Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1836
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1164857
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 152653 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:30507 original size:2 final size:2
Alignment explanation
Indices: 30500--30549 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
30490 CCGTTTACAC
30500 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30542 AG AG AG AG
1 AG AG AG AG
30550 TTTAGCACAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59598 original size:22 final size:22
Alignment explanation
Indices: 59530--59600 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
59520 AAAACAAACG
* *
59530 GGAATCCGCCCT-AATCTTAGGT
1 GGAATCCG-CCTAAATATAAGGT
* *
59552 GGAATCCACCTTATAATA-AA-TT
1 GGAATCCGCC-TA-AATATAAGGT
59574 GGAATCCGCCTAAATATAAGGT
1 GGAATCCGCCTAAATATAAGGT
59596 GGAAT
1 GGAAT
59601 ACGCAAGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 4 0.11
21 6 0.16
22 24 0.63
23 1 0.03
24 3 0.08
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (22 bp):
GGAATCCGCCTAAATATAAGGT
Found at i:71336 original size:7 final size:7
Alignment explanation
Indices: 71324--71390 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
71314 GAGAAGGATC
71324 ATTCGAG
1 ATTCGAG
71331 ATTCGAG
1 ATTCGAG
*
71338 ATTCGAA
1 ATTCGAG
*
71345 ATACGAG
1 ATTCGAG
*
71352 ATTCGAA
1 ATTCGAG
*
71359 ATACGAG
1 ATTCGAG
71366 ATTCGAG
1 ATTCGAG
*
71373 ATTCGAA
1 ATTCGAG
71380 ATTCGAG
1 ATTCGAG
71387 ATTC
1 ATTC
71391 AATATCTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:74583 original size:7 final size:7
Alignment explanation
Indices: 74568--74634 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
74558 TTTAGATATT
74568 GAATCTC
1 GAATCTC
*
74575 GAATTTC
1 GAATCTC
74582 GAATCTC
1 GAATCTC
74589 GAATCTC
1 GAATCTC
* *
74596 GTATTTC
1 GAATCTC
74603 GAATCTC
1 GAATCTC
* *
74610 GTATTTC
1 GAATCTC
74617 GAATCTC
1 GAATCTC
74624 GAATCTC
1 GAATCTC
74631 GAAT
1 GAAT
74635 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:74593 original size:21 final size:21
Alignment explanation
Indices: 74568--74634 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
74558 TTTAGATATT
74568 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
74589 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
74610 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
74631 GAAT
1 GAAT
74635 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:97672 original size:21 final size:21
Alignment explanation
Indices: 97592--97677 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
97582 GATATGGCGA
* *
97592 ATGAGATTT-TATGCTATGGT
1 ATGAGATTTCAATGCTATGCT
* * *
97612 GTGAGATTTCAATGTTATACT
1 ATGAGATTTCAATGCTATGCT
* *
97633 TTGAGATTCCAATGCTATGCT
1 ATGAGATTTCAATGCTATGCT
* *
97654 ATGAGATTTCAGTGCTATGTT
1 ATGAGATTTCAATGCTATGCT
97675 ATG
1 ATG
97678 TTATGGTGCA
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
20 8 0.15
21 44 0.85
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (21 bp):
ATGAGATTTCAATGCTATGCT
Found at i:102726 original size:11 final size:11
Alignment explanation
Indices: 102710--102735 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
102700 CAAAGTCATA
102710 AACACTTATGT
1 AACACTTATGT
102721 AACACTTATGT
1 AACACTTATGT
102732 AACA
1 AACA
102736 TATGATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (11 bp):
AACACTTATGT
Found at i:102965 original size:23 final size:23
Alignment explanation
Indices: 102939--102984 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
102929 TTCAGAGGTT
102939 CCCACCCCTTAAAATACAGATAA
1 CCCACCCCTTAAAATACAGATAA
102962 CCCACCCCTTAAAATACAGATAA
1 CCCACCCCTTAAAATACAGATAA
102985 TCAAGCAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.17
Consensus pattern (23 bp):
CCCACCCCTTAAAATACAGATAA
Found at i:103521 original size:2 final size:2
Alignment explanation
Indices: 103454--103508 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
103444 GCTTTTCATA
103454 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
103496 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
103509 CATGATCTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:103639 original size:2 final size:2
Alignment explanation
Indices: 103634--103700 Score: 98
Period size: 2 Copynumber: 33.5 Consensus size: 2
103624 ATTACACACA
103634 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
** * *
103676 CT CT CT GA GT CT AT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
103701 ATACTCTCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.03, C:0.46, G:0.03, T:0.48
Consensus pattern (2 bp):
CT
Found at i:114274 original size:21 final size:21
Alignment explanation
Indices: 114248--114292 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
114238 GTAAAACGTA
*
114248 TGCAACGAATGCGAGGGCTCG
1 TGCAACGAATGCGAGAGCTCG
*
114269 TGCAACGTATGCGAGAGCTCG
1 TGCAACGAATGCGAGAGCTCG
114290 TGC
1 TGC
114293 GAAGCTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.18
Consensus pattern (21 bp):
TGCAACGAATGCGAGAGCTCG
Found at i:114835 original size:12 final size:12
Alignment explanation
Indices: 114818--114851 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
114808 GTTGTCCGTC
114818 GTCCGTCTGTCT
1 GTCCGTCTGTCT
114830 GTCCGTCTGTCT
1 GTCCGTCTGTCT
114842 GTCCGTCTGT
1 GTCCGTCTGT
114852 AAACTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.26, T:0.41
Consensus pattern (12 bp):
GTCCGTCTGTCT
Found at i:114839 original size:8 final size:8
Alignment explanation
Indices: 114806--114851 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
114796 TTCTGATCAC
114806 CCGT-TGT
1 CCGTCTGT
114813 CCGTC-GT
1 CCGTCTGT
114820 CCGTCTGT
1 CCGTCTGT
* *
114828 CTGTCCGT
1 CCGTCTGT
*
114836 CTGTCTGT
1 CCGTCTGT
114844 CCGTCTGT
1 CCGTCTGT
114852 AAACTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 11 0.33
8 22 0.67
ACGTcount: A:0.00, C:0.35, G:0.26, T:0.39
Consensus pattern (8 bp):
CCGTCTGT
Found at i:132601 original size:12 final size:12
Alignment explanation
Indices: 132581--132613 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
132571 CAGAGCGGCC
132581 CTGGCTCTGTGA
1 CTGGCTCTGTGA
*
132593 CTGGTTCTGTGA
1 CTGGCTCTGTGA
132605 CTGGCTCTG
1 CTGGCTCTG
132614 GGGTAGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.24, G:0.33, T:0.36
Consensus pattern (12 bp):
CTGGCTCTGTGA
Found at i:132745 original size:2 final size:2
Alignment explanation
Indices: 132738--132781 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
132728 ACTAAAGTTT
132738 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
132780 GA
1 GA
132782 TGTTTATCGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:137464 original size:2 final size:2
Alignment explanation
Indices: 137395--137445 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
137385 CTCTTGTGTT
137395 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
137437 GA GA GA GA G
1 GA GA GA GA G
137446 TTAAATTTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:140546 original size:91 final size:89
Alignment explanation
Indices: 140431--140627 Score: 205
Period size: 90 Copynumber: 2.2 Consensus size: 89
140421 CCAACCACTC
* *
140431 CGTTGCCAGGGTAGGAGATTCCGTCTGCATAACTCTATAGATCTGGGTAGTAAGCATTTTGATGT
1 CGTTGCCA-GGTAGGAGATACCGTCTGCATAACT-TATAGATCTGGGCAGTAAGCATTTTGATGT
* * *
140496 ATCTTATGCAGGAAGCCAAAATCCTT
64 ATCTAATGCAGCAAGCCAAAATCCAT
*** * * * * * *
140522 CGTTGCCGAGGTAGGAGATACCGTCTTTTTTACTTCTAGTTCTGTGCAGTCAGCATTTTGTTGTA
1 CGTTGCC-AGGTAGGAGATACCGTCTGCATAACTTATAGATCTGGGCAGTAAGCATTTTGATGTA
**
140587 TCTAATGCAGCAAGCCTGAATCCAT
65 TCTAATGCAGCAAGCCAAAATCCAT
*
140612 CGTTACCAAGGTAGGA
1 CGTTGCC-AGGTAGGA
140628 AATCTGTCTC
Statistics
Matches: 87, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
90 59 0.68
91 27 0.31
92 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (89 bp):
CGTTGCCAGGTAGGAGATACCGTCTGCATAACTTATAGATCTGGGCAGTAAGCATTTTGATGTAT
CTAATGCAGCAAGCCAAAATCCAT
Found at i:141067 original size:34 final size:34
Alignment explanation
Indices: 141018--141601 Score: 898
Period size: 34 Copynumber: 17.2 Consensus size: 34
141008 ACTACATGAG
*
141018 GTATTAGACTGAATTCAGTGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* * *
141052 GTATTGGACTAAATTCAGTGATGAAGAGAGGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141086 GTATTGGACTGAATTCAGTGTTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* * *
141120 GTATTGGGCTGAATTTAGTGCTGAAGAGATACCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141154 GTATTGAACTGAATTCAGTGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* *
141188 GTATTGAACTGAATTCAGTGTTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141222 GTATTGGACTGAATTCAGTGATGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* * *
141256 GTATTGGATTGAATTCAGTGATAAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141290 GTCTTGGACTGAATTCAGTGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* * *
141324 CTATTAGACTGAATTCAGTGTTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141358 GTATTGGACTGAATTCAATGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141392 GTATTTGACTGAATTCAGTGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141426 GTATTGGACTGAATTCAGTGATGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141460 GTATTGGATTGAATTCAGTGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* *
141494 GTATTGGACTTAATTCAGTGATGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
*
141528 GTATTCGACTGAATTCAGTGCTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
* ** *
141562 CTATAAGACTGAATTCAGTGTTGAAGAGATGCCA
1 GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
141596 GTATTG
1 GTATTG
141602 CACCTTGATG
Statistics
Matches: 499, Mismatches: 51, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 499 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (34 bp):
GTATTGGACTGAATTCAGTGCTGAAGAGATGCCA
Found at i:141172 original size:17 final size:17
Alignment explanation
Indices: 141152--141240 Score: 60
Period size: 17 Copynumber: 5.2 Consensus size: 17
141142 GAAGAGATAC
141152 CAGTATTGAACTGAATT
1 CAGTATTGAACTGAATT
** *
141169 CAGTGCTGAA--GAGATGC
1 CAGTATTGAACTGA-AT-T
141186 CAGTATTGAACTGAATT
1 CAGTATTGAACTGAATT
* *
141203 CAGTGTTGAA--GAGATGC
1 CAGTATTGAACTGA-AT-T
*
141220 CAGTATTGGACTGAATT
1 CAGTATTGAACTGAATT
141237 CAGT
1 CAGT
141241 GATGAAGAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
15 4 0.08
16 4 0.08
17 37 0.70
18 4 0.08
19 4 0.08
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (17 bp):
CAGTATTGAACTGAATT
Found at i:142058 original size:11 final size:11
Alignment explanation
Indices: 142042--142067 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
142032 TCTTTATTGA
142042 ATGTAGATCTG
1 ATGTAGATCTG
142053 ATGTAGATCTG
1 ATGTAGATCTG
142064 ATGT
1 ATGT
142068 GGTAAATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (11 bp):
ATGTAGATCTG
Found at i:148853 original size:43 final size:43
Alignment explanation
Indices: 148792--148885 Score: 179
Period size: 43 Copynumber: 2.2 Consensus size: 43
148782 TGGTGTGTAA
*
148792 ATTCAATTTACTGTACTGTTTGAAAAACAGCAAGTATAACCAG
1 ATTCAATTTACTGTACTGTTTGAAAAACAGCAAGTAGAACCAG
148835 ATTCAATTTACTGTACTGTTTGAAAAACAGCAAGTAGAACCAG
1 ATTCAATTTACTGTACTGTTTGAAAAACAGCAAGTAGAACCAG
148878 ATTCAATT
1 ATTCAATT
148886 GGTAATCTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (43 bp):
ATTCAATTTACTGTACTGTTTGAAAAACAGCAAGTAGAACCAG
Found at i:155551 original size:2 final size:2
Alignment explanation
Indices: 155495--155539 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
155485 CGCGTGTGTA
155495 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
155537 AG A
1 AG A
155540 AAAAAAGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:161238 original size:2 final size:2
Alignment explanation
Indices: 161231--161285 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
161221 GAATACGTCC
161231 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
161273 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
161286 ATATGCTTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:167418 original size:26 final size:27
Alignment explanation
Indices: 167382--167433 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
167372 GAATACAGTA
167382 CTTGTCATCCGCCATTCA-TAAAAAAT
1 CTTGTCATCCGCCATTCACTAAAAAAT
