Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 89 of 255
Found at i:27177746 original size:46 final size:45
Alignment explanation
Indices: 27177603--27177733 Score: 124
Period size: 47 Copynumber: 2.8 Consensus size: 45
27177593 CGCATCCATA
* * *
27177603 AGTGAACTCGGACTCAAGTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * *
27177651 --TCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
27177696 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
27177734 AATATCCCAG
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
44 5 0.07
46 29 0.42
47 31 0.45
49 4 0.06
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:27180163 original size:28 final size:28
Alignment explanation
Indices: 27180106--27180309 Score: 296
Period size: 27 Copynumber: 7.5 Consensus size: 28
27180096 TAAATTGTGC
*
27180106 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
27180133 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
27180161 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
27180188 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
27180216 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
27180243 AGCACTAAGTGTGCGAGTTTGA-T-TAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
27180269 -GCACTACGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
27180295 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27180310 GACTTAATAT
Statistics
Matches: 164, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
24 4 0.02
25 16 0.10
26 5 0.03
27 82 0.50
28 57 0.35
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:27180170 original size:55 final size:55
Alignment explanation
Indices: 27180106--27180309 Score: 324
Period size: 55 Copynumber: 3.8 Consensus size: 55
27180096 TAAATTGTGC
27180106 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
27180161 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
27180216 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGA-T-TAT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * * *
27180269 -GCACTACGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
27180310 GACTTAATAT
Statistics
Matches: 143, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
52 37 0.26
53 2 0.01
54 1 0.01
55 103 0.72
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:27183434 original size:14 final size:16
Alignment explanation
Indices: 27183415--27183464 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
27183405 CAAAGATAAC
27183415 AAGAAAAT-C-GAATA
1 AAGAAAATCCAGAATA
27183429 AAG-AAATCCAGAATA
1 AAGAAAATCCAGAATA
* *
27183444 AAG-AGATCCAGGATA
1 AAGAAAATCCAGAATA
27183459 AAGAAA
1 AAGAAA
27183465 CCCAAGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 21 0.70
16 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (16 bp):
AAGAAAATCCAGAATA
Found at i:27183444 original size:15 final size:15
Alignment explanation
Indices: 27183424--27183464 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
27183414 CAAGAAAATC
27183424 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
27183439 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
27183454 GGATAAAGAAA
1 GAATAAAGAAA
27183465 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:27183473 original size:15 final size:15
Alignment explanation
Indices: 27183426--27183473 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
27183416 AGAAAATCGA
27183426 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
27183440 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
27183456 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27183471 ATA
1 ATA
27183474 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27186529 original size:93 final size:93
Alignment explanation
Indices: 27186400--27186569 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
27186390 CGCCCATAAG
* * * *
27186400 CGAACTCGGACTCAACTCAATGAGCTGGGGCGTTCGCATCCATAAGTGAACTCGGACTCAAGTCA
1 CGAACTCGGACTCAACTCAACGAGCTGGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27186465 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
27186493 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTGGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
27186558 ACGAGTTCGGAT
66 ACGAGCTCGGAT
27186570 ACCCAAATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTGGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:27186563 original size:46 final size:45
Alignment explanation
Indices: 27186393--27186567 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
27186383 TGTAACCCGC
* * * *
27186393 CCATAAGCGAACTCGGACTCAACTCAATGAGCTGGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-CGGCATTCGCAT
* *
27186439 CCATAAGTGAACTCGGACTCAAGTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
27186485 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
27186532 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
27186568 ATACCCAAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 62 0.60
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:27190403 original size:22 final size:21
Alignment explanation
Indices: 27190365--27190406 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
27190355 TAAATTCTAT
* *
27190365 ATATTTATATGTTTGAATTGG
1 ATATTTATATATGTGAATTGG
27190386 ATATTGTATATATGTGAATTG
1 ATATT-TATATATGTGAATTG
27190407 TATAAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (21 bp):
ATATTTATATATGTGAATTGG
Found at i:27190757 original size:26 final size:26
Alignment explanation
Indices: 27190683--27190757 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
27190673 ATAGCTTTTA
*
27190683 TGAGCGTCCCAA-TATATGGCTCTTCG
1 TGAGCTTCCCAATTA-ATGGCTCTTCG
* * *
27190709 TGAGCTTCCCAATTAAAGACTCTTTG
1 TGAGCTTCCCAATTAATGGCTCTTCG
**
27190735 TGAGCTTCCTGATTAATGGCTCT
1 TGAGCTTCCCAATTAATGGCTCT
27190758 CAAGATCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.95
27 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCAATTAATGGCTCTTCG
Found at i:27190874 original size:24 final size:23
Alignment explanation
Indices: 27190847--27190895 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
27190837 TTATCCATTA
*
27190847 ATGGCTCGCATGAGCTTCCTGATT
1 ATGGCTCGCATGAACTTCCT-ATT
**
27190871 ATGGCTCTTATGAACTTCCTATT
1 ATGGCTCGCATGAACTTCCTATT
27190894 AT
1 AT
27190896 ATAGCCCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGGCTCGCATGAACTTCCTATT
Found at i:27190952 original size:25 final size:25
Alignment explanation
Indices: 27190847--27190953 Score: 90
Period size: 25 Copynumber: 4.3 Consensus size: 25
27190837 TTATCCATTA
* *
27190847 ATGGCTCGCATGAGCTTCCTGAT-T
1 ATGGCTCGTATGAGCTTCCTGTTAT
* * *
27190871 ATGGCTCTTATGAACTTCCTATTAT
1 ATGGCTCGTATGAGCTTCCTGTTAT
* * * * *
27190896 ATAGCCCGGATAAGCTTCCCGTTAT
1 ATGGCTCGTATGAGCTTCCTGTTAT
** *
27190921 ACAGCTCATATGAGCTTCCTGTTAT
1 ATGGCTCGTATGAGCTTCCTGTTAT
27190946 ATGGCTCG
1 ATGGCTCG
27190954 AGAGAGGGTT
Statistics
Matches: 60, Mismatches: 22, Indels: 1
0.72 0.27 0.01
Matches are distributed among these distances:
24 18 0.30
25 42 0.70
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (25 bp):
ATGGCTCGTATGAGCTTCCTGTTAT
Found at i:27198173 original size:31 final size:31
Alignment explanation
Indices: 27198135--27198198 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
27198125 CCTTTTCATA
27198135 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
27198166 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
27198197 TT
1 TT
27198199 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:27198442 original size:24 final size:24
Alignment explanation
Indices: 27198392--27198509 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
27198382 GCTTTATCAT
*
27198392 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
27198417 ATAGCTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
27198441 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
27198464 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
27198487 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27198510 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 46 0.53
24 29 0.34
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27198584 original size:20 final size:20
Alignment explanation
Indices: 27198559--27198615 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
27198549 TTATGATTAC
27198559 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27198579 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27198599 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
27198616 AATGCTCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27198590 original size:11 final size:11
Alignment explanation
Indices: 27198559--27198614 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27198549 TTATGATTAC
27198559 ATCATGTGCAT
1 ATCATGTGCAT
*
27198570 ATCA--TACAT
1 ATCATGTGCAT
27198579 ATCATGTGCAT
1 ATCATGTGCAT
*
27198590 ATCA--TACAT
1 ATCATGTGCAT
*
27198599 GTCATGTGCAT
1 ATCATGTGCAT
27198610 ATCAT
1 ATCAT
27198615 AAATGCTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:27204829 original size:31 final size:30
Alignment explanation
Indices: 27204787--27204850 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
27204777 CCTTTTCATA
27204787 TTTTATATTTCATAACACTGAGCCGAAGCC
1 TTTTATATTTCATAACACTGAGCCGAAGCC
** *
27204817 TTTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTT-ATATTTCATAACACTGAGCCGAAGCC
27204848 TTT
1 TTT
27204851 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (30 bp):
TTTTATATTTCATAACACTGAGCCGAAGCC
Found at i:27205108 original size:23 final size:23
Alignment explanation
Indices: 27205065--27205182 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
27205055 CCTAGCCTCT
* *
27205065 TTTAATAACTCGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
