Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 137 of 172
Found at i:45055952 original size:21 final size:21
Alignment explanation
Indices: 45055926--45055972 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
45055916 AAGATAGATT
*
45055926 AAAAAATAG-AGAA-AAAAGA
1 AAAAAAAAGAAGAAGAAAAGA
45055945 AAAAAAAAGAAGAAGAAAAGA
1 AAAAAAAAGAAGAAGAAAAGA
45055966 AAAAAAA
1 AAAAAAA
45055973 CCTTAGCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAGAAGAAAAGA
Found at i:45056256 original size:38 final size:35
Alignment explanation
Indices: 45056205--45056285 Score: 126
Period size: 38 Copynumber: 2.2 Consensus size: 35
45056195 GCATAGTGGT
45056205 GTAGGTGGCCAAGGTGGGTGGCCAACAAAGATGGTAGA
1 GTAGGTGGCCAAGGTGGGTGGCCAAC-AAG--GGTAGA
*
45056243 GTAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGA
1 GTAGGTGGCCAAGGTGGGTGGCCAACAAGGGTAGA
45056278 GTAGGTGG
1 GTAGGTGG
45056286 GATTAGGGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 13 0.31
37 3 0.07
38 26 0.62
ACGTcount: A:0.25, C:0.12, G:0.47, T:0.16
Consensus pattern (35 bp):
GTAGGTGGCCAAGGTGGGTGGCCAACAAGGGTAGA
Found at i:45056338 original size:12 final size:12
Alignment explanation
Indices: 45056321--45056345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45056311 TTGGGTTAGT
45056321 GTTTTGGGCTAA
1 GTTTTGGGCTAA
45056333 GTTTTGGGCTAA
1 GTTTTGGGCTAA
45056345 G
1 G
45056346 GGTTTTAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:45057689 original size:21 final size:20
Alignment explanation
Indices: 45057616--45057687 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
45057606 CTCTAAAAGG
*
45057616 TTTTATGAACTTTTTTTAAAT
1 TTTTATGAA-TTTTTTAAAAT
*
45057637 TTTTTTG-ATTTTTTAAAAAT
1 TTTTATGAATTTTTT-AAAAT
* *
45057657 ATTTAT-TATTATTTTAAAAT
1 TTTTATGAATT-TTTTAAAAT
45057677 TTTTATGAATT
1 TTTTATGAATT
45057688 ATATGTGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 6 0.15
20 22 0.54
21 13 0.32
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATGAATTTTTTAAAAT
Found at i:45058298 original size:15 final size:15
Alignment explanation
Indices: 45058278--45058319 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
45058268 ATGATTCTAA
*
45058278 TGAAATGTGATTTTT
1 TGAAATGTGATTATT
*
45058293 TGAAATGTTATTATT
1 TGAAATGTGATTATT
*
45058308 AGAAATGTGATT
1 TGAAATGTGATT
45058320 GTCGGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TGAAATGTGATTATT
Found at i:45060520 original size:10 final size:9
Alignment explanation
Indices: 45060494--45060524 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
45060484 TAGTGTGTTC
45060494 TTTATTTTA
1 TTTATTTTA
45060503 TTTATTTTA
1 TTTATTTTA
45060512 TTCTATTTTA
1 TT-TATTTTA
45060522 TTT
1 TTT
45060525 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:45061362 original size:23 final size:23
Alignment explanation
Indices: 45061325--45061456 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
45061315 TCCTTTTTGT
45061325 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
45061348 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
45061370 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
45061393 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
45061420 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
45061445 TATTATTTATAT
1 TATTATATATAT
45061457 ATATATTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 18 0.22
24 4 0.05
25 30 0.37
26 1 0.01
27 6 0.07
28 3 0.04
29 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:45061420 original size:27 final size:25
Alignment explanation
Indices: 45061342--45061465 Score: 72
Period size: 27 Copynumber: 4.8 Consensus size: 25
45061332 ATATTTCTTA
* *
45061342 ATATTATATTATATATATTCTTTTAAT
1 ATATTATA-TATATATATT-TTATACT
** ** *
45061369 ATATTAGGTATAT-T-TTAAATTCT
1 ATATTATATATATATATTTTATACT
45061392 ATATTACGTATATATATATTTTATACT
1 ATATTA--TATATATATATTTTATACT
* * * * *
45061419 ATTTTATGTATATATCTTTAATATT
1 ATATTATATATATATATTTTATACT
45061444 ATATTATTTATATATATATTTT
1 ATATTA--TATATATATATTTT
45061466 TTTCCATGTT
Statistics
Matches: 70, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
23 8 0.11
24 2 0.03
25 26 0.37
26 6 0.09
27 28 0.40
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (25 bp):
ATATTATATATATATATTTTATACT
Found at i:45061430 original size:25 final size:25
Alignment explanation
Indices: 45061339--45061545 Score: 77
Period size: 25 Copynumber: 8.2 Consensus size: 25
45061329 ATTATATTTC
* * *
45061339 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
45061363 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
45061384 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* * *
45061411 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
45061436 TTAATATTATATTATTTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
** * * * *
45061463 TTTTTTCCATGTTATCTTATGTATATAT
1 TTAATACTATATTAT-GTA--TATATAT
* *
45061491 CTT-A-ACTATATTATGTATGTATTT
1 -TTAATACTATATTATGTATATATAT
* * *
45061515 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
45061540 TTAATA
1 TTAATA
45061546 TTATCACGTA
Statistics
Matches: 133, Mismatches: 36, Indels: 27
0.68 0.18 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.11
23 10 0.08
24 8 0.06
25 49 0.37
26 5 0.04
27 35 0.26
28 7 0.05
29 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:45061722 original size:16 final size:15
Alignment explanation
Indices: 45061698--45061745 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
45061688 TAATTATTAT
*
45061698 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
45061714 TATTTTAATATTTTA
1 TATTTTAATATTTTA
45061729 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
45061745 T
1 T
45061746 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:45061733 original size:7 final size:8
Alignment explanation
Indices: 45061698--45061749 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
45061688 TAATTATTAT
*
45061698 TATTCTAA
1 TATTTTAA
*
45061706 TATTTTGA
1 TATTTTAA
45061714 TATTTTAA
1 TATTTTAA
45061722 TATTTT-A
1 TATTTTAA
45061729 TATTTTATA
1 TATTTTA-A
*
45061738 TATTTTAT
1 TATTTTAA
45061746 TATT
1 TATT
45061750 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:45072457 original size:13 final size:13
Alignment explanation
Indices: 45072441--45072465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45072431 GGCATCCAAA
45072441 AAAAAATAAAAAT
1 AAAAAATAAAAAT
45072454 AAAAAATAAAAA
1 AAAAAATAAAAA
45072466 AGAGGGATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:45074023 original size:159 final size:159
Alignment explanation
Indices: 45073726--45074185 Score: 627
Period size: 159 Copynumber: 2.9 Consensus size: 159
45073716 GAAATTCTCT
* * **
45073726 TGCGATCAACATGCTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAATTGTTT
1 TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
* ** * *
45073791 CCTGAATCCCTTTCATCACTTGC-TCCACTAAATCCAGATCTCTCAGTGCTGCGTTGTTCATAGG
66 CCTGAATCTCTTTCATCAC-TGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGA
* *
45073855 TATCTGAAGAAAGCATTTTATGAAGGAC-AC
130 TTTCTGAAGAAAGCATTCTATGAAGG-CGAC
* * * * *
45073885 TGCGATCACCATGTTTTTGAGATTCTTTAACATTTCCAATATTTCTCCTTTCACCATAACCATTT
1 TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
* *
45073950 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATTTCTCAACACTGCGTTGTTCAAAGAT
66 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
* *
45074015 TTCAGAAGAAAGCATTCTGTGAAGGCGAC
131 TTCTGAAGAAAGCATTCTATGAAGGCGAC
* * * *
45074044 TGTGACCACCATGTTTTTCAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGCTT
1 TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
* ** *
45074109 CCTGAATCTCTTTCATCACTTCTTCCAGAAAATCTAGATCTCTCAACGCTGCGTTGTTCAAAGAT
66 CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
*
45074174 TTCTGAAAAAAG
131 TTCTGAAGAAAG
45074186 TACTCTGGGA
Statistics
Matches: 262, Mismatches: 37, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
158 4 0.02
159 258 0.98
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (159 bp):
TGCGATCACCATGTTTTTGAGATTCTTTACCATTTCCATTATTTCTTCTTTCCCCATAACCGTTT
CCTGAATCTCTTTCATCACTGCTTCCACTAAATCCAGATCTCTCAACGCTGCGTTGTTCAAAGAT
TTCTGAAGAAAGCATTCTATGAAGGCGAC
Found at i:45075330 original size:4 final size:4
Alignment explanation
Indices: 45075321--45075363 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
45075311 TAGTCATTGC
45075321 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
45075364 GACAGACAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:45075368 original size:4 final size:4
Alignment explanation
Indices: 45075361--45075387 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45075351 ATACATACAT
45075361 ACAG ACAG ACAG ACAG ACAG ACAG ACA
1 ACAG ACAG ACAG ACAG ACAG ACAG ACA
45075388 ATAAGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.22, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:45088310 original size:16 final size:15
Alignment explanation
Indices: 45088286--45088333 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
45088276 TAATTATTAT
*
45088286 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
45088302 TATTTTAATATTTTA
1 TATTTTAATATTTTA
45088317 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
45088333 T
1 T
45088334 TATTCACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:45088321 original size:7 final size:8
Alignment explanation
Indices: 45088286--45088337 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
45088276 TAATTATTAT
*
45088286 TATTCTAA
1 TATTTTAA
*
45088294 TATTTTGA
1 TATTTTAA
45088302 TATTTTAA
1 TATTTTAA
45088310 TATTTT-A
1 TATTTTAA
45088317 TATTTTATA
1 TATTTTA-A
*
45088326 TATTTTAT
1 TATTTTAA
45088334 TATT
1 TATT
45088338 CACATTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:45092423 original size:46 final size:46
Alignment explanation
Indices: 45092371--45092679 Score: 386
Period size: 46 Copynumber: 6.7 Consensus size: 46
45092361 AGTGTGCTCT
*
45092371 CTGATATGAAATGTGTAAGACCATGGTAGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
45092417 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
