Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 29 of 126
Found at i:8262559 original size:40 final size:40
Alignment explanation
Indices: 8262421--8262750 Score: 191
Period size: 40 Copynumber: 7.8 Consensus size: 40
8262411 GATCACATCC
*
8262421 AGTCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAAAAGAAATCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCA
* ** * ** *
8262465 A-TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCA
1 AGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA
*
8262506 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA
1 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCA
*
8262548 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CTGAAAAAAAAAACA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-------AATCA
* ** * ** ** *
8262595 A-TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCA
1 AGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA
*
8262636 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA
1 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCA
* * *
8262678 AGTTTTATCTCCCTAAGTAGTAGTGGAGCAGATCGTATCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCA
* ** *
8262718 AGTATTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
8262751 CTAAATCCAC
Statistics
Matches: 222, Mismatches: 43, Indels: 45
0.72 0.14 0.15
Matches are distributed among these distances:
39 1 0.00
40 79 0.36
41 28 0.13
42 10 0.05
43 39 0.18
44 37 0.17
46 11 0.05
47 17 0.08
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCA
Found at i:8262628 original size:130 final size:127
Alignment explanation
Indices: 8262410--8262709 Score: 492
Period size: 130 Copynumber: 2.3 Consensus size: 127
8262400 GGCTGTTACA
* * * * *
8262410 AGATCACATCCAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAAGAAATCAATCCTATCTC
1 AGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAAAAACAATCCTATCTC
*
8262475 CCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
66 CCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
8262537 AGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAAAAAAAACAATCCTAT
1 AGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC---AAAAAAAAACAATCCTAT
*
8262602 CTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
63 CTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* *
8262667 AGATCGCATCAAGTTTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 AGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
8262710 TCGTATCAAG
Statistics
Matches: 161, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
127 41 0.25
130 120 0.75
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (127 bp):
AGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAAAAAAACAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
Found at i:8264334 original size:46 final size:45
Alignment explanation
Indices: 8264276--8264364 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 45
8264266 ATGCATACTT
* * *
8264276 TAAATTTATATACATACATACTTATATATATCCTCTTT-TATTTTCA
1 TAAATATATATACACACATACTTATACATAT--TCTTTATATTTTCA
*
8264322 TAAATATATATACACACATATTTATACATATTCTTTATATTTT
1 TAAATATATATACACACATACTTATACATATTCTTTATATTTT
8264365 AAAATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 5 0.13
45 6 0.16
46 27 0.71
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.49
Consensus pattern (45 bp):
TAAATATATATACACACATACTTATACATATTCTTTATATTTTCA
Found at i:8267954 original size:24 final size:25
Alignment explanation
Indices: 8267927--8267975 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8267917 ATGGAATGTA
*
8267927 ACATTATTTA-AAGCACATTTTACC
1 ACATTATTTAGAAACACATTTTACC
*
8267951 ACATTTTTTATGAAACACATTTTAC
1 ACATTATTTA-GAAACACATTTTAC
8267976 TAAATTGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (25 bp):
ACATTATTTAGAAACACATTTTACC
Found at i:8268208 original size:4 final size:4
Alignment explanation
Indices: 8268199--8268227 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8268189 GATCAAAATT
8268199 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
8268228 CAGTGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8272262 original size:10 final size:11
Alignment explanation
Indices: 8272242--8272266 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8272232 CTAATATACG
8272242 AAAAAGAAAAA
1 AAAAAGAAAAA
8272253 AAAAAGAAAAA
1 AAAAAGAAAAA
8272264 AAA
1 AAA
8272267 TTTTTGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:8272504 original size:102 final size:102
Alignment explanation
Indices: 8272247--8272582 Score: 422
Period size: 103 Copynumber: 3.2 Consensus size: 102
8272237 ATACGAAAAA
* * *
8272247 GAAAAAAAAAAGAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGT-
1 GAAAAAAATAA-AAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTA
*
8272311 AAATTTTTTTTTCGTATCAGAGTCAGATATAAAAATAC
65 AAATTTTTTTTTCGTATCAGAATCAGATATAAAAATAC
** * * *
8272349 GAAAAAAAATTTAAAAAATTTTTTGTGGGTGCTGGTCTGTCAATGGCCAGCACCCAGTGAACAGT
1 G-AAAAAAATAAAAAAAAATTTTT-TGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGT
* * *
8272414 AAAATTTTTTTTTCGTGTTAGAATCAGATATAAAAATAT
64 AAAATTTTTTTTTCGTATCAGAATCAGATATAAAAATAC
*
8272453 GAAAAAAATAAAAAAAAATTTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAA
1 GAAAAAAATAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAA
*
8272518 AATTTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
66 AA----------TTTTTTTTTCGTATCAGAATCAGATATAAAAATAC
8272565 GAAAAAAATAAAAAAAAA
1 GAAAAAAATAAAAAAAAA
8272583 ATTATCGGAC
Statistics
Matches: 201, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
102 52 0.26
103 63 0.31
104 35 0.17
112 51 0.25
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (102 bp):
GAAAAAAATAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAA
AATTTTTTTTTCGTATCAGAATCAGATATAAAAATAC
Found at i:8272883 original size:105 final size:104
Alignment explanation
Indices: 8272695--8273015 Score: 477
Period size: 105 Copynumber: 3.0 Consensus size: 104
8272685 AATAATTTTT
8272695 TTTTA-TTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAAGAAAATTTTTTTTTAC
1 TTTTATTTTTTTTCGTATTTTTATATCTGATTCTGACACG-AAAAAAAA-AAAA-TTTTTTTTAC
8272759 TGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
63 TGT-TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
8272802 -TTTATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTACTG
1 TTTTATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAA-AAAATTTTTTTTACTG
8272866 TTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
65 TT-ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
*
8272907 TTTTTTTTAAAATTTTTTTTCGTATTTTTATATCTGACTT-TGACACGAAAAAAAAGAAATTTTT
1 ----TTTT---ATTTTTTTTCGTATTTTTATATCTGA-TTCTGACACGAAAAAAAAAAAATTTTT
8272971 TTTACTGTTTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
58 TTTACTG-TTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
8273016 TTTTTTTTTC
Statistics
Matches: 200, Mismatches: 2, Indels: 19
0.90 0.01 0.09
Matches are distributed among these distances:
104 1 0.00
105 51 0.25
106 16 0.08
107 34 0.17
110 3 0.01
112 50 0.25
113 43 0.22
114 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (104 bp):
TTTTATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAAAAATTTTTTTTACTGT
TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
Found at i:8273044 original size:113 final size:113
Alignment explanation
Indices: 8272805--8273015 Score: 381
Period size: 112 Copynumber: 1.9 Consensus size: 113
8272795 CAAAAAATTT
8272805 ATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTACTGTTCA
1 ATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTACTGTTCA
8272870 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTAAA
66 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTAAA
* *
8272918 ATTTTTTTTCGTATTTTTATATCTGACTT-TGACACGAAAAAAAA-GAAATTTTTTTTACTGTTT
1 ATTTTTTTTCGTATTTTTATATCTGA-TTCTGACACGAAAAAAAATAAAATTTTTTTTACTGTTC
8272981 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
65 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
8273016 TTTTTTTTTC
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
112 52 0.55
113 41 0.43
114 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
ATTTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAATTTTTTTTACTGTTCA
CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTAAA
Found at i:8277930 original size:29 final size:30
Alignment explanation
Indices: 8277888--8277952 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
8277878 GACACTAATA
*
8277888 GTCACCCAACTATTAATAAAATT-TTTTTG
1 GTCACCCAACTATTAACAAAATTCTTTTTG
* * *
8277917 GTCACTCAACTATTAGCAAATTTCTTTTTG
