Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 84 of 167
Found at i:27564420 original size:26 final size:24
Alignment explanation
Indices: 27564250--27564421 Score: 90
Period size: 23 Copynumber: 7.3 Consensus size: 24
27564240 AAGATCCTCC
* *
27564250 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA-AAACAGTAAGCTCTTA
**
27564275 TGAGCTG-AAAGGGTAAGCTC-TA
1 TGAGCTGAAAACAGTAAGCTCTTA
* *
27564297 TTGAGCTG--TACAGTAAGCTCATA
1 -TGAGCTGAAAACAGTAAGCTCTTA
** *
27564320 CAAGCTGAATA-A-TAAGCT-TATA
1 TGAGCTGAAAACAGTAAGCTCT-TA
* * **
27564342 CGAGCTG-AAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTTA
*
27564365 TGAGCTGAAAACAATAAGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCTTA
** *
27564389 CAAGCTGATATATCAGTAAGCTCTTA
1 TGAGCTGA-A-AACAGTAAGCTCTTA
27564415 TGAGCTG
1 TGAGCTG
27564422 TGGTGAGTCC
Statistics
Matches: 110, Mismatches: 26, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
21 2 0.02
22 29 0.26
23 33 0.30
24 20 0.18
25 8 0.07
26 18 0.16
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTTA
Found at i:27570548 original size:27 final size:27
Alignment explanation
Indices: 27570508--27570574 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
27570498 AATTTGTCAT
*
27570508 AAAAGC-ATTCCTTTCAGA-TTTCGCCAC
1 AAAAGCTATT-CTTTCAAAGTTT-GCCAC
* *
27570535 AAAGGTTATTCTTTCAAAGTTTGCCAC
1 AAAAGCTATTCTTTCAAAGTTTGCCAC
27570562 AAAAGCTATTCTT
1 AAAAGCTATTCTT
27570575 AGTTGTCGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAAGCTATTCTTTCAAAGTTTGCCAC
Found at i:27578562 original size:16 final size:14
Alignment explanation
Indices: 27578541--27578576 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
27578531 TTTTAATTTG
27578541 TAAAAATTAAATCAAA
1 TAAAAATTAAAT--AA
27578557 TAAAAATTAAATAA
1 TAAAAATTAAATAA
27578571 TAAAAA
1 TAAAAA
27578577 CAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAAATTAAATAA
Found at i:27578630 original size:24 final size:24
Alignment explanation
Indices: 27578601--27578665 Score: 130
Period size: 24 Copynumber: 2.7 Consensus size: 24
27578591 CATTATCCAT
27578601 ATTGCATATTGAATTCAACCGGAC
1 ATTGCATATTGAATTCAACCGGAC
27578625 ATTGCATATTGAATTCAACCGGAC
1 ATTGCATATTGAATTCAACCGGAC
27578649 ATTGCATATTGAATTCA
1 ATTGCATATTGAATTCA
27578666 TATTTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (24 bp):
ATTGCATATTGAATTCAACCGGAC
Found at i:27582570 original size:3 final size:3
Alignment explanation
Indices: 27582562--27582599 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
27582552 GAAGAAACAA
*
27582562 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27582600 GCTTAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:27586355 original size:17 final size:17
Alignment explanation
Indices: 27586325--27586382 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
27586315 ATTTATAATA
27586325 ATTTTAATAATTTTCTAT
1 ATTTTAA-AATTTTCTAT
*
27586343 ATTTTAAAATTTTCCAT
1 ATTTTAAAATTTTCTAT
27586360 ATTTTTAAAATTTT-TAT
1 A-TTTTAAAATTTTCTAT
27586377 -TTTTAA
1 ATTTTAA
27586383 TTCATATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 6 0.16
17 12 0.32
18 19 0.51
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTAAAATTTTCTAT
Found at i:27586379 original size:15 final size:15
Alignment explanation
Indices: 27586326--27586450 Score: 71
Period size: 15 Copynumber: 7.9 Consensus size: 15
27586316 TTTATAATAA
27586326 TTTTAATAATTTTCTAT
1 TTTTAA-AATTTT-TAT
27586343 ATTTTAAAATTTTCCATAT
1 -TTTTAAAATTTT---TAT
27586362 TTTTAAAATTTTTAT
1 TTTTAAAATTTTTAT
*
27586377 TTTT--AATTCATATAT
1 TTTTAAAATT--TTTAT
*
27586392 TTTTTAAATTTTTAT
1 TTTTAAAATTTTTAT
*
27586407 TTTT--AATTCATATAAT
1 TTTTAAAATT--T-TTAT
*
27586423 TTTTATAATTTTTA-
1 TTTTAAAATTTTTAT
27586437 TTTTAATAATTTTT
1 TTTTAA-AATTTTT
27586451 TAATTTTTGA
Statistics
Matches: 89, Mismatches: 6, Indels: 27
0.73 0.05 0.22
Matches are distributed among these distances:
13 8 0.09
14 5 0.06
15 33 0.37
16 8 0.09
17 10 0.11
18 22 0.25
19 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAAAATTTTTAT
Found at i:27586393 original size:30 final size:30
Alignment explanation
Indices: 27586358--27586440 Score: 139
Period size: 30 Copynumber: 2.7 Consensus size: 30
27586348 AAAATTTTCC
27586358 ATATTTTTAAAATTTTTATTTTTAATTCAT
1 ATATTTTTAAAATTTTTATTTTTAATTCAT
*
27586388 ATATTTTTTAAATTTTTATTTTTAATTCAT
1 ATATTTTTAAAATTTTTATTTTTAATTCAT
*
27586418 ATAATTTTTATAATTTTTATTTT
1 AT-ATTTTTAAAATTTTTATTTT
27586441 AATAATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 31 0.63
31 18 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
ATATTTTTAAAATTTTTATTTTTAATTCAT
Found at i:27586395 original size:16 final size:16
Alignment explanation
Indices: 27586376--27586432 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
27586366 AAAATTTTTA
27586376 TTTTTAATTCATATAT
1 TTTTTAATTCATATAT
*
27586392 TTTTTAAATT--TTTA-
1 TTTTT-AATTCATATAT
27586406 TTTTTAATTCATATAAT
1 TTTTTAATTCATAT-AT
27586423 TTTTATAATT
1 TTTT-TAATT
27586433 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 4 0.12
14 5 0.15
15 5 0.15
16 6 0.18
17 8 0.24
18 5 0.15
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTAATTCATATAT
Found at i:27586454 original size:23 final size:24
Alignment explanation
Indices: 27586400--27586486 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 24
27586390 ATTTTTTAAA
27586400 TTTTT-ATTTTTAATTCATATAAT
1 TTTTTAATTTTTAATTCATATAAT
* *
27586423 TTTTATAATTTTTATTTTA-ATAAT
1 TTTT-TAATTTTTAATTCATATAAT
* *
27586447 TTTTTAATTTTTGAGTCATTTATAAT
1 TTTTTAATTTTTAATTCA--TATAAT
27586473 ATTTTTAAATTTTT
1 -TTTTT-AATTTTT
27586487 TTTACACTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 14 0.27
24 10 0.20
25 10 0.20
26 5 0.10
27 5 0.10
28 7 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTTAATTTTTAATTCATATAAT
Found at i:27591750 original size:20 final size:20
Alignment explanation
Indices: 27591725--27591770 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
27591715 TCCTTAAATT
*
27591725 ATTTTATTTATAAGATTATA
1 ATTTTATTTATAAAATTATA
*
27591745 ATTTTATTTATAAAATTATT
1 ATTTTATTTATAAAATTATA
27591765 ATTTTA
1 ATTTTA
27591771 ATAACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTATTTATAAAATTATA
Found at i:27592235 original size:20 final size:19
Alignment explanation
Indices: 27592187--27592237 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27592177 GAAATGAGAG
* *
27592187 AAAATTATATAAAATAATT
1 AAAATTATAAAAAAAAATT
*
27592206 AAAATGATAAAAAAAAATCT
1 AAAATTATAAAAAAAAAT-T
*
27592226 ACAATTATAAAA
1 AAAATTATAAAA
27592238 TCTTATTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATTATAAAAAAAAATT
Found at i:27594894 original size:20 final size:21
Alignment explanation
Indices: 27594857--27594903 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
27594847 GATATAATGA
*
27594857 ATTTATAAAAAAGAAAATAAT
1 ATTTTTAAAAAAGAAAATAAT
* *
27594878 ATTTTTAAAAAA-TAAATTAT
1 ATTTTTAAAAAAGAAAATAAT
27594898 ATTTTT
1 ATTTTT
27594904 GAAAGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTTAAAAAAGAAAATAAT
Found at i:27595200 original size:42 final size:42
Alignment explanation
Indices: 27595154--27595240 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
27595144 TCAAGTGCAC
* * *
27595154 TGAAGTGCATTATCCTCCTATTTAAGAGTTGGGGAGGGGTTA
1 TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
27595196 TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
1 TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
27595238 TGA
1 TGA
27595241 GTAATTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (42 bp):
TGAAGCGCATTATCCTCCTATTTAAGAGTTGGAGAGGAGTTA
Found at i:27606228 original size:40 final size:42
Alignment explanation
Indices: 27606184--27606285 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 42
27606174 CTCGTTCAAG
*
27606184 TGCCTTCGGGACTTAACCCGGAAT-TAATAACTT-GCACAAA
1 TGCCTTCGGGACTTAGCCCGGAATATAATAACTTAGCACAAA
* * *
27606224 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGAATATAATAACTTAGCACAAA
27606265 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
27606286 CAGCATTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
39 5 0.10
40 37 0.71
41 10 0.19
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCCTTCGGGACTTAGCCCGGAATATAATAACTTAGCACAAA
Found at i:27608677 original size:47 final size:47
Alignment explanation
Indices: 27608620--27608880 Score: 387
Period size: 47 Copynumber: 5.6 Consensus size: 47
27608610 CACACCCACG
* *** **
27608620 TTCATCACATTGGCCGTTTTACCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
27608667 TTTATCACATTGGCCATTCGGCCTTAGCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* *
27608714 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCCTGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
27608761 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
27608808 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
27608855 TTCATCACATTTGCCATTCGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
27608881 GCTCATGTAT
Statistics
Matches: 197, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 197 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:27608725 original size:94 final size:94
Alignment explanation
Indices: 27608620--27608911 Score: 395
Period size: 94 Copynumber: 3.1 Consensus size: 94
27608610 CACACCCACG
* *** ** *
27608620 TTCATCACATTGGCCGTTTTACCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
27608685 CGGCCTTAGCACATATATGCATGTTCACA
66 CGGCCTTAGCACATATATGCATGTTCACA
* *
27608714 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCCTGTTCATATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
* *
27608779 CGGCCTTATCACACATATGCATGTTCACA
66 CGGCCTTAGCACATATATGCATGTTCACA
* * * *
27608808 TTCATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
* * * **
27608873 CGGCCTTAGCTCATGTATACACATTCACA
66 CGGCCTTAGCACATATATGCATGTTCACA
*
27608902 TCCATCACAT
1 TTCATCACAT
27608912 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 173 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTAGCACATATATGCATGTTCACA
Found at i:27608791 original size:22 final size:22
Alignment explanation
Indices: 27608668--27608744 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
27608658 ATGTTCACAT
27608668 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
* * * *
27608690 TTAGCACATATATG-CATGTTC-ACA
1 TTATCACAT-T-GGCCA--TTCGGCC
27608714 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
27608737 TTATCACA
1 TTATCACA
27608745 CATATGCCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
22 17 0.43
23 7 0.17
24 7 0.17
25 9 0.22