45092463 CTGATATGAAACGTGTAAGACCATGGCTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
45092509 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** **
45092555 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
45092601 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
45092647 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAG
45092680 GCACTATGGC
Statistics
Matches: 235, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 234 1.00
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:45096631 original size:31 final size:32
Alignment explanation
Indices: 45096575--45096722 Score: 218
Period size: 31 Copynumber: 4.8 Consensus size: 32
45096565 CTTGTCACTT
*
45096575 GTAGCC-GAAGCTACCAC-ATTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
*
45096605 GTAGCCAG-AGCTACCATTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
* *
45096636 GTAGTC-GGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
45096667 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCAGAAGCTACCACTTTTCACTGATCAG
45096698 GTAGCC-GAAGCTACCACTTTTCACT
1 GTAGCCAGAAGCTACCACTTTTCACT
45096723 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
30 16 0.15
31 91 0.84
32 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (32 bp):
GTAGCCAGAAGCTACCACTTTTCACTGATCAG
Found at i:45108213 original size:20 final size:20
Alignment explanation
Indices: 45108176--45108214 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45108166 ATTAGTTTTT
*
45108176 TTTATATGATTTGGTTTTAG
1 TTTATATGATTTGATTTTAG
45108196 TTTATATGAATTT-ATTTTA
1 TTTATATG-ATTTGATTTTA
45108215 ATTCCTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (20 bp):
TTTATATGATTTGATTTTAG
Found at i:45113262 original size:25 final size:25
Alignment explanation
Indices: 45113234--45113292 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
45113224 TTTGGAGAAT
45113234 TGTTAACATCGTTAAAATACTTCCA
1 TGTTAACATCGTTAAAATACTTCCA
45113259 TGTTAACATCGTTAAAATACTTCCA
1 TGTTAACATCGTTAAAATACTTCCA
*
45113284 TCTTAACAT
1 TGTTAACAT
45113293 TGAACCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (25 bp):
TGTTAACATCGTTAAAATACTTCCA
Found at i:45116805 original size:16 final size:16
Alignment explanation
Indices: 45116784--45116816 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45116774 CAAGTAAAGC
45116784 GGGTAATGAATTTAGA
1 GGGTAATGAATTTAGA
45116800 GGGTAATGAATTTAGA
1 GGGTAATGAATTTAGA
45116816 G
1 G
45116817 CCTGTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (16 bp):
GGGTAATGAATTTAGA
Found at i:45147181 original size:2 final size:2
Alignment explanation
Indices: 45147176--45147200 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45147166 GTGTGTGTAT
45147176 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
45147201 CTTTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45148019 original size:23 final size:23
Alignment explanation
Indices: 45147967--45148022 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
45147957 CTTTAATGCA
* *
45147967 ATTCATGCTGACACTTCGGTGTG
1 ATTCATTCTGACACTTCGGTGGG
* *
45147990 ATCCATTCTGGCATCTT-GGTGGG
1 ATTCATTCTGACA-CTTCGGTGGG
45148013 ATTCATTCTG
1 ATTCATTCTG
45148023 TGGAGTGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (23 bp):
ATTCATTCTGACACTTCGGTGGG
Found at i:45148753 original size:117 final size:117
Alignment explanation
Indices: 45148547--45148778 Score: 410
Period size: 117 Copynumber: 2.0 Consensus size: 117
45148537 ATGTGCTTAC
* *
45148547 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTTTTAGTGACGTT
1 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
*
45148612 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTATTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
*
45148664 CTTGATAGGTTATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
1 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
* *
45148729 TTGAACATGTCTTAGGTGTTTTGGATGATTTTAGTAGTACATATCGTATG
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATG
45148779 TTTAATGACT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 109 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (117 bp):
CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
Found at i:45152483 original size:21 final size:21
Alignment explanation
Indices: 45152444--45152489 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
45152434 GCGGTGGTTG
* * *
45152444 TGAGATTAATTATTATAGCGA
1 TGAGATTAAATACTATAGCAA
*
45152465 TGAGATTAAATACTGTAGCAA
1 TGAGATTAAATACTATAGCAA
45152486 TGAG
1 TGAG
45152490 GTCAAAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (21 bp):
TGAGATTAAATACTATAGCAA
Found at i:45153996 original size:31 final size:31
Alignment explanation
Indices: 45153961--45154023 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
45153951 TGGGTTTAAA
45153961 AAAATATT-AGTACTATAATGAAGGAATTGGG
1 AAAATATTGA-TACTATAATGAAGGAATTGGG
* * *
45153992 AAAATATTGATGCTATAGTGAAGGATTTGGG
1 AAAATATTGATACTATAATGAAGGAATTGGG
45154023 A
1 A
45154024 TTTGAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAATATTGATACTATAATGAAGGAATTGGG
Found at i:45154464 original size:12 final size:12
Alignment explanation
Indices: 45154447--45154472 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45154437 GAAAAGGAAG
45154447 AAAACAAAAAGA
1 AAAACAAAAAGA
45154459 AAAACAAAAAGA
1 AAAACAAAAAGA
45154471 AA
1 AA
45154473 GATGTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAGA
Found at i:45155212 original size:24 final size:24
Alignment explanation
Indices: 45155167--45155213 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
45155157 TAAACTCAAT
* ** *
45155167 TTTTCTGAAAAATTAAATTAAAAG
1 TTTTATGAAAAACAAAAATAAAAG
45155191 TTTTATGAAAAACAAAAATAAAA
1 TTTTATGAAAAACAAAAATAAAA
45155214 TAAAGGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
TTTTATGAAAAACAAAAATAAAAG
Found at i:45161955 original size:26 final size:26
Alignment explanation
Indices: 45161919--45161971 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
45161909 TACTTTTGAG
45161919 AACATTTACTTAAACACCTTGTATGC
1 AACATTTACTTAAACACCTTGTATGC
45161945 AACATTTACTTAAACACCTTGTATGC
1 AACATTTACTTAAACACCTTGTATGC
45161971 A
1 A
45161972 TGTTTTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
AACATTTACTTAAACACCTTGTATGC
Found at i:45164514 original size:21 final size:21
Alignment explanation
Indices: 45164487--45164551 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
45164477 AATCATCCTG
45164487 AAGGCCATTGCTTTCAATGTC
1 AAGGCCATTGCTTTCAATGTC
* * * *
45164508 GAGGCCATTTCCTTCTATGTC
1 AAGGCCATTGCTTTCAATGTC
* * *
45164529 AAGGCTATTGCTGTCAATATC
1 AAGGCCATTGCTTTCAATGTC
45164550 AA
1 AA
45164552 TGTCGTTCCC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (21 bp):
AAGGCCATTGCTTTCAATGTC
Found at i:45164869 original size:24 final size:24
Alignment explanation
Indices: 45164837--45164886 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
45164827 GAAAATATTA
45164837 TATACCATAAAAAGGACATGAAAC
1 TATACCATAAAAAGGACATGAAAC
45164861 TATACCATAAAAAGGACATGAAAC
1 TATACCATAAAAAGGACATGAAAC
45164885 TA
1 TA
45164887 CCTTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.18
Consensus pattern (24 bp):
TATACCATAAAAAGGACATGAAAC
Found at i:45166199 original size:15 final size:15
Alignment explanation
Indices: 45166159--45166202 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45166149 AAATTTCAAT
*
45166159 AAATAAAAAATATCA
1 AAATAAAAAATATTA
* **
45166174 AATTATTAAATATTA
1 AAATAAAAAATATTA
45166189 AAATAAAAAATATT
1 AAATAAAAAATATT
45166203 TTATTCAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAAAAAATATTA
Found at i:45172290 original size:25 final size:25
Alignment explanation
Indices: 45172245--45172295 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
45172235 TGCCACTGTC
**
45172245 TTAAGTGTTTGGTAATCTAAATATT
1 TTAAGTGTTTGAAAATCTAAATATT
45172270 TTAAGTGTTTGAAAAAT-TAAATATT
1 TTAAGTGTTTG-AAAATCTAAATATT
45172295 T
1 T
45172296 AATTTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (25 bp):
TTAAGTGTTTGAAAATCTAAATATT
Found at i:45175133 original size:118 final size:118
Alignment explanation
Indices: 45174998--45175230 Score: 421
Period size: 118 Copynumber: 2.0 Consensus size: 118
45174988 TTTTGATGAG
*
45174998 AATGTTATATGTTGAAAAAAAATGTTGATAAAAATCTCGAGAAAATTAAAAAAAATATGTTTGGT
1 AATGTTATATGTCGAAAAAAAATGTTGATAAAAATCTCGAGAAAATTAAAAAAAATATGTTTGGT
45175063 ACACTCAACACTTTATTAAAATGATGCTTATTATAATGTCTTCCAAATTTGTT
66 ACACTCAACACTTTATTAAAATGATGCTTATTATAATGTCTTCCAAATTTGTT
* * *
45175116 AATGTTATATGTCGAAAAAAAATGTTGATTAAAATTTCGAGAAAGTTAAAAAAAATATGTTTGGT
1 AATGTTATATGTCGAAAAAAAATGTTGATAAAAATCTCGAGAAAATTAAAAAAAATATGTTTGGT
*
45175181 ACATTCAACACTTTATTAAAATGATGCTTATTATAATGTCTTCCAAATTT
66 ACACTCAACACTTTATTAAAATGATGCTTATTATAATGTCTTCCAAATTT
45175231 ATTTTTTTTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (118 bp):
AATGTTATATGTCGAAAAAAAATGTTGATAAAAATCTCGAGAAAATTAAAAAAAATATGTTTGGT
ACACTCAACACTTTATTAAAATGATGCTTATTATAATGTCTTCCAAATTTGTT
Found at i:45187761 original size:26 final size:25
Alignment explanation
Indices: 45187707--45187765 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
45187697 TTAAAAACAT
45187707 TTTTTATAATTTAAATTTTTATAGAA
1 TTTTTA-AATTTAAATTTTTATAGAA
* *
45187733 TTTTTAAATTATATATATTTTATA-TA
1 TTTTTAAATT-TAAAT-TTTTATAGAA
45187759 TTTTTAA
1 TTTTTAA
45187766 TAATTTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.14
26 18 0.62
27 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTAAATTTAAATTTTTATAGAA
Found at i:45191825 original size:24 final size:24
Alignment explanation
Indices: 45191787--45191833 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45191777 AGGTAAAATT
45191787 ATTTCTGCCTCTGCATTTTTTTTA
1 ATTTCTGCCTCTGCATTTTTTTTA
* *
45191811 ATTTCTTCCTTTGCATTTTTTTT
1 ATTTCTGCCTCTGCATTTTTTTT
45191834 TTCTTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.11, C:0.19, G:0.06, T:0.64
Consensus pattern (24 bp):
ATTTCTGCCTCTGCATTTTTTTTA
Found at i:45197906 original size:35 final size:35
Alignment explanation
Indices: 45197864--45197935 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
45197854 ATATGCAAGA
45197864 TAATTAGAAAATGGTGACTAGTAGGATGATATGCC