1 GTCACCCAACTATTAACAAAATTCTTTTTG
8277947 GTCACC
1 GTCACC
8277953 TAACCATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
GTCACCCAACTATTAACAAAATTCTTTTTG
Found at i:8278146 original size:25 final size:24
Alignment explanation
Indices: 8278096--8278153 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
8278086 CAAAATTATC
8278096 TAAGAAATAATGAAAAAATAAGAA
1 TAAGAAATAATGAAAAAATAAGAA
8278120 TAAGAAATCAATGAATAAAATAA-AA
1 TAAGAAAT-AATGAA-AAAATAAGAA
8278145 TAA-AAATAA
1 TAAGAAATAA
8278154 AATAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 2 0.06
24 12 0.38
25 11 0.34
26 7 0.22
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.19
Consensus pattern (24 bp):
TAAGAAATAATGAAAAAATAAGAA
Found at i:8278297 original size:19 final size:19
Alignment explanation
Indices: 8278273--8278309 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8278263 TAAAAAAGTG
8278273 TGTATAATAAA-ATTAAAAA
1 TGTATAA-AAATATTAAAAA
8278292 TGTATAAAAATATTAAAA
1 TGTATAAAAATATTAAAA
8278310 TAAAACATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TGTATAAAAATATTAAAAA
Found at i:8283285 original size:15 final size:16
Alignment explanation
Indices: 8283264--8283310 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
8283254 CACTTTTAAA
8283264 ATTAAAATTCAAAAGT
1 ATTAAAATTCAAAAGT
*
8283280 -TTAAAATATAAAAAAGT
1 ATTAAAAT-T-CAAAAGT
8283297 ATTATAAATTCAAA
1 ATTA-AAATTCAAA
8283311 CTTTTCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 7 0.28
16 1 0.04
17 9 0.36
18 4 0.16
19 4 0.16
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTAAAATTCAAAAGT
Found at i:8284572 original size:9 final size:9
Alignment explanation
Indices: 8284560--8284621 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
8284550 AAAAATTCAA
8284560 AAAAATATT
1 AAAAATATT
8284569 AAAAACTATT
1 AAAAA-TATT
***
8284579 TTTAATATT
1 AAAAATATT
8284588 AAAAATTATT
1 AAAAA-TATT
*
8284598 AAAATTATT
1 AAAAATATT
8284607 AAAAA-ATAT
1 AAAAATAT-T
8284616 AAAAAT
1 AAAAAT
8284622 TAATTAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
8 2 0.05
9 25 0.61
10 14 0.34
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAAATATT
Found at i:8284594 original size:38 final size:39
Alignment explanation
Indices: 8284536--8284611 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
8284526 TGTTTAATCA
8284536 TATTTTTAAAACTTAAAAATTCA-AAAAAATATTAAAAAC
1 TATTTTTAAAACTTAAAAATT-ATAAAAAATATTAAAAAC
* * *
8284575 TATTTTTAATA-TTAAAAATTATTAAAATTATTAAAAA
1 TATTTTTAAAACTTAAAAATTATAAAAAATATTAAAAA
8284612 ATATAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 1 0.03
38 22 0.67
39 10 0.30
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (39 bp):
TATTTTTAAAACTTAAAAATTATAAAAAATATTAAAAAC
Found at i:8284606 original size:19 final size:19
Alignment explanation
Indices: 8284584--8284629 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
8284574 CTATTTTTAA
* *
8284584 TATTAAAAATTATTAAAAT
1 TATTAAAAAATATAAAAAT
8284603 TATTAAAAAATATAAAAAT
1 TATTAAAAAATATAAAAAT
8284622 TAATTAAA
1 T-ATTAAA
8284630 TACTAGCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATTAAAAAATATAAAAAT
Found at i:8287492 original size:39 final size:39
Alignment explanation
Indices: 8287433--8287507 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
8287423 ATATGTATTT
* *
8287433 AAATTCATTAATATTATGATATATGAAATATTTAAACTC
1 AAATTCATTAATATTATGATAAATGAAATATATAAACTC
* * *
8287472 AAATTCATTAGTATTGTGATAAATGATATATATAAA
1 AAATTCATTAATATTATGATAAATGAAATATATAAA
8287508 TTTAAAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (39 bp):
AAATTCATTAATATTATGATAAATGAAATATATAAACTC
Found at i:8289445 original size:40 final size:40
Alignment explanation
Indices: 8289400--8289479 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
8289390 TTTATGAGTA
8289400 AAAATCATAGATTAAGAGCTTATTTAACTACAAAAATAGG
1 AAAATCATAGATTAAGAGCTTATTTAACTACAAAAATAGG
8289440 AAAATCATAGATTAAGAGCTTATTTAACTACAAAAATAGG
1 AAAATCATAGATTAAGAGCTTATTTAACTACAAAAATAGG
8289480 TTGAGGGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (40 bp):
AAAATCATAGATTAAGAGCTTATTTAACTACAAAAATAGG
Found at i:8312531 original size:16 final size:16
Alignment explanation
Indices: 8312510--8312547 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
8312500 GGTCTCCGAT
8312510 GAGCTTCCAACCAATC
1 GAGCTTCCAACCAATC
8312526 GAGCTTCCAACCAATC
1 GAGCTTCCAACCAATC
8312542 GAGCTT
1 GAGCTT
8312548 TCGATAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (16 bp):
GAGCTTCCAACCAATC
Found at i:8320724 original size:2 final size:2
Alignment explanation
Indices: 8320717--8320770 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
8320707 CGCCAGGACG
8320717 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8320759 GA GA GA GA GA GA
1 GA GA GA GA GA GA
8320771 AGCGGTCAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8323355 original size:16 final size:16
Alignment explanation
Indices: 8323334--8323364 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8323324 CATATTACAA
8323334 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
8323350 CATATATATTTGAAA
1 CATATAAATTTGAAA
8323365 ACTTTTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:8323571 original size:18 final size:19
Alignment explanation
Indices: 8323549--8323587 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8323539 AATTTAGAAT
*
8323549 TTTTATAAA-TATATTGAA
1 TTTTAAAAATTATATTGAA
*
8323567 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATATTGAA
8323586 TT
1 TT
8323588 ATTTCGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATATTGAA
Found at i:8328158 original size:16 final size:16
Alignment explanation
Indices: 8328137--8328188 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
8328127 TTTGGTTCGC
*
8328137 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
8328153 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
8328169 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
8328185 TGTA
1 TGTA
8328189 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8328274 original size:39 final size:43
Alignment explanation
Indices: 8328169--8328278 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
8328159 GGATTAGAGG
8328169 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * ***
8328214 TGTAATGGAATAGAGACGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
8328254 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
8328279 TAAAGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:8329652 original size:611 final size:611
Alignment explanation
Indices: 8328489--8329710 Score: 2435
Period size: 611 Copynumber: 2.0 Consensus size: 611
8328479 GAATATTGAT
8328489 TTGAAATTTATTTCTAAAATGAAGATATGCCGTTAACAATTTAATAATTAAAATGTCATAAATTA
1 TTGAAATTTATTTCTAAAATGAAGATATGCCGTTAACAATTTAATAATTAAAATGTCATAAATTA
8328554 ATGATATTAATAATTATATAGTAATTATTTACAATTCAATGGTCAAAATGTAATATAGACCATAC
66 ATGATATTAATAATTATATAGTAATTATTTACAATTCAATGGTCAAAATGTAATATAGACCATAC
8328619 AATGAAATCTCAAATAAAAGATGACAAAATAGAAGTTCTAAAGCAACAAACAATCTATGAAGATT
131 AATGAAATCTCAAATAAAAGATGACAAAATAGAAGTTCTAAAGCAACAAACAATCTATGAAGATT
8328684 AGGTCTTTGTCAAAGAGTCGTGGTAAAACCGCGTTCCAATTTCTTCATTTGACCCACAGCTTCAT
196 AGGTCTTTGTCAAAGAGTCGTGGTAAAACCGCGTTCCAATTTCTTCATTTGACCCACAGCTTCAT
8328749 GGATTTGCCACTGCCATTAGCTCAAAAATGTCCTAAAAATGACCCCTTATTTTATCTGCTATTGG
261 GGATTTGCCACTGCCATTAGCTCAAAAATGTCCTAAAAATGACCCCTTATTTTATCTGCTATTGG
8328814 CCTACTCCTTTGCTACTATCTGAAGCACCTTTTCATCACCTCATGGTTATTTAGAAGGAATTTTA
326 CCTACTCCTTTGCTACTATCTGAAGCACCTTTTCATCACCTCATGGTTATTTAGAAGGAATTTTA
8328879 AAGAAATGGAAACTCAGATAAATTTTAAGAAATTGAAGAAGATGAATACAACTTATCAAAACATT
391 AAGAAATGGAAACTCAGATAAATTTTAAGAAATTGAAGAAGATGAATACAACTTATCAAAACATT
8328944 TAACTCAAATCAATACTCTGAATATATATATAAATATGCTCTTTTTTCTATCAGGGAGCAGTTTG
456 TAACTCAAATCAATACTCTGAATATATATATAAATATGCTCTTTTTTCTATCAGGGAGCAGTTTG
8329009 TAATTCAAAATATCAGTTGTTTGAATCCATCTTTATAATTTAAATCCTTGCTCCCGTTACCTGCC
521 TAATTCAAAATATCAGTTGTTTGAATCCATCTTTATAATTTAAATCCTTGCTCCCGTTACCTGCC
8329074 AGTTCTAGCACTTCTGCAGTCAAGTA
586 AGTTCTAGCACTTCTGCAGTCAAGTA
8329100 TTGAAATTTATTTCTAAAATGAAGATATGCCGTTAACAATTTAATAATTAAAATGTCATAAATTA
1 TTGAAATTTATTTCTAAAATGAAGATATGCCGTTAACAATTTAATAATTAAAATGTCATAAATTA
8329165 ATGATATTAATAATTATATAGTAATTATTTACAATTCAATGGTCAAAATGTAATATAGACCATAC
66 ATGATATTAATAATTATATAGTAATTATTTACAATTCAATGGTCAAAATGTAATATAGACCATAC
8329230 AATGAAATCTCAAATAAAAGATGACAAAATAGAAGTTCTAAAGCAACAAACAATCTATGAAGATT
131 AATGAAATCTCAAATAAAAGATGACAAAATAGAAGTTCTAAAGCAACAAACAATCTATGAAGATT
8329295 AGGTCTTTGTCAAAGAGTCGTGGTAAAACCGCGTTCCAATTTCTTCATTTGACCCACAGCTTCAT
196 AGGTCTTTGTCAAAGAGTCGTGGTAAAACCGCGTTCCAATTTCTTCATTTGACCCACAGCTTCAT
8329360 GGATTTGCCACTGCCATTAGCTCAAAAATGTCCTAAAAATGACCCCTTATTTTATCTGCTATTGG
