Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 160 of 202
Found at i:50117401 original size:40 final size:40
Alignment explanation
Indices: 50117357--50117444 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 40
50117347 GCTTTTAGAA
*
50117357 GCGCTAGGAAAAACGCCGCTAAAGA-CAAGGACCTTTAGCG
1 GCGCTAGCAAAAACGCCGCTAAAGAGC-AGGACCTTTAGCG
** *
50117397 GCGCTTTTCTCACAAACGCCGCTAAAGAGCAGGACCTTTAGCG
1 GCGC---TAGCAAAAACGCCGCTAAAGAGCAGGACCTTTAGCG
50117440 GCGCT
1 GCGCT
50117445 TTTCCCACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
40 5 0.12
43 34 0.85
44 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (40 bp):
GCGCTAGCAAAAACGCCGCTAAAGAGCAGGACCTTTAGCG
Found at i:50117532 original size:129 final size:129
Alignment explanation
Indices: 50117389--50117834 Score: 506
Period size: 129 Copynumber: 3.5 Consensus size: 129
50117379 AGACAAGGAC
*
50117389 CTTTAGCGGCGCTTTTCTC-ACAAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTTTCCCAC
1 CTTTAGCGGCGC-TTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
50117453 AAACGCCGCTAAAGAACCTGATCTTTAGAGGCGCTTTCTCCACAAACGCGGCTAAAGAACCTAAT
65 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
* * ** * *
50117518 CTTTAGCGGCGCTTTCTCTACAAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTTTCCACA
1 CTTTAGCGGCGCTTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTCCCACA
* **
50117583 AACGCCGCTAAAGAACCTG-TGCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAATCTGGT
66 AACGCCGCTAAAGAACCTGAT-CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
* * * * *** * *
50117647 CTTTAACGGCGCTTTCTCCACAAACGCCGCAAAAGACCCCTATCTTTAGCGGCAC-TTTCTCCAC
1 CTTTAGCGGCGCTTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTC-CCAC
* * * * * **
50117711 AAACGCCGCAAAAGACCCTCATCTTTAGCGGCGCTTTCTACACAAACGCCGCTAAAGACCCTTCT
65 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
* ** * * *
50117776 CTTTAGTGGCATTTTTGTCGA-AAACGCCGCTAAAG-GCCAAGACCTTTAGTGGCGTTTTT
1 CTTTAGCGGC-GCTTTCTCGACAAACGCCGCTAAAGAG-CAAGACCTTTAGCGGCGCTTTT
50117835 TTTTAAAACG
Statistics
Matches: 269, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
128 10 0.04
129 249 0.93
130 10 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTCTCGACAAACGCCGCTAAAGAGCAAGACCTTTAGCGGCGCTTTTCCCACA
AACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTAAT
Found at i:50117772 original size:43 final size:43
Alignment explanation
Indices: 50117367--50117768 Score: 526
Period size: 43 Copynumber: 9.3 Consensus size: 43
50117357 GCGCTAGGAA
** *
50117367 AAACGCCGCTAAAG-ACAAGGACCTTTAGCGGCGCTTT-TCTCAC
1 AAACGCCGCTAAAGAAC-CTGATCTTTAGCGGCGCTTTCTC-CAC
* ** *
50117410 AAACGCCGCTAAAGAGCAGGACCTTTAGCGGCGCTTT-TCCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCT-CCAC
*
50117453 AAACGCCGCTAAAGAACCTGATCTTTAGAGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
* * *
50117496 AAACGCGGCTAAAGAACCTAATCTTTAGCGGCGCTTTCTCTAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
*
50117539 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
50117582 AAACGCCGCTAAAGAACCTG-TGCTTTAGCGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGAACCTGAT-CTTTAGCGGCGCTTTCTCCAC
* * *
50117625 AAACGCCGCTAAAGAATCTGGTCTTTAACGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
* * *
50117668 AAACGCCGCAAAAGACCCCT-ATCTTTAGCGGCACTTTCTCCAC
1 AAACGCCGCTAAAGA-ACCTGATCTTTAGCGGCGCTTTCTCCAC
* * * *
50117711 AAACGCCGCAAAAGACCCTCATCTTTAGCGGCGCTTTCTACAC
1 AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
50117754 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
50117769 CCCTTCTCTT
Statistics
Matches: 326, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
42 5 0.02
43 315 0.97
44 6 0.02
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTCTCCAC
Found at i:50117801 original size:43 final size:41
Alignment explanation
Indices: 50117432--50117810 Score: 184
Period size: 43 Copynumber: 8.8 Consensus size: 41
50117422 AGAGCAGGAC
* ** * * *
50117432 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCT-CT
* * * * * * * *