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGGCC
Found at i:27608908 original size:141 final size:141
Alignment explanation
Indices: 27608622--27608911 Score: 393
Period size: 141 Copynumber: 2.1 Consensus size: 141
27608612 CACCCACGTT
* ** ** *
27608622 CATCACATTGGCCGTTTTACCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCG
* * * *
27608687 GCCTTAGCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGC
66 GCCTTAGCACACAAATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACATATAC
* * *
27608752 CTGTTCATATT
131 CTATTCACATC
* *
27608763 CATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTTGCCATTCG
1 CATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCG
* * **
27608828 GCCTTAGCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCTCATGTATAC
66 GCCTTAGCACACAAATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACATATAC
27608893 AC-ATTCACATC
131 -CTATTCACATC
27608904 CATCACAT
1 CATCACAT
27608912 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
141 128 0.99
142 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (141 bp):
CATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCG
GCCTTAGCACACAAATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACATATAC
CTATTCACATC
Found at i:27623972 original size:39 final size:40
Alignment explanation
Indices: 27623913--27623997 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
27623903 AAATGAATTG
* * * * *
27623913 TGCTGAGATTGTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
27623952 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
27623992 TGCTGG
1 TGCTGG
27623998 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:27647141 original size:25 final size:25
Alignment explanation
Indices: 27647113--27647163 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
27647103 TGGAATTGAC
* *
27647113 TTGTGATTATTCAATTAAAACGTGA
1 TTGTGATGATTCAATCAAAACGTGA
*
27647138 TTGTGATGATTCAATCAAAATGTGA
1 TTGTGATGATTCAATCAAAACGTGA
27647163 T
1 T
27647164 GATAGCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (25 bp):
TTGTGATGATTCAATCAAAACGTGA
Found at i:27647318 original size:48 final size:48
Alignment explanation
Indices: 27647242--27647563 Score: 380
Period size: 48 Copynumber: 6.7 Consensus size: 48
27647232 ATACTAATGT
* * *
27647242 GTGCCTGTGTAAGACCATGTCTAGGACATGGCATCCATGATGATATGA
1 GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGA
* * *
27647290 GTGCTTGTGTAAGACCATGTCTGGGACATGACATC-AGTGATGATATGA
1 GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATATGA
* * * * * *
27647338 GTGCCTATGTAAGACCATGTTTAGGATATGGAATCAACGATGATATGA
1 GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGA
* * * *
27647386 GTGCCTGTGTAAGGCCATGTCTGGGACATGGCATTGGCGATGATATGT
1 GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGA
*
27647434 GTGCCTGTGTAAGACCATGTCTGTGACATGGCATCGACGATGATAT-A
1 GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGA
* * *
27647481 TGTGCCTGTGTAAGACCATGTCTAGGACATAGCATCGACGATGATATGT
1 -GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGA
** * *
27647530 G-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 GTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
27647564 TGGTACTTTA
Statistics
Matches: 233, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
47 3 0.01
48 229 0.98
49 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (48 bp):
GTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGA
Found at i:27650244 original size:24 final size:24
Alignment explanation
Indices: 27650217--27650262 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27650207 TCTGGAGTGT
*
27650217 ATCATGGAGAGATATTA-GGAGAAA
1 ATCAAGGAGAGAT-TTATGGAGAAA
*
27650241 ATCAAGGAGTGATTTATGGAGA
1 ATCAAGGAGAGATTTATGGAGA
27650263 GATTTAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.41, C:0.04, G:0.30, T:0.24
Consensus pattern (24 bp):
ATCAAGGAGAGATTTATGGAGAAA
Found at i:27654366 original size:13 final size:13
Alignment explanation
Indices: 27654348--27654372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27654338 TCGACAGGGA
27654348 CACGGCCGTGTGC
1 CACGGCCGTGTGC
27654361 CACGGCCGTGTG
1 CACGGCCGTGTG
27654373 AAGGTCCTCA
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:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:27654462 original size:30 final size:30
Alignment explanation
Indices: 27654428--27654484 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
27654418 ACAACCATGC
*
27654428 CACACGGGAGAGTGGCCTACCCGTGTGTCA
1 CACACGGGAGAGTGGACTACCCGTGTGTCA
* * *
27654458 CACACGGGCGTGTGGATTACCCGTGTG
1 CACACGGGAGAGTGGACTACCCGTGTG
27654485 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.19
Consensus pattern (30 bp):
CACACGGGAGAGTGGACTACCCGTGTGTCA
Found at i:27658925 original size:13 final size:13
Alignment explanation
Indices: 27658907--27658931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27658897 TCGACAGGGA
27658907 CACGGCCGTGTGC
1 CACGGCCGTGTGC
27658920 CACGGCCGTGTG
1 CACGGCCGTGTG
27658932 AAGGTCCTCA
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:0.08, C:0.36, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:27659021 original size:30 final size:30
Alignment explanation
Indices: 27658987--27659043 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
27658977 ACAACCATGC
*
27658987 CACACGGGAGAGTGGCCTACCCGTGTGTCA
1 CACACGGGAGAGTGGACTACCCGTGTGTCA
* * *
27659017 CACACGGGCGTGTGGATTACCCGTGTG
1 CACACGGGAGAGTGGACTACCCGTGTG
27659044 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.19
Consensus pattern (30 bp):
CACACGGGAGAGTGGACTACCCGTGTGTCA
Found at i:27661060 original size:18 final size:19
Alignment explanation
Indices: 27661037--27661082 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
27661027 TAGAACATAA
* *
27661037 AAAAATGAAAA-TAAAAAT
1 AAAAATGAAAAGGAAAAAG
27661055 AAAAAT-AAAAGGAAAAAG
1 AAAAATGAAAAGGAAAAAG
27661073 AAAAA-GAAAA
1 AAAAATGAAAA
27661083 ACAACGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAAATGAAAAGGAAAAAG
Found at i:27670475 original size:70 final size:70
Alignment explanation
Indices: 27670370--27670509 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
27670360 TTGAATAGTG
27670370 TTAGGTTTCAGTTCAAAGTTATTTGCAGCAACAGCAGGTCTAACTATAGTCAATTCAGTTCCTGT
1 TTAGGTTTCAGTTCAAAGTTATTTGCAGCAACAGCAGGTCTAACTATAGTCAATTCAGTTCCTGT
27670435 TAGAT
66 TAGAT
*
27670440 TTAGGTTTTAGTTCAAAGTTATTTGCAGCAACAGCAGGTCTAACTATAGTCAATTCAGTTCCTGT
1 TTAGGTTTCAGTTCAAAGTTATTTGCAGCAACAGCAGGTCTAACTATAGTCAATTCAGTTCCTGT
27670505 TAGAT
66 TAGAT
27670510 AAAGTTAGCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (70 bp):
TTAGGTTTCAGTTCAAAGTTATTTGCAGCAACAGCAGGTCTAACTATAGTCAATTCAGTTCCTGT
TAGAT
Found at i:27670815 original size:23 final size:22
Alignment explanation
Indices: 27670777--27670824 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
27670767 TGCCAGAAGT
27670777 AATTAAAACAAAAACAA-AAAA
1 AATTAAAACAAAAACAATAAAA
*
27670798 AATTAAATTACAATAACAATAAAA
1 AATTAAA--ACAAAAACAATAAAA
27670822 AAT
1 AAT
27670825 GGCTAAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
23 9 0.39
24 7 0.30
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (22 bp):
AATTAAAACAAAAACAATAAAA
Found at i:27680916 original size:20 final size:20
Alignment explanation
Indices: 27680877--27680916 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27680867 AGACTAAATC
* * *
27680877 AGAAACATTTGGAAATTTTA
1 AGAAAAATTTGAAAAATTTA
27680897 AGAAAAATTTGAAAAATTTA
1 AGAAAAATTTGAAAAATTTA
27680917 GACTGCATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (20 bp):
AGAAAAATTTGAAAAATTTA
Found at i:27692958 original size:24 final size:24
Alignment explanation
Indices: 27692931--27692997 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
27692921 CTATCTGGAG
27692931 CTTCCCGATATGGTTCTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
* *
27692955 CTTCCCGACAAGGTTCTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
* *
27692979 ATTCCCGATTATGGCTCTT
1 CTTCCCGA-TATGGTTCTT
27692998 ATGAGCTTCC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 29 0.81
25 7 0.19
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (24 bp):
CTTCCCGATATGGTTCTTTGTGAA
Found at i:27694026 original size:47 final size:48
Alignment explanation
Indices: 27693948--27694048 Score: 136
Period size: 47 Copynumber: 2.1 Consensus size: 48
27693938 GAAATAAGGT
*
27693948 TGGCATCAGCGATGATATGTGTGCTAGTGTAAGACCATGTCTA-GACA
1 TGGCATCAGCGATGATATGTGTGCTAGTGTAAGACCATGTCGAGGACA
* *
27693995 TGGCATCGGCGATGATATGTG-GATTCA-TGTAAGACCATGTCGAGGACA
1 TGGCATCAGCGATGATATGTGTG-CT-AGTGTAAGACCATGTCGAGGACA
27694043 TGGCAT
1 TGGCAT
27694049 TGGTACTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 1 0.02
47 36 0.75
48 11 0.23
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TGGCATCAGCGATGATATGTGTGCTAGTGTAAGACCATGTCGAGGACA
Found at i:27704164 original size:46 final size:46
Alignment explanation
Indices: 27704031--27704166 Score: 129
Period size: 46 Copynumber: 2.9 Consensus size: 46
27704021 GTCTCGAGGT
* *
27704031 CGATGCATTTCCCAAACATGTCTTACACTAGCACTCGAC-TCAA--TGC
1 CGATGCATGTCCCAAACATGTCTTACACT-G-GCTCGACAT-AATGTGC
* * * *
27704077 TGATGCCATGTCCCAGACATGGTGTTACACTGGCTC-TCATAATGTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCGACATAATGT-GC
27704125 CGATGCATGTCCCAAACATGTCTTACACTGGC-CGACATAATG
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCGACATAATG
27704167 ACCCCCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
45 4 0.05
46 27 0.37
47 27 0.37
48 15 0.21
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCGACATAATGTGC
Found at i:27708090 original size:15 final size:15
Alignment explanation
Indices: 27708070--27708131 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
27708060 ATATTGTATT
*
27708070 TTGGATTTCTATGTC
1 TTGGATTTCTTTGTC
*
27708085 TTGGATTTCTTTATC
1 TTGGATTTCTTTGTC
*
27708100 ATGGATTTCTTTGTC
1 TTGGATTTCTTTGTC
* *
27708115 TTGGACTTCTTTATC
1 TTGGATTTCTTTGTC
27708130 TT
1 TT
27708132 AGTTTTCATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.13, C:0.15, G:0.16, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTGTC
Found at i:27708107 original size:30 final size:30
Alignment explanation
Indices: 27708071--27708129 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
27708061 TATTGTATTT
*
27708071 TGGATTTCTATGTCTTGGATTTCTTTATCA
1 TGGATTTCTATGTCTTGGACTTCTTTATCA
*
27708101 TGGATTTCTTTGTCTTGGACTTCTTTATC
1 TGGATTTCTATGTCTTGGACTTCTTTATC
27708130 TTAGTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.14, C:0.15, G:0.17, T:0.54
Consensus pattern (30 bp):
TGGATTTCTATGTCTTGGACTTCTTTATCA