167408 CTTGTCATCCGCCATTCACTAAAAAA
1 CTTGTCATCCGCCATTCACTAAAAAA
167434 ACCCTCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (27 bp):
CTTGTCATCCGCCATTCACTAAAAAAT
Found at i:168643 original size:2 final size:2
Alignment explanation
Indices: 168638--168687 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
168628 GTTCACCCCC
168638 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
168680 CT CT CT CT
1 CT CT CT CT
168688 TATGAGTGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:173164 original size:2 final size:2
Alignment explanation
Indices: 173157--173207 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
173147 AATGTAGTAA
173157 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
173199 TC TC TC TC T
1 TC TC TC TC T
173208 GGTTGGCATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:180401 original size:2 final size:2
Alignment explanation
Indices: 180394--180421 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
180384 TAATTTTAAA
180394 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
180422 AGAGAGAGAG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:180426 original size:2 final size:2
Alignment explanation
Indices: 180421--180481 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
180411 GTGTGTGTGT
180421 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
180463 GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
180482 GTGTTTCAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:184268 original size:11 final size:11
Alignment explanation
Indices: 184252--184276 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
184242 TGCTTAGCGC
184252 TTCGAAAAACA
1 TTCGAAAAACA
184263 TTCGAAAAACA
1 TTCGAAAAACA
184274 TTC
1 TTC
184277 TTGATAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (11 bp):
TTCGAAAAACA
Found at i:204299 original size:32 final size:32
Alignment explanation
Indices: 204257--204610 Score: 514
Period size: 32 Copynumber: 11.1 Consensus size: 32
204247 TTATTTCGAT
* *
204257 AATAGTATATGGCTGCTACAATTATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
* *
204289 TATAGTATATGGCTATTACAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
* * *
204321 AATAGTATTTGACTATTACAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
204353 AATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
* * *
204385 AATAGTATTTGGCTATTACAATAATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
**
204417 AATAGTATATGGCTACTACAATCAAGTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
* *
204449 GATAGTATATGGCTATTACAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
*
204481 AATAGTATATGGCTACTATAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
* *
204513 AATAGTATATGGCTATTACAATCATCTCATTC
1 AATAGTATATGGCTACTACAATCATCTCATCC
*
204545 AATAGTATAT-GCTGCTACAATCA-CGTCATCC
1 AATAGTATATGGCTACTACAATCATC-TCATCC
*
204576 AATAGTATATGGCTATTACAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCC
204608 AAT
1 AAT
204611 CACGTCATCC
Statistics
Matches: 286, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
30 1 0.00
31 26 0.09
32 258 0.90
33 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (32 bp):
AATAGTATATGGCTACTACAATCATCTCATCC
Found at i:204358 original size:64 final size:64
Alignment explanation
Indices: 204257--205773 Score: 1518
Period size: 64 Copynumber: 23.3 Consensus size: 64
204247 TTATTTCGAT
** * * *
204257 AATAGTATATGGCTGCTACAATTATCTCATCCTATAGTATATGGCTATTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* *
204321 AATAGTATTTGACTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * **
204385 AATAGTATTTGGCTATTACAATAATCTCATCCAATAGTATATGGCTACTACAATCAAGTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* *
204449 GATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTATAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* *
204513 AATAGTATATGGCTATTACAATCATCTCATTCAATAGTATAT-GCTGCTACAATCA-CGTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATC-TCATCC
* * * ** *
204576 AATAGTATATGGCTATTACAATCATCTCATCCAATCACGT-CAT--CCAATAGTAT-ATGGGT-A
1 AATAGTATATGGCTATTACAATCATCTCATCCAAT-A-GTATATGGCTACTACAATCAT--CTCA
*
204636 TTAC
62 -TCC
* * ** ** * * * ** * * * * * *
204640 AATCA-TCTCAT--CCAAAAGTAT-ATGGCT-AGCTACTACAATCACGACAACCAAAAGT-ATAT
1 AAT-AGTAT-ATGGCTATTACAATCAT--CTCATCCAATAGTAT-ATGGCTACTACAA-TCATCT
*
204699 GGCTATTAC
60 --C-A-TCC
* * * ** * * * *
204708 AATCA-TCTCAT--CCAATAGTAT-ATGGCTGC-TACAATAATCCCATCCAATAG-TA-TATGGG
1 AAT-AGTAT-ATGGCTATTACAATCAT--CT-CATCCAATAGT---AT---ATGGCTACTA---C
* *
204766 AACTACAATCACGT-C
52 AA-T-C-ATCTCATCC
* *** *
204781 -ATCCAATAGTATGTGGCTGCAACAATCA-CGTCATCCAATAGTATATGGCTAATACAATCATCT
1 AAT--AGTA-TAT--GGCTATTACAATCATC-TCATCCAATAGTATATGGCTACTACAATCATCT
204844 CATCC
60 CATCC
204849 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* ** * *
204913 AATAGTATTTGGCTGCTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCCTCT
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * * *
204977 AATAGTATATGCACGTGATGGCTACTACAATAATCTCATCCAATAGCATATGACTA-TAACAGTC
1 AATAG----T--A--T-ATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACT-ACAATC
205041 ATCTCATCC
56 ATCTCATCC
* *
205050 AATAGTATTTGGCTAATACAATCATCTCATCCAATAGTATATGGCTACTACAATCA-CGTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATC-TCATCC
*
205114 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * *
205178 AATAGTATATGGCTACTATAATCATCTAATCCAATAGTATATGGCTACTACAGTCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * *
205242 AATAGTATATGGCTACTACAATCATCTCATCCTATAGTATGTGGCTGCTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
*
205306 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * **
205370 TATAGTATGTGGCTGCTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * * *
205434 AATAGTATATGGCTACTACAATCATCTCATCCTATAATATGTGGCTGCTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
*
205498 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * **
205562 TATAATATGTGGCTGCTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * *
205626 AATAGTATATGGCTACTATAATCATCTAATCCAATAGTATATGGCTACTACAGTCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
*
205690 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
1 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
*
205754 AATAGTATATGGCTACTACA
1 AATAGTATATGGCTATTACA
205774 NNNNNNNNNN
Statistics
Matches: 1246, Mismatches: 146, Indels: 122
0.82 0.10 0.08
Matches are distributed among these distances:
62 5 0.00
63 68 0.05
64 1003 0.80
65 13 0.01
66 6 0.00
67 9 0.01
68 34 0.03
69 7 0.01
70 3 0.00
71 3 0.00
72 9 0.01
73 57 0.05
74 7 0.01
75 4 0.00
76 3 0.00
77 8 0.01
78 6 0.00
79 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (64 bp):
AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCC
Found at i:204421 original size:96 final size:96
Alignment explanation
Indices: 204257--205773 Score: 2103
Period size: 96 Copynumber: 15.5 Consensus size: 96
204247 TTATTTCGAT
* * * *
204257 AATAGTATATGGCTGCTACAATTATCTCATCCTATAGTATATGGCTATTACAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
* * *
204322 ATAGTATTTGACTATTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * *
204353 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATTTGGCTATTACAATAATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
**
204418 ATAGTATATGGCTACTACAATCAAGTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * *
204449 GATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTATAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
* *
204514 ATAGTATATGGCTATTACAATCATCTCATTC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* *
204545 AATAGTATAT-GCTGCTACAATCA-CGTCATCCAATAGTATATGGCTATTACAATCATCTCATCC
1 AATAGTATATGGCTACTACAATCATC-TCATCCAATAGTATATGGC---TAC--T-A-C-AAT-C
* *
204608 AATCACGTCATCCAATAGTATATGGGTATTACAATCATCTCATCC
56 -AT--C-TCATCCAATAGTATATGGCTACTACAATCATCTCATCC
* * * * *
204653 AAAAGTATATGGCTAGCTACTACAATCA-CGACAACCAAAAGTATATGGCTATTACAATCATCTC
1 AATAGTATAT-G---GCTACTACAATCATC-TCATCCAATAGTATATGGCTACTACAATCATCTC
* * *
204717 ATCCAATAGTATATGGCTGCTACAATAATCCCATCC
61 ATCCAATAGTATATGGCTACTACAATCATCTCATCC
** * * *
204753 AATAGTATATGGGAACTACAATCA-CGTCATCCAATAGTATGTGGCTGCAACAATCA-CGTCATC
1 AATAGTATATGGCTACTACAATCATC-TCATCCAATAGTATATGGCTACTACAATCATC-TCATC
*
204816 CAATAGTATATGGCTAATACAATCATCTCATCC
64 CAATAGTATATGGCTACTACAATCATCTCATCC
*
204849 AATAGTATATGGCTATTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
* *
204914 ATAGTATTTGGCTGCTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * *
204945 AATAGTATATGGCTACTACAATCATCTCCTCTAATAGTATATGCACGTGATGGCTACTACAATAA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAG----T--A--T-ATGGCTACTACAATCA
* * *
205010 TCTCATCCAATAGCATATGACTA-TAACAGTCATCTCATCC
57 TCTCATCCAATAGTATATGGCTACT-ACAATCATCTCATCC
* *
205050 AATAGTATTTGGCTAATACAATCATCTCATCCAATAGTATATGGCTACTACAATCA-CGTCATCC
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATC-TCATCC
205114 AATAGTATATGGCTACTACAATCATCTCATCC
65 AATAGTATATGGCTACTACAATCATCTCATCC
* *
205146 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTATAATCATCTAATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
*
205211 ATAGTATATGGCTACTACAGTCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * *
205242 AATAGTATATGGCTACTACAATCATCTCATCCTATAGTATGTGGCTGCTACAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
205307 ATAGTATATGGCTACTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * *
205338 AATAGTATATGGCTACTACAATCATCTCATCCTATAGTATGTGGCTGCTACAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
205403 ATAGTATATGGCTACTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * * *
205434 AATAGTATATGGCTACTACAATCATCTCATCCTATAATATGTGGCTGCTACAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
205499 ATAGTATATGGCTACTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * * *
205530 AATAGTATATGGCTACTACAATCATCTCATCCTATAATATGTGGCTGCTACAATCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
205595 ATAGTATATGGCTACTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
* * *
205626 AATAGTATATGGCTACTATAATCATCTAATCCAATAGTATATGGCTACTACAGTCATCTCATCCA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
205691 ATAGTATATGGCTACTACAATCATCTCATCC
66 ATAGTATATGGCTACTACAATCATCTCATCC
205722 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACA
1 AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACA
205774 NNNNNNNNNN
Statistics
Matches: 1286, Mismatches: 100, Indels: 70
0.88 0.07 0.05
Matches are distributed among these distances:
94 1 0.00
95 32 0.02
96 1021 0.79
97 5 0.00
98 3 0.00
99 2 0.00
100 44 0.03
101 3 0.00
102 1 0.00
103 4 0.00
104 4 0.00
105 85 0.07
106 1 0.00
107 2 0.00
108 46 0.04
110 2 0.00
113 30 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (96 bp):
AATAGTATATGGCTACTACAATCATCTCATCCAATAGTATATGGCTACTACAATCATCTCATCCA
ATAGTATATGGCTACTACAATCATCTCATCC
Found at i:204626 original size:45 final size:45
Alignment explanation
Indices: 204562--204654 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
204552 TATGCTGCTA
204562 CAATCACGTCATCCAATAGTATATGGCTATTACAATCATCTCATC
1 CAATCACGTCATCCAATAGTATATGGCTATTACAATCATCTCATC
*
204607 CAATCACGTCATCCAATAGTATATGGGTATTACAATCATCTCATC
1 CAATCACGTCATCCAATAGTATATGGCTATTACAATCATCTCATC
204652 CAA
1 CAA
204655 AAGTATATGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (45 bp):
CAATCACGTCATCCAATAGTATATGGCTATTACAATCATCTCATC
Found at i:204651 original size:32 final size:32
Alignment explanation
Indices: 204615--205773 Score: 1698
Period size: 32 Copynumber: 35.8 Consensus size: 32
204605 TCCAATCACG
* *
204615 TCATCCAATAGTATATGGGTATTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
*
204647 TCATCCAAAAGTATATGGCTAGCTACTACAATCA-C
1 TCATCCAATAGTATAT-G---GCTACTACAATCATC
* * * *
204682 GACAACCAAAAGTATATGGCTATTACAATCATC
1 -TCATCCAATAGTATATGGCTACTACAATCATC
* *
204715 TCATCCAATAGTATATGGCTGCTACAATAATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* **
204747 CCATCCAATAGTATATGGGAACTACAATCA-C
1 TCATCCAATAGTATATGGCTACTACAATCATC
* * *
204778 GTCATCCAATAGTATGTGGCTGCAACAATCA-C
1 -TCATCCAATAGTATATGGCTACTACAATCATC
*
204810 GTCATCCAATAGTATATGGCTAATACAATCATC
1 -TCATCCAATAGTATATGGCTACTACAATCATC
*
204843 TCATCCAATAGTATATGGCTATTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
204875 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* *