1 TAATTAGAAAATGGTGACTAGTAGGATGATATGCC
45197899 TAATTAGAAAATGGTGACTAGTAGGATGATATGCC
1 TAATTAGAAAATGGTGACTAGTAGGATGATATGCC
45197934 TA
1 TA
45197936 CCAGTATGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (35 bp):
TAATTAGAAAATGGTGACTAGTAGGATGATATGCC
Found at i:45204425 original size:31 final size:30
Alignment explanation
Indices: 45204386--45204445 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
45204376 TTTTTTGTCA
* *
45204386 CAAGTGGTACTTAAACTATATTTTATTACT
1 CAAGTGGTACCTAAACTATATTTCATTACT
* *
45204416 CAAGATGGTACCTAAATTATGTTTCATTAC
1 CAAG-TGGTACCTAAACTATATTTCATTAC
45204446 CCAAATGACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (30 bp):
CAAGTGGTACCTAAACTATATTTCATTACT
Found at i:45213084 original size:27 final size:23
Alignment explanation
Indices: 45213030--45213089 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
45213020 ATACACGGAT
45213030 TCCAACCAAACACATTGAAATAA
1 TCCAACCAAACACATTGAAATAA
45213053 TCCAACCAAACACATTGAAATAA
1 TCCAACCAAACACATTGAAATAA
*
45213076 TCCACCCAAACACA
1 TCCAACCAAACACA
45213090 CTAGAACGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.50, C:0.32, G:0.03, T:0.15
Consensus pattern (23 bp):
TCCAACCAAACACATTGAAATAA
Found at i:45213293 original size:24 final size:23
Alignment explanation
Indices: 45213245--45213294 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
45213235 TATTCAATTT
45213245 TCATATTTCAATTCAATCACTTTC
1 TCATATTTCAATTCAATCAC-TTC
*
45213269 TCATATTTTCCATTCAAATCA-TTC
1 TCATA-TTTCAATTC-AATCACTTC
45213293 TC
1 TC
45213295 CATTTAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 10 0.43
25 8 0.35
26 5 0.22
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (23 bp):
TCATATTTCAATTCAATCACTTC
Found at i:45221735 original size:11 final size:11
Alignment explanation
Indices: 45221719--45221754 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
45221709 TAGGGTGGCA
45221719 TTTTTCTTTTT
1 TTTTTCTTTTT
45221730 TTTTTCTTTTT
1 TTTTTCTTTTT
*
45221741 CTTTTCTTTCTT
1 TTTTTCTTT-TT
45221753 TT
1 TT
45221755 CACTTGTGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 19 0.86
12 3 0.14
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:45223094 original size:25 final size:25
Alignment explanation
Indices: 45223051--45223098 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45223041 TTATAATATG
* * *
45223051 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
45223076 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
45223099 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:45223159 original size:20 final size:21
Alignment explanation
Indices: 45223124--45223180 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
45223114 TGATACATGG
45223124 GATATGATAT--ACATGA-AT
1 GATATGATATGCACATGATAT
45223142 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
45223163 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
45223181 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:45223259 original size:27 final size:26
Alignment explanation
Indices: 45223229--45223327 Score: 146
Period size: 26 Copynumber: 3.8 Consensus size: 26
45223219 GAGGAAGTGC
45223229 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
45223255 AAAAAGGGCTTATGCCCTAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTACCG
45223282 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
45223308 AAAAGGGCTT-TGCTCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
45223328 ATTAAAGAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 9 0.14
26 33 0.51
27 23 0.35
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:45226295 original size:51 final size:52
Alignment explanation
Indices: 45226201--45226300 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 52
45226191 GAGGGAAATG
* * * * * *
45226201 GATGCCAAATTGGGAAGGACTTTATGTGGTAAAGAAGGTCTTTTTTGGAAGA
1 GATGCCAAACTGGGAAGGACCTTATGTAGTAAAGAAAGCCTTTTCTGGAAGA
*
45226253 GATGCCAAACT-GGAGGGACCTTATGTAGTAAAGAAAGCCTTTTCTGGA
1 GATGCCAAACTGGGAAGGACCTTATGTAGTAAAGAAAGCCTTTTCTGGA
45226301 GGGGCGTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 31 0.76
52 10 0.24
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (52 bp):
GATGCCAAACTGGGAAGGACCTTATGTAGTAAAGAAAGCCTTTTCTGGAAGA
Found at i:45227689 original size:44 final size:44
Alignment explanation
Indices: 45227618--45227788 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 44
45227608 ATGACAAATT
** * * *
45227618 TTATCTCATTGAAATTGTAGTGAAGCAGATTGAAGCCACTAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAATC
* * ** *
45227662 TTATCTCTCTGAAGTTACAGTGGAGCAGATATTGAAGTTATTATGGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG--ATTGAAG---CCA---CTAATC
* * *
45227714 TTATCTCCCTGAAGTTGCAGTGGAACATATTGAAGCCACTAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAATC
*
45227758 TTATCTCCCTGAAGTTGCAGTAGAGCAGATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT
45227789 AAAAATAGCG
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
44 54 0.55
46 7 0.07
47 1 0.01
49 1 0.01
50 7 0.07
52 29 0.29
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAATC
Found at i:45228030 original size:145 final size:146
Alignment explanation
Indices: 45227472--45228116 Score: 496
Period size: 145 Copynumber: 4.5 Consensus size: 146
45227462 GCCACTAGCA
* * * * * ** **
45227472 TTATCTCCCTGAAGTTGCATTAGAACAGATTGAAGATAGTGAATCTTATTTCCCTGAAGTTGTAG
1 TTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCAGTGAATCTTATTTCCCTGAAGTTACAG
* * * *
45227537 TGGAATAGATTAAAGCTACAAGTCACAAATCCTGTACTTCTGAAGTTGTAGTAGGTCGGATCAAA
66 TGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAA
* ** *
45227602 TCTACCATGACAAATT
131 TCTACCACGATGAATC
** * * * * * *
45227618 TTATCTCATTGAAATTGTAGTGAAGCAGATTGAAGCCACT-AATCTTATCTCTCTGAAGTTACAG
1 TTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCAGTGAATCTTATTTCCCTGAAGTTACAG
* * * * ** ** * * * *
45227682 TGGAGCAGATATTGAAGTTATTA-TGGCGAATCTTAT-CTCCCTGAAGTTGC---A-G-TGGAAC
66 TGGA--ATAGATTAAAGCTACAAGTCACAAATCCTATAC-CTCTGAAGTTGCAGTAGGTTGGATC
* *
45227740 ATAT-TGAAGCCAC--T-AACC
128 AAATCT--A-CCACGATGAATC
* * * * *** * *
45227758 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAATAGCGAATCTTATTTCCCTGAAGTTATAG
1 TTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCAGTGAATCTTATTTCCCTGAAGTTACAG
* ** *
45227823 TGGAATAGATTAAAGCTACAAGTCACAAATCAC-ATACTTCTGAAGTTATAGTAGGTTAGATCAA
66 TGGAATAGATTAAAGCTACAAGTCACAAATC-CTATACCTCTGAAGTTGCAGTAGGTTGGATCAA
45227887 ATCTACCACGATGAATC
130 ATCTACCACGATGAATC
* * * *
45227904 TTTTCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCA-TGAATCTTATTTCCCCGAAGTTGCAA
1 TTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCAGTGAATCTTATTTCCCTGAAGTTACAG
45227968 TGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAG
66 TGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAA-
* * ** *
45228033 GTC-ATCGTGGTGAATC
130 ATCTACCACGATGAATC
* * * * *
45228049 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCA--CAAGTCTTATCTCCTTGAAGTTACA
1 TTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCAGTGAA-TCTTATTTCCCTGAAGTTACA
45228112 GTGGA
65 GTGGA
45228117 GCAGACTGAA
Statistics
Matches: 377, Mismatches: 100, Indels: 45
0.72 0.19 0.09
Matches are distributed among these distances:
139 11 0.03
140 47 0.12
141 33 0.09
142 2 0.01
143 9 0.02
144 5 0.01
145 177 0.47
146 82 0.22
147 11 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (146 bp):
TTATCTCCCTAAAATTGCAGTGGAGCAGATTGAAGCCAGTGAATCTTATTTCCCTGAAGTTACAG
TGGAATAGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAA
TCTACCACGATGAATC
Found at i:45228327 original size:89 final size:88
Alignment explanation
Indices: 45228169--45228373 Score: 239
Period size: 89 Copynumber: 2.3 Consensus size: 88
45228159 TATTATTTTT
* * * * *
45228169 CTGAAGTTGCAGTGGAGCAAATTGAAGCCACTAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGG
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCCCCGAAGTTACAGTGGAGCAGA
* *
45228234 TTGAAGTTACAAGTTTTATCTCC
66 TTGAAGCTACAAATTTTATCTCC
* ** * ** *
45228257 CTGAAGTTGCAGTAGAGCAGATTGAAGGTAGTGAATTTTATCTCCCCGAAGTTATAGTGGAGCAG
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCCACT-AACCTTATCTCCCCGAAGTTACAGTGGAGCAG
*
45228322 ATTGAAGCTACAAATTTTATCTTC
65 ATTGAAGCTACAAATTTTATCTCC
* **
45228346 CTGAGGTTGCAGTGGAGTGGATTGAAGC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGC
45228374 AACAAATTCT
Statistics
Matches: 96, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
88 27 0.28
89 69 0.72
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (88 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCCCCGAAGTTACAGTGGAGCAGA
TTGAAGCTACAAATTTTATCTCC
Found at i:45228360 original size:44 final size:44
Alignment explanation
Indices: 45228169--45228381 Score: 228
Period size: 44 Copynumber: 4.8 Consensus size: 44
45228159 TATTATTTTT
* * * ** *
45228169 CTGAAGTTGCAGTGGAGCAAATTGAAGCCACTAACCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
* * *
45228213 CTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTTTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
* * **
45228257 CTGAAGTTGCAGTAGAGCAGATTGAAGGTAGTGAATTTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATTTTATCTCC
* ** *
45228302 CCGAAGTTATAGTGGAGCAGATTGAAGCTACAAATTTTATCTTC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
* ** *
45228346 CTGAGGTTGCAGTGGAGTGGATTGAAGCAACAAATT
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATT
45228382 CTATACCTTT
Statistics
Matches: 138, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
44 102 0.74
45 36 0.26
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCC
Found at i:45229314 original size:5 final size:5
Alignment explanation
Indices: 45229295--45229328 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
45229285 AGAATTTTTA
45229295 TTTGTT TTTGTT TTTGT TTTGT TTTGT TTTGT TT
1 TTTG-T TTTG-T TTTGT TTTGT TTTGT TTTGT TT
45229329 CACTTAGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTGT
Found at i:45231061 original size:19 final size:19
Alignment explanation
Indices: 45231039--45231086 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