Found at i:27710833 original size:48 final size:48
Alignment explanation
Indices: 27710777--27711092 Score: 438
Period size: 48 Copynumber: 6.6 Consensus size: 48
27710767 ATGAGATTCC
* *
27710777 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* ** *
27710825 GTGTAAGACCGTGTCTGGGACATGGCATCGATGATGATATAAGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
*
27710873 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* * * *
27710921 ATGTAAGACCATGTTTGGGACATGGCATCGACGATGATATGTGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* *
27710969 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* * **
27711017 GTGTAAAACCATGTCTGGGACATGGCATCGGCGATGATATGTG-GATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
*
27711064 CATGTAAGACCATGTC-GAGGACATGGCAT
1 -GTGTAAGACCATGTCTG-GGACATGGCAT
27711093 TGGTACTTTA
Statistics
Matches: 242, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 2 0.01
48 240 0.99
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
Found at i:27714333 original size:17 final size:17
Alignment explanation
Indices: 27714311--27714343 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27714301 CGAATATGTG
27714311 TTTAATTAGGAAAAGGT
1 TTTAATTAGGAAAAGGT
27714328 TTTAATTAGGAAAAGG
1 TTTAATTAGGAAAAGG
27714344 ACCAAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
TTTAATTAGGAAAAGGT
Found at i:27720666 original size:17 final size:17
Alignment explanation
Indices: 27720612--27720672 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
27720602 ATTCACAAGG
27720612 CATACATATATACATCA
1 CATACATATATACATCA
* * ***
27720629 CATAAAAAT-TCACAAGG
1 CATACATATAT-ACATCA
27720646 CATACATATATACATCA
1 CATACATATATACATCA
27720663 CATACCATAT
1 CATA-CATAT
27720673 TGCAATTCAT
Statistics
Matches: 31, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
16 1 0.03
17 24 0.77
18 6 0.19
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (17 bp):
CATACATATATACATCA
Found at i:27720684 original size:34 final size:34
Alignment explanation
Indices: 27720566--27720666 Score: 175
Period size: 34 Copynumber: 3.0 Consensus size: 34
27720556 CAAGATTACC
* * *
27720566 AAATTCACAAGGCATACATATATGCATCACACAC
1 AAATTCACAAGGCATACATATATACATCACATAA
27720600 AAATTCACAAGGCATACATATATACATCACATAA
1 AAATTCACAAGGCATACATATATACATCACATAA
27720634 AAATTCACAAGGCATACATATATACATCACATA
1 AAATTCACAAGGCATACATATATACATCACATA
27720667 CCATATTGCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.23
Consensus pattern (34 bp):
AAATTCACAAGGCATACATATATACATCACATAA
Found at i:27735778 original size:43 final size:42
Alignment explanation
Indices: 27735731--27735874 Score: 123
Period size: 42 Copynumber: 3.4 Consensus size: 42
27735721 TCCCAGACGA
* * *
27735731 GGTCTTACATGTAATCAAATATTGATGCCACTATCCTAGACAG
1 GGTCTTACATGAAATCAAATA-CGATGCCAATATCCTAGACAG
* * *
27735774 GGTCTTACATGAAATCATATACGATGCCAATGTCCTAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATATCCTAGACAG
* * * *
27735816 GGTCTTATACGCAAATCTCAAAT-CAATGCCAATGTCCTA-A-ATG
1 GGTCTTACATG-AAA--TCAAATACGATGCCAATATCCTAGACA-G
27735859 TGGTCTTACATGAAAT
1 -GGTCTTACATGAAAT
27735875 TACATACCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.33
43 26 0.31
44 24 0.29
45 5 0.06
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATATCCTAGACAG
Found at i:27735813 original size:42 final size:44
Alignment explanation
Indices: 27735710--27735874 Score: 128
Period size: 43 Copynumber: 3.8 Consensus size: 44
27735700 AAAGCTCATA
* * * *
27735710 CAATGCCAACGTCCCAGAC-GAGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCTAGACAGAGGTCTTACATGAAATCATATAT
** * *
27735753 TGATGCCACTATCCTAGACAG-GGTCTTACATGAAATCATATA-
1 CAATGCCAATGTCCTAGACAGAGGTCTTACATGAAATCATATAT
* * * * *
27735795 CGATGCCAATGTCCTAGACA-TGGTCTTATACGCAAATC-TCAAAT
1 CAATGCCAATGTCCTAGACAGAGGTCTTACATG-AAATCAT-ATAT
*
27735839 CAATGCCAATGTCCTA-A-ATGTGGTCTTACATGAAAT
1 CAATGCCAATGTCCTAGACA-GAGGTCTTACATGAAAT
27735875 TACATACCAG
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 28 0.29
43 44 0.45
44 26 0.27
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (44 bp):
CAATGCCAATGTCCTAGACAGAGGTCTTACATGAAATCATATAT
Found at i:27737388 original size:27 final size:27
Alignment explanation
Indices: 27737357--27737540 Score: 144
Period size: 27 Copynumber: 6.9 Consensus size: 27
27737347 AGAATACTTT
*
27737357 AGTTTACCAAATTACTGAAATACCCTC
1 AGTTTACAAAATTACTGAAATACCCTC
* *
27737384 AGTTTGCAAAATTATTGAAATACCCTC
1 AGTTTACAAAATTACTGAAATACCCTC
* *
27737411 -GAATTGCAAAATTACTGAAATACCCTC
1 AG-TTTACAAAATTACTGAAATACCCTC
* * * *
27737438 -GACTTGCAAAATTAC-CAAAGTACCCCC
1 AG-TTTACAAAATTACTGAAA-TACCCTC
* *
27737465 AGTTTATAAAATTACTGAAATACCGTC
1 AGTTTACAAAATTACTGAAATACCCTC
* ** *
27737492 -GATTGTAAAATTACTAAAATACCCTC
1 AGTTTACAAAATTACTGAAATACCCTC
**
27737518 -GATTTGTAAAATTACTGAAATAC
1 AG-TTTACAAAATTACTGAAATAC
27737541 TCCTATAAGA
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 27 0.20
27 101 0.77
28 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AGTTTACAAAATTACTGAAATACCCTC
Found at i:27737528 original size:53 final size:53
Alignment explanation
Indices: 27737365--27737540 Score: 219
Period size: 54 Copynumber: 3.3 Consensus size: 53
27737355 TTAGTTTACC
* * * * *
27737365 AAATTACTGAAATACCCTCAGTTTGCAAAATTATTGAAATACCCTCGAATTGCA
1 AAATTACTGAAATACCCTC-GATTGCAAAATTACTAAAATACCCTCGATTTGTA
* * * *
27737419 AAATTACTGAAATACCCTCGACTTGCAAAATTACCAAAGTACCC-CCAGTTTATA
1 AAATTACTGAAATACCCTCGA-TTGCAAAATTACTAAAATACCCTCGA-TTTGTA
* *
27737473 AAATTACTGAAATACCGTCGATTGTAAAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTGCAAAATTACTAAAATACCCTCGATTTGTA
27737526 AAATTACTGAAATAC
1 AAATTACTGAAATAC
27737541 TCCTATAAGA
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
53 42 0.40
54 62 0.60
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGATTGCAAAATTACTAAAATACCCTCGATTTGTA
Found at i:27737582 original size:27 final size:27
Alignment explanation
Indices: 27737550--27737721 Score: 218
Period size: 27 Copynumber: 6.4 Consensus size: 27
27737540 CTCCTATAAG
27737550 ATAGAATTATCATTTTACCCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* * *
27737577 ACAGAATTATCGTTTTACCCTAGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* **
27737604 ATAGAATTACCATTTTACCCTTTATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* *
27737631 ATAGAATTACCATTTTACTCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* * *
27737658 ACAGAATTATCGTCTTACCCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
* *
27737685 ATAAAATTACCATTTTACCCTCGATTT
1 ATAGAATTATCATTTTACCCTCGATTT
*
27737712 ATAAAATTAT
1 ATAGAATTAT
27737722 TGAAATACCA
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.42
Consensus pattern (27 bp):
ATAGAATTATCATTTTACCCTCGATTT
Found at i:27737612 original size:81 final size:81
Alignment explanation
Indices: 27737511--27737697 Score: 234
Period size: 81 Copynumber: 2.3 Consensus size: 81
27737501 ATTACTAAAA
* * *
27737511 TACCCTCGATTTGTAAAATTACTGA-AATACTCCTATA-AGATAGAATTATCATTTTACCCTCGA
1 TACCCTCGATTTATAAAATTAC-CATAATAC-CCTATATAGATAGAATTACCATTTTACCCTCGA
*
27737574 TTTACAGAATTATCGTTT
64 TTTACAGAATTATCGTCT
* * ** * ** *
27737592 TACCCTAGATTTATAGAATTACCATTTTACCCTTTATTTATAGAATTACCATTTTACTCTCGATT
1 TACCCTCGATTTATAAAATTACCATAATACCCTATATAGATAGAATTACCATTTTACCCTCGATT
27737657 TACAGAATTATCGTCT
66 TACAGAATTATCGTCT
27737673 TACCCTCGATTTATAAAATTACCAT
1 TACCCTCGATTTATAAAATTACCAT
27737698 TTTACCCTCG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 6 0.07
81 84 0.93
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATAATACCCTATATAGATAGAATTACCATTTTACCCTCGATT
TACAGAATTATCGTCT
Found at i:27737698 original size:81 final size:81
Alignment explanation
Indices: 27737550--27737720 Score: 270
Period size: 81 Copynumber: 2.1 Consensus size: 81
27737540 CTCCTATAAG
* * *
27737550 ATAGAATTATCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTAGATTTATAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTCTTACCCTAGATTTATAAAATTACC
**
27737615 ATTTTACCCTTTATTT
66 ATTTTACCCTCGATTT
* *
27737631 ATAGAATTACCATTTTACTCTCGATTTACAGAATTATCGTCTTACCCTCGATTTATAAAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTCTTACCCTAGATTTATAAAATTACC
27737696 ATTTTACCCTCGATTT
66 ATTTTACCCTCGATTT
*
27737712 ATAAAATTA
1 ATAGAATTA
27737721 TTGAAATACC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTCTTACCCTAGATTTATAAAATTACC
ATTTTACCCTCGATTT
Found at i:27737730 original size:27 final size:26
Alignment explanation
Indices: 27737673--27737839 Score: 97
Period size: 27 Copynumber: 6.2 Consensus size: 26
27737663 ATTATCGTCT
***
27737673 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTA-CAAAA
**
27737700 TACCCTCGATTTATAAAATTATTGAAA
1 TACCCTCGATTTATAAAATTA-CAAAA
* * *
27737727 TACCAT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTA-CAAAA
**
27737754 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTA-CAAAA
* *
27737781 TA-CCTCTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTA-CAAAA
* * *
27737808 TACCC-CTAATTTGTGAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTA-CAAAA
27737835 TACCC
1 TACCC
27737840 CTGTAGTGTA
Statistics
Matches: 112, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
26 5 0.04
27 104 0.93
28 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.32
Consensus pattern (26 bp):
TACCCTCGATTTATAAAATTACAAAA
Found at i:27737782 original size:54 final size:54
Alignment explanation
Indices: 27737682--27737812 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
27737672 TTACCCTCGA
*** ** ***
27737682 TTTATAAAATTACCATTTTACCCTCGATTTATAAAATTATTGAAATACCAT-TAG
1 TTTATAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACC-TCTAG
* *
27737736 TTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCTCTGG
1 TTTATAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCTCTAG
*
27737790 TTTGTAAAATTACCAAAATACCC
1 TTTATAAAATTACCAAAATACCC
27737813 CTAATTTGTG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (54 bp):
TTTATAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACCTCTAG
Found at i:27737840 original size:27 final size:27
Alignment explanation
Indices: 27737741--27737841 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
27737731 ATTAGTTTAC
* ***
27737741 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-AATTTGT
* **
27737768 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
27737795 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
*
27737822 GAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
27737842 GTAGTGTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 61 0.95
28 3 0.05
