Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 100 of 325
Found at i:32446393 original size:13 final size:13
Alignment explanation
Indices: 32446375--32446419 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
32446365 ATTTGGTAAG
32446375 TTAGTTATGTGAA
1 TTAGTTATGTGAA
32446388 TTAGTTATG-G--
1 TTAGTTATGTGAA
32446398 TTAGTTATGTGAA
1 TTAGTTATGTGAA
32446411 TTAGTTATG
1 TTAGTTATG
32446420 GAAATGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.31
11 1 0.03
12 1 0.03
13 18 0.62
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (13 bp):
TTAGTTATGTGAA
Found at i:32446400 original size:23 final size:23
Alignment explanation
Indices: 32446374--32446420 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
32446364 AATTTGGTAA
32446374 GTTAGTTATGTGAATTAGTTATG
1 GTTAGTTATGTGAATTAGTTATG
32446397 GTTAGTTATGTGAATTAGTTATG
1 GTTAGTTATGTGAATTAGTTATG
32446420 G
1 G
32446421 AAATGGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (23 bp):
GTTAGTTATGTGAATTAGTTATG
Found at i:32448038 original size:13 final size:13
Alignment explanation
Indices: 32448020--32448097 Score: 82
Period size: 13 Copynumber: 6.6 Consensus size: 13
32448010 AAATATCTTT
32448020 ACTCCACTAAACC
1 ACTCCACTAAACC
32448033 ACTCCACTAAACC
1 ACTCCACTAAACC
32448046 AC-CC-C--AACC
1 ACTCCACTAAACC
*
32448055 ACCCCACTAAACC
1 ACTCCACTAAACC
*
32448068 ACTCCACTAAGCC
1 ACTCCACTAAACC
32448081 AC-CC-C--AACC
1 ACTCCACTAAACC
32448090 ACTCCACT
1 ACTCCACT
32448098 TGCCTACAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
9 11 0.20
10 4 0.07
11 4 0.07
12 4 0.07
13 32 0.58
ACGTcount: A:0.35, C:0.53, G:0.01, T:0.12
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:32448062 original size:35 final size:35
Alignment explanation
Indices: 32448023--32448097 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
32448013 TATCTTTACT
32448023 CCACTAAACCACTCCACTAAACCACCCCAACCACC
1 CCACTAAACCACTCCACTAAACCACCCCAACCACC
* *
32448058 CCACTAAACCACTCCACTAAGCCACCCCAACCACT
1 CCACTAAACCACTCCACTAAACCACCCCAACCACC
32448093 CCACT
1 CCACT
32448098 TGCCTACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.35, C:0.53, G:0.01, T:0.11
Consensus pattern (35 bp):
CCACTAAACCACTCCACTAAACCACCCCAACCACC
Found at i:32448496 original size:19 final size:18
Alignment explanation
Indices: 32448459--32448500 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
32448449 GGAGAGAGAG
*
32448459 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
32448477 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
32448496 TTATT
1 TTATT
32448501 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:32448559 original size:33 final size:39
Alignment explanation
Indices: 32448485--32448566 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
32448475 TATTATTTTC
*
32448485 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
32448524 TATTACTATTA-TATTA-TAATA-C-CT-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
32448557 TATTACTATT
1 TATTACTATT
32448567 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:32448596 original size:23 final size:23
Alignment explanation
Indices: 32448512--32448596 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
32448502 CTAATACCAC
* *
32448512 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
32448535 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * *
32448560 TACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
32448583 TATTATTATATTTT
1 TATTATTATATTTT
32448597 CTTTTTTTGT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 9 0.20
25 6 0.13
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:32458291 original size:206 final size:206
Alignment explanation
Indices: 32457930--32458470 Score: 949
Period size: 206 Copynumber: 2.6 Consensus size: 206
32457920 GCAAATCTGG
*
32457930 CTAAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* *
32457994 GATTTGGCTTTCGCGTGCTTACACTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTAAG
66 GATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
32458059 AGAACAAGTCAAAGTCTGGCATCTCCATTTTGACGGAGAGCAGATACATAGCAGATCTGGACTTC
131 AGAACAAGTCAAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGACTTC
32458124 AGATGTTTATA
196 AGATGTTTATA
*
32458135 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
32458200 GATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
** *
32458265 AGAACAAGTTGAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGCCTTC
131 AGAACAAGTCAAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGACTTC
32458330 AGATGTTTATA
196 AGATGTTTATA
* * *
32458341 CTAAAGCAAGATACAAGATGATTTGGCATCTTTATGCTTACAAGGAGCAAATCGAAGACATAGCT
1 CTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* *
32458406 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
32458471 GAAACAAATC
Statistics
Matches: 320, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
205 6 0.02
206 314 0.98
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
CTAAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
GATTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAGTCAAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGACTTC
AGATGTTTATA
Found at i:32459012 original size:22 final size:22
Alignment explanation
Indices: 32458986--32459092 Score: 83
Period size: 22 Copynumber: 4.7 Consensus size: 22
32458976 ATCCAAACTA
32458986 CACTAAACCACTCCAACCACCC
1 CACTAAACCACTCCAACCACCC
32459008 CACTAAACCACTACACTAAACCACTCC
1 CACTAAACCACT-C-C--AACCAC-CC
* * * * **
32459035 AAC-CACCCTACT-AAACCACTA
1 CACTAAACC-ACTCCAACCACCC
*
32459056 CACTAAACCACCCCAACCACCC
1 CACTAAACCACTCCAACCACCC
32459078 CACTAAACCACTCCA
1 CACTAAACCACTCCA
32459093 CTAAACCACC
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
21 4 0.06
22 41 0.65
23 1 0.02
24 1 0.02
26 9 0.14
27 7 0.11
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (22 bp):
CACTAAACCACTCCAACCACCC
Found at i:32459018 original size:13 final size:13
Alignment explanation
Indices: 32459000--32459105 Score: 93
Period size: 13 Copynumber: 8.8 Consensus size: 13
32458990 AAACCACTCC
32459000 AACCACCCCACTA
1 AACCACCCCACTA
**
32459013 AACCACTACACTA
1 AACCACCCCACTA
*
32459026 AACCA-CTC-C--
1 AACCACCCCACTA
*
32459035 AACCACCCTACTA
1 AACCACCCCACTA
**
32459048 AACCACTACACTA
1 AACCACCCCACTA
32459061 AACCA-CCC-C--
1 AACCACCCCACTA
32459070 AACCACCCCACTA
1 AACCACCCCACTA
*
32459083 AACCACTCCACTA
1 AACCACCCCACTA
32459096 AACCACCCCA
1 AACCACCCCA
32459106 ACCACTCCAC
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
9 10 0.14
10 4 0.06
11 4 0.06
12 2 0.03
13 52 0.72
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:32459028 original size:35 final size:35
Alignment explanation
Indices: 32458982--32459116 Score: 225
Period size: 35 Copynumber: 3.9 Consensus size: 35
32458972 TAAAATCCAA
*
32458982 ACTACACTAAACCACTCCAACCACCCCACTAAACC
1 ACTACACTAAACCACCCCAACCACCCCACTAAACC
* *
32459017 ACTACACTAAACCACTCCAACCACCCTACTAAACC
1 ACTACACTAAACCACCCCAACCACCCCACTAAACC
32459052 ACTACACTAAACCACCCCAACCACCCCACTAAACC
1 ACTACACTAAACCACCCCAACCACCCCACTAAACC
* *
32459087 ACTCCACTAAACCACCCCAACCACTCCACT
1 ACTACACTAAACCACCCCAACCACCCCACT
32459117 TGCCTACAAG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 95 1.00
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.12
Consensus pattern (35 bp):
ACTACACTAAACCACCCCAACCACCCCACTAAACC
Found at i:32459512 original size:3 final size:3
Alignment explanation
Indices: 32459479--32459615 Score: 50
Period size: 3 Copynumber: 45.7 Consensus size: 3
32459469 GAGAGAGAGA
* * * *
32459479 ATT ATT TTT AAT ATT GTT ATT ATT TTCT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * ** * * * * *
32459525 ACT AAT ACC ACT ATT ATC ATC ATT ATT ACT ATT A-T ATT A-T AAT ACCTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT
* * *
32459573 -TT CATT ATT ATT ACT ATT GTGT -TT -TT ACT ATT ATT ATT ATT AT
1 ATT -ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT
32459616 ATTTTCTTTT
Statistics
Matches: 101, Mismatches: 24, Indels: 18
0.71 0.17 0.13
Matches are distributed among these distances:
2 9 0.09
3 86 0.85
4 5 0.05
5 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:32459517 original size:19 final size:18
Alignment explanation
Indices: 32459479--32459521 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
32459469 GAGAGAGAGA
*
32459479 ATTATTTTTAATATTGTT
1 ATTATTTTTAATATTATT
*
32459497 ATTATTTTCTATTATTATT
1 ATTATTTT-TAATATTATT
32459516 ATTATT
1 ATTATT
32459522 ATTACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTATTTTTAATATTATT
Found at i:32459583 original size:33 final size:39
Alignment explanation
Indices: 32459506--32459590 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 39
32459496 TATTATTTTC
*
32459506 TATTATTATTATTATTATTACTAATACCACTATTATCAT
1 TATTATTACTATTATTATTACTAATACCACTATTATCAT
*
32459545 CATTATTACTATTA-TATTA-TAATA-C-CT-TT-TCAT
1 TATTATTACTATTATTATTACTAATACCACTATTATCAT
32459578 TATTATTACTATT
1 TATTATTACTATT
32459591 GTGTTTTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
33 16 0.37
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 12 0.28
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (39 bp):
TATTATTACTATTATTATTACTAATACCACTATTATCAT
Found at i:32462111 original size:47 final size:46
Alignment explanation
Indices: 32462043--32462346 Score: 249
Period size: 47 Copynumber: 6.5 Consensus size: 46
32462033 TTTGTGTGCT
*
32462043 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* * * *
32462089 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCA-AACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATTATGAGAGCC
* * * *
32462137 AGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* * ** * *
32462183 AGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
* * * * * * *
32462230 AGTGTAAGACGTGTCTGGGACACGCATCGGCTA-A-GA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCC
** *
32462274 AGTGTAAGACATGTCTGGGACATGCATCAACACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGAGAGCC
* *
32462322 AATATAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
32462347 GTATCGGCAA
Statistics
Matches: 200, Mismatches: 44, Indels: 25
0.74 0.16 0.09
Matches are distributed among these distances:
43 1 0.00
44 30 0.15
45 2 0.01
46 50 0.25
47 67 0.34
48 32 0.16
49 18 0.09
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
Found at i:32462312 original size:140 final size:137
Alignment explanation
Indices: 32462045--32462346 Score: 346
Period size: 140 Copynumber: 2.2 Consensus size: 137
32462035 TGTGTGCTAG
* ** *
32462045 TGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGTGTAAGACCATGTCTGGGA
* * *
32462110 CATGGCATCGGCATCCAAACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTA
66 CATCGCATCGGCAT-C-AACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAACCATA-TA
*
32462175 TGAGTGCCAGA
128 TGAGAGCCA-A
* * *