27205088 TTTTAATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
27205111 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
27205134 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
27205157 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
27205180 TTT
1 TTT
27205183 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
22 10 0.11
23 70 0.78
24 10 0.11
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:27205258 original size:20 final size:20
Alignment explanation
Indices: 27205233--27205299 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
27205223 TTATGATTAC
27205233 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27205253 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27205273 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
27205293 ACCATGT
1 ATCATGT
27205300 CTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27205264 original size:11 final size:11
Alignment explanation
Indices: 27205233--27205288 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27205223 TTATGATTAC
27205233 ATCATGTGCAT
1 ATCATGTGCAT
*
27205244 ATCA--TACAT
1 ATCATGTGCAT
27205253 ATCATGTGCAT
1 ATCATGTGCAT
*
27205264 ATCA--TACAT
1 ATCATGTGCAT
*
27205273 GTCATGTGCAT
1 ATCATGTGCAT
27205284 ATCAT
1 ATCAT
27205289 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:27205368 original size:25 final size:25
Alignment explanation
Indices: 27205336--27205385 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
27205326 ATACATAAAC
* * *
27205336 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27205361 CCTAGGGGCAAAACGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27205386 TGTTATAAGG
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:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27207253 original size:16 final size:13
Alignment explanation
Indices: 27207221--27207249 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27207211 GGACGAAATT
27207221 TAAAGATGATAAA
1 TAAAGATGATAAA
27207234 TAAAGATGATAAA
1 TAAAGATGATAAA
27207247 TAA
1 TAA
27207250 TAAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (13 bp):
TAAAGATGATAAA
Found at i:27207828 original size:26 final size:26
Alignment explanation
Indices: 27207799--27207856 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27207789 CCCGATATAT
*
27207799 GGCTCTTCGTAAGCTTCCTAATTAAA
1 GGCTCTTCGTAAGCTCCCTAATTAAA
* * *
27207825 GGCTCTTTGTGAGCTCCCTGATTAAA
1 GGCTCTTCGTAAGCTCCCTAATTAAA
*
27207851 CGCTCT
1 GGCTCT
27207857 CAGGAGCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTCCCTAATTAAA
Found at i:27207961 original size:24 final size:24
Alignment explanation
Indices: 27207934--27207994 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
27207924 GGCTCTTCAA
*
27207934 AGCTACCC-ATTAATGGTTCGTATG
1 AGCTACCCGATT-ATGGCTCGTATG
* *
27207958 AGCTTCCCGATTATGGCTCTTATG
1 AGCTACCCGATTATGGCTCGTATG
*
27207982 AGCTTCCCG-TTAT
1 AGCTACCCGATTAT
27207995 ATAGCCCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.79
25 3 0.09
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (24 bp):
AGCTACCCGATTATGGCTCGTATG
Found at i:27208042 original size:24 final size:25
Alignment explanation
Indices: 27207979--27208045 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
27207969 TATGGCTCTT
**
27207979 ATGAGCTTCCCGTTATATAGCCCGG
1 ATGAGCTTCCCGTTATATAGCCCAC
* *
27208004 ATAAGCTTCCCGTTATA-AGCTCAC
1 ATGAGCTTCCCGTTATATAGCCCAC
*
27208028 ATGAGCTTCCTGTTATAT
1 ATGAGCTTCCCGTTATAT
27208046 GGCTCGAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCCCAC
Found at i:27213503 original size:26 final size:26
Alignment explanation
Indices: 27213466--27213548 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
27213456 GCAGCTCTGG
27213466 AGAGCC-ATTAATCAGGAAGCTCACAA
1 AGAGCCTA-TAATCAGGAAGCTCACAA
* *
27213492 AGAGCCTATAATCGGGAAGCTCACGA
1 AGAGCCTATAATCAGGAAGCTCACAA
* *
27213518 AGAGCCATATAA-CAAGACGCTCACAA
1 AGAGCC-TATAATCAGGAAGCTCACAA
27213544 AGAGC
1 AGAGC
27213549 TACGGTATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 43 0.88
27 6 0.12
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.13
Consensus pattern (26 bp):
AGAGCCTATAATCAGGAAGCTCACAA
Found at i:27213976 original size:21 final size:20
Alignment explanation
Indices: 27213948--27213987 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
27213938 AATCTATTCG
27213948 AATAAATTTA-ACATCAATTT
1 AATAAATTTATAC-TCAATTT
27213968 AATACAATTTATACTCAATT
1 AATA-AATTTATACTCAATT
27213988 CAGTCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAAATTTATACTCAATTT
Found at i:27221769 original size:20 final size:20
Alignment explanation
Indices: 27221739--27221790 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
27221729 TATAGTACAA
27221739 ATATAATAAATTTATATATTT
1 ATAT-ATAAATTTATATATTT
*
27221760 ATATATAAATATATATATTT
1 ATATATAAATTTATATATTT
27221780 AT-TATAAATTT
1 ATATATAAATTT
27221791 TAGTTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATAAATTTATATATTT
Found at i:27223645 original size:19 final size:19
Alignment explanation
Indices: 27223621--27223658 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27223611 TTGAGATTGC
*
27223621 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
27223640 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
27223659 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:27226611 original size:38 final size:38
Alignment explanation
Indices: 27226560--27226636 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
27226550 CCATCACATG
* *
27226560 TAATTTCTCCCGTTGATGTAGAGGTATAGTCTGATTTA
1 TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
27226598 TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
1 TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
27226636 T
1 T
27226637 CGTATAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (38 bp):
TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
Found at i:27227574 original size:40 final size:40
Alignment explanation
Indices: 27227529--27227681 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
27227519 TGAGAATTAG
*
27227529 GGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
27227569 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
* * *
27227609 GGAGCATTCGTGCTAGTGATGTATCTGGGCTAAGTTCCGA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
* * *
27227649 AGAGCATTCGTGCTAGTAATATATCCGTGCTAA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAA
27227682 ACCTTGAAGA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
Found at i:27231763 original size:40 final size:39
Alignment explanation
Indices: 27231719--27231823 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
27231709 AGTGACCATA
*
27231719 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
27231759 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
27231797 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
27231824 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27231780 original size:39 final size:40
Alignment explanation
Indices: 27231682--27231823 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
27231672 AATGATGTCT
* * *
27231682 GGGCTAAGTCCCGAAGGC-TTTGTGCCA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* *
27231722 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
*
27231762 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
27231801 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
27231824 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:27231842 original size:79 final size:80
Alignment explanation
Indices: 27231682--27231829 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 80
27231672 AATGATGTCT
* **
27231682 GGGCTAAGTCCCGAAGGCTTTGTGCCAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCCAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAA
27231747 CGAGATACTAATTCC
66 CGAGATACTAATTCC
* * * * *
27231762 GGGCTAAG-CCCGAAGGCATTTGTG-CGAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCCAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTG
27231824 AACGAG
64 AACGAG
27231830 TAGCTATATC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.74
80 14 0.24
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCCAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAA
CGAGATACTAATTCC
Found at i:27232116 original size:47 final size:47
Alignment explanation
Indices: 27232047--27232214 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
27232037 AAGGGTTGGT
27232047 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
27232094 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
27232141 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
27232188 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
27232215 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:27236546 original size:19 final size:19
Alignment explanation
Indices: 27236522--27236562 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27236512 TTCCAGAGTT
27236522 TGTTTCTAGATGCTTGATC
1 TGTTTCTAGATGCTTGATC
27236541 TGTTTCTAGATGCTTGATC
1 TGTTTCTAGATGCTTGATC
27236560 TGT
1 TGT
27236563 CAATAGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (19 bp):
TGTTTCTAGATGCTTGATC
Found at i:27241860 original size:16 final size:16
Alignment explanation
Indices: 27241841--27241871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27241831 CTTCTTCACT
27241841 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
27241857 TACTTACTTACTTAA
1 TACTCACTTACTTAA
27241872 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:27241877 original size:20 final size:20
Alignment explanation
Indices: 27241838--27241877 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27241828 AAACTTCTTC
* *