261 GGATTTGCCACTGCCATTAGCTCAAAAATGTCCTAAAAATGACCCCTTATTTTATCTGCTATTGG
8329425 CCTACTCCTTTGCTACTATCTGAAGCACCTTTTCATCACCTCATGGTTATTTAGAAGGAATTTTA
326 CCTACTCCTTTGCTACTATCTGAAGCACCTTTTCATCACCTCATGGTTATTTAGAAGGAATTTTA
8329490 AAGAAATGGAAACTCAGATAAATTTTAAGAAATTGAAGAAGATGAATACAACTTATCAAAACATT
391 AAGAAATGGAAACTCAGATAAATTTTAAGAAATTGAAGAAGATGAATACAACTTATCAAAACATT
8329555 TAACTCAAATCAATACTCTGAATATATATATAAATATGCTCTTTTTTCTATCAGGGAGCAGTTTG
456 TAACTCAAATCAATACTCTGAATATATATATAAATATGCTCTTTTTTCTATCAGGGAGCAGTTTG
*
8329620 TAATTCAAAATATCAGTTGTTTGAATCCATCTTTATAATTTAAATCCTTGCTCGCGTTACCTGCC
521 TAATTCAAAATATCAGTTGTTTGAATCCATCTTTATAATTTAAATCCTTGCTCCCGTTACCTGCC
8329685 AGTTCTAGCACTTCTGCAGTCAAGTA
586 AGTTCTAGCACTTCTGCAGTCAAGTA
8329711 CTCGAGAATT
Statistics
Matches: 610, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
611 610 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (611 bp):
TTGAAATTTATTTCTAAAATGAAGATATGCCGTTAACAATTTAATAATTAAAATGTCATAAATTA
ATGATATTAATAATTATATAGTAATTATTTACAATTCAATGGTCAAAATGTAATATAGACCATAC
AATGAAATCTCAAATAAAAGATGACAAAATAGAAGTTCTAAAGCAACAAACAATCTATGAAGATT
AGGTCTTTGTCAAAGAGTCGTGGTAAAACCGCGTTCCAATTTCTTCATTTGACCCACAGCTTCAT
GGATTTGCCACTGCCATTAGCTCAAAAATGTCCTAAAAATGACCCCTTATTTTATCTGCTATTGG
CCTACTCCTTTGCTACTATCTGAAGCACCTTTTCATCACCTCATGGTTATTTAGAAGGAATTTTA
AAGAAATGGAAACTCAGATAAATTTTAAGAAATTGAAGAAGATGAATACAACTTATCAAAACATT
TAACTCAAATCAATACTCTGAATATATATATAAATATGCTCTTTTTTCTATCAGGGAGCAGTTTG
TAATTCAAAATATCAGTTGTTTGAATCCATCTTTATAATTTAAATCCTTGCTCCCGTTACCTGCC
AGTTCTAGCACTTCTGCAGTCAAGTA
Found at i:8332922 original size:27 final size:25
Alignment explanation
Indices: 8332874--8332925 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
8332864 TGAATAGTGT
*
8332874 ATGTATATATATATTGTATATAAAA
1 ATGTATATATATATTGGATATAAAA
8332899 ATGTATATATATATTTGGATTATAAAA
1 ATGTATATATATA-TTGGA-TATAAAA
8332926 TATGAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.54
26 4 0.17
27 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
ATGTATATATATATTGGATATAAAA
Found at i:8333129 original size:3 final size:3
Alignment explanation
Indices: 8333094--8333157 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
8333084 AGTAATGATA
* * * * *
8333094 AAT AAT AA- AAT TAT AAT TAT AAC AAT TAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8333141 AAT AAT AAT AAGT AAT A
1 AAT AAT AAT AA-T AAT A
8333158 GTAGCAACGA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8337120 original size:6 final size:6
Alignment explanation
Indices: 8337109--8337134 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8337099 CATGTGTGTG
8337109 TTTGCT TTTGCT TTTGCT TTTGCT TT
1 TTTGCT TTTGCT TTTGCT TTTGCT TT
8337135 GGAGATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (6 bp):
TTTGCT
Found at i:8339359 original size:10 final size:10
Alignment explanation
Indices: 8339327--8339361 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
8339317 TGACATGAAT
*
8339327 AATTTTTAAA
1 AATTTTTTAA
*
8339337 AAATTTTTAA
1 AATTTTTTAA
8339347 AATTTTTTAA
1 AATTTTTTAA
8339357 AATTT
1 AATTT
8339362 GATGATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:8341992 original size:25 final size:25
Alignment explanation
Indices: 8341942--8341992 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
8341932 TACTTTGCAA
*
8341942 ATGATTTATTTTAAGTTATTTATAT
1 ATGATTTATTTTAAGTTACTTATAT
* *
8341967 ATGATTTTATTTTTAGTTGCTT-TAT
1 ATGA-TTTATTTTAAGTTACTTATAT
8341992 A
1 A
8341993 CATAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (25 bp):
ATGATTTATTTTAAGTTACTTATAT
Found at i:8348916 original size:20 final size:20
Alignment explanation
Indices: 8348891--8348931 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8348881 ATTTAAACCG
8348891 AGCTCAAACGAGCTGAAATA
1 AGCTCAAACGAGCTGAAATA
***
8348911 AGCTCATGTGAGCTGAAATA
1 AGCTCAAACGAGCTGAAATA
8348931 A
1 A
8348932 AATTAGGTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (20 bp):
AGCTCAAACGAGCTGAAATA
Found at i:8352440 original size:15 final size:14
Alignment explanation
Indices: 8352409--8352447 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
8352399 TTTACCTGCG
*
8352409 AAATAAAATAAAAAT
1 AAATAAAAT-TAAAT
8352424 AAGATAAAATTAAAT
1 AA-ATAAAATTAAAT
8352439 AAATAAAAT
1 AAATAAAAT
8352448 GTGTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 8 0.36
16 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AAATAAAATTAAAT
Found at i:8371689 original size:22 final size:21
Alignment explanation
Indices: 8371659--8371702 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
8371649 CATGATAAAA
8371659 ATATATTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
8371680 ATATATTTTTATAATTAAATTT
1 ATATA-TTTTATAATTAAATTT
8371702 A
1 A
8371703 CATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:8373127 original size:17 final size:18
Alignment explanation
Indices: 8373094--8373132 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
8373084 TTATATGCGA
8373094 ATTTGATTTTGTATTTTT
1 ATTTGATTTTGTATTTTT
8373112 ATTTGATTTT-TATTTTT
1 ATTTGATTTTGTATTTTT
8373129 ATTT
1 ATTT
8373133 AAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
ATTTGATTTTGTATTTTT
Found at i:8380958 original size:31 final size:32
Alignment explanation
Indices: 8380891--8380959 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
8380881 AGAATTTAAT
* *
8380891 ATTTATATTTTTAATTTTAAGAATTTAGTCTC
1 ATTTATATTTTTAAATTTAAAAATTTAGTCTC
8380923 -TTTAT-TTTTTAAATTTAAAAATTTAAGT-TC
1 ATTTATATTTTTAAATTTAAAAATTT-AGTCTC
8380953 ATTTATA
1 ATTTATA
8380960 AACATCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (32 bp):
ATTTATATTTTTAAATTTAAAAATTTAGTCTC
Found at i:8391101 original size:5 final size:5
Alignment explanation
Indices: 8391086--8391138 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
8391076 CTCTCTTATA
*
8391086 ATAAT -TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAA ATACAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT
8391136 ATA
1 ATA
8391139 TTAATTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
4 4 0.09
5 36 0.82
6 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:8392943 original size:31 final size:32
Alignment explanation
Indices: 8392905--8392964 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
8392895 TTTTTTAGTC
*
8392905 AAATTTGACCTTCAACCTTTT-AAAAAGAATT
1 AAATTTGACCATCAACCTTTTGAAAAAGAATT
*
8392936 AAATTTGATCATCAACCTTTTGAAAAAGA
1 AAATTTGACCATCAACCTTTTGAAAAAGA
8392965 GTCTAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (32 bp):
AAATTTGACCATCAACCTTTTGAAAAAGAATT
Found at i:8395496 original size:17 final size:17
Alignment explanation
Indices: 8395459--8395506 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
8395449 GAATTTAGAA
*
8395459 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
8395475 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
8395492 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
8395507 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:8396734 original size:46 final size:46
Alignment explanation
Indices: 8396664--8396802 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
8396654 GATGGAGAAG
* * * * *
8396664 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTAAGT
1 TGTGAAAAGCAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGT
*
8396710 TGTGAAAAGCATGTATGATGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGCAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGT
* *
8396756 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGCAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGT
8396802 T
1 T
8396803 ATAGCAATGT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGCAGGTATGATGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:8399274 original size:32 final size:31
Alignment explanation
Indices: 8399238--8399306 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
8399228 TTTGGATCAA
8399238 GACTAAAATTTCA-AAACTCGAAAAATAAAAAG
1 GACTAAAA-TTCACAAACTCGAAAAAT-AAAAG
* * *
8399270 GACTAAAATTGACCAACTCGAAAAATACAAG
1 GACTAAAATTCACAAACTCGAAAAATAAAAG
8399301 GACTAA
1 GACTAA
8399307 GATTAATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.55, C:0.16, G:0.12, T:0.17
Consensus pattern (31 bp):
GACTAAAATTCACAAACTCGAAAAATAAAAG
Found at i:8409189 original size:21 final size:21
Alignment explanation
Indices: 8409150--8409189 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8409140 GCATATCCAT
* *
8409150 ATCACATTTATCAGGAAAAGG
1 ATCACATTTATAAGAAAAAGG
*
8409171 ATCATATTTATAAGAAAAA
1 ATCACATTTATAAGAAAAA
8409190 AGAGAAGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (21 bp):
ATCACATTTATAAGAAAAAGG