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAATTTGT
Found at i:27737854 original size:27 final size:27
Alignment explanation
Indices: 27737824--27738153 Score: 353
Period size: 27 Copynumber: 12.3 Consensus size: 27
27737814 TAATTTGTGA
* *
27737824 AATTACCAAAATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
27737851 AATTACTGAAATACCATTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
27737878 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
27737905 AATTACTGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
27737932 AATTATTGAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
27737959 -ATTACTGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
27737985 AATTATCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
27738012 AATGACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
27738039 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
27738066 AATTACTGAAATACCCTTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
* *
27738094 AA-TACTGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
27738120 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
27738147 AATTACC
1 AATTACC
27738154 ATTTTACCCC
Statistics
Matches: 257, Mismatches: 41, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
26 29 0.11
27 223 0.87
28 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:27737882 original size:54 final size:54
Alignment explanation
Indices: 27737824--27738153 Score: 389
Period size: 54 Copynumber: 6.1 Consensus size: 54
27737814 TAATTTGTGA
* * * *
27737824 AATTACCAAAATACCCCTGTAGTGTAGAATTACTGAAATACCATTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
* *
27737878 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
** * *
27737932 AATTATTGAAATACCCCTATATGGTAG-ATTACTGAAATA-CCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT-TGTAGGGTAG
* * * * * *
27737985 AATTATCGAAATATCCCTGTAAGGTAGAATGACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
* *
27738039 AATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTA-G
* * * * * *
27738094 AA-TACTGTAATACCCCTGTAGGGTAGAATTACCGAGAA-ACCCTCGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGA-AATACCCTTGTAGGGTAG
27738147 AATTACC
1 AATTACC
27738154 ATTTTACCCC
Statistics
Matches: 238, Mismatches: 32, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
52 3 0.01
53 45 0.19
54 183 0.77
55 7 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
Found at i:27738012 original size:134 final size:135
Alignment explanation
Indices: 27737832--27738125 Score: 441
Period size: 134 Copynumber: 2.2 Consensus size: 135
27737822 GAAATTACCA
* * *
27737832 AAATACCCCTGTAGTGTAGAATTACTGAAATACCATTGTAAGGTAGAATTACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCACTGTAAGGTAGAATGACCGAAATACCCCTG
* * * *
27737897 TAGGGTAGAATTACTGAAATACCCTTATAAGGTAGAATTATTGAAATACCCCTATATGGTA-GAT
66 TAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTATAGGGTAGGAA
27737961 TACTG
131 TACTG
*
27737966 AAATACCTCTGTAGGGTAGAATTA-TCGAAATATCC-CTGTAAGGTAGAATGACCGAAATACCCC
1 AAATACCCCTGTAGGGTAGAATTACT-GAAATA-CCACTGTAAGGTAGAATGACCGAAATACCCC
* * *
27738029 TGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGG
64 TGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTATAGGGTAGG
27738094 AATACTG
129 AATACTG
*
27738101 TAATACCCCTGTAGGGTAGAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
27738126 CGAGAAACCC
Statistics
Matches: 143, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
133 1 0.01
134 111 0.78
135 31 0.22
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (135 bp):
AAATACCCCTGTAGGGTAGAATTACTGAAATACCACTGTAAGGTAGAATGACCGAAATACCCCTG
TAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTATAGGGTAGGAA
TACTG
Found at i:27738632 original size:22 final size:22
Alignment explanation
Indices: 27738580--27738644 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
27738570 TTAAAGCCTT
* *
27738580 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
27738602 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
27738624 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
27738645 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:27738833 original size:27 final size:27
Alignment explanation
Indices: 27738803--27738904 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
27738793 ATTCTGTTAA
* *
27738803 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
27738830 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
27738857 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
27738884 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
27738905 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:27739074 original size:19 final size:19
Alignment explanation
Indices: 27739052--27739109 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
27739042 TTCTGATTTT
27739052 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
27739071 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
27739083 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
27739102 TGATTCTG
1 TGATTCTG
27739110 ATTTCGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:27739079 original size:6 final size:6
Alignment explanation
Indices: 27739041--27739185 Score: 77
Period size: 6 Copynumber: 23.3 Consensus size: 6
27739031 TTGCATTCAC
* * *
27739041 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
27739091 -TTACCTG ATACTG ATTCTG ATT-TCG ATTCT- ATTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCT-G ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
27739141 ATTCTG -TCACCTG ATTCTG ATTTTG ATTCTA ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
27739186 AATGTTTCTT
Statistics
Matches: 107, Mismatches: 15, Indels: 34
0.69 0.10 0.22
Matches are distributed among these distances:
5 10 0.09
6 74 0.69
7 18 0.17
8 5 0.05
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:27739087 original size:31 final size:31
Alignment explanation
Indices: 27739041--27739143 Score: 179
Period size: 31 Copynumber: 3.3 Consensus size: 31
27739031 TTGCATTCAC
27739041 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
27739073 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
27739104 ATTCTGATTTCGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
27739135 ATTCTGATT
1 ATTCTGATT
27739144 CTGTCACCTG
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 62 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:27739098 original size:25 final size:25
Alignment explanation
Indices: 27739070--27739170 Score: 103
Period size: 25 Copynumber: 3.8 Consensus size: 25
27739060 TTACCTGATA
27739070 CTGATTCTGATTTTGATTCTGTTACC
1 CTGATTCTGATTTTGATTCTGTTA-C
* *
27739096 TGATACTGATTCTGATTTCGATTCTATTAC
1 -----CTGATTCTGATTTTGATTCTGTTAC
* * *
27739126 CTGATACTGATTCTGATTCTGTCAC
1 CTGATTCTGATTTTGATTCTGTTAC
27739151 CTGATTCTGATTTTGATTCT
1 CTGATTCTGATTTTGATTCT
27739171 AATTCTAGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
25 38 0.62
30 1 0.02
31 22 0.36
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTTTGATTCTGTTAC
Found at i:27741249 original size:31 final size:32
Alignment explanation
Indices: 27741208--27741273 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
27741198 TTTAAATTAA
*
27741208 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
27741239 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
27741273 T
1 T
27741274 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:27751157 original size:49 final size:49
Alignment explanation
Indices: 27751030--27751564 Score: 924
Period size: 49 Copynumber: 11.1 Consensus size: 49
27751020 CCCTTTGGGA
* * * * *
27751030 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27751077 CCTGTCAC--ATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27751124 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751173 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27751222 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751271 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751320 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751369 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751418 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751467 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751514 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27751561 CTTA
1 CTTA
27751565 CTATCATTTC
Statistics
Matches: 473, Mismatches: 11, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 134 0.28
49 338 0.71
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27754751 original size:33 final size:32
Alignment explanation
Indices: 27754682--27754761 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
27754672 ATCTCATTAT
* *
27754682 GAAAAGG-AATTTCACCTGAAAAGGTGACACTT
1 GAAAAGGAAATGT-ACCTGAAAAGGTGACACTA
27754714 GAAAAGGATACATGTACCT-AAAAGGT-ACAACTA
1 GAAAAGGA-A-ATGTACCTGAAAAGGTGAC-ACTA
27754747 GAAAAGGAAATGTAC
1 GAAAAGGAAATGTAC
27754762 ACTGTGTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 6 0.14
32 10 0.24
33 18 0.43
34 5 0.12
35 3 0.07
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (32 bp):
GAAAAGGAAATGTACCTGAAAAGGTGACACTA
Found at i:27754775 original size:33 final size:32
Alignment explanation
Indices: 27754738--27754841 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 32
27754728 TACCTAAAAG
27754738 GTACAACTAGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTAGAAAAGGAAATGTACACT-TGTGT
*
27754771 GTACAACTTA-AAAAGGAAACGTACACTTTGTGT
1 GTACAAC-TAGAAAAGGAAATGTACAC-TTGTGT
*
27754804 GTAC-ACTTGAAAAGGAAATGTATGC-CTTGTGT
1 GTACAACTAGAAAAGGAAATGTA--CACTTGTGT
27754836 GTACAA
1 GTACAA
27754842 TGTGAAAAGT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
31 1 0.02
32 24 0.39
33 33 0.53
34 4 0.06
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (32 bp):
GTACAACTAGAAAAGGAAATGTACACTTGTGT
Found at i:27754880 original size:31 final size:31
Alignment explanation
Indices: 27754843--27755047 Score: 250
Period size: 31 Copynumber: 6.5 Consensus size: 31
27754833 TGTGTACAAT
* *
27754843 GTGAAAAGTGGTAGCTTCGGGTACCTAATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
27754874 GTGAAAAGTGGTAGCTTCGGCTACTTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
27754905 GTGAAAAGTGGTAGCTTCGGCTACCTGATGA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
27754936 GTGAAAAGTAGTAGCTTTGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
** *
27754967 GTGAAAAGTGGTAGCTTTAGCTAACTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
27754998 GTGAATAGTGGTCGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