27241838 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
27241858 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
27241878 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:27242262 original size:108 final size:110
Alignment explanation
Indices: 27242110--27242310 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
27242100 ATCCTTTTGA
* *
27242110 AACTTACCATTGCCATGTCCTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-C-T-CAAT
1 AACTTACCAATGCCATGTCCTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACAA-
27242171 AATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
64 AATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* * * *
27242218 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACAAAT
1 AACTTACCAATGCCATGTCCTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACAAAA
*
27242283 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
27242311 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 1 0.01
110 29 0.35
111 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCCTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACAAAA
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:27242268 original size:55 final size:52
Alignment explanation
Indices: 27242110--27242317 Score: 172
Period size: 55 Copynumber: 3.8 Consensus size: 52
27242100 ATCCTTTTGA
* * *
27242110 AACTTACCATTGCCATGTCCTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATG
* * * * *
27242163 AACTCAAT-AATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACT-TATCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT-G
*
27242217 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTATCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG
* * *
27242270 AAACCTTA-CAAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTATC-AA-TGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
27242318 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 11 0.09
55 66 0.53
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (52 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATG
Found at i:27247170 original size:43 final size:41
Alignment explanation
Indices: 27247064--27247183 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
27247054 GTAGTACAGT
*
27247064 ATCGATGCCTTTGTCCCAGACAAGGTCTTACACGAAATTAG
1 ATCGATGCCTGTGTCCCAGACAAGGTCTTACACGAAATTAG
* * *
27247105 ATACGATGCC-GATGTCCTAGACATGGTCTTATACGTAAATCTCA-
1 AT-CGATGCCTG-TGTCCCAGACAAGGTCTTACACG-AAAT-T-AG
* *
27247149 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATCGATGCCTGTGTCCCAGACAAGGTCTTACACGA
27247184 TGTCTCAAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.03
42 28 0.43
43 30 0.46
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
ATCGATGCCTGTGTCCCAGACAAGGTCTTACACGAAATTAG
Found at i:27262559 original size:22 final size:23
Alignment explanation
Indices: 27262510--27262616 Score: 125
Period size: 22 Copynumber: 4.8 Consensus size: 23
27262500 ATAGCTTGTA
*
27262510 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
*
27262533 GGAGCTTAC-GATTT-AGCTCAAT
1 AGAGCTTACTG-TTTCAGCTCAAT
27262555 AGAGCTTACTG-TTCAGCTC-AT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
27262576 TGAGCTTACTATTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
27262599 AGAGCTTATTG-TTCAGCT
1 AGAGCTTACTGTTTCAGCT
27262617 TGAAGGAGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
21 13 0.18
22 36 0.51
23 22 0.31
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:27262595 original size:44 final size:44
Alignment explanation
Indices: 27262510--27262616 Score: 171
Period size: 44 Copynumber: 2.4 Consensus size: 44
27262500 ATAGCTTGTA
27262510 AGAGCTTACTGTTTCAGCTCATTGGAGCTTACGATTTAGCTCAAT
1 AGAGCTTACTG-TTCAGCTCATTGGAGCTTACGATTTAGCTCAAT
*
27262555 AGAGCTTACTGTTCAGCTCATT-GAGCTTACTATTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCATTGGAGCTTACGATTT-AGCTCAAT
*
27262599 AGAGCTTATTGTTCAGCT
1 AGAGCTTACTGTTCAGCT
27262617 TGAAGGAGCT
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
43 12 0.20
44 36 0.61
45 11 0.19
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (44 bp):
AGAGCTTACTGTTCAGCTCATTGGAGCTTACGATTTAGCTCAAT
Found at i:27266677 original size:17 final size:18
Alignment explanation
Indices: 27266636--27266678 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
27266626 TGTATTTACT
27266636 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
27266654 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
27266671 TATTATAT
1 TATTATAT
27266679 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:27281046 original size:40 final size:40
Alignment explanation
Indices: 27280999--27281267 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
27280989 GCTACTTGCC
*
27280999 CAAATGCCTTCGGGACTTAGCCCGGTCATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
27281039 CAAATGCCTTCGGGACTTAACCCGGTTATTGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
27281079 CAAATCCCTTCGGGACTTAACCCGGTTATTGTAGCTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
27281119 CAATTGCCTTCGGGACTTAACCCGGTTATTGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
27281159 CAATTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
27281199 CAATTGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
** *
27281239 CAAATGCCTTCGAAACTTAGCCCAGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
27281268 TATCCGAATA
Statistics
Matches: 204, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.00
40 202 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:27289319 original size:40 final size:40
Alignment explanation
Indices: 27289239--27289501 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
27289229 CAACCAAGTA
** * *
27289239 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCCCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
27289278 CCTTCGGGACTTAGCCCGGTCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
27289318 CCTTCGGGACTTAACCCGGTTATTGTAGCTCGCACAAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA-TG
* * * *
27289359 CCTTCGGGACTTAACCCGGTTATTGTAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
27289399 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
27289439 CCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
*
27289479 CCTTTGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
27289502 TATCCGAATA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.07
40 145 0.73
41 40 0.20
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:27289377 original size:81 final size:81
Alignment explanation
Indices: 27289265--27289502 Score: 320
Period size: 81 Copynumber: 3.0 Consensus size: 81
27289255 GGATATAGCT
* *
27289265 ACTCGCCCAAA-TGCCTTCGGGACTTAGCCCGGTCATAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATTGCCTTCGGGACTTAGCCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACT
*
27289329 TAACCCGGTTATTGTA
66 TAGCCCGGTTATTGTA
* * * * * *
27289345 GCTCGCACAAATTGCCTTCGGGACTTAACCCGGTTATTGTAGCTCGCACAATTGCCTTCGGGACT
1 ACTCGCACAAATTGCCTTCGGGACTTAGCCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACT
* *
27289410 TAGCCCGGATATAGTA
66 TAGCCCGGTTATTGTA
* * *
27289426 ACTCGCAC-AATTGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACAAATGCCTTTGGGAC
1 ACTCGCACAAATTGCCTTCGGGACTTAGCCCGGTAA-TAGTAACTCGCACAAATGCCTTCGGGAC
27289489 TTAGCCCGGTTATT
65 TTAGCCCGGTTATT
27289503 ATCCGAATAT
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 66 0.49
81 68 0.50
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (81 bp):
ACTCGCACAAATTGCCTTCGGGACTTAGCCCGGTAATAGTAACTCGCACAAATGCCTTCGGGACT
TAGCCCGGTTATTGTA
Found at i:27293140 original size:43 final size:43
Alignment explanation
Indices: 27293065--27293152 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
27293055 AATTCAATGA
* * *
27293065 TTAATATATAGTGTTTATGTTTTGCCTATTCTAACTATTTTTC
1 TTAATATATAGTGTTCATATTTTACCTATTCTAACTATTTTTC
* * * *
27293108 TTAATATATTGTGTTCCTATTTTACCTGTTCTATCTATTTTTC
1 TTAATATATAGTGTTCATATTTTACCTATTCTAACTATTTTTC
27293151 TT
1 TT
27293153 TCTTTTATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (43 bp):
TTAATATATAGTGTTCATATTTTACCTATTCTAACTATTTTTC
Found at i:27302554 original size:21 final size:21
Alignment explanation
Indices: 27302525--27302600 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
27302515 CTAGGAATTA
*
27302525 TGTGATCTGAAGTCATTGAGT
1 TGTGGTCTGAAGTCATTGAGT
*
27302546 TGTGGTCTG-AGTTCA-TGATAT
1 TGTGGTCTGAAG-TCATTGA-GT
* *
27302567 ATGTGACCTCTGAACTCATTGAGT
1 -TGTG--GTCTGAAGTCATTGAGT
27302591 TGTGGTCTGA
1 TGTGGTCTGA
27302601 GTTCATGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 5 0.12
21 17 0.40
22 4 0.10
23 4 0.10
24 8 0.19
25 4 0.10
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (21 bp):
TGTGGTCTGAAGTCATTGAGT
Found at i:27302578 original size:24 final size:24
Alignment explanation
Indices: 27302551--27302618 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 24
27302541 TGAGTTGTGG
27302551 TCTGAGTTCATGATATATGTGACC
1 TCTGAGTTCATGATATATGTGACC
** * *
27302575 TCTGAACTCATTGA-GT-TGTG--G
1 TCTGAGTTCA-TGATATATGTGACC
27302596 TCTGAGTTCATGATATATGTGAC
1 TCTGAGTTCATGATATATGTGAC
27302619 ACATGTTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
20 3 0.09
21 9 0.28
22 4 0.12
23 4 0.12
24 9 0.28
25 3 0.09
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (24 bp):
TCTGAGTTCATGATATATGTGACC
Found at i:27302586 original size:45 final size:44
Alignment explanation
Indices: 27302523--27302618 Score: 167
Period size: 45 Copynumber: 2.2 Consensus size: 44
27302513 CACTAGGAAT
*
27302523 TATGTGA-TCTGAAGTCATTGAGTTGTGGTCTGAGTTCATGATA
1 TATGTGACTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
27302566 TATGTGACCTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