50117475 CTTTAGAGGCGCTTTCTCCACAAACGCGGCTAAAGAACCTAAT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCT-CT
** * * * *
50117518 CTTTAGCGGCGCTTTCTCTACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCATTTTTTC-ACAAACGCCGCAAAAGACCCT-CT
* * * * *
50117561 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACCTGT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCTCT
* * * * ** *
50117603 GCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAATCTGGT
1 -CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCCT-CT
* * * * *
50117647 CTTTAACGGCGCTTTCTCCACAAACGCCGCAAAAGACCCCTAT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGA-CCCTCT
* *
50117690 CTTTAGCGGCACTTTCTCCACAAACGCCGCAAAAGACCCTCAT
1 CTTTAGCGGCA-TTTTTTCACAAACGCCGCAAAAGACCCTC-T
* * * *
50117733 CTTTAGCGGCGCTTTCTACACAAACGCCGCTAAAGACCCTTCT
1 CTTTAGCGGC-ATTTTTTCACAAACGCCGCAAAAGACCC-TCT
* *
50117776 CTTTAGTGGCATTTTTGTCGA-AAACGCCGCTAAAG
1 CTTTAGCGGCATTTTT-TC-ACAAACGCCGCAAAAG
50117811 GCCAAGACCT
Statistics
Matches: 290, Mismatches: 35, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
42 12 0.04
43 267 0.92
44 11 0.04
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTTCACAAACGCCGCAAAAGACCCTCT
Found at i:50118189 original size:21 final size:21
Alignment explanation
Indices: 50118160--50118251 Score: 103
Period size: 21 Copynumber: 4.4 Consensus size: 21
50118150 TTTTACGTTG
*
50118160 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
50118181 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
50118202 CTCTGTTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
50118223 CTCTGCTTCTCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
*
50118244 ATCTGCTT
1 CTCTGCTT
50118252 TAAGCTGCTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:50118388 original size:66 final size:65
Alignment explanation
Indices: 50118213--50118392 Score: 227
Period size: 66 Copynumber: 2.7 Consensus size: 65
50118203 TCTGTTTCCC
* * * *
50118213 TCGTTGCAGCCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATAC
1 TCGTTG-AACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATAC
50118278 TT
64 TT
* *
50118280 TCGTTGAACCTCGGCTTCTCTCGCTGCTGCATCCACTTTAAGTTGTAGCTGGAGTTCTTCATATC
1 TCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-C
50118345 TT
64 TT
* * * *
50118347 T-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 TCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTG
50118393 TAATTTGCTC
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 88 0.88
67 10 0.10
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (65 bp):
TCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTT
Found at i:50124056 original size:9 final size:9
Alignment explanation
Indices: 50124044--50124142 Score: 82
Period size: 9 Copynumber: 11.2 Consensus size: 9
50124034 CAAAGTTATA
50124044 TTATGTAAG
1 TTATGTAAG
*
50124053 TTATTTAAG
1 TTATGTAAG
50124062 TTATGTAAG
1 TTATGTAAG
*
50124071 TTGTGT-A-
1 TTATGTAAG
50124078 TTATGTAAG
1 TTATGTAAG
*
50124087 TTATGTAGG
1 TTATGTAAG
50124096 TTATGT-A-
1 TTATGTAAG
*
50124103 TAATGTAAG
1 TTATGTAAG
*
50124112 TTAT-TATG
1 TTATGTAAG
50124120 TTATTATGTAAG
1 ---TTATGTAAG
*
50124132 TTATGCAAG
1 TTATGTAAG
50124141 TT
1 TT
50124143 TATATATAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
7 10 0.14
8 6 0.08
9 48 0.68
11 4 0.06
12 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50124086 original size:25 final size:25
Alignment explanation
Indices: 50124053--50124142 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
50124043 ATTATGTAAG
*
50124053 TTATTTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
* *
50124078 TTATGTAAGTTATGTAGGTTATGTA
1 TTATGTAAGTTATGTAAGTTGTGTA
*
50124103 TAATGTAAGTTAT-T-A--TGT-TA
1 TTATGTAAGTTATGTAAGTTGTGTA
*
50124123 TTATGTAAGTTATGCAAGTT
1 TTATGTAAGTTATGTAAGTT
50124143 TATATATAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
20 14 0.26
21 2 0.04
22 1 0.02
24 2 0.04
25 34 0.64
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.49
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTGTGTA
Found at i:50124130 