Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 98 of 172
Found at i:28210393 original size:41 final size:41
Alignment explanation
Indices: 28210336--28210425 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
28210326 GTACAAGTTA
* *
28210336 CCTGATACGACACACCAACACGAAG-CTTGCTAGGCTCGAGG
1 CCTGATACAACACACCAACACGAAGAC-TGCTAGGCTCAAGG
* *
28210377 CCTGATACAATACACCAGCACGAAGACTGCTAGGCTCAAGG
1 CCTGATACAACACACCAACACGAAGACTGCTAGGCTCAAGG
*
28210418 CCCGATAC
1 CCTGATAC
28210426 GGTACATCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.32, G:0.22, T:0.14
Consensus pattern (41 bp):
CCTGATACAACACACCAACACGAAGACTGCTAGGCTCAAGG
Found at i:28214572 original size:21 final size:18
Alignment explanation
Indices: 28214542--28214582 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 18
28214532 CATAAGTTTT
28214542 AAACAATTAATATAATATTA
1 AAACAATTAA-ATAA-ATTA
28214562 AAACTAATTAAATAAATTA
1 AAAC-AATTAAATAAATTA
28214581 AA
1 AA
28214583 TATGCGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAACAATTAAATAAATTA
Found at i:28215277 original size:23 final size:24
Alignment explanation
Indices: 28215247--28215314 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 24
28215237 AAATTAAATC
28215247 TCTAAGATTATA-AAATCATATCT
1 TCTAAGATTATATAAATCATATCT
* *
28215270 TCTAAGATTGTATATATCATA---
1 TCTAAGATTATATAAATCATATCT
* *
28215291 TCTAAGATTACATATATCATATCT
1 TCTAAGATTATATAAATCATATCT
28215315 AAGATTGCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 19 0.51
23 11 0.30
24 7 0.19
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (24 bp):
TCTAAGATTATATAAATCATATCT
Found at i:28215296 original size:21 final size:21
Alignment explanation
Indices: 28215270--28215366 Score: 153
Period size: 21 Copynumber: 4.7 Consensus size: 21
28215260 AATCATATCT
*
28215270 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
*
28215291 TCTAAGATTACATATATCATA
1 TCTAAGATTGCATATATCATA
28215312 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
28215333 TCTAAGATTGCATATA--ATA
1 TCTAAGATTGCATATATCATA
*
28215352 TCTAAGATTGTATAT
1 TCTAAGATTGCATAT
28215367 CCTTGAAAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
19 17 0.24
21 55 0.76
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:28218949 original size:16 final size:18
Alignment explanation
Indices: 28218930--28218971 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
28218920 TTATGCTTTT
28218930 AATTATATATA-TTT-AA
1 AATTATATATATTTTCAA
*
28218946 AATTAT-TGTATTTTCAA
1 AATTATATATATTTTCAA
28218963 AATTATATA
1 AATTATATA
28218972 ACATTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 3 0.14
16 9 0.43
17 8 0.38
18 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTATATATATTTTCAA
Found at i:28222546 original size:11 final size:11
Alignment explanation
Indices: 28222530--28222575 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
28222520 CTCAGCTATT
28222530 CTCTCAATTTC
1 CTCTCAATTTC
*
28222541 CTCTCAATTTT
1 CTCTCAATTTC
*
28222552 CTCTCAATTTG
1 CTCTCAATTTC
28222563 CTCTCAATTTC
1 CTCTCAATTTC
28222574 CT
1 CT
28222576 TCCAAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.17, C:0.33, G:0.02, T:0.48
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:28222588 original size:22 final size:22
Alignment explanation
Indices: 28222530--28222591 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
28222520 CTCAGCTATT
*
28222530 CTCTCAATTTCCTCTCAATTTT
1 CTCTCAATTTCCTCTCAATTTC
*
28222552 CTCTCAATTTGCTCTCAATTTC
1 CTCTCAATTTCCTCTCAATTTC
28222574 CT-TCCAAATTT-CTCTCAA
1 CTCT-C-AATTTCCTCTCAA
28222592 ATCCATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.83
23 5 0.14
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.45
Consensus pattern (22 bp):
CTCTCAATTTCCTCTCAATTTC
Found at i:28222610 original size:40 final size:40
Alignment explanation
Indices: 28222564--28222641 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
28222554 CTCAATTTGC
28222564 TCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* *
28222604 TCTCAATTTCCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
28222642 TTAATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.00, T:0.45
Consensus pattern (40 bp):
TCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:28222633 original size:11 final size:12
Alignment explanation
Indices: 28222530--28222593 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 12
28222520 CTCAGCTATT
28222530 CTCTC-AATTTC
1 CTCTCAAATTTC
*
28222541 CTCTC-AATTTT
1 CTCTCAAATTTC
*
28222552 CTCTC-AATTTG
1 CTCTCAAATTTC
28222563 CTCTC-AATTTC
1 CTCTCAAATTTC
28222574 CT-TCCAAATTT-
1 CTCT-CAAATTTC
28222585 CTCTCAAAT
1 CTCTCAAAT
28222594 CCATATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
10 1 0.02
11 40 0.85
12 6 0.13
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:28223794 original size:7 final size:7
Alignment explanation
Indices: 28223782--28223806 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
28223772 AGTCGATTAT
28223782 TATTTAG
1 TATTTAG
28223789 TATTTAG
1 TATTTAG
28223796 TATTTAG
1 TATTTAG
28223803 TATT
1 TATT
28223807 ATATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:28224475 original size:18 final size:18
Alignment explanation
Indices: 28224452--28224494 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
28224442 TGCCAGGTGC
* *
28224452 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
28224470 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
28224488 GTTTCCT
1 GTATCCT
28224495 TTTCCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:28225949 original size:14 final size:15
Alignment explanation
Indices: 28225916--28225953 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
28225906 TTTAATTTTT
*
28225916 AACCCTAATCTCTAA
1 AACCCTAAACTCTAA
28225931 AACCCTAAACTCT-A
1 AACCCTAAACTCTAA
28225945 AACCCTAAA
1 AACCCTAAA
28225954 AGTAATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCTAAACTCTAA
Found at i:28238269 original size:17 final size:17
Alignment explanation
Indices: 28238249--28238295 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
28238239 GTGCAAAAAC
28238249 AAAAGAAGAAGAAAAGA
1 AAAAGAAGAAGAAAAGA
* *
28238266 AAAAAAATGTA-AAAAGA
1 AAAAGAA-GAAGAAAAGA
*
28238283 AAAAGGAGAAGAA
1 AAAAGAAGAAGAA
28238296 GAAGGAAACT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.04
Consensus pattern (17 bp):
AAAAGAAGAAGAAAAGA
Found at i:28241977 original size:25 final size:25
Alignment explanation
Indices: 28241949--28242002 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
28241939 CTTGTGATCA
28241949 TTTTTGAACCAA-TATTCTTTCAATC
1 TTTTTGAA-CAATTATTCTTTCAATC
* *
28241974 TTTTTGAATAATTATTCTTTCATTC
1 TTTTTGAACAATTATTCTTTCAATC
28241999 TTTT
1 TTTT
28242003 GGATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.57
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAATC
Found at i:28243725 original size:7 final size:7
Alignment explanation
Indices: 28243713--28243756 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
28243703 CGAAAAAATG
28243713 TGAAAAA
1 TGAAAAA
28243720 TGAAAAAA
1 TG-AAAAA
28243728 TG-AAAA
1 TGAAAAA
28243734 TGAAAAA
1 TGAAAAA
28243741 TGAAAAA
1 TGAAAAA
28243748 -GTAAAAA
1 TG-AAAAA
28243755 TG
1 TG
28243757 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:28243739 original size:21 final size:21
Alignment explanation
Indices: 28243713--28243756 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
28243703 CGAAAAAATG
*
28243713 TGAAAAATGAAAAAATGAAAA
1 TGAAAAATGAAAAAATAAAAA
*
28243734 TGAAAAATGAAAAAGTAAAAA
1 TGAAAAATGAAAAAATAAAAA
28243755 TG
1 TG
28243757 GAGAGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAAATAAAAA
Found at i:28245221 original size:88 final size:88
Alignment explanation
Indices: 28244997--28245573 Score: 528
Period size: 88 Copynumber: 6.5 Consensus size: 88
28244987 ATCACTGAAG
* * * *
28244997 ATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATTGAAGACACCAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTC
* * * *
28245062 GGTTGTAGCGGAGTAGGTTAAAAAA
66 AGTTGCAGTGGAGCAGGTT--AAAA
* * * * * * *
28245087 ATAGCAGATCTTGCCTTCCTGCATCGAAAGTGAAGCAGATTAAAGACAGCAGCCTTGCCTCTCTC
1 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTC
* ** *
28245152 AGTTGTAGTTAAGCAGGTTGAAA
66 AGTTGCAGTGGAGCAGGTTAAAA
* *
28245175 TTAGCAGATCTTGCCTTCTTGCACCGATAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCT-
1 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTC
* *
28245239 AGGTTGCAGTTGAGTAGGTTAAAA
66 A-GTTGCAGTGGAGCAGGTTAAAA
* * * ** *
28245263 ATAGCAGATCTTGTCTTCTTGTACCGACAGTGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTC
* * *
28245328 GGTTGCAGTGGAGCAGGTTGAAG
66 AGTTGCAGTGGAGCAGGTTAAAA
* * * * * * **
28245351 ATAGCAGATCTTGTCTT-TCTGCATCGACAGCAAAGCAGATCGAAGATACCAGACTTAACTCCCT
1 ATAGCAGATCTTGCCTTCT-TGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCT
** * * *
28245415 GGGTTGCAATGGAGCAGGTTGAAG
65 CAGTTGCAGTGGAGCAGGTTAAAA
* * ** * * * * *
28245439 ATAGCAGATCTTGCATTCCTGTGCTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTC
* * *
28245504 GGTTGCAGCGGAACAGGTTAAAA
66 AGTTGCAGTGGAGCAGGTTAAAA
* * * * * * *
28245527 ATAGAAAATATTGCCTTCCTGCACTGACAGCGAAACAGATCGAAGAC
1 ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGAC
28245574 CCCAATCCTA
Statistics
Matches: 404, Mismatches: 79, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
87 2 0.00
88 332 0.82
90 70 0.17
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTC
AGTTGCAGTGGAGCAGGTTAAAA
Found at i:28245389 original size:176 final size:174
Alignment explanation
Indices: 28244992--28245573 Score: 646
Period size: 176 Copynumber: 3.3 Consensus size: 174
28244982 AACAGATCAC
* *
28244992 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTG-CTTTCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
* * * * * *
28245057 CCTTGGGTTGTAGCGGAGTAGGTTAAAAAAATAGCAGATCTTGCCTTCCTGCATCGAAAGTGAAG
65 CCCTGGGTTGCAGTGGAGTAGGTT--AAAAATAGCAGATCTTG-CTTCCTGTACCGACAGTGAAG
* * * * **
28245122 CAGATTAAAGACAGC-AGCCTTGCCTCTCTCAGTTGTAGTTAAGCAGGT
127 CAGATCAAAGACA-CTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
* *
28245170 TGAA-ATTAGCAGATCTTGCCTTCTTGCACCGATAGCGAAGCAGATTGAAGACACCAGCCTTGCC
1 TGAAGA-TAGCAGATCTTGCTTTC-TGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCC
* * *
28245234 TCCCTAGGTTGCAGTTGAGTAGGTTAAAAATAGCAGATCTTGTCTTCTTGTACCGACAGTGAAGC
64 TCCCTGGGTTGCAGTGGAGTAGGTTAAAAATAGCAGATCTTG-CTTCCTGTACCGACAGTGAAGC
28245299 AGATCAAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
128 AGATCAAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
* * * * * **
28245346 TGAAGATAGCAGATCTTGTCTTTCTGCATCGACAGCAAAGCAGATCGAAGATACCAGACTTAACT
1 TGAAGATAGCAGATCTTG-CTTTCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
* * * * * *
28245411 CCCTGGGTTGCAATGGAGCAGGTTGAAGATAGCAGATCTTGCATTCCTGTGCTGACAGTGAAGCA
65 CCCTGGGTTGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGC-TTCCTGTACCGACAGTGAAGCA
* * * *
28245476 GATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAACAGGT
129 GATCAAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
* * * * * * * * *
28245522 TAAAAATAGAAAATATTGCCTTCCTGCACTGACAGCGAAACAGATCGAAGAC
1 TGAAGATAGCAGATCTTG-CTTTCTGCACCGACAGCGAAGCAGATTGAAGAC
28245574 CCCAATCCTA
Statistics
Matches: 344, Mismatches: 54, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
175 2 0.01
176 259 0.75
177 9 0.03
178 74 0.22
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (174 bp):
TGAAGATAGCAGATCTTGCTTTCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTC
CCTGGGTTGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCTTCCTGTACCGACAGTGAAGCAGA
TCAAAGACACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
Found at i:28245476 original size:264 final size:265