204907 TCATCCAATAGTATTTGGCTGCTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
204939 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* * *
204971 TCCTCTAATAGTATATGCACGTGATGGCTACTACAATAATC
1 TCATCCAATAG----T--A--T-ATGGCTACTACAATCATC
* * *
205012 TCATCCAATAGCATATGACTA-TAACAGTCATC
1 TCATCCAATAGTATATGGCTACT-ACAATCATC
* *
205044 TCATCCAATAGTATTTGGCTAATACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205076 TCATCCAATAGTATATGGCTACTACAATCA-C
1 TCATCCAATAGTATATGGCTACTACAATCATC
205107 GTCATCCAATAGTATATGGCTACTACAATCATC
1 -TCATCCAATAGTATATGGCTACTACAATCATC
205140 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
*
205172 TCATCCAATAGTATATGGCTACTATAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* *
205204 TAATCCAATAGTATATGGCTACTACAGTCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205236 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* * *
205268 TCATCCTATAGTATGTGGCTGCTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205300 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205332 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* * *
205364 TCATCCTATAGTATGTGGCTGCTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205396 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205428 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* * * *
205460 TCATCCTATAATATGTGGCTGCTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205492 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205524 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* * * *
205556 TCATCCTATAATATGTGGCTGCTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205588 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
*
205620 TCATCCAATAGTATATGGCTACTATAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
* *
205652 TAATCCAATAGTATATGGCTACTACAGTCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205684 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205716 TCATCCAATAGTATATGGCTACTACAATCATC
1 TCATCCAATAGTATATGGCTACTACAATCATC
205748 TCATCCAATAGTATATGGCTACTACA
1 TCATCCAATAGTATATGGCTACTACA
205774 NNNNNNNNNN
Statistics
Matches: 1018, Mismatches: 88, Indels: 42
0.89 0.08 0.04
Matches are distributed among these distances:
31 3 0.00
32 952 0.94
33 6 0.01
35 3 0.00
36 26 0.03
38 1 0.00
40 1 0.00
41 26 0.03
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (32 bp):
TCATCCAATAGTATATGGCTACTACAATCATC
Found at i:204715 original size:113 final size:108
Alignment explanation
Indices: 204507--204723 Score: 335
Period size: 113 Copynumber: 2.0 Consensus size: 108
204497 TATAATCATC
* * *
204507 TCATCCAATAGTATATGGCTATTACAATCATCTCATTCAATAGTATATGCTGCTACAATCACGTC
1 TCATCCAATAGTATATGGCTATTACAATCATCTCATCCAAAAGTATATGCTGCTACAATCACGAC
* *
204572 ATCCAATAGTATATGGCTATTACAATCATCTCATCCAATCACG
66 AACCAAAAGTATATGGCTATTACAATCATCTCATCCAATCACG
*
204615 TCATCCAATAGTATATGGGTATTACAATCATCTCATCCAAAAGTATATGGCTAGCTACTACAATC
1 TCATCCAATAGTATATGGCTATTACAATCATCTCATCCAAAAGTATAT-GCT-G---CTACAATC
204680 ACGACAACCAAAAGTATATGGCTATTACAATCATCTCATCCAAT
61 ACGACAACCAAAAGTATATGGCTATTACAATCATCTCATCCAAT
204724 AGTATATGGC
Statistics
Matches: 98, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
108 45 0.46
109 3 0.03
110 1 0.01
113 49 0.50
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (108 bp):
TCATCCAATAGTATATGGCTATTACAATCATCTCATCCAAAAGTATATGCTGCTACAATCACGAC
AACCAAAAGTATATGGCTATTACAATCATCTCATCCAATCACG
Found at i:208017 original size:32 final size:32
Alignment explanation
Indices: 207980--208529 Score: 640
Period size: 32 Copynumber: 17.0 Consensus size: 32
207970 NNAATCTCCC
*
207980 CATCCAATAGTATATGGCTACTACAATAATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
*
208012 CATCCAATAGTATATGGTTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* * * * **
208044 CATCCAATAGTATTTGGCTGCTTCCATTTTCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
208076 CATCCAATAGTATA-GGCTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* *
208107 CAACTAATAGTATATGCACGTAATGGCTACTACAATCATCT
1 CATCCAATAG----T--A--T-ATGGCTACTACAATCATCT
*
208148 CATCCAATAGTATATGGCTACTACAGTCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* *
208180 CATTCAATAGTATATGGTTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
208212 CATCCAATAGTATATGGCTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* * * * * * *
208244 CGTCCTATAGCATGTGGCTGCTACAATCTTCC
1 CATCCAATAGTATATGGCTACTACAATCATCT
*
208276 CATCCAATAGTATATGGTTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
*
208308 CATCCAATAGTATATGGCTACTACAATCATCC
1 CATCCAATAGTATATGGCTACTACAATCATCT
*
208340 CATCCAATAGTATATGGCTACTATAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* * * *
208372 CATCCAATAATATTTGGCTATTACAGTCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* * * *
208404 CATCGAATAGTATTTGGCTATTACAATCATCA
1 CATCCAATAGTATATGGCTACTACAATCATCT
* * * *
208436 GAT-C-GTA-TATATGGCTATTACAATCAGCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
*
208465 CATCCAATAGTATGTGGCTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
* * *
208497 CATCCAATAATATGTGGTTACTACAATCATCT
1 CATCCAATAGTATATGGCTACTACAATCATCT
208529 C
1 C
208530 TATTTTAAGG
Statistics
Matches: 439, Mismatches: 66, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
29 21 0.05
30 3 0.01
31 22 0.05
32 361 0.82
33 1 0.00
35 2 0.00
37 2 0.00
39 1 0.00
40 1 0.00
41 25 0.06
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.33
Consensus pattern (32 bp):
CATCCAATAGTATATGGCTACTACAATCATCT
Found at i:211842 original size:24 final size:24
Alignment explanation
Indices: 211815--211873 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
211805 ATTATATCCA
211815 CCTGCTGGTGGTCCAGGGTATGCC
1 CCTGCTGGTGGTCCAGGGTATGCC
*
211839 CCTGCTGGTGGTCCATGGTATGCC
1 CCTGCTGGTGGTCCAGGGTATGCC
*
211863 CCTGCCGGTGG
1 CCTGCTGGTGG
211874 GGGGTTCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.07, C:0.31, G:0.37, T:0.25
Consensus pattern (24 bp):
CCTGCTGGTGGTCCAGGGTATGCC
Found at i:219131 original size:20 final size:20
Alignment explanation
Indices: 219102--219151 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
219092 CAACTCTTAA
219102 CTATAGTTTACAAATGTAAAT
1 CTATA-TTTACAAATGTAAAT
* *
219123 -TATACTTTACAGATGTGAAT
1 CTATA-TTTACAAATGTAAAT
219143 CTATATTTA
1 CTATATTTA
219152 TCAGCAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (20 bp):
CTATATTTACAAATGTAAAT
Found at i:219330 original size:12 final size:12
Alignment explanation
Indices: 219313--219340 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
219303 TAATTAACAG
219313 TAAACTATAGTT
1 TAAACTATAGTT
219325 TAAACTATAGTT
1 TAAACTATAGTT
219337 TAAA
1 TAAA
219341 GTCGATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (12 bp):
TAAACTATAGTT
Found at i:225064 original size:13 final size:13
Alignment explanation
Indices: 225046--225073 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
225036 GAACTATTGA
225046 AGGTTTTACATAC
1 AGGTTTTACATAC
225059 AGGTTTTACATAC
1 AGGTTTTACATAC
225072 AG
1 AG
225074 TATATGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (13 bp):
AGGTTTTACATAC
Found at i:228118 original size:30 final size:30
Alignment explanation
Indices: 228084--228240 Score: 242
Period size: 30 Copynumber: 5.2 Consensus size: 30
228074 TTATGACGTT
* * *
228084 TTTATAGGTTAAGGATACGGTTTTTTCAAC
1 TTTATAGGTTTAGGATACGGTTTTCTCGAC
* * *
228114 TTTATAGGTTAATGATACGGTTTTCTCTAC
1 TTTATAGGTTTAGGATACGGTTTTCTCGAC
* *
228144 TTTATAGGTTTAGAATACGGTTTTCTCTAC
1 TTTATAGGTTTAGGATACGGTTTTCTCGAC
228174 TTTATAGGTTTAGGATACGGTTTTCTCGAC
1 TTTATAGGTTTAGGATACGGTTTTCTCGAC
228204 TTTATAGGTTTAGGATACGGTTTTCTCGAC
1 TTTATAGGTTTAGGATACGGTTTTCTCGAC
228234 TTTATAG
1 TTTATAG
228241 CGAGCGCAGC
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 119 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (30 bp):
TTTATAGGTTTAGGATACGGTTTTCTCGAC
Found at i:231284 original size:21 final size:22
Alignment explanation
Indices: 231249--231440 Score: 139
Period size: 21 Copynumber: 8.8 Consensus size: 22
231239 TGATGTACAG
* *
231249 TGTATATTCAAAATCTTGCT-A
1 TGTATGTTCGAAATCTTGCTGA
*
231270 TATATGTTCGAAATCTTG-TGA
1 TGTATGTTCGAAATCTTGCTGA
* * *
231291 TGTATATTC-AAGATCTTGTTATATA
1 TGTATGTTCGAA-ATCTTG--CT-GA
* *
231316 TGTTTGTTCAAAATCTTG-TGA
1 TGTATGTTCGAAATCTTGCTGA
*
231337 TGTATGTTCAAAATCTT-CTGA
1 TGTATGTTCGAAATCTTGCTGA
*
231358 TGTATGTTTGAAATCTT-CTGA
1 TGTATGTTCGAAATCTTGCTGA
231379 TGTATGTTCGAAATCTT-CTGA
1 TGTATGTTCGAAATCTTGCTGA
* *
231400 TGTATATTCTATAATCTTG-TGA
1 TGTATGTTCGA-AATCTTGCTGA
* * *
231422 TATATTTTCAATAATCTTG
1 TGTATGTTCGA-AATCTTG
231441 TGTAAATGTC
Statistics
Matches: 143, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
20 3 0.02
21 97 0.68
22 26 0.18
24 1 0.01
25 14 0.10
26 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (22 bp):
TGTATGTTCGAAATCTTGCTGA
Found at i:231308 original size:42 final size:42
Alignment explanation
Indices: 231249--231439 Score: 177
Period size: 42 Copynumber: 4.4 Consensus size: 42
231239 TGATGTACAG
231249 TGTATATTCAAAATCTTGCT-ATATATGTTCGAAATCTTGTGA
1 TGTATATTCAAAATCTT-CTGATATATGTTCGAAATCTTGTGA
* * * *
231291 TGTATATTCAAGATCTTGTTATATATGTTTGTTCAAAATCTTGTGA
1 TGTATATTCAAAATCTTCTGATATA----TGTTCGAAATCTTGTGA
* * * *
231337 TGTATGTTCAAAATCTTCTGATGTATGTTTGAAATCTTCTGA
1 TGTATATTCAAAATCTTCTGATATATGTTCGAAATCTTGTGA
* * * * *
231379 TGTATGTTCGAAATCTTCTGATGTATATTCTATAATCTTGTGA
1 TGTATATTCAAAATCTTCTGATATATGTTCGA-AATCTTGTGA
* *
231422 TATATTTTCAATAATCTT
1 TGTATATTCAA-AATCTT
231440 GTGTAAATGT
Statistics
Matches: 123, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 63 0.51
43 17 0.14
44 6 0.05
46 36 0.29
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (42 bp):
TGTATATTCAAAATCTTCTGATATATGTTCGAAATCTTGTGA
Found at i:231318 original size:25 final size:25
Alignment explanation
Indices: 231249--231343 Score: 64
Period size: 25 Copynumber: 4.1 Consensus size: 25
231239 TGATGTACAG
231249 TGTATATTCAAAATCTTGCT-ATATA
1 TGTATATTCAAAATCTTG-TGATATA
*
231274 TG----TTCGAAATCTTGTG----A
1 TGTATATTCAAAATCTTGTGATATA
* *
231291 TGTATATTCAAGATCTTGTTATATA
1 TGTATATTCAAAATCTTGTGATATA
* * *
231316 TGTTTGTTCAAAATCTTGTGATGTA
1 TGTATATTCAAAATCTTGTGATATA
231341 TGT
1 TGT
231344 TCAAAATCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 18
0.66 0.11 0.23
Matches are distributed among these distances:
17 3 0.06
20 1 0.02
21 22 0.42
25 26 0.50
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.46
Consensus pattern (25 bp):
TGTATATTCAAAATCTTGTGATATA
Found at i:231385 original size:67 final size:67
Alignment explanation
Indices: 231255--231386 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 67
231245 ACAGTGTATA
* * * *
231255 TTCAAAATCTTGCTATATATGTTCGAAATCTTGTGATGTATATTCAAGATCTTGTTATATATGTT
1 TTCAAAATCTTGCTATATATGTTCAAAATCTTCTGATGTATATTCAAGATCTTCTGATATATGTT
231320 TG
66 TG
* * * *
231322 TTCAAAATCTTG-TGATGTATGTTCAAAATCTTCTGATGTATGTTTGAA-ATCTTCTGATGTATG
1 TTCAAAATCTTGCT-ATATATGTTCAAAATCTTCTGATGTAT-ATTCAAGATCTTCTGATATATG
231385 TT
64 TT
231387 CGAAATCTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 1 0.02
67 50 0.91
68 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (67 bp):
TTCAAAATCTTGCTATATATGTTCAAAATCTTCTGATGTATATTCAAGATCTTCTGATATATGTT
TG
Found at i:231762 original size:21 final size:21
Alignment explanation
Indices: 231732--231805 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
231722 CAATCATTGC
*
231732 ACATATATCAAGATTTATAGA
1 ACATAAATCAAGATTTATAGA
231753 ACATAAATCAAGATTTATAGA
1 ACATAAATCAAGATTTATAGA
* *
231774 CCATACATTACAAGA-TTATAGA
1 ACATA-AAT-CAAGATTTATAGA
* *
231796 ATATACATCA
1 ACATAAATCA
231806 CAAGATATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.05
21 25 0.57
22 12 0.27
23 5 0.11
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (21 bp):
ACATAAATCAAGATTTATAGA
Found at i:231795 original size:22 final size:23
Alignment explanation
Indices: 231740--231985 Score: 87
Period size: 21 Copynumber: 11.3 Consensus size: 23
231730 GCACATATAT
*
231740 CAAGATTTATAGAACATA-AAT-
1 CAAGATTTATAGAACATACATTA
*
231761 CAAGATTTATAGACCATACATTA
1 CAAGATTTATAGAACATACATTA
* *
231784 CAAGA-TTATAGAATATACATCA
1 CAAGATTTATAGAACATACATTA
* *
231806 CAAGA--TATTGAACATATATATCA
1 CAAGATTTATAGAACATACAT-T-A
**
231829 CAAGA--TATAGATTATACATCT-
1 CAAGATTTATAGAACATACAT-TA
* * * * *
231850 TAGGATTT-T-GAACAAACGTCA
1 CAAGATTTATAGAACATACATTA
* **