Found at i:8411128 original size:3 final size:3
Alignment explanation
Indices: 8411120--8411145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8411110 CTGCGTGTAG
8411120 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8411146 ATCCTATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8427883 original size:19 final size:19
Alignment explanation
Indices: 8427859--8427925 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
8427849 TTAAAAGATT
8427859 ATAAAAATATTTAATAAAA
1 ATAAAAATATTTAATAAAA
* * *
8427878 ATAAAAAT-TTAAAGATAAT
1 ATAAAAATATTTAATA-AAA
*
8427897 ATAAAAA-A-TTCATAAAA
1 ATAAAAATATTTAATAAAA
8427914 ATAATAAATATT
1 ATAA-AAATATT
8427926 AGCATGAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
19 18 0.50
20 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAATATTTAATAAAA
Found at i:8427889 original size:17 final size:17
Alignment explanation
Indices: 8427862--8427922 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
8427852 AAAGATTATA
8427862 AAAATATTTAATAAAAAT
1 AAAA-ATTTAATAAAAAT
8427880 AAAAATTTAA-AGATAATAT
1 AAAAATTTAATA-A-AA-AT
* *
8427899 AAAAAATTCATAAAAAT
1 AAAAATTTAATAAAAAT
8427916 AATAAAT
1 AA-AAAT
8427923 ATTAGCATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 11 0.31
19 11 0.31
20 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATTTAATAAAAAT
Found at i:8427912 original size:36 final size:38
Alignment explanation
Indices: 8427839--8427922 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 38
8427829 ATGTCATGTC
8427839 AAAA-AAT-AATTTAAAAGATTATAAAAATATTTAATA
1 AAAATAATAAATTTAAAAGATTATAAAAATATTTAATA
*
8427875 AAAATAA-AAATTT-AAAGATAATATAAAAA-A-TTCATA
1 AAAATAATAAATTTAAAAGAT--TATAAAAATATTTAATA
8427911 AAAATAATAAAT
1 AAAATAATAAAT
8427923 ATTAGCATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 22 0.52
37 12 0.29
38 8 0.19
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (38 bp):
AAAATAATAAATTTAAAAGATTATAAAAATATTTAATA
Found at i:8427917 original size:22 final size:20
Alignment explanation
Indices: 8427841--8427919 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
8427831 GTCATGTCAA
8427841 AAAATAATTTAAAAGAT--TAT
1 AAAA-AATTTAAAA-ATAATAT
*
8427861 AAAAATATTTAATAA-AA-AT
1 AAAAA-ATTTAAAAATAATAT
*
8427880 -AAAAATTTAAAGATAATAT
1 AAAAAATTTAAAAATAATAT
8427899 AAAAAATTCATAAAAATAATA
1 AAAAAATT--TAAAAATAATA
8427920 AATATTAGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 6 0.13
20 18 0.38
22 10 0.21
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAAATTTAAAAATAATAT
Found at i:8428766 original size:16 final size:16
Alignment explanation
Indices: 8428745--8428813 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
8428735 TTTGGTTCGC
8428745 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8428761 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8428777 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
8428794 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8428810 TGTA
1 TGTA
8428814 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8428791 original size:33 final size:32
Alignment explanation
Indices: 8428745--8428813 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
8428735 TTTGGTTCGC
8428745 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
8428777 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
8428810 TGTA
1 TGTA
8428814 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:8428878 original size:44 final size:45
Alignment explanation
Indices: 8428794--8428884 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
8428784 GGATTAGAGG
* * *
8428794 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
8428839 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
8428883 TG
1 TG
8428885 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:8429070 original size:18 final size:19
Alignment explanation
Indices: 8429049--8429085 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8429039 TTATTATTAA
8429049 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
8429067 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
8429086 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:8429193 original size:59 final size:58
Alignment explanation
Indices: 8429127--8429312 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
8429117 CTCAAATCAT
* *
8429127 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
8429186 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
8429246 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
8429306 AATATAT
1 AATATAT
8429313 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:8429250 original size:120 final size:120
Alignment explanation
Indices: 8429029--8429318 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
8429019 TTAATCATAT
8429029 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
8429094 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
8429151 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
8429215 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
8429271 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
8429319 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:8436756 original size:7 final size:7
Alignment explanation
Indices: 8436744--8436772 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
8436734 TCCTCCATGT
8436744 TTAGCAA
1 TTAGCAA
8436751 TTAGCAA
1 TTAGCAA
8436758 TTAGCAA
1 TTAGCAA
8436765 TTAGCAA
1 TTAGCAA
8436772 T
1 T
8436773 ATTCATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (7 bp):
TTAGCAA
Found at i:8448049 original size:27 final size:27
Alignment explanation
Indices: 8448011--8448066 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8448001 TCCTTACAAG
8448011 ATTGAATTGTTTGTCAATTAAGCACTA
1 ATTGAATTGTTTGTCAATTAAGCACTA
8448038 ATTGAATTGTTTGTCAATTAAGCACTA
1 ATTGAATTGTTTGTCAATTAAGCACTA
8448065 AT
1 AT
8448067 AAACAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (27 bp):
ATTGAATTGTTTGTCAATTAAGCACTA
Found at i:8452841 original size:20 final size:20
Alignment explanation
Indices: 8452786--8452842 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
8452776 AAAACCCAGT
*
8452786 AAGTATCAATATTTTTATAT
1 AAGTATCAATATTTTTATAA
* **
8452806 GAGTATTGATATTTTTATAA
1 AAGTATCAATATTTTTATAA
*
8452826 AAGTATCAATAATTTTA
1 AAGTATCAATATTTTTA
8452843 AAATGAGATT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (20 bp):
AAGTATCAATATTTTTATAA
Found at i:8460561 original size:53 final size:53
Alignment explanation
Indices: 8460498--8460606 Score: 166
Period size: 53 Copynumber: 2.1 Consensus size: 53
8460488 TGAATTAATT
* *
8460498 TTTTGGTACAGTCAAACATCTACTGTAACAAGTTGTACTATAAAATA-TCTATA
1 TTTTGATACAGTCAAACATCTACTATAACAAGTTGTACTATAAAATATTC-ATA
* *
8460551 TTTTGATACAGTCAAACATCTACTATAGCAGGTTGTACTATAAAATATTCATA
1 TTTTGATACAGTCAAACATCTACTATAACAAGTTGTACTATAAAATATTCATA
8460604 TTT
1 TTT
8460607 ACATTTATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 49 0.96
54 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (53 bp):
TTTTGATACAGTCAAACATCTACTATAACAAGTTGTACTATAAAATATTCATA
Found at i:8461325 original size:16 final size:17
Alignment explanation
Indices: 8461304--8461346 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
8461294 TAGATTTGTT
8461304 TATATAAAAATA-TAAA
1 TATATAAAAATATTAAA
8461320 TATATAAAAA-ATTAAA
1 TATATAAAAATATTAAA
*
8461336 TATATATAAAT
1 TATATAAAAAT
8461347 GCCAAGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATATAAAAATATTAAA
Found at i:8468271 original size:54 final size:54
Alignment explanation
Indices: 8468194--8468303 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
8468184 AAACCAGCTT
* * *
8468194 AAGGGAACTCTTCCATGGTGTTTTTGCTGATGAGAATGCAGAAAAATAAAGAGA
1 AAGGAAACCCTTCCATGGTGTTTTAGCTGATGAGAATGCAGAAAAATAAAGAGA
*
8468248 AAGGAAACCCTTCTATGGTGTTTTAGCTGATGAGAATGCAGAAAAATAAAGAGA
1 AAGGAAACCCTTCCATGGTGTTTTAGCTGATGAGAATGCAGAAAAATAAAGAGA
8468302 AA
1 AA
8468304 TCTAGATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (54 bp):
AAGGAAACCCTTCCATGGTGTTTTAGCTGATGAGAATGCAGAAAAATAAAGAGA
Found at i:8476328 original size:43 final size:43
Alignment explanation
Indices: 8476224--8476357 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
8476214 TCGGAAGGCT
* * *
8476224 CATA-CAATGCCAACGTCCCGGACGTGGTCTTACATGTAATCA
1 CATATCAATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACA
* ** **
8476266 CATATCAATGTCATTGTCCCAGAAAAGGTCTTACATGTAAACA
1 CATATCAATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACA
* * *
8476309 CA-AGTCGATGCCAACGTCCCAGATGTGGTCTTACATGAAAACA
1 CATA-TCAATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACA
8476352 CATATC
1 CATATC
8476358 GGAATCCTAT