27755031 GTGATAAGTGGTAGCTT
1 GTGAAAAGTGGTAGCTT
27755048 TAGCTACACT
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
31 131 0.87
32 1 0.01
33 18 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:27755517 original size:33 final size:32
Alignment explanation
Indices: 27755448--27755527 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
27755438 ATCTCATTAT
* *
27755448 GAAAAGG-AATTTCACCTGAAAAGGTGACACTT
1 GAAAAGGAAATGT-ACCTGAAAAGGTGACACTA
27755480 GAAAAGGATACATGTACCT-AAAAGGT-ACAACTA
1 GAAAAGGA-A-ATGTACCTGAAAAGGTGAC-ACTA
27755513 GAAAAGGAAATGTAC
1 GAAAAGGAAATGTAC
27755528 ACTGTGTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 6 0.14
32 10 0.24
33 18 0.43
34 5 0.12
35 3 0.07
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (32 bp):
GAAAAGGAAATGTACCTGAAAAGGTGACACTA
Found at i:27755541 original size:33 final size:32
Alignment explanation
Indices: 27755504--27755607 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 32
27755494 TACCTAAAAG
27755504 GTACAACTAGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTAGAAAAGGAAATGTACACT-TGTGT
*
27755537 GTACAACTTA-AAAAGGAAACGTACACTTTGTGT
1 GTACAAC-TAGAAAAGGAAATGTACAC-TTGTGT
*
27755570 GTAC-ACTTGAAAAGGAAATGTATGC-CTTGTGT
1 GTACAACTAGAAAAGGAAATGTA--CACTTGTGT
27755602 GTACAA
1 GTACAA
27755608 TGTGAAAAGT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
31 1 0.02
32 24 0.39
33 33 0.53
34 4 0.06
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (32 bp):
GTACAACTAGAAAAGGAAATGTACACTTGTGT
Found at i:27755646 original size:31 final size:31
Alignment explanation
Indices: 27755609--27755813 Score: 250
Period size: 31 Copynumber: 6.5 Consensus size: 31
27755599 TGTGTACAAT
* *
27755609 GTGAAAAGTGGTAGCTTCGGGTACCTAATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
27755640 GTGAAAAGTGGTAGCTTCGGCTACTTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
27755671 GTGAAAAGTGGTAGCTTCGGCTACCTGATGA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
27755702 GTGAAAAGTAGTAGCTTTGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
** *
27755733 GTGAAAAGTGGTAGCTTTAGCTAACTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
27755764 GTGAATAGTGGTCGCTTCGGCTACAAGTGA-CAA
1 GTGAAAAGTGGTAGCTTCGGCTAC--CTGATC-A
*
27755797 GTGATAAGTGGTAGCTT
1 GTGAAAAGTGGTAGCTT
27755814 TAGCTACACT
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
31 131 0.87
32 1 0.01
33 18 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:27755832 original size:766 final size:766
Alignment explanation
Indices: 27754360--27755890 Score: 3053
Period size: 766 Copynumber: 2.0 Consensus size: 766
27754350 AAGATCGGAC
27754360 GAAAAATCAAGAAAAATGAAAAATTACCAAAATGCCCCTGAATCTTGATATTTCTGTAATTTAGC
1 GAAAAATCAAGAAAAATGAAAAATTACCAAAATGCCCCTGAATCTTGATATTTCTGTAATTTAGC
*
27754425 CAGGTAAGCTCGTATAACTTAATTAAATATGAAAATGTATTGATTTCATTATTGAATTGTGAGAA
66 CAGGTAAGCTCATATAACTTAATTAAATATGAAAATGTATTGATTTCATTATTGAATTGTGAGAA
27754490 TTATGATATGTAAATGACATGAATATGTAGCATGAAAATGTTAACATATGATATATGTGATTGAT
131 TTATGATATGTAAATGACATGAATATGTAGCATGAAAATGTTAACATATGATATATGTGATTGAT
27754555 AAAAATGGTATAAGAATCCGTTCGAATATTGAATTCCGATTGGATAGGTGATTACCTTTATAAAT
196 AAAAATGGTATAAGAATCCGTTCGAATATTGAATTCCGATTGGATAGGTGATTACCTTTATAAAT
27754620 GAGGTCTTGCATGTGTTGTAGTAAAGGTTATTCCGAAAGGAGTAATCTTATGATCTCATTATGAA
261 GAGGTCTTGCATGTGTTGTAGTAAAGGTTATTCCGAAAGGAGTAATCTTATGATCTCATTATGAA
27754685 AAGGAATTTCACCTGAAAAGGTGACACTTGAAAAGGATACATGTACCTAAAAGGTACAACTAGAA
326 AAGGAATTTCACCTGAAAAGGTGACACTTGAAAAGGATACATGTACCTAAAAGGTACAACTAGAA
27754750 AAGGAAATGTACACTGTGTGTGTACAACTTAAAAAGGAAACGTACACTTTGTGTGTACACTTGAA
391 AAGGAAATGTACACTGTGTGTGTACAACTTAAAAAGGAAACGTACACTTTGTGTGTACACTTGAA
27754815 AAGGAAATGTATGCCTTGTGTGTACAATGTGAAAAGTGGTAGCTTCGGGTACCTAATCAGTGAAA
456 AAGGAAATGTATGCCTTGTGTGTACAATGTGAAAAGTGGTAGCTTCGGGTACCTAATCAGTGAAA
27754880 AGTGGTAGCTTCGGCTACTTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATGAGTGAAAAGT
521 AGTGGTAGCTTCGGCTACTTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATGAGTGAAAAGT
27754945 AGTAGCTTTGGCTACCTGATTAGTGAAAAGTGGTAGCTTTAGCTAACTGATCAGTGAATAGTGGT
586 AGTAGCTTTGGCTACCTGATTAGTGAAAAGTGGTAGCTTTAGCTAACTGATCAGTGAATAGTGGT
27755010 CGCTTCGGCTACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
651 CGCTTCGGCTACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
27755075 GTGAAAAGTGTGGAAGTGCAAGTCCATAGTTGAACTATGGCAAAGTGATAT
716 GTGAAAAGTGTGGAAGTGCAAGTCCATAGTTGAACTATGGCAAAGTGATAT
27755126 GAAAAATCAAGAAAAATGAAAAATTACCAAAATGCCCCTGAATCTTGATATTTCTGTAATTTAGC
1 GAAAAATCAAGAAAAATGAAAAATTACCAAAATGCCCCTGAATCTTGATATTTCTGTAATTTAGC
27755191 CAGGTAAGCTCATATAACTTAATTAAATATGAAAATGTATTGATTTCATTATTGAATTGTGAGAA
66 CAGGTAAGCTCATATAACTTAATTAAATATGAAAATGTATTGATTTCATTATTGAATTGTGAGAA
27755256 TTATGATATGTAAATGACATGAATATGTAGCATGAAAATGTTAACATATGATATATGTGATTGAT
131 TTATGATATGTAAATGACATGAATATGTAGCATGAAAATGTTAACATATGATATATGTGATTGAT
27755321 AAAAATGGTATAAGAATCCGTTCGAATATTGAATTCCGATTGGATAGGTGATTACCTTTATAAAT
196 AAAAATGGTATAAGAATCCGTTCGAATATTGAATTCCGATTGGATAGGTGATTACCTTTATAAAT
27755386 GAGGTCTTGCATGTGTTGTAGTAAAGGTTATTCCGAAAGGAGTAATCTTATGATCTCATTATGAA
261 GAGGTCTTGCATGTGTTGTAGTAAAGGTTATTCCGAAAGGAGTAATCTTATGATCTCATTATGAA
27755451 AAGGAATTTCACCTGAAAAGGTGACACTTGAAAAGGATACATGTACCTAAAAGGTACAACTAGAA
326 AAGGAATTTCACCTGAAAAGGTGACACTTGAAAAGGATACATGTACCTAAAAGGTACAACTAGAA
27755516 AAGGAAATGTACACTGTGTGTGTACAACTTAAAAAGGAAACGTACACTTTGTGTGTACACTTGAA
391 AAGGAAATGTACACTGTGTGTGTACAACTTAAAAAGGAAACGTACACTTTGTGTGTACACTTGAA
27755581 AAGGAAATGTATGCCTTGTGTGTACAATGTGAAAAGTGGTAGCTTCGGGTACCTAATCAGTGAAA
456 AAGGAAATGTATGCCTTGTGTGTACAATGTGAAAAGTGGTAGCTTCGGGTACCTAATCAGTGAAA
27755646 AGTGGTAGCTTCGGCTACTTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATGAGTGAAAAGT
521 AGTGGTAGCTTCGGCTACTTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATGAGTGAAAAGT
27755711 AGTAGCTTTGGCTACCTGATTAGTGAAAAGTGGTAGCTTTAGCTAACTGATCAGTGAATAGTGGT
586 AGTAGCTTTGGCTACCTGATTAGTGAAAAGTGGTAGCTTTAGCTAACTGATCAGTGAATAGTGGT
27755776 CGCTTCGGCTACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
651 CGCTTCGGCTACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
27755841 GTGAAAAGTGTGGAAGTGCAAGTCCATAGTTGAACTATGGCAAAGTGATA
716 GTGAAAAGTGTGGAAGTGCAAGTCCATAGTTGAACTATGGCAAAGTGATA
27755891 AAGTGTGCCA
Statistics
Matches: 764, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
766 764 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (766 bp):
GAAAAATCAAGAAAAATGAAAAATTACCAAAATGCCCCTGAATCTTGATATTTCTGTAATTTAGC
CAGGTAAGCTCATATAACTTAATTAAATATGAAAATGTATTGATTTCATTATTGAATTGTGAGAA
TTATGATATGTAAATGACATGAATATGTAGCATGAAAATGTTAACATATGATATATGTGATTGAT
AAAAATGGTATAAGAATCCGTTCGAATATTGAATTCCGATTGGATAGGTGATTACCTTTATAAAT
GAGGTCTTGCATGTGTTGTAGTAAAGGTTATTCCGAAAGGAGTAATCTTATGATCTCATTATGAA
AAGGAATTTCACCTGAAAAGGTGACACTTGAAAAGGATACATGTACCTAAAAGGTACAACTAGAA
AAGGAAATGTACACTGTGTGTGTACAACTTAAAAAGGAAACGTACACTTTGTGTGTACACTTGAA
AAGGAAATGTATGCCTTGTGTGTACAATGTGAAAAGTGGTAGCTTCGGGTACCTAATCAGTGAAA
AGTGGTAGCTTCGGCTACTTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATGAGTGAAAAGT
AGTAGCTTTGGCTACCTGATTAGTGAAAAGTGGTAGCTTTAGCTAACTGATCAGTGAATAGTGGT
CGCTTCGGCTACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAA
GTGAAAAGTGTGGAAGTGCAAGTCCATAGTTGAACTATGGCAAAGTGATAT
Found at i:27755908 original size:27 final size:27
Alignment explanation
Indices: 27755877--27755941 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
27755867 TAGTTGAACT
*
27755877 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
27755904 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
27755931 ATAGCAAAGTG
1 ATGGCAAAGTG
27755942 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:27756034 original size:34 final size:34
Alignment explanation
Indices: 27755996--27756069 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
27755986 CATGGCAAAG
*
27755996 TGTGAAAAGTAGGTATGGTATTTCCATACTGAGC
1 TGTGAAAAGTAGGTATGCTATTTCCATACTGAGC
* * *
27756030 TGTGAAACGTAGGTATGCTGTTTCCATACTGAGT
1 TGTGAAAAGTAGGTATGCTATTTCCATACTGAGC
27756064 TGTGAA
1 TGTGAA
27756070 TCGTGGCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (34 bp):
TGTGAAAAGTAGGTATGCTATTTCCATACTGAGC
Found at i:27774385 original size:13 final size:13
Alignment explanation
Indices: 27774367--27774393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27774357 GCTCGGCAAG
27774367 GACACGCCCGTGT
1 GACACGCCCGTGT
27774380 GACACGCCCGTGT
1 GACACGCCCGTGT
27774393 G
1 G
27774394 CGATTACTCC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:27779271 original size:40 final size:40
Alignment explanation
Indices: 27779223--27779370 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
27779213 GCAAACACAT
* * *
27779223 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
27779263 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
27779303 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27779343 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
27779371 TCCAATGCTC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:27787980 original size:40 final size:40
Alignment explanation
Indices: 27787932--27788079 Score: 269
Period size: 40 Copynumber: 3.7 Consensus size: 40
27787922 GCAAACACAT
* *
27787932 TTGCCTTCGGGTCTTAACCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
27787972 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27788012 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
27788052 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
27788080 TCCAATGCTC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:27797445 original size:86 final size:86
Alignment explanation
Indices: 27797300--27798201 Score: 1804
Period size: 86 Copynumber: 10.5 Consensus size: 86
27797290 ATAGTACAGG
27797300 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797365 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797386 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797451 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797472 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797537 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797558 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797623 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797644 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797709 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797730 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797795 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797816 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797881 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797902 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27797967 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27797988 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27798053 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27798074 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