231871 CAAGA--TATTGAACATACAGCA
1 CAAGATTTATAGAACATACATTA
* * *
231892 CAAGA-TTATGGAATATACATCA
1 CAAGATTTATAGAACATACATTA
* * *
231914 AAAGATTT-CA-AACATACATCA
1 CAAGATTTATAGAACATACATTA
* *
231935 CAAGA--TATAGAAAATACATCA
1 CAAGATTTATAGAACATACATTA
* * * *
231956 CAAGA-ATATAGAATATGCATCA
1 CAAGATTTATAGAACATACATTA
231978 CAAGATTT
1 CAAGATTT
231986 CGAATATAAA
Statistics
Matches: 171, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.01
20 2 0.01
21 83 0.49
22 58 0.34
23 26 0.15
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.27
Consensus pattern (23 bp):
CAAGATTTATAGAACATACATTA
Found at i:231937 original size:64 final size:63
Alignment explanation
Indices: 231798--231986 Score: 207
Period size: 64 Copynumber: 2.9 Consensus size: 63
231788 ATTATAGAAT
* * ** * **
231798 ATACATCACAAGATATTGAACATATATATCACAAGATATAGATTATACATCTTAGGATTTTGAAC
1 ATACATCACAAGATATTGAAC--ATACATCACAAGATATAGAATATACATCAAAAGATTTCAAAC
* * * *
231863 AAACGTCACAAGATATTGAACATACAGCACAAGATTATGGAATATACATCAAAAGATTTCAAAC
1 ATACATCACAAGATATTGAACATACATCACAAGA-TATAGAATATACATCAAAAGATTTCAAAC
* * * *
231927 ATACATCACAAGATATAGAAAATACATCACAAGAATATAGAATATGCATCACAAGATTTC
1 ATACATCACAAGATATTGAACATACATCACAAG-ATATAGAATATACATCAAAAGATTTC
231987 GAATATAAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
63 11 0.11
64 72 0.70
65 20 0.19
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (63 bp):
ATACATCACAAGATATTGAACATACATCACAAGATATAGAATATACATCAAAAGATTTCAAAC
Found at i:231951 original size:21 final size:21
Alignment explanation
Indices: 231776--232166 Score: 197
Period size: 21 Copynumber: 18.7 Consensus size: 21
231766 TTTATAGACC
*
231776 ATACATTACAAGATTATAGAAT
1 ATACATCACAAGA-TATAGAAT
*
231798 ATACATCACAAGATATTGAACAT
1 ATACATCACAAGATATAG-A-AT
* *
231821 ATATATCACAAGATATAGATT
1 ATACATCACAAGATATAGAAT
** * * * *
231842 ATACATCTTAGGATTTTGAAC
1 ATACATCACAAGATATAGAAT
* * * *
231863 AAACGTCACAAGATATTGAAC
1 ATACATCACAAGATATAGAAT
* *
231884 ATACAGCACAAGATTATGGAAT
1 ATACATCACAAGA-TATAGAAT
* * *
231906 ATACATCAAAAGATTTCA-AAC
1 ATACATCACAAGATAT-AGAAT
*
231927 ATACATCACAAGATATAGAAA
1 ATACATCACAAGATATAGAAT
231948 ATACATCACAAGAATATAGAAT
1 ATACATCACAAG-ATATAGAAT
* * *
231970 ATGCATCACAAGATTTCGAAT
1 ATACATCACAAGATATAGAAT
* *
231991 ATAAATTACAA-A-AT---AT
1 ATACATCACAAGATATAGAAT
* * *
232007 AT--ATCACAACATTTAAAAT
1 ATACATCACAAGATATAGAAT
* * * *
232026 AAACGTCATAAAAATATAGAAT
1 ATACATCA-CAAGATATAGAAT
* * *
232048 AAACATCACAAGATTTTGAAT
1 ATACATCACAAGATATAGAAT
* * *
232069 ATTCATCACAAGATTTCGAAT
1 ATACATCACAAGATATAGAAT
* * * * *
232090 ATATATCAAAATATTTCGAAT
1 ATACATCACAAGATATAGAAT
* * *
232111 ATACATCACTAGATTTCGAAT
1 ATACATCACAAGATATAGAAT
* * *
232132 AAACATCACAA-AGTTTCGAAT
1 ATACATCACAAGA-TATAGAAT
*
232153 ATACATCGCAAGAT
1 ATACATCACAAGAT
232167 TTCGAACATA
Statistics
Matches: 285, Mismatches: 68, Indels: 33
0.74 0.18 0.09
Matches are distributed among these distances:
14 6 0.02
15 1 0.00
16 5 0.02
19 4 0.01
20 3 0.01
21 181 0.64
22 67 0.24
23 18 0.06
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (21 bp):
ATACATCACAAGATATAGAAT
Found at i:231977 original size:43 final size:43
Alignment explanation
Indices: 231776--231983 Score: 181
Period size: 43 Copynumber: 4.8 Consensus size: 43
231766 TTTATAGACC
*
231776 ATACATTACAAGATTATAGAATATACATCACAAGATATTGAACA
1 ATACATCACAAGA-TATAGAATATACATCACAAGATATTGAACA
* * ** * *
231820 TATATATCACAAGATATAGATTATACATCTTAGGATTTTGAACA
1 -ATACATCACAAGATATAGAATATACATCACAAGATATTGAACA
* * * * * *
231864 A-ACGTCACAAGATATTGAACATACAGCACAAGATTATGGAA-T
1 ATACATCACAAGATATAGAATATACATCACAAGA-TATTGAACA
* * * *
231906 ATACATCAAAAGATTTCA-AACATACATCACAAGATATAGAA-A
1 ATACATCACAAGATAT-AGAATATACATCACAAGATATTGAACA
*
231948 ATACATCACAAGAATATAGAATATGCATCACAAGAT
1 ATACATCACAAG-ATATAGAATATACATCACAAGAT
231984 TTCGAATATA
Statistics
Matches: 128, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
42 42 0.33
43 50 0.39
44 25 0.20
45 11 0.09
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (43 bp):
ATACATCACAAGATATAGAATATACATCACAAGATATTGAACA
Found at i:232007 original size:64 final size:64
Alignment explanation
Indices: 231802--232007 Score: 173
Period size: 64 Copynumber: 3.2 Consensus size: 64
231792 TAGAATATAC
* * * * ** * **
231802 ATCACAAGATATTGAACATATATATCACAAG-ATATAGATTATACATCTTAGGATTTTGAACA-A
1 ATCACAAGATATAGAA-A-ATACAGCACAAGAATATAGAATATACATCAAAAGATTTCAAACATA
231865 A
64 A
* * * * * *
231866 CGTCACAAGATATTGAACATACAGCACAAGATTATGGAATATACATCAAAAGATTTCAAACATAC
1 -ATCACAAGATATAGAAAATACAGCACAAGAATATAGAATATACATCAAAAGATTTCAAACATAA
* * * * *
231931 ATCACAAGATATAGAAAATACATCACAAGAATATAGAATATGCATCACAAGATTTCGAATATAA
1 ATCACAAGATATAGAAAATACAGCACAAGAATATAGAATATACATCAAAAGATTTCAAACATAA
* *
231995 ATTACAAAATATA
1 ATCACAAGATATA
232008 TATCACAACA
Statistics
Matches: 113, Mismatches: 26, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
63 10 0.09
64 87 0.77
65 16 0.14
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (64 bp):
ATCACAAGATATAGAAAATACAGCACAAGAATATAGAATATACATCAAAAGATTTCAAACATAA
Found at i:232169 original size:21 final size:21
Alignment explanation
Indices: 232044--232181 Score: 161
Period size: 21 Copynumber: 6.6 Consensus size: 21
232034 TAAAAATATA
* *
232044 GAATAAACATCACAAGATTTT
1 GAATATACATCACAAGATTTC
*
232065 GAATATTCATCACAAGATTTC
1 GAATATACATCACAAGATTTC
* * *
232086 GAATATATATCAAAATATTTC
1 GAATATACATCACAAGATTTC
*
232107 GAATATACATCACTAGATTTC
1 GAATATACATCACAAGATTTC
*
232128 GAATAAACATCACAA-AGTTTC
1 GAATATACATCACAAGA-TTTC
*
232149 GAATATACATCGCAAGATTTC
1 GAATATACATCACAAGATTTC
* *
232170 GAACATATATCA
1 GAATATACATCA
232182 TAAAATTTTA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
20 1 0.01
21 95 0.98
22 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (21 bp):
GAATATACATCACAAGATTTC
Found at i:232189 original size:21 final size:21
Alignment explanation
Indices: 232044--232225 Score: 143
Period size: 21 Copynumber: 8.7 Consensus size: 21
232034 TAAAAATATA
* * *
232044 GAATAAACATCACAAGATTTT
1 GAATATACATCACAAAATTTC
* *
232065 GAATATTCATCACAAGATTTC
1 GAATATACATCACAAAATTTC
*
232086 GAATATATATCA-AAATATTTC
1 GAATATACATCACAAA-ATTTC
* *
232107 GAATATACATCACTAGATTTC
1 GAATATACATCACAAAATTTC
* *
232128 GAATAAACATCACAAAGTTTC
1 GAATATACATCACAAAATTTC
* *
232149 GAATATACATCGCAAGATTTC
1 GAATATACATCACAAAATTTC
* * * *
232170 GAACATATATCATAAAATTTT
1 GAATATACATCACAAAATTTC
* * * *
232191 AAACACACATCACACAATTTTC
1 GAATATACATCACA-AAATTTC
*
232213 -AACATACATCACA
1 GAATATACATCACA
232226 GGCTTTTTTT
Statistics
Matches: 128, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
20 2 0.02
21 120 0.94
22 6 0.05
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (21 bp):
GAATATACATCACAAAATTTC
Found at i:234570 original size:21 final size:21
Alignment explanation
Indices: 234546--234616 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
234536 ATTCTTATAC
234546 ACGAACGATTATGCACGATAA
1 ACGAACGATTATGCACGATAA
* * * *
234567 ACGAACGACTACGCAGGATAC
1 ACGAACGATTATGCACGATAA
* *
234588 ACGAACGGTT-TTCACGA-AA
1 ACGAACGATTATGCACGATAA
234607 CACGAACGAT
1 -ACGAACGAT
234617 AACGATAAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
19 1 0.03
20 12 0.32
21 25 0.66
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (21 bp):
ACGAACGATTATGCACGATAA
Found at i:236192 original size:22 final size:22
Alignment explanation
Indices: 236167--236211 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
236157 AAAAATTTTA
236167 AGTCTATATTATCTTTAGTCAG
1 AGTCTATATTATCTTTAGTCAG
236189 AGTCTATATTATCTTTAGTCAG
1 AGTCTATATTATCTTTAGTCAG
236211 A
1 A
236212 ATGGTGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (22 bp):
AGTCTATATTATCTTTAGTCAG
Found at i:240737 original size:2 final size:2
Alignment explanation
Indices: 240730--240759 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
240720 TATTCAGCCC
240730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
240760 CCAAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:242773 original size:18 final size:18
Alignment explanation
Indices: 242750--242784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
242740 CCAATATTTG
*
242750 TAAGCATATTGAAGTATA
1 TAAGCACATTGAAGTATA
*
242768 TAAGCACATTGCAGTAT
1 TAAGCACATTGAAGTAT
242785 CTTTTGTGGC
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:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
TAAGCACATTGAAGTATA
Found at i:243681 original size:2 final size:2
Alignment explanation
Indices: 243674--243735 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
243664 CATTGCGCTC
243674 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
243716 CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT
243736 GAGGGTAGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:258582 original size:16 final size:17
Alignment explanation
Indices: 258548--258586 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
258538 TTGTCGGAGA
* *
258548 TTTTGTTTTGTTTTGTT
1 TTTTGGTTTATTTTGTT
258565 TTTTGGTTTATTTT-TT
1 TTTTGGTTTATTTTGTT
258581 TTTTGG
1 TTTTGG
258587 GGGGGGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.03, C:0.00, G:0.18, T:0.79
Consensus pattern (17 bp):
TTTTGGTTTATTTTGTT
Found at i:265630 original size:13 final size:13
Alignment explanation
Indices: 265612--265643 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
265602 GCAAGTTAAT
265612 TATTTTTTTATGA
1 TATTTTTTTATGA
265625 TATTTTTTTATGA
1 TATTTTTTTATGA
265638 -ATTTTT
1 TATTTTT
265644 CTTGTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (13 bp):
TATTTTTTTATGA
Found at i:271023 original size:2 final size:2
Alignment explanation
Indices: 271016--271058 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
271006 ACCTTTGTCT
271016 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
271058 G
1 G
271059 NACAAACATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:273072 original size:2 final size:2
Alignment explanation
Indices: 273065--273115 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
273055 ACCTTTGTCT
273065 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
273107 GA GA GA GA G
1 GA GA GA GA G
273116 CACTCTGCAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:275761 original size:18 final size:18
Alignment explanation
Indices: 275740--275774 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
275730 AAATTCAAGA
*
275740 TAATAAATAAATTACTAC
1 TAATAAACAAATTACTAC
*
275758 TAATATACAAATTACTA
1 TAATAAACAAATTACTA
275775 AACACAATTT
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:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAAACAAATTACTAC
Found at i:277881 original size:13 final size:13
Alignment explanation
Indices: 277863--277889 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
277853 AAAAGATGAA
277863 AAAATTAAGAAAG
1 AAAATTAAGAAAG
277876 AAAATTAAGAAAG
1 AAAATTAAGAAAG
277889 A
1 A
277890 GAGAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATTAAGAAAG
Found at i:282143 original size:2 final size:2
Alignment explanation
Indices: 282082--282127 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
282072 TTGAAATGCG
282082 GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
282123 GA GA G
1 GA GA G
282128 CTTGAGCTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:289268 original size:13 final size:13
Alignment explanation
Indices: 289250--289277 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
289240 AATAGAATGC
289250 ACATCTGAAATTA
1 ACATCTGAAATTA
289263 ACATCTGAAATTA
1 ACATCTGAAATTA
289276 AC
1 AC
289278 GTCTCGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (13 bp):
ACATCTGAAATTA
Found at i:294747 original size:16 final size:16
Alignment explanation
Indices: 294726--294759 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
294716 ACCCTTGTGT
294726 GTCTGTCTGTCCGTCC
1 GTCTGTCTGTCCGTCC
294742 GTCTGTCTGTCCGTCC
1 GTCTGTCTGTCCGTCC
294758 GT
1 GT
294760 AACAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.26, T:0.38
Consensus pattern (16 bp):
GTCTGTCTGTCCGTCC
Found at i:295160 original size:166 final size:165
Alignment explanation
Indices: 294783--295907 Score: 1709
Period size: 166 Copynumber: 6.8 Consensus size: 165
294773 GTCGCATTTA
* * * *
294783 TCTCAGCAACTATTTGTCGCAGATGCTTGAAATTTTAACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTT-AGGCATGCCATAT
* * * *