Alignment explanation
Indices: 28244997--28245573 Score: 627
Period size: 264 Copynumber: 2.2 Consensus size: 265
28244987 ATCACTGAAG
** * *
28244997 ATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATTGAAGACACCAGCCTTGCCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTC
* * **
28245062 GGTTGTAGCGGAGTAGGTTAAAAAAATAGCAGATCTTGCCTTCCTGCATCGAAAGTGAAGCAGAT
66 GGTTGCAGCGGAGCAGGTT-AAAAAATAGCAGATCTTGCCTTCCTGCATCGAAAGCAAAGCAGAT
* * * ** * * * * *
28245127 TAAAGACAGCAGCCTTGCCTCTCTCAGTTGTAGTTAAGCAGGTTGAAATTAGCAGATCTTGCCTT
130 CAAAGACACCAGACTTAACTCCCTCAGTTGCAATGAAGCAGGTTGAAATTAGCAGATCTTGCATT
* * * ** **
28245192 CTTGCACCGATAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGTTGAGTAGG
195 CCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAACAGG
28245257 TTAAAA
260 TTAAAA
* * * ** *
28245263 ATAGCAGATCTTGTCTTCTTGTACCGACAGTGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTC
* * * * * *
28245328 GGTTGCAGTGGAGCAGGTT-GAAGATAGCAGATCTTGTCTTTCTGCATCGACAGCAAAGCAGATC
66 GGTTGCAGCGGAGCAGGTTAAAAAATAGCAGATCTTGCCTTCCTGCATCGAAAGCAAAGCAGATC
* * ** *
28245392 GAAGATACCAGACTTAACTCCCTGGGTTGCAATGGAGCAGGTTGAAGA-TAGCAGATCTTGCATT
131 AAAGACACCAGACTTAACTCCCTCAGTTGCAATGAAGCAGGTTGAA-ATTAGCAGATCTTGCATT
** * * * *
28245456 CCTGTGCTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAACAGG
195 CCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAACAGG
28245521 TTAAAA
260 TTAAAA
* * * * * * *
28245527 ATAGAAAATATTGCCTTCCTGCACTGACAGCGAAACAGATCGAAGAC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGAC
28245574 CCCAATCCTA
Statistics
Matches: 252, Mismatches: 58, Indels: 4
0.80 0.18 0.01
Matches are distributed among these distances:
264 180 0.71
265 1 0.00
266 71 0.28
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (265 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTC
GGTTGCAGCGGAGCAGGTTAAAAAATAGCAGATCTTGCCTTCCTGCATCGAAAGCAAAGCAGATC
AAAGACACCAGACTTAACTCCCTCAGTTGCAATGAAGCAGGTTGAAATTAGCAGATCTTGCATTC
CTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAACAGGT
TAAAA
Found at i:28247447 original size:3 final size:3
Alignment explanation
Indices: 28247441--28247497 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
28247431 TTTATAATAC
* * * * *
28247441 TAT TAT TAT TAT TAT CAT TAT TGT TAT TAT TAC TAC TAT TAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
28247488 GTAT TAT TAT
1 -TAT TAT TAT
28247498 CGTATTAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:28247559 original size:20 final size:20
Alignment explanation
Indices: 28247536--28247610 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
28247526 TTTATTTTAC
28247536 ATTATTTTATTTTATTATGT
1 ATTATTTTATTTTATTATGT
*
28247556 ATTATTTTGTAATGCTTTTATCATGT
1 ATTA-TTT-T-A---TTTTATTATGT
* *
28247582 ATTATTCTATTTTATTATGC
1 ATTATTTTATTTTATTATGT
28247602 ATTATTTTA
1 ATTATTTTA
28247611 AATATTCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 21 0.48
21 3 0.07
22 1 0.02
23 2 0.05
24 1 0.02
25 2 0.05
26 14 0.32
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTATTTTATTTTATTATGT
Found at i:28249353 original size:17 final size:17
Alignment explanation
Indices: 28249331--28249366 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
28249321 TTGTCAATAA
28249331 CAACAATAAGTGCTATT
1 CAACAATAAGTGCTATT
28249348 CAACAATAAGTGCTATT
1 CAACAATAAGTGCTATT
28249365 CA
1 CA
28249367 CTTTTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (17 bp):
CAACAATAAGTGCTATT
Found at i:28266853 original size:18 final size:18
Alignment explanation
Indices: 28266827--28266861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28266817 ATGATGTGCC
*
28266827 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
28266845 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
28266862 ACCATTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:28277223 original size:32 final size:32
Alignment explanation
Indices: 28277150--28277286 Score: 159
Period size: 32 Copynumber: 4.3 Consensus size: 32
28277140 GAATGGCTAC
* * * *
28277150 AAGCCATAAGT-ACAGTAATATTATTGGCGCA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
28277181 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
28277213 CAGCCATCAGTAACGGTAATATGATCAGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
**
28277245 AAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
28277277 AAGCCATCAG
1 AAGCCATCAG
28277287 CAGCATTACA
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 10 0.11
32 79 0.89
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:28277324 original size:26 final size:26
Alignment explanation
Indices: 28277295--28277344 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
28277285 AGCAGCATTA
28277295 CAGCAAAGCTGCCAGCAATAGTATCG
1 CAGCAAAGCTGCCAGCAATAGTATCG
* *
28277321 CAGCAAAGCTGCCCGTAATAGTAT
1 CAGCAAAGCTGCCAGCAATAGTAT
28277345 ATGTGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAATAGTATCG
Found at i:28277492 original size:24 final size:24
Alignment explanation
Indices: 28277460--28277564 Score: 97
Period size: 24 Copynumber: 4.4 Consensus size: 24
28277450 TCATGCCCCG
*
28277460 AATCGGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* *
28277484 AATCAGTCATACCAATCA-ATAACA
1 AATCAGTCATACAAATCACA-GACA
**
28277508 AATCAGTCATTTAAATCACAGAC-
1 AATCAGTCATACAAATCACAGACA
** * *
28277531 AATCAGTCATTTACATCACGGACA
1 AATCAGTCATACAAATCACAGACA
*
28277555 AATCAATCAT
1 AATCAGTCAT
28277565 TTACACTCGA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 22 0.32
24 45 0.66
25 1 0.01
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:28277538 original size:23 final size:24
Alignment explanation
Indices: 28277472--28277567 Score: 106
Period size: 24 Copynumber: 4.0 Consensus size: 24
28277462 TCGGTCATAC
**
28277472 AAATCACAGACAAATCAGTCATAC
1 AAATCACAGACAAATCAGTCATTT
* *
28277496 CAATCA-ATAACAAATCAGTCATTT
1 AAATCACA-GACAAATCAGTCATTT
28277520 AAATCACAGAC-AATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
* * *
28277543 ACATCACGGACAAATCAATCATTT
1 AAATCACAGACAAATCAGTCATTT
28277567 A
1 A
28277568 CACTCGATGG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
23 22 0.37
24 37 0.62
25 1 0.02
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (24 bp):
AAATCACAGACAAATCAGTCATTT
Found at i:28277659 original size:27 final size:26
Alignment explanation
Indices: 28277585--28277709 Score: 96
Period size: 27 Copynumber: 4.8 Consensus size: 26
28277575 TGGGCAAAAT
*
28277585 AGTCATTTACCCTCTAGGGGTATTAC
1 AGTCATTTACCCTATAGGGGTATTAC
* * *
28277611 AGTCATTTTACCTTACAGGGGTATTTC
1 AGTCA-TTTACCCTATAGGGGTATTAC
28277638 AGTCATTTAACCCTAT-GAGGGTATTAC
1 AGTCATTT-ACCCTATAG-GGGTATTAC
* * *
28277665 -G--GTTTACCCTATAGGTGCATTAC
1 AGTCATTTACCCTATAGGGGTATTAC
* * *
28277688 GGTTATTTTATCCTATAGGGGT
1 AGTCA-TTTACCCTATAGGGGT
28277710 TTTCCGATCA
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
23 14 0.18
24 5 0.06
26 10 0.13
27 48 0.62
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (26 bp):
AGTCATTTACCCTATAGGGGTATTAC
Found at i:28277671 original size:77 final size:77
Alignment explanation
Indices: 28277590--28277744 Score: 181
Period size: 77 Copynumber: 2.0 Consensus size: 77
28277580 AAAATAGTCA
* *
28277590 TTTACCCTCTAGGGGTATTACAGTCATTTTA-CCTTACAGGGGTATTTCAG-TCATTTAACCCTA
1 TTTACCCTATAGGGGCATTACAGTCATTTTATCC-TACAGGGGT-TTTCAGATCATTTAACCCT-
28277653 T-GAGGGTATTACGG
63 TCGAGGGTATTACGG
* * * * * *
28277667 TTTACCCTATAGGTGCATTACGGTTATTTTATCCTATAGGGGTTTTCCGATCATTTTACCCTTCG
1 TTTACCCTATAGGGGCATTACAGTCATTTTATCCTACAGGGGTTTTCAGATCATTTAACCCTTCG
*
28277732 AGGGTATTTCGG
66 AGGGTATTACGG
28277744 T
1 T
28277745 CATTTTACCA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
76 6 0.09
77 58 0.88
78 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (77 bp):
TTTACCCTATAGGGGCATTACAGTCATTTTATCCTACAGGGGTTTTCAGATCATTTAACCCTTCG
AGGGTATTACGG
Found at i:28277674 original size:23 final size:23
Alignment explanation
Indices: 28277647--28277691 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
28277637 CAGTCATTTA
*
28277647 ACCCTATGAGG-GTATTACGGTTT
1 ACCCTAT-AGGTGCATTACGGTTT
28277670 ACCCTATAGGTGCATTACGGTT
1 ACCCTATAGGTGCATTACGGTT
28277692 ATTTTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (23 bp):
ACCCTATAGGTGCATTACGGTTT
Found at i:28277736 original size:27 final size:27
Alignment explanation
Indices: 28277706--28277847 Score: 146
Period size: 27 Copynumber: 5.3 Consensus size: 27
28277696 TATCCTATAG
28277706 GGGT-TTTCCGATCATTTTACCCTTCGA
1 GGGTATTT-CGATCATTTTACCCTTCGA
* *
28277733 GGGTATTTCGGTCATTTTACCATTCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
28277760 GGGTATTTCAATCATTTCACCCTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
** * *
28277787 GATTATTTCGATAATTTTACCTTTC-A
1 GGGTATTTCGATCATTTTACCCTTCGA
* * *
28277813 AGGTATTTCGGTAATTTTA-CCTATCGA
1 GGGTATTTCGATCATTTTACCCT-TCGA
28277840 GGGTATTT
1 GGGTATTT
28277848 TGGTAATTTA
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.02
26 18 0.19
27 71 0.76
28 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCGA
Found at i:28283536 original size:5 final size:5
Alignment explanation
Indices: 28283526--28283580 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
28283516 TTAGAATTAG
28283526 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
28283576 TTTTC
1 TTTTC
28283581 GGGTTCTTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:28286057 original size:19 final size:20
Alignment explanation
Indices: 28286033--28286073 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
28286023 AAATTTAGGC
* *
28286033 AAATATTGACTAA-AAATTG
1 AAATATTCAATAAGAAATTG
28286052 AAATATTCAATAAGAAATTG
1 AAATATTCAATAAGAAATTG
28286072 AA
1 AA
28286074 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATTCAATAAGAAATTG
Found at i:28286646 original size:40 final size:40
Alignment explanation
Indices: 28286523--28286661 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
28286513 ACTTCGAGTC
*
28286523 GATGAGACACTAGGTGTCAAATTATTACTTCGGATTAAT-T
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATCT
* * * * * *
28286563 CGATGAGGCACAGGGTG-CCAA-T-TTACTTCGGTTTAGCC
1 -GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
* *
28286601 AATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
* * *
28286641 GATGAGGCACTGAGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
28286662 CTGGTGTGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 14 0.19
38 14 0.19
39 2 0.03
40 32 0.43
41 13 0.17
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCT
Found at i:28304879 original size:28 final size:25
Alignment explanation
Indices: 28304847--28304898 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
28304837 AATTCTATTT
28304847 AATTCAAATTTAATGTAAATTATAAATG
1 AATTCAAATTTAA---AAATTATAAATG
*
28304875 AATTCGAATTTAAAAATTATAAAT
1 AATTCAAATTTAAAAATTATAAAT
28304899 CTAGATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
28 12 0.52
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
AATTCAAATTTAAAAATTATAAATG
Found at i:28309361 original size:11 final size:11
Alignment explanation
Indices: 28309345--28309375 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
28309335 GTTATTTTTT
28309345 TATTGTTTCGC
1 TATTGTTTCGC
28309356 TATTGTTTCGC
1 TATTGTTTCGC
28309367 TATTGTTTC
1 TATTGTTTC
28309376 ATTGTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (11 bp):
TATTGTTTCGC
Found at i:28314571 original size:90 final size:90
Alignment explanation
Indices: 28314418--28314599 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 90
28314408 TGAATCAAGA
28314418 TGGGATCAAGAAAATATTTTCAATGATGGGTTAGGTGAGGCTAAAATATTAAATAAAATTCAGGG
1 TGGGATCAAGAAAATATTTTCAATGATGGGTTAGGTGAGGCTAAAATATTAAATAAAATTCAGGG
28314483 CAAGGTGAGAAAAAAAATCTCCACC