1 TATGTGA-CTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
27302611 TATGTGAC
1 TATGTGAC
27302619 ACATGTTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
43 7 0.14
44 1 0.02
45 42 0.84
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (44 bp):
TATGTGACTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
Found at i:27302606 original size:21 final size:21
Alignment explanation
Indices: 27302537--27302606 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
27302527 TGATCTGAAG
27302537 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * **
27302558 TCA-TGATATATGTGACCTCTGAAC
1 TCATTGA-GT-TGTG--GTCTGAGT
27302582 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
27302603 TCAT
1 TCAT
27302607 GATATATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:27319341 original size:24 final size:24
Alignment explanation
Indices: 27319309--27319355 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
27319299 ACTGGTCTGG
27319309 TTAGTAATTCTATTTTTGAACTAT
1 TTAGTAATTCTATTTTTGAACTAT
27319333 TTAGTAATTCTATTTTTGAACTA
1 TTAGTAATTCTATTTTTGAACTA
27319356 ATCAAAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.53
Consensus pattern (24 bp):
TTAGTAATTCTATTTTTGAACTAT
Found at i:27320812 original size:14 final size:15
Alignment explanation
Indices: 27320793--27320821 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27320783 CAACTTGATC
27320793 ACCATC-CATTTTTT
1 ACCATCTCATTTTTT
27320807 ACCATCTCATTTTTT
1 ACCATCTCATTTTTT
27320822 TCGCATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.52
Consensus pattern (15 bp):
ACCATCTCATTTTTT
Found at i:27323236 original size:24 final size:24
Alignment explanation
Indices: 27323221--27323272 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
27323211 AATCAAAGTC
*
27323221 AAATATATTATGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
*
27323245 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATACT
27323269 AAAT
1 AAAT
27323273 CTTCTAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:27332683 original size:27 final size:27
Alignment explanation
Indices: 27332653--27332733 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
27332643 AGAATTATTG
*
27332653 AAATACCCTTGTAGGGTAGAAATACTA
1 AAATACCCTTGTAGGGTAGAAATACCA
* * *
27332680 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACCA
* *
27332707 AGATACCCTTGTGGGGTA-AAATTACCA
1 AAATACCCTTGTAGGGTAGAAA-TACCA
27332734 TTTTGCCCCT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAAATACCA
Found at i:27333687 original size:6 final size:6
Alignment explanation
Indices: 27333650--27333774 Score: 60
Period size: 6 Copynumber: 20.3 Consensus size: 6
27333640 TTGCATTCAC
* * * *
27333650 ATTCTT ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTAG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCT-G
* * * * *
27333700 CA-CCTA ATTCTG ATTCTG ATTCTC ATTCTG -TCACCTG ATTCTG ATTCTA
1 -ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
27333749 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
27333775 AATGTTTCTA
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:27333754 original size:31 final size:31
Alignment explanation
Indices: 27333662--27333757 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
27333652 TCTTATTTTG
* * *
27333662 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATTCTGATTCTGATTCTC
*
27333693 ATTCTAG-CACCTAATTCTGATTCTGATTCTC
1 ATTCT-GTCACCTGATTCTGATTCTGATTCTC
*
27333724 ATTCTGTCACCTGATTCTGATTCTAATTCTC
1 ATTCTGTCACCTGATTCTGATTCTGATTCTC
27333755 ATT
1 ATT
27333758 TTGATTCTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.02
31 55 0.96
32 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (31 bp):
ATTCTGTCACCTGATTCTGATTCTGATTCTC
Found at i:27333783 original size:18 final size:17
Alignment explanation
Indices: 27333762--27333795 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27333752 CTCATTTTGA
*
27333762 TTCTAGTTCTGATAATGT
1 TTCTAATTCTG-TAATGT
27333780 TTCTAATTCTGTAATG
1 TTCTAATTCTGTAATG
27333796 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:27343175 original size:24 final size:24
Alignment explanation
Indices: 27343143--27343198 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
27343133 AACCTAATTG
* *
27343143 TAATCAATGTCAAATATATTATGC
1 TAATAAATGTCAAATATATTATAC
* *
27343167 TAATAAATGTTAAATATATTGTAC
1 TAATAAATGTCAAATATATTATAC
27343191 TAATAAAT
1 TAATAAAT
27343199 ATTATATCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATAC
Found at i:27347864 original size:25 final size:25
Alignment explanation
Indices: 27347821--27347873 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
27347811 AGTTATTCAG
*
27347821 AAAGGATAACAAATTAAAATG-TTGA
1 AAAGGATAACAAATGAAAA-GATTGA
*
27347846 AAAGGATAACAAGTGAAAAGATTGA
1 AAAGGATAACAAATGAAAAGATTGA
27347871 AAA
1 AAA
27347874 TGATGTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.58, C:0.04, G:0.19, T:0.19
Consensus pattern (25 bp):
AAAGGATAACAAATGAAAAGATTGA
Found at i:27352625 original size:49 final size:46
Alignment explanation
Indices: 27352553--27352821 Score: 222
Period size: 49 Copynumber: 5.7 Consensus size: 46
27352543 GGTATATGTT
*
27352553 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATC-TCAAG
* * * *
27352602 GCTGATGCCATGTCCCAAACATGGTCTTATACTAGCTCTCGTCT-ATATG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCTCA-A-G
* * *
27352651 TGCTGATGCATGTCCCAAACATGTCTTACACTAGC-A-CAACTCTTA-
1 -GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTC-AAG
* * * * *
27352696 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCATC-TCAAG
** ** * *
27352743 GCCAATGCATGTCCCAGACATGTCTTACACTAGCGCTCATTCTCTAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCA-TCTCAAG
*
27352790 ACTGATGCCATGTCCCAGACATGTCTTACACT
1 GCTGATG-CATGTCCCAGACATGTCTTACACT
27352822 GGCACACAAG
Statistics
Matches: 181, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
44 29 0.16
45 1 0.01
46 7 0.04
47 44 0.24
48 40 0.22
49 53 0.29
50 7 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTCAAG
Found at i:27352816 original size:139 final size:141
Alignment explanation
Indices: 27352563--27352827 Score: 349
Period size: 139 Copynumber: 1.9 Consensus size: 141
27352553 GCTGATGCCA
* **
27352563 TGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGCTGATGCCATGTCCCAAACATGGTC
1 TGTCCCAGACATCGTCTTACACTGGCTATCATCATCAAGGCCAATGCCATGTCCCAAACATGGTC
* * **
27352628 TTATACTAGCTCTCGTCTATATGTGCTGATGCATGTCCCAAACATGTCTTACACTAGCACAACTC
66 TTACACTAGCGCTCGTCTATA-GCACTGATGCATGTCCCAAACATGTCTTACACTAGCACAACTC
27352693 TTAGCCGATGCG
130 TTAGCCGATGCG
* * *
27352705 TGTCCCAGACA-CGTCTTACACTGGCTATCATCGTCGAGGCCAATG-CATGTCCCAGACAT-GTC
1 TGTCCCAGACATCGTCTTACACTGGCTATCATCATCAAGGCCAATGCCATGTCCCAAACATGGTC
* * * *
27352767 TTACACTAGCGCTCATTCTCTA-CACTGATGCCATGTCCCAGACATGTCTTACACTGGCACA
66 TTACACTAGCGCTC-GTCTATAGCACTGATG-CATGTCCCAAACATGTCTTACACTAGCACA
27352828 CAAGTAATCT
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
138 6 0.06
139 43 0.40
140 18 0.17
141 29 0.27
142 11 0.10
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (141 bp):
TGTCCCAGACATCGTCTTACACTGGCTATCATCATCAAGGCCAATGCCATGTCCCAAACATGGTC
TTACACTAGCGCTCGTCTATAGCACTGATGCATGTCCCAAACATGTCTTACACTAGCACAACTCT
TAGCCGATGCG
Found at i:27357861 original size:79 final size:81
Alignment explanation
Indices: 27357752--27357934 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
27357742 TACTCGTTCA
* *
27357752 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
27357815 ATTTAGTAAC-TCGCATC
65 ATATAGTAACTTAGCA-C
* **
27357832 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
27357895 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
27357911 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27357935 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:27357934 original size:40 final size:40
Alignment explanation
Indices: 27357731--27357934 Score: 222
Period size: 40 Copynumber: 5.1 Consensus size: 40
27357721 CGGAATTTAA
** *
27357731 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27357771 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27357811 CCGGATTTAGTAACTCGCATC-AATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCA-CAAATGCCTTCGGGACTTAGC
* *
27357850 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27357890 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27357930 CCGGA
1 CCGGA
27357935 CATCATTCGA
Statistics
Matches: 139, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 31 0.22
40 92 0.66
41 13 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27371527 original size:39 final size:40
Alignment explanation
Indices: 27371317--27371547 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
27371307 GGATATAACT
* * *
27371317 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
27371357 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
27371397 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
27371437 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
27371477 ACTCGCACAGATGCCTTCGGCACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
27371516 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
27371548 TTTTCATCCA
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 33 0.19
40 139 0.80
41 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:27376194 original size:43 final size:42
Alignment explanation
Indices: 27376076--27376214 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 42
27376066 CCTTACATAC
* *
27376076 AATCACATATCGATGCCATTGTCCCAGACAG-GGTCTTATACG
1 AATCACATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACG
* * *
27376118 AATCAAATAT-GATGTCAATGTCCCAGACATGGTCTTACACG
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