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 5 0.07
43 67 0.92
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CATATCAATGCCAACGTCCCAGAAGTGGTCTTACATGTAAACA
Found at i:8477272 original size:25 final size:25
Alignment explanation
Indices: 8477244--8477293 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
8477234 TTATTTGTTT
8477244 TATTATAACA-TTATAATATAATATA
1 TATTATAACATTTATAA-ATAATATA
8477269 TATTATAACATTTATAAATAATATA
1 TATTATAACATTTATAAATAATATA
8477294 AAAACCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACATTTATAAATAATATA
Found at i:8478628 original size:25 final size:25
Alignment explanation
Indices: 8478585--8478697 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 25
8478575 CGAGCTATAC
* * * *
8478585 ACAGTAAGCTCCTCCGAGCTGAATA
1 ACAGGAAGCTCATGCGAGCTGAACA
* *
8478610 ACAAGAAGCTCATGTGAGCTGAACA
1 ACAGGAAGCTCATGCGAGCTGAACA
*
8478635 A-TGGAAAGCTCATGCGAGCTGAACA
1 ACAGG-AAGCTCATGCGAGCTGAACA
** **
8478660 ATGGGAAGCTCATGCGAGCTGAGTA
1 ACAGGAAGCTCATGCGAGCTGAACA
*
8478685 TCAGGAAGCTCAT
1 ACAGGAAGCTCAT
8478698 AAGAGTTGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
24 1 0.01
25 68 0.96
26 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.19
Consensus pattern (25 bp):
ACAGGAAGCTCATGCGAGCTGAACA
Found at i:8492531 original size:17 final size:17
Alignment explanation
Indices: 8492504--8492561 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
8492494 ACTCCCCCTA
8492504 TTTACTTTCCCTCAAACT
1 TTTA-TTTCCCTCAAACT
*
8492522 TTTATTTCCC-AAAACTT
1 TTTATTTCCCTCAAAC-T
*
8492539 TTTATTTTCCTCCTAAACT
1 TTTATTTCCCT-C-AAACT
8492558 TTTA
1 TTTA
8492562 CTTCTCTCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
18 4 0.12
19 5 0.15
20 4 0.12
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTTCCCTCAAACT
Found at i:8497945 original size:22 final size:22
Alignment explanation
Indices: 8497903--8497951 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 22
8497893 TTCTCTTTAA
*
8497903 TTAAATTATTTCCTTTATTTTT
1 TTAAATTATTTCATTTATTTTT
8497925 TTAAATTA-TT-A-TTATTTTT
1 TTAAATTATTTCATTTATTTTT
8497944 TTATAATT
1 TTA-AATT
8497952 TCAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 11 0.44
20 4 0.16
21 2 0.08
22 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTAAATTATTTCATTTATTTTT
Found at i:8499665 original size:18 final size:18
Alignment explanation
Indices: 8499642--8499682 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8499632 GCCAGGTGCA
*
8499642 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
8499660 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
8499678 T-TCCT
1 TATCCT
8499683 TTTCCCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:8499966 original size:21 final size:21
Alignment explanation
Indices: 8499926--8499966 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8499916 ACAACCAGAA
**
8499926 CAACCACAACCCCCGTCGGAG
1 CAACCACAACCCCCACCGGAG
8499947 CAACCACAACCCCCACCGGA
1 CAACCACAACCCCCACCGGA
8499967 AGCTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.51, G:0.15, T:0.02
Consensus pattern (21 bp):
CAACCACAACCCCCACCGGAG
Found at i:8500185 original size:62 final size:59
Alignment explanation
Indices: 8500069--8500189 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 59
8500059 TTGTACAAAA
* ****
8500069 TATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTAAAT
1 TATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTGAATAAAGCAATAG-AAAT
*
8500129 TATTTTTATATT-TTGTCCTATTTAATAAAATATAAGTTCTTTTGAATAAAGCAATAGAAAT
1 TATTTTTATATTATT-T-C-ATTTAATAAAATAAAAGTTCTTTTGAATAAAGCAATAGAAAT
8500190 AATGCAACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
61 5 0.10
62 32 0.62
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (59 bp):
TATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTGAATAAAGCAATAGAAAT
Found at i:8500224 original size:15 final size:15
Alignment explanation
Indices: 8500204--8500236 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8500194 CAACATAGTT
8500204 TCATTTAAGCAATTA
1 TCATTTAAGCAATTA
8500219 TCATTTAAGCAATTA
1 TCATTTAAGCAATTA
8500234 TCA
1 TCA
8500237 ACTATTTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (15 bp):
TCATTTAAGCAATTA
Found at i:8507220 original size:11 final size:10
Alignment explanation
Indices: 8507204--8507250 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
8507194 CACAACTCTC
8507204 TCTCAATTCAT
1 TCTCAATTC-T
*
8507215 TCTCAATCCT
1 TCTCAATTCT
8507225 CTCTCAATTCT
1 -TCTCAATTCT
8507236 TACTCAATTC-
1 T-CTCAATTCT
8507246 TCTCA
1 TCTCA
8507251 GTTCAATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 4 0.12
10 3 0.09
11 25 0.78
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (10 bp):
TCTCAATTCT
Found at i:8507249 original size:20 final size:21
Alignment explanation
Indices: 8507184--8507261 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 21
8507174 TCCCACTTTT
* *
8507184 TCAATTCACTCACAACTCTCTC
1 TCAATTCATTCTCAA-TCTCTC
8507206 TCAATTCATTCTCAATCCTCTC
1 TCAATTCATTCTCAAT-CTCTC
8507228 TCAATTC-TTACTCAAT-TCTC
1 TCAATTCATT-CTCAATCTCTC
* *
8507248 TCAGTTCAATCTCA
1 TCAATTCATTCTCA
8507262 TTTTTTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.29
21 4 0.08
22 31 0.63
ACGTcount: A:0.26, C:0.35, G:0.01, T:0.38
Consensus pattern (21 bp):
TCAATTCATTCTCAATCTCTC
Found at i:8511186 original size:18 final size:19
Alignment explanation
Indices: 8511163--8511199 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8511153 TAATTTCAAA
8511163 TTTTTAAAAAT-AATATTT
1 TTTTTAAAAATCAATATTT
*
8511181 TTTTTAAAACTCAATATTT
1 TTTTTAAAAATCAATATTT
8511200 ATAAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTAAAAATCAATATTT
Found at i:8517562 original size:19 final size:19
Alignment explanation
Indices: 8517511--8517562 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
8517501 TTTTATGAAC
**
8517511 TTTTTATACATTTTTTATAT
1 TTTTTATA-ATTTTGAATAT
* **
8517531 TTTTAATTTTTTTGAATAT
1 TTTTTATAATTTTGAATAT
8517550 TTTTTATAATTTT
1 TTTTTATAATTTT
8517563 TAAATTATTT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTATAATTTTGAATAT
Found at i:8519994 original size:16 final size:16
Alignment explanation
Indices: 8519973--8520003 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8519963 AATTTTAATT
8519973 AATTAATTAATTTTCC
1 AATTAATTAATTTTCC
8519989 AATTAATTAATTTTC
1 AATTAATTAATTTTC
8520004 TTAACTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTAATTTTCC
Found at i:8519994 original size:20 final size:18
Alignment explanation
Indices: 8519959--8520000 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
8519949 AAACATTATA
8519959 AATTAATTTTAATTAATT
1 AATTAATTTTAATTAATT
8519977 AATTAATTTTCCAATTAATT
1 AATTAATTTT--AATTAATT
8519997 AATT
1 AATT
8520001 TTCTTAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAATTTTAATTAATT
Found at i:8522634 original size:21 final size:21
Alignment explanation
Indices: 8522595--8522634 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8522585 TGGGTTCTTC
*
8522595 TTTCTTTCTATTTTCTTTTTA
1 TTTCTTTCTAGTTTCTTTTTA
*
8522616 TTTCTTTCT-GTTTCGTTTT
1 TTTCTTTCTAGTTTCTTTTT
8522635 GCTTTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTCTTTCTAGTTTCTTTTTA
Found at i:8524325 original size:14 final size:15
Alignment explanation
Indices: 8524306--8524335 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8524296 AATATCAAGT
8524306 TTTTTATTA-TTTTC
1 TTTTTATTACTTTTC
8524320 TTTTTATTACTTTTC
1 TTTTTATTACTTTTC
8524335 T
1 T
8524336 GTTATTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTACTTTTC
Found at i:8528935 original size:33 final size:33
Alignment explanation
Indices: 8528893--8528957 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
8528883 AAATGATCGA
*
8528893 AATACCCTCGAAGAGTAAAATAATCGAAATACC
1 AATACCCTCGAAGAGTAAAATAACCGAAATACC
* *
8528926 AATACCCTCGAAGGGTAAAATTACCGAAATAC
1 AATACCCTCGAAGAGTAAAATAACCGAAATAC
8528958 TCTCGGGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (33 bp):
AATACCCTCGAAGAGTAAAATAACCGAAATACC
Found at i:8529021 original size:138 final size:139
Alignment explanation
Indices: 8528785--8529063 Score: 355
Period size: 138 Copynumber: 2.0 Consensus size: 139
8528775 AAATAACTGA
*
8528785 AATACCCCCGAAAGGTAAAATGATCGAAATACCCTCAAAGGGTAAAATAACCAAAATACCCTCGA
1 AATACCCCCGAAAGGTAAAATGACCGAAATACCCTC--AGGGTAAAATAACCAAAATACCCTCGA
* * *
8528850 AGGATAAAATGATCGAAATACACTCGAAGGGTAAAATGATCGAAATACCCTCGAAGAGTAAAATA
64 AGGATAAAATGATCGAAATACACTCGAAAGGTAAAATGATCGAAATACCCCCAAAGAGTAAAATA
*
8528915 ATCGAAATACC
129 ACCGAAATACC
* * * * * * *
8528926 AATACCCTCGAAGGGTAAAATTACCGAAATACTCTC-GGGTAAATTTACCAAAATACCTTCGAAG