32462186 -GTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCCAGTGTAAGA-CGTGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ACAAAGAGAGCCAGTGTAAGACCATGTCTGGG
32462249 ACA-CGCATCGGC-T-AA-GAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAACACGCA
65 ACATCGCATCGGCATCAACGAG--G-GCTAGTGTAAGACATGTCTGGGACATGCATC-A-AC-CA
32462310 TATATGAGAGCCAA
124 TATATGAGAGCCAA
*
32462324 TATAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
32462347 GTATCGGCAA
Statistics
Matches: 140, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
134 3 0.02
135 2 0.01
136 1 0.01
137 30 0.21
138 3 0.02
139 24 0.17
140 60 0.43
141 17 0.12
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (137 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGTGTAAGACCATGTCTGGGA
CATCGCATCGGCATCAACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAACCATATATGA
GAGCCAA
Found at i:32463918 original size:22 final size:24
Alignment explanation
Indices: 32463893--32463946 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
32463883 TTCTAAATTC
32463893 AATTTAA-AAGATATAAT-ACAAT
1 AATTTAAGAAGATATAATAACAAT
* *
32463915 AATTTCAAGCAGATTTAATAACAAT
1 AATTT-AAGAAGATATAATAACAAT
*
32463940 AACTTAA
1 AATTTAA
32463947 TCATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 2 0.08
24 10 0.38
25 9 0.35
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (24 bp):
AATTTAAGAAGATATAATAACAAT
Found at i:32467511 original size:24 final size:22
Alignment explanation
Indices: 32467455--32467543 Score: 56
Period size: 24 Copynumber: 3.9 Consensus size: 22
32467445 ATATTATATC
*
32467455 TATTATTTTTCTTATATGTTTA
1 TATTATTTTTCTTATATATTTA
*
32467477 TATTACATTTTCTTATATAATCTT-
1 TATTA-TTTTTCTTATAT-AT-TTA
* * *
32467501 TATTATGTTTTATTTTTATATTATT
1 TATTAT-TTTT-CTTATATATT-TA
*
32467526 TATTGTTTTT-TTATATAT
1 TATTATTTTTCTTATATAT
32467544 ATGTATATCA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
22 12 0.23
23 12 0.23
24 17 0.32
25 12 0.23
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.67
Consensus pattern (22 bp):
TATTATTTTTCTTATATATTTA
Found at i:32467524 original size:18 final size:20
Alignment explanation
Indices: 32467501--32467549 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32467491 ATATAATCTT
32467501 TATTATGT-TT-TATTTTTA
1 TATTATGTATTGTATTTTTA
* *
32467519 TATTATTTATTGTTTTTTTA
1 TATTATGTATTGTATTTTTA
32467539 TATATATGTAT
1 TAT-TATGTAT
32467550 ATCATGTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 10 0.40
21 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTATGTATTGTATTTTTA
Found at i:32478592 original size:1 final size:1
Alignment explanation
Indices: 32478586--32478634 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
32478576 CCTTGAATTT
* * * * *
32478586 AAAAAAAAATAAAAAAATAATAAAAAATAAAAAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32478635 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (1 bp):
A
Found at i:32478600 original size:10 final size:10
Alignment explanation
Indices: 32478585--32478633 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
32478575 GCCTTGAATT
32478585 TAAAAAAAAA
1 TAAAAAAAAA
32478595 T--AAAAAAA
1 TAAAAAAAAA
*
32478603 TAATAAAAAA
1 TAAAAAAAAA
32478613 TAAAAAAAAAA
1 T-AAAAAAAAA
32478624 TAAAAAAAAA
1 TAAAAAAAAA
32478634 ATGGAGAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.24
10 17 0.50
11 9 0.26
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:32478602 original size:11 final size:11
Alignment explanation
Indices: 32478586--32478635 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
32478576 CCTTGAATTT
*
32478586 AAAAAAA-AAT
1 AAAAAAATAAA
32478596 AAAAAAAT-AA
1 AAAAAAATAAA
*
32478606 TAAAAAATAAA
1 AAAAAAATAAA
32478617 AAAAAAATAAA
1 AAAAAAATAAA
32478628 AAAAAAAT
1 AAAAAAAT
32478636 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
10 15 0.43
11 20 0.57
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:32478612 original size:18 final size:18
Alignment explanation
Indices: 32478589--32478634 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
32478579 TGAATTTAAA
*
32478589 AAAAAATAAAAAAATAAT
1 AAAAAATAAAAAAAAAAT
32478607 AAAAAATAAAAAAAAAAT
1 AAAAAATAAAAAAAAAAT
32478625 AAAAAA-AAAA
1 AAAAAATAAAA
32478635 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAAT
Found at i:32479691 original size:118 final size:119
Alignment explanation
Indices: 32479474--32479822 Score: 567
Period size: 118 Copynumber: 2.9 Consensus size: 119
32479464 AATTGAAGAC
* * *
32479474 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTTTTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* * *
32479538 TACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTTAGACGTTCTCAAATAT
65 TACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATAT
*
32479593 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
32479657 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGT
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATAT
*
32479711 AGCAGATCTAACCTTCAGATATTTATATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * *
32479776 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
66 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCT
32479823 TAAACTAACT
Statistics
Matches: 215, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
118 112 0.52
119 103 0.48
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATAT
Found at i:32480014 original size:202 final size:202
Alignment explanation
Indices: 32479648--32480028 Score: 593
Period size: 202 Copynumber: 1.9 Consensus size: 202
32479638 GATTTGTATT
* * *
32479648 CTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATATAA
* * * *
32479713 CAGATCTAACCTTCAGATATTTATATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
66 CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTGCTTAC
* *
32479778 AAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACTAACTCAAGAGGGTT
131 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTTAAACTAACTCAAGAGGGTT
32479843 TAGCATC
196 TAGCATC
* * * * *
32479850 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAGATATAA
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATATAA
*
32479915 CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGGTTTGGCA-TCATTGTGCTTA
66 CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGATTTGGCATTC-TTGTGCTTA
* *
32479979 CAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTTAAA
130 CAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTTAAA
32480029 TGTAGCAGAT
Statistics
Matches: 161, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
201 2 0.01
202 159 0.99
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (202 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATATAA
CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGATTTGGCATTCTTGTGCTTAC
AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTTAAACTAACTCAAGAGGGTT
TAGCATC
Found at i:32480044 original size:119 final size:118
Alignment explanation
Indices: 32479833--32480147 Score: 432
Period size: 119 Copynumber: 2.6 Consensus size: 118
32479823 TAAACTAACT
* * *
32479833 CAAGAGGGTTTAGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCA
1 CAAGATGGTTTGGCAT-CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
* * * *
32479898 GACGTTCTCAGATATAACAGATCTAACCTTCAGATATTTATACTGAAGCAAATC
65 AAAGTTCTTAAATATAACAGATCTAACCTTCAGATATTTATACTGAAGCAAATC
32479952 CAAGATGGTTTGGCATCATTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
1 CAAGATGGTTTGGCATC-TTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
* * * *
32480017 AAAGTTCTTAAATGTAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
65 AAAGTTCTTAAATATAACAGATCTAACCTTCAGATATTTATACTGAAGCAAATC
* * * * * * *
32480071 CAAGATGATTTGGTATTCTTGTGTTTACAAGGAATAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCA-TCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
*
32480136 AATGTTCTTAAA
65 AAAGTTCTTAAA
32480148 CAAACTCAAG
Statistics
Matches: 175, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
118 1 0.01
119 172 0.98
120 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (118 bp):
CAAGATGGTTTGGCATCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAA
AAGTTCTTAAATATAACAGATCTAACCTTCAGATATTTATACTGAAGCAAATC
Found at i:32480118 original size:321 final size:320
Alignment explanation
Indices: 32479530--32480232 Score: 1158
Period size: 321 Copynumber: 2.2 Consensus size: 320
32479520 ATTTGGTTTT
* * * *
32479530 CTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTTAGACGTTCTCAAATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAAATATAA
* * * *
32479595 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGTATTCTTGTGTTTACA
66 CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGATTTGCATTCTTGTGCTTACA
32479660 AGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACCT
131 AGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACCT
*
32479725 TCAGATATTTATATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATC
196 TCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATC
*
32479790 GAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACTAACTCAAGAGGGTTTAGCATC
261 GAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGAGGGTTTAGCATC
* *
32479850 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAGATATAA
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAAATATAA
*
32479915 CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGGTTTGGCA-TCATTGTGCTTA
66 CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGATTT-GCATTC-TTGTGCTTA
* *
32479979 CAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTTAAATGTAGCAGATCTAAC
129 CAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAAC
* *
32480044 CTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAATAAA
194 CTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAA
* *
32480109 TCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGATGGTTTGGCATC
259 TCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGAGGGTTTAGCATC
* * * *
32480171 CTTGTGCTTACAAAGGAAAAAAT-GAGGACATAGCAGATATGATTCTCAAAAGTTCTCAAATA
1 CTTGTGCTTAC-AAGGAACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAAATA
32480233 GATCAAGATG
Statistics
Matches: 355, Mismatches: 25, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
320 106 0.30
321 240 0.68
322 9 0.03
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (320 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAAATATAA
CAGATCTAACCTTCAGATATTTATACTGAAGCAAATCCAAGATGATTTGCATTCTTGTGCTTACA
AGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACCT
TCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATC
GAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAACTCAAGAGGGTTTAGCATC
Found at i:32480182 original size:83 final size:82
Alignment explanation
Indices: 32480071--32480252 Score: 240
Period size: 83 Copynumber: 2.2 Consensus size: 82
32480061 GAAGCAGATC