* *
27376159 TAATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACG
1 -AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
*
27376202 AGAACACATATCG
1 A-ATCACATATCG
27376215 GAAATCCTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 26 0.32
42 19 0.23
43 37 0.45
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
Found at i:27381319 original size:46 final size:46
Alignment explanation
Indices: 27381269--27381441 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
27381259 TGGTTGAGCA
27381269 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27381315 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
27381360 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27381408 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27381442 GGGGTGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27381425 original size:93 final size:93
Alignment explanation
Indices: 27381266--27381436 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
27381256 GGATGGTTGA
* *
27381266 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27381331 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
27381359 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27381424 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
27381437 ACTTAGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27401818 original size:18 final size:18
Alignment explanation
Indices: 27401795--27401829 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27401785 TAAGTCGAAC
27401795 TGGGCTGTGT-GGGCCCAA
1 TGGGCT-TGTAGGGCCCAA
27401813 TGGGCTTGTAGGGCCCA
1 TGGGCTTGTAGGGCCCA
27401830 CGTGGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23
Consensus pattern (18 bp):
TGGGCTTGTAGGGCCCAA
Found at i:27413545 original size:46 final size:46
Alignment explanation
Indices: 27413478--27413656 Score: 177
Period size: 46 Copynumber: 3.9 Consensus size: 46
27413468 GGATATTTCG
*
27413478 ACATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGA
1 ACATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGA
* * * *
27413524 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 ACATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATG---CGA
* * * *
27413570 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -ACATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGA
* * *
27413617 AC-GCCCAAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 ACATCCGAA-CTCGTTGAGTTGAGTCCAAGTTCACTTATGG
27413657 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
45 5 0.05
46 61 0.57
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (46 bp):
ACATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGA
Found at i:27416207 original size:24 final size:24
Alignment explanation
Indices: 27416175--27416249 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
27416165 TAAACAAGTG
**
27416175 ATTCTATAAGTTTCTTTGTGGCAT
1 ATTCTATAAGTACCTTTGTGGCAT
*
27416199 ATTCTATAAGCACCTTTGTGGCAT
1 ATTCTATAAGTACCTTTGTGGCAT
* * * *
27416223 ATTCTGTAAGTGCCTTCGTGGCGT
1 ATTCTATAAGTACCTTTGTGGCAT
27416247 ATT
1 ATT
27416250 TGAGGTTGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
ATTCTATAAGTACCTTTGTGGCAT
Found at i:27418011 original size:46 final size:45
Alignment explanation
Indices: 27417956--27418217 Score: 214
Period size: 46 Copynumber: 5.6 Consensus size: 45
27417946 TGTGTGCGCT
27417956 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAGAGCC
* * * *
27418002 AATGTAAGACCATGTCTGGGACATGGCATCG--GCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACATT---ATGAGAGCC
* *
27418050 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCAC-ATTATG-AGAGCC
* * * *
27418096 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC--GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGA-GAGCC
** *
27418140 AGTGTAAGACATGTCTGGGACATGCATCGGTACGGATATGTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCAC--AT-TATGAGAGCC
27418188 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
27418218 AGCACTATAC
Statistics
Matches: 178, Mismatches: 18, Indels: 36
0.77 0.08 0.16
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 32 0.18
45 4 0.02
46 50 0.28
47 31 0.17
48 32 0.18
49 17 0.10
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGAGAGCC
Found at i:27418217 original size:140 final size:139
Alignment explanation
Indices: 27417956--27418217 Score: 334
Period size: 140 Copynumber: 1.9 Consensus size: 139
27417946 TGTGTGCGCT
*
27417956 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAATGTAAGACCATGTCTGG
** *
27418021 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
65 GACATGGCATCGGCACGGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
27418086 GATGTAAGCC
130 GATGTAAGCC
* * * * *
27418096 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GTGCTAGTGTAAGA-CATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAATGTAAGACCATGTCTGG
* * *
27418158 GACAT-GCATCGGTACGGATATGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
65 GACATGGCATCGGCACGGAGA--CGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
27418218 AGCACTATAC
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
136 11 0.10
137 14 0.13
138 26 0.25
139 14 0.13
140 39 0.37
141 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAATGTAAGACCATGTCTGGG
ACATGGCATCGGCACGGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
ATGTAAGCC
Found at i:27422735 original size:21 final size:22
Alignment explanation
Indices: 27422702--27422742 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27422692 TTTCTTTATG
*
27422702 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
27422723 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
27422743 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:27424846 original size:27 final size:27
Alignment explanation
Indices: 27424808--27424885 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
27424798 CTCATACATA
27424808 ACATAGAAATTACAATCCTTTGTCCTG
1 ACATAGAAATTACAATCCTTTGTCCTG
*
27424835 ACATAGAAATTACAATCCTTTGCCCTG
1 ACATAGAAATTACAATCCTTTGTCCTG
27424862 ACATAGAAATTACAATCCTTTGTC
1 ACATAGAAATTACAATCCTTTGTC
27424886 TTGATCCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (27 bp):
ACATAGAAATTACAATCCTTTGTCCTG
Found at i:27432506 original size:15 final size:15
Alignment explanation
Indices: 27432486--27432514 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27432476 ATGTATGTTA
27432486 GGAATATGATGAAAG
1 GGAATATGATGAAAG
27432501 GGAATATGATGAAA
1 GGAATATGATGAAA
27432515 AAAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (15 bp):
GGAATATGATGAAAG
Found at i:27433875 original size:40 final size:39
Alignment explanation
Indices: 27433820--27434043 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 39
27433810 CGAATGATAA
* * *
27433820 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTAATT
*
27433860 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
27433900 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
27433940 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
27433979 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
27434019 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27434044 AGCTAGTGGC
Statistics
Matches: 171, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
39 38 0.22
40 130 0.76
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:27434057 original size:40 final size:39
Alignment explanation
Indices: 27433816--27434066 Score: 234
Period size: 40 Copynumber: 6.3 Consensus size: 39
27433806 TGTTCGAATG
* *
27433816 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGC-AGTAGCT
* *
27433856 A-ATTCCGGGCTAAGTCCCGAAGGCACTTGTGC-G-AGCT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
27433893 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGCT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
*
27433933 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
27433973 ATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
1 A-TA-ACCGGGCTAAGTCCCGAAGGCATTTGTGC-AG-TAGCT
* *
27434015 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAGCT
*
27434055 ATATCC-GGCTAA
1 ATAACCGGGCTAA
27434067 ACTCCGAAGG
Statistics
Matches: 186, Mismatches: 13, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
37 4 0.02
38 1 0.01
39 37 0.20
40 135 0.73
41 6 0.03
42 2 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGCT
Found at i:27434062 original size:119 final size:120
Alignment explanation
Indices: 27433820--27434046 Score: 316
Period size: 119 Copynumber: 1.9 Consensus size: 120
27433810 CGAATGATAA
* * *
27433820 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCACTTG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCACTTG
* * *
27433885 TGCGAGCTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
66 TGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTAATT
* * * *
27433940 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCACTT
*
27434003 GTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAGC
65 GTGCAAGCTACTAAT-ACCGGGCTAAGTCCCGAAGGCATTTGAGC
27434047 TAGTGGCTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
118 2 0.02
119 64 0.68
120 28 0.30
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCACTTG
TGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTAATT
Found at i:27434076 original size:79 final size:79
Alignment explanation
Indices: 27433820--27434066 Score: 281
Period size: 79 Copynumber: 3.1 Consensus size: 79
27433810 CGAATGATAA
* * * * *
27433820 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTAATTCCGGGCTAAGTCCCGAAGGCACT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTAATACCGGGCTAAGTCCCGAAGGCATT
27433883 TGTGCGAGCTACTA-ATT
64 TGTGCGAG-TACTATA-T
* *
