TTA-ATATATTAA
1 TTATTTATATTAA
12886932 ATCATTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTATATTAATATTT
Found at i:12890037 original size:16 final size:16
Alignment explanation
Indices: 12890013--12890058 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
12890003 ATTTCTTATT
12890013 TAAAT-TATTTTTTTA
1 TAAATATATTTTTTTA
12890028 TAAATATATTTTTTTA
1 TAAATATATTTTTTTA
12890044 TATAATTATATTTTT
1 TA-AA-TATATTTTT
12890059 CATCCACATC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.18
16 12 0.43
17 2 0.07
18 9 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAAATATATTTTTTTA
Found at i:12890047 original size:18 final size:18
Alignment explanation
Indices: 12890008--12890058 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
12889998 ATATCATTTC
*
12890008 TTATTTAAAT-TA-TTTT
1 TTATATAAATATATTTTT
12890024 TT-TATAAATATATTTTT
1 TTATATAAATATATTTTT
*
12890041 TTATATAATTATATTTTT
1 TTATATAAATATATTTTT
12890059 CATCCACATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 6 0.20
16 4 0.13
17 6 0.20
18 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATAAATATATTTTT
Found at i:12898648 original size:23 final size:22
Alignment explanation
Indices: 12898587--12898648 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
12898577 CCTAATCAGT
*
12898587 ATACGACACATAAAGTGACTAA
1 ATACGACACATAAAGTGCCTAA
** *
12898609 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCT-AA
12898631 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
12898649 ATGATCGGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 14 0.45
22 4 0.13
23 13 0.42
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:12899049 original size:15 final size:14
Alignment explanation
Indices: 12899025--12899081 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
12899015 CATATATATT
12899025 ATATAATTCAATCA
1 ATATAATTCAATCA
12899039 ATATGAATTCAATCA
1 ATAT-AATTCAATCA
* *
12899054 AAATAATTTCAGTCA
1 ATATAA-TTCAATCA
12899069 ATATAAATTCAAT
1 ATAT-AATTCAAT
12899082 AAATTCGTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 6 0.17
15 28 0.78
16 2 0.06
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:12899546 original size:16 final size:16
Alignment explanation
Indices: 12899522--12899576 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
12899512 TTTTATTTAT
*
12899522 TTATCATATAAATATC
1 TTATAATATAAATATC
*
12899538 TTATAATATAATTAT-
1 TTATAATATAAATATC
*
12899553 TTA-ATTAATAAATATC
1 TTATAAT-ATAAATATC
*
12899569 TTTTAATA
1 TTATAATA
12899577 ATTAAATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
14 2 0.07
15 10 0.33
16 16 0.53
17 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:12904594 original size:23 final size:22
Alignment explanation
Indices: 12904565--12904616 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
12904555 AGTGACTAAA
*
12904565 ACGACACACGAGGTGCTTG-AT
1 ACGACACACGAGGTGCCTGAAT
12904586 ACGACACACGAGGTGCCTGAAAT
1 ACGACACACGAGGTGCCTG-AAT
12904609 ACGACACA
1 ACGACACA
12904617 TAAAGTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 18 0.64
23 10 0.36
ACGTcount: A:0.35, C:0.27, G:0.25, T:0.13
Consensus pattern (22 bp):
ACGACACACGAGGTGCCTGAAT
Found at i:12905025 original size:15 final size:14
Alignment explanation
Indices: 12905001--12905050 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
12904991 GATATATATT
12905001 ATATAATTCAATCA
1 ATATAATTCAATCA
12905015 ATATGAATTCAATCA
1 ATAT-AATTCAATCA
* * *
12905030 AAAAAATTTCAGTCA
1 ATATAA-TTCAATCA
12905045 ATATAA
1 ATATAA
12905051 ATTAAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.32
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:12905558 original size:17 final size:20
Alignment explanation
Indices: 12905537--12905577 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
12905527 ATTATTTAAC
12905537 TAATAAATATCTTTT-ATAAA
1 TAATAAATATCTTTTAAT-AA
12905557 TAATAAATATCTTTTAATAA
1 TAATAAATATCTTTTAATAA
12905577 T
1 T
12905578 TAAATACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAAATATCTTTTAATAA
Found at i:12906914 original size:13 final size:13
Alignment explanation
Indices: 12906896--12906920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12906886 TCATACTCAC
12906896 AAAATTCCCCAAT
1 AAAATTCCCCAAT
12906909 AAAATTCCCCAA
1 AAAATTCCCCAA
12906921 CTGCTGTGCA
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:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATTCCCCAAT
Found at i:12908424 original size:12 final size:12
Alignment explanation
Indices: 12908402--12908448 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
12908392 TGTTAAGTTT
12908402 TTTAGATTTTGTG
1 TTTAGATTTTG-G
12908415 TTTA-ATTTTGG
1 TTTAGATTTTGG
* **
12908426 TTTTGATTTTCT
1 TTTAGATTTTGG
12908438 TTTAGATTTTG
1 TTTAGATTTTG
12908449 TTAAGTTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 4 0.14
12 20 0.71
13 4 0.14
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.66
Consensus pattern (12 bp):
TTTAGATTTTGG
Found at i:12908446 original size:24 final size:25
Alignment explanation
Indices: 12908401--12908448 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
12908391 TTGTTAAGTT
*
12908401 TTTTAGATTTTGTGTTTAATTTTGG
1 TTTTAGATTTTCTGTTTAATTTTGG
12908426 TTTT-GATTTTCT-TTTAGATTTTG
1 TTTTAGATTTTCTGTTTA-ATTTTG
12908449 TTAAGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.15, C:0.02, G:0.17, T:0.67
Consensus pattern (25 bp):
TTTTAGATTTTCTGTTTAATTTTGG
Found at i:12909575 original size:13 final size:13
Alignment explanation
Indices: 12909557--12909617 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
12909547 AGTTTGGCAA
12909557 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
12909570 TGCTTTTGAGAAA
1 TGCTTTTGAGAAG
* * *
12909583 TGCTGTGGAAAAG
1 TGCTTTTGAGAAG
12909596 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
12909609 TGCTTTTGA
1 TGCTTTTGA
12909618 AAAATTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.25, C:0.08, G:0.30, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:12909584 original size:26 final size:26
Alignment explanation
Indices: 12909555--12909620 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
12909545 CCAGTTTGGC
*
12909555 AATGCTTTTGAGAAGTGCTTTTGAGA
1 AATGCTTTTGAAAAGTGCTTTTGAGA
* *
12909581 AATGCTGTGGAAAAGTGCTTTTGAGA
1 AATGCTTTTGAAAAGTGCTTTTGAGA
*
12909607 AGTGCTTTTGAAAA
1 AATGCTTTTGAAAA
12909621 ATTTAAGTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTGCTTTTGAGA
Found at i:12910996 original size:41 final size:41
Alignment explanation
Indices: 12910896--12911097 Score: 289
Period size: 41 Copynumber: 5.0 Consensus size: 41
12910886 TTTTAAAATA
* * **
12910896 CAGAGCAATAGCGGCGTTTTTCTTAAAACGCCGCTAAAAA-
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
* **
12910936 CAGAGCAATAGCGGCGCTTTTCTTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
* * *
12910977 CAGAGCATTAGCTGTGCTTTTGGTAAAACACCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
12911018 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
* *
12911059 CAGAGCATTAGCTGCGCTTTTGGTAAAACGGCGCTAAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
12911098 GTCATATAAC
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 39 0.26
41 110 0.74
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
Found at i:12915283 original size:53 final size:52
Alignment explanation
Indices: 12915143--12915344 Score: 222
Period size: 52 Copynumber: 4.0 Consensus size: 52
12915133 AACGGAATAG
* *
12915143 ATGTGATATGTG-TACCCGTATAAGACCATAGCAGGGCTATGACATCAGTG-C
1 ATGTGATATGTGAT-CCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTC
* * *
12915194 AATGTGATACGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTC
1 -ATGTGATATGTGATCCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTC
* * *
12915247 ATGTGATAATGTGATCCCGTATAAGACCATATCTGGGATATGGCATC-G-GT-
1 ATGTGAT-ATGTGATCCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTC
* * *
12915297 A--TGATATGTGAT-CCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGT
1 ATGTGATATGTGATCCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGT
12915345 GTGGTGTGTG
Statistics
Matches: 131, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
46 25 0.19
47 8 0.06
48 6 0.05
50 1 0.01
51 2 0.02
52 52 0.40
53 37 0.28
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (52 bp):
ATGTGATATGTGATCCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTC
Found at i:12916185 original size:22 final size:22
Alignment explanation
Indices: 12916143--12916186 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12916133 GTCGTGTGTC
* *
12916143 AAAATTGTGTGAAAATGGTTTA
1 AAAATTGTGTAAAAATAGTTTA
12916165 AAAATTGTG-AAAAATCAGTTTA
1 AAAATTGTGTAAAAAT-AGTTTA
12916187 CCACACAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.34
Consensus pattern (22 bp):
AAAATTGTGTAAAAATAGTTTA
Done.