* * * * *
32480071 CAAGATGATTTGGTATTCTTGTGTTTAC-AAGGAATAAATCGAGGACATTGCAGATATGACTCTC
1 CAAGATGATTTGGCATCCTTGTGCTTACAAAGGAAAAAAT-GAGGACATAGCAGATATGACTCTC
* *
32480135 AAATGTTCTTAAACAAACT
65 AAAAGTTCTCAAACAAA-T
* *
32480154 CAAGATGGTTTGGCATCCTTGTGCTTACAAAGGAAAAAATGAGGACATAGCAGATATGATTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAAGGAAAAAATGAGGACATAGCAGATATGACTCTCA
* *
32480219 AAAGTTCTCAAATAGAT
66 AAAGTTCTCAAACAAAT
32480236 CAAGATGATTTGGCATC
1 CAAGATGATTTGGCATC
32480253 TCTACAAATC
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
82 17 0.20
83 59 0.69
84 10 0.12
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (82 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAAGGAAAAAATGAGGACATAGCAGATATGACTCTCA
AAAGTTCTCAAACAAAT
Found at i:32482000 original size:18 final size:20
Alignment explanation
Indices: 32481977--32482025 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32481967 ATATAATATT
32481977 TATTATGT-TT-TATTTTTA
1 TATTATGTATTGTATTTTTA
* *
32481995 TATTATTTATTGTTTTTTTA
1 TATTATGTATTGTATTTTTA
32482015 TATATATGTAT
1 TAT-TATGTAT
32482026 ATCATGTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 10 0.40
21 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTATGTATTGTATTTTTA
Found at i:32482060 original size:15 final size:14
Alignment explanation
Indices: 32482040--32482073 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
32482030 TGTATCACAA
*
32482040 ATTATATTATTTAT
1 ATTATATTATATAT
32482054 GATTATATTATATAT
1 -ATTATATTATATAT
32482069 ATTAT
1 ATTAT
32482074 TTTAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTATATTATATAT
Found at i:32484488 original size:17 final size:19
Alignment explanation
Indices: 32484409--32484481 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
32484399 ATAATCTTCA
32484409 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32484428 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32484447 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32484464 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
32484482 AGATATGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:32484507 original size:22 final size:22
Alignment explanation
Indices: 32484409--32484504 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 22
32484399 ATAATCTTCA
32484409 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32484428 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32484447 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32484464 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
32484486 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
32484505 GATTTAATTT
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
17 17 0.25
19 32 0.46
22 8 0.12
23 12 0.17
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:32484793 original size:17 final size:17
Alignment explanation
Indices: 32484769--32484803 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32484759 TGTTTCCCAG
*
32484769 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
32484787 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
32484804 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:32492939 original size:20 final size:20
Alignment explanation
Indices: 32492911--32493007 Score: 60
Period size: 20 Copynumber: 4.8 Consensus size: 20
32492901 TACCTTACTT
*
32492911 TTATATTATACATTATAATA
1 TTATTTTATACATTATAATA
* *
32492931 TTATTTTAT-TATGTATATTA
1 TTATTTTATACAT-TATAATA
32492951 TTATTATT-T--ATTAT-ATA
1 TTATT-TTATACATTATAATA
* *
32492968 TTATTTTTCATAAATTATTATTA
1 TTA-TTTT-ATACATTA-TAATA
32492991 TTATTTTATATCATTAT
1 TTATTTTATA-CATTAT
32493008 TTTTATATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
17 7 0.11
18 5 0.08
19 5 0.08
20 20 0.33
21 10 0.16
22 9 0.15
23 5 0.08
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (20 bp):
TTATTTTATACATTATAATA
Found at i:32492942 original size:3 final size:3
Alignment explanation
Indices: 32492929--32493024 Score: 76
Period size: 3 Copynumber: 32.0 Consensus size: 3
32492919 TACATTATAA
*
32492929 TAT TAT T-T TAT TAT GTA- TAT TAT TAT TATT TAT TAT ATAT TAT TTT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT
* * *
32492975 TCAT AAAT TAT TAT TAT TAT T-T TA- TAT CAT TAT TTT TA- TAT TAT
1 T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32493019 TAT TAT
1 TAT TAT
32493025 ATTTTACTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
2 10 0.13
3 54 0.72
4 11 0.15
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:32492969 original size:37 final size:36
Alignment explanation
Indices: 32492914--32493113 Score: 117
Period size: 41 Copynumber: 5.3 Consensus size: 36
32492904 CTTACTTTTA
*
32492914 TATTA-TACATTATAATATTATTTTATTATGTATATTAT
1 TATTATTATATTAT-ATATTATTTT-TTAT-TATATTAT
* *
32492952 TATTATT-TATTATATATTATTTTTCA-TAAATTAT
1 TATTATTATATTATATATTATTTTTTATTATATTAT
*
32492986 TATTATTATTTTATATCATTATTTTTATATTATTATTAT
1 TATTATTATATTATAT-ATTATTTTT-TATTA-TATTAT
* * **
32493025 ATTTTACTTGTATTATATATTTATTAATTATTTATATATAT
1 -TATTA-TTATATTATATA-TTATTTTTTA-TTATAT-TAT
* * *
32493066 TGTTCTTACA-TATATATT-TTCGTTATT-TTATATTA-
1 TATTATTATATTATATATTATT--TT-TTATTATATTAT
32493101 TATCTATTATATT
1 TAT-TATTATATT
32493114 TCTTATTTAC
Statistics
Matches: 126, Mismatches: 20, Indels: 33
0.70 0.11 0.18
Matches are distributed among these distances:
34 14 0.11
35 9 0.07
36 20 0.16
37 20 0.16
38 18 0.14
39 11 0.09
40 13 0.10
41 21 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (36 bp):
TATTATTATATTATATATTATTTTTTATTATATTAT
Found at i:32493001 original size:33 final size:33
Alignment explanation
Indices: 32492947--32493030 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
32492937 TATTATGTAT
* *
32492947 ATTATTATTATTTATTATATATTATT-TTTCATAA
1 ATTATTATTA-TTATTTTATATCATTATTT-ATAA
* *
32492981 ATTATTATTATTATTTTATATCATTATTTTTAT
1 ATTATTATTATTATTTTATATCATTATTTATAA
32493014 ATTATTATTA-TATTTTA
1 ATTATTATTATTATTTTA
32493031 CTTGTATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 7 0.16
33 25 0.56
34 13 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (33 bp):
ATTATTATTATTATTTTATATCATTATTTATAA
Found at i:32493040 original size:33 final size:31
Alignment explanation
Indices: 32492909--32493040 Score: 99
Period size: 32 Copynumber: 4.0 Consensus size: 31
32492899 TTTACCTTAC
* *
32492909 TTTTATATTATACATTATAATATTA-TT-TTAT
1 TTTTATATTAT-TATTAT-ATTTTATTTATTAT
* *
32492940 TATGTATATTATTATTAT-TTATTATATATTAT
1 T-TTTATATTATTATTATATT-TTATTTATTAT
*
32492972 TTTTCATAAATTATTATTATTATTTTATATCATTAT
1 TTTT-AT--ATTATTATTA-TATTTTAT-TTATTAT
32493008 TTTTATATTATTATTATATTTTACTTGTATTAT
1 TTTTATATTATTATTATATTTTA-TT-TATTAT
32493041 ATATTTATTA
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
29 1 0.01
30 3 0.04
31 9 0.11
32 24 0.30
33 16 0.20
34 10 0.12
35 7 0.09
36 11 0.14
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTATATTATTATTATATTTTATTTATTAT
Found at i:32493092 original size:97 final size:99
Alignment explanation
Indices: 32492909--32493098 Score: 230
Period size: 97 Copynumber: 1.9 Consensus size: 99
32492899 TTTACCTTAC
* *
32492909 TTTTATATTATACATTATAATATTATTTTATTATGTATATTATTATTATTTATTATATATTATTT
1 TTTTATATTATACATTATAATATTATTGTATTATATATATTATTATTATTTATTATATATTATTT
*
32492974 TTCATAAATTATTATTATTATTTTATATCATTAT
66 TACATAAATTATTATTATTATTTTATATCATTAT
* * *
32493008 TTTTATATTAT-TATTAT-ATTTTACTTGTATTATATAT-TTATTAATTATTTA-TATATATTGT
1 TTTTATATTATACATTATAATATTA-TTGTATTATATATATTATT-ATTATTTATTATATATTAT
* *
32493069 TCTTACATATA-TATT-TTCGTTATTTTATAT
64 T-TTACATAAATTATTATT-ATTATTTTATAT
32493099 TATATCTATT
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
96 2 0.03
97 35 0.44
98 31 0.39
99 11 0.14
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (99 bp):
TTTTATATTATACATTATAATATTATTGTATTATATATATTATTATTATTTATTATATATTATTT
TACATAAATTATTATTATTATTTTATATCATTAT
Found at i:32493261 original size:15 final size:14
Alignment explanation
Indices: 32492983--32493263 Score: 69
Period size: 15 Copynumber: 19.0 Consensus size: 14
32492973 TTTCATAAAT
32492983 TATTATTATTATTTTA
1 TATTA-TATTA-TTTA
*
32492999 TATCATTATT-TTTA
1 TATTA-TATTATTTA
*
32493013 TATTATTATTATATTT
1 TATTA-TATTAT-TTA
* *
32493029 TACTTGTATTATATA
1 TA-TTATATTATTTA
32493044 T-TTATTAATTATTTA
1 TATTA-T-ATTATTTA
*
32493059 TA-TATATTGTTCTTA
1 TATTATATT-AT-TTA
* *
32493074 CATATATATTTTCGTTA
1 TAT-TATATTAT--TTA
* * *
32493091 TTTTATATTATATC
1 TATTATATTATTTA
32493105 TATTATATT-TCTTA
1 TATTATATTAT-TTA
32493119 T-TTACTATATATTTA
1 TATTA-TAT-TATTTA
* *
32493134 AATTATATTTTATTA
1 TATTATATTAT-TTA
* *
32493149 TATAACATTTATTATA
1 TATTATA-TTATT-TA
* *
32493165 TTTTTATTTTATTCTA
1 -TATTATATTATT-TA
*
32493181 TATTACTTATT-TTTT
1 TATTA--TATTATTTA
* *
32493196 TA-TATGTTATATA
1 TATTATATTATTTA
* *
32493209 TATCATA-TATTATC
1 TATTATATTATT-TA
32493223 TATTATATTATTTA
1 TATTATATTATTTA
32493237 TATTTATATTA-TT-
1 TA-TTATATTATTTA
*
32493250 CATTATATTATTTA
1 TATTATATTATTTA
32493264 AAATTTTAAA
Statistics
Matches: 193, Mismatches: 43, Indels: 60
0.65 0.15 0.20
Matches are distributed among these distances:
12 11 0.06
13 19 0.10
14 48 0.25
15 51 0.26
16 46 0.24
17 18 0.09
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTA
Found at i:32493354 original size:19 final size:19
Alignment explanation
Indices: 32493328--32493391 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
32493318 TAAAATATTC
32493328 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
32493346 ATTATTTTATTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
32493365 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
32493382 GTTATTTTAT
1 ATTATTTTAT
32493392 AAATTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:32493712 original size:33 final size:33
Alignment explanation
Indices: 32493674--32493738 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
32493664 TGTATTACTC
*
32493674 TTTTTTGTATGTCATGCATTATTTAATTATTAT
1 TTTTTTGTATATCATGCATTATTTAATTATTAT
32493707 TTTTTTGTATATCATGCATTATTTAATTATTA
1 TTTTTTGTATATCATGCATTATTTAATTATTA
32493739 CTTTGCATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (33 bp):
TTTTTTGTATATCATGCATTATTTAATTATTAT
Found at i:32495962 original size:14 final size:15
Alignment explanation
Indices: 32495924--32495957 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
32495914 CAAAAAGGAT
32495924 AAAAAACAA-TT-AA
1 AAAAAACAATTTGAA
32495937 AAAAAACAATTTGAA
1 AAAAAACAATTTGAA
32495952 AAAAAA
1 AAAAAA
32495958 TATTTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 2 0.11
15 8 0.42
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAAACAATTTGAA
Found at i:32496130 original size:19 final size:21
Alignment explanation
Indices: 32496103--32496154 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
32496093 ATTTTAGAAC
*
32496103 TTTATATAATAT-GCTA-ATTA
1 TTTA-ATAATATAGATATATTA
*
32496123 TTTAATAATGATATATATATTA