66 CAAGGTGAGAAAAAAAATCTCCACC
*
28314508 TGGGATCAAGAAAATCTTTTCAATGATGGGTTAGGTGAGGCTAAAATATTAAATAAAATTCAGGG
1 TGGGATCAAGAAAATATTTTCAATGATGGGTTAGGTGAGGCTAAAATATTAAATAAAATTCAGGG
28314573 CAAGGTGAGAAAAAAAATCTCCACC
66 CAAGGTGAGAAAAAAAATCTCCACC
28314598 TG
1 TG
28314600 AGTCTATTGT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.25
Consensus pattern (90 bp):
TGGGATCAAGAAAATATTTTCAATGATGGGTTAGGTGAGGCTAAAATATTAAATAAAATTCAGGG
CAAGGTGAGAAAAAAAATCTCCACC
Found at i:28317408 original size:17 final size:17
Alignment explanation
Indices: 28317374--28317407 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
28317364 TATGGTATGG
*
28317374 TAAAATATTAAAGAAAA
1 TAAAATATAAAAGAAAA
28317391 TAAATATATAAAAGAAA
1 TAAA-ATATAAAAGAAA
28317408 TGAGATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAAATATAAAAGAAAA
Found at i:28332791 original size:104 final size:105
Alignment explanation
Indices: 28332627--28332818 Score: 278
Period size: 104 Copynumber: 1.8 Consensus size: 105
28332617 TTTGTATTCT
* *
28332627 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTG---AATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
28332692 ATCCATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
63 ATCCATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
** * *
28332735 AGCAAAATTTGCTATCTTG-ATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTTGTC
1 AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
* *
28332799 TATTTTGATAATCTTTTTCA
66 CATTGTGATAATCTTTTTCA
28332819 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
104 57 0.75
108 19 0.25
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (105 bp):
AGCAAAATTTGCTATCTTGAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
CATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
Found at i:28333572 original size:132 final size:132
Alignment explanation
Indices: 28333390--28333950 Score: 845
Period size: 132 Copynumber: 4.2 Consensus size: 132
28333380 ACGATGCAGA
* * *
28333390 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCACGATGCAGATCTTGTCTTCCCATATTGGT
1 TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCG-ACGATGCAGATCTTGTCTTCCCATATTGGT
** *
28333455 GGCGAAGTAGATCGCAGAAAGCAGATATTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
64 GGCGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
*
28333520 TAGG
129 TAAG
*
28333524 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
28333589 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
28333654 AG
131 AG
28333656 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
28333721 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
28333786 AG
131 AG
* * * *
28333788 TCTTGTCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGG
1 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *** * * * * * ** * *
28333853 TGAAGTAGATAAAAAAAAACAGATCTTGTATTCATATATTGGTTTGAAGTAGATCGAAGATAG-C
66 CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
28333917 AG
131 AG
* *
28333919 ATCCTGCCTTCCTATATTGGTAGGAAGTGGAT
1 -TCTTGTCTTCCTATATTGGTAGGAAGTGGAT
28333951 TGAAAAACAG
Statistics
Matches: 397, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 2 0.01
132 365 0.92
133 10 0.03
134 20 0.05
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (132 bp):
TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
AG
Found at i:28333589 original size:177 final size:177
Alignment explanation
Indices: 28333286--28333621 Score: 602
Period size: 177 Copynumber: 1.9 Consensus size: 177
28333276 GGATGGATTG
* *
28333286 AGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
1 AGATCGAAGAAAGCAGATATTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
*
28333351 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
66 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGGCGAA
* *
28333416 GTAGATCGCACG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
131 GTAGATCGCA-GAAAGCAGACCTTGTCTTCCCATATTGGTGGCGAAGT
*
28333463 AGATCGCAGAAAGCAGATATTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
1 AGATCGAAGAAAGCAGATATTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
28333528 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGGCGAA
66 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGGCGAA
28333593 GTAGATCGCAGAAAGCAGACCTTGTCTTC
131 GTAGATCGCAGAAAGCAGACCTTGTCTTC
28333622 ATGTATTGGC
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 1 0.01
177 151 0.99
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (177 bp):
AGATCGAAGAAAGCAGATATTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGGCGAA
GTAGATCGCAGAAAGCAGACCTTGTCTTCCCATATTGGTGGCGAAGT
Found at i:28333753 original size:177 final size:177
Alignment explanation
Indices: 28333286--28333732 Score: 526
Period size: 177 Copynumber: 2.5 Consensus size: 177
28333276 GGATGGATTG
* * * * * * * *
28333286 AGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
1 AGATCAAAGAAAGAAGATATTATCTTCATATATTGGAGTGAAGTAGATCAAAGATAGCAGATCTT
28333351 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
66 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
* * * *
28333416 GTAGATCGCACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
131 GTAGATCGCACGAAGCAGACCTTGTCTTCACATATTGGTCGCGAAGT
** * * * * *
28333463 AGATCGCAGAAAGCAGATATTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGGTCTT
1 AGATCAAAGAAAGAAGATATTATCTTCATATATTGGAGTGAAGTAGATCAAAGATAGCAGATCTT
*
28333528 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGGCGAA
66 GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
** *
28333593 GTAGATCGCA-GAAAGCAGACCTTGTCTTCATGTATTGG-CGTGAAGT
131 GTAGATCGCACG-AAGCAGACCTTGTCTTCACATATTGGTCGCGAAGT
* * * * * * *
28333639 AGATCAAAGATAGTAAG-TCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GCAGATC
1 AGATCAAAGAAAG-AAGATATTATCTTCATATATTGG-AGTGAAGTAGATCAAAGATAGCAGATC
* * *
28333701 TTGTCTTCCCATATTGGTGGCGAAGTAGATCG
64 TTGTCTTCCTATATTGGTAG-GAAGTGGATCG
28333733 CAGAAAGCAG
Statistics
Matches: 238, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
175 23 0.10
176 55 0.23
177 160 0.67
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (177 bp):
AGATCAAAGAAAGAAGATATTATCTTCATATATTGGAGTGAAGTAGATCAAAGATAGCAGATCTT
GTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
GTAGATCGCACGAAGCAGACCTTGTCTTCACATATTGGTCGCGAAGT
Found at i:28333814 original size:44 final size:45
Alignment explanation
Indices: 28333286--28333946 Score: 537
Period size: 44 Copynumber: 15.0 Consensus size: 45
28333276 GGATGGATTG
* * * * *
28333286 AGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * *
28333330 AGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * * *
28333374 GGATCGACGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * *
28333418 AGATCGCACGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
1 AGATCG-AAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * * * * * * *
28333463 AGATCGCAGAAAGCAGATATTATCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * *
28333507 AGATCAAAGATAGTAGGTCTTGTCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * * * *
28333551 GGATCGACGAT-GCAAATCTTGTCTTCCCATATTGGTGGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * * * * * *
28333595 AGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* *
28333639 AGATCAAAGATAGTA-AGTCTTGTCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGATAGCAGA-TCTTGTCTTCCTATATTGGTAGCGAAGT
* * * *
28333683 GGATCGACGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * * * * * *
28333727 AGATCGCAGAAAGCAGACCTTGTCTTCATGTATTGG-CGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* * *
28333771 AGATCAAAGATAGTA-AGTCTTGTCTTCCTATATTGATAG-GAAGT
1 AGATCGAAGATAGCAGA-TCTTGTCTTCCTATATTGGTAGCGAAGT
* * * * * *
28333815 GGATCCAAGAT-GCAGATCTTGTCTTCCCATACTGGTGGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
** * * * * * **
28333859 AGATAAAAAAAAACAGATCTTGTATTCATATATTGGT-TTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
* *
28333903 AGATCGAAGATAGCAGATCCTGCCTTCCTATATTGGTAG-GAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
28333947 GGATTGAAAA
Statistics
Matches: 484, Mismatches: 115, Indels: 36
0.76 0.18 0.06
Matches are distributed among these distances:
43 89 0.18
44 269 0.56
45 126 0.26
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGT
Found at i:28334031 original size:44 final size:40
Alignment explanation
Indices: 28333983--28334077 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
28333973 TGTATTTGGC
*
28333983 AGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAAGCAAT
1 AGTGGAACAGA-T-AATATT-CAG-TCTTATCTCCCTAAGCAAT
* * *
28334027 AGTGGAGCAGATCATATTCAGTCTTATCTCCCTAAGCAGT
1 AGTGGAACAGATAATATTCAGTCTTATCTCCCTAAGCAAT
*
28334067 AGTGGAGCAGA
1 AGTGGAACAGA
28334078 CGAAGAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 29 0.62
41 3 0.06
42 5 0.11
43 1 0.02
44 9 0.19
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (40 bp):
AGTGGAACAGATAATATTCAGTCTTATCTCCCTAAGCAAT
Found at i:28334053 original size:40 final size:42
Alignment explanation
Indices: 28333998--28334077 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 42
28333988 AATAGATTGA
28333998 ATATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
1 ATATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
*
28334040 ATATT-CAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 ATATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGA
28334078 CGAAGAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 29 0.78
41 3 0.08
42 5 0.14
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (42 bp):
ATATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
Found at i:28336114 original size:2 final size:2
Alignment explanation
Indices: 28336107--28336155 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
28336097 GCCATTTATT
* * *
28336107 TA TA TA TA TA TG TA TA TA TG TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28336149 TA TA TA T
1 TA TA TA T
28336156 TCTTTTTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28338809 original size:91 final size:91
Alignment explanation
Indices: 28338670--28338858 Score: 263
Period size: 91 Copynumber: 2.1 Consensus size: 91
28338660 ATAAATACCT
* *
28338670 AAGTAACAAATAATACACAAATTGATAGTTTAAATATTACATTCGATATTTTTAAAGTACA-AGT
1 AAGTAACAAATAATACACAAATTGATAGTTTAAATATCACATTCGATATTTTCAAAGTACAGA-T
* *
28338734 ACCACATTGGTCATTTTATAAAAGAAC
65 ACCACATTGGACATTTTATAAAACAAC
* * ** * *
28338761 AAGTACCAAATAATACATAAATTGATAGTTTAGGTATCATATTGGATATTTTCAAAGTACAGATA
1 AAGTAACAAATAATACACAAATTGATAGTTTAAATATCACATTCGATATTTTCAAAGTACAGATA
*
28338826 CCACATTGGACATTTTATAAAACTAC
66 CCACATTGGACATTTTATAAAACAAC
28338852 AAGTAAC
1 AAGTAAC
28338859 CTTATTTCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 84 0.99
92 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (91 bp):
AAGTAACAAATAATACACAAATTGATAGTTTAAATATCACATTCGATATTTTCAAAGTACAGATA
CCACATTGGACATTTTATAAAACAAC
Found at i:28339999 original size:66 final size:65
Alignment explanation
Indices: 28339893--28340028 Score: 245
Period size: 66 Copynumber: 2.1 Consensus size: 65
28339883 GTTGCTCGAA
*
28339893 CTTGGGCATTCACAGATACGTGTCCGACTAAATACATTCAATTACTCAGAACTTTTTTTCATGTA
1 CTTGGGCATTCACAGATACGTGTACGACTAAATACATTCAATTACTC-GAACTTTTTTTCATGTA
28339958 T
65 T
28339959 CTTGGGCATTCACAGATACGTGTACGACTAAATACATTCAATTACTCGAACTTTTTTTCATGTAT
1 CTTGGGCATTCACAGATACGTGTACGACTAAATACATTCAATTACTCGAACTTTTTTTCATGTAT
*
28340024 TTTGG
1 CTTGG
28340029 AGGACTTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 22 0.32
66 46 0.68
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (65 bp):
CTTGGGCATTCACAGATACGTGTACGACTAAATACATTCAATTACTCGAACTTTTTTTCATGTAT
Found at i:28345329 original size:33 final size:28
Alignment explanation