27798139 TCGAGAATTTTTGGTCAAGCC
66 TCGAGAATTTTTGGTCAAGCC
27798160 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTC
1 ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTC
27798202 TTAATAATTT
Statistics
Matches: 816, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 816 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (86 bp):
ATTCGAATAATGTTCTCGTCTATTTCTCTTGAAACTAGACTCATATGTCTACTGACTAATTTTTT
TCGAGAATTTTTGGTCAAGCC
Found at i:27799305 original size:20 final size:18
Alignment explanation
Indices: 27799271--27799307 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
27799261 GCAATTCATA
27799271 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
27799289 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
27799308 ACTTAGCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:27810297 original size:28 final size:27
Alignment explanation
Indices: 27810240--27810391 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
27810230 TAAATTGTGC
* *
27810240 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27810267 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
27810295 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
27810322 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
27810350 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
27810377 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27810392 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:27810305 original size:55 final size:55
Alignment explanation
Indices: 27810240--27810391 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
27810230 TAAATTGTGC
* *
27810240 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
27810295 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
27810350 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
27810392 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:27814006 original size:46 final size:45
Alignment explanation
Indices: 27813912--27814127 Score: 181
Period size: 46 Copynumber: 4.7 Consensus size: 45
27813902 CGTGCTGACT
* * * *
27813912 CATGTCCCAGACATGTCTTACACTAGC-ACATCTCGTA-GCCAACG
1 CATGTCCCAGACATGTCTTACATTGGCTACATCTCG-AGGCCGATG
*
27813956 CATGTCCCAGACATGTCTGACATTGGCTAACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACATTGGCT-ACATCTCGAGGCCGATG
* *
27814002 CATGTCCCAGACATGTCTTACATTGGATCT-CATACT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACATTGG--CTACAT-CTCGAGGCCGATG
* * * * *
27814048 CATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACA-TTG-GCTACATCTCGAGGCCGATG
* *
27814094 CCATGTCCCATACATGGTCTTACAATGGCATACA
1 -CATGTCCCAGACAT-GTCTTACATTGGC-TACA
27814128 AATCTCATGT
Statistics
Matches: 139, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 24 0.17
45 3 0.02
46 82 0.59
47 19 0.14
48 11 0.08
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACATTGGCTACATCTCGAGGCCGATG
Found at i:27820601 original size:150 final size:150
Alignment explanation
Indices: 27820357--27821358 Score: 1961
Period size: 150 Copynumber: 6.7 Consensus size: 150
27820347 CATTTGCAGC
* *
27820357 CAAAGCTATCTGGTACGCATAGTAG-CTTGCACTTAGTACTACACATGCGACCAATTATCCGGTA
1 CAAAGTTATCGGGTACGCATAGTAGCCTT-CACTTAGTACTACACATGCGACCAATTATCCGGTA
27820421 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGC
65 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGC
27820486 ACTTAGTACTACACACGTGAT
130 ACTTAGTACTACACACGTGAT
27820507 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
27820572 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
27820637 CTTAGTACTACACACGTGAT
131 CTTAGTACTACACACGTGAT
27820657 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
27820722 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
27820787 CTTAGTACTACACACGTGAT
131 CTTAGTACTACACACGTGAT
27820807 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
27820872 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
27820937 CTTAGTACTACACACGTGAT
131 CTTAGTACTACACACGTGAT
27820957 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
27821022 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
27821087 CTTAGTACTACACACGTGAT
131 CTTAGTACTACACACGTGAT
27821107 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
27821172 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
27821237 CTTAGTACTACACACGTGAT
131 CTTAGTACTACACACGTGAT
27821257 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
1 CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
*
27821322 ACGTAGTAGCCTACACTCAGTACTACACACGTGACCT
66 ACGTAGTAGCCTACACTTAGTACTACACACGTGACCT
27821359 CACAATAGAT
Statistics
Matches: 848, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
150 845 1.00
151 3 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (150 bp):
CAAAGTTATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATGCGACCAATTATCCGGTAC
ACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCA
CTTAGTACTACACACGTGAT
Found at i:27834340 original size:23 final size:23
Alignment explanation
Indices: 27834303--27834370 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 23
27834293 CCCCTAGTTC
* *
27834303 GCAACTTAACAGGCGAACAATTT
1 GCAACTAAACTGGCGAACAATTT
*
27834326 GCAACTAAACTGGCGAAACCCAGTTT
1 GCAACTAAACTGGCG-AA--CAATTT
27834352 GCAACTAAACTGGCGAACA
1 GCAACTAAACTGGCGAACA
27834371 TTCAGCTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 15 0.38
24 2 0.05
25 2 0.05
26 20 0.51
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (23 bp):
GCAACTAAACTGGCGAACAATTT
Found at i:27836562 original size:3 final size:3
Alignment explanation
Indices: 27836554--27836581 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27836544 AAATATATAT
27836554 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27836582 AAAGCAAGGT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27836753 original size:27 final size:28
Alignment explanation
Indices: 27836698--27836753 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
27836688 TCTTGCATAG
**
27836698 ATCTTAATCAATATATAATATTTTATTT
1 ATCTTAAAAAATATATAATATTTTATTT
*
27836726 ATCTTAAAAAATATA-AATATTTTTTTT
1 ATCTTAAAAAATATATAATATTTTATTT
27836753 A
1 A
27836754 AAAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
ATCTTAAAAAATATATAATATTTTATTT
Found at i:27836808 original size:22 final size:19
Alignment explanation
Indices: 27836768--27836807 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
27836758 TTTTTAAAAA
*
27836768 GAAGGAAATTGCATTTGAT
1 GAAGAAAATTGCATTTGAT
27836787 GAAGAAAATTGCATTTGAT
1 GAAGAAAATTGCATTTGAT
27836806 GA
1 GA
27836808 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (19 bp):
GAAGAAAATTGCATTTGAT
Found at i:27838150 original size:21 final size:21
Alignment explanation
Indices: 27838126--27838168 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27838116 ATCAAATATA
27838126 CATACCATATCATACATCCAT
1 CATACCATATCATACATCCAT
27838147 CATACCATATCATACATCCAT
1 CATACCATATCATACATCCAT
27838168 C
1 C
27838169 GATATCAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (21 bp):
CATACCATATCATACATCCAT
Found at i:27850578 original size:122 final size:122
Alignment explanation
Indices: 27850349--27850591 Score: 380
Period size: 122 Copynumber: 2.0 Consensus size: 122
27850339 GGCGTGTGGC
* * * * *
27850349 ACGCCCATTTCTAGCACCTGTGGACGACACGAGCAAAATAACACGAGCGTGTGCAGAGGTGCACG
1 ACGCCCATGTCTAGCACCCGTGGACGACACGAGCAAAATAACACGAGCATGTACAGAGGTACACG
* *
27850414 ACCGTGGGAGAAGGAAACCGCGCCAGACACTGTCGTGCGACACGATCATGTAGCCAT
66 ACCGTGGGAGAAGGAAACCGCGCCAGACACGGCCGTGCGACACGATCATGTAGCCAT
* *
27850471 ACGCCCATGTCTAGCACCCGTTGACGACACGATCAAAATAACACGAGCATGTACAGAGGTACACG
1 ACGCCCATGTCTAGCACCCGTGGACGACACGAGCAAAATAACACGAGCATGTACAGAGGTACACG
*
27850536 ACCGTGGGAGAAGCG-AACCGCGCCAGACACGGCCGTGTGACACGATCATGTAGCCA
66 ACCGTGGGAGAAG-GAAACCGCGCCAGACACGGCCGTGCGACACGATCATGTAGCCA
27850592 CATGGCCTAG
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
122 109 0.99
123 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.28, T:0.14
Consensus pattern (122 bp):
ACGCCCATGTCTAGCACCCGTGGACGACACGAGCAAAATAACACGAGCATGTACAGAGGTACACG
ACCGTGGGAGAAGGAAACCGCGCCAGACACGGCCGTGCGACACGATCATGTAGCCAT
Found at i:27852535 original size:13 final size:13
Alignment explanation
Indices: 27852517--27852543 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27852507 GAAGTAATCG
27852517 CACACGGGCGTGT
1 CACACGGGCGTGT
27852530 CACACGGGCGTGT
1 CACACGGGCGTGT
27852543 C
1 C
27852544 CTTATCGAGC
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:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:27855092 original size:32 final size:32
Alignment explanation
Indices: 27855022--27855093 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
27855012 ACCACAATAT
* *
27855022 CATTCACACTTACGAGTTACCATCAGGCATAG
1 CATTCATACTTACAAGTTACCATCAGGCATAG
27855054 CATTCATACTTACAAGTTACCATCAGGCATAG
1 CATTCATACTTACAAGTTACCATCAGGCATAG
27855086 CATTCATA
1 CATTCATA
27855094 ATAATGATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (32 bp):
CATTCATACTTACAAGTTACCATCAGGCATAG
Found at i:27858288 original size:40 final size:40
Alignment explanation
Indices: 27858233--27858309 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
27858223 GCCCTAGAAA
* *
27858233 TACCTTAGAAACTATTCGGGACTAAATTGAAAACATTAGG
1 TACCTTAGAAACTATTCGGAACTAAATTCAAAACATTAGG
*
27858273 TACCTTAGAAACTATTTGGAACTAAATTCAAAACATT
1 TACCTTAGAAACTATTCGGAACTAAATTCAAAACATT
27858310 CAAAAAGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.30
Consensus pattern (40 bp):
TACCTTAGAAACTATTCGGAACTAAATTCAAAACATTAGG
Found at i:27859437 original size:20 final size:20
Alignment explanation
Indices: 27859404--27859450 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
27859394 AAATCTGTTT
* *
27859404 AGGGGTACCAAAGTACAAAC
1 AGGGGCACCAAAGTAAAAAC
*
27859424 AGGGGCACCGAAGTAAAAAC
1 AGGGGCACCAAAGTAAAAAC
27859444 AGGGGCA
1 AGGGGCA
27859451 AGTGTGTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.32, T:0.06
Consensus pattern (20 bp):
AGGGGCACCAAAGTAAAAAC
Found at i:27859463 original size:40 final size:40
Alignment explanation
Indices: 27859419--27859504 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
27859409 TACCAAAGTA
* * * *
27859419 CAAACAGGGGCACCGAAGTAAAAACAGGGGCAAGTGTGTG
1 CAAACAGGAGCACCAAAGTAAAAACAGGGACAAGTATGTG
* * *