1 TTTAATAAT-ATAGATATATTA
32496145 TTTAATAATA
1 TTTAATAATA
32496155 ATTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 6 0.22
21 3 0.11
22 13 0.48
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
TTTAATAATATAGATATATTA
Found at i:32496236 original size:23 final size:22
Alignment explanation
Indices: 32496186--32496238 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
32496176 CACCATTAAA
* *
32496186 GAATAATAAAATAATATATAAT
1 GAATAATAAAATAAAATATAAG
**
32496208 TTATAATAAAATAAAAATATAAG
1 GAATAATAAAAT-AAAATATAAG
32496231 GAATAATA
1 GAATAATA
32496239 TATATAGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
GAATAATAAAATAAAATATAAG
Found at i:32496240 original size:28 final size:28
Alignment explanation
Indices: 32496188--32496320 Score: 93
Period size: 28 Copynumber: 4.8 Consensus size: 28
32496178 CCATTAAAGA
32496188 ATAATAAAAT--AATATATAAT--T--T
1 ATAATAAAATAAAATATATAATGATAAT
*
32496210 ATAATAAAATAAAA-ATATAAGGAATAAT
1 ATAATAAAATAAAATATATAATG-ATAAT
* *
32496238 AT-ATATAGTAAAATATATAATGTATAAT
1 ATAATAAAATAAAATATATAATG-ATAAT
* *
32496266 AAAACTTATAAATAAAATGTATAATGATAAT
1 ATAA--TA-AAATAAAATATATAATGATAAT
*
32496297 ATAATATAATGAATAATATATAAT
1 ATAATAAAAT-AA-AATATATAAT
32496321 AAAAAATAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
22 10 0.12
23 6 0.07
24 2 0.02
26 1 0.01
27 9 0.11
28 19 0.22
29 5 0.06
30 9 0.11
31 10 0.12
32 14 0.16
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (28 bp):
ATAATAAAATAAAATATATAATGATAAT
Found at i:32496266 original size:14 final size:14
Alignment explanation
Indices: 32496196--32496320 Score: 55
Period size: 14 Copynumber: 9.9 Consensus size: 14
32496186 GAATAATAAA
*
32496196 ATAATATATAATTT
1 ATAATATATAATGT
32496210 ATAATA-A-AA--T
1 ATAATATATAATGT
* * *
32496220 A-AAAATATAAGGA
1 ATAATATATAATGT
32496233 ATAATATAT-ATAGT
1 ATAATATATAAT-GT
*
32496247 AAAATATATAATGT
1 ATAATATATAATGT
32496261 ATAATA-A-AACT-T
1 ATAATATATAA-TGT
*
32496273 ATAA-ATAAAATGT
1 ATAATATATAATGT
*
32496286 ATAAT-GATAA--T
1 ATAATATATAATGT
*
32496297 AT-A-ATATAATGA
1 ATAATATATAATGT
32496309 ATAATATATAAT
1 ATAATATATAAT
32496321 AAAAAATAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 34
0.65 0.09 0.27
Matches are distributed among these distances:
9 3 0.04
10 8 0.10
11 6 0.07
12 13 0.16
13 16 0.19
14 35 0.42
15 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (14 bp):
ATAATATATAATGT
Found at i:32496305 original size:25 final size:25
Alignment explanation
Indices: 32496249--32496305 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
32496239 TATATAGTAA
*
32496249 AATATATAATGTATAATAAAACTTAT
1 AATATAAAATGTATAATAAAAC-TAT
*
32496275 AA-ATAAAATGTATAATGATAA-TAT
1 AATATAAAATGTATAAT-AAAACTAT
32496299 AATATAA
1 AATATAA
32496306 TGAATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
AATATAAAATGTATAATAAAACTAT
Found at i:32496312 original size:32 final size:32
Alignment explanation
Indices: 32496233--32496318 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 32
32496223 AATATAAGGA
*
32496233 ATAATATATATAGTAAAATATATAATGTATAAT
1 ATAATATA-ATAATAAAATATATAATGTATAAT
* *
32496266 A-AA-ACTTATAAATAAAATGTATAATG-ATAAT
1 ATAATA-TAAT-AATAAAATATATAATGTATAAT
*
32496297 ATAATATAATGAATAATATATA
1 ATAATATAAT-AATAAAATATA
32496319 ATAAAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
31 9 0.21
32 31 0.74
33 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (32 bp):
ATAATATAATAATAAAATATATAATGTATAAT
Found at i:32496314 original size:17 final size:16
Alignment explanation
Indices: 32496224--32496337 Score: 69
Period size: 16 Copynumber: 7.3 Consensus size: 16
32496214 TAAAATAAAA
*
32496224 ATATAAGGAATAATAT
1 ATATAATGAATAATAT
*
32496240 ATAT-A-G--TAAAAT
1 ATATAATGAATAATAT
*
32496252 ATATAATGTATAATA-
1 ATATAATGAATAATAT
* * * *
32496267 AAACTTATAAATAAAAT
1 ATA-TAATGAATAATAT
*
32496284 GTATAATG-ATAATAT
1 ATATAATGAATAATAT
32496299 AATATAATGAATAATAT
1 -ATATAATGAATAATAT
**
32496316 ATAATAAAAAATAATAT
1 AT-ATAATGAATAATAT
32496333 ATATA
1 ATATA
32496338 CTGTTTTATA
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
12 9 0.12
13 1 0.01
14 2 0.03
15 9 0.12
16 31 0.42
17 22 0.30
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (16 bp):
ATATAATGAATAATAT
Found at i:32497958 original size:44 final size:44
Alignment explanation
Indices: 32497910--32498594 Score: 895
Period size: 44 Copynumber: 15.6 Consensus size: 44
32497900 AAACTCAGGA
* * *
32497910 ACGCCAAATCTGTTATCTCCGATTTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
32497954 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
32497998 ACGCCAAATCTGCTATCTTTGATCTGCTTTCTGACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
32498042 ACGTCAAATCTGTTATC-TCTGATTTGCTCTCTGAAAATACAGAG
1 ACGCCAAATCTGCTATCTTC-GATCTGCTCTCTGACAATACAGAG
* * *
32498086 ATGCCAAATCTGCTATCTTTGATCTGCTCTTTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
32498130 ACGCCAAATCTGTTATCTTCGATCTGTTCTCTGACAATACAGAA
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
32498174 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
32498218 ATGCCAAATCTGCTATCTTTGATCTGCTCTTTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * *
32498262 ACGCCAAATATGGTATCTTTGATCTTCTCTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * * *
32498306 ACACCAAATCTGTTATCTTCGATATGCTCTCTAATAATACAGAA
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * * * *
32498350 ACACGAAATCTACTGTCTTCAATCTGCTCTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
32498394 ATGCCAAATCTGCTATCTTCGATCTGTTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
32498438 ATGTCAAATCTGCTATCTTTGATCTACTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
32498482 ACGCCAAATCTGTTAACTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
32498526 ACGCCAAATCTGCTATCTTCGATCTGTTCTCTAACCATACAGAA
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
32498570 ACGCCAAATCTGCTATCTTTGATCT
1 ACGCCAAATCTGCTATCTTCGATCT
32498595 ACATTGTCCT
Statistics
Matches: 556, Mismatches: 83, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
43 1 0.00
44 554 1.00
45 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:32509379 original size:18 final size:18
Alignment explanation
Indices: 32509355--32509400 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
32509345 TACGAATAAT
32509355 AAAATAACATA-AAGATA
1 AAAATAACATATAAGATA
32509372 ACAAATAATC-TATAAGATA
1 A-AAATAA-CATATAAGATA
*
32509391 AAAGTAACAT
1 AAAATAACAT
32509401 GTTAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 8 0.33
ACGTcount: A:0.63, C:0.09, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAATAACATATAAGATA
Found at i:32509471 original size:14 final size:14
Alignment explanation
Indices: 32509434--32509465 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
32509424 CAAAAAGGAT
32509434 AAAAAACAA-TT-A
1 AAAAAACAATTTGA
32509446 AAAAAACAATTTGA
1 AAAAAACAATTTGA
32509460 AAAAAA
1 AAAAAA
32509466 ATATTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAAAACAATTTGA
Found at i:32509746 original size:28 final size:28
Alignment explanation
Indices: 32509719--32509772 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
32509709 ATAATTTATA
32509719 ATAAAATAAAA-ATATAAGGAATAATAT
1 ATAAAATAAAATATATAAGGAATAATAT
* * * *
32509746 ATATAGTAAAATATATAATGTATAATA
1 ATAAAATAAAATATATAAGGAATAATA
32509773 AAACTTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
ATAAAATAAAATATATAAGGAATAATAT
Found at i:32509835 original size:16 final size:18
Alignment explanation
Indices: 32509794--32509840 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 18
32509784 AAAAATGTAT
32509794 AATAATAATATAATAGAATG
1 AATAAT-ATATAATAGAA-G
32509814 AATAATATATAATA-AA-
1 AATAATATATAATAGAAG
32509830 AATAATATATA
1 AATAATATATA
32509841 TACTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.41
18 2 0.07
19 8 0.30
20 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
AATAATATATAATAGAAG
Found at i:32514960 original size:33 final size:33
Alignment explanation
Indices: 32514918--32515009 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
32514908 TTATACCTAA
32514918 AACTGTATCTGAATGGGCTAAGGCCTAAACTAT
1 AACTGTATCTGAATGGGCTAAGGCCTAAACTAT
* *
32514951 AACTGTATCTGAATGGGCTAAGGCATAAACTGT
1 AACTGTATCTGAATGGGCTAAGGCCTAAACTAT
* * *
32514984 ACCTGAATCTGTAATGGGCTTAGGCC
1 AACTGTATCTG-AATGGGCTAAGGCC
32515010 CCAGACTACA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 40 0.77
34 12 0.23
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (33 bp):
AACTGTATCTGAATGGGCTAAGGCCTAAACTAT
Found at i:32525864 original size:33 final size:33
Alignment explanation
Indices: 32525802--32525884 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
32525792 TTATACCTGA
* *
32525802 AACTGTATCTGAATGGGCTAAAGTCTAAACTGT
1 AACTGTATCTGAATGGGCTAAAGGCTAAACTAT
32525835 AACTGTATCTGAATGGGCT-AAGGCATAAACTAT
1 AACTGTATCTGAATGGGCTAAAGGC-TAAACTAT
* *
32525868 ACCTGAATCTGTAATGG
1 AACTGTATCTG-AATGG
32525885 ACTTATGCCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 4 0.09
33 35 0.80
34 5 0.11
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (33 bp):
AACTGTATCTGAATGGGCTAAAGGCTAAACTAT
Found at i:32527071 original size:39 final size:40
Alignment explanation
Indices: 32527028--32527137 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 40
32527018 TTAAATTATG
* * *
32527028 AATGTTATGTGATTATACGAGCATTGTGATATATGCTT-A
1 AATGTTATGTGATTATATGAGTATTGTGATATAAGCTTGA
** * *
32527067 AATGTTATGCAATTATATGAATATTATGATATAAGCTTGA
1 AATGTTATGTGATTATATGAGTATTGTGATATAAGCTTGA
32527107 AA-GTTAT-TAGATTATATGAGTATTGTGATAT
1 AATGTTATGT-GATTATATGAGTATTGTGATAT
32527138 TTGAATATTG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
39 55 0.95
40 3 0.05
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (40 bp):
AATGTTATGTGATTATATGAGTATTGTGATATAAGCTTGA
Found at i:32528036 original size:33 final size:33
Alignment explanation
Indices: 32527994--32528058 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
32527984 CCTAGTATCG
32527994 ATACCTACGTGATTGTCTTGAAAATTTTGCTAT
1 ATACCTACGTGATTGTCTTGAAAATTTTGCTAT
32528027 ATACCTACGTGATTGTCTTGAAAATTTTGCTA
1 ATACCTACGTGATTGTCTTGAAAATTTTGCTA
32528059 AGTGGTCCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
ATACCTACGTGATTGTCTTGAAAATTTTGCTAT
Found at i:32530451 original size:45 final size:47
Alignment explanation
Indices: 32530331--32530453 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 47
32530321 TACTGGCATT
32530331 GTATTAACCTACAAGCACTCGTTGTTTATCCATAATTTATACTGGCAGC
1 GTATTAACCTACAA-CACTCGTTGTTTATCCATAATTTATA-TGGCAGC
* * *
32530380 -TATT-ATCTACAA-ACTCGTTGTGTATCCATAA-TTAT-TGGTAGC
1 GTATTAACCTACAACACTCGTTGTTTATCCATAATTTATATGGCAGC
* *
32530422 GTATTAACCTACAACACTAGTGGTTTATCCAT
1 GTATTAACCTACAACACTCGTTGTTTATCCAT
32530454 TTACTGGAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 6 0.09
43 4 0.06
44 11 0.17