Indices: 28345282--28345358 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
28345272 GGTTATATTT
28345282 TAATATTTAAAAATATAGTTTACATATT-TTAA
1 TAAT-TTTAAAAATA-A--TTA-ATATTATTAA
28345314 TTGAATTTTAAAAATAATTAATATTATTAA
1 -T-AATTTTAAAAATAATTAATATTATTAA
28345344 TAATTTTAAAAATAA
1 TAATTTTAAAAATAA
28345359 ATTTATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
28 14 0.33
29 6 0.14
30 7 0.17
32 1 0.02
33 11 0.26
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (28 bp):
TAATTTTAAAAATAATTAATATTATTAA
Found at i:28348006 original size:2 final size:2
Alignment explanation
Indices: 28347999--28348026 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
28347989 TTTTTACTTT
28347999 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28348027 CTTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28354297 original size:5 final size:5
Alignment explanation
Indices: 28354287--28354317 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
28354277 TTATAAACAC
28354287 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
28354318 ACATTAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:28355443 original size:29 final size:29
Alignment explanation
Indices: 28355407--28355476 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
28355397 ACATATTAAT
28355407 TTTTAATTT-T-TTTAAAAATATTTATATTA
1 TTTTAATTTATATTTAAAAAT-TTTATA-TA
*
28355436 TTTTAATTTAATATTTAATAATTTTATATA
1 TTTTAATTT-ATATTTAAAAATTTTATATA
*
28355466 TTTTTATTTAT
1 TTTTAATTTAT
28355477 TGATTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 11 0.31
30 10 0.28
31 7 0.19
32 8 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTAATTTATATTTAAAAATTTTATATA
Found at i:28355462 original size:31 final size:31
Alignment explanation
Indices: 28355417--28355475 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
28355407 TTTTAATTTT
28355417 TTTAAAAATATTTATATTATTTTAATTTAATA
1 TTTAAAAATATTTATA-TATTTTAATTTAATA
* *
28355449 TTTAATAAT-TTTATATATTTTTATTTA
1 TTTAAAAATATTTATATATTTTAATTTA
28355476 TTGATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTAAAAATATTTATATATTTTAATTTAATA
Found at i:28358502 original size:43 final size:43
Alignment explanation
Indices: 28358454--28358539 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
28358444 TATGTGATTG
* * * *
28358454 ATATTGAAATGGAAAAGATGATAAATGAATATGATATGAGAAA
1 ATATTGAAATGGAAAAGATAAGAAATGAATATGAGATAAGAAA
* *
28358497 ATATTGAAATGGAAAATATAAGAAATGATTATGAGATAAGAAA
1 ATATTGAAATGGAAAAGATAAGAAATGAATATGAGATAAGAAA
28358540 TGAAATATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATAAGAAATGAATATGAGATAAGAAA
Found at i:28360041 original size:49 final size:49
Alignment explanation
Indices: 28359961--28360054 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
28359951 TCAAGAAGGG
* * *
28359961 ATAAATAGTGATAAGAGTGTAGACAGCGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAAACAACGGAAGACCAAGTTTAGCAATGT
*
28360010 ATAAATAGTGATAAGAGTGTAAACAATGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAAACAACGGAAGACCAAGTTTAGCA
28360055 TTGCATAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAAACAACGGAAGACCAAGTTTAGCAATGT
Found at i:28361590 original size:21 final size:21
Alignment explanation
Indices: 28361526--28361590 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
28361516 CCTTATAAGC
* *
28361526 AAATATCATCAAAGT-TATAAT
1 AAATATAATCAAA-TATATCAT
* *
28361547 TAATATAA-CAAATA-AACATT
1 AAATATAATCAAATATATCA-T
28361567 AAATATAATCAAATATATCAT
1 AAATATAATCAAATATATCAT
28361588 AAA
1 AAA
28361591 ATTTACATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 16 0.47
22 3 0.09
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATATAATCAAATATATCAT
Found at i:28363227 original size:26 final size:26
Alignment explanation
Indices: 28363165--28363230 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
28363155 GGTTTAGCAT
* *
28363165 TACTTTTGAGAAGTGTTTTTAAAAAG
1 TACTTTTGAAAAGTGATTTTAAAAAG
* * * * *
28363191 TGCTGTGGAAAAGTGATTTTGAGAAG
1 TACTTTTGAAAAGTGATTTTAAAAAG
28363217 TACTTTTGAAAAGT
1 TACTTTTGAAAAGT
28363231 TTAGTTTAAG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TACTTTTGAAAAGTGATTTTAAAAAG
Found at i:28363308 original size:13 final size:13
Alignment explanation
Indices: 28363269--28363321 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
28363259 AGTTTGACAA
28363269 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* *
28363282 TGCTGTGAAAAAG
1 TGCTTTTAAAAAG
*
28363295 TGCTTTTAAGAAG
1 TGCTTTTAAAAAG
*
28363308 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
28363321 T
1 T
28363322 TTAGTTTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:28363319 original size:26 final size:25
Alignment explanation
Indices: 28363261--28363321 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
28363251 TTAGGGCTAG
*
28363261 TTTGACAA-TGCTTTTAAAAAGTGC
1 TTTGAAAAGTGCTTTTAAAAAGTGC
* *
28363285 TGTGAAAAAGTGCTTTTAAGAAGTGC
1 TTTG-AAAAGTGCTTTTAAAAAGTGC
28363311 TTTTGAAAAGT
1 -TTTGAAAAGT
28363322 TTAGTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 3 0.10
25 3 0.10
26 21 0.70
27 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (25 bp):
TTTGAAAAGTGCTTTTAAAAAGTGC
Found at i:28369793 original size:18 final size:19
Alignment explanation
Indices: 28369767--28369804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
28369757 TTTACTTCTT
28369767 ACTTGAAAAATA-TTTTTG
1 ACTTGAAAAATACTTTTTG
* *
28369785 ACTTTAAAAGTACTTTTTG
1 ACTTGAAAAATACTTTTTG
28369804 A
1 A
28369805 AAAGTAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (19 bp):
ACTTGAAAAATACTTTTTG
Found at i:28370422 original size:31 final size:31
Alignment explanation
Indices: 28370348--28370424 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
28370338 AATATAATAT
* * *
28370348 TTGGTACTTGAACTTAACACTTTTTCTTAAT
1 TTGGTACTTAAACTTAACACTTTTTCATAAG
* *
28370379 TTGATA-TCTAAACTTGACACTTTTTCATAAG
1 TTGGTACT-TAAACTTAACACTTTTTCATAAG
28370410 TTGGTACTTAAACTT
1 TTGGTACTTAAACTT
28370425 TTTGGGGGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 36 0.95
32 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (31 bp):
TTGGTACTTAAACTTAACACTTTTTCATAAG
Found at i:28370645 original size:24 final size:23
Alignment explanation
Indices: 28370618--28370663 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
28370608 TTTTTTTGTA
28370618 TTTTATATATTCAATTACTTTTAG
1 TTTTATATATTCAATTA-TTTTAG
* *
28370642 TTTTATTTATTTAATTATTTTA
1 TTTTATATATTCAATTATTTTA
28370664 TTAATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATATATTCAATTATTTTAG
Found at i:28371103 original size:30 final size:31
Alignment explanation
Indices: 28371068--28371157 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 31
28371058 TTTTTAAAAA
*
28371068 AAATAAATTTTCAAGTAATCAAAAAATAATC
1 AAATAAATTTTCAAATAATCAAAAAATAATC
* * *
28371099 -AATAAATCTTT--ATTGATCAAAAAGGTAATC
1 AAATAAAT-TTTCAAATAATCAAAAA-ATAATC
*
28371129 AAATAAATTTTCAAATAAACAAAAAATAA
1 AAATAAATTTTCAAATAATCAAAAAATAA
28371158 AGAGAGATGG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
29 10 0.21
30 15 0.32
31 13 0.28
32 9 0.19
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (31 bp):
AAATAAATTTTCAAATAATCAAAAAATAATC
Found at i:28371530 original size:19 final size:19
Alignment explanation
Indices: 28371506--28371592 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
28371496 ATAAATTACG
*
28371506 CATCTTAGTTAATTGAGTT
1 CATCTTAGTTAATTAAGTT
28371525 CATCTTAGTTAATTAAG-T
1 CATCTTAGTTAATTAAGTT
* *
28371543 --TGTT-G-GAA-TAAGTTACT
1 CATCTTAGTTAATTAAG-T--T
28371560 CATCTTAGTTAATTAAGTT
1 CATCTTAGTTAATTAAGTT
28371579 CATCTTAGTTAATT
1 CATCTTAGTTAATT
28371593 TAATTGCTGG
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
13 4 0.07
14 2 0.04
15 1 0.02
16 3 0.06
17 1 0.02
18 1 0.02
19 34 0.63
20 1 0.02
21 3 0.06
22 4 0.07
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (19 bp):
CATCTTAGTTAATTAAGTT
Found at i:28371552 original size:54 final size:54
Alignment explanation
Indices: 28371488--28371607 Score: 179
Period size: 54 Copynumber: 2.2 Consensus size: 54
28371478 AAGTACTTAG
* *
28371488 TTGCTAGAATAAATTACGCATCTTAGTTAATTGAGTTCATCTTAGTTAA-TTAA
1 TTGCTGGAATAAATTACGCATCTTAGTTAATTAAGTTCATCTTAGTTAATTTAA
* * *
28371541 GTTGTTGGAATAAGTTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTTAA
1 -TTGCTGGAATAAATTACGCATCTTAGTTAATTAAGTTCATCTTAGTTAATTTAA
28371596 TTGCTGGAATAA
1 TTGCTGGAATAA
28371608 TTTATTGTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 55 0.93
55 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (54 bp):
TTGCTGGAATAAATTACGCATCTTAGTTAATTAAGTTCATCTTAGTTAATTTAA
Found at i:28375043 original size:12 final size:12
Alignment explanation
Indices: 28375026--28375051 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28375016 TCTTTTCTCG
28375026 TTATTTTATTAT
1 TTATTTTATTAT
28375038 TTATTTTATTAT
1 TTATTTTATTAT
28375050 TT
1 TT
28375052 TAGATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:28381412 original size:19 final size:21
Alignment explanation
Indices: 28381370--28381422 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
28381360 ATGACTTTTT
28381370 TGCATT-CATTTCATGCATCA
1 TGCATTACATTTCATGCATCA
28381390 -GCATTACATTTCAT-CA-CA
1 TGCATTACATTTCATGCATCA
*
28381408 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
28381423 AGAAGGACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 20 0.67
20 8 0.27
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (21 bp):
TGCATTACATTTCATGCATCA
Found at i:28394324 original size:51 final size:49
Alignment explanation
Indices: 28394255--28394582 Score: 154
Period size: 51 Copynumber: 6.8 Consensus size: 49
28394245 CATCATAGCA
* *
28394255 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAA--TACG
**
28394306 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAA-CTA-AAT-C-
1 AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATT-AAAGCTACAATACG
* * * * * * *
28394352 ---C-TAT-ACCTCTCAAGTTGCA-T-TAAGTCGGATTAAATCTACCATGGCG
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAA--CAGATTAAAGCTACAAT-ACG
* * * *
28394398 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTGAAGCAAC-A-A-G
1 AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAATACG
* * ** * *
28394444 --TCCTAT-ACCTCTGAAGTTGCAGTGGTTCGGATTAAATCTACAATA-G
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAACAGATTAAAGCTACAATACG
* * *
28394490 CAAGTCTTATCT-CTCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACA
1 -AA-TCTTATCTCCT-TGAAGTTGCAGTGGAACAGATTAAAGCTACAA--TACG
* * * *
28394543 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGC
28394583 GATAAGTCCC
Statistics
Matches: 205, Mismatches: 44, Indels: 56
0.67 0.14 0.18
Matches are distributed among these distances:
40 1 0.00
41 7 0.03
42 19 0.09
43 6 0.03
44 28 0.14
45 2 0.01
46 3 0.01
47 1 0.00
48 1 0.00
49 2 0.01
50 58 0.28
51 68 0.33
52 9 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (49 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAATACG
Found at i:28394535 original size:50 final size:49
Alignment explanation
Indices: 28394439--28394710 Score: 150
Period size: 50 Copynumber: 5.6 Consensus size: 49
28394429 GATTGAAGCA
* * * *
28394439 ACAAGTCCTATAC-CTCTGAAGTTGCAGTGG-TTCGGATTAAATCTACAAT
1 ACAAGTCTTAT-CTCTCTGAAGTTGCAGTGGAAT-AGATTAAAGCTACAAT
*
28394488 AGCAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCT
1 A-CAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA--T
* * * ** * *
28394540 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---CGAT
1 ACAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAT
** * * * * * *
28394586 --AAGTCCCATAC-CTCTGAAGTTGTAGAGG-GTCGGATTAAATCTACCAT
1 ACAAGTCTTAT-CTCTCTGAAGTTGCAGTGGAAT-AGATTAAAGCTACAAT
* * * *