45231029 TCATCCCATG
*
45231039 CATTTACATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
45231058 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
45231077 CATTTGCATT
1 CATTTGCATT
45231087 AAAATTTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:45233661 original size:64 final size:64
Alignment explanation
Indices: 45233560--45233691 Score: 246
Period size: 64 Copynumber: 2.1 Consensus size: 64
45233550 AAGGAAAGTG
*
45233560 AAAGGCCATGGCGAAAACCCTCAAATGATGCTTTGAGATATTTAAAAAAAAAGAAAAGAAAAGA
1 AAAGGACATGGCGAAAACCCTCAAATGATGCTTTGAGATATTTAAAAAAAAAGAAAAGAAAAGA
*
45233624 AAAGGACATGGCGAAAACCCTCAAATGATTCTTTGAGATATTTAAAAAAAAAGAAAAGAAAAGA
1 AAAGGACATGGCGAAAACCCTCAAATGATGCTTTGAGATATTTAAAAAAAAAGAAAAGAAAAGA
45233688 AAAG
1 AAAG
45233692 AAAAGAAAAG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.17
Consensus pattern (64 bp):
AAAGGACATGGCGAAAACCCTCAAATGATGCTTTGAGATATTTAAAAAAAAAGAAAAGAAAAGA
Found at i:45233680 original size:5 final size:5
Alignment explanation
Indices: 45233667--45233753 Score: 103
Period size: 5 Copynumber: 17.8 Consensus size: 5
45233657 TGAGATATTT
*
45233667 AAAAA AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
45233716 AAATA- AAGAA- AAAAG AAAA- AGAAA- AAAAG AAAAG AAAA
1 AAA-AG AA-AAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAA
45233754 TGAGAGGCCA
Statistics
Matches: 75, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
4 10 0.13
5 63 0.84
6 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:45233725 original size:8 final size:7
Alignment explanation
Indices: 45233670--45233753 Score: 68
Period size: 7 Copynumber: 11.6 Consensus size: 7
45233660 GATATTTAAA
45233670 AAAAAAG
1 AAAAAAG
45233677 AAAAGAA-
1 AAAA-AAG
45233684 AAGAAAAG
1 AA-AAAAG
45233692 AAAAGAA-
1 AAAA-AAG
45233699 AAGAAAAG
1 AA-AAAAG
45233707 AAAAGAAAG
1 -AAA-AAAG
45233716 AAATAAAG
1 AAA-AAAG
45233724 AAAAAAG
1 AAAAAAG
45233731 -AAAAAG
1 AAAAAAG
45233737 AAAAAA-
1 AAAAAAG
*
45233743 AGAAAAG
1 AAAAAAG
45233750 AAAA
1 AAAA
45233754 TGAGAGGCCA
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
6 11 0.17
7 26 0.41
8 21 0.33
9 6 0.09
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:45235197 original size:132 final size:128
Alignment explanation
Indices: 45234960--45235798 Score: 817
Period size: 132 Copynumber: 6.4 Consensus size: 128
45234950 TGGGTCTATG
* * * * * *
45234960 AGGCTAAAATTTTAGATCTTGTTTCCTTGAAATTGAAGTGAAGCAGATCGAAGACGGTGAATCTG
1 AGGCTAAAA-TTTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* * *
45235025 AGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACTAAGCTTCCTAAAGTTGTAGTGGA
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACC--CT-AGCTCCCTAAAGTTGTAGTGGA
*
45235090 TT
127 GT
* *
45235092 AGGCTAAAATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAGAAGATCGAAGACGGCGAATCTT
1 AGGCTAAAATTT-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* *
45235157 AGCTTCCTGAAGTTGCAGCGAAACAGATTTAAACCACCAACCCAGCTCCCTAAAGTTGTAGTGGA
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCA-C--CCTAGCTCCCTAAAGTTGTAGTGGA
45235222 GT
127 GT
* * * ** * * *
45235224 AAGCTAAATTTTCAGATCTCGTTTCTTTGAAGTTGTAGTGAAGCAGATCGAAGACGGCGAATCTG
1 AGGCTAAAATTT-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* *
45235289 AGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGA
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAA---ACCACCCTAGCTCCCTAAAGTTGTAGTGGA
45235354 GT
127 GT
* * * ** *** *
45235356 AGGCTAAAATTTCAGATCTCGTTTCCCTGAAGTTACAGTGAGGCAAATTAAAGACGATAAATCCT
1 AGGCTAAAATTT-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTT
* * * * * *
45235421 GGCTCCCTGAAGATGCAGCGAAGCAGATTT-AAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGT
65 AGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACCCTAGCTCCCTAAAGTTGTAGTGGAGT
* * *
45235484 AGGCTGAAGATTATAGATCTTGTTTCCCTG-AGATGGCAGTGGGGCAGATCGAAGACGGCGAATC
1 AGGCT-AAAATT-TAGATCTTGTTTCCCTGAAG-TTGCAGTGAGGCAGATCGAAGACGGCGAATC
* * * * * * * *
45235548 -TAGGTTTCCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTAG
63 TTA-GCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCA-CCCTAGCTCCCTAAAGTTGTAGTGG
45235612 AGT
126 AGT
** * * * * ***
45235615 AGGCTGAGGATTGTAGATCTCGCCTT-CCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATC
1 AGGCT-AAAATT-TAGATCTTG-TTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATC
* * * * * *
45235679 TTGGCTTCCTGAAGATGCAGCGAAGCAGATTT-AAGCATCCTAGCTTCCTAAGGTTGTAGTGGAG
63 TTAGCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACCCTAGCTCCCTAAAGTTGTAGTGGAG
45235743 T
128 T
* *
45235744 AGGCTGAAGATTATAGATCTTGTTTCCCTG-AGATTGCAGTGGGGCAGATCGAAGA
1 AGGCT-AAAATT-TAGATCTTGTTTCCCTGAAG-TTGCAGTGAGGCAGATCGAAGA
45235799 TAGCAGATTT
Statistics
Matches: 590, Mismatches: 99, Indels: 39
0.81 0.14 0.05
Matches are distributed among these distances:
128 41 0.07
129 132 0.22
130 5 0.01
131 101 0.17
132 304 0.52
133 2 0.00
135 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (128 bp):
AGGCTAAAATTTAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGCGAATCTTA
GCTTCCTGAAGTTGCAGCGAAGCAGATTTAAACCACCCTAGCTCCCTAAAGTTGTAGTGGAGT
Found at i:45235661 original size:260 final size:258
Alignment explanation
Indices: 45234972--45235798 Score: 1033
Period size: 260 Copynumber: 3.2 Consensus size: 258
45234962 GCTAAAATTT
* * * *
45234972 TAGATCTTGTTTCCTTGAAATTGAAGTGAAGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAG
1 TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGAAG
*
45235037 TTGCAGTGAAGCAGATTTAAGCCACCAA-CTAAGCT-TCCTAAAGTTGTAGTGGATTAGGCTAAA
66 TTGCAGTGAAGCAGATTTAAG-CA--AACCT-AGCTCT-CTAAAGTTGTAGTGGAGTAGGCTAAA
* * * *** *
45235100 ATTTCAGATCTTGTTTCCCTGAAGTTGCAGTGAAG-AAGATCGAAGACGGCGAATCTTAGCTTCC
126 ATTTCAGATCTCGTTTCCCTGAAGTTGCAGTGAGGCAA-ATCAAAGACGATAAATCTTGGCTTCC
* * * * * * *
45235164 TGAAGTTGCAGCGAAACAGATTTAAACCACCAACCCAGCTCCCTAAAGTTGTAGTGGAGTAAGCT
190 TGAAGATGCAGCGAAGCAGATTT--A--AGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCT
*
45235229 -AA-ATTT
251 GAAGATTA
* ** *
45235235 TCAGATCTCGTTTCTTTGA-AGTTGTAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGA
1 T-AGATCTTGTTTCCCTGAGA-TTGCAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGA
*
45235299 AGTTGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAA
64 AGTTGCAGTGAAGCAGATTTAAG-CA--AACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTAAA
* * * *
45235364 ATTTCAGATCTCGTTTCCCTGAAGTTACAGTGAGGCAAATTAAAGACGATAAATCCTGGCTCCCT
126 ATTTCAGATCTCGTTTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCT
45235429 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
191 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
45235494 TTA
256 TTA
* ** * *
45235497 TAGATCTTGTTTCCCTGAGATGGCAGTGGGGCAGATCGAAGACGGCGAATCT-AGGTTTCCTGAT
1 TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGACGGCGAATCTGA-GCTTCCTGAA
* * **
45235561 GTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTAGAGTAGGCTGAGGAT
65 GTTGCAGTGAAGCAGATTTAAGCAA-ACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCT-AAAAT
*
45235626 TGT-AGATCTCGCCTT-CCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCT
128 T-TCAGATCTCG-TTTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCT
*
45235689 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTTCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
191 GAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGA
45235754 TTA
256 TTA
**
45235757 TAGATCTTGTTTCCCTGAGATTGCAGTGGGGCAGATCGAAGA
1 TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGA
45235799 TAGCAGATTT
Statistics
Matches: 505, Mismatches: 46, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
258 1 0.00
259 30 0.06
260 199 0.39
261 77 0.15
262 6 0.01
263 2 0.00
264 186 0.37
265 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (258 bp):
TAGATCTTGTTTCCCTGAGATTGCAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGAAG
TTGCAGTGAAGCAGATTTAAGCAAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTAAAATTTC
AGATCTCGTTTCCCTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTGGCTTCCTGAAGA
TGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGATTA
Found at i:45253606 original size:25 final size:25
Alignment explanation
Indices: 45253578--45253628 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
45253568 GGTTTTGTCA
45253578 ATAG-TTTAATGGTTTTATGTT-GTTC
1 ATAGCTTT-ATGGTTTTAT-TTGGTTC
*
45253603 ATAGCTTTGTGGTTTTATTTGGTTC
1 ATAGCTTTATGGTTTTATTTGGTTC
45253628 A
1 A
45253629 CATTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 18 0.78
26 3 0.13
ACGTcount: A:0.18, C:0.06, G:0.22, T:0.55
Consensus pattern (25 bp):
ATAGCTTTATGGTTTTATTTGGTTC
Found at i:45254592 original size:19 final size:20
Alignment explanation
Indices: 45254555--45254591 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
45254545 AAAATATTGT
*
45254555 AAAAAGTTATTAAAATTTTC
1 AAAAAGTTAGTAAAATTTTC
45254575 AAAAA-TTAGT-AAATTTT
1 AAAAAGTTAGTAAAATTTT
45254592 TTTGTATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 4 0.25
20 5 0.31
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAAGTTAGTAAAATTTTC
Found at i:45254705 original size:20 final size:21
Alignment explanation
Indices: 45254676--45254735 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
45254666 TTAAAATATA
*
45254676 ATCAACTTTTTAAT-TTTTAC
1 ATCAAATTTTTAATATTTTAC
*
45254696 ATCAAATTTTTAATATTTTAA
1 ATCAAATTTTTAATATTTTAC
45254717 ATACATAAATTTTTAATAT
1 AT-C--AAATTTTTAATAT
45254736 GTTCTAGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.38
21 7 0.21
22 1 0.03
24 13 0.38
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (21 bp):
ATCAAATTTTTAATATTTTAC
Found at i:45259096 original size:17 final size:17
Alignment explanation
Indices: 45259071--45259105 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45259061 ACCAGATGTT
*
45259071 AGAACGTTTAGTTGGGA
1 AGAACGTTTAGCTGGGA
*
45259088 AGAATGTTTAGCTGGGA
1 AGAACGTTTAGCTGGGA
45259105 A
1 A
45259106 ATCTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (17 bp):
AGAACGTTTAGCTGGGA
Found at i:45264475 original size:20 final size:20
Alignment explanation