294848 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGGTAAATGACGACTTTGCTTATTTT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACGACTTTGTTTA-TTT
* *
294913 TTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
129 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
294950 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGT-TAGGCATGCCATAT
* *
295015 CGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
* *
295080 TAGCAAAAATTTTCAAACAAATTTTTGTCAAAGATT
130 TAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
*
295116 TCTCAGCAAGTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGT-TAGGCATGCCATAT
* * *
295181 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGGTAAATGACGACTTTGTTTATTTT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
* *
295246 TAGCCAAAATTTTCATACAAATTTCCGTCAAAGATT
130 TAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
295282 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGT-TAGGCATGCCATAT
* * * * *
295347 TGTGGGATATATTTTTGTATCAATCGGATGTCAACTTCCTGTTAAATGATGACATTGCTTATTTT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
**
295412 TAGCCAAAATTTTCAAACAAATTTTCGTCAGTGATT
130 TAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * *
295448 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTT-AGGCATGCCATAT
*
295513 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGA-GTACTTTTTTTA-TT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACG-ACTTTGTTTATTT
*
295576 TTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
129 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* * *
295613 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTT-AGGCATGCCATAT
*
295678 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGA-GTTCTTTGTTTA-TT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACG-ACTTTGTTTATTT
*
295741 TTAGCCAAAATTTTCAAACAAATTTTCCTCAAAGATT
129 TTAGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
* *
295778 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTAACACACTATTTGTTTAGGCATGCCATAT
1 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTG-TTAGGCATGCCATAT
* * * * * ** *
295843 TGTGGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTGTTAAATGTTGACTTTGCTTATTTT
65 CGTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
295908 GCATATTCAC
Statistics
Matches: 893, Mismatches: 59, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
165 309 0.35
166 467 0.52
167 116 0.13
168 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (165 bp):
TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTTAGGCATGCCATATC
GTGGGATATATTTTTGTACCAATCGGATGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTTT
AGCCAAAATTTTCAAACAAATTTTCGTCAAAGATT
Found at i:298724 original size:126 final size:126
Alignment explanation
Indices: 298494--298753 Score: 511
Period size: 126 Copynumber: 2.1 Consensus size: 126
298484 TATATAAAAC
*
298494 AAAAGACAGTACTCTTCCGATTTCTCGGTATTAAAGCCCAAAAATTTGAGTCTATTATTTTAATA
1 AAAATACAGTACTCTTCCGATTTCTCGGTATTAAAGCCCAAAAATTTGAGTCTATTATTTTAATA
298559 TAGTAGTATAGATACATTTTATTGTTGAAATGTTTAGATTTCATATTGCATGTTCAGATTT
66 TAGTAGTATAGATACATTTTATTGTTGAAATGTTTAGATTTCATATTGCATGTTCAGATTT
298620 AAAATACAGTACTCTTCCGATTTCTCGGTATTAAAGCCCAAAAATTTGAGTCTATTATTTTAATA
1 AAAATACAGTACTCTTCCGATTTCTCGGTATTAAAGCCCAAAAATTTGAGTCTATTATTTTAATA
298685 TAGTAGTATAGATACATTTTATTGTTGAAATGTTTAGATTTCATATTGCATGTTCAGATTT
66 TAGTAGTATAGATACATTTTATTGTTGAAATGTTTAGATTTCATATTGCATGTTCAGATTT
298746 AAAATACA
1 AAAATACA
298754 TTTTGTAATT
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 133 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (126 bp):
AAAATACAGTACTCTTCCGATTTCTCGGTATTAAAGCCCAAAAATTTGAGTCTATTATTTTAATA
TAGTAGTATAGATACATTTTATTGTTGAAATGTTTAGATTTCATATTGCATGTTCAGATTT
Found at i:300678 original size:8 final size:8
Alignment explanation
Indices: 300665--300695 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
300655 AAACTGAAAA
300665 TTGTGTGT
1 TTGTGTGT
300673 TTGTGTGT
1 TTGTGTGT
*
300681 TTGTTTGT
1 TTGTGTGT
300689 TTGTGTG
1 TTGTGTG
300696 GTATTAGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (8 bp):
TTGTGTGT
Found at i:314827 original size:17 final size:17
Alignment explanation
Indices: 314805--314837 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
314795 TCGCATAGCC
314805 CCCTAACTCCGTCACTA
1 CCCTAACTCCGTCACTA
314822 CCCTAACTCCGTCACT
1 CCCTAACTCCGTCACT
314838 TTCGGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.48, G:0.06, T:0.24
Consensus pattern (17 bp):
CCCTAACTCCGTCACTA
Found at i:315857 original size:18 final size:17
Alignment explanation
Indices: 315831--315881 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
315821 TCATGTGTTT
315831 AAAAAAAACAAAACCAA
1 AAAAAAAACAAAACCAA
* *
315848 AAAAATAAAC-AAAGCTA
1 AAAAA-AAACAAAACCAA
*
315865 AAAAAAAACAATACCAA
1 AAAAAAAACAAAACCAA
315882 CAACATTGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.76, C:0.16, G:0.02, T:0.06
Consensus pattern (17 bp):
AAAAAAAACAAAACCAA
Found at i:318204 original size:18 final size:17
Alignment explanation
Indices: 318178--318228 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
318168 TCATGTGTTT
318178 AAAAAAAACAAAACCAA
1 AAAAAAAACAAAACCAA
* *
318195 AAAAATAAAC-AAAGCTA
1 AAAAA-AAACAAAACCAA
*
318212 AAAAAAAACAATACCAA
1 AAAAAAAACAAAACCAA
318229 CAACATTGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.76, C:0.16, G:0.02, T:0.06
Consensus pattern (17 bp):
AAAAAAAACAAAACCAA
Found at i:324174 original size:144 final size:144
Alignment explanation
Indices: 323959--324375 Score: 676
Period size: 144 Copynumber: 2.9 Consensus size: 144
323949 TACCGGTATA
* ** * * *
323959 TATTTTAGCTAACAAAGTGTTGTTAAGTTGTTGTACTATATGTCTATTATATGTCTATTCACAGT
1 TATTTTAG-TTACAAAGTGTTACTAAGTTGTTGTAC--TATGTCCATAACATGTCTATTCACAGT
324024 TCAAGGGATCTATCATGGAATAATTATCTATCTGACAGATTTAGAGACAATTCCATATGTACATG
63 TCAAGGGATCTATCATGGAATAATTATCTATCTGACAGATTTAGAGACAATTCCATATGTACATG
*
324089 CATGTGTGTTTATTATG
128 CATGTGTATTTATTATG
324106 TATTTTAGTTACAAAGTGTTACTAAGTTGTTGTACTATGTCCATAACATGTCTATTCACAGTTCA
1 TATTTTAGTTACAAAGTGTTACTAAGTTGTTGTACTATGTCCATAACATGTCTATTCACAGTTCA
324171 AGGGATCTATCATGGAATAATTATCTATCTGACAGATTTAGAGACAATTCCATATGTACATGCAT
66 AGGGATCTATCATGGAATAATTATCTATCTGACAGATTTAGAGACAATTCCATATGTACATGCAT
324236 GTGTATTTATTATG
131 GTGTATTTATTATG
*
324250 TATTTTAGTTACAAAGTGTTACTAAGTTGTTGTACTATGTCCATAACATGTCTATTCACAGATCA
1 TATTTTAGTTACAAAGTGTTACTAAGTTGTTGTACTATGTCCATAACATGTCTATTCACAGTTCA
* * * *
324315 GGGGATCTATCAAAGGAATAATTATCTATCTGACAGGTTTAGAGAAAATTCC--ATGTACATG
66 AGGGATCTATC-ATGGAATAATTATCTATCTGACAGATTTAGAGACAATTCCATATGTACATG
324376 TATCATTATG
Statistics
Matches: 257, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
143 9 0.04
144 179 0.70
145 37 0.14
146 24 0.09
147 8 0.03
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (144 bp):
TATTTTAGTTACAAAGTGTTACTAAGTTGTTGTACTATGTCCATAACATGTCTATTCACAGTTCA
AGGGATCTATCATGGAATAATTATCTATCTGACAGATTTAGAGACAATTCCATATGTACATGCAT
GTGTATTTATTATG
Found at i:325967 original size:5 final size:5
Alignment explanation
Indices: 325958--326028 Score: 76
Period size: 5 Copynumber: 14.2 Consensus size: 5
325948 CCCCCCCCCC
*
325958 CAAAA -AAAA -AAAA CAAAA CAAAA CAAAA CAAAA CAAAAA CAAAAA CAAAG
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA C-AAAA C-AAAA CAAAA
*
326008 CAAAA -AAAC CAAAAA CAAAA C
1 CAAAA CAAAA C-AAAA CAAAA C
326029 TGCCCAACAC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
4 11 0.19
5 32 0.55
6 15 0.26
ACGTcount: A:0.80, C:0.18, G:0.01, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:325996 original size:26 final size:25
Alignment explanation
Indices: 325959--326028 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
325949 CCCCCCCCCC
325959 AAAAAAA-AAAAACAAAACAAAACA
1 AAAAAAACAAAAACAAAACAAAACA
*
325983 AAACAAAACAAAAACAAAAACAAAGCA
1 AAA-AAAACAAAAAC-AAAACAAAACA
*
326010 AAAAAACCAAAAACAAAAC
1 AAAAAAACAAAAACAAAAC
326029 TGCCCAACAC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
24 3 0.07
25 9 0.22
26 16 0.39
27 13 0.32
ACGTcount: A:0.81, C:0.17, G:0.01, T:0.00
Consensus pattern (25 bp):
AAAAAAACAAAAACAAAACAAAACA
Found at i:326002 original size:32 final size:32
Alignment explanation
Indices: 325960--326027 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
325950 CCCCCCCCCA
325960 AAAAAAAAAAACAAAACAAAACAAAAC-AAAAC
1 AAAAAAAAAAACAAAACAAAA-AAAACAAAAAC
* * *
325992 AAAAACAAAAACAAAGCAAAAAAACCAAAAAC
1 AAAAAAAAAAACAAAACAAAAAAAACAAAAAC
326024 AAAA
1 AAAA
326028 CTGCCCAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAACAAAACAAAAAAAACAAAAAC
Found at i:326021 original size:7 final size:6
Alignment explanation
Indices: 325960--326027 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
325950 CCCCCCCCCA
*
325960 AAAAAA AAAAAC -AAAAC -AAAAC -AAAAC -AAAAC AAAAAC AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
326004 AAAGCAA- AAAAACC AAAAAC AAAA
1 AAA--AAC AAAAA-C AAAAAC AAAA
326028 CTGCCCAACA
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
5 22 0.39
6 24 0.43
7 8 0.14
8 2 0.04
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:337461 original size:18 final size:18
Alignment explanation
Indices: 337435--337470 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
337425 TAAGCATGGC
337435 CCTTGGAGATAGCCACCA
1 CCTTGGAGATAGCCACCA
* *
337453 CCTTTGAGATGGCCACCA
1 CCTTGGAGATAGCCACCA
337471 TCTCAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.19
Consensus pattern (18 bp):
CCTTGGAGATAGCCACCA
Found at i:337549 original size:16 final size:16
Alignment explanation
Indices: 337528--337565 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
337518 TAGTAATCAC
*
337528 TCTGTCCGTCCGTCCT
1 TCTGTCCGTCCGTCCG
337544 TCTGTCCGTCCGTCCG
1 TCTGTCCGTCCGTCCG
337560 TCTGTC
1 TCTGTC
337566 ACTCTTCCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.21, T:0.37
Consensus pattern (16 bp):
TCTGTCCGTCCGTCCG
Found at i:344491 original size:2 final size:2
Alignment explanation
Indices: 344484--344509 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
344474 AAGACATCTC
344484 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
344510 GGCTCGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:345111 original size:2 final size:2
Alignment explanation
Indices: 345104--345175 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
345094 CAAGAATAAT
345104 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
345146 AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
345176 TGATGTATAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:345807 original size:16 final size:16
Alignment explanation
Indices: 345786--345816 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
345776 ATACGGGACG
345786 TACTAAAGACCTGAAA
1 TACTAAAGACCTGAAA
345802 TACTAAAGACCTGAA
1 TACTAAAGACCTGAA
345817 TTATATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
TACTAAAGACCTGAAA
Found at i:345990 original size:17 final size:18
Alignment explanation
Indices: 345973--346007 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
345963 AAAATAGGAA
345973 TGAACTGAAAATTTGAAT
1 TGAACTGAAAATTTGAAT
*
345991 TGACCTGAAAATTTGAA
1 TGAACTGAAAATTTGAA
346008 CTTACGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAACTGAAAATTTGAAT
Found at i:350995 original size:2 final size:2
Alignment explanation
Indices: 350988--351019 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
350978 ACCAGTGTAG
350988 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
351020 AATCATCCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:353775 original size:202 final size:201
Alignment explanation
Indices: 353531--353934 Score: 799
Period size: 202 Copynumber: 2.0 Consensus size: 201
353521 GGAAGGATGT
353531 ACCATAAAAAGCTCAAACCAAATTCACATAATGTTTGGTTATTTACATGTAAATACATTGTATGT
1 ACCATAAAAAGCTCAAACCAAATTCACATAATGTTTGGTTATTTACATGTAAATACATTGTATGT
353596 GTTTTGCATCTGCATGTAGGTAGATTTTTTGGTAGCCCAGAGTTCGCCTTAGAATGTACGCTATT
66 GTTTTGCATCTGCATGTAGGTAGATTTTTTGGTAGCCCAGAGTTCGCCTTAGAATGTACGCTATT
353661 GATAGTGATTACAAGGTTTTAACCAGATTCTAGAATGTGATAAATCACGCACCGTCCTTCTTCTT
131 GATAGTGATTACAAGGTTTTAACCAGATTCTAGAATGTGATAAATCACGCACCGTCCTTCTTCTT
353726 AAAAGG
196 AAAAGG
353732 NACCATAAAAAGCTCAAACCAAATTCACATAATGTTTGGTTATTTACATGTAAATACATTGTATG
1 -ACCATAAAAAGCTCAAACCAAATTCACATAATGTTTGGTTATTTACATGTAAATACATTGTATG
353797 TGTTTTGCATCTGCATGTAGGTAGATTTTTTGGTAGCCCAGAGTTCGCCTTAGAATGTACGCTAT