45 32 0.50
47 7 0.11
48 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (47 bp):
GTATTAACCTACAACACTCGTTGTTTATCCATAATTTATATGGCAGC
Found at i:32531014 original size:10 final size:11
Alignment explanation
Indices: 32530987--32531016 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32530977 AACCACATAT
32530987 CAAATGTTTAA
1 CAAATGTTTAA
32530998 CAAATGTTTAA
1 CAAATGTTTAA
32531009 -AAATGTTT
1 CAAATGTTT
32531017 GTTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (11 bp):
CAAATGTTTAA
Found at i:32535051 original size:15 final size:15
Alignment explanation
Indices: 32535033--32535072 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
32535023 ACTCCATTCC
* *
32535033 CTTTAATCATGGTAA
1 CTTTAGTCATAGTAA
32535048 CTTTAGTCATAGTAA
1 CTTTAGTCATAGTAA
32535063 CTTTAGTCAT
1 CTTTAGTCAT
32535073 TGCTTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATAGTAA
Found at i:32537672 original size:22 final size:21
Alignment explanation
Indices: 32537647--32537719 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
32537637 CCATGTGTTG
32537647 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCA-TTGGA
* *
32537669 TAATGTT-GTTAT-CATGTGGTG
1 TAATATTAGTTATGCAT-TGG-A
* *
32537690 TAATACTAATTATGCATTTGGA
1 TAATATTAGTTATGCA-TTGGA
32537712 TAATATTA
1 TAATATTA
32537720 TTAATTTCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 10 0.26
22 17 0.44
23 5 0.13
24 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (21 bp):
TAATATTAGTTATGCATTGGA
Found at i:32537686 original size:43 final size:43
Alignment explanation
Indices: 32537633--32537715 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
32537623 TGTAATATTA
* * *
32537633 GTTACCATGTGTTGTAATATTAGTTATGCACTTGGATAATGTT
1 GTTACCATGTGGTGTAATACTAATTATGCACTTGGATAATGTT
* *
32537676 GTTATCATGTGGTGTAATACTAATTATGCATTTGGATAAT
1 GTTACCATGTGGTGTAATACTAATTATGCACTTGGATAAT
32537716 ATTATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.43
Consensus pattern (43 bp):
GTTACCATGTGGTGTAATACTAATTATGCACTTGGATAATGTT
Found at i:32537719 original size:65 final size:67
Alignment explanation
Indices: 32537574--32537701 Score: 179
Period size: 68 Copynumber: 1.9 Consensus size: 67
32537564 ATACTTTTAA
* * *
32537574 TGTGGTGATATTAGTTATGCACTTGGACAATGTTGCTGTTATCATATGGTGTAATATTAGTTACC
1 TGTGGTAATATTAGTTATGCACTTGGACAATGTT-CTGTTATCATATGGTGTAATACTAATTACC
32537639 ATG
65 ATG
* * *
32537642 TGTTGTAATATTAGTTATGCACTTGGATAATG-T-TGTTATCATGTGGTGTAATACTAATTA
1 TGTGGTAATATTAGTTATGCACTTGGACAATGTTCTGTTATCATATGGTGTAATACTAATTA
32537702 TGCATTTGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
65 24 0.44
67 1 0.02
68 29 0.54
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.43
Consensus pattern (67 bp):
TGTGGTAATATTAGTTATGCACTTGGACAATGTTCTGTTATCATATGGTGTAATACTAATTACCA
TG
Found at i:32540179 original size:19 final size:19
Alignment explanation
Indices: 32540155--32540192 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32540145 AAAATAAATA
32540155 AAGATTAGAAGGGGTTTTC
1 AAGATTAGAAGGGGTTTTC
*
32540174 AAGATTTGAAGGGGTTTTC
1 AAGATTAGAAGGGGTTTTC
32540193 GACAAAAGCA
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:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (19 bp):
AAGATTAGAAGGGGTTTTC
Found at i:32540963 original size:18 final size:17
Alignment explanation
Indices: 32540940--32540973 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32540930 TTTCCCTGAT
*
32540940 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
32540958 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
32540974 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:32549508 original size:220 final size:220
Alignment explanation
Indices: 32549126--32550368 Score: 1896
Period size: 220 Copynumber: 5.7 Consensus size: 220
32549116 CAGGCTAAAG
* * * * * * **
32549126 CATAGCAGATTT-GATCTTCAGGTGTTTGCGCTGAAGCGGATCCAAGATGATTTAACATCTCTGT
1 CATAGCAGATTTGGCT-TTCACGTGTGTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGT
* * * * *
32549190 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAA
65 ACTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
* *
32549255 GACATAGCAGATCTAACTTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGTATCCT
130 GACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
32549320 TGCGTTGACAAGGAGCAGATCGAAGA
195 TGCGTTGACAAGGAGCAGATCGAAGA
* * *
32549346 CATAGCAAATTTGGCTTTCACGTGTTTACGCTGAAGCGGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
32549411 CTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
32549476 ACATAGCAGATCTAACCTTCGGATCTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* * *
32549541 GTGTTGATAAGGAGCAGATTGAAGA
196 GCGTTGACAAGGAGCAGATCGAAGA
* * * *
32549566 CATAGCAGATTTGGCTTTCACGTGTGTACACTGAAGTAGATCTAAGATGATTTGACATCTCTATA
1 CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * * *
32549631 CTGTCAGAGAAAAAATCAAAGAAATAGATTTGGCATCTCCATAGTCGACGGAGAGTAGATCGAAG
66 CTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
32549696 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
32549761 GCGTTGACAAGGAGCAGATCAAAGA
196 GCGTTGACAAGGAGCAGATCGAAGA
* ** * *
32549786 CATAGCAGATTTGGCTTCCACGTGTGTATACTGAAGTAGATCTAAGATGATTTGGCATCTTTGTA
1 CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
32549851 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 CTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
32549916 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
32549981 GCGTTGACAAGGAGCAGATCGAAGA
196 GCGTTGACAAGGAGCAGATCGAAGA
* *
32550006 CATAGCAGATTTGGCTTTCACTTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
32550071 CTATCAGAGAACAAATTAAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
66 CTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
*
32550136 ACATAGCAGATCTAACCTTCAGATCTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* * *
32550201 GCATTGACAAGAAGTAGATCGAAGA
196 GCGTTGACAAGGAGCAGATCGAAGA
*
32550226 CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGCTA-A---GAGATTGATTTGGCATCTCTG
1 CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGC-AGATCTAAGA-TGATTTGGCATCTCTG
*
32550287 T-C-A-C--AG-AAAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGA
64 TACTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGA
* *
32550346 AGACATAGCAGATATGACCTTCA
129 AGACATAGCAGATCTAACCTTCA
32550369 TTGAAGCAGA
Statistics
Matches: 949, Mismatches: 71, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
212 70 0.07
213 2 0.00
215 1 0.00
216 1 0.00
217 4 0.00
218 17 0.02
220 851 0.90
221 3 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTGTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
CTATCAGAGAAAAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTGACAAGGAGCAGATCGAAGA
Found at i:32550032 original size:89 final size:87
Alignment explanation
Indices: 32549903--32550064 Score: 216
Period size: 89 Copynumber: 1.8 Consensus size: 87
32549893 ATTCGACGGA
* * *
32549903 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCACATGTTTACAC-T-GAAGCAGATCCAAGATG
32549968 ATTTGGCATCCTTGCGTTGACAAG
64 ATTTGGCATCCTTGCGTTGACAAG
* ** * * * *
32549992 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACTTGTTTACGCTGAAGCAGATCTAAGATGAT
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCCAAGATGAT
32550057 TTGGCATC
66 TTGGCATC
32550065 TCTGTACTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 37 0.59
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCACATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTGACAAG
Found at i:32550443 original size:78 final size:78
Alignment explanation
Indices: 32550309--32550681 Score: 642
Period size: 78 Copynumber: 4.8 Consensus size: 78
32550299 CGAAGAAACA
* * * *
32550309 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATATGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
32550374 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
32550387 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
32550451 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
32550465 GATTTGGCATCTTTATATTAGACGGGGAGCAGATCGAAGACATATCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
32550530 GCAGATCCAAGAT
66 GCAGATCCAAGAT
32550543 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
32550607 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
32550621 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
32550682 GTGTTTACAT
Statistics
Matches: 281, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
77 2 0.01
78 277 0.99
79 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:32550866 original size:89 final size:89
Alignment explanation
Indices: 32550712--32550875 Score: 276
Period size: 89 Copynumber: 1.8 Consensus size: 89
32550702 CCAAGATGAC
*
32550712 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTATATT
32550777 AGACAGGGAGCAAATTGAAGAAGT
66 AGACAGGGAGCAAATTGAAGAAGT
* *
32550801 AGATTTGGCGTCTCTGTATTAGACGGGGAG-AAGATCGAAGATAACAGATTTGGCGTCTCTATAT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAA-ATCGAAGATAACAGATTTGGCATCTCTATAT
*
32550865 TAGACGGGGAG
65 TAGACAGGGAG
32550876 TAGATCAATG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 2 0.03
89 68 0.97
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (89 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTATATT
AGACAGGGAGCAAATTGAAGAAGT
Found at i:32550881 original size:45 final size:45
Alignment explanation
Indices: 32550621--32550894 Score: 261
Period size: 45 Copynumber: 6.1 Consensus size: 45
32550611 GATCCAAGAT
*
32550621 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
32550668 GATCTGACCT-TCATGTGTTTACATC--GAAACAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
*
32550713 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * **
32550758 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATTGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
32550802 GATTTGGCGTCTCTGTATTAGACGGGGAGAAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
32550847 GATTTGGCGTCTCTATATTAGACGGGGAGTAGATC-AATGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA-GATAACA
32550892 GAT
1 GAT
32550895 ATCGCCTTCC
Statistics
Matches: 185, Mismatches: 34, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.01
44 43 0.23
45 111 0.60
46 4 0.02
47 21 0.11
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:32551317 original size:35 final size:37
Alignment explanation
Indices: 32551246--32551343 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
32551236 ATAATCTTCA
32551246 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
32551284 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
32551319 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
32551344 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:32551343 original size:17 final size:19
Alignment explanation
Indices: 32551246--32551336 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