27433900 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTG
*
27433965 TGCGAGTTATTATA-
66 TGCGAG-TACTATAT
*
27433979 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
* * *
27434043 GAGCTAGTGGCTATAT
65 GTGCGAGT-ACTATAT
27434059 CC-GGCTAA
1 CCGGGCTAA
27434067 ACTCCGAAGG
Statistics
Matches: 148, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.02
79 73 0.49
80 68 0.46
81 4 0.03
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTATAT
Found at i:27436977 original size:52 final size:54
Alignment explanation
Indices: 27436905--27437011 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 54
27436895 AGGTAGCTTT
*
27436905 ATGGTCTAGGGACACAGTCGTGTGGC-CTATCTCACACAGG-TTAGCTCTTGCAC
1 ATGGTCTAGGGACACAGTCGTGTGGCTC-ATCACACACAGGTTTAGCTCTTGCAC
* * * *
27436958 ATGGT-TAGTGACATAGTCGTGTGGTTCATCACACACAGGTTTAGCTTTTGCAC
1 ATGGTCTAGGGACACAGTCGTGTGGCTCATCACACACAGGTTTAGCTCTTGCAC
27437011 A
1 A
27437012 CAGCCAGGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 28 0.60
53 19 0.40
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (54 bp):
ATGGTCTAGGGACACAGTCGTGTGGCTCATCACACACAGGTTTAGCTCTTGCAC
Found at i:27440044 original size:6 final size:6
Alignment explanation
Indices: 27439968--27440030 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
27439958 AGTGCATAAT
* * * *
27439968 AAAAT- AAAATA AAACATA TAAATC TAAATA ATAA-A AAAATA AAAATA
1 AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
27440015 AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAA
27440031 AATATAAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
5 9 0.18
6 35 0.71
7 5 0.10
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:27444086 original size:40 final size:41
Alignment explanation
Indices: 27444040--27444293 Score: 264
Period size: 40 Copynumber: 6.3 Consensus size: 41
27444030 TTTGGATCAA
* * *
27444040 AAACGCCGCAAAAGGTAAAGCATTAGCGGCGTTTTT-GCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
* * **
27444080 AAACGCCGCAAAAGGTAAAGAAATAGCAGCA-TTTTGGCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
** * * **
27444120 AAACATCGCAAAAGGTAAAGTAATAACGGTGTTTTTCTCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
* * * * *
27444161 AAACACTGAAAAAGGTAAAG-AATAGTGGCGTTTTTCTCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
* *
27444201 AAACGCCACAAAAGGTAAAGCAATAGCGGCATTTTT-TTAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
* * * *
27444241 AAACGCCGCTAAAGGTAAAACAATATCGGCATTTTTCCCAT
1 AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
27444282 AAACGCCGCAAA
1 AAACGCCGCAAA
27444294 TGTTTTTTTA
Statistics
Matches: 177, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.02
40 123 0.69
41 50 0.28
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTAAAGCAATAGCGGCATTTTTCTCAT
Found at i:27444202 original size:81 final size:80
Alignment explanation
Indices: 27444040--27444293 Score: 206
Period size: 81 Copynumber: 3.1 Consensus size: 80
27444030 TTTGGATCAA
* * * * *
27444040 AAACGCCGCAAAAGGTAAAGCATTAGCGGCGTTTTTGCATAAACGCCGCAAAAGGTAAAGAAATA
1 AAACACCGCAAAAGGTAAAGCAATAACGGCGTTTTTGCATAAACACCGAAAAAGGTAAAGAAATA
*
27444105 GCAGCATTTTGGCAT
66 GCAGCATTTTCGCAT
* * * * *
27444120 AAACATCGCAAAAGGTAAAGTAATAACGGTGTTTTTCTCATAAACACTGAAAAAGGTAAAG-AAT
1 AAACACCGCAAAAGGTAAAGCAATAACGGCGTTTTT-GCATAAACACCGAAAAAGGTAAAGAAAT
** * *
27444184 AGTGGCGTTTTTCTCAT
65 AGCAGC-ATTTTCGCAT
* * * * ** * **
27444201 AAACGCCACAAAAGGTAAAGCAATAGCGGCATTTTTTTATAAACGCCGCTAAAGGTAAA-ACAAT
1 AAACACCGCAAAAGGTAAAGCAATAACGGCGTTTTTGCATAAACACCGAAAAAGGTAAAGA-AAT
* * *
27444265 ATCGGCATTTTTCCCAT
65 AGCAGCA-TTTTCGCAT
*
27444282 AAACGCCGCAAA
1 AAACACCGCAAA
27444294 TGTTTTTTTA
Statistics
Matches: 137, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
80 55 0.40
81 82 0.60
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (80 bp):
AAACACCGCAAAAGGTAAAGCAATAACGGCGTTTTTGCATAAACACCGAAAAAGGTAAAGAAATA
GCAGCATTTTCGCAT
Found at i:27444276 original size:121 final size:121
Alignment explanation
Indices: 27444049--27444285 Score: 296
Period size: 121 Copynumber: 2.0 Consensus size: 121
27444039 AAAACGCCGC
* *
27444049 AAAAGGTAAAGCATTAGCGGCGTTTTTGCATAAACGCCGCAAAAGGTAAAGAAATAGCAGCATTT
1 AAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCACAAAAGGTAAAGAAATAGCAGCATTT
* ** ** *
27444114 TGGCATAAACATCGCAAAAGGTAAAGTAATAACGGTGTTTTTCTCATAAACACTGA
66 TGGCATAAACACCGCAAAAGGTAAAACAATAACGGCATTTTTCCCATAAACACTGA
* * * *
27444170 AAAAGGTAAAG-AATAGTGGCGTTTTTCTCATAAACGCCACAAAAGGTAAAGCAATAGCGGCATT
1 AAAAGGTAAAGCAATAGCGGCGTTTTT-GCATAAACGCCACAAAAGGTAAAGAAATAGCAGCATT
*** * * *
27444234 TTTTTATAAACGCCGCTAAAGGTAAAACAATATCGGCATTTTTCCCATAAAC
65 TTGGCATAAACACCGCAAAAGGTAAAACAATAACGGCATTTTTCCCATAAAC
27444286 GCCGCAAATG
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
120 13 0.13
121 84 0.87
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (121 bp):
AAAAGGTAAAGCAATAGCGGCGTTTTTGCATAAACGCCACAAAAGGTAAAGAAATAGCAGCATTT
TGGCATAAACACCGCAAAAGGTAAAACAATAACGGCATTTTTCCCATAAACACTGA
Found at i:27446510 original size:30 final size:30
Alignment explanation
Indices: 27446474--27446559 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
27446464 TAGTGATTTG
*
27446474 TGAAAATTGAATTAAATTTAAATTTTATGTA
1 TGAAAATT-AATTAAATTTAAATTTCATGTA
* *
27446505 T-AAAATT-ATACAAAATTAAATTTCATGTA
1 TGAAAATTAAT-TAAATTTAAATTTCATGTA
* *
27446534 TGAAAATACACATTAAATTAAAATTT
1 TGAAAAT-TA-ATTAAATTTAAATTT
27446560 ATATTTAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
28 2 0.05
29 17 0.40
30 11 0.26
31 1 0.02
32 10 0.23
33 2 0.05
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.40
Consensus pattern (30 bp):
TGAAAATTAATTAAATTTAAATTTCATGTA
Found at i:27448600 original size:43 final size:43
Alignment explanation
Indices: 27448535--27448714 Score: 193
Period size: 43 Copynumber: 4.2 Consensus size: 43
27448525 TTTGATATGG
* * * * * * *
27448535 TCTTTAGTGGTGTTTTTGGGGAAAGTGTTGCGAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
*
27448578 TCTTTAGCGGCGTTTCTAGGGAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
* * * **
27448621 TCTTTAGCAGCGTTCCT-GGGACAA-TGCAACTAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGA-AAGCGCTGCTAAAGGTCATGT
* * *
27448663 TCTTTAGCGGCGATTCTAGGAAAAGCGATGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
27448706 TCTTTAGCG
1 TCTTTAGCG
27448715 ACATTTTTCT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 35 0.31
43 78 0.69
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTCTAGGGAAAGCGCTGCTAAAGGTCATGT
Found at i:27450822 original size:24 final size:24
Alignment explanation
Indices: 27450790--27450836 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
27450780 AATAAAAGTA
27450790 GGTTAACATAATCATACATAGTGC
1 GGTTAACATAATCATACATAGTGC
27450814 GGTTAACATAATCATACATAGTG
1 GGTTAACATAATCATACATAGTG
27450837 TGAGGAGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (24 bp):
GGTTAACATAATCATACATAGTGC
Found at i:27452243 original size:23 final size:23
Alignment explanation
Indices: 27452206--27452285 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
27452196 TCTCAGCTCG
* *
27452206 TTCAGCTCGACAGAGCTTACCGT
1 TTCAGCTCAATAGAGCTTACCGT
* *
27452229 TTCAGCTCAATAGAGATTACCAT
1 TTCAGCTCAATAGAGCTTACCGT
* * *
27452252 TTTAGCTTAATAGAGCTTACTGT
1 TTCAGCTCAATAGAGCTTACCGT
27452275 TCATCAGCTCA
1 T--TCAGCTCA
27452286 GGAGGAGCTT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 38 0.86
25 6 0.14
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
TTCAGCTCAATAGAGCTTACCGT
Found at i:27460274 original size:93 final size:93
Alignment explanation
Indices: 27460162--27460334 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
27460152 CGCCCATAAG
* *
27460162 TGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
*
27460226 AATGAGCTCGGATGCCTAGTTACATCTCT
65 AACGAGCTCGGATGCCTAGTTACATCTCT
27460255 TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
27460320 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
27460335 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:27460325 original size:46 final size:46
Alignment explanation
Indices: 27460155--27460330 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
27460145 TGTAACCCGC
* *
27460155 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCAT
* * * * *
27460201 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
* ***
27460247 ACATCTCTTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
27460294 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27460331 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.66
47 35 0.33
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:27462292 original size:30 final size:30
Alignment explanation
Indices: 27462248--27462336 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
27462238 CAAAGATAAC
27462248 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
27462277 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
27462307 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
27462337 CAATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:27462296 original size:15 final size:15
Alignment explanation
Indices: 27462248--27462327 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
27462238 CAAAGATAAC
*
27462248 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27462262 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27462277 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
27462292 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
27462307 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27462322 AAGAAA
1 AAGAAA
27462328 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27462336 original size:15 final size:15
Alignment explanation
Indices: 27462259--27462336 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