27859459 CAAACAGGAGTACCAAAGTACAAACAGGGACACGTATGTG
1 CAAACAGGAGCACCAAAGTAAAAACAGGGACAAGTATGTG
27859499 CAAACA
1 CAAACA
27859505 TTCAGTAGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.20, G:0.28, T:0.10
Consensus pattern (40 bp):
CAAACAGGAGCACCAAAGTAAAAACAGGGACAAGTATGTG
Found at i:27864237 original size:25 final size:24
Alignment explanation
Indices: 27864175--27864246 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
27864165 AGCTTATTAC
*
27864175 TTTCAGCTCATGAGAGCTTACTGA
1 TTTCAGCTCATGAGAGCTTACCGA
*
27864199 TTTTAGCTCATGAGAGCTTACCGA
1 TTTCAGCTCATGAGAGCTTACCGA
*
27864223 TTCTCAGCTCATGAGAGCATACCG
1 TT-TCAGCTCATGAGAGCTTACCG
27864247 GTTCATAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 24 0.56
25 19 0.44
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (24 bp):
TTTCAGCTCATGAGAGCTTACCGA
Found at i:27864256 original size:25 final size:24
Alignment explanation
Indices: 27864179--27864257 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 24
27864169 TATTACTTTC
* *
27864179 AGCTCATGAGAGCTTACTGATTTT
1 AGCTCATGAGAGCTTACCGATTCT
27864203 AGCTCATGAGAGCTTACCGATTCT
1 AGCTCATGAGAGCTTACCGATTCT
* *
27864227 CAGCTCATGAGAGCATACCGGTTCAT
1 -AGCTCATGAGAGCTTACCGATTC-T
27864253 AGCTC
1 AGCTC
27864258 GTATGAGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 22 0.45
25 26 0.53
26 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCTCATGAGAGCTTACCGATTCT
Found at i:27866754 original size:50 final size:50
Alignment explanation
Indices: 27866698--27867031 Score: 334
Period size: 52 Copynumber: 6.6 Consensus size: 50
27866688 CTCTGGTATG
* * * *
27866698 CATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
* * * * *
27866748 CGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACA
*
27866800 CATAGTAGCCTGCACATAGTACTACACATGTG---TAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
* * * * * * **
27866847 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTAT-TGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCT-GATACA
* * * *
27866898 CATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
* * * * *
27866948 CGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACA
*
27867000 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
27867032 TTCTCACAAC
Statistics
Matches: 229, Mismatches: 45, Indels: 18
0.78 0.15 0.06
Matches are distributed among these distances:
47 41 0.18
49 1 0.00
50 72 0.31
51 39 0.17
52 76 0.33
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
Found at i:27866911 original size:51 final size:50
Alignment explanation
Indices: 27866689--27867027 Score: 281
Period size: 50 Copynumber: 6.7 Consensus size: 50
27866679 ACCAAAGCTC
** * * * *
27866689 TCTGGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
* * * *
27866739 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC--GAACAA
*** * * * *
27866791 TCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG---TAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
* * * *
27866838 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CAA
** * * * *
27866889 T-TGGGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACAA
1 TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
* * * *
27866939 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC--GAACAA
*** *
27866991 TCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
27867028 TGTGTTCTCA
Statistics
Matches: 230, Mismatches: 49, Indels: 18
0.77 0.16 0.06
Matches are distributed among these distances:
47 41 0.18
50 77 0.33
51 39 0.17
52 73 0.32
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
Found at i:27867196 original size:13 final size:14
Alignment explanation
Indices: 27867178--27867211 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27867168 CACTTCTCAT
*
27867178 ATAATAACA-AAAG
1 ATAATAACATAAAA
27867191 ATAATAACATAAAA
1 ATAATAACATAAAA
27867205 ATAATAA
1 ATAATAA
27867212 TTGATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (14 bp):
ATAATAACATAAAA
Found at i:27870329 original size:43 final size:42
Alignment explanation
Indices: 27870266--27870423 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
27870256 TATGTGTTTT
*
27870266 TGTGTAAGACCATGTTTGGGACGTTGGCATCGATTATGATTAA
1 TGTGTAAGACCATGTCTGGGACGTTGGCATCGATT-TGATTAA
* **
27870309 TGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATT--
1 TGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGATTAA
* *
27870350 TGATGTAAGACCCTGTCTGGGACAG-TGGCATTGATATTTGATTACA
1 TG-TGTAAGACCATGTCTGGGAC-GTTGGCATCG--ATTTGATTA-A
* * *
27870396 --TGTAAGACCACGTCTGAGATGTTGGCAT
1 TGTGTAAGACCATGTCTGGGACGTTGGCAT
27870424 TGTATAAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 25 0.27
43 64 0.68
44 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGATTAA
Found at i:27884139 original size:27 final size:27
Alignment explanation
Indices: 27884109--27884163 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
27884099 ATTCAAGGAG
27884109 TTCATTCATCATTCAGGAAGTTTTACT
1 TTCATTCATCATTCAGGAAGTTTTACT
* *
27884136 TTCATTCATCATTCGGGATGTTTTACT
1 TTCATTCATCATTCAGGAAGTTTTACT
27884163 T
1 T
27884164 ATCTCCCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (27 bp):
TTCATTCATCATTCAGGAAGTTTTACT
Found at i:27888737 original size:43 final size:43
Alignment explanation
Indices: 27888654--27888739 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
27888644 AAAAATCGTA
*
27888654 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAGCCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATAT
*
27888697 CAATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAATCACATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAACCACATAT
27888740 TGAAATCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATAT
Found at i:27900105 original size:41 final size:41
Alignment explanation
Indices: 27900048--27900140 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
27900038 AGCCACCGGC
* ** * *
27900048 GGATCCACGGTCATCAAGCAACTATGGGATTCTTAATCGGT
1 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
27900089 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
1 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
27900130 GGATCCACGGT
1 GGATCCACGGT
27900141 TGGTAAGCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (41 bp):
GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
Found at i:27900149 original size:41 final size:41
Alignment explanation
Indices: 27900048--27900166 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
27900038 AGCCACCGGC
* ** * *
27900048 GGATCCACGGTCATCAAGCAACTATGGGATTCTTAATCGGT
1 GGATCCACGGTCATCAAGCAACAATGCAATCCTCAATCGGT
*
27900089 GGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCGGT
1 GGATCCACGGTCATCAAGCAACAATGCAATCCTCAATCGGT
** **
27900130 GGATCCACGGTTGGT-AAGCAACAATGTGATCCTCAAT
1 GGATCCACGG-TCATCAAGCAACAATGCAATCCTCAAT
27900167 TTCTTCCTCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 65 0.97
42 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (41 bp):
GGATCCACGGTCATCAAGCAACAATGCAATCCTCAATCGGT
Found at i:27900463 original size:27 final size:27
Alignment explanation
Indices: 27900404--27900718 Score: 258
Period size: 27 Copynumber: 11.7 Consensus size: 27
27900394 TTTCACCCTA
* * * *
27900404 CAAGGGTGTTTTGGTAAATCTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
27900430 CTAAGGGTATTTTTTGTAATTTTGTAAAT
1 C-AAGGGTA-TTTTGGTAATTTTATAAAT
* * * *
27900459 CAGGGGTATTTTTGTAATTTTCTAGAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* **
27900486 CAAGAGTATTTTTATAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
27900513 CGAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
27900540 CGAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
27900567 TAAGGGTTTTTTGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
27900594 CAGGGGTAATTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
27900621 CAGGGGTATTTTGGTAATTTTCT-AAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
27900647 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
27900674 CAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
27900700 CAAGGGTATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
27900719 CTACCCTACA
Statistics
Matches: 241, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
26 47 0.20
27 174 0.72
28 19 0.08
29 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:27900689 original size:26 final size:27
Alignment explanation
Indices: 27900607--27900718 Score: 111
Period size: 26 Copynumber: 4.2 Consensus size: 27
27900597 GGGTAATTTG
** * **
27900607 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTGTAAACCAAGGGTATTTCA
* * * **
27900634 GTAATTTTCT-AATCGAGGGTATTTTG
1 GTAATTTTGTAAACCAAGGGTATTTCA
27900660 GTAATTTTGTAAACCAAGGGTA-TTCA
1 GTAATTTTGTAAACCAAGGGTATTTCA
*
27900686 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAACCAAGGGTATTTCA
27900713 GTAATT
1 GTAATT
27900719 CTACCCTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
26 46 0.64
27 26 0.36
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAGGGTATTTCA
Found at i:27912932 original size:37 final size:37
Alignment explanation
Indices: 27912882--27912987 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
27912872 CTTTAGCTCA
* *
27912882 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
27912919 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
27912956 GACATAATCTCCACACGTAGTCATCGGGTCTT
1 GACAAAATCTCCACACGTAGTCATCGGGTCTT
27912988 TAGAGCTCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:27913184 original size:47 final size:47
Alignment explanation
Indices: 27913108--27913226 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
27913098 CTTCGGGACT
* * * * *
27913108 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
27913155 TATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
*
27913202 TATCACATATATATACTTTCACATT
1 TATCACATATATACACTTTCACATT
27913227 TATTCAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:27923166 original size:39 final size:40
Alignment explanation
Indices: 27923065--27923166 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
27923055 TATTCGGATG
*
27923065 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
27923105 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
* *
27923145 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
27923167 TACTTGGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 17 0.29
40 41 0.71
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
Found at i:27936059 original size:42 final size:42
Alignment explanation
Indices: 27935950--27936111 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