1 AATACCCCCGAAAGGTAAAATGACCGAAATACCCTCAGGGTAAAATAACCAAAATACCCTCGAAG
* * * * * *
8528990 GGTAAAATTATCGAAATAC-CCCTGAAAGGTAAAATTATCGAAATACCCCCAAAGGGTAAAATTA
66 GATAAAATGATCGAAATACACTC-GAAAGGTAAAATGATCGAAATACCCCCAAAGAGTAAAATAA
8529054 CCGAAATACC
130 CCGAAATACC
8529064 TTCGAATGGT
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
137 2 0.02
138 86 0.72
141 31 0.26
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (139 bp):
AATACCCCCGAAAGGTAAAATGACCGAAATACCCTCAGGGTAAAATAACCAAAATACCCTCGAAG
GATAAAATGATCGAAATACACTCGAAAGGTAAAATGATCGAAATACCCCCAAAGAGTAAAATAAC
CGAAATACC
Found at i:8529079 original size:27 final size:27
Alignment explanation
Indices: 8528701--8529132 Score: 370
Period size: 27 Copynumber: 15.9 Consensus size: 27
8528691 GGCAAATGAT
* *
8528701 CGAAATACCC-CGTAGGGTAAAATAAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * *
8528727 TGAAATACCCCCGATAGGGTAAAATGAT
1 CGAAATACCCTCGA-AGGGTAAAATTAC
* * *
8528755 CGAAATACCCTCAAAAGGTAAAATAAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * * *
8528782 TGAAATACCCCCGAAAGGTAAAATGAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
8528809 CGAAATACCCTCAAAGGGTAAAATAAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * * *
8528836 CAAAATACCCTCGAAGGATAAAATGAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
8528863 CGAAATACACTCGAAGGGTAAAATGAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
8528890 CGAAATACCCTCGAAGAGTAAAATAAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
8528917 CGAAATACCAATACCCTCGAAGGGTAAAATTAC
1 CG----A--AATACCCTCGAAGGGTAAAATTAC
* *
8528950 CGAAATACTCTC---GGGTAAATTTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* * *
8528974 CAAAATACCTTCGAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
8529001 CGAAATACCC-CTGAAAGGTAAAATTAT
1 CGAAATACCCTC-GAAGGGTAAAATTAC
* *
8529028 CGAAATACCCCCAAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
8529055 CGAAATACCTTCGAATGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
** * *
8529082 TAAAATACCCCCGAAGGATAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAC
* *
8529109 CGAAATACCCCCGAATGGTAAAAT
1 CGAAATACCCTCGAAGGGTAAAAT
8529133 AACTGTTATA
Statistics
Matches: 331, Mismatches: 62, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
24 20 0.06
26 10 0.03
27 253 0.76
28 23 0.07
29 1 0.00
31 1 0.00
33 23 0.07
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAC
Found at i:8529339 original size:26 final size:25
Alignment explanation
Indices: 8529310--8529359 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8529300 TTGCCATATA
*
8529310 TACTGTTATTGGCAGCCTT-GCTGCGC
1 TACTGTTACT-GCAG-CTTCGCTGCGC
8529336 TACTGTTACTGCAGCTTCGCTGCG
1 TACTGTTACTGCAGCTTCGCTGCG
8529360 TCAATATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 10 0.45
26 9 0.41
ACGTcount: A:0.12, C:0.28, G:0.26, T:0.34
Consensus pattern (25 bp):
TACTGTTACTGCAGCTTCGCTGCGC
Found at i:8529357 original size:25 final size:26
Alignment explanation
Indices: 8529310--8529385 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
8529300 TTGCCATATA
*
8529310 TACTGTTATTGGCAGCCTTGCTGCGC
1 TACTGTTACTGGCAGCCTTGCTGCGC
8529336 TACTGTTACT-GCAG-CTTCGCTGCG-
1 TACTGTTACTGGCAGCCTT-GCTGCGC
* *
8529360 TCAATATTACTGGCAG-CTCTGCTGCG
1 T-ACTGTTACTGGCAGCCT-TGCTGCG
8529386 GTATTAGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
24 4 0.09
25 17 0.40
26 21 0.49
27 1 0.02
ACGTcount: A:0.14, C:0.28, G:0.25, T:0.33
Consensus pattern (26 bp):
TACTGTTACTGGCAGCCTTGCTGCGC
Found at i:8530047 original size:20 final size:20
Alignment explanation
Indices: 8530022--8530064 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
8530012 TTCCAAAATT
8530022 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTTTTATCAAC
8530042 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTTTTATCAAC
8530062 AAG
1 AAG
8530065 TGTAAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
AAGAAACGAGTTTTATCAAC
Found at i:8542714 original size:3 final size:3
Alignment explanation
Indices: 8542706--8542733 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8542696 GTATTAAAAG
8542706 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8542734 AAAACTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8544059 original size:12 final size:12
Alignment explanation
Indices: 8544042--8544071 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8544032 TTGAATCGAG
8544042 GATGATGGTGAT
1 GATGATGGTGAT
*
8544054 GATGATGTTGAT
1 GATGATGGTGAT
8544066 GATGAT
1 GATGAT
8544072 AAAGTGGACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (12 bp):
GATGATGGTGAT
Found at i:8549923 original size:25 final size:25
Alignment explanation
Indices: 8549895--8549975 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
8549885 ATGTAACAGG
**
8549895 AAGCTCATATGAGCTGTATAAT-GGA
1 AAGCTCATACAAGCTG-ATAATCGGA
* *
8549920 AAGCTCTTACAAGCTGATTATCGGA
1 AAGCTCATACAAGCTGATAATCGGA
* * *
8549945 AAGCTCATACAAG-TCATAAACGGG
1 AAGCTCATACAAGCTGATAATCGGA
8549969 AAGCTCA
1 AAGCTCA
8549976 AGAGAGCCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 18 0.39
25 28 0.61
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (25 bp):
AAGCTCATACAAGCTGATAATCGGA
Found at i:8550043 original size:25 final size:25
Alignment explanation
Indices: 8549959--8550051 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
8549949 TCATACAAGT
*
8549959 CATA-AACGGGAAGCTCAAGAGAGC
1 CATATAACGGGAAGCTCATGAGAGC
** * *
8549983 CAT-TAATTAGGAAACTCATGAGAGT
1 CATATAA-CGGGAAGCTCATGAGAGC
* * *
8550008 CAAATATCGGGAAGCTCGTGAGAGC
1 CATATAACGGGAAGCTCATGAGAGC
*
8550033 CATATAACGGGATGCTCAT
1 CATATAACGGGAAGCTCAT
8550052 AATAGCTAAA
Statistics
Matches: 50, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
24 5 0.10
25 43 0.86
26 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGAGAGC
Found at i:8552145 original size:12 final size:12
Alignment explanation
Indices: 8552128--8552157 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
8552118 AAAAAATCTA
8552128 AATTTAATTTCC
1 AATTTAATTTCC
8552140 AATTTAATTTCC
1 AATTTAATTTCC
8552152 AATTTA
1 AATTTA
8552158 TTTAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:8553907 original size:12 final size:12
Alignment explanation
Indices: 8553890--8553915 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8553880 TAATTAGGAA
8553890 AATTAATTATTT
1 AATTAATTATTT
8553902 AATTAATTATTT
1 AATTAATTATTT
8553914 AA
1 AA
8553916 ATAAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTAATTATTT
Found at i:8554697 original size:6 final size:6
Alignment explanation
Indices: 8554688--8554728 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
8554678 AAATAAAATT
8554688 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
8554729 GTCTAAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:8554782 original size:9 final size:9
Alignment explanation
Indices: 8554768--8554843 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
8554758 GTAGTTATTC
8554768 AATTCGGTT
1 AATTCGGTT
8554777 AATTCGGTT
1 AATTCGGTT
*
8554786 AATTCGGGT
1 AATTCGGTT
8554795 AATTCGAG-T
1 AATTCG-GTT
*
8554804 AATCCGGTT
1 AATTCGGTT
8554813 AATTCAGG-T
1 AATTC-GGTT
*
8554822 AATTCAGTT
1 AATTCGGTT
*
8554831 AATTCGGTG
1 AATTCGGTT
8554840 AATT
1 AATT
8554844 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
8 2 0.04
9 52 0.91
10 3 0.05
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:8554799 original size:27 final size:27
Alignment explanation
Indices: 8554768--8554843 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
8554758 GTAGTTATTC
*
8554768 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCAGGT
*
8554795 AATTCGAG-TAATCCGGTTAATTCAGGT
1 AATTCG-GTTAATTCGGTTAATTCAGGT
* *
8554822 AATTCAGTTAATTCGGTGAATT
1 AATTCGGTTAATTCGGTTAATT
8554844 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCAGGT
Found at i:8559220 original size:17 final size:17
Alignment explanation
Indices: 8559204--8559239 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
8559194 CGTACATCTC
8559204 CTTTTTC-TTCTTTTCT
1 CTTTTTCTTTCTTTTCT
8559220 CTTTTTCTTTCTTTT-T
1 CTTTTTCTTTCTTTTCT
8559236 CTTT
1 CTTT
8559240 CAAATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
CTTTTTCTTTCTTTTCT
Found at i:8561459 original size:23 final size:21
Alignment explanation
Indices: 8561427--8561473 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
8561417 ATCATAGTTT
* *
8561427 AATATTAATATATTTTATTAATC
1 AATATAAATATAATTT-TTAA-C
8561450 AATATAAATATAATTTTTAAC
1 AATATAAATATAATTTTTAAC
8561471 AAT
1 AAT
8561474 TTCTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
23 14 0.64
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATAAATATAATTTTTAAC
Found at i:8561507 original size:27 final size:29
Alignment explanation
Indices: 8561450--8561509 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
8561440 TTTATTAATC
*
8561450 AATATAAATATAATTTTTAACAATTTCTT
1 AATATAAATATAAATTTTAACAATTTCTT
*
8561479 AATATAAATA-AAATTTTAATAATTT-TT
1 AATATAAATATAAATTTTAACAATTTCTT
8561506 AATA
1 AATA
8561510 ATTTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.21
28 13 0.45
29 10 0.34
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
AATATAAATATAAATTTTAACAATTTCTT
Found at i:8562725 original size:134 final size:134
Alignment explanation
Indices: 8562363--8562774 Score: 460
Period size: 133 Copynumber: 3.1 Consensus size: 134
8562353 GCGCTTCCCC
* * *
8562363 AAAAACGCCGCAAAAAATTGGAATATAGCGGCGTTTTCTGAGAAACGCCGGTAACGATAA-CAAA
1 AAAAACGCCGC-AAAAATTGGAATATAGCGGCGTTTTCGGAGAAACGCCGGTAAAGA-AATCTAA
* * * *
8562427 TTTGAAGAAAAAATCTGAGTAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGC
64 TTTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGC
*
8562492 ATTTTA
129 ATTGTA
* * * * * * *
8562498 AAAAACGTCGGAAAAGAAT-GCAT-CAGCGGCGTTTTCAGG-GAAACGCCGATAAAGATATCTAA
1 AAAAACGCCGCAAAA-ATTGGAATATAGCGGCGTTTTC-GGAGAAACGCCGGTAAAGAAATCTAA
* * * *
8562560 TTTGAGGAAAAAATTTG-GACAAAACGCTACCGTTTTATTGCTTCATTTTATTTCCTTAGTGGCG
64 TTTGAGGAAAAAATTTGAG-CAAAACGGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCG
8562624 CATTGTA
128 CATTGTA
* * *
8562631 AAAAACGCCGCAAATATTGGGATATAGTGGCGTTATT-GGAGAAACGCCGGTAAAGAAATCTAAT
1 AAAAACGCCGCAAAAATTGGAATATAGCGGCGTT-TTCGGAGAAACGCCGGTAAAGAAATCTAAT
* * * *
8562695 TTGAGGAAAAATTTTGAGCAAAACGGTACCGTTTTGTTGTTTCCTTTT-TATGCTTTAGTGGCGA
65 TTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTGTTTCATTTTAT-TTCTTTAGTGGCGC
* *
8562759 AATGTT
129 ATTGTA
8562765 AAAAACGCCG
1 AAAAACGCCG
8562775 GAAACGGTTC
Statistics
Matches: 229, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
132 4 0.02
133 107 0.47
134 104 0.45
135 14 0.06
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (134 bp):
AAAAACGCCGCAAAAATTGGAATATAGCGGCGTTTTCGGAGAAACGCCGGTAAAGAAATCTAATT
TGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCGCAT
TGTA
Found at i:8563162 original size:21 final size:20
Alignment explanation
Indices: 8563123--8563175 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
8563113 TTTGTGATTT
*
8563123 GGGCTTAGAGTTTAGGTTTA
1 GGGCTTAGAGTTGAGGTTTA
*
8563143 GGGCTTGGAGATTGAGGTTTA
1 GGGCTTAGAG-TTGAGGTTTA
* *
8563164 AGGTTTAGAGTT
1 GGGCTTAGAGTT
8563176 TGCATTTCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.38
Consensus pattern (20 bp):
GGGCTTAGAGTTGAGGTTTA
Found at i:8569081 original size:25 final size:25
Alignment explanation
Indices: 8569053--8569118 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
8569043 CCCGATATAT
* *
8569053 GGCTTTTCGGAGCTTACCGTTTAAA
1 GGCTCTTCGGAGCTTACCGATTAAA
* * *
8569078 GGCTCTTCATGAGCTTTCCGATTAAT
1 GGCTCTTC-GGAGCTTACCGATTAAA
8569104 GGCTCTTCGGAGCTT
1 GGCTCTTCGGAGCTT
8569119 CCCAATATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (25 bp):
GGCTCTTCGGAGCTTACCGATTAAA
Found at i:8569142 original size:23 final size:24
Alignment explanation
Indices: 8569116--8569169 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
8569106 CTCTTCGGAG
8569116 CTTCCCAATATT-GCTCGCT-TGAA
1 CTTCCCAATATTGGCTCG-TATGAA
* * *
8569139 CTTCTCGATATTGGCTCGTATGAG
1 CTTCCCAATATTGGCTCGTATGAA
8569163 CTTCCCA
1 CTTCCCA
8569170 TTACATAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.35
Consensus pattern (24 bp):
CTTCCCAATATTGGCTCGTATGAA
Found at i:8569166 original size:24 final size:23
Alignment explanation
Indices: 8569113--8569169 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
8569103 TGGCTCTTCG
8569113 GAGCTTCCCAATATTGCTCGCTT
1 GAGCTTCCCAATATTGCTCGCTT
* * *
8569136 GAACTTCTCGATATTGGCTCG-TAT
1 GAGCTTCCCAATATT-GCTCGCT-T
8569160 GAGCTTCCCA
1 GAGCTTCCCA
8569170 TTACATAGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (23 bp):
GAGCTTCCCAATATTGCTCGCTT
Found at i:8569180 original size:25 final size:23
Alignment explanation
Indices: 8569152--8569219 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 23
8569142 CTCGATATTG
8569152 GCTCGTATGAGCTTCCCATTACAT
1 GCTCGTATGAGCTTCCCATTA-AT
**
8569176 AGCTCACATGAGCTTCCCATTAAT
1 -GCTCGTATGAGCTTCCCATTAAT
8569200 GTACTCGTATGAGCATTCCC
1 G--CTCGTATGAGC-TTCCC
8569220 GTTTATGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 2 0.06
25 28 0.78
26 5 0.14
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (23 bp):
GCTCGTATGAGCTTCCCATTAAT
Found at i:8569227 original size:26 final size:26
Alignment explanation
Indices: 8569153--8569244 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
8569143 TCGATATTGG
8569153 CTCGTATGAGC-TTCCCATTACA--TA
1 CTCGTATGAGCATTCCCATTA-ATGTA
**
8569177 GCTCACATGAGC-TTCCCATTAATGTA
1 -CTCGTATGAGCATTCCCATTAATGTA
* * *
8569203 CTCGTATGAGCATTCCCGTTTATGTG
1 CTCGTATGAGCATTCCCATTAATGTA
*
8569229 CTTGTATGAGCATTCC
1 CTCGTATGAGCATTCC
8569245 TGAATTTGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 27 0.48
26 28 0.50
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (26 bp):
CTCGTATGAGCATTCCCATTAATGTA
Found at i:8571111 original size:87 final size:87
Alignment explanation
Indices: 8570954--8571145 Score: 246
Period size: 87 Copynumber: 2.2 Consensus size: 87
8570944 TTCAGTACTC
** * *
8570954 GCCACAAAGGCTTTCCTTTCCAAAGTTTTTCCATAAAGGTATTTCCTTTCAAAGGTTCACTACAT
1 GCCACAAAGGCTTTCCTTTCCAAAGTTTTAACATAAAGGCATTTCCTTTCAAAGGTTCACCACAT
*
8571019 AGGCTTATCGTTT-CTAAGTTTT
66 AGGCTTA-CCTTTCCTAAGTTTT
* * * *
8571041 TCCATAAAGGCTTT-CTTGTCCAGAGTTTTAACATAGAGGCATTTCCTTTCAAAGGTTCACCACA
1 GCCACAAAGGCTTTCCTT-TCCAAAGTTTTAACATAAAGGCATTTCCTTTCAAAGGTTCACCACA
*
8571105 TTGGCTTACCTTTCCTAAGTTTT
65 TAGGCTTACCTTTCCTAAGTTTT
8571128 GCCACAAAGG-TATTCCTT
1 GCCACAAAGGCT-TTCCTT
8571146 AAAATTCAGT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
86 8 0.09
87 78 0.88
88 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (87 bp):
GCCACAAAGGCTTTCCTTTCCAAAGTTTTAACATAAAGGCATTTCCTTTCAAAGGTTCACCACAT
AGGCTTACCTTTCCTAAGTTTT
Found at i:8575303 original size:25 final size:25
Alignment explanation
Indices: 8575249--8575303 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
8575239 GACCCGGCCC
* * *
8575249 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAA-T
8575275 ATTTTAAAAATAAAAAAATAAAAAA-
1 ATTTTAAAAAT-AAAAAATAAAAAAT
8575300 ATTT
1 ATTT
8575304 ATTTTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTTAAAAATAAAAAATAAAAAAT
Found at i:8575312 original size:28 final size:25
Alignment explanation
Indices: 8575251--8575312 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 25
8575241 CCCGGCCCAT
* *
8575251 TTTTAAAATAAACATTAAAAAATTA
1 TTTTAAAATAAAAATAAAAAAATTA
8575276 TTTTAAAAATAAAAAAATAAAAAAATTTA
1 TTTT-AAAAT--AAAAATAAAAAAA-TTA
8575305 TTTTAAAA
1 TTTTAAAA
8575313 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.13
26 5 0.16
28 15 0.48
29 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTTAAAATAAAAATAAAAAAATTA
Found at i:8575340 original size:40 final size:41
Alignment explanation
Indices: 8575269--8575350 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 41
8575259 TAAACATTAA
* *
8575269 AAAATTATTTTAAAAATAAAAAAATAAAAAAATTTAT-TTT
1 AAAAGTATTTTAAAAATAAAAAAATAAAAAAATATATATTT
8575309 AAAAGTATTTTAAAAAT-AAAAAATAAAAAAAATATATATTT
1 AAAAGTATTTTAAAAATAAAAAAAT-AAAAAAATATATATTT
8575350 A
1 A
8575351 TTATATTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 7 0.18
40 27 0.71
41 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (41 bp):
AAAAGTATTTTAAAAATAAAAAAATAAAAAAATATATATTT
Found at i:8575885 original size:26 final size:27
Alignment explanation
Indices: 8575854--8575917 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
8575844 ATAAAAATTT
8575854 AATTAATTACGA-AAATAGGAT-GAGAA
1 AATTAATTACGAGAAATAGGATAG-GAA
*
8575880 AATTAATTAC-AGAAATGGGATATGGAA
1 AATTAATTACGAGAAATAGGATA-GGAA
8575907 AATTAATTACG
1 AATTAATTACG
8575918 GAATGAGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.03
26 18 0.55
27 13 0.39
28 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTAATTACGAGAAATAGGATAGGAA
Found at i:8576455 original size:29 final size:29
Alignment explanation
Indices: 8576405--8576468 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8576395 CTCCCTCAGC
*
8576405 AAAAAATCTATTTATGTTGAAGAGAAGAA
1 AAAAAATCTATTTATGTAGAAGAGAAGAA
* * *
8576434 AAAATAATCTGTTTA-GTAGAAGGGGAGAA
1 AAAA-AATCTATTTATGTAGAAGAGAAGAA
8576463 AAAAAA
1 AAAAAA
8576469 GAGTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 19 0.63
30 9 0.30
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.23
Consensus pattern (29 bp):