28394633 AGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTAAAGCTACAAGCT
1 A-CAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA--T
* *
28394685 ACAAATCTTATCTC-CTAAAGTTGCAG
1 ACAAGTCTTATCTCTCTGAAGTTGCAG
28394711 CAGAATAGGT
Statistics
Matches: 165, Mismatches: 41, Indels: 33
0.69 0.17 0.14
Matches are distributed among these distances:
43 1 0.01
44 25 0.15
45 1 0.01
46 1 0.01
47 3 0.02
48 2 0.01
49 3 0.02
50 77 0.47
51 48 0.29
52 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (49 bp):
ACAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAT
Found at i:28394537 original size:94 final size:93
Alignment explanation
Indices: 28394267--28394537 Score: 302
Period size: 94 Copynumber: 2.9 Consensus size: 93
28394257 TCTTATTTCC
* * *
28394267 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA-CGAATCTTATCTCCTTGAAGTTGCAGT
1 CTGAAGTTGCAGTGG-TCGGATTAAATCTACAA--TAGCGAATCTTATCTCCTTGAAGTTGCAGT
28394331 GGAGTAGATTGAAA-CTA-AA-TCCTATACCT
63 GGAGTAGATT-AAAGCTACAAGTCCTATACCT
* * * * * *
28394360 CTCAAGTTGCATTAAGTCGGATTAAATCTACCATGGCGAATCTTATCTCCTTGAAGTTGCAGTAG
1 CTGAAGTTGCAGT-GGTCGGATTAAATCTACAATAGCGAATCTTATCTCCTTGAAGTTGCAGTGG
* * *
28394425 AGCAGATTGAAGCAACAAGTCCTATACCT
65 AGTAGATTAAAGCTACAAGTCCTATACCT
28394454 CTGAAGTTGCAGTGGTTCGGATTAAATCTACAATAGC-AAGTCTTATCT-CTCTGAAGTTGCAGT
1 CTGAAGTTGCAGTGG-TCGGATTAAATCTACAATAGCGAA-TCTTATCTCCT-TGAAGTTGCAGT
* *
28394517 GGAATAGACTAAAGCTACAAG
63 GGAGTAGATTAAAGCTACAAG
28394538 CTACAAATCT
Statistics
Matches: 147, Mismatches: 23, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
91 3 0.02
92 37 0.25
93 31 0.21
94 76 0.52
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (93 bp):
CTGAAGTTGCAGTGGTCGGATTAAATCTACAATAGCGAATCTTATCTCCTTGAAGTTGCAGTGGA
GTAGATTAAAGCTACAAGTCCTATACCT
Found at i:28394665 original size:145 final size:145
Alignment explanation
Indices: 28394398--28394710 Score: 502
Period size: 145 Copynumber: 2.2 Consensus size: 145
28394388 TACCATGGCG
* * *
28394398 AATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTGAAGCAACAAGTCCTATACCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGCAACAAGTCCCATACCTCTGAAGTTG
* * * * *
28394463 CAGTGGTTCGGATTAAATCTACAATAGCAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGACTA
66 CAGAGGGTCGGATTAAATCTACAATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
28394528 AAGCTACAAGCTACA
131 AAGCTACAAGCTACA
* * *
28394543 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCGATAAGTCCCATACCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGCAACAAGTCCCATACCTCTGAAGTTG
* *
28394608 TAGAGGGTCGGATTAAATCTACCATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
66 CAGAGGGTCGGATTAAATCTACAATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
28394673 AAGCTACAAGCTACA
131 AAGCTACAAGCTACA
28394688 AATCTTATCT-CCTAAAGTTGCAG
1 AATCTTATCTCCCTAAAGTTGCAG
28394711 CAGAATAGGT
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
144 13 0.08
145 142 0.92
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (145 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGCAACAAGTCCCATACCTCTGAAGTTG
CAGAGGGTCGGATTAAATCTACAATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
AAGCTACAAGCTACA
Found at i:28396511 original size:21 final size:23
Alignment explanation
Indices: 28396464--28396513 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 23
28396454 TTTTTTATTA
28396464 TTTTAGATCATGTTTATTTATCCT
1 TTTTAGATCATG-TTATTTATCCT
28396488 TTTTA-ATCATG-TATTT-TCCAT
1 TTTTAGATCATGTTATTTATCC-T
28396509 TTTTA
1 TTTTA
28396514 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.12
21 11 0.44
23 6 0.24
24 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTAGATCATGTTATTTATCCT
Found at i:28399603 original size:19 final size:20
Alignment explanation
Indices: 28399566--28399602 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
28399556 GTTACTCATT
*
28399566 TTTTTTTAGAATTAATTTTA
1 TTTTTTTAGAATGAATTTTA
28399586 TTTTTTTA-AATG-ATTTT
1 TTTTTTTAGAATGAATTTT
28399603 TTACAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTTTAGAATGAATTTTA
Found at i:28399944 original size:21 final size:22
Alignment explanation
Indices: 28399911--28399951 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
28399901 ACAAAAGAAT
*
28399911 TTTTTCATGTAAAAACTCAAAC
1 TTTTTCATATAAAAACTCAAAC
*
28399933 TTTTTC-TATAAAATCTCAA
1 TTTTTCATATAAAAACTCAA
28399952 GTAACTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTTCATATAAAAACTCAAAC
Found at i:28403078 original size:21 final size:20
Alignment explanation
Indices: 28403046--28403084 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
28403036 CCTAGACCCA
*
28403046 AAGTTTAAGGTCGAGGGTCC
1 AAGTTCAAGGTCGAGGGTCC
*
28403066 AAGTTCAACGGTCTAGGGT
1 AAGTTCAA-GGTCGAGGGT
28403085 TTAAGGTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (20 bp):
AAGTTCAAGGTCGAGGGTCC
Found at i:28403110 original size:28 final size:28
Alignment explanation
Indices: 28403079--28403144 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
28403069 TTCAACGGTC
* * * *
28403079 TAGGGTTTAAGGTCCAAGGTTTATGGTT
1 TAGGGTTCAAGGTCCAAGGTCTAAGATT
* *
28403107 TAGGGTTCAGGGTTCAAGGTCTAAGATT
1 TAGGGTTCAAGGTCCAAGGTCTAAGATT
28403135 TAGGG-TCAAG
1 TAGGGTTCAAG
28403145 AGTTTAAGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (28 bp):
TAGGGTTCAAGGTCCAAGGTCTAAGATT
Found at i:28403139 original size:21 final size:21
Alignment explanation
Indices: 28403115--28403159 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
28403105 TTTAGGGTTC
28403115 AGGGTTCAAG-GTCTAAGATTT
1 AGGG-TCAAGAGTCTAAGATTT
* *
28403136 AGGGTCAAGAGTTTAAGGTTT
1 AGGGTCAAGAGTCTAAGATTT
28403157 AGG
1 AGG
28403160 ATCCAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (21 bp):
AGGGTCAAGAGTCTAAGATTT
Found at i:28403169 original size:21 final size:21
Alignment explanation
Indices: 28403120--28403175 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
28403110 GGTTCAGGGT
* * *
28403120 TCAAG-GTCTAAGATTTAGGG
1 TCAAGAGTTTAAGGTTTAGGA
28403140 TCAAGAGTTTAAGGTTTAGGA
1 TCAAGAGTTTAAGGTTTAGGA
*
28403161 TCCAA-AGTTCAAGGT
1 T-CAAGAGTTTAAGGT
28403176 CGAGGGTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 22 0.73
22 3 0.10
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (21 bp):
TCAAGAGTTTAAGGTTTAGGA
Found at i:28416706 original size:25 final size:24
Alignment explanation
Indices: 28416647--28416715 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
28416637 TGTTATTAGC
* * *
28416647 TCTTATGAGCATCCCGATATTTGG
1 TCTTATGAGCTTCCCGTTATATGG
* *
28416671 CCTTCTCGAGCTTCCCGTTATATGG
1 TCTTAT-GAGCTTCCCGTTATATGG
28416696 TTCTTATGAGCTTCCCGTTA
1 -TCTTATGAGCTTCCCGTTA
28416716 ATAGCTTTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.11
25 28 0.78
26 4 0.11
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (24 bp):
TCTTATGAGCTTCCCGTTATATGG
Found at i:28422341 original size:21 final size:21
Alignment explanation
Indices: 28422315--28422358 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
28422305 TAGACCAAGT
28422315 GGGGGTCAACACGACCGTGTG
1 GGGGGTCAACACGACCGTGTG
* * *
28422336 GGGGGTCAATAGGCCCGTGTG
1 GGGGGTCAACACGACCGTGTG
28422357 GG
1 GG
28422359 CCAGGGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (21 bp):
GGGGGTCAACACGACCGTGTG
Found at i:28426195 original size:37 final size:38
Alignment explanation
Indices: 28426144--28426216 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
28426134 TACTCAGCTA
* ** *
28426144 AGCTCTATTTAGTATAACGGTATGATTT-GCTCGATTG
1 AGCTCTATTCAGTATAACAATAAGATTTGGCTCGATTG
*
28426181 AGCTTTATTCAGTATAACAATAAGATTTGGCTCGAT
1 AGCTCTATTCAGTATAACAATAAGATTTGGCTCGAT
28426217 AAAGCGTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (38 bp):
AGCTCTATTCAGTATAACAATAAGATTTGGCTCGATTG
Found at i:28429182 original size:31 final size:31
Alignment explanation
Indices: 28429147--28429747 Score: 339
Period size: 31 Copynumber: 19.6 Consensus size: 31
28429137 GTCTTATACG
* *
28429147 AATCATATACAAATTAATTTTAGTAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * * *
28429178 AATCATATACGAATTAA-TTCGGAAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * * **
28429208 -GTCCATTTACAAATCAAATTCAATAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
*
28429239 AACCATATACAAATTAATTTCAGCAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * *
28429270 AATCATATACGAATTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * * *
28429300 -ATCCATTTACAAATCAAATTCAACAATGTAT
1 AAT-CATATACAAATTAATTTCAGCAATGAAT
* *
28429331 AACCATATACAAATTAATTTCATCAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * * *
28429362 AATCATATACGAATTAA-TTCGGCCACT-TAT
1 AATCATATACAAATTAATTTCAG-CAATGAAT
* * * *
28429392 -ATCCATTTACAAATCAAATTCAACAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
28429423 AATCATATACAAATTAATTTCAGCAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * * *
28429454 AATCATATACGACTTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * *
28429484 -ATCCATTTACAAATCAAATTCAACAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
* * * *
28429515 AACCTTATAGAAATTAATTTCAACAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * *
28429546 AATCATATACGAATTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * *
28429576 -ATCCATTTACAAATCAAATTCAACAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
28429607 AA-CGATATACAAATTAATTTCAGCAATGAAT
1 AATC-ATATACAAATTAATTTCAGCAATGAAT
* * *
28429638 AATCATATACGAATTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * * *
28429668 -ATCTATTTACAAATCAAATTCAACAATGTAT
1 AATC-ATATACAAATTAATTTCAGCAATGAAT
* *
28429699 AACCATATACAAATTAATTTCAACAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
*
28429730 AATCATATACGAATTAAT
1 AATCATATACAAATTAAT
28429748 ACGGCATCCT
Statistics
Matches: 433, Mismatches: 101, Indels: 72
0.71 0.17 0.12
Matches are distributed among these distances:
29 12 0.03
30 120 0.28
31 289 0.67
32 12 0.03
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (31 bp):
AATCATATACAAATTAATTTCAGCAATGAAT
Found at i:28429840 original size:92 final size:92
Alignment explanation
Indices: 28429150--28429839 Score: 1074
Period size: 92 Copynumber: 7.5 Consensus size: 92
28429140 TTATACGAAT
* * * *
28429150 CATATACAAATTAATTTTAGTAATGAATAATCATATACGAATTAATTCGGAAACTTATGTCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
28429215 TACAAATCAAATTCAATAATATATAAC
66 TACAAATCAAATTCAACAATATATAAC
28429242 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
28429307 TACAAATCAAATTCAACAATGTATAAC
66 TACAAATCAAATTCAACAATATATAAC
* *
28429334 CATATACAAATTAATTTCATCAATGAATAATCATATACGAATTAATTCGGCCACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
28429399 TACAAATCAAATTCAACAATATATAAT
66 TACAAATCAAATTCAACAATATATAAC
*
28429426 CATATACAAATTAATTTCAGCAATGAATAATCATATACGACTTAATTCGGCAACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
28429491 TACAAATCAAATTCAACAATATATAAC
66 TACAAATCAAATTCAACAATATATAAC
* * *
28429518 CTTATAGAAATTAATTTCAACAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
28429583 TACAAATCAAATTCAACAATATATAAC
66 TACAAATCAAATTCAACAATATATAAC
* *
28429610 GATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCTATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
28429675 TACAAATCAAATTCAACAATGTATAAC
66 TACAAATCAAATTCAACAATATATAAC
* * * * ** *
28429702 CATATACAAATTAATTTCAACAATGAATAATCATATACGAATTAATACGGCATCCTATATTTATA
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
* * * * *
28429767 AACAATTCAATTTCGACAATGTATAAC
66 TACAAATCAAATTCAACAATATATAAC
* * * * * *
28429794 CATGTACAAATTAATTTCAGCAAGGTACAACCATATATGAATTAAT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAAT
28429840 ATATCTATAT
Statistics
Matches: 556, Mismatches: 42, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 556 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (92 bp):
CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
TACAAATCAAATTCAACAATATATAAC
Found at i:28433029 original size:37 final size:36
Alignment explanation
Indices: 28432985--28433074 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 36
28432975 ATAAAATAAG
* * *
28432985 AAAATTTGATCTTCAAGGACTGAATTATAAAACTGTGT
1 AAAATTTGAT-TTCAAGGACTAAATCATAAAAAT-TGT
28433023 -AAATTTGGGATTTCAAGGACTAAATCATAAAAATTGT
1 AAAATTT--GATTTCAAGGACTAAATCATAAAAATTGT
28433060 AAAATTTGAATTTCA
1 AAAATTTG-ATTTCA
28433075 GGTTGTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
36 1 0.02
37 15 0.33
38 26 0.58
39 3 0.07
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (36 bp):
AAAATTTGATTTCAAGGACTAAATCATAAAAATTGT
Found at i:28433662 original size:21 final size:21
Alignment explanation
Indices: 28433594--28433669 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
28433584 TGCATAGAAC
*
28433594 AATGTATCGGTACATGC-AAGA
1 AATGTATCGATACAT-CTAAGA
* * * *
28433615 AATGTATTGATACCTTTAAGG
1 AATGTATCGATACATCTAAGA
**
28433636 CGTGTATCGATACATCTAAGA
1 AATGTATCGATACATCTAAGA
*
28433657 AATGTACCGATAC
1 AATGTATCGATAC
28433670 CTTACCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATCTAAGA
Found at i:28436214 original size:28 final size:28
Alignment explanation
Indices: 28436174--28436229 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
28436164 TTCACTCATA
28436174 GGAATGAAGTTACCTGTTGGAATTAGTC
1 GGAATGAAGTTACCTGTTGGAATTAGTC
28436202 GGAATGAAGTTACCTGTTGGAATTAGTC
1 GGAATGAAGTTACCTGTTGGAATTAGTC
28436230 AATGCTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (28 bp):
GGAATGAAGTTACCTGTTGGAATTAGTC
Found at i:28438132 original size:28 final size:28
Alignment explanation
Indices: 28438100--28438155 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
28438090 TAAAGCATGT
28438100 AAATTCATCCCACATCGAATACGAAGAG
1 AAATTCATCCCACATCGAATACGAAGAG
28438128 AAATTCATCCCACATCGAATACGAAGAG
1 AAATTCATCCCACATCGAATACGAAGAG
28438156 GAAGAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (28 bp):
AAATTCATCCCACATCGAATACGAAGAG
Found at i:28442961 original size:26 final size:26
Alignment explanation
Indices: 28442905--28442962 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
28442895 AAAATACTTT
* **
28442905 AAAATATTTTTTTAATTTTTTTATTTT
1 AAAATATTTTTTTAA-TTGTTTATTAA
28442932 AAAATAATTTTTTTAA-TGTTTATTAA
1 AAAAT-ATTTTTTTAATTGTTTATTAA
28442958 AAAAT
1 AAAAT
28442963 GGGCCGGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.44
27 5 0.19
28 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
AAAATATTTTTTTAATTGTTTATTAA
Found at i:28446834 original size:60 final size:54
Alignment explanation
Indices: 28446715--28446861 Score: 179
Period size: 54 Copynumber: 2.6 Consensus size: 54
28446705 CTTAGAAGCT
*
28446715 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAGGATATAAAAGTT
1 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAGGATATAAAAGTC
* *
28446769 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAGCAGATTAGGATGAAAACATAAAAGTC
1 ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAGGAT------ATAAAAGTC
* *
28446829 ACTAGTCAT-AATTCTGATGAAGAAAACACTTCA
1 ACTAGTTATCAA-TCTGATGAAGAAAAAACTTCA
28446862 TCTGAAGAAG
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
54 43 0.53
59 2 0.02
60 36 0.44
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (54 bp):
ACTAGTTATCAATCTGATGAAGAAAAAACTTCAACAGATCAGGATATAAAAGTC
Found at i:28449065 original size:27 final size:27
Alignment explanation
Indices: 28448969--28449169 Score: 197
Period size: 27 Copynumber: 7.3 Consensus size: 27
28448959 GTGAGGTCAA
* * *
28448969 TAAAATGATCGAAATACCCCCCGTAGGG
1 TAAAATGACCGAAATA-CCCTCATAGGG
** * *
28448997 TAAAATGACTAAAATACCCCCCATAAGG
1 TAAAATGACCGAAATA-CCCTCATAGGG
* * *
28449025 TAAAATGACCAAAATACCCTCGTAGGA
1 TAAAATGACCGAAATACCCTCATAGGG
* * * *
28449052 TTAAATAACCAAAATACCC-CTGTAGGG
1 TAAAATGACCGAAATACCCTC-ATAGGG
28449079 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* *
28449106 TAAAATGATCGAAATACCCCCCATAGGG
1 TAAAATGACCGAAATA-CCCTCATAGGG
* *
28449134 TAAAATAACCGAAATACCCTCATAAGG
1 TAAAATGACCGAAATACCCTCATAGGG
28449161 TAAAATGAC
1 TAAAATGAC
28449170 TGTTATACCC
Statistics
Matches: 146, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 82 0.56
28 63 0.43
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCATAGGG
Found at i:28449071 original size:55 final size:55
Alignment explanation
Indices: 28448969--28449169 Score: 242
Period size: 55 Copynumber: 3.7 Consensus size: 55
28448959 GTGAGGTCAA
* * * *
28448969 TAAAATGATCGAAATACCCCCCGTAGGGTAAAATGACTAAAATACCCCCCATAAGG
1 TAAAATGACCGAAATA-CCCTCGTAGGGTAAAATGACCAAAATACCCCCCATAGGG
* * * * **
28449025 TAAAATGACCAAAATACCCTCGTAGGATTAAATAACCAAAATA-CCCCTGTAGGG
1 TAAAATGACCGAAATACCCTCGTAGGGTAAAATGACCAAAATACCCCCCATAGGG
* * *
28449079 TAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCCATAGGG
1 TAAAATGACCGAAATACCCTCGTAGGGTAAAATGACCAAAATACCCCCCATAGGG
* * *
28449134 TAAAATAACCGAAATACCCTCATAAGGTAAAATGAC
1 TAAAATGACCGAAATACCCTCGTAGGGTAAAATGAC
28449170 TGTTATACCC
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
54 44 0.36
55 64 0.52
56 14 0.11
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (55 bp):
TAAAATGACCGAAATACCCTCGTAGGGTAAAATGACCAAAATACCCCCCATAGGG
Found at i:28449373 original size:26 final size:26
Alignment explanation
Indices: 28449344--28449397 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
28449334 CTGCCACATC
* *
28449344 TACTGTTACTGGCAGTTTTGCTGCGA
1 TACTATTACTGGCAGCTTTGCTGCGA
28449370 TACTATTACTGGCAGCTTTGCTGCGA
1 TACTATTACTGGCAGCTTTGCTGCGA
28449396 TA
1 TA
28449398 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCGA
Found at i:28455890 original size:29 final size:30
Alignment explanation
Indices: 28455831--28455888 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
28455821 TCCGAGCCTT
*
28455831 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
28455861 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
28455889 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:28456118 original size:13 final size:13
Alignment explanation
Indices: 28456100--28456131 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
28456090 TTTCCAGCAA
28456100 TTATGAATTTATT
1 TTATGAATTTATT
28456113 TTATGAATTTATT
1 TTATGAATTTATT
*
28456126 TGATGA
1 TTATGA
28456132 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:28456339 original size:50 final size:50
Alignment explanation
Indices: 28456226--28456467 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
28456216 ATTTGGGTAA
* * *
28456226 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
28456282 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
28456332 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
28456382 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
28456432 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
28456468 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:28456415 original size:100 final size:103
Alignment explanation
Indices: 28456226--28456475 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
28456216 ATTTGGGTAA
28456226 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
28456291 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
28456332 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
28456394 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
28456432 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
28456476 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:28463483 original size:29 final size:30
Alignment explanation
Indices: 28463424--28463481 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
28463414 TCCGAGCCTT
*
28463424 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
28463454 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
28463482 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:28463711 original size:13 final size:13
Alignment explanation
Indices: 28463693--28463724 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
28463683 TTTCCAGCAA
28463693 TTATGAATTTATT
1 TTATGAATTTATT
28463706 TTATGAATTTATT
1 TTATGAATTTATT
*
28463719 TGATGA
1 TTATGA
28463725 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:28463932 original size:50 final size:50
Alignment explanation
Indices: 28463819--28464060 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
28463809 ATTTGGGTAA
* * *
28463819 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
28463875 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
28463925 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
28463975 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
28464025 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
28464061 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:28464008 original size:100 final size:103
Alignment explanation
Indices: 28463819--28464068 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
28463809 ATTTGGGTAA
28463819 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
28463884 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
28463925 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
28463987 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
28464025 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
28464069 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:28470656 original size:19 final size:18
Alignment explanation
Indices: 28470619--28470657 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
28470609 CCAGGATTAT
*
28470619 AAAAATCTTTTATTTTTG
1 AAAAATCTTTTATTCTTG
28470637 AAAAATCTTTTATATCTTG
1 AAAAATCTTTTAT-TCTTG
28470656 AA
1 AA
28470658 TTTGTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (18 bp):
AAAAATCTTTTATTCTTG
Found at i:28476039 original size:11 final size:11
Alignment explanation
Indices: 28476023--28476049 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
28476013 AAAAAATAAA
28476023 AAAATTATTTT
1 AAAATTATTTT
28476034 AAAATTATTTT
1 AAAATTATTTT
28476045 AAAAT
1 AAAAT
28476050 AAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:28479302 original size:20 final size:20
Alignment explanation
Indices: 28479273--28479317 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
28479263 TCTTTAAAAC
* * *
28479273 TTTCATGTTTTAAGTAGTTA
1 TTTCAAGTTTTAAATAATTA
28479293 TTTCAAGTTTTAAATAATTA
1 TTTCAAGTTTTAAATAATTA
28479313 TTTCA
1 TTTCA
28479318 TGTATCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTCAAGTTTTAAATAATTA
Found at i:28483131 original size:72 final size:73
Alignment explanation
Indices: 28483014--28483222 Score: 339
Period size: 72 Copynumber: 2.9 Consensus size: 73
28483004 TCTCGGGTTT
* *
28483014 AAAAATGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
*
28483079 CTTGAG-A
66 ATTGAGAA
**
28483086 AAAAAATTGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
28483151 ATTGAGAAA
66 ATTGAG-AA
* *
28483160 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATTGTTTAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAA
28483223 CTTGATTTTG
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
72 66 0.52
74 60 0.48
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
ATTGAGAA
Found at i:28483722 original size:7 final size:7
Alignment explanation
Indices: 28483710--28483736 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
28483700 TATGTATATA
28483710 TATAAAG
1 TATAAAG
28483717 TATAAAG
1 TATAAAG
28483724 TATAAAG
1 TATAAAG
28483731 TATAAA
1 TATAAA
28483737 TAATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
TATAAAG
Found at i:28489874 original size:100 final size:100
Alignment explanation
Indices: 28489701--28490234 Score: 684
Period size: 100 Copynumber: 5.4 Consensus size: 100