32551236 ATAATCTTCA
32551246 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32551265 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32551284 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32551301 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
32551319 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
32551337 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:32551362 original size:22 final size:22
Alignment explanation
Indices: 32551246--32551359 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
32551236 ATAATCTTCA
32551246 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32551265 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32551284 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32551301 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
32551319 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
32551341 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
32551360 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:32551650 original size:17 final size:17
Alignment explanation
Indices: 32551626--32551660 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32551616 TGTTTCCCTG
*
32551626 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
32551644 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
32551661 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:32553428 original size:21 final size:22
Alignment explanation
Indices: 32553402--32553442 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32553392 TAAATTAATT
32553402 ATTTAAA-AATTTTATTTTTAA
1 ATTTAAAGAATTTTATTTTTAA
*
32553423 ATTTAAAGAGTTTTATTTTT
1 ATTTAAAGAATTTTATTTTT
32553443 TCATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
ATTTAAAGAATTTTATTTTTAA
Found at i:32557887 original size:16 final size:16
Alignment explanation
Indices: 32557859--32557919 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
32557849 CTTGTTTTTA
32557859 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
32557877 TATTT-TATTATATAT
1 TATTTATATTATAAAT
*
32557892 TATTTATATTAT-TAT
1 TATTTATATTATAAAT
32557907 TATTATATATTAT
1 TATT-TATATTAT
32557920 TTTTCACAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
15 15 0.38
16 20 0.50
17 1 0.03
18 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:32557890 original size:25 final size:23
Alignment explanation
Indices: 32557854--32557921 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 23
32557844 TTAACCTTGT
32557854 TTTTA-TATTATATATTATAAAATTA
1 TTTTATTA-TATATATT-T-AAATTA
*
32557879 TTTTATTATATATTATTTATATTA
1 TTTTATTATATA-TATTTAAATTA
32557903 TTATTATTATATATTATTT
1 TT-TTATTATATA-TATTT
32557922 TTCACAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 7 0.18
25 26 0.67
26 6 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTATTATATATATTTAAATTA
Found at i:32557895 original size:3 final size:3
Alignment explanation
Indices: 32557875--32558090 Score: 87
Period size: 3 Copynumber: 70.3 Consensus size: 3
32557865 ATATTATAAA
32557875 ATT ATT -TT ATT ATAT ATT ATT -TAT ATT ATT ATT ATT ATAT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT AT-T ATT ATT
* ** * *
32557921 TTT CACA AGTT ATT ATT ATT -TT A-C ATC ATT ATAT ATT ATT A-T ATT
1 ATT -ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
*
32557966 A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT -TT ATAT ATT CTT -TT A-T
1 ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT AT-T ATT ATT ATT ATT
* * *
32558010 ATT ATAT ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT TTT A-T ATT
1 ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT ATT ATT ATT
* * *
32558057 ATT ATAC ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
32558091 AAGGTTTTAA
Statistics
Matches: 163, Mismatches: 22, Indels: 56
0.68 0.09 0.23
Matches are distributed among these distances:
2 21 0.13
3 104 0.64
4 37 0.23
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:32557957 original size:20 final size:20
Alignment explanation
Indices: 32557908--32557960 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
32557898 TATTATTATT
*
32557908 ATTATATATTATTTTTCACA
1 ATTATATATTATTTTACACA
32557928 AGTTAT-TATTATTTTACATC-
1 A-TTATATATTATTTTACA-CA
32557948 ATTATATATTATT
1 ATTATATATTATT
32557961 ATATTATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 20 0.69
21 5 0.17
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTATATATTATTTTACACA
Found at i:32557975 original size:23 final size:22
Alignment explanation
Indices: 32557857--32558058 Score: 97
Period size: 23 Copynumber: 9.0 Consensus size: 22
32557847 ACCTTGTTTT
* *
32557857 TATATTATATATTATAAAATTA
1 TATATTATATATTATTATATTA
*
32557879 TTTTATTATATATTATTTATATTA
1 -TATATTATATATTA-TTATATTA
32557903 TTATTATTATATATTATT-T-TTCA
1 -TA-TATTATATATTATTATATT-A
*
32557926 CA-AGTTAT-TATTA-T-T-TTA
1 TATA-TTATATATTATTATATTA
*
32557944 CATCATTATATATTATTATATTA
1 TAT-ATTATATATTATTATATTA
32557967 TATGTTTATTATATATTA-TATATTA
1 TA----TATTATATATTATTATATTA
*
32557992 T-T-TTATATATTCTTTTATATTA
1 TATATTATATA-T-TATTATATTA
*
32558014 TATATTATA-ATTATTTTA-TA
1 TATATTATATATTATTATATTA
*
32558034 TATTATTA-AGTCATTTTTATATTA
1 TA-TATTATA-T-ATTATTATATTA
32558058 T
1 T
32558059 TATACATTTT
Statistics
Matches: 144, Mismatches: 11, Indels: 47
0.71 0.05 0.23
Matches are distributed among these distances:
18 3 0.02
19 15 0.10
20 19 0.13
21 16 0.11
22 13 0.09
23 28 0.19
24 18 0.12
25 20 0.14
26 11 0.08
27 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (22 bp):
TATATTATATATTATTATATTA
Found at i:32557986 original size:33 final size:29
Alignment explanation
Indices: 32557948--32558021 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 29
32557938 ATTTTACATC
*
32557948 ATTATATATTATTATATTATATGTTTATTATAT
1 ATTATATATTATTATA-TATAT-TCT-TT-TAT
*
32557981 ATTATATATTATTTTATATATTCTTTTAT
1 ATTATATATTATTATATATATTCTTTTAT
32558010 ATTATATATTAT
1 ATTATATATTAT
32558022 AATTATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 15 0.38
30 2 0.05
31 2 0.05
32 5 0.13
33 15 0.38
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTATATATTATTATATATATTCTTTTAT
Found at i:32558001 original size:47 final size:47
Alignment explanation
Indices: 32557949--32558040 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 47
32557939 TTTTACATCA
*
32557949 TTATATA-T-TATTATATTATATGTT-T-ATTATATATTATATATTATT
1 TTATATATTCTATTATATTATATATTATAATTAT-T-TTATATATTATT
*
32557994 TTATATATTCTTTTATATTATATATTATAATTATTTTATATATTATT
1 TTATATATTCTATTATATTATATATTATAATTATTTTATATATTATT
32558041 AAGTCATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
45 7 0.17
46 1 0.02
47 26 0.63
48 2 0.05
49 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (47 bp):
TTATATATTCTATTATATTATATATTATAATTATTTTATATATTATT
Found at i:32558054 original size:75 final size:74
Alignment explanation
Indices: 32557854--32558083 Score: 188
Period size: 73 Copynumber: 3.0 Consensus size: 74
32557844 TTAACCTTGT
*
32557854 TTTTATATTATATATTATAAAATTATTTTATTATATATTATTTA-TATTATTAT-TATTATATAT
1 TTTTATATTATATATTAT--AATTA--TT-TTATATATTATTAAGTATTATTATATATTATATAT
*
32557917 TATTTT-TCACAAGTTA
61 TATTTTAT-A-TA-TTA
* * * *
32557933 TTATTATTTTACATCATTAT-A-TATTAT-TATATTA-TATGT-TTATTATATATTATATATTAT
1 TT-TTATATTATAT-ATTATAATTATTTTATATATTATTAAGTATTATTATATATTATATATTAT
*
32557993 TTTATATATTC
64 TTTATATATTA
* * *
32558004 TTTTATATTATATATTATAATTATTTTATATATTATTAAGTCATTTTTATATTATTATACATTTT
1 TTTTATATTATATATTATAATTATTTTATATATTATTAAGT-ATTATTATA-TATTATATATTAT
32558069 TATCTATATATTA
64 T-T-TATATATTA
32558082 TT
1 TT
32558084 ATCATTAAAG
Statistics
Matches: 122, Mismatches: 15, Indels: 29
0.73 0.09 0.17
Matches are distributed among these distances:
69 5 0.04
70 10 0.08
71 9 0.07
72 16 0.13
73 29 0.24
74 2 0.02
75 9 0.07
76 12 0.10
77 3 0.02
78 11 0.09
79 2 0.02
80 9 0.07
81 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (74 bp):
TTTTATATTATATATTATAATTATTTTATATATTATTAAGTATTATTATATATTATATATTATTT
TATATATTA
Found at i:32558055 original size:54 final size:55
Alignment explanation
Indices: 32557952--32558056 Score: 130
Period size: 54 Copynumber: 1.9 Consensus size: 55
32557942 TACATCATTA
*
32557952 TATATTATTATATTATATGTTTATTATATATTATATATTATTTTATATATTCTTT
1 TATATTATTATATTATATGTTTATTATATATTATATATCATTTTATATATTCTTT
32558007 TATATTA-TATATTATAAT-TATT-TTATATATTAT-TAAGTCATTTT-TATATT
1 TATATTATTATATTAT-ATGT-TTATTATATATTATAT-A-TCATTTTATATATT
32558057 ATTATACATT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
53 1 0.02
54 27 0.60
55 17 0.38
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (55 bp):
TATATTATTATATTATATGTTTATTATATATTATATATCATTTTATATATTCTTT
Found at i:32558062 original size:52 final size:53
Alignment explanation
Indices: 32557884--32558062 Score: 122
Period size: 55 Copynumber: 3.3 Consensus size: 53
32557874 AATTATTTTA
* * * *
32557884 TTATATATTATTTATATTATTATTATTATAT-ATTATTTTTCACAAGTTAT-TATTATT
1 TTATATATTA-TTATATTATTA-TATTATATGTTTA-TTAT-A-TA-TTATATATCATT
* *
32557941 TTACATCATTA-TATATTATTATATTATATGTTTATTATATATTATATATTATT
1 TTATAT-ATTATTATATTATTATATTATATGTTTATTATATATTATATATCATT
*
32557994 TTATATATTCTTTTATATTA-TATATTATAAT-TATT-TTATATATTAT-TAAGTCATT
1 TTATATA-T-TATTATATTATTATATTAT-ATGT-TTATTATATATTATAT-A-TCATT
32558049 TT-TATATTATTATA
1 TTATATATTATTATA
32558063 CATTTTTATC
Statistics
Matches: 104, Mismatches: 8, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
52 11 0.11
53 16 0.15
54 27 0.26
55 28 0.27
56 13 0.12
57 5 0.05
58 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (53 bp):
TTATATATTATTATATTATTATATTATATGTTTATTATATATTATATATCATT
Found at i:32558408 original size:26 final size:25
Alignment explanation
Indices: 32558361--32558409 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
32558351 TTATAAATAC
* * *
32558361 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
32558386 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
32558410 TATTATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:32562162 original size:15 final size:15
Alignment explanation
Indices: 32562126--32562175 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
32562116 CGATATCCTT
32562126 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
32562140 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
32562156 TTT-CATCAT-AT-CA
1 TTTGCATC-TCATGCA
32562169 TTTGCAT
1 TTTGCAT
32562176 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 10 0.31
16 7 0.22
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:32565191 original size:28 final size:28
Alignment explanation
Indices: 32565151--32565208 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
32565141 AAGAAAAAGG
32565151 GAGTGAAATTATGAAATAGGACCTATGT
1 GAGTGAAATTATGAAATAGGACCTATGT
32565179 GAGTGAAATTATGAAATAGGACCTATGT
1 GAGTGAAATTATGAAATAGGACCTATGT
32565207 GA
1 GA