65 TGTTTTGCATCTGCATGTAGGTAGATTTTTTGGTAGCCCAGAGTTCGCCTTAGAATGTACGCTAT
353862 TGATAGTGATTACAAGGTTTTAACCAGATTCTAGAATGTGATAAATCACGCACCGTCCTTCTTCT
130 TGATAGTGATTACAAGGTTTTAACCAGATTCTAGAATGTGATAAATCACGCACCGTCCTTCTTCT
353927 TAAAAGG
195 TAAAAGG
353934 A
1 A
353935 TTCTTATTTT
Statistics
Matches: 202, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
201 1 0.00
202 201 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (201 bp):
ACCATAAAAAGCTCAAACCAAATTCACATAATGTTTGGTTATTTACATGTAAATACATTGTATGT
GTTTTGCATCTGCATGTAGGTAGATTTTTTGGTAGCCCAGAGTTCGCCTTAGAATGTACGCTATT
GATAGTGATTACAAGGTTTTAACCAGATTCTAGAATGTGATAAATCACGCACCGTCCTTCTTCTT
AAAAGG
Found at i:355379 original size:128 final size:128
Alignment explanation
Indices: 355151--355408 Score: 482
Period size: 128 Copynumber: 2.0 Consensus size: 128
355141 TAATTTCAAT
355151 AACTGGTAGAATCACGATAAAAATTGATCATCAATTCATGACTGAATTAGAAATAAATGACCCGT
1 AACTGGTAGAATCACGATAAAAATTGATCATCAATTCATGACTGAATTAGAAATAAATGACCCGT
*
355216 TCTGTTATGTTCTGTAGAGGAAATTCGAGACTCCGCTTTCAACAGGTCATTGACATACCGTGA
66 TCTGTTATGTTCTGTAGAGGAAATTCGAGACTCCGCTTTCAACAGGTCATTGACATACAGTGA
*
355279 AACTGGTAGAATCTA-GATAAAGATTGATCATCAATTCATGACTGAATTAGAAATAAATGACCCG
1 AACTGGTAGAATC-ACGATAAAAATTGATCATCAATTCATGACTGAATTAGAAATAAATGACCCG
355343 TTCTGTTATGTTCTGTAGAGGAAATTCGAGACTCCGCTTTCAACAGGTCATTGACATACAGTGA
65 TTCTGTTATGTTCTGTAGAGGAAATTCGAGACTCCGCTTTCAACAGGTCATTGACATACAGTGA
355407 AA
1 AA
355409 TAAATTGGTA
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
128 126 0.99
129 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (128 bp):
AACTGGTAGAATCACGATAAAAATTGATCATCAATTCATGACTGAATTAGAAATAAATGACCCGT
TCTGTTATGTTCTGTAGAGGAAATTCGAGACTCCGCTTTCAACAGGTCATTGACATACAGTGA
Found at i:358918 original size:5 final size:5
Alignment explanation
Indices: 358908--359043 Score: 94
Period size: 5 Copynumber: 26.8 Consensus size: 5
358898 CAACGAAATA
* * *
358908 GAAAC GAAAC GAAAT GAAAC GAAAC GAAATC -TACC GAAAC GAAAC GAAAC
1 GAAAC GAAAC GAAAC GAAAC GAAAC GAAA-C GAAAC GAAAC GAAAC GAAAC
**** * * * *
358958 CTTCC AAAAC GAAAC AAAAC GGAAC GAAAC GAAAC GAAATC AAAAC GAAACC
1 GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC GAAA-C GAAAC GAAA-C
* ** * *
359010 TAAAC CCACC GAAAC GAAAC GAAAC AAAAC GAAA
1 GAAAC GAAAC GAAAC GAAAC GAAAC GAAAC GAAA
359044 TCAACCAAAA
Statistics
Matches: 97, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
4 1 0.01
5 87 0.90
6 9 0.09
ACGTcount: A:0.57, C:0.24, G:0.15, T:0.05
Consensus pattern (5 bp):
GAAAC
Found at i:360290 original size:5 final size:5
Alignment explanation
Indices: 360282--360409 Score: 89
Period size: 5 Copynumber: 25.2 Consensus size: 5
360272 GTTTTGGTAG
* * * **
360282 GTTTC GTTTC GTTTC GTTTT GATTTC GTTTT GTTTC GTTTC GGTAG GTTTC
1 GTTTC GTTTC GTTTC GTTTC G-TTTC GTTTC GTTTC GTTTC GTTTC GTTTC
* * * * *
360333 GTTTC GTTTC GTTTC G-GTA GATTTC GTTTC GTTTT G-GTA GATTTC GTTTC
1 GTTTC GTTTC GTTTC GTTTC G-TTTC GTTTC GTTTC GTTTC G-TTTC GTTTC
* * *
360383 GTTTT GTTTC ATTTC TATTTC GTTTC G
1 GTTTC GTTTC GTTTC -GTTTC GTTTC G
360410 CACTTTACAG
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
4 4 0.04
5 77 0.82
6 13 0.14
ACGTcount: A:0.06, C:0.14, G:0.22, T:0.58
Consensus pattern (5 bp):
GTTTC
Found at i:360301 original size:25 final size:25
Alignment explanation
Indices: 360267--360366 Score: 127
Period size: 25 Copynumber: 4.2 Consensus size: 25
360257 AATATTCTAA
* *
360267 GTTTTGTTTTGGTAGGTTTCGTTTC
1 GTTTCGTTTCGGTAGGTTTCGTTTC
* *
360292 GTTTCGTTT---T-GATTTCGTTTT
1 GTTTCGTTTCGGTAGGTTTCGTTTC
360313 GTTTCGTTTCGGTAGGTTTCGTTTC
1 GTTTCGTTTCGGTAGGTTTCGTTTC
*
360338 GTTTCGTTTCGGTAGATTTCGTTTC
1 GTTTCGTTTCGGTAGGTTTCGTTTC
360363 GTTT
1 GTTT
360367 TGGTAGATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.28
22 1 0.02
24 1 0.02
25 45 0.69
ACGTcount: A:0.05, C:0.12, G:0.25, T:0.58
Consensus pattern (25 bp):
GTTTCGTTTCGGTAGGTTTCGTTTC
Found at i:360382 original size:25 final size:25
Alignment explanation
Indices: 360267--360391 Score: 124
Period size: 25 Copynumber: 5.4 Consensus size: 25
360257 AATATTCTAA
* *
360267 GTTTTGTTTTGGTAGGTTTCGTTTC
1 GTTTCGTTTTGGTAGATTTCGTTTC
*
360292 GTTTCG-TTT--T-GATTTCGTTTT
1 GTTTCGTTTTGGTAGATTTCGTTTC
* *
360313 GTTTCGTTTCGGTAGGTTTCGTTTC
1 GTTTCGTTTTGGTAGATTTCGTTTC
*
360338 GTTTCGTTTCGGTAGA-----TTTC
1 GTTTCGTTTTGGTAGATTTCGTTTC
360358 GTTTCGTTTTGGTAGATTTCGTTTC
1 GTTTCGTTTTGGTAGATTTCGTTTC
*
360383 GTTTTGTTT
1 GTTTCGTTT
360392 CATTTCTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
20 19 0.23
21 15 0.18
22 3 0.04
24 4 0.05
25 41 0.50
ACGTcount: A:0.06, C:0.11, G:0.25, T:0.58
Consensus pattern (25 bp):
GTTTCGTTTTGGTAGATTTCGTTTC
Found at i:361365 original size:34 final size:34
Alignment explanation
Indices: 361318--361773 Score: 382
Period size: 34 Copynumber: 13.8 Consensus size: 34
361308 TCCTTTAGTA
* * *
361318 TGGTAGTTGTGTATCAGCCCTGATATAGGTATTC
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * * *
361352 TAGTAGTAATGTATCATCCCTGATATACCTGTTC
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * * * * * *
361386 TGTTAATAGTATATCATCACTAATATAGCTGTTG
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
*
361420 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTG
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* *
361454 TGGTAGTAGTGTATCATCCCTGATATACCTGTTC
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * * *
361488 TGTTAATAGTATATCAGCACTGATATAGCTGTTC
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * * *
361522 TGGTAGTTGTATCTCAGCCCTGATATAGGTGTTC
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * *
361556 AGGTAG-CGCTGTATCAGCCCTGATATAG-TAGTTG
1 TGGTAGTAG-TGTATCAGCCCTGATATAGCT-GTTC
* * * *
361590 TGGTAGTAGTGTTTCAGCTCTGATATACCTGTTG
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
*
361624 TGGTAGTAGTGTATCAGCCCTGATATAGCTCTT-
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * * * * *
361657 TTG-A-TAGTATCTCAGCCCTGATTTAGCTATTA
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* * *
361689 TGGTAGT--TGTAT-A--CC--AT-T-CCTGATA
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* *
361714 TGGTAGTAGTGTATAAGCCTTGATATAGCTGTTC
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
* *
361748 TGGTAGTAGTGTATCGGTCCTGATAT
1 TGGTAGTAGTGTATCAGCCCTGATAT
361774 GGTAGTTGTG
Statistics
Matches: 336, Mismatches: 70, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
25 11 0.03
26 1 0.00
27 7 0.02
28 1 0.00
29 2 0.01
30 1 0.00
31 24 0.07
32 8 0.02
33 6 0.02
34 273 0.81
35 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (34 bp):
TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTC
Found at i:361494 original size:102 final size:102
Alignment explanation
Indices: 361318--361653 Score: 424
Period size: 102 Copynumber: 3.3 Consensus size: 102
361308 TCCTTTAGTA
* * * * *
361318 TGGTAGTTGTGTATCAGCCCTGATATAGGTATTCTAGTAGTAATGTATCATCCCTGATATACCTG
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTCTGGTAGTAGTGTATCATCCCTGATATACCTG
* *
361383 TTCTGTTAATAGTATATCATCACTAATATAGCTGTTG
66 TTCTGTTAATAGTATATCAGCACTGATATAGCTGTTG
*
361420 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTGTGGTAGTAGTGTATCATCCCTGATATACCTG
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTCTGGTAGTAGTGTATCATCCCTGATATACCTG
*
361485 TTCTGTTAATAGTATATCAGCACTGATATAGCTGTTC
66 TTCTGTTAATAGTATATCAGCACTGATATAGCTGTTG
* * * * * * * *
361522 TGGTAGTTGTATCTCAGCCCTGATATAGGTGTTCAGGTAG-CGCTGTATCAGCCCTGATATA-GT
1 TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTCTGGTAGTAG-TGTATCATCCCTGATATACCT
* * * * * * *
361585 AGTTGTGGTAGTAGTGTTTCAGCTCTGATATACCTGTTG
65 -GTTCTGTTAATAGTATATCAGCACTGATATAGCTGTTG
361624 TGGTAGTAGTGTATCAGCCCTGATATAGCT
1 TGGTAGTAGTGTATCAGCCCTGATATAGCT
361654 CTTTTGATAG
Statistics
Matches: 202, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
101 2 0.01
102 200 0.99
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (102 bp):
TGGTAGTAGTGTATCAGCCCTGATATAGCTGTTCTGGTAGTAGTGTATCATCCCTGATATACCTG
TTCTGTTAATAGTATATCAGCACTGATATAGCTGTTG
Found at i:361752 original size:59 final size:59
Alignment explanation
Indices: 361670--361796 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 59
361660 ATAGTATCTC
* * *
361670 AGCCCTGATTTAGCTATTATGGTAGTTGTATACCATTCCTGATATGGTAGTAGTGTATA
1 AGCCCTGATATAGCTATTATGGTAGTAGTATACCAGTCCTGATATGGTAGTAGTGTATA
* * * * * * * *
361729 AGCCTTGATATAGCTGTTCTGGTAGTAGTGTATCGGTCCTGATATGGTAGTTGTGTATC
1 AGCCCTGATATAGCTATTATGGTAGTAGTATACCAGTCCTGATATGGTAGTAGTGTATA
361788 AGCCCTGAT
1 AGCCCTGAT
361797 GTAGTTGTGT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (59 bp):
AGCCCTGATATAGCTATTATGGTAGTAGTATACCAGTCCTGATATGGTAGTAGTGTATA
Found at i:361784 original size:25 final size:23
Alignment explanation
Indices: 361748--361812 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 23
361738 ATAGCTGTTC
* * *
361748 TGGTAGTAGTGTATCGGTCCTGATA
1 TGGTAGTTGTGTATCAGCCCTG--A
361773 TGGTAGTTGTGTATCAGCCCTGA
1 TGGTAGTTGTGTATCAGCCCTGA
361796 T-GTAGTTGTGTATCAGC
1 TGGTAGTTGTGTATCAGC
361813 TTTAATATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.43
23 2 0.05
25 19 0.51
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (23 bp):
TGGTAGTTGTGTATCAGCCCTGA
Found at i:361917 original size:59 final size:59
Alignment explanation
Indices: 361854--361972 Score: 159
Period size: 59 Copynumber: 2.0 Consensus size: 59
361844 GTAGGTGGTT
* *
361854 TGGTAGTAATGTATCAGCCCTTATAT-AGCTGTTCTGGTAGTTGTGTATCAGTCCTGATA
1 TGGTAGTAATGTATCAGCCCTGATATAAG-TGTTCTGGTAGTTGTGTATCAGCCCTGATA
* ** * *
361913 TGGTATTTGTGTATCAGCCCTGATATAAGTGTTTTGGTAGTTGTGTATTAGCCCTGATA
1 TGGTAGTAATGTATCAGCCCTGATATAAGTGTTCTGGTAGTTGTGTATCAGCCCTGATA
361972 T
1 T
361973 AACTGTTCTC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
59 50 0.96
60 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.41
Consensus pattern (59 bp):
TGGTAGTAATGTATCAGCCCTGATATAAGTGTTCTGGTAGTTGTGTATCAGCCCTGATA
Found at i:361922 original size:25 final size:25
Alignment explanation
Indices: 361888--361938 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
361878 ATAGCTGTTC
*
361888 TGGTAGTTGTGTATCAGTCCTGATA
1 TGGTAGTTGTGTATCAGCCCTGATA
*
361913 TGGTATTTGTGTATCAGCCCTGATA
1 TGGTAGTTGTGTATCAGCCCTGATA
361938 T
1 T
361939 AAGTGTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (25 bp):
TGGTAGTTGTGTATCAGCCCTGATA
Found at i:361957 original size:34 final size:34
Alignment explanation
Indices: 361913--362020 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 34
361903 AGTCCTGATA
* *
361913 TGGTATTTGTGTATCAGCCCTGATATAAGTGTTT
1 TGGTAGTTGTGTATCAGCCCTGATATAACTGTTT
* *
361947 TGGTAGTTGTGTATTAGCCCTGATATAACTGTTC
1 TGGTAGTTGTGTATCAGCCCTGATATAACTGTTT
* ** * ** *
361981 TCGTAGTACTGTTTCAGCTATGATATAGCTGTTT
1 TGGTAGTTGTGTATCAGCCCTGATATAACTGTTT
*
362015 TAGTAG
1 TGGTAG
362021 CAGAGTGTCA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (34 bp):
TGGTAGTTGTGTATCAGCCCTGATATAACTGTTT
Found at i:362005 original size:93 final size:93
Alignment explanation
Indices: 361827--362006 Score: 218
Period size: 93 Copynumber: 1.9 Consensus size: 93
361817 ATATGGAAGG
* * * * *
361827 TGTGTATCAGCCATGATGTAGGTGGTTTGGTAGTAATGTATCAGCCCTTATATAGCTGTTCTGGT
1 TGTGTATCAGCCATGATATAAGTGGTTTGGTAGTAATGTATCAGCCCTGATATAACTGTTCTCGT
** *
361892 AGTTGTGTATCAGTCCTGATATGGTATT
66 AGTACTGTATCAGTCATGATATGGTATT
* * ** *
361920 TGTGTATCAGCCCTGATATAAGTGTTTTGGTAGTTGTGTATTAGCCCTGATATAACTGTTCTCGT
1 TGTGTATCAGCCATGATATAAGTGGTTTGGTAGTAATGTATCAGCCCTGATATAACTGTTCTCGT
*
361985 AGTACTGTTTCAG-CTATGATAT
66 AGTACTGTATCAGTC-ATGATAT
362007 AGCTGTTTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (93 bp):
TGTGTATCAGCCATGATATAAGTGGTTTGGTAGTAATGTATCAGCCCTGATATAACTGTTCTCGT
AGTACTGTATCAGTCATGATATGGTATT
Found at i:362116 original size:25 final size:25
Alignment explanation
Indices: 362085--362134 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
362075 AGCTGTTAGT
* *
362085 TAGTTGTGTATCAGTCCTTATATAG
1 TAGTTGTGTATCAGCCCTGATATAG
*
362110 TAGTTGTGTGTCAGCCCTGATATAG
1 TAGTTGTGTATCAGCCCTGATATAG
362135 ATGTTTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (25 bp):
TAGTTGTGTATCAGCCCTGATATAG
Found at i:362344 original size:34 final size:34
Alignment explanation
Indices: 362230--362337 Score: 146
Period size: 34 Copynumber: 3.2 Consensus size: 34
362220 AGCCCGGATA
*
362230 TGGTAGTAGTATATCAG-CTCTGATATAGCTGCTC