28489691 TCTGTTCGCC
* * * * *
28489701 AGGGAAATAAGATTTGCTGTTGTAG-TTTCAATCTATTTAACTGTAATTTCGGGGAAGCAAGATT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTT-AATCTATTTAACTGCAATGTCGGGAAAGCAAGATT
* * *
28489765 CGCTGTTGTAGCTTCAATCTGTTCCATTGCATCACT
65 CACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* *
28489801 AGGGAAGTAAGAATCGCTGTTGTAGCTTTAATCTATTTAACTGCGATGTCGGGAAAGCAAGATTC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTCGGGAAAGCAAGATTC
* *
28489866 ACTGTTGTAGCTTCAATCTGTTCCACTACACCGCT
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * *
28489901 AAGGAAGTAAGATTCGCTATTGTAGCTTAAATCTATTTAACTGCAATGTCGGGGAAA-CAAGATT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTC-GGGAAAGCAAGATT
* *
28489965 TACTATTGTAGCTTCAATCTGTTCCACTGCACCACT
65 CACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * * * *
28490001 AGGGAAGTCAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGCAGTGTCGGGGAAGCAAGATTC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTCGGGAAAGCAAGATTC
*
28490066 ACT-TTGTAGCTTCAATCTGTTCCACTGCACCACC
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * *
28490100 AGGGAAGTAAGA--CGCTGTTGTAGCTTCAATCTGTTTAACTGTAATGTCAGGG-AAGCAAGATT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTC-GGGAAAGCAAGATT
*** * * * *
28490162 TGTTGTTTTAGCTTCATTTTGTTCCACTGCACCGCT
65 CACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* *
28490198 AGGGACGTAAGATTCGTTGTTGTAGCTTTAATCTATT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATT
28490235 CCACTGTAAT
Statistics
Matches: 381, Mismatches: 46, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
97 44 0.12
98 40 0.10
99 46 0.12
100 242 0.64
101 9 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (100 bp):
AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTCGGGAAAGCAAGATTC
ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
Found at i:28490237 original size:50 final size:50
Alignment explanation
Indices: 28489752--28490240 Score: 373
Period size: 50 Copynumber: 9.8 Consensus size: 50
28489742 TGTAATTTCG
* * * *
28489752 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTGCATCACTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * ** * *
28489802 GGGAAGTAAGAATCGCTGTTGTAGCTTTAATCTATTTAACTGCGA-TG-TC
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGC-ACCGCTA
* * *
28489851 GGGAAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCTA
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * * ** ** *
28489902 AGGAAGTAAGATTCGCTATTGTAGCTTAAATCTATTTAACTGCAATG-TCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCT-A
** ** * *
28489952 GGGAAACAAGATTTACTATTGTAGCTTCAATCTGTTCCACTGCACCACTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * ** ** *
28490002 GGGAAGTCAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGCAGTG-TCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCT-A
* * * *
28490052 GGGAAGCAAGATTCACT-TTGTAGCTTCAATCTGTTCCACTGCACCACCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
** * **
28490101 GGGAAGTAAGA--CGCTGTTGTAGCTTCAATCTGTTTAACTGTAATG-TCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCT-A
* * * * * *
28490149 GGGAAGCAAGATTTGTTGTTTTAGCTTCATTTTGTTCCACTGCACCGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
* * * *
28490199 GGGACGTAAGATTCGTTGTTGTAGCTTTAATCTATTCCACTG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
28490241 TAATGCCAAA
Statistics
Matches: 327, Mismatches: 99, Indels: 26
0.72 0.22 0.06
Matches are distributed among these distances:
47 3 0.01
48 34 0.10
49 40 0.12
50 244 0.75
51 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTA
Found at i:28492056 original size:20 final size:21
Alignment explanation
Indices: 28492019--28492059 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
28492009 TATGTAATCA
28492019 TTATTTTCATAATATATATAT
1 TTATTTTCATAATATATATAT
28492040 TTATTTT-ATAACT-TATATAT
1 TTATTTTCATAA-TATATATAT
28492060 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATATATATAT
Found at i:28501420 original size:45 final size:45
Alignment explanation
Indices: 28501148--28501777 Score: 402
Period size: 45 Copynumber: 14.4 Consensus size: 45
28501138 AAATCCTGAT
* * *
28501148 TCCCTGAAGTTACAGTGG-GACAGACTGAAG-ATGACGAA-TCTTATC
1 TCCCTGAAGTTGCAGTGGAG-CAGACTCAAGAAAG-C-AAGTCTTATC
* * * * * *
28501193 TCCCTTAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAGTCTTATC
* * **
28501237 TCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AGTG-ATAGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTATC
* * * * *
28501281 TCTCTGAAGTTGCAG-AGAGCAGA-TC--G-TATCTAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* *
28501321 TCCCTGAAGTTGCAGTGGAGCAGACT-GAGTAAGCAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* * *
28501365 CCCCT-AAGGTTGCAGTGGGGTAGACTCAAGAAAGCAAGTCTTATC
1 TCCCTGAA-GTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* * * *
28501410 TTCCTGAGGTTGCAGTAGAGCAGATTCAAGAAAGCAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
*
28501455 TCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* * * * *
28501500 -CCTCTGAAATTGCAGTAGG-GCAGACTGAATAAA-CAAATCCTATC
1 TCC-CTGAAGTTGCAGT-GGAGCAGACTCAAGAAAGCAAGTCTTATC
* * * ** * * * *
28501544 TCCCTAAAGTTGTAGTGGAG-TGGGT-TAGAATG-ATGGATCTTATA
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTATC
* * * * *
28501588 TCTCTGAAGTTGCAGTAGAGCAGA-TC---ATATCAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* * *
28501629 TCCCTGAAATTGTAGTGGAGCAGACTCAAGAAAGCAAATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* * *
28501674 TCCCTGAAGTTGCAGTAGAGCAAACTAAAGAAAGCAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
* * * *
28501719 -CCCTTGACA-TTGCAATAGG-GCAGACTGAATAAA--AAATCTTATC
1 TCCC-TGA-AGTTGCAGT-GGAGCAGACTCAAGAAAGCAAGTCTTATC
*
28501762 TCTCTGAAGTTGCAGT
1 TCCCTGAAGTTGCAGT
28501778 AGAGTAGATT
Statistics
Matches: 456, Mismatches: 93, Indels: 74
0.73 0.15 0.12
Matches are distributed among these distances:
40 21 0.05
41 36 0.08
42 10 0.02
43 36 0.08
44 130 0.29
45 216 0.47
46 6 0.01
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATC
Found at i:28501760 original size:174 final size:171
Alignment explanation
Indices: 28501314--28501786 Score: 459
Period size: 174 Copynumber: 2.7 Consensus size: 171
28501304 TCGTATCTAG
* * * *
28501314 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGCAAGTCTTATCCCCCTAAGGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAAAGCAAGTCTTAT-CCCCTAA-ATTGCA
* * * *
28501379 GTGGGGTAGACTCAAGAAAGCAAGTCTTATCT-TCCTGAGGTTGCAGTAGAGCAGATTCAAGAAA
64 GT-GGGTAGACTGAATAAA--AAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGA-TC-A-AAA
* *
28501443 GCAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAAG
122 GCAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAAA
* * * * *
28501493 TCTTATC-CCTCTGAAATTGCAGTAGGGCAGACTGAATAAA-CAAATCCTATCTCCCTAAAGTTG
1 TCTTATCTCC-CTGAAGTTGCAGTAGAGCAGACT-AAGAAAGCAAGTCTTATC-CCCTAAA-TTG
* * ** * *** * * *
28501556 TAGTGGAGTGGGTTAGAATGATGGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATC-ATATCA
62 CAGTGG-GTAGACT-GAATAAAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAAGCA
*
28501620 AATCTTATCTCCCTGAAATTGTAGTGGAGCAGACTCAAGAAAGCAAA
125 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAAA
* *
28501667 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGAAAGCAAGTCTTATCCCCTTGACATTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAGAAAGCAAGTCTTATCCCC-T-AAATTGC
* * *
28501732 AATAGGGCAGACTGAATAAAAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
63 AGT-GGGTAGACTGAATAAAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
28501787 TGAGAAAACC
Statistics
Matches: 235, Mismatches: 47, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
174 119 0.51
175 20 0.09
176 4 0.02
177 2 0.01
178 32 0.14
179 52 0.22
180 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (171 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAAAGCAAGTCTTATCCCCTAAATTGCAGT
GGGTAGACTGAATAAAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAAGCAAATCTT
ATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAAA
Found at i:28512205 original size:50 final size:50
Alignment explanation
Indices: 28512130--28512507 Score: 393
Period size: 50 Copynumber: 7.6 Consensus size: 50
28512120 ATGTTCGCTA
* * * *
28512130 GGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* ** * * *
28512180 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG-TATCGCCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCG
* * *
28512230 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCGATGTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * *
28512280 GGAAAGCAAGATTCACTATTGTAGCTTCAATCTATTTAACTGCAATGTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * ** * * ** *
28512330 GGGAAACAAGATCCACTGTTGTAGCTTCAATCTGTTCCATTACACCG-CTA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-G
* * * * *
28512380 GGGAAGTAAGATTTGTTGTTGTAGCTTCAATATATTTAACTGCAATGTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * *
28512430 GGGAAGCAAGATTCACT-TTGTAGCTTCAATCTATTTAACTGTAATGTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
*
28512479 GGTAAGCAAGATTCGCTGTTGTAGCTTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCA
28512508 TTTTGTTCCA
Statistics
Matches: 261, Mismatches: 62, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
49 46 0.18
50 213 0.82
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
Found at i:28512416 original size:150 final size:149
Alignment explanation
Indices: 28512148--28512559 Score: 608
Period size: 150 Copynumber: 2.8 Consensus size: 149
28512138 AGATTTGTTG
*
28512148 TTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
* * * * * *
28512213 GTTCCACTGTATCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCGATGT
66 GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATATATTTAACTGCAATGT
28512278 CGGGAAAGCAAGATTCACT
131 CGGGAAAGCAAGATTCACT
* * *
28512297 ATTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATCCACTGTTGTAGCTTCAATC
1 -TTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATC
* * * *
28512362 TGTTCCATTACACCGCTAGGGAAGTAAGATTTGTTGTTGTAGCTTCAATATATTTAACTGCAATG
65 TGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATATATTTAACTGCAATG
* *
28512427 TTGGGGAAGCAAGATTCACT
130 TCGGGAAAGCAAGATTCACT
* * * * *
28512447 TTGTAGCTTCAATCTATTTAACTGTAATGTCAGGTAAGCAAGATTCGCTGTTGTAGCTTCATTTT
1 TTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
* *
28512512 GTTCCACTGCACCGCTAGGTAAGTAAGATTCGCTGTTGTAACTTCAAT
66 GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAAT
28512560 CTGTTCCACT
Statistics
Matches: 232, Mismatches: 30, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
149 99 0.43
150 133 0.57
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
GTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATATATTTAACTGCAATGT
CGGGAAAGCAAGATTCACT
Found at i:28512532 original size:50 final size:49
Alignment explanation
Indices: 28512128--28512575 Score: 351
Period size: 50 Copynumber: 9.0 Consensus size: 49
28512118 ATATGTTCGC
* * * * *
28512128 TAGGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTACAATG
1 TAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * *
28512177 TCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG-TATCG
1 T-AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAAT-G
* * * * *
28512227 CCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCGATG
1 -TAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * *
28512277 TCGGGAAAGCAAGATTCACTATTGTAGCTTCAATCTATTTAACTGCAATG
1 TAGGG-AAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * * * * * * **
28512327 TCGGGGAAACAAGATCCACTGTTGTAGCTTCAATCTGTTCCATTACACCG
1 T-AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * * *
28512377 CTAGGGAAGTAAGATTTGTTGTTGTAGCTTCAATATATTTAACTGCAATG
1 -TAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * *
28512427 TTGGGGAAGCAAGATTCACT-TTGTAGCTTCAATCTATTTAACTGTAATG
1 -TAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * * * **
28512476 TCAGGTAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCG
1 T-AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
* * * * * *
28512526 CTAGGTAAGTAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTGTAATG
1 -TAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
28512576 CCAAAGAGAT
Statistics
Matches: 313, Mismatches: 76, Indels: 19
0.77 0.19 0.05
Matches are distributed among these distances:
48 1 0.00
49 48 0.15
50 257 0.82
51 7 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (49 bp):
TAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCAACTGCAATG
Found at i:28512842 original size:50 final size:50
Alignment explanation
Indices: 28512697--28512935 Score: 236
Period size: 50 Copynumber: 4.8 Consensus size: 50
28512687 TGCAACGCCA
** * * *
28512697 TAAGATTCGCTGTTGTAGCTTCAATCTGTTTAAC-CCAGTGTCGGGGAAG
1 TAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCAGGGAAG
* * *
28512746 CAAGATTCACT-TTGTAGCTTCAATCTGTTCCACTGCACCA-CT-AGGGAAG
1 TAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCA--ATGTCAGGGAAG
* * ** *
28512795 TAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAG
1 TAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCAGGGAAG
* * * **
28512845 CAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCG-CTAGGGAAG
1 TAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTC-AGGGAAG
* *
28512895 TAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATG
1 TAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATG
28512936 CCAAAGAGAT
Statistics
Matches: 150, Mismatches: 33, Indels: 13
0.77 0.17 0.07
Matches are distributed among these distances:
48 21 0.14
49 27 0.18
50 102 0.68
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (50 bp):
TAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCAGGGAAG
Found at i:28512856 original size:360 final size:361
Alignment explanation
Indices: 28512430--28513447 Score: 1851
Period size: 361 Copynumber: 2.8 Consensus size: 361
28512420 TGCAATGTTG
* * * *
28512430 GGGAAGCAAGATTCACT-TTGTAGCTTCAATCTATTTAACTGTAATGTCAGGTAAGCAAGATTCG
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCG
* *
28512494 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGTAAGTAAGATTCGCTGTTGTAACTTCAA
66 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAA
* *
28512559 TCTGTTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCATAACTTTAATCCGCTCCACTTCA
131 TCTATTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCA
* * * * *
28512624 GCTATTCCAAGCCTTAACGCCAGAGAGATAAAATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTG
196 GTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCGCTG
*
28512689 CAACGCCATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAAC-CCAGTGTCGGGGAAGCAAGATT
261 CAACGCCATAAGATTTGCTGTTGTAGCTTCAATCTGTTTAACTCCAGTGTCGGGGAAGCAAGATT
* *
28512753 CACTTTGTAGCTTCAATCTGTTCCACTGCACCACTA
326 CACTTTGTAGCTTCAATCTGTTCCACTGCACAACCA
28512789 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCG
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCG
28512854 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAA
66 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAA
28512919 TCTATTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCA
131 TCTATTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCA
28512984 GTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCGCTG
196 GTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCGCTG
* *
28513049 CAACGCCATAAGATTTGCTGTTGTAACTTCAATCTGTTTAACTGCAGTGTCGGGGAAGCAAGATT
261 CAACGCCATAAGATTTGCTGTTGTAGCTTCAATCTGTTTAACTCCAGTGTCGGGGAAGCAAGATT
28513114 CACTTTGTAGCTTCAATCTGTTCCACTGCACAACCA
326 CACTTTGTAGCTTCAATCTGTTCCACTGCACAACCA
*
28513150 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGCAAGATTCG
1 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCG
28513215 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAA
66 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAA
28513280 TCTATTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCA
131 TCTATTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCA
28513345 GTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCGCTG
196 GTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCGCTG
28513410 CAACGCCATAAGATTTGCTGTTGTAGCTTCAATCTGTT
261 CAACGCCATAAGATTTGCTGTTGTAGCTTCAATCTGTT
28513448 CCACTGCAAT
Statistics
Matches: 637, Mismatches: 20, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
359 14 0.02
360 272 0.43
361 351 0.55
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (361 bp):
GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCG
CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAA
TCTATTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCGCTCCACTTCA
GTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCGCTG
CAACGCCATAAGATTTGCTGTTGTAGCTTCAATCTGTTTAACTCCAGTGTCGGGGAAGCAAGATT
CACTTTGTAGCTTCAATCTGTTCCACTGCACAACCA
Found at i:28512892 original size:100 final size:99
Alignment explanation
Indices: 28512697--28512935 Score: 354
Period size: 100 Copynumber: 2.4 Consensus size: 99
28512687 TGCAACGCCA
* ** * *
28512697 TAAGATTCGCTGTTGTAGCTTCAATCTGTTTAAC-CCAGTGTCGGGGAAGCAAGATTCACTTTGT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCACTTTGT
28512761 AGCTTCAATCTGTTCCACTGCACCACTAGGGAAG
66 AGCTTCAATCTGTTCCACTGCACCACTAGGGAAG
* *
28512795 TAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCGCTGTTG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCACT-TTG
* * *
28512860 TAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAG
65 TAGCTTCAATCTGTTCCACTGCACCACTAGGGAAG
**
28512895 TAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATG
28512936 CCAAAGAGAT
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
98 32 0.25
99 21 0.17
100 73 0.58
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (99 bp):
TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCACTTTGT
AGCTTCAATCTGTTCCACTGCACCACTAGGGAAG
Found at i:28513202 original size:50 final size:50
Alignment explanation
Indices: 28513058--28513291 Score: 231
Period size: 50 Copynumber: 4.7 Consensus size: 50
28513048 GCAACGCCAT
* * ** * * *
28513058 AAGATTTGCTGTTGTAACTTCAATCTGTTTAACTGCAGTGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATATCAGGGAAGC
* * *
28513108 AAGATTCACT-TTGTAGCTTCAATCTGTTCCACTGCACA-ACCAGGGAAGT
1 AAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCA-ATATCAGGGAAGC
* * ** *
28513157 AAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGC
1 AAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATATCAGGGAAGC
* * *** *
28513207 AAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGC-ACCGCTAGGGAAGT
1 AAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATATC-AGGGAAGC
*
28513257 AAGATTCGCTGTTGTAGCTTCAATCTATTCCACTG
1 AAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG
28513292 TAATGCCAAA
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
49 41 0.28
50 107 0.72
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (50 bp):
AAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATATCAGGGAAGC
Found at i:28513266 original size:100 final size:99
Alignment explanation
Indices: 28513057--28513295 Score: 325
Period size: 100 Copynumber: 2.4 Consensus size: 99
28513047 TGCAACGCCA
* * * * * * *
28513057 TAAGATTTGCTGTTGTAACTTCAATCTGTTTAACTGCAGTGTCGGGGAAGCAAGATTCACTTTGT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGCAAGATTCACTTTGT
28513122 AGCTTCAATCTGTTCCACTGCACAACCAGGGAAG
66 AGCTTCAATCTGTTCCACTGCACAACCAGGGAAG
* *
28513156 TAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGCAAGATTCGCTGTTG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGCAAGATTCACT-TTG
* * ** *
28513221 TAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAG
65 TAGCTTCAATCTGTTCCACTGCACAACCAGGGAAG
**
28513256 TAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAAT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAAT
28513296 GCCAAAGAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
99 52 0.43
100 70 0.57
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (99 bp):
TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGCAAGATTCACTTTGT
AGCTTCAATCTGTTCCACTGCACAACCAGGGAAG
Found at i:28513313 original size:50 final size:49
Alignment explanation
Indices: 28513109--28513313 Score: 141
Period size: 50 Copynumber: 4.1 Consensus size: 49
28513099 CGGGGAAGCA
* * * *
28513109 AGATTCACT-TTGTAGCTTCAATCTGTTCCACTGCACA-ACCAGGGA-AGT
1 AGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTA-ATGCCAGGGAGA-T
* ** **
28513157 AAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATATCAGGGAAGCA-
1 -AGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGG-AG-AT
* * * * ** *
28513208 AGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGA-AGT
1 AGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGGAGA-T
**
28513257 AAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAAAGAGAT
1 -AGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGGAGAT
28513307 AGGATTC
1 A-GATTC
28513314 ACTGCCCACA
Statistics
Matches: 118, Mismatches: 28, Indels: 19
0.72 0.17 0.12
Matches are distributed among these distances:
47 1 0.01
49 10 0.08
50 104 0.88
51 2 0.02
53 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (49 bp):
AGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGGAGAT
Found at i:28527532 original size:44 final size:43
Alignment explanation
Indices: 28527436--28527992 Score: 291
Period size: 45 Copynumber: 12.7 Consensus size: 43
28527426 AAGATGGCAA
* *
28527436 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCCAATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATG--AA-AG
* * * *
28527480 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAA-TGAAAG
* * * * * **
28527524 ATCTTATCTCTCTAAAGTTACAG-AGAGCAGA-TCGCAT-CTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTC-AATGAAAG
* * *
28527565 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAGT-AAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATGAA--AG
* *
28527608 GTCTTATC-CCTCTGAGGTTGCAGTGTG-GCAGACTCAA-GAAAG
1 ATCTTATCTCC-CTGAAGTTGCAGTG-GAGCAGACTCAATGAAAG
* * *
28527650 CAAGTCTTATCTTCCTGAGGTTGCAGTGGAGCAGATTCAA-GAAAG
1 --A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATGAAAG
*
28527695 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAA-GAAAG
1 --A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATGAAAG
* * * * * *
28527740 CAAGTCTTATCCCCCTAAAATTGCAGTAGG-GCAGACTGAATAAACAA
1 --A-TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTCAATGAA-AG
* * * * ** * * **
28527787 ATCCTATCTTCCTAAAGTTGTAGTGGAGTGGATTAGAATGATGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-CAATGAAAG
* *
28527831 ATCTTATATCTCTGAAGTTGCAGTGGAGCAGACTCAA-GAAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATGAAAG
* *
28527873 CAAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTCGA-GAAAG
1 --A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATGAAAG
* * * * * *
28527918 CAAGTCTTATC-CCCTTGAAATTGCACTGGGGCAGACTGAATAAACAA
1 --A-TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTCAATGAA-AG
* *
28527965 ATCTTATCTCCTTGAAGTTGCAATGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
28527993 TAGATTGAGA
Statistics
Matches: 406, Mismatches: 78, Indels: 58
0.75 0.14 0.11
Matches are distributed among these distances:
40 19 0.05
41 10 0.02
42 8 0.02
43 17 0.04
44 151 0.37
45 191 0.47
46 8 0.02
47 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATGAAAG
Done.