32565209 AAATGTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.28
Consensus pattern (28 bp):
GAGTGAAATTATGAAATAGGACCTATGT
Found at i:32565400 original size:26 final size:26
Alignment explanation
Indices: 32565371--32565426 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
32565361 TGGTACAAAT
32565371 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
32565397 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
32565423 TGAT
1 TGAT
32565427 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:32567135 original size:54 final size:53
Alignment explanation
Indices: 32567048--32567185 Score: 204
Period size: 54 Copynumber: 2.5 Consensus size: 53
32567038 AAGCATCCCG
32567048 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
* *
32567102 GTGGTTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
* * *
32567156 GTGGCTCTTCCACAATATCTGTATCTGGTG
1 GTGGCTATGCCACATTATCTG-ATCTGGTG
32567186 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 7 0.09
54 69 0.91
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
Found at i:32567181 original size:32 final size:27
Alignment explanation
Indices: 32567047--32567185 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
32567037 GAAGCATCCC
*
32567047 GGTGGCTATGCCACA-ATTATCTGATCT
1 GGTGGCTCTGCCACATA-TATCTGATCT
*
32567074 GGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTCTGCCACATATATCTGATCT
* * *
32567101 AGTGGTTATGCCACGAT-TATCTGATCT
1 GGTGGCTCTGCCAC-ATATATCTGATCT
*
32567128 GGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTCTGCCACATATATCTGATCT
*
32567155 GGTGGCTCTTCCACA-ATATCTGTATCT
1 GGTGGCTCTGCCACATATATCTG-ATCT
32567182 GGTG
1 GGTG
32567186 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.09
27 84 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
GGTGGCTCTGCCACATATATCTGATCT
Found at i:32567196 original size:27 final size:26
Alignment explanation
Indices: 32567058--32567203 Score: 102
Period size: 27 Copynumber: 5.4 Consensus size: 26
32567048 GTGGCTATGC
*
32567058 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
* * * *
32567085 CACATATATCTGT-TCTAGTGGTTATGC
1 CACA-ATATCTGTATCTGGTGGCT-CGT
* *
32567112 CACGATTATCTG-ATCTGGTGGCTCTGC
1 CAC-AATATCTGTATCTGGTGGCTC-GT
*
32567139 CACATATATCTGT-TCTGGTGGCTCTT
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
32567165 CCACAATATCTGTATCTGGTGACTTCGT
1 -CACAATATCTGTATCTGGTGGC-TCGT
32567193 CACAATATCTG
1 CACAATATCTG
32567204 GCAGCCTCGC
Statistics
Matches: 96, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
26 9 0.09
27 82 0.85
28 5 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:32571770 original size:32 final size:27
Alignment explanation
Indices: 32571688--32571774 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
32571678 AGGAAGCGTC
*
32571688 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
32571715 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
32571742 CTGGTGGCTCTTCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
32571769 CTGGTG
1 CTGGTG
32571775 ACTTCGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.17
27 45 0.83
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:32571785 original size:27 final size:26
Alignment explanation
Indices: 32571707--32571792 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 26
32571697 ATGCCACGAT
*
32571707 TATCTG-ATCTGGTGGCTCTGCCACATA
1 TATCTGTATCTGGTGGCTC-GTCACA-A
*
32571734 TATCTGT-TCTGGTGGCTCTTCCACAA
1 TATCTGTATCTGGTGGCTCGT-CACAA
*
32571760 TATCTGTATCTGGTGACTTCGTCACAA
1 TATCTGTATCTGGTGGC-TCGTCACAA
32571787 TATCTG
1 TATCTG
32571793 GCAGCCTCAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
26 8 0.16
27 40 0.78
28 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TATCTGTATCTGGTGGCTCGTCACAA
Found at i:32578643 original size:209 final size:210
Alignment explanation
Indices: 32578112--32578878 Score: 1050
Period size: 209 Copynumber: 3.7 Consensus size: 210
32578102 CTTCATCAGG
* *
32578112 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGACATAGCTG
* *
32578177 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
* * * * * * *
32578242 GAACAAATCAAAGTTTGGCATTTCCACTTTGATAT-AAG-GCAAACACATAGCAGATCTTACCTT
131 GAACAAATCGAAGTCTGGCATCTCCAC-TTCA-ATGGAGAGCAGACACATAGCAGATCTCACCTT
* *
32578305 TAGATGTTTACGCTGAA
194 CAGATGTTTACACTGAA
* * * * *
32578322 GCAGATCCAAGATTACAGTTCTTATCTCTCTGTATTCGGTGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGACATAGCTG
32578387 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
*
32578452 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAACAGACACATAGCAG-TCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACCTTCA
32578516 GATGTTTACACTGAA
196 GATGTTTACACTGAA
*
32578531 GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGACATAGCTG
* *
32578596 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTTTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
* * *
32578661 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAGATCTGACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACCTTCA
* * *
32578726 GACGATTAGACTGAA
196 GATGTTTACACTGAA
* ** ** * * ** *
32578741 GCAAGATCTAAGATG--ATTTCGCATC-CT-TGTGCTT--ACAAGGA-CAAATCAAAGACATAGC
1 GC-AGATCCAAGATGACAGATCTTATCTCTCTGT-ATTCGGCGGGGAGCAGATCAAAGACATAGC
* * * *
32578799 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTATCA
64 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCA
32578864 GAGAACAAATCGAAG
129 GAGAACAAATCGAAG
32578879 AAGCAGATTT
Statistics
Matches: 506, Mismatches: 46, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
205 90 0.18
206 4 0.01
207 3 0.01
208 6 0.01
209 206 0.41
210 186 0.37
211 11 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCAAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACACTGAA
Found at i:32580051 original size:19 final size:19
Alignment explanation
Indices: 32580027--32580196 Score: 74
Period size: 19 Copynumber: 8.8 Consensus size: 19
32580017 TAAAACTATT
32580027 TTATTATATATTATTTATA
1 TTATTATATATTATTTATA
32580046 TTATTAT-TATTTATTATATA
1 TTATTATATA-TTATT-TATA
* *
32580066 TTATTTTTCACAAGTTA-TTATTA
1 TTA-TTAT-A-TA-TTATTTA-TA
*
32580089 TT-TTACATCATTATTTATA
1 TTATTATAT-ATTATTTATA
* *
32580108 -TATTATTATATTATATGT-
1 TTATTA-TATATTATTTATA
32580126 TTATTATATATTTATATTAT-
1 TTATTATATA-TTAT-TTATA
*
32580146 TT-TTATATA-TATGCTTTTA
1 TTATTATATATTAT--TTATA
*
32580165 -TATTATATATTA-TAATTA
1 TTATTATATATTATTTA-TA
32580183 TT-TTATATATTATT
1 TTATTATATATTATT
32580197 AAGTCATTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 42
0.67 0.09 0.24
Matches are distributed among these distances:
17 4 0.03
18 23 0.20
19 52 0.45
20 20 0.17
21 5 0.04
22 2 0.02
23 5 0.04
24 4 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATTATATATTATTTATA
Found at i:32580212 original size:19 final size:19
Alignment explanation
Indices: 32580167--32580216 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
32580157 TGCTTTTATA
*
32580167 TTATATATTA-TAATTATT
1 TTATATATTATTAATCATT
32580185 TTATATATTATTAAGTCATT
1 TTATATATTATTAA-TCATT
32580205 TT-TATATTATTA
1 TTATATATTATTA
32580217 TACATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATATTATTAATCATT
Found at i:32580238 original size:21 final size:20
Alignment explanation
Indices: 32580108--32580238 Score: 84
Period size: 18 Copynumber: 6.7 Consensus size: 20
32580098 ATTATTTATA
*
32580108 TATTATTATATTAT--ATGTT
1 TATTA-TATATTATACATTTT
*
32580127 TATTATATATT-TATATTATT
1 TATTATATATTATACATT-TT
*
32580147 T-TTATATA-TATGC-TTTT
1 TATTATATATTATACATTTT
*
32580164 ATATTATATATTATA-ATTAT
1 -TATTATATATTATACATTTT
32580184 T-TTATATATTATTAAGTCATTTT
1 TATTATATATTA-T-A--CATTTT
32580207 TA-TAT-TATTATACATTTT
1 TATTATATATTATACATTTT
32580225 TATCTATATATTAT
1 TAT-TATATATTAT
32580239 TATCATTAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
17 3 0.03
18 28 0.31
19 24 0.27
20 14 0.16
21 7 0.08
22 5 0.06
23 8 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATATATTATACATTTT
Found at i:32580622 original size:63 final size:61
Alignment explanation
Indices: 32580502--32580622 Score: 133
Period size: 62 Copynumber: 2.0 Consensus size: 61
32580492 CATTTTTATT
* *
32580502 ATATATTATATTTTAAAATTATTATTAAATATCACATTTTTATTATTTTTTTATATTATAC
1 ATATATTATATTTTAAAATTATTATTAAATATCACATATTTATTATTTCTTTATATTATAC
*
32580563 ATATATT-T-TTTTAAAACTTATTATTATTATTAT-ACAATATTTATT-TTTACTTTAGTATTA
1 ATATATTATATTTTAAAA-TTATTATTA--AATATCAC-ATATTTATTATTT-CTTTA-TATTA
32580623 ATGTATTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
59 8 0.16
60 10 0.20
61 12 0.24
62 16 0.31
63 5 0.10
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (61 bp):
ATATATTATATTTTAAAATTATTATTAAATATCACATATTTATTATTTCTTTATATTATAC
Found at i:32583154 original size:15 final size:16
Alignment explanation
Indices: 32583129--32583167 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
32583119 CAGTCTTATT
*
32583129 GTTTTCCTTTTTTT-C
1 GTTTTTCTTTTTTTGC
32583144 -TTTTTCTTTTTTTGC
1 GTTTTTCTTTTTTTGC
32583159 GTTTTTCTT
1 GTTTTTCTT
32583168 CTTTAGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (16 bp):
GTTTTTCTTTTTTTGC
Found at i:32583996 original size:18 final size:18
Alignment explanation
Indices: 32583970--32584004 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32583960 GTTTTTTTAT
* *
32583970 TGTTTATATTATTTGTAA
1 TGTTAATATTAATTGTAA
32583988 TGTTAATATTAATTGTA
1 TGTTAATATTAATTGTA
32584005 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTAATATTAATTGTAA
Found at i:32589360 original size:21 final size:21
Alignment explanation
Indices: 32589336--32589375 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32589326 CAAAGGCATT
32589336 CAAAAAGA-AAAAACAAAAGTA
1 CAAAAAGAGAAAAA-AAAAGTA
*
32589357 CAAAAATAGAAAAAAAAAG
1 CAAAAAGAGAAAAAAAAAG
32589376 GAAAAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (21 bp):
CAAAAAGAGAAAAAAAAAGTA
Found at i:32591131 original size:64 final size:64
Alignment explanation
Indices: 32591053--32591183 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 64
32591043 ATATATCATT
* * *
32591053 CATCACATCTAGTTA-GATGTATTTGATTTATTTTGATCATAGCATCCTAATTATTTGACATAAG
1 CATCACATCTAGTTAGGA-GCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAG
*
32591117 CATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGGCATAAG
1 CATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAG
32591181 CAT
1 CAT
32591184 GATACATGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 60 0.97
65 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (64 bp):
CATCACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAACATCCTAATTATTTGACATAAG
Found at i:32591699 original size:176 final size:175
Alignment explanation
Indices: 32591391--32591949 Score: 785
Period size: 176 Copynumber: 3.2 Consensus size: 175
32591381 GCAGTGGAGT
* * * * *
32591391 AGACTGAAGACTGAAAGATCTTATCTCCCTAAGTAGTAGCAGAGCAGACCAAAGATGGCGAATCT