1 TGGTAGTAGTGTATCAGCCT-TGATATAGCTGCTC
* * * *
362264 TGGTAGTAGTGTATCACCCCTGATATAGCTGTTG
1 TGGTAGTAGTGTATCAGCCTTGATATAGCTGCTC
*
362298 TGGTAGTAGTGTATCAGCCTTGATATAACTGCTC
1 TGGTAGTAGTGTATCAGCCTTGATATAGCTGCTC
362332 TGGTAG
1 TGGTAG
362338 CTGTGTACCA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 62 0.98
35 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (34 bp):
TGGTAGTAGTGTATCAGCCTTGATATAGCTGCTC
Found at i:365630 original size:47 final size:47
Alignment explanation
Indices: 365559--365811 Score: 357
Period size: 47 Copynumber: 5.4 Consensus size: 47
365549 GCAACTGATC
* * * *
365559 CATATATGGACATGTAATATATGTAACTGATCCAGTCCATTGAGGGT
1 CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
* * * * * * * *
365606 CATATATGGACATGTAATAAATGTAACTGATCAAATCCATTGAGGGA
1 CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
* *
365653 AATATATATACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
1 CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
*
365700 CATATATGTACCTGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
1 CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
365747 CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
1 CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
365794 C--ATATGTACATGTAATAT
1 CATATATGTACATGTAATAT
365812 TTGGAAATAC
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 17 0.09
47 171 0.91
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (47 bp):
CATATATGTACATGTAATATATGTAGCTGATCCAGTCCTTTGATGGT
Found at i:371411 original size:18 final size:18
Alignment explanation
Indices: 371373--371448 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
371363 AACTGTACAA
*
371373 TGTACCGAT-A-ACAATG
1 TGTACCGATAATATAATG
*
371389 GGTACCGATAATATAATG
1 TGTACCGATAATATAATG
*
371407 TGTACCGATAAAATAATG
1 TGTACCGATAATATAATG
*
371425 TGTACCAATAATATAATG
1 TGTACCGATAATATAATG
371443 TGTACC
1 TGTACC
371449 AATATATAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
16 8 0.15
17 1 0.02
18 43 0.83
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (18 bp):
TGTACCGATAATATAATG
Found at i:371449 original size:18 final size:18
Alignment explanation
Indices: 371385--371456 Score: 101
Period size: 18 Copynumber: 4.1 Consensus size: 18
371375 TACCGATAAC
* *
371385 AATGGGTACCGATAATAT
1 AATGTGTACCAATAATAT
* *
371403 AATGTGTACCGATAAAAT
1 AATGTGTACCAATAATAT
371421 AATGTGTACCAATAATAT
1 AATGTGTACCAATAATAT
371439 AATGTGTACCAAT-ATAT
1 AATGTGTACCAATAATAT
371456 A
1 A
371457 GATATAATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
17 5 0.10
18 45 0.90
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (18 bp):
AATGTGTACCAATAATAT
Found at i:371783 original size:18 final size:18
Alignment explanation
Indices: 371759--372352 Score: 701
Period size: 18 Copynumber: 33.0 Consensus size: 18
371749 AAAGAATAAT
*
371759 AATAACATAACGTGTACC
1 AATAACATAATGTGTACC
*
371777 GATAACATAATGTGTACC
1 AATAACATAATGTGTACC
* *
371795 GATAATATAATGTGTACC
1 AATAACATAATGTGTACC
371813 AATAACATAATGTGTACC
1 AATAACATAATGTGTACC
*
371831 ATTAACATAATGTGTACC
1 AATAACATAATGTGTACC
* *
371849 GATAATATAATGTGTA-C
1 AATAACATAATGTGTACC
* *
371866 AATAACAAAATGTTTACC
1 AATAACATAATGTGTACC
371884 AATAATC-TAATGTGTACC
1 AATAA-CATAATGTGTACC
* *
371902 GATAACATAATGCGTACC
1 AATAACATAATGTGTACC
*
371920 AATAGCATAATGTGTACC
1 AATAACATAATGTGTACC
* *
371938 GATAATATAATGTGTACC
1 AATAACATAATGTGTACC
* * *
371956 GATAATATAATGTGTAAC
1 AATAACATAATGTGTACC
371974 AATAACATAATGTGTACC
1 AATAACATAATGTGTACC
371992 AATAACATAATGTGTACC
1 AATAACATAATGTGTACC
* *
372010 GATAATATAATGTGTA-C
1 AATAACATAATGTGTACC
* *
372027 AATAACAAAATGTTTACC
1 AATAACATAATGTGTACC
* *
372045 GATAACATAATGTGTAAC
1 AATAACATAATGTGTACC
*
372063 AATAATATAATGTGTACC
1 AATAACATAATGTGTACC
* *
372081 GATAACATAATGTGAACC
1 AATAACATAATGTGTACC
* *
372099 AATAACATAATATGTAAC
1 AATAACATAATGTGTACC
*
372117 AATAGCATAATGTGTA-C
1 AATAACATAATGTGTACC
*
372134 AATAACATAATGTGTGCC
1 AATAACATAATGTGTACC
*
372152 AAAAACATAATGTGTACC
1 AATAACATAATGTGTACC
*
372170 GATAACATAATGTGTACC
1 AATAACATAATGTGTACC
* * *
372188 GATAGCATAATTTGTACC
1 AATAACATAATGTGTACC
* * *
372206 GATAACATAATGTCTGCC
1 AATAACATAATGTGTACC
*
372224 AATAATAACATAATGTGTAAC
1 ---AATAACATAATGTGTACC
372245 AATAACATAATGTGTACC
1 AATAACATAATGTGTACC
* *
372263 AATAACAGAATGTGTGCC
1 AATAACATAATGTGTACC
* *
372281 GATAATATAATGTGTACC
1 AATAACATAATGTGTACC
*
372299 GATAACATAATGTGTACC
1 AATAACATAATGTGTACC
*
372317 AATAACAGAATGTGTACC
1 AATAACATAATGTGTACC
* *
372335 GATAATATAATGTGTACC
1 AATAACATAATGTGTACC
372353 CAATCGAATT
Statistics
Matches: 490, Mismatches: 78, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
17 42 0.09
18 433 0.88
19 1 0.00
21 14 0.03
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (18 bp):
AATAACATAATGTGTACC
Found at i:371841 original size:54 final size:54
Alignment explanation
Indices: 371759--372352 Score: 782
Period size: 54 Copynumber: 11.0 Consensus size: 54
371749 AAAGAATAAT
* *
371759 AATAACATAACGTGTACCGATAACATAATGTGTACCGATAATATAATGTGTACC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
*
371813 AATAACATAATGTGTACCATTAACATAATGTGTACCGATAATATAATGTGTA-C
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
* * * *
371866 AATAACAAAATGTTTACCAATAATC-TAATGTGTACCGATAACATAATGCGTACC
1 AATAACATAATGTGTACCAATAA-CATAATGTGTACCGATAATATAATGTGTACC
* * * *
371920 AATAGCATAATGTGTACCGATAATATAATGTGTACCGATAATATAATGTGTAAC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
371974 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTA-C
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
* * * * *
372027 AATAACAAAATGTTTACCGATAACATAATGTGTAACAATAATATAATGTGTACC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
* * * * * **
372081 GATAACATAATGTGAACCAATAACATAATATGTAACAATAGCATAATGTGTA-C
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
* * *
372134 AATAACATAATGTGTGCCAAAAACATAATGTGTACCGATAACATAATGTGTACC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
* * * * * * * *
372188 GATAGCATAATTTGTACCGATAACATAATGTCTGCCAATAATAACATAATGTGTAAC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAAT---ATAATGTGTACC
* *
372245 AATAACATAATGTGTACCAATAACAGAATGTGTGCCGATAATATAATGTGTACC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
* *
372299 GATAACATAATGTGTACCAATAACAGAATGTGTACCGATAATATAATGTGTACC
1 AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
372353 CAATCGAATT
Statistics
Matches: 471, Mismatches: 61, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
53 139 0.30
54 286 0.61
57 46 0.10
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (54 bp):
AATAACATAATGTGTACCAATAACATAATGTGTACCGATAATATAATGTGTACC
Found at i:391772 original size:18 final size:19
Alignment explanation
Indices: 391746--391787 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
391736 TTTTGAAAAG
*
391746 TCCTATAGG-AATTATATT
1 TCCTATAGGAAATGATATT
*
391764 TCCTTTAGGATAATGATATT
1 TCCTATAGGA-AATGATATT
391784 TCCT
1 TCCT
391788 GTCGGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
20 12 0.60
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (19 bp):
TCCTATAGGAAATGATATT
Found at i:391946 original size:20 final size:20
Alignment explanation
Indices: 391917--391975 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
391907 TTTCAAATTG
391917 CCTATAGGAATATATTTTTT
1 CCTATAGGAATATATTTTTT
* *
391937 CCTATGGGAA-AAATTATTTT
1 CCTATAGGAATATATT-TTTT
* *
391957 CCTGTAGGAATTTATTTTT
1 CCTATAGGAATATATTTTT
391976 GAAAGGTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
CCTATAGGAATATATTTTTT
Found at i:420975 original size:14 final size:15
Alignment explanation
Indices: 420956--420989 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
420946 ATTTAATATG
420956 ATAAAGGTG-GTCTC
1 ATAAAGGTGAGTCTC
420970 ATAAAGGTGAAGTCTC
1 ATAAAGGTG-AGTCTC
420986 ATAA
1 ATAA
420990 GGGCGATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (15 bp):
ATAAAGGTGAGTCTC
Found at i:427236 original size:22 final size:22
Alignment explanation
Indices: 427211--427705 Score: 528
Period size: 22 Copynumber: 22.3 Consensus size: 22
427201 TGACAAGCCA
427211 ACAGACTCCAGACACATCACAC
1 ACAGACTCCAGACACATCACAC
427233 ACAGACTCCAGACACATCACAC
1 ACAGACTCCAGACACATCACAC
*
427255 ACAGACTCCAAACACATCACAC
1 ACAGACTCCAGACACATCACAC
* * *
427277 ATATACTCCAGATACATCACAC
1 ACAGACTCCAGACACATCACAC
* *
427299 ACAGTCTCCAGACACATCACTC
1 ACAGACTCCAGACACATCACAC
427321 ACAGACTCCAGACACGTACATCACAC
1 ACAGACTCCAG--AC--ACATCACAC
*
427347 ACAGACTCCAGACACGTACATCACAT
1 ACAGACTCCAG--AC--ACATCACAC
* *
427373 ACAGACTCCAGACACATAATAC
1 ACAGACTCCAGACACATCACAC
* *
427395 ACAGGCTCCAGACACATC-CAA
1 ACAGACTCCAGACACATCACAC
* * *
427416 ACAGATTCCAAAAACAT--CAC
1 ACAGACTCCAGACACATCACAC
427436 ACAGACTCCAGACACATCACAC
1 ACAGACTCCAGACACATCACAC
427458 ACAGACTCCAGACACATCACAC
1 ACAGACTCCAGACACATCACAC
* * * * *
427480 ACATACTCCAGAAACACCCCAT
1 ACAGACTCCAGACACATCACAC
* * * *
427502 ACAGACTCTAGAAATATCACTC
1 ACAGACTCCAGACACATCACAC
*
427524 ACAGACTCCAGACACATCACAT
1 ACAGACTCCAGACACATCACAC
427546 ACAGACTCCAGACACATCACAC
1 ACAGACTCCAGACACATCACAC
* * * * * *
427568 ACATACACCTGAAACACCCCAC
1 ACAGACTCCAGACACATCACAC
* * *
427590 ACAGACTCTAGAAACATCACTC
1 ACAGACTCCAGACACATCACAC
* * *
427612 ACAGACTCCACACACAACACAT
1 ACAGACTCCAGACACATCACAC
427634 ACAGACTCCAGACACATCACAC
1 ACAGACTCCAGACACATCACAC
* * * *
427656 ACATACTCCAGAAACACCCCAC
1 ACAGACTCCAGACACATCACAC
*
427678 ACAGACTCCAAACACATCACAC
1 ACAGACTCCAGACACATCACAC
427700 ACAGAC
1 ACAGAC
427706 CTCGTACTAT
Statistics
Matches: 390, Mismatches: 77, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.04
21 14 0.04
22 312 0.80
24 4 0.01
26 44 0.11
ACGTcount: A:0.41, C:0.38, G:0.08, T:0.12
Consensus pattern (22 bp):
ACAGACTCCAGACACATCACAC
Found at i:429903 original size:35 final size:35
Alignment explanation
Indices: 429864--430661 Score: 1018
Period size: 35 Copynumber: 23.7 Consensus size: 35
429854 AGAGTAGGTT
429864 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
429899 ATTTGATGCTATAAAGGAGGTCAACCGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
* * *
429934 ACTGGATGCTATAAAGGAGGT---CAGACTGAGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
** * * *
429966 ATTAAATACTATAATGAAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
* **
430001 ATTTGATGCTATAAAGG-GGCCAACAGACTTTGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
* * * *
430035 ATTGGACGCTATAAA-AAGGTCAACAGACTGTGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
* *
430069 ATTGGATGCTGTAAAGGAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430104 A-TTGAATGCTATAAAGGAGGT---CATACTGGGTC
1 ATTTG-ATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430136 ATTTGATGCTATAAAGGAGGTCAACAGACTGTGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
* * * *
430171 ATTGGATGCTATAAAGGATGTCAAAAGACTGTGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
430206 A-TTGAATGCTATAAAGGAGGT---CAGACTGGGTC
1 ATTTG-ATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430238 ATTGGATGCTATAAAGGAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430273 ATTGGATGCTATAAAGGAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430308 ATTGGATGCTATAAAGGAGGT---CAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430340 ATTGGATGCTATAAAGGAGGT---CAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430372 ATTTGATGCTATAAAGGTGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430407 ATTGGATGCTATAAAGGAGGT---CAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430439 ATTTGATGCTATGAAGGAGGT---CAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
430471 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
430506 A-TTGAATGCTATAAAGGAGGT---CAGACTGGGTC
1 ATTTG-ATGCTATAAAGGAGGTCAACAGACTGGGTC
430538 ATTTGATGCTATAAAGGAGGT---CAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
*
430570 ATTTGATGCTATGAAGGAGGT---CAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
430602 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
1 ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
* *
430637 ATTGGATGCTATAAAGGAGGCCAAC
1 ATTTGATGCTATAAAGGAGGTCAAC
430662 TGCTAAAATT
Statistics
Matches: 684, Mismatches: 53, Indels: 52
0.87 0.07 0.07
Matches are distributed among these distances:
32 290 0.42
33 8 0.01
34 62 0.09
35 324 0.47
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (35 bp):
ATTTGATGCTATAAAGGAGGTCAACAGACTGGGTC