27935940 CAATATGTGT
*
27935950 TTTCATGTAAGACCATATTTGGGACATTGGCATCG-ACTTATGA
1 TTTCATGTAAGACCATGTTTGGGACATTGGCATCGTA-TT-TGA
* * *
27935993 TTT-ATGTGTAAGACCATGTCTGGGACATTGACAGCGTATTTGA
1 TTTCA--TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGA
* * *
27936036 TTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGA
* * * * *
27936079 TTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TTTCATGTAAGACCATGTTTGGGACATTGGCAT
27936112 TTTACGAGCT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.27
43 41 0.43
44 28 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TTTCATGTAAGACCATGTTTGGGACATTGGCATCGTATTTGA
Found at i:27941217 original size:43 final size:43
Alignment explanation
Indices: 27941068--27941222 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
27941058 ATACCATACA
* * *
27941068 ATGCCAACGTCCTAGATGTGGTCTTACAT-GCT-ATCTCATATCG
1 ATGCCAACGTCCCAGATATGGTCTTAC-TCG-TAATCACATATCG
* ** * * *
27941111 ATGCC-ACTTTCATAGATAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGATATGGTCTTACTCGTAATCACATATCG
* ** *
27941152 ATGCCAATGTCCCAGGCATGGTCTTACTCGTAACCACATATCG
1 ATGCCAACGTCCCAGATATGGTCTTACTCGTAATCACATATCG
*
27941195 ATGCCAACGTCCCAGATGTGGTCTTACT
1 ATGCCAACGTCCCAGATATGGTCTTACT
27941223 AGAGAACACA
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
41 22 0.26
42 16 0.19
43 47 0.55
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATATGGTCTTACTCGTAATCACATATCG
Found at i:27941233 original size:43 final size:43
Alignment explanation
Indices: 27941150--27941235 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
27941140 GAATCAAATA
* * * *
27941150 CGATGCCAATGTCCCAGGCATGGTCTTACTCGTAACCACATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACTAGTAAACACATAT
**
27941193 CGATGCCAACGTCCCAGATGTGGTCTTACTAG-AGAACACATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACTAGTA-AACACATAT
27941236 ATGTATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATGGTCTTACTAGTAAACACATAT
Found at i:27946022 original size:16 final size:17
Alignment explanation
Indices: 27945996--27946036 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
27945986 TAAGTAAATG
* *
27945996 ATGAAAT-AAACTAATT
1 ATGAAATAAAACAAAGT
27946012 AT-AAATAAAACAAAGT
1 ATGAAATAAAACAAAGT
27946028 ATGAAATAA
1 ATGAAATAA
27946037 GGCTATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (17 bp):
ATGAAATAAAACAAAGT
Found at i:27946960 original size:43 final size:44
Alignment explanation
Indices: 27946900--27947017 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 44
27946890 TCTAGGACGT
* *
27946900 TGGCATCAACT-TATGATTTACATGTAAGACCATGTCCGGGACAT
1 TGGCATCAA-TATTTGATTTACATGTAAGACCATGTCCGGGACAG
* * ** * *
27946944 TGGTATC-GTATTTGATTT-TGTGTAAGACCTTGTCTGGGACAG
1 TGGCATCAATATTTGATTTACATGTAAGACCATGTCCGGGACAG
*
27946986 TGGCATCAATATTTGA-TTACATGTAAAACCAT
1 TGGCATCAATATTTGATTTACATGTAAGACCAT
27947018 ATTTGGGACG
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
42 28 0.49
43 23 0.40
44 6 0.11
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (44 bp):
TGGCATCAATATTTGATTTACATGTAAGACCATGTCCGGGACAG
Found at i:27948657 original size:54 final size:54
Alignment explanation
Indices: 27948594--27948701 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
27948584 TCAACTAAAG
27948594 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
1 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
27948648 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
1 GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
27948702 CTAACCTGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (54 bp):
GACTACATTAGGTCATGTTTGATTATAGGTTGGTGTTCGTGGATTGTAACACCC
Found at i:27949897 original size:43 final size:43
Alignment explanation
Indices: 27949850--27949984 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 43
27949840 GGACGTGGTA
* * *
27949850 TTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGTC
1 TTACACGTAATTCAATATCGATGCCTATGTCCCAGACACGGTC
** * * *
27949893 TTACACG-AAACCAGATA-CAATGCCAATGTCCCAGACATGGTC
1 TTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACACGGTC
* * *
27949935 TTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACACGGTC
1 TTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACACGGTC
27949978 TTACACG
1 TTACACG
27949985 ATGTCTTAGA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
42 32 0.45
43 36 0.51
44 2 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
TTACACGTAATTCAATATCGATGCCTATGTCCCAGACACGGTC
Found at i:27950274 original size:8 final size:8
Alignment explanation
Indices: 27950261--27950289 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27950251 TACAATAAAA
27950261 ATTCAACC
1 ATTCAACC
27950269 ATTCAACC
1 ATTCAACC
27950277 ATTCAACC
1 ATTCAACC
27950285 ATTCA
1 ATTCA
27950290 TTTCATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
ATTCAACC
Found at i:27952769 original size:37 final size:37
Alignment explanation
Indices: 27952719--27952804 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 37
27952709 TTATTACGAA
* *
27952719 GTCTTACCCGGACATAATCTCCACACGA-AGTTATCAG
1 GTCTTACCCGGACAAAATCTCCACAC-ATAGTCATCAG
*
27952756 GTCTTACCCGGACAAAATCTCCACACATAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACATAGTCATCAG
27952793 GTCTTACCCGGA
1 GTCTTACCCGGA
27952805 ATATATTTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 1 0.02
37 44 0.98
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACATAGTCATCAG
Found at i:27972015 original size:84 final size:84
Alignment explanation
Indices: 27971874--27972042 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
27971864 CAAATCGAGG
27971874 AGCTAGATGAATGGCGAACGCATAAATCGAGAACACACGATAAACCAAAACTACGCCAGAACGAG
1 AGCTAGATGAATGGCGAACGCATAAATCGAGAACACACGATAAACCAAAACTACGCCAGAACGAG
27971939 CTCAATACCTTCCCAAATC
66 CTCAATACCTTCCCAAATC
27971958 AGCTAGATGAATGGCGAACGCATAAATCGAGAACACACGATAAACCAAAACTACGCCAGAACGAG
1 AGCTAGATGAATGGCGAACGCATAAATCGAGAACACACGATAAACCAAAACTACGCCAGAACGAG
27972023 CTCAATACCTTCCCAAATC
66 CTCAATACCTTCCCAAATC
27972042 A
1 A
27972043 ACTTAAGGTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.14
Consensus pattern (84 bp):
AGCTAGATGAATGGCGAACGCATAAATCGAGAACACACGATAAACCAAAACTACGCCAGAACGAG
CTCAATACCTTCCCAAATC
Found at i:27974415 original size:40 final size:40
Alignment explanation
Indices: 27974332--27974594 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
27974322 TTGAATGCTG
* * * * * *
27974332 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27974372 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27974412 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27974452 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
27974492 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27974532 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27974571 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27974595 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27974614 original size:79 final size:80
Alignment explanation
Indices: 27974371--27974629 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
27974361 AAGTGAATAT
* * * * * *
27974371 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
27974435 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
27974451 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
27974516 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
27974531 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
27974595 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
27974610 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27974630 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:27982368 original size:40 final size:40
Alignment explanation
Indices: 27982285--27982547 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
27982275 TTGAATGCTG
* * * * * *
27982285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27982325 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27982365 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27982405 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
27982445 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27982485 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27982524 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27982548 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27982567 original size:79 final size:80
Alignment explanation
Indices: 27982324--27982582 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
27982314 AAGTGAATAT
* * * * * *
27982324 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
27982388 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
27982404 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
27982469 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
27982484 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
27982548 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
27982563 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27982583 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:28014062 original size:46 final size:46
Alignment explanation
Indices: 28014012--28014920 Score: 1673
Period size: 46 Copynumber: 19.7 Consensus size: 46
28014002 TGGTTGAGCA
28014012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014058 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014104 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014150 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014196 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014334 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014380 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014426 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014472 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014518 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014564 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014610 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014656 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014702 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
28014748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
28014794 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
28014839 CATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
28014887 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
28014921 AGGGCGGGTT
Statistics
Matches: 842, Mismatches: 13, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
43 6 0.01
45 8 0.01
46 791 0.94
47 27 0.03
48 4 0.00
50 6 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Done.