27462249 AGAAAACCGA
*
27462259 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
27462274 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
27462288 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
27462303 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
27462319 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
27462334 ATA
1 ATA
27462337 CAATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:27465367 original size:93 final size:93
Alignment explanation
Indices: 27465255--27465426 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
27465245 GCCCATAAGT
* *
27465255 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27465320 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
27465348 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27465413 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
27465427 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27465422 original size:46 final size:46
Alignment explanation
Indices: 27465247--27465422 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
27465237 TGTAACCCGC
* *
27465247 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
27465293 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGCAT
* *** *
27465339 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
27465386 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27465423 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:27476484 original size:21 final size:21
Alignment explanation
Indices: 27476443--27476486 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27476433 AATCAAGACA
* *
27476443 CAAACATAGCATTCTTACAAC
1 CAAACATAACATTATTACAAC
27476464 CAAACATAACA-TATTACCAAC
1 CAAACATAACATTATTA-CAAC
27476485 CA
1 CA
27476487 TGCATGGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (21 bp):
CAAACATAACATTATTACAAC
Found at i:27477499 original size:15 final size:15
Alignment explanation
Indices: 27477481--27477511 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27477471 CATATTCATC
*
27477481 TTATCAAAAATTCAA
1 TTATAAAAAATTCAA
27477496 TTATAAAAAATTCAA
1 TTATAAAAAATTCAA
27477511 T
1 T
27477512 CACATATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TTATAAAAAATTCAA
Found at i:27477758 original size:36 final size:38
Alignment explanation
Indices: 27477717--27477791 Score: 118
Period size: 37 Copynumber: 2.0 Consensus size: 38
27477707 TTTCAAATTA
27477717 ACATGTATAAC-GTGGCATATCCACTTAGCACC-CGTT
1 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
* *
27477753 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
27477791 A
1 A
27477792 ATGAACCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 10 0.29
37 20 0.57
38 5 0.14
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
Found at i:27477868 original size:79 final size:81
Alignment explanation
Indices: 27477729--27477908 Score: 253
Period size: 79 Copynumber: 2.2 Consensus size: 81
27477719 ATGTATAACG
*
27477729 TGGCATATCCACTTAGCACCCGTTACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAAT
1 TGGCATATCCACTTAGCACCCGTT--ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
27477794 GAACCAATATATGTAA--T
64 GAACC-ATATATGTAACTT
*
27477811 TGTGCATATCCACTTAGCACCAGGTT-T-TTTAACCGTGGTA-ATCCACTTAGCACCACGTTAAT
1 TG-GCATATCCACTTAGCACC-CGTTATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
*
27477873 GAATCATATATGTAACTT
64 GAACCATATATGTAACTT
27477891 TGGCATATCCACTTAGCA
1 TGGCATATCCACTTAGCA
27477909 GCACGTTACA
Statistics
Matches: 91, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
78 10 0.11
79 42 0.46
80 15 0.16
81 1 0.01
82 2 0.02
83 18 0.20
84 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (81 bp):
TGGCATATCCACTTAGCACCCGTTATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATGA
ACCATATATGTAACTT
Found at i:27477954 original size:48 final size:45
Alignment explanation
Indices: 27477844--27477971 Score: 150
Period size: 48 Copynumber: 2.8 Consensus size: 45
27477834 GTTTTTTAAC
*
27477844 CGTGGTAATCCACTTAGCACCACGTTA-ATGAATCATATATGTAA
1 CGTGGTAATCCACTTAGCACCACGTTACATGTATCATATATGTAA
* * * *
27477888 CTTTGGCATATCCACTTAGCAGCACGTTACATGTATCAATATGTGTAA
1 C-GTGGTA-ATCCACTTAGCACCACGTTACATGTATC-ATATATGTAA
*
27477936 TCGTGGTACATCCACTTAGCACCACGTTACACGTAT
1 -CGTGGTA-ATCCACTTAGCACCACGTTACATGTAT
27477972 AACCATGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
44 1 0.01
45 4 0.06
46 19 0.28
47 6 0.09
48 38 0.55
49 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
CGTGGTAATCCACTTAGCACCACGTTACATGTATCATATATGTAA
Found at i:27487374 original size:23 final size:25
Alignment explanation
Indices: 27487344--27487393 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
27487334 AGCTTTTATG
*
27487344 ATTAGTCC-TTTCACTTATT-AACT
1 ATTAGTCCTTTTCACTAATTAAACT
27487367 ATTAGTCCTTTTCACTAATTAAACT
1 ATTAGTCCTTTTCACTAATTAAACT
27487392 AT
1 AT
27487394 CTAAATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 10 0.42
25 6 0.25
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTAGTCCTTTTCACTAATTAAACT
Found at i:27491921 original size:25 final size:25
Alignment explanation
Indices: 27491887--27491935 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
27491877 TAAATTAAAT
*
27491887 TATAAAAACTCAAGCAAAACATAAC
1 TATAAAAACTCAAGAAAAACATAAC
*
27491912 TATAAAAACTTAAGAAAAACATAA
1 TATAAAAACTCAAGAAAAACATAA
27491936 TAAAAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.63, C:0.14, G:0.04, T:0.18
Consensus pattern (25 bp):
TATAAAAACTCAAGAAAAACATAAC
Found at i:27515997 original size:50 final size:50
Alignment explanation
Indices: 27515916--27516402 Score: 406
Period size: 50 Copynumber: 9.7 Consensus size: 50
27515906 TCCATTATGA
* *
27515916 GTCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
* * * * *
27515966 GTCGCATGTAG-AGTACTAAGTGCAGGCTACTATGGGTATC-CATTAACTTG
1 GTCACATGT-GTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGA-TAG
* * ** * * *
27516016 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
* * * * *
27516067 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGGGTATC-CATTAACTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGA-TAG
** * * * * * *
27516117 GATCATGTGTGTAGTACTAAATGCAAGCTACTATGTGTACCAGATGGTTAA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
* * *
27516168 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
* * * * * *
27516218 GTCACATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCTG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGA--TAG
* * * * * * * *
27516269 ATCACGTGTGTAGTACTAAGTGCACGCTACTACGTGCATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
* * * * ** * *
27516319 GTTACATGTGTATTATTAAGTACATACTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
*
27516369 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATG
27516403 CATACCAGAG
Statistics
Matches: 337, Mismatches: 89, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
49 9 0.03
50 218 0.65
51 105 0.31
52 5 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATTGATAG
Found at i:27516092 original size:101 final size:101
Alignment explanation
Indices: 27515917--27516300 Score: 445
Period size: 101 Copynumber: 3.8 Consensus size: 101
27515907 CCATTATGAG
* * * * * * *
27515917 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATTGATAGGTCGCATGTAG-AGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAAGTCACGTGT-GTAGTA
27515981 CTAAGTGCAGGCTACTATGGGTATCCATTAACTTGGA
65 CTAAGTGCAGGCTACTATGGGTATCCATTAACTTGGA
**
27516018 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
27516083 TAAGTGCAGGCTACTATGGGTATCCATTAACTTGGA
66 TAAGTGCAGGCTACTATGGGTATCCATTAACTTGGA
* * *
27516119 TCATGTGTGTAGTACTAAATGCAAGCTACTATGTGTACCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
* * * *
27516184 TAAGTGCAGGCTACTACGTGTA-CCAGATTGA-TAGG-
66 TAAGTGCAGGCTACTATGGGTATCC--ATTAACTTGGA
* * * * * * * ** *
27516219 TCACATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTT-TGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGAT-GGTTAAG-TCACGTGTGTAGT
*
27516283 ACTAAGTGCACGCTACTA
64 ACTAAGTGCAGGCTACTA
27516301 CGTGCATCAG
Statistics
Matches: 248, Mismatches: 30, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
100 39 0.16
101 205 0.83
102 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTATGGGTATCCATTAACTTGGA
Found at i:27516189 original size:151 final size:151
Alignment explanation
Indices: 27516018--27516408 Score: 534
Period size: 151 Copynumber: 2.6 Consensus size: 151
27516008 TTAACTTGGA
* * * * * *
27516018 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* *
27516083 TAAGTGCAGGCTACTATGGGTATCC-ATTAACTTGGATCATGTGTGTAGTACTAAATGCAAGCTA
66 TAAGTGCAGGCTACTATGCGTA-CCTATTAACTTGGATCACGTGTGTAGTACTAAATGCAAGCTA
* *
27516147 CTATGTGTACCAGATGGTTAAG
130 CTACGTGCACCAGATGGTTAAG
* *
27516169 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGCAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
* * * *
27516234 TAAGTGCAGGCTACTATGCGTACCTGTTAACTTTGATCACGTGTGTAGTACTAAGTGCACGCTAC
66 TAAGTGCAGGCTACTATGCGTACCTATTAACTTGGATCACGTGTGTAGTACTAAATGCAAGCTAC
*
27516299 TACGTGCATCAGATGGTTAAG
131 TACGTGCACCAGATGGTTAAG
* * * * * *
27516320 TTACATGTGTATTATTAAGTACATA-CTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCA-AGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTA
*
27516384 CTAAGTGCAGGCTACTATGCATACC
65 CTAAGTGCAGGCTACTATGCGTACC
27516409 AGAGAGCTTC
Statistics
Matches: 212, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
150 2 0.01
151 210 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCTATTAACTTGGATCACGTGTGTAGTACTAAATGCAAGCTAC
TACGTGCACCAGATGGTTAAG
Found at i:27516349 original size:101 final size:101
Alignment explanation