Found at i:429979 original size:67 final size:67
Alignment explanation
Indices: 429868--430661 Score: 974
Period size: 67 Copynumber: 11.8 Consensus size: 67
429858 TAGGTTATTT
*
429868 GATGCTATAAAGGAGGTCAACAGACTGGGTCATTTGATGCTATAAAGGAGGTCAACCGACTGGGT
1 GATGCTATAAAGGAGGT--ACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAA-CGACTGGGT
*
429933 CACTG
63 CATTG
* ** * * *
429938 GATGCTATAAAGGAGGT-CAGACTGAGTCATTAAATACTATAATGAAGGTCAACAGACTGGGTCA
1 GATGCTATAAAGGAGGTACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAAC-GACTGGGTCA
*
430002 TTT
65 TTG
* ** * * *
430005 GATGCTATAAAGG-GGCCAACAGACTTTGTCATTGGACGCTATAAA-AAGGTCAACAGACTGTGT
1 GATGCTATAAAGGAGG--TACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAAC-GACTGGGT
430068 CATTG
63 CATTG
* * *
430073 GATGCTGTAAAGGAGGTCAACAGACTGGGTCATTGAATGCTATAAAGGAGGTC-A-TACTGGGTC
1 GATGCTATAAAGGAGGT--ACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACGACTGGGTC
*
430136 ATTT
64 ATTG
* * * *
430140 GATGCTATAAAGGAGGTCAACAGACTGTGTCATTGGATGCTATAAAGGATGTCAAAAGACTGTGT
1 GATGCTATAAAGGAGGT--ACAGACTGGGTCATTGGATGCTATAAAGGAGGTC-AACGACTGGGT
430205 CATTG
63 CATTG
*
430210 AATGCTATAAAGGAGGT-CAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACAGACTGGGTCA
1 GATGCTATAAAGGAGGTACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAAC-GACTGGGTCA
430274 TTG
65 TTG
430277 GATGCTATAAAGGAGGTCAACAGACTGGGTCATTGGATGCTATAAAGGAGGTC-A-GACTGGGTC
1 GATGCTATAAAGGAGGT--ACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACGACTGGGTC
430340 ATTG
64 ATTG
* *
430344 GATGCTATAAAGGAGGT-CAGACTGGGTCATTTGATGCTATAAAGGTGGTCAACAGACTGGGTCA
1 GATGCTATAAAGGAGGTACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAAC-GACTGGGTCA
430408 TTG
65 TTG
* *
430411 GATGCTATAAAGGAGGT-CAGACTGGGTCATTTGATGCTATGAAGGAGGTC-A-GACTGGGTCAT
1 GATGCTATAAAGGAGGTACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACGACTGGGTCAT
*
430473 TT
66 TG
*
430475 GATGCTATAAAGGAGGTCAACAGACTGGGTCATTGAATGCTATAAAGGAGGTC-A-GACTGGGTC
1 GATGCTATAAAGGAGGT--ACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACGACTGGGTC
*
430538 ATTT
64 ATTG
* *
430542 GATGCTATAAAGGAGGT-CAGACTGGGTCATTTGATGCTATGAAGGAGGTC-A-GACTGGGTCAT
1 GATGCTATAAAGGAGGTACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACGACTGGGTCAT
*
430604 TT
66 TG
*
430606 GATGCTATAAAGGAGGTCAACAGACTGGGTCATTGGATGCTATAAAGGAGGCCAAC
1 GATGCTATAAAGGAGGT--ACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAAC
430662 TGCTAAAATT
Statistics
Matches: 643, Mismatches: 55, Indels: 53
0.86 0.07 0.07
Matches are distributed among these distances:
64 121 0.19
65 1 0.00
66 6 0.01
67 353 0.55
68 34 0.05
69 47 0.07
70 81 0.13
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (67 bp):
GATGCTATAAAGGAGGTACAGACTGGGTCATTGGATGCTATAAAGGAGGTCAACGACTGGGTCAT
TG
Found at i:432114 original size:36 final size:36
Alignment explanation
Indices: 432068--432939 Score: 721
Period size: 36 Copynumber: 24.9 Consensus size: 36
432058 AATGTTATCA
* *
432068 ACACACAGAGAATAACATAGTCTGTGTCACAGTCAA
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* *
432104 ACACATAGAGAATAACATAGTCTGTATCACAATCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
*
432140 ACTCATAGAGAATAACATAGTCTGTGTCACA---AT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
*
432173 ---C--AGAGAATAACATAGTCTGTGTCACAATCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* ** *
432204 ACACATAGAG-ATCAATATAGTCAATGTCACAATCAT
1 ACACATAGAGAAT-AACATAGTCTGTGTCACAGTCAT
* * * * *
432240 ACATATAAAAAATAACATGGTCTGTGTCACAGCCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
432276 ACACATAGAGAATAACATAGTCTGTGTCACAGTCA-
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* * * *
432311 ATCACATAGAGATTGACATAGTCTGAGTCATAGTCAT
1 A-CACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* * * * *
432348 ACACATAAATATTGACATAGTCTGTGTCCCAGTCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* ** *
432384 ACATGCA-A-ATAATGGCATAGTCTGTGTCACAGTCAA
1 ACA--CATAGAGAATAACATAGTCTGTGTCACAGTCAT
* * ** * * *
432420 ACACATTGAGATTGGCTTAGTCAGTGTCACAGCCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
** * *
432456 ACACATAGAG-ATCAACATAGTCAATGTCGCAATCAT
1 ACACATAGAGAAT-AACATAGTCTGTGTCACAGTCAT
* * * * *
432492 ACACATAAAAAATAACATGGTCTGCGTCACAATCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
*
432528 ACTCATAGAGAATAACATAGTCTGTGTCACA---AT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
*
432561 ---C--AGAGAATAACATAGTCTGTGTCACAATCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* ** *
432592 ACACATAGAG-ATCAATATAGTCAATGTCACAATCAT
1 ACACATAGAGAAT-AACATAGTCTGTGTCACAGTCAT
* * * * *
432628 ACATATAAAAAATAACATGGTCTGTGTCACAGCCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
432664 ACACATAGAGAATAACATAGTCTGTGTCACA---AT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
*
432697 ---C--AGAGAATAACATAGTCTGTGTCACAATCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* ** *
432728 ACACATAGAG-ATCAATATAGTCAATGTCACAATCAT
1 ACACATAGAGAAT-AACATAGTCTGTGTCACAGTCAT
* * * * *
432764 ACATATAAAAAATAACATGGTCTGTGTCACAGCCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
432800 ACACATAGAGAATAACATAGTCTGTGTCACAGTCA-
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* * * *
432835 ATCACATAGAGATTGACATAGTCTGAGTCATAGTCAT
1 A-CACATAGAGAATAACATAGTCTGTGTCACAGTCAT
* * * * * * *
432872 ACACATAGAGATTGACTTAGTCCGAGTCATATTCAT
1 ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
** *
432908 ACACATAGA-AATTTGCATAGTCTGAGTCACAG
1 ACACATAGAGAA-TAACATAGTCTGTGTCACAG
432940 AAATTGAAAT
Statistics
Matches: 684, Mismatches: 111, Indels: 82
0.78 0.13 0.09
Matches are distributed among these distances:
28 75 0.11
30 3 0.00
31 6 0.01
33 6 0.01
34 5 0.01
35 10 0.01
36 566 0.83
37 11 0.02
38 2 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (36 bp):
ACACATAGAGAATAACATAGTCTGTGTCACAGTCAT
Found at i:432186 original size:28 final size:28
Alignment explanation
Indices: 432146--432202 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
432136 TCATACTCAT
432146 AGAGAATAACATAGTCTGTGTCACAATC
1 AGAGAATAACATAGTCTGTGTCACAATC
432174 AGAGAATAACATAGTCTGTGTCACAATC
1 AGAGAATAACATAGTCTGTGTCACAATC
432202 A
1 A
432203 TACACATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (28 bp):
AGAGAATAACATAGTCTGTGTCACAATC
Found at i:432574 original size:28 final size:28
Alignment explanation
Indices: 432534--432590 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
432524 TCATACTCAT
432534 AGAGAATAACATAGTCTGTGTCACAATC
1 AGAGAATAACATAGTCTGTGTCACAATC
432562 AGAGAATAACATAGTCTGTGTCACAATC
1 AGAGAATAACATAGTCTGTGTCACAATC
432590 A
1 A
432591 TACACATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (28 bp):
AGAGAATAACATAGTCTGTGTCACAATC
Found at i:432625 original size:136 final size:136
Alignment explanation
Indices: 432437--432830 Score: 698
Period size: 136 Copynumber: 2.9 Consensus size: 136
432427 GAGATTGGCT
* ** * * *
432437 TAGTCAGTGTCACAGCCATACACATAGAGATCAACATAGTCAATGTCGCAATCATACACATAAAA
1 TAGTCTGTGTCACAATCATACACATAGAGATCAATATAGTCAATGTCACAATCATACATATAAAA
* ** *
432502 AATAACATGGTCTGCGTCACAATCATACTCATAGAGAATAACATAGTCTGTGTCACAATCAGAGA
66 AATAACATGGTCTGTGTCACAGCCATACACATAGAGAATAACATAGTCTGTGTCACAATCAGAGA
432567 ATAACA
131 ATAACA
432573 TAGTCTGTGTCACAATCATACACATAGAGATCAATATAGTCAATGTCACAATCATACATATAAAA
1 TAGTCTGTGTCACAATCATACACATAGAGATCAATATAGTCAATGTCACAATCATACATATAAAA
432638 AATAACATGGTCTGTGTCACAGCCATACACATAGAGAATAACATAGTCTGTGTCACAATCAGAGA
66 AATAACATGGTCTGTGTCACAGCCATACACATAGAGAATAACATAGTCTGTGTCACAATCAGAGA
432703 ATAACA
131 ATAACA
432709 TAGTCTGTGTCACAATCATACACATAGAGATCAATATAGTCAATGTCACAATCATACATATAAAA
1 TAGTCTGTGTCACAATCATACACATAGAGATCAATATAGTCAATGTCACAATCATACATATAAAA
432774 AATAACATGGTCTGTGTCACAGCCATACACATAGAGAATAACATAGTCTGTGTCACA
66 AATAACATGGTCTGTGTCACAGCCATACACATAGAGAATAACATAGTCTGTGTCACA
432831 GTCAATCACA
Statistics
Matches: 248, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 248 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (136 bp):
TAGTCTGTGTCACAATCATACACATAGAGATCAATATAGTCAATGTCACAATCATACATATAAAA
AATAACATGGTCTGTGTCACAGCCATACACATAGAGAATAACATAGTCTGTGTCACAATCAGAGA
ATAACA
Found at i:432703 original size:28 final size:28
Alignment explanation
Indices: 432670--432726 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
432660 CCATACACAT
432670 AGAGAATAACATAGTCTGTGTCACAATC
1 AGAGAATAACATAGTCTGTGTCACAATC
432698 AGAGAATAACATAGTCTGTGTCACAATC
1 AGAGAATAACATAGTCTGTGTCACAATC
432726 A
1 A
432727 TACACATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (28 bp):
AGAGAATAACATAGTCTGTGTCACAATC
Found at i:434072 original size:51 final size:47
Alignment explanation
Indices: 433990--434112 Score: 147
Period size: 47 Copynumber: 2.5 Consensus size: 47
433980 AGGTTATCAT
* *
433990 TTGCCTAGGTAATGTATAACATACACAGGTGATGACTTACCTTAATTCGCCAG
1 TTGCCCAGGTAATG--TAACATACTCAGGTGATGACTTACC-T--TT-GCCAG
*
434043 TTGCCCAGGTAATGTAACATACTCAGGTGATGACTTACCTTTGTCAG
1 TTGCCCAGGTAATGTAACATACTCAGGTGATGACTTACCTTTGCCAG
* *
434090 TTGCCCAAGTAATGTTACATACT
1 TTGCCCAGGTAATGTAACATACT
434113 TTGGAATCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
47 25 0.38
48 2 0.03
50 1 0.02
51 24 0.37
53 13 0.20
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (47 bp):
TTGCCCAGGTAATGTAACATACTCAGGTGATGACTTACCTTTGCCAG
Found at i:434492 original size:83 final size:83
Alignment explanation
Indices: 434342--434496 Score: 222
Period size: 83 Copynumber: 1.9 Consensus size: 83
434332 CACAGTACCT
* *** * *
434342 AAATGATGACTTACCTGAATTGTAACACAGCCAGGTGATGACTTACCTTTATTTTCCAGTTTCCC
1 AAATGATGACTTACCTGAAATGTAACACAGCCAGGTGATGACTTACCTTTATCGGCCAGATCCCC
434407 AGGTAATGTAACATATCC
66 AGGTAATGTAACATATCC
* *
434425 AAATGATGACTTACCTTAAATGTAACACAGCCAGGTGATGGCTTACCTTTATCGGCCA-ATCCGC
1 AAATGATGACTTACCTGAAATGTAACACAGCCAGGTGATGACTTACCTTTATCGGCCAGATCC-C
434489 CAGGTAAT
65 CAGGTAAT
434497 TTCCAAGGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 2 0.03
83 61 0.97
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (83 bp):
AAATGATGACTTACCTGAAATGTAACACAGCCAGGTGATGACTTACCTTTATCGGCCAGATCCCC
AGGTAATGTAACATATCC
Found at i:435500 original size:43 final size:43
Alignment explanation
Indices: 435453--436167 Score: 839
Period size: 43 Copynumber: 16.7 Consensus size: 43
435443 TAACCAATTA
* * * *
435453 AGCTAAATAATAGTAATTTACCTTGCTACTGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* * * * *
435496 AGCTAGATAAAAGTGACTTAACTTGCTATGGCCTGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* * *
435539 AGCTAGATAACAGTAAGTTACATTGCTATAGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* * * * * * * *
435582 AGCTAGATTACAATAATTTGTCATT-CCATTGCAAGGACTACTG
1 AGCTAGATAACAGTAACTT-ACCTTGCTATTGCATGGACTATTG
* *
435625 AGCTAGATAACAGTAAGTTACCTTGCTATAGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* ** * *
435668 AGCTAAATAGTAGTAATTTACCTTGCTACTGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* * *
435711 AGCTAGATAACAGTAACTTGCCTTGCTATTGCAAGGACTACAT-
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTA-TTG
* ** * * ** *
435754 AGCTAGATAACAATAACTTTTCATGCAAAAG-ATGGACTATTT
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* * * *
435796 AG-TACGATGACAGTATCTTGCCTTGCTA-TGACCTGGACTATTG
1 AGCTA-GATAACAGTAACTTACCTTGCTATTG-CATGGACTATTG
**
435839 AGCTAGATAACAGTAACTTACCTTTTTATTGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
*
435882 AGCTAGATAACAGTAACTTACCTTG-TGACTGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCT-ATTGCATGGACTATTG
* * * * *
435925 AGCTAGATAACTGTATCTTACCTTTCTACTGCATGGACTTTTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* *
435968 AGTTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTT
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
* *
436011 AGCTAGATAACTGTAACTTACCTTGCTATTGCATGGACTATTT
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
*
436054 AACTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
*
436097 AGCTAGATAACAGTAATTTACCTTGCTATTGCATGGACTATTG
1 AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
436140 AGCTAGATAACAGTAACTTACCTTGCTA
1 AGCTAGATAACAGTAACTTACCTTGCTA
436168 CATACAGGCA
Statistics
Matches: 569, Mismatches: 92, Indels: 22
0.83 0.13 0.03
Matches are distributed among these distances:
41 4 0.01
42 29 0.05
43 526 0.92
44 10 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (43 bp):
AGCTAGATAACAGTAACTTACCTTGCTATTGCATGGACTATTG
Done.