AAAAAATCTATTTATGTAGAAGAGAAGAA
Found at i:8576767 original size:21 final size:21
Alignment explanation
Indices: 8576722--8576767 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
8576712 TTTTGTTGCT
* * *
8576722 ATATTTTTTTAATAGGAGCTA
1 ATATTTTTGTAATAGAAGCCA
*
8576743 ATATTTTTGTAATAGAAGCCG
1 ATATTTTTGTAATAGAAGCCA
8576764 ATAT
1 ATAT
8576768 ATATTATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (21 bp):
ATATTTTTGTAATAGAAGCCA
Found at i:8578337 original size:190 final size:190
Alignment explanation
Indices: 8577974--8578353 Score: 510
Period size: 190 Copynumber: 2.0 Consensus size: 190
8577964 GTAACTACAT
** * ***
8577974 CATGCCACTGGTGAAAGACATGCTTACCATTCCTGTATCGGTCTTGATTGTTGACATGCAAGCCC
1 CATGCCACTGGTGAAAGACATGCCCACCATTCCTATATCGGTCTTGATTACCGACATGCAAGCCC
* *
8578039 GATTTTAATACAGAGCGTCATACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAATAGTTG
66 GATTTCAATACAGAGCGTCATACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAAGAGTTG
* * ** ** * *
8578104 TATGGAGAATGGTATGCGTTGTACAATGAATTTCAGGGGTGGTTAGTCGTGATGCAAGAG
131 TATGGAGAATGGGATGCATCATACAACAAACTTCAGGGGTGGTTAGTCGCGATGCAAGAG
*
8578164 CATGCCATTGGTGAAAGACATGCCCACCATTCCTATATCGGTCTTGATTACCGACATGCAAGCCC
1 CATGCCACTGGTGAAAGACATGCCCACCATTCCTATATCGGTCTTGATTACCGACATGCAAGCCC
* * * *
8578229 GATTTCAATACTGAGTGTCATATAGGGAAGCATGGTGGGCTAAACAGATTGCGA-AGGAAGAGTT
66 GATTTCAATACAGAGCGTCATACAGGAAAGCATGGTGGGCTAAACAGATTGCGATA-GAAGAGTT
* * * * *
8578293 GTATGGATATTGGGATGCATCATACGACAAACTTCAGTGGTGGTTAGTCGCGATGTAAGAG
130 GTATGGAGAATGGGATGCATCATACAACAAACTTCAGGGGTGGTTAGTCGCGATGCAAGAG
8578354 TACGTGCTAG
Statistics
Matches: 163, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
189 1 0.01
190 162 0.99
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (190 bp):
CATGCCACTGGTGAAAGACATGCCCACCATTCCTATATCGGTCTTGATTACCGACATGCAAGCCC
GATTTCAATACAGAGCGTCATACAGGAAAGCATGGTGGGCTAAACAGATTGCGATAGAAGAGTTG
TATGGAGAATGGGATGCATCATACAACAAACTTCAGGGGTGGTTAGTCGCGATGCAAGAG
Found at i:8580709 original size:144 final size:146
Alignment explanation
Indices: 8580430--8580736 Score: 453
Period size: 144 Copynumber: 2.1 Consensus size: 146
8580420 AATTTTTTAT
8580430 AATCTTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACTAAAAAAAAAAC
1 AATC-TAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACT--AAAAAAAAC
8580495 AATACATTAAAACTATCCAAGTCTATCCCTACAACTTAAACACAAATATAATCTTTACAAACAAA
63 AATACATTAAAACTATCCAAGTCTATCCCTACAACTTAAACACAAATATAATCTTTACAAACAAA
8580560 AATATAATCTTAAAAATTA
128 AATATAATCTTAAAAATTA
* * * * *
8580579 AATCTAAATATTATATGTAAAATTTTATAATATACAAATTATTATTACAAACT-CAAGAAAC-AT
1 AATCTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACTAAAAAAAACAAT
**
8580642 ACATTAGAAA-TATTTTAA-TCTATCCCTAC-ACATTAAACACAAATATAATCTTTACAAACAAA
66 ACATTA-AAACTA-TCCAAGTCTATCCCTACAAC-TTAAACACAAATATAATCTTTACAAACAAA
*
8580704 AATATAATCTTAAATATTA
128 AATATAATCTTAAAAATTA
8580723 AATCTAAAAATTAA
1 AATCTAAAAATTAA
8580737 CAATAAATTA
Statistics
Matches: 145, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
143 2 0.01
144 81 0.56
145 12 0.08
148 46 0.32
149 4 0.03
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (146 bp):
AATCTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACTAAAAAAAACAAT
ACATTAAAACTATCCAAGTCTATCCCTACAACTTAAACACAAATATAATCTTTACAAACAAAAAT
ATAATCTTAAAAATTA
Found at i:8580768 original size:17 final size:17
Alignment explanation
Indices: 8580743--8580785 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
8580733 TTAACAATAA
* *
8580743 ATTAAAATATAAACATT
1 ATTATAATATAAAAATT
8580760 -TATATAATATAAAAATT
1 AT-TATAATATAAAAATT
8580777 ATTATAATA
1 ATTATAATA
8580786 AACAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATAATATAAAAATT
Found at i:8580879 original size:6 final size:6
Alignment explanation
Indices: 8580868--8580895 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8580858 CCCGCCAATT
8580868 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
8580896 CAACCTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:8582362 original size:16 final size:16
Alignment explanation
Indices: 8582341--8582390 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
8582331 ATTAATTAAA
8582341 ATTTTTAAAATTTTTT
1 ATTTTTAAAATTTTTT
*
8582357 ATTTTTAATATTTTTAT
1 ATTTTTAAAATTTTT-T
*
8582374 ATGTTTT-GAATTTTTT
1 AT-TTTTAAAATTTTTT
8582390 A
1 A
8582391 AGAAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 16 0.55
17 9 0.31
18 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
ATTTTTAAAATTTTTT
Found at i:8595154 original size:14 final size:14
Alignment explanation
Indices: 8595137--8595174 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
8595127 TTTTGAATAC
8595137 TTAATTTTTATCAT
1 TTAATTTTTATCAT
*
8595151 TTAATTTCTCATCAT
1 TTAATTT-TTATCAT
8595166 TTAATTTTT
1 TTAATTTTT
8595175 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAATTTTTATCAT
Found at i:8600129 original size:31 final size:33
Alignment explanation
Indices: 8600092--8600190 Score: 130
Period size: 33 Copynumber: 3.1 Consensus size: 33
8600082 AATGAACTAA
* **
8600092 ATTTAAATGATTTAATATAATGATA-A-ATTAT
1 ATTTAAATAATTTAATATAATGATACATAAAAT
8600123 ATTTAAATAATTTAATATAATGATACATAAAAT
1 ATTTAAATAATTTAATATAATGATACATAAAAT
* * *
8600156 ATTTGATTAATTTAATATAATGATATATAAAAT
1 ATTTAAATAATTTAATATAATGATACATAAAAT
8600189 AT
1 AT
8600191 AAATTAATCT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 24 0.40
32 1 0.02
33 35 0.58
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (33 bp):
ATTTAAATAATTTAATATAATGATACATAAAAT
Found at i:8600189 original size:17 final size:17
Alignment explanation
Indices: 8600136--8600192 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
8600126 TAAATAATTT
*
8600136 AATATAATGATACATAA
1 AATATAATGATATATAA
* **
8600153 AATAT-TTGAT-TAATTT
1 AATATAATGATAT-ATAA
8600169 AATATAATGATATATAA
1 AATATAATGATATATAA
8600186 AATATAA
1 AATATAA
8600193 ATTAATCTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 11 0.37
17 18 0.60
18 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (17 bp):
AATATAATGATATATAA
Found at i:8601551 original size:32 final size:32
Alignment explanation
Indices: 8601509--8601570 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
8601499 ATCTAGAATG
*
8601509 AATCTGGACAATAATTTGTCCAGATTCATTTA
1 AATCTGGACAACAATTTGTCCAGATTCATTTA
* ** *
8601541 AATCTTGACAACCGTTTGTCTAGATTCATT
1 AATCTGGACAACAATTTGTCCAGATTCATT
8601571 CAAGATGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (32 bp):
AATCTGGACAACAATTTGTCCAGATTCATTTA
Found at i:8601617 original size:10 final size:9
Alignment explanation
Indices: 8601596--8601639 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
8601586 ACTTTTTTTT
8601596 AAATTATAA
1 AAATTATAA
8601605 AAATTATTAA
1 AAATTA-TAA
8601615 AAATTAATAA
1 AAATT-ATAA
*
8601625 ATATTATAA
1 AAATTATAA
8601634 AAATTA
1 AAATTA
8601640 AATATGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 15 0.48
10 15 0.48
11 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:8601643 original size:16 final size:17
Alignment explanation
Indices: 8601622--8601694 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 17
8601612 TAAAAATTAA
*
8601622 TAAATAT-TATAAAAAT
1 TAAATATGTAAAAAAAT
8601638 TAAATATGTAAAAAAAT
1 TAAATATGTAAAAAAAT
*
8601655 TCAAAAAT-TCAAAAAATAT
1 T-AAATATGT-AAAAAA-AT
*
8601674 T-AATAATATATAAAAAAT
1 TAAAT-ATGTA-AAAAAAT
8601692 TAA
1 TAA
8601695 TAAAAATACA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
16 7 0.15
17 12 0.26
18 17 0.37
19 10 0.22
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (17 bp):
TAAATATGTAAAAAAAT
Found at i:8601643 original size:20 final size:20
Alignment explanation
Indices: 8601596--8601640 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
8601586 ACTTTTTTTT
8601596 AAATT-ATAAAAATTATTAA
1 AAATTAATAAAAATTATTAA
*
8601615 AAATTAATAAATATTA-TAA
1 AAATTAATAAAAATTATTAA
8601634 AAATTAA
1 AAATTAA
8601641 ATATGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTAATAAAAATTATTAA
Found at i:8601654 original size:36 final size:37
Alignment explanation
Indices: 8601600--8601698 Score: 93
Period size: 36 Copynumber: 2.8 Consensus size: 37
8601590 TTTTTTAAAT
* *
8601600 TATAAA-AAT-TATTAAAAATTAATAAATATTATAAAAA
1 TATAAATAATATATAAAAAATTAATAAAT-TCA-AAAAA
*
8601637 T-TAAAT-ATGTA-AAAAAATTCAA-AAATTCAAAAAA
1 TATAAATAATATATAAAAAATT-AATAAATTCAAAAAA
*
8601671 TATTAATAATATATAAAAAATTAATAAA
1 TATAAATAATATATAAAAAATTAATAAA
8601699 AATACATATC
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
34 6 0.12
35 6 0.12
36 23 0.45
37 16 0.31
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (37 bp):
TATAAATAATATATAAAAAATTAATAAATTCAAAAAA
Done.