1 AGACTGAAGATTG-AAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGGATGGCGAATCT
* * * *
32591456 TATCTCCATATATCGGCAATGGAGCAGATTTTAGCCGCTGACCTTATCTCTCTAAGGTAGCAAGA
65 TATCTCCATGTATCGGCAATAGAGCAGATTTTAG-CACTGACCTTATCTCTCTGAGGTAGCAAGA
* *
32591521 GAGCAGGTTGAAAAATGAGTCTTATTTTCCTAAGGTAGCAAGGAAGC
129 GAGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGC
*
32591568 AGACTGAATATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGGATGGCGAATCTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGGATGGCGAATCTT
* *
32591633 ATCTCCATGTATCGGCAATAGAGTAGATTTTAGTCACTGACCTTATTTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGCAATAGAGCAGATTTTAG-CACTGACCTTATCTCTCTGAGGTAGCAAGAG
* * * *
32591698 AGCAGGTTGAAGAATGAGTATTATCTTCTTAAGGCAGCAAGGAAGT
130 AGCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGC
* * * * *
32591744 AAACTGAAGATTGAAAATCTTATCTCTCTAAGCAGTAGCAGAGAAGATCGAGGATGACGAATCTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGGATGGCGAATCTT
* *
32591809 ATCTCTATGTATCGGCAATAGAGCAGATTTTAGCTATTGACCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGCAATAGAGCAGATTTTAGC-ACTGACCTTATCTCTCTGAGGTAGCAAGAG
** * *
32591874 AGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
130 AGCAGGTTGAAGAATG-AGTCTTATCTTCCTAAGGTAGCAAGGAAGC
* * *
32591921 AGACTAAAGATTGAAGATATTATTTCCCT
1 AGACTGAAGATTGAAGATCTTATCTCCCT
32591950 GAACAGAAAA
Statistics
Matches: 337, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
175 1 0.00
176 277 0.82
177 59 0.18
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (175 bp):
AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAGGATGGCGAATCTT
ATCTCCATGTATCGGCAATAGAGCAGATTTTAGCACTGACCTTATCTCTCTGAGGTAGCAAGAGA
GCAGGTTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGC
Found at i:32592319 original size:181 final size:175
Alignment explanation
Indices: 32592062--32592416 Score: 419
Period size: 181 Copynumber: 2.0 Consensus size: 175
32592052 AGATTTTATT
* * * *
32592062 ACTAGCCTCATTTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTCCTTAGAT
1 ACTAGCCTCATCTCTCTGAGCTAGCAAGAGAGAAGGTTGAAGAATGAGTCTTATCTTCCTAAGAT
* * *
32592127 AGCAAGGAAGCAGACTGAGAA-TTGAAGATTTTATCTCCCTGAGATTGCAGCGGAGCAGATCTTC
66 AGCAAGGAAGCAGACT-A-AAGTTGAAGATCTTATCTCCCTAAG-TAGCAGCGGAGCAGA---TC
* *
32592191 GCAG-ATGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGAC
125 G-AGAATGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTAAGAC
* * * *
32592242 ACTAGCCTTATCTCTCTGAGCTAGCAAGAGAGTAAGTTTG-CGATTGTAGTCTTATCTTCCTAAG
1 ACTAGCCTCATCTCTCTGAGCTAGCAAGAGAG-AAGGTTGAAGAATG-AGTCTTATCTTCCTAAG
* ** *
32592306 GTAGCAAGGAAGCAGACTAAAGTTTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCGAG
64 ATAGCAAGGAAGCAGACTAAAG-TTGAAGATCTTATCTCCCTAAGTAGCAGCGGAGCAGATCGAG
* * *
32592371 AATGGCGACTCTTATCTCCATGTATTGGCAATGGAGCAGATCTAAG
128 AATGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTAAG
32592417 TCATTAAGCT
Statistics
Matches: 150, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
176 2 0.01
177 43 0.29
179 2 0.01
180 45 0.30
181 58 0.39
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (175 bp):
ACTAGCCTCATCTCTCTGAGCTAGCAAGAGAGAAGGTTGAAGAATGAGTCTTATCTTCCTAAGAT
AGCAAGGAAGCAGACTAAAGTTGAAGATCTTATCTCCCTAAGTAGCAGCGGAGCAGATCGAGAAT
GACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATCTAAGAC
Found at i:32593888 original size:18 final size:18
Alignment explanation
Indices: 32593841--32593889 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
32593831 TTTGTTTTTT
*
32593841 TATTGTTTATATTATTTG
1 TATTGTTTATATTAATTG
* *
32593859 TAATGTTAATATTAATTG
1 TATTGTTTATATTAATTG
*
32593877 TATTATTTATATT
1 TATTGTTTATATT
32593890 GTTGGTTACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
TATTGTTTATATTAATTG
Found at i:32598982 original size:12 final size:12
Alignment explanation
Indices: 32598965--32598992 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32598955 CACACAGTCA
32598965 TGTGACAGGCCG
1 TGTGACAGGCCG
32598977 TGTGACAGGCCG
1 TGTGACAGGCCG
32598989 TGTG
1 TGTG
32598993 CACTACACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.21, G:0.43, T:0.21
Consensus pattern (12 bp):
TGTGACAGGCCG
Found at i:32600121 original size:43 final size:43
Alignment explanation
Indices: 32600073--32600160 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
32600063 CCAAAAGGTA
32600073 AGAAACTAACTATCATGGCTGCCAGTTTAGCTTTACCATATGC
1 AGAAACTAACTATCATGGCTGCCAGTTTAGCTTTACCATATGC
32600116 AGAAACTAACTATCATGGCTGCCAGTTTAGCTTTACCATATGC
1 AGAAACTAACTATCATGGCTGCCAGTTTAGCTTTACCATATGC
32600159 AG
1 AG
32600161 CAGGCATCCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
AGAAACTAACTATCATGGCTGCCAGTTTAGCTTTACCATATGC
Found at i:32606509 original size:13 final size:13
Alignment explanation
Indices: 32606491--32606517 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32606481 GCCGACAACA
32606491 GCAATAGCCCTTT
1 GCAATAGCCCTTT
32606504 GCAATAGCCCTTT
1 GCAATAGCCCTTT
32606517 G
1 G
32606518 GTGACCCGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (13 bp):
GCAATAGCCCTTT
Found at i:32614382 original size:10 final size:10
Alignment explanation
Indices: 32614367--32614392 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32614357 ACTTTTCAGA
32614367 AATTATTTTC
1 AATTATTTTC
32614377 AATTATTTTC
1 AATTATTTTC
32614387 AATTAT
1 AATTAT
32614393 GGACCGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTATTTTC
Found at i:32628421 original size:16 final size:16
Alignment explanation
Indices: 32628397--32628435 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32628387 TAAATCAAAT
32628397 GGCAAAGATTGTGTTA
1 GGCAAAGATTGTGTTA
* *
32628413 GGCATAGATTGTTTTA
1 GGCAAAGATTGTGTTA
32628429 GGTCAAA
1 GG-CAAA
32628436 TTATGGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (16 bp):
GGCAAAGATTGTGTTA
Found at i:32632933 original size:37 final size:37
Alignment explanation
Indices: 32632892--32632994 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 37
32632882 TTACTACCCT
* * * * *
32632892 ATTGAGTACATGTTATGCATGTCATTGCCAGTGTTGA
1 ATTGAATACATGTTAAGCATGTCACTGCCAATGTTAA
*
32632929 ATTGAATACATGTTAAGCATGTCCACTGCTAATGTTAA
1 ATTGAATACATGTTAAGCATGT-CACTGCCAATGTTAA
*
32632967 ACTGAATACATGTTAAGCATGTCTACTG
1 ATTGAATACATGTTAAGCATGTC-ACTG
32632995 TTTTGCATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
37 21 0.37
38 36 0.63
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (37 bp):
ATTGAATACATGTTAAGCATGTCACTGCCAATGTTAA
Found at i:32633781 original size:17 final size:16
Alignment explanation
Indices: 32633748--32633792 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
32633738 AAAGCAAAAT
*
32633748 TATATAAAAAAGTATA
1 TATATAAAAAATTATA
*
32633764 TTTATAAAAAATTGATA
1 TATATAAAAAATT-ATA
32633781 TATATAAAAAAT
1 TATATAAAAAAT
32633793 AAAGTTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
TATATAAAAAATTATA
Found at i:32636104 original size:53 final size:53
Alignment explanation
Indices: 32636041--32636148 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
32636031 TATTATTATT
32636041 TAGTTCACTGATAGTAAATAGAACTATACATTATAGGTATATGTTATTTTTAC
1 TAGTTCACTGATAGTAAATAGAACTATACATTATAGGTATATGTTATTTTTAC
32636094 TAGTTCACTGATAGTAAATAGAACTATACATTATAGGTATATGTTATTTTTAC
1 TAGTTCACTGATAGTAAATAGAACTATACATTATAGGTATATGTTATTTTTAC
32636147 TA
1 TA
32636149 TGTATACATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (53 bp):
TAGTTCACTGATAGTAAATAGAACTATACATTATAGGTATATGTTATTTTTAC
Found at i:32638196 original size:7 final size:7
Alignment explanation
Indices: 32638180--32638209 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
32638170 AAAAATTATT
*
32638180 TTTTAGA
1 TTTTAAA
32638187 TTTTAAA
1 TTTTAAA
32638194 TTTTAAA
1 TTTTAAA
32638201 TTTTAAA
1 TTTTAAA
32638208 TT
1 TT
32638210 CAATTGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (7 bp):
TTTTAAA
Found at i:32645932 original size:44 final size:43
Alignment explanation
Indices: 32645746--32645959 Score: 150
Period size: 44 Copynumber: 4.8 Consensus size: 43
32645736 GTGGAGCAAG
*
32645746 ATGAAGCTACAAATCCTATATCCCTAAAG-TGCAGTAGATCAGA
1 ATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTAGATCA-A
* * * * *
32645789 TTGAAGCTACAATTTCTATACCCCTGAAGTTGCAGT-GCATTGAA
1 ATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTAG-A-TCAA
* * * * * *
32645833 ATGAAACTACGATGGAAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAA
1 ATGAAGCTAC------AAATCCTATATCCCTGAAGTTGCAGTAGATCAA
32645882 GATGAAGCTA-AGAATCCTATATCCCTGAAGTTGCAGTAGATCAA
1 -ATGAAGCTACA-AATCCTATATCCCTGAAGTTGCAGTAGATCAA
*
32645926 ATTGAAGCTA-AAATTCCTATA-CCCGTAAAGTTGC
1 A-TGAAGCTACAAA-TCCTATATCCC-TGAAGTTGC
32645960 GGTGGGTTGG
Statistics
Matches: 133, Mismatches: 23, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
43 32 0.24
44 67 0.50
45 2 0.02
49 2 0.02
50 29 0.22
51 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTAGATCAA
Found at i:32646007 original size:138 final size:136
Alignment explanation
Indices: 32645713--32646014 Score: 367
Period size: 138 Copynumber: 2.2 Consensus size: 136
32645703 TGCGATAGTG
* **
32645713 AATCTTATCTCTCTAAAGTTTTAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTGC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTGC
* * * *
32645778 AGTAGATCAGATTGAAGCTACAATTTCTATACCCCTGAAGTTGCAGTGCATTGAAATGAAACTAC
66 AGTAGATCAAATTGAAGCTAAAATTCCTATACCCCTAAAGTTGCAGTGCATTGAAATGAAACTAC
*
32645843 GATGGAA
131 AAT-GAA
* * *
32645850 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGCTA-AGAATCCTATATCCCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA-AATCCTATATCCCTAAAG-T
* * ** * *
32645914 GCAGTAGATCAAATTGAAGCTAAAATTCCTATACCCGTAAAGTTGCGGTGGGTTGGAATGAAGCT
64 GCAGTAGATCAAATTGAAGCTAAAATTCCTATACCCCTAAAGTTGCAGTGCATTGAAATGAAACT
*
32645979 ATAACT-ACA
129 ACAA-TGA-A
32645988 AATCTTATGC-CCCTAAAGTTGCAGTGG
1 AATCTTAT-CTCCCTAAAGTTGCAGTGG
32646015 GTCGGATTGA
Statistics
Matches: 142, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
136 1 0.01
137 57 0.40
138 82 0.58
139 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (136 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTGC
AGTAGATCAAATTGAAGCTAAAATTCCTATACCCCTAAAGTTGCAGTGCATTGAAATGAAACTAC
AATGAA
Found at i:32646040 original size:50 final size:50
Alignment explanation
Indices: 32645951--32646064 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
32645941 CCTATACCCG
* * *
32645951 TAAAGTTGCGGTGGGTTGGAATGAAGCTATAACTACAAATCTTATGC-CCC
1 TAAAGTTGCAGTGGGTCGGAATGAAGCTACAACTACAAATCTTAT-CTCCC
* * *
32646001 TAAAGTTGCAGTGGGTCGGATTGAATCTACCA-TAGCAAATCTTATCTCCC
1 TAAAGTTGCAGTGGGTCGGAATGAAGCTACAACTA-CAAATCTTATCTCCC
*
32646051 TGAAGTTGCAGTGG
1 TAAAGTTGCAGTGG
32646065 AGCAAGATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 3 0.05
50 52 0.95
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
TAAAGTTGCAGTGGGTCGGAATGAAGCTACAACTACAAATCTTATCTCCC
Done.