Indices: 27516169--27516350 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
27516159 GATGGTTAAG
* * * *
27516169 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGCAGTAC
1 TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGCACCAGATGGATAAGTCACATGTGCAGTAC
* *
27516234 TAAGTGCAGGCTACTATGCGTACCTGTTAACTTTGA
66 TAAGTACAGACTACTATGCGTACCTGTTAACTTTGA
* * * * * *
27516270 TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGCATCAGATGGTTAAGTTACATGTGTATTAT
1 TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGCACCAGATGGATAAGTCACATGTGCAGTAC
*
27516335 TAAGTACATACTACTA
66 TAAGTACAGACTACTA
27516351 CGTGTACCAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGCACCAGATGGATAAGTCACATGTGCAGTAC
TAAGTACAGACTACTATGCGTACCTGTTAACTTTGA
Found at i:27516632 original size:16 final size:16
Alignment explanation
Indices: 27516611--27516642 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27516601 AGAATGGAGT
27516611 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
27516627 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
27516643 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:27519551 original size:26 final size:25
Alignment explanation
Indices: 27519500--27519551 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
27519490 TAACTCATAA
*
27519500 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGCCCCT
27519526 ATTTCACATTTTCATCAAA-AGCCCCT
1 ATTTCACA-TTTCA-CAAATAGCCCCT
27519552 TAACAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGCCCCT
Found at i:27529061 original size:40 final size:40
Alignment explanation
Indices: 27529001--27529178 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
27528991 CGGATGATAA
*
27529001 CCGGACTAAGATC-CGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCTCGAAGGCATTTGTGCGAGTTACTATAT
27529041 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
* *
27529081 CCGTGCTAAGT-TCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATAT
* *
27529121 CCGGGCTAAGT-TCCGAAGGCATTTGTGCGAGTTGCTATCT
1 CCGGGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATAT
* *
27529161 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCTCGAAGG
27529179 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27529139 original size:80 final size:79
Alignment explanation
Indices: 27529001--27529178 Score: 268
Period size: 80 Copynumber: 2.2 Consensus size: 79
27528991 CGGATGATAA
* *
27529001 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTG
1 CCGG-CTAAGTTCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTG
27529066 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
27529081 CCGTGCTAAGTTCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGT-TCCGAAGGCATTT
1 CCG-GCTAAGTTCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCT-CGAAGGCATTT
* *
27529145 GTGCGAGTTGCTATCT
64 GTGCGAGTTACTATAT
* *
27529161 CCGGCTAAATCCCGAAGG
1 CCGGCTAAGTTCCGAAGG
27529179 TACTTGGGTT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
79 14 0.16
80 75 0.83
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (79 bp):
CCGGCTAAGTTCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:27537127 original size:40 final size:40
Alignment explanation
Indices: 27537067--27537244 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
27537057 CGGATGACAA
*
27537067 CCGGACTAAGATC-CGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCTCGAAGGCATTTGTGCGAGTTACTATAT
*
27537107 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
27537147 CCGGGCTAAGT-TCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATAT
*
27537187 CCGGGCTAAGT-TCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATAT
* *
27537227 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCTCGAAGG
27537245 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 16 0.12
40 113 0.88
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27539660 original size:364 final size:364
Alignment explanation
Indices: 27538987--27539716 Score: 1343
Period size: 364 Copynumber: 2.0 Consensus size: 364
27538977 CCTAGGACTT
*
27538987 CTCAGACACTCCCAGAACACATAACCACTGACGCAGATACACAGTTGTGTAACACAACACACAAA
1 CTCAGACACTCCCAGAACACATAACCACTGAAGCAGATACACAGTTGTGTAACACAACACACAAA
27539052 AATAATTACTAAATTTTTGGGGCGTTAGAACTCTACCCACCTAAAAGAAAATTTTGACATCGAAA
66 AATAATTACTAAATTTTTGGGGCGTTAGAACTCTACCCACCTAAAAGAAAATTTTGACATCGAAA
*
27539117 TTTACCTATCAAAACAGATGAGGGTATTGTTGTCGCATTGCCTCCTCAGTTTCCCACGTGGCATC
131 TTTACCTATCAAAACAGATGAGGGTATTGTTGTCACATTGCCTCCTCAGTTTCCCACGTGGCATC
*
27539182 CTCAGAACTGTTATTACGCTAAAGTAATTTAACCAGTGGGATAGAATTTTTCCTCAAGACTTCCA
196 CTCAGAACTGTGATTACGCTAAAGTAATTTAACCAGTGGGATAGAATTTTTCCTCAAGACTTCCA
*
27539247 TATCACGATCTAAAATTTGAATTAGCTCCTCCTTGAAAGTAAGATCTGATCCAACCTTAATTTTC
261 TATCACGATCTAAAATTTGAATTAGCTCCTCCTTGAAAGTAAGATCTGATCCAACCTTAATTTCC
27539312 TCAGTCGAGATAATATGCGTAGGACTAGAGCGATAACGC
326 TCAGTCGAGATAATATGCGTAGGACTAGAGCGATAACGC
* *
27539351 CTCAGACACTCCCAGAACACATAACCACTGAAGTAGATACAGAGTTGTGTAACACAACACACAAA
1 CTCAGACACTCCCAGAACACATAACCACTGAAGCAGATACACAGTTGTGTAACACAACACACAAA
* * *
27539416 AATAATTACTACATTTTTGGGGCGTTAGAACTCTACCCACCTAAAAGAAAATTTTGGCATTGAAA
66 AATAATTACTAAATTTTTGGGGCGTTAGAACTCTACCCACCTAAAAGAAAATTTTGACATCGAAA
27539481 TTTACCTATCAAAACAGATGAGGGTATTGTTGTCACATTGCCTCCTCAGTTTCCCACGTGGCATC
131 TTTACCTATCAAAACAGATGAGGGTATTGTTGTCACATTGCCTCCTCAGTTTCCCACGTGGCATC
*
27539546 CTCAGAACTGTGATTACGCTAAAGTACTTTAACCAGTGGGATAGAATTTTTCCTCAAGACTTCCA
196 CTCAGAACTGTGATTACGCTAAAGTAATTTAACCAGTGGGATAGAATTTTTCCTCAAGACTTCCA
* *
27539611 TATCACGATCTAAAATTTGAATTAGCTCCTCCTTGAAAGTAATATCTGATCCAACCTTCATTTCC
261 TATCACGATCTAAAATTTGAATTAGCTCCTCCTTGAAAGTAAGATCTGATCCAACCTTAATTTCC
*
27539676 TTAGTCGAGATAATATGCGTAGGACTAGAGCGATAACGC
326 TCAGTCGAGATAATATGCGTAGGACTAGAGCGATAACGC
27539715 CT
1 CT
27539717 TAGCATGGAA
Statistics
Matches: 353, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
364 353 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (364 bp):
CTCAGACACTCCCAGAACACATAACCACTGAAGCAGATACACAGTTGTGTAACACAACACACAAA
AATAATTACTAAATTTTTGGGGCGTTAGAACTCTACCCACCTAAAAGAAAATTTTGACATCGAAA
TTTACCTATCAAAACAGATGAGGGTATTGTTGTCACATTGCCTCCTCAGTTTCCCACGTGGCATC
CTCAGAACTGTGATTACGCTAAAGTAATTTAACCAGTGGGATAGAATTTTTCCTCAAGACTTCCA
TATCACGATCTAAAATTTGAATTAGCTCCTCCTTGAAAGTAAGATCTGATCCAACCTTAATTTCC
TCAGTCGAGATAATATGCGTAGGACTAGAGCGATAACGC
Found at i:27545399 original size:27 final size:27
Alignment explanation
Indices: 27545350--27545402 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
27545340 AGTCATACAT
* *
27545350 ATCATAGGGGCATATCAAACATTTTAC
1 ATCATAGAGGCATAACAAACATTTTAC
**
27545377 ATCATAGAGGCATAACAGTCATTTTA
1 ATCATAGAGGCATAACAAACATTTTA
27545403 ACAATTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (27 bp):
ATCATAGAGGCATAACAAACATTTTAC
Found at i:27552641 original size:21 final size:21
Alignment explanation
Indices: 27552615--27552677 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
27552605 TGTGTATTTG
27552615 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
27552636 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
27552657 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
27552678 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:27554686 original size:37 final size:37
Alignment explanation
Indices: 27554636--27554714 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27554626 TTATTACGAA
* * *
27554636 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27554673 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27554710 GTCTT
1 GTCTT
27554715 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27554920 original size:47 final size:47
Alignment explanation
Indices: 27554833--27555357 Score: 762
Period size: 47 Copynumber: 11.1 Consensus size: 47
27554823 CCTTTCGGGA
* * * * * * * * *
27554833 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27554880 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27554927 CTTATCACAAATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
27554974 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27555021 CTTATCACACACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
27555068 CCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27555115 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27555162 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27555209 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27555256 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27555305 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27555354 CTTA
1 CTTA
27555358 CTATCATTTC
Statistics
Matches: 448, Mismatches: 28, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
47 358 0.80
49 90 0.20
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27577431 original size:21 final size:21
Alignment explanation
Indices: 27577392--27577431 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27577382 GGACTAAACC
*
27577392 GAAAACTTTGAAAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
* *
27577413 GAAAACTTAGGAAATTTTC
1 GAAAACTTAGAAAAGTTTC
27577432 CCATGAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:27579489 original size:47 final size:50
Alignment explanation
Indices: 27579438--27579564 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 50
27579428 TCAAGTCAAT
*
27579438 GCCATGTCTCAGACATGGTCTT-CACTAACTATCA-A-AT-CGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATCCG-GGCCGAC
* * * *
27579485 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATCCGGGCCGAC
27579535 GCCATGTCCCAGACATGGTCTTACACTAAC
1 GCCATGTCCCAGACATGGTCTTACACTAAC
27579565 ACATCTCGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
47 21 0.30
48 10 0.14
49 1 0.01
50 36 0.51
51 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATCCGGGCCGAC
Done.