Indices: 45264447--45264485 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45264437 GTTTTTTGTA
45264447 CATTATTATAAATATATATG
1 CATTATTATAAATATATATG
*
45264467 CATTTTTATAAATATATAT
1 CATTATTATAAATATATAT
45264486 ACTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
CATTATTATAAATATATATG
Found at i:45267570 original size:4 final size:4
Alignment explanation
Indices: 45267561--45267598 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
45267551 TTGCTTGTAC
45267561 ATAA ATAA ATAA ATAAA ATGAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA A
45267599 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 3 0.10
4 21 0.68
5 7 0.23
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:45271262 original size:30 final size:30
Alignment explanation
Indices: 45271226--45271284 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45271216 CAGTTAAATC
45271226 AAATTTTAAAAAAAAT-TTAATATATATTTT
1 AAATTTT-AAAAAAATGTTAATATATATTTT
* * *
45271256 AAATTTTTACAAAATGTTAATATTTATTT
1 AAATTTTAAAAAAATGTTAATATATATTT
45271285 AATGAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
AAATTTTAAAAAAATGTTAATATATATTTT
Found at i:45272478 original size:19 final size:19
Alignment explanation
Indices: 45272456--45272510 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 19
45272446 TATTAGTTTA
45272456 AAATAAAATAATATATAGT
1 AAATAAAATAATATATAGT
*
45272475 AAAT-AAATAA-ATA-ATT
1 AAATAAAATAATATATAGT
45272491 AACA-AAAATATATATATAGT
1 AA-ATAAAATA-ATATATAGT
45272511 GTGGGTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 7 0.24
19 7 0.24
20 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AAATAAAATAATATATAGT
Found at i:45272562 original size:21 final size:21
Alignment explanation
Indices: 45272518--45272573 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
45272508 AGTGTGGGTT
* *
45272518 AAAAATATGATTTAATAATAA
1 AAAAATATAATGTAATAATAA
*
45272539 TAATAATATATAATGTAATCATAA
1 -AA-AA-ATATAATGTAATAATAA
45272563 AAAAATATAAT
1 AAAAATATAAT
45272574 TGGCGATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 7 0.24
22 4 0.14
23 4 0.14
24 14 0.48
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAAATATAATGTAATAATAA
Found at i:45272644 original size:22 final size:21
Alignment explanation
Indices: 45272619--45272681 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
45272609 TAAAAAAATA
45272619 AAATGTAATACGAATATATAAG
1 AAATGTAATAC-AATATATAAG
* * * *
45272641 AAATATAATATAATATAAAAT
1 AAATGTAATACAATATATAAG
*
45272662 AACATGTAAAACAATATATA
1 AA-ATGTAATACAATATATA
45272682 TATAAATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATGTAATACAATATATAAG
Found at i:45272701 original size:45 final size:44
Alignment explanation
Indices: 45272613--45272707 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 44
45272603 AAAAAATAAA
*
45272613 AAAATAAAATGTAATACGAATATATAAGAAATATAATATAATAT
1 AAAATAAAATGTAAAACGAATATATAAGAAATATAATATAATAT
* *
45272657 AAAATAACATGTAAAAC-AATATATATATAAATAATTAATA-AATAT
1 AAAATAAAATGTAAAACGAATATATA-AGAAAT-A-TAATATAATAT
*
45272702 ATAATA
1 AAAATA
45272708 TATGTGAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
43 8 0.18
44 20 0.45
45 11 0.25
46 5 0.11
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (44 bp):
AAAATAAAATGTAAAACGAATATATAAGAAATATAATATAATAT
Found at i:45272743 original size:19 final size:19
Alignment explanation
Indices: 45272696--45272745 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
45272686 AATAATTAAT
* *
45272696 AAATATATAAT-ATATGTGA
1 AAATA-ATAATAATATATAA
45272715 AAAT-ATAATAATATATAA
1 AAATAATAATAATATATAA
45272733 AAATAATAATAAT
1 AAATAATAATAAT
45272746 TTGAGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATAATAATAATATATAA
Found at i:45274462 original size:83 final size:82
Alignment explanation
Indices: 45274338--45274519 Score: 233
Period size: 83 Copynumber: 2.2 Consensus size: 82
45274328 GATTTGTGGG
* * *
45274338 GATGCCAAATCAACTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTTGATT
1 GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATT
45274403 TG-TTCTTTGTAAGCACAAA
66 TGTTTC-TTGTAA--ACAAA
* * * * *
45274422 GATGCCAAACCATCTTGAGTCTG-TTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATT
1 GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATT
45274486 TGTTTCTTGTAAACAAA
66 TGTTTCTTGTAAACAAA
* *
45274503 AATACCAAATCATCTTG
1 GATGCCAAATCATCTTG
45274520 GATCTGCTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
81 19 0.22
83 43 0.50
84 24 0.28
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (82 bp):
GATGCCAAATCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATT
TGTTTCTTGTAAACAAA
Found at i:45274685 original size:118 final size:119
Alignment explanation
Indices: 45274447--45274791 Score: 572
Period size: 118 Copynumber: 2.9 Consensus size: 119
45274437 TGAGTCTGTT
* * * * *
45274447 TGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTTCTTGTAAACA-AA-AATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
45274510 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATC
45274564 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
45274629 AATCATCTTGGATCTG-TTCAGTATAAACATCTGAAGATTAGATCCGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATC
*
45274682 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* *
45274747 AATCATCTTGGATCTGCTTCAGCATAAATATCTGAAG-TCTAGATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGAT-TAGATC
45274792 TGCTGTCTTC
Statistics
Matches: 215, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
117 49 0.23
118 119 0.55
119 47 0.22
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (119 bp):
TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCACTATATC
Found at i:45286203 original size:18 final size:18
Alignment explanation
Indices: 45286162--45286196 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45286152 GTACTAGGTA
*
45286162 GATAAAAATGAATACTAC
1 GATAAAAATGAATAATAC
45286180 GATAAAAA-GAATAATAC
1 GATAAAAATGAATAATAC
45286197 ATATAAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
GATAAAAATGAATAATAC
Found at i:45286398 original size:24 final size:24
Alignment explanation
Indices: 45286348--45286401 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
45286338 GAAGAAANTT
*
45286348 ATAAAAATAATAAGTGGTATAGAA
1 ATAAAAATAATAAATGGTATAGAA
* *
45286372 ATAAAACATAATAAATGTTATA-TA
1 ATAAAA-ATAATAAATGGTATAGAA
45286396 ATAAAA
1 ATAAAA
45286402 TACATAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAAATGGTATAGAA
Found at i:45289588 original size:18 final size:20
Alignment explanation
Indices: 45289565--45289602 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45289555 CTTCTTACAC
45289565 AAACT-CAAAT-ACACCATT
1 AAACTCCAAATGACACCATT
*
45289583 AAACTCCCAATGACACCATT
1 AAACTCCAAATGACACCATT
45289603 TTGTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.21
Consensus pattern (20 bp):
AAACTCCAAATGACACCATT
Found at i:45291271 original size:22 final size:22
Alignment explanation
Indices: 45291244--45291287 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45291234 TTAACCAAAT
*
45291244 AAATTGATAAATATAAAGATTA
1 AAATTGATAAATATAAAAATTA
45291266 AAATTGATAAATATAAAAATTA
1 AAATTGATAAATATAAAAATTA
45291288 TAAAAACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATTGATAAATATAAAAATTA
Found at i:45295560 original size:132 final size:130
Alignment explanation
Indices: 45295227--45295603 Score: 504
Period size: 131 Copynumber: 2.9 Consensus size: 130
45295217 TAAGAATTCT
* *
45295227 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
* * *
45295292 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTTCCTTTAGAATTTCACCCATGTCTTTAAAAAATC
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAAT-
45295357 C
130 C
* ** * * *
45295358 TTTAAACGAAGGCGATGTTCGATATTTGGCGATTCGCGGAATCGTGCCCTATCGTGCTGGGTTTC
1 TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
* * *
45295423 AATTTCTCGATTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCATGTCTTTAAAAAACT
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAA-T
45295488 C
130 C
* * * * *
45295489 TTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCTTATCGTGCTAGGTTG
1 TT-AAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTG
* ** *
45295554 CGATTTC-CTGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTC
65 CAATTTCTC-GTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTC
45295604 GTGCTTCCTA
Statistics
Matches: 212, Mismatches: 31, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
131 118 0.56
132 94 0.44
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (130 bp):
TTAAAACGAAGGTAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGCTGGGTTGC
AATTTCTCGTTTGTTCAAAATAATCGAAGGTTCCTTTAGAATTTCACTCATGTCTTTAAAAAATC
Found at i:45303161 original size:181 final size:176
Alignment explanation
Indices: 45302839--45303161 Score: 448
Period size: 176 Copynumber: 1.8 Consensus size: 176
45302829 AAAATGATTG
* * * * *
45302839 AACAACCTATGCATCACAAAGGCCCGGGCCTAGGAGAAGTGAAAACTCCAAAAGAATGAATAATA
1 AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
**
45302904 ACAAATAACATTGCAGTTTAGACAACATAAGAAAGTTTGGAACAACCTCAGACATTTTCCATTTT
66 ACAAATAACATTGCAGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCCATTTT
*
45302969 AATCTTTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
131 AATCATTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
* * *
45303015 AACAACCTATGCCTCACAAAGACTAGGGCATAGGAGAAGTGAAAACTTCAAAAGAACGAAAAATA
1 AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
* * * ** *
45303080 TTGCAAATGATATTGCAGTTGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGATGTTTTCT
66 --ACAAATAACATTGCA---GTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCC
45303145 ATTTTAATCATTTGACT
126 ATTTTAATCATTTGACT
45303162 AACCTGCCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
176 57 0.46
178 12 0.10
181 56 0.45
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (176 bp):
AACAACCTATGCATCACAAAGACCAGGGCATAGGAGAAGTGAAAACTCCAAAAGAACGAAAAATA
ACAAATAACATTGCAGTTTAGACAACATAAGAAAGCCTGGAACAACCTCAGACATTTTCCATTTT
AATCATTTGACTCATCCTGAAGAGGTTCAGACAATGAGCAATGGCA
Found at i:45316753 original size:27 final size:27
Alignment explanation
Indices: 45316696--45316753 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
45316686 ACTATATTTT
* *
45316696 AAAAGTTAAAATGTTATAAAATTTTAC
1 AAAAGTTAAAATGATATAAAATTATAC
45316723 AAAAGTTAAAAATGAT-TAAAATATATA-
1 AAAAGTT-AAAATGATATAAAAT-TATAC
45316750 AAAA
1 AAAA
45316754 TTAGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAAGTTAAAATGATATAAAATTATAC
Found at i:45319202 original size:46 final size:46
Alignment explanation
Indices: 45319152--45319327 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
45319142 TGATTGAGCA
45319152 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45319198 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45319243 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45319291 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45319328 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45319308 original size:93 final size:93
Alignment explanation
Indices: 45319149--45319320 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
45319139 GGATGATTGA
*
45319149 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
45319214 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
45319242 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
45319306 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
45319321 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45323216 original size:28 final size:28
Alignment explanation
Indices: 45323160--45323226 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
45323150 TAATTACATT
45323160 AGAAAATAATAAAATAAATAATTAATTAA
1 AGAAAATAA-AAAATAAATAATTAATTAA
* * *
45323189 TGAAATTAAAAAATAAAT-CTTAATTTAA
1 AGAAAATAAAAAATAAATAATTAA-TTAA
45323217 AGAAAATAAA
1 AGAAAATAAA
45323227 CGTAATTATC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.12
28 21 0.66
29 7 0.22
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (28 bp):
AGAAAATAAAAAATAAATAATTAATTAA
Found at i:45324898 original size:53 final size:51
Alignment explanation
Indices: 45324750--45324909 Score: 196
Period size: 52 Copynumber: 3.1 Consensus size: 51
45324740 TAACGGAAAA
* *
45324750 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGTTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
* * * *
45324802 AATGTGAT-TCGTGTTCCTGTATAAGACCATAGCTAGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGTTCC-GTATAAGACCATAGCTGGGATATGGCATCGGTAT
* *
45324854 GATGTGATAATATGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
45324907 GAT
1 GAT
45324910 ATGTGATCCG
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
51 5 0.05
52 47 0.51
53 35 0.38
54 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAT
Found at i:45330089 original size:66 final size:66
Alignment explanation
Indices: 45330004--45330136 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
45329994 TAAAAATAAT
*
45330004 TATATAAAGAAATTCAATTTAAATTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
1 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
45330069 A
66 A
* * *
45330070 TATATAAAGAAATTTAATTTAAAGTTTTTTATCCCTATTTTAATTATCGAATTTTTATTTGGTTA
1 TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
45330135 A
66 A
45330136 T
1 T
45330137 TTAGTCATTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (66 bp):
TATATAAAGAAATTCAATTTAAAGTTTTTTATCCATATTTTAATTATCAAATTTTTATTTGGTTA
A
Found at i:45349787 original size:55 final size:55
Alignment explanation
Indices: 45349672--45349790 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
45349662 CTTAAACTTT
* *
45349672 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCATGTGCCATAGCTGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCATGTGCCATAGCCGTGCCTA
* * * *
45349727 TAAGTCAGTATTGTCCACGGGTAGGCTACACG-GACGTGTGTCATGGCCGTGCCCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGAG-CATGTGCCATAGCCGTG-CCTA
45349783 -AAGTCAGT
1 TAAGTCAGT
45349791 GTTGCACACG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.02
55 52 0.93
56 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACGAGCATGTGCCATAGCCGTGCCTA
Found at i:45351813 original size:19 final size:19
Alignment explanation
Indices: 45351789--45351827 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45351779 TTAACATTAC
45351789 TTTAATGTTTATATTAGAG
1 TTTAATGTTTATATTAGAG
45351808 TTTAATGTTTATATTAGAG
1 TTTAATGTTTATATTAGAG
45351827 T
1 T
45351828 AGTATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTAATGTTTATATTAGAG
Found at i:45355347 original size:64 final size:63
Alignment explanation
Indices: 45355249--45355387 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 63
45355239 CCGTGTCCCC
* *
45355249 TGCCTGTGTGACTCCAAATTTGAACTCAATGAGTTACATAGCCTAGACACACACACGTGTATAT
1 TGCCTGTGTGACTCCAAATCTGAACTCAAGGAGTTACATAGCCTAGACACACAC-CGTGTATAT
* * * * * * * *
45355313 TGTCTGTGTGACTTCAAATCCT-AACTTAAGGAGTTACATGGCCTGGACACACGCCGTGTGTTT
1 TGCCTGTGTGACTCCAAAT-CTGAACTCAAGGAGTTACATAGCCTAGACACACACCGTGTATAT
45355376 TGCCTGTGTGAC
1 TGCCTGTGTGAC
45355388 CCTGCACCTA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 18 0.29
64 44 0.70
65 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (63 bp):
TGCCTGTGTGACTCCAAATCTGAACTCAAGGAGTTACATAGCCTAGACACACACCGTGTATAT
Found at i:45357901 original size:20 final size:21
Alignment explanation
Indices: 45357867--45357920 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
45357857 TGATGATATT
*
45357867 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
45357888 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
45357908 TTTTATTATTTTA
1 TTATATTATTTTA
45357921 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:45357926 original size:11 final size:11
Alignment explanation
Indices: 45357910--45357948 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
45357900 ATGAGATATT
45357910 TTATTATTTTA
1 TTATTATTTTA
**
45357921 TTATTATTTCG
1 TTATTATTTTA
45357932 TTATTATTTTA
1 TTATTATTTTA
45357943 TTATTA
1 TTATTA
45357949 ATTATTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:45358378 original size:11 final size:11
Alignment explanation
Indices: 45358346--45358378 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
45358336 TTGATATGTT
45358346 AGTGAAGAGAA
1 AGTGAAGAGAA
45358357 AGT-AAGAGAA
1 AGTGAAGAGAA
*
45358367 AGTGATGAGAA
1 AGTGAAGAGAA
45358378 A
1 A
45358379 TGGTGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:45360176 original size:23 final size:23
Alignment explanation
Indices: 45360142--45360254 Score: 104
Period size: 23 Copynumber: 4.8 Consensus size: 23
45360132 CCCGATATAT
45360142 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
*
45360165 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * * *
45360188 GTGCT-TGCTTGAACTTCCCTATATA
1 G-GCTCTTCGTGAGCTTCCC--GATA
* *
45360213 TGGCTATCCG-GAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
*
45360236 GGCTCTTCATGAGCTTCCC
1 GGCTCTTCGTGAGCTTCCC
45360255 AATATGGTTC
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
22 6 0.08
23 45 0.63
24 3 0.04
25 14 0.20
26 3 0.04
ACGTcount: A:0.15, C:0.29, G:0.23, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:45362932 original size:3 final size:3
Alignment explanation
Indices: 45362926--45362966 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
45362916 TATCAAATTA
45362926 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45362967 CCTTTTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45364673 original size:16 final size:16
Alignment explanation
Indices: 45364652--45364703 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
45364642 GGGCCAAAAG
45364652 AAAATTAGAAGGATGA
1 AAAATTAGAAGGATGA
*
45364668 AAAATT-GAAGGGT-A
1 AAAATTAGAAGGATGA
*
45364682 GAAAACTAGAAGGATGA
1 -AAAATTAGAAGGATGA
45364699 AAAAT
1 AAAAT
45364704 ATTATTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 1 0.03
15 11 0.38
16 16 0.55
17 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.25, T:0.17
Consensus pattern (16 bp):
AAAATTAGAAGGATGA
Found at i:45366425 original size:21 final size:20
Alignment explanation
Indices: 45366367--45366427 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
45366357 GTGATTTTTT
*
45366367 TAAAAATAATTATATTTTGAAA
1 TAAAAATAA-TATAATTT-AAA
* * *
45366389 GAAAGATAATTTAATTTAAA
1 TAAAAATAATATAATTTAAA
45366409 TAAAAATAATAATAATTTA
1 TAAAAATAAT-ATAATTTA
45366428 TTGGTTTCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 11 0.35
21 13 0.42
22 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATAATATAATTTAAA
Found at i:45370816 original size:26 final size:26
Alignment explanation
Indices: 45370787--45370839 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45370777 TAATAAAATG
* *
45370787 ATAAA-ACAAAATAAATAAAAAGGTAA
1 ATAAATACAAAACAAA-AAAAAAGTAA
*
45370813 ATAAATAGAAAACAAAAAAAAAGTAA
1 ATAAATACAAAACAAAAAAAAAGTAA
45370839 A
1 A
45370840 AGGGGTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (26 bp):
ATAAATACAAAACAAAAAAAAAGTAA
Found at i:45371222 original size:3 final size:3
Alignment explanation
Indices: 45371110--45371203 Score: 95
Period size: 3 Copynumber: 31.7 Consensus size: 3
45371100 ATGGTTTAAA
* * * *
45371110 AAT AAT AAT GAT AAT AAA AAT AAA AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
45371158 AAT AAT AAT AAT GAAT -AT AAAT AAT AGT AA- AAG AA- AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
45371202 AA
1 AA
45371204 AATTAACTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
2 6 0.08
3 65 0.86
4 5 0.07
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:45391739 original size:22 final size:22
Alignment explanation
Indices: 45391711--45391771 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
45391701 AAACCGCTAG
45391711 TAATAGTATGCAGTACAA-CTGC
1 TAATAGTATGCAG-ACAAGCTGC
* *
45391733 TAATAGTTTGTAGACAAGCTGC
1 TAATAGTATGCAGACAAGCTGC
*
45391755 TAGTAAGT-TGCAGACAA
1 TAAT-AGTATGCAGACAA
45391772 ACTACCAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.12
22 26 0.79
23 3 0.09
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (22 bp):
TAATAGTATGCAGACAAGCTGC
Found at i:45391782 original size:69 final size:69
Alignment explanation
Indices: 45391632--45391782 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 69
45391622 NNNNNTTGAT
* * *
45391632 AAACTACCAGTAACAGTATGCTGTAAAACTGTCAATGGGTTGTAGACAAGTTGCCAGTAAGTTGC
1 AAACTACCAGTAACAGTATGCAGTAAAACTGTCAATAGGTTGTAGACAAGCTGCCAGTAAGTTGC
*
45391697 AGAT
66 AGAC
** * * * * *
45391701 AAACCGCTAGTAATAGTATGCAGTACAACTG-CTAATAGTTTGTAGACAAGCTGCTAGTAAGTTG
1 AAACTACCAGTAACAGTATGCAGTAAAACTGTC-AATAGGTTGTAGACAAGCTGCCAGTAAGTTG
45391765 CAGAC
65 CAGAC
45391770 AAACTACCAGTAA
1 AAACTACCAGTAA
45391783 ATTGCGATAA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
68 1 0.01
69 66 0.99
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (69 bp):
AAACTACCAGTAACAGTATGCAGTAAAACTGTCAATAGGTTGTAGACAAGCTGCCAGTAAGTTGC
AGAC
Found at i:45397430 original size:4 final size:4
Alignment explanation
Indices: 45397421--45397459 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
45397411 CTATTCTAAC
*
45397421 ACAT ACAT ACAT ACAT ACAT ACAT AAAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
45397460 AATTGAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:45398751 original size:26 final size:26
Alignment explanation
Indices: 45398708--45398758 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
45398698 ATATATAATT
45398708 TTATCACAAAAATAAATATTATTTAA
1 TTATCACAAAAATAAATATTATTTAA
* * *
45398734 TTATCATAAAGATTAATATTATTTA
1 TTATCACAAAAATAAATATTATTTA
45398759 TCATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
TTATCACAAAAATAAATATTATTTAA
Found at i:45399487 original size:84 final size:85
Alignment explanation
Indices: 45399388--45399545 Score: 189
Period size: 84 Copynumber: 1.9 Consensus size: 85
45399378 ATCCTCTTTC
* * * * * *
45399388 AAATAAAAAATTTTTATTCA-AATTTTTTAAATTTTTTAAA-ATTTTAAATTAATAAAA-GATAA
1 AAATAAAAAATTTTTAAT-ATAATCTTTTAAAATTTATAAAGA-TATAAACTAATAAAATGATAA
45399450 AATTATATTTTAACTCCCTTAA
64 AATTATATTTTAACTCCCTTAA
* *
45399472 AAATAATAAAA-TTTTAATATAATCTTTTAAAATTTATAAAGATATACACTATTAAAATGATAAA
1 AAATAA-AAAATTTTTAATATAATCTTTTAAAATTTATAAAGATATAAACTAATAAAATGATAAA
45399536 ATTATATTTT
65 ATTATATTTT
45399546 TACTATAGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
83 1 0.02
84 40 0.65
85 21 0.34
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (85 bp):
AAATAAAAAATTTTTAATATAATCTTTTAAAATTTATAAAGATATAAACTAATAAAATGATAAAA
TTATATTTTAACTCCCTTAA
Found at i:45401834 original size:21 final size:21
Alignment explanation
Indices: 45401808--45401848 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
45401798 ACTTCTATTG
45401808 TTCCTCATATATCCTTTGTTC
1 TTCCTCATATATCCTTTGTTC
45401829 TTCCTCATATATCCTTTGTT
1 TTCCTCATATATCCTTTGTT
45401849 GAAAGGACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.54
Consensus pattern (21 bp):
TTCCTCATATATCCTTTGTTC
Found at i:45406890 original size:46 final size:47
Alignment explanation
Indices: 45406833--45407011 Score: 179
Period size: 46 Copynumber: 3.9 Consensus size: 47
45406823 GGATATTTGG
* *
45406833 GCATTCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
45406880 -CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGATATGTA-ACTAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAA
* *
45406926 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCGAAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AA
* * * **
45406974 GC--CCGAGCTCGTTGATTTGAGCCCGAGTTTGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45407012 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 65 0.61
47 36 0.34
48 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:45406949 original size:93 final size:93
Alignment explanation
Indices: 45406833--45407002 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
45406823 GGATATTTGG
* * * *
45406833 GCATTCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACA-TCCGAACTCGTTGAG
1 GCATCCGAACTCGTTAAGCTGAGTCCGAGTTCACTCATGGATGCGAA-AGCCCGAACTCGTTGAG
*
45406897 TTGAGTCCGAGTTCGTGATATGTAACTAA
65 TTGAGCCCGAGTTCGTGATATGTAACTAA
* * *
45406926 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTAAGCTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAACTCGTTGAGT
45406991 TGAGCCCGAGTT
66 TGAGCCCGAGTT
45407003 TGCTTATGGG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 67 0.99
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGCTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTGATATGTAACTAA
Found at i:45408574 original size:33 final size:33
Alignment explanation
Indices: 45408500--45408593 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
45408490 CTTTGTCTTG
* *
45408500 TGTTTACTATCCTAGCGGACGTATCTATGTTCTA
1 TGTTTACTATCCTAGCGGAC-TATCTCTGTTCAA
** * *
45408534 TACTTACTATCCTAGTGGACCATCTCTGTTCAA
1 TGTTTACTATCCTAGCGGACTATCTCTGTTCAA
*
45408567 TGTTTACTATCCCAGCGGACTATCTCT
1 TGTTTACTATCCTAGCGGACTATCTCT
45408594 ATGGATGCCG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 32 0.65
34 17 0.35
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTTTACTATCCTAGCGGACTATCTCTGTTCAA
Found at i:45414211 original size:116 final size:116
Alignment explanation
Indices: 45414002--45414470 Score: 922
Period size: 116 Copynumber: 4.1 Consensus size: 116
45413992 TAGTGTTTCT
45414002 ATTTT-TACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
1 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
45414066 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
66 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
45414117 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
1 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
45414182 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
66 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
45414233 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
1 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
45414298 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
66 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
45414349 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
1 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
*
45414414 CCTATACTTTGAAAAAGTTATGGATTTAACCCCTATACTTTAATTTAATCA
66 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
45414465 ATTTTA
1 ATTTTA
45414471 ATCCTTATAC
Statistics
Matches: 352, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
115 5 0.01
116 347 0.99
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (116 bp):
ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
Found at i:45415078 original size:23 final size:23
Alignment explanation
Indices: 45415052--45415103 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
45415042 TGAATTTTTT
* *
45415052 TTGAATTTT-GAGTTCAAATCAAG
1 TTGAATTTTCGAATTCAAAT-AAC
45415075 TTGAATTTTCGAATTCAAATAAC
1 TTGAATTTTCGAATTCAAATAAC
45415098 TTGAAT
1 TTGAAT
45415104 AATTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (23 bp):
TTGAATTTTCGAATTCAAATAAC
Found at i:45415362 original size:110 final size:113
Alignment explanation
Indices: 45415206--45415417 Score: 313
Period size: 110 Copynumber: 1.9 Consensus size: 113
45415196 TTCCCACTTT
* * * *
45415206 CCCTCAAAACTTTTACTCCCTTCCCCTCCCAACCCACCCCCTATCTACCCCAAATTCATTTCTTC
1 CCCTCAAAACTTTTACTCCCCTCCCATCCCAACCCACCCCCAATCTACCCCAAACTCATTTCTTC
45415271 CCAA-TTTTTTAAAAATATTTT-CTCCAAAAATTTTACTCTCCAAAAA
66 CCAATTTTTTTAAAAATATTTTCCTCCAAAAATTTTACTCTCCAAAAA
* * *
45415317 CCCTCAAAACTTTTACTCCCCT-CCATCTCAACCCACCTCCAATCTACCTCAAACTCATTTCTTC
1 CCCTCAAAACTTTTACTCCCCTCCCATCCCAACCCACCCCCAATCTACCCCAAACTCATTTCTTC
*
45415381 CCAATTTTTTTTTAAAATATTTTCCCTCCAAAAATTT
66 CCAA-TTTTTTTAAAAATATTTT-CCTCCAAAAATTT
45415418 ACTTTCCCCA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
110 40 0.45
111 21 0.24
112 16 0.18
114 12 0.13
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.35
Consensus pattern (113 bp):
CCCTCAAAACTTTTACTCCCCTCCCATCCCAACCCACCCCCAATCTACCCCAAACTCATTTCTTC
CCAATTTTTTTAAAAATATTTTCCTCCAAAAATTTTACTCTCCAAAAA
Found at i:45415521 original size:131 final size:127
Alignment explanation
Indices: 45415289--45415551 Score: 293
Period size: 131 Copynumber: 2.0 Consensus size: 127
45415279 TTAAAAATAT
* *
45415289 TTTCTCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCCCTCCATCTCAACCCACC
1 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACT-CCATCCATCTCAACCCACC
* * * * *
45415354 TCCAATCTACCTCAAACTCATTTCTTCCCAATTTTTTTTTAAAATATTTTCCCTCCAAAAATTTA
65 TCCAATCTACCCCAAACCCATCTCCTCCCAA-ATTTTTTT--AATATTTTCCCTCCAAAAATTTA
45415419 C
127 C
* *
45415420 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACT-CAT-CTTCT-ATCCCACC-
1 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCATCCATCTCAACCCACCT
* * *
45415481 CC-ATCTACCCCAAACCCATCCCACTCCTCCCTTAAATTTTTTTAATATTTTCTCTTCAAAATTT
66 CCAATCTACCCCAAACCCAT----CTCCTCCC--AAATTTTTTTAATATTTTCCCTCCAAAAATT
45415545 TAC
125 TAC
45415548 TTTC
1 TTTC
45415552 AAAAACCCTC
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
125 15 0.13
126 2 0.02
127 7 0.06
128 29 0.25
129 8 0.07
130 7 0.06
131 46 0.40
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (127 bp):
TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCATCCATCTCAACCCACCT
CCAATCTACCCCAAACCCATCTCCTCCCAAATTTTTTTAATATTTTCCCTCCAAAAATTTAC
Found at i:45427989 original size:23 final size:26
Alignment explanation
Indices: 45427962--45428008 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
45427952 ACTCTCAACA
45427962 TTTAC-ACTTTG-T-TATTTTTTTCT
1 TTTACAACTTTGCTCTATTTTTTTCT
*
45427985 TTTACAATTTTGCTCTATTTTTTT
1 TTTACAACTTTGCTCTATTTTTTT
45428009 TGTGACATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 5 0.25
25 1 0.05
26 9 0.45
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTACAACTTTGCTCTATTTTTTTCT
Found at i:45429218 original size:22 final size:22
Alignment explanation
Indices: 45429172--45429218 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
45429162 TTTAGATTAG
*
45429172 TTTAATATTATTTAATTAAATA
1 TTTAATATTATTTAATCAAATA
45429194 TTTAA-ATTAGTTTAAATCAAA-A
1 TTTAATATTA-TTT-AATCAAATA
45429216 TTT
1 TTT
45429219 TAACCAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 12 0.55
23 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTAATATTATTTAATCAAATA
Found at i:45448045 original size:26 final size:26
Alignment explanation
Indices: 45448016--45448066 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
45448006 ATAACAATTT
* * *
45448016 ATAATTAAAATATTAATATTATAAAA
1 ATAATCAAAATATTAAAACTATAAAA
*
45448042 ATAATCAAAATTTTAAAACTATAAA
1 ATAATCAAAATATTAAAACTATAAA
45448067 TGTAGAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATCAAAATATTAAAACTATAAAA
Found at i:45469843 original size:249 final size:249
Alignment explanation
Indices: 45469405--45469903 Score: 971
Period size: 249 Copynumber: 2.0 Consensus size: 249
45469395 CTTGTGCATG
45469405 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
1 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
*
45469470 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATATTCAATACAAATT
66 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
45469535 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
131 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
45469600 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
196 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
*
45469654 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACACCCCTGGTTCAACCAGTTGAAC
1 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
45469719 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
66 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
45469784 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
131 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
*
45469849 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAGTTCATGTACCT
196 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
45469903 G
1 G
45469904 AATAGATATT
Statistics
Matches: 247, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
249 247 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (249 bp):
GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
Found at i:45477661 original size:9 final size:9
Alignment explanation
Indices: 45477647--45477696 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
45477637 ATAAGTATAA
45477647 AATTAACCG
1 AATTAACCG
45477656 AATTAACCG
1 AATTAACCG
**
45477665 AATTAATTG
1 AATTAACCG
*
45477674 AATTAACCA
1 AATTAACCG
45477683 AATTAACCG
1 AATTAACCG
45477692 AATTA
1 AATTA
45477697 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:45483100 original size:19 final size:18
Alignment explanation
Indices: 45483072--45483111 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
45483062 TATTTTTTTT
* *
45483072 AAAAACACAAAATATAAAA
1 AAAAAAACAAAA-ACAAAA
45483091 AAAAAAACAAAAACAAAA
1 AAAAAAACAAAAACAAAA
45483109 AAA
1 AAA
45483112 CATGCACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAAACAAAAACAAAA
Found at i:45484814 original size:29 final size:29
Alignment explanation
Indices: 45484761--45484825 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
45484751 AAATTTTAAA
* *
45484761 TTAATAAATATAAAATTATACTTTAATTTT
1 TTAA-AAATATAAAATTATAATTTAATCTT
45484791 TTAAAAATATAATAATT-TAATTTAATCTT
1 TTAAAAATATAA-AATTATAATTTAATCTT
45484820 TTAAAA
1 TTAAAA
45484826 TTTATAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAAAATATAAAATTATAATTTAATCTT
Found at i:45501359 original size:3 final size:3
Alignment explanation
Indices: 45501351--45501380 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45501341 TATTCCAATG
45501351 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45501381 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45502164 original size:105 final size:105
Alignment explanation
Indices: 45501981--45502178 Score: 342
Period size: 105 Copynumber: 1.9 Consensus size: 105
45501971 TCTAAATGAG
* *
45501981 GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGGTTTCTTGTT
1 GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
* *
45502046 CGACCAAATAGCCAAATATCCTTTTAAACTTTTAAATAAA
66 CGACCAAACAGCCAAATATCCTCTTAAACTTTTAAATAAA
*
45502086 GCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
1 GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
*
45502151 CGACTAAACAGCCAAATATCCTCTTAAA
66 CGACCAAACAGCCAAATATCCTCTTAAA
45502179 GCTTCAAAGT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (105 bp):
GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTT
CGACCAAACAGCCAAATATCCTCTTAAACTTTTAAATAAA
Found at i:45512707 original size:1 final size:1
Alignment explanation
Indices: 45512701--45512736 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
45512691 GTGAAAACCC
45512701 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45512737 GGGGGAGAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:45513778 original size:44 final size:45
Alignment explanation
Indices: 45513638--45515115 Score: 881
Period size: 44 Copynumber: 33.4 Consensus size: 45
45513628 TGAAGTCATT
* * * * *
45513638 AAAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAAATCGACG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * *
45513682 -ACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * *
45513726 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
** * * * *
45513770 GTAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGACG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * *
45513814 -ACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45513858 AAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * * * *
45513902 ATAGCAGGTCCTATCTTCCTATATTGGTAG-AAAGTGGATCG-AG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45513945 GATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGCAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45513990 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
** ** * * * * *
45514034 GTAGCAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATTGACG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* *
45514078 -ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * ** * * * *
45514122 AAAGCAGATCGAAGATGGCGGATTTTACCT-CCCTGATTACGGTGGAGTACAT---TG
1 AAAGCAGATC-----T---TG-TCTT-CCTATACTG-GT--GGTGAAGTAGATCGAAG
* ** * * * *
45514176 -AAGCTGATAGT-TCTAT-C--TCCCGG-GGCAAGAAATAGATCGAAG
1 AAAGCAGATCTTGTCT-TCCTATACTGGTGG--TGAAGTAGATCGAAG
* * * * * * * *
45514218 ATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * *
45514262 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45514306 AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45514350 ATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * *
45514393 AATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AA-AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45514438 AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45514482 ATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * *
45514525 AATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AA-AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45514570 AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45514614 ATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * *
45514657 AATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AA-AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45514702 AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45514746 ATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * *
45514789 AATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AA-AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45514834 AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45514878 ATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * *
45514921 AATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AA-AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * *
45514966 AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * * * *
45515010 ATAGCTGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* * * *
45515053 AATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAG
1 AA-AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
* *
45515098 GAAGTAGATCTTGTCTTC
1 AAAGCAGATCTTGTCTTC
45515116 ATGTATTGGC
Statistics
Matches: 1112, Mismatches: 254, Indels: 135
0.74 0.17 0.09
Matches are distributed among these distances:
37 2 0.00
39 6 0.01
41 3 0.00
42 2 0.00
43 263 0.24
44 582 0.52
45 221 0.20
46 3 0.00
47 1 0.00
50 1 0.00
53 8 0.01
54 7 0.01
55 3 0.00
57 10 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
AAAGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAG
Found at i:45514373 original size:132 final size:132
Alignment explanation
Indices: 45514208--45515126 Score: 1768
Period size: 132 Copynumber: 7.0 Consensus size: 132
45514198 GGGCAAGAAA
* * * *
45514208 TAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
45514273 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
45514338 AG
131 AG
45514340 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
45514405 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
45514470 AG
131 AG
45514472 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
45514537 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
45514602 AG
131 AG
45514604 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
45514669 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
45514734 AG
131 AG
45514736 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
45514801 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
45514866 AG
131 AG
45514868 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
45514933 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
45514998 AG
131 AG
45515000 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
1 TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
* *
45515065 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAG-GAAGTAGATCTTGTCTTCATGTATTGGCG
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAG-AGCAGATCTTGTCTTCATGTATTGGCG
45515127 NNNNNNNNNN
Statistics
Matches: 780, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
131 1 0.00
132 779 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
TAGATCGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAAATACAGATCTT
GTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAGAGCAGATCTTGTCTTCATGTATTGGCGTGA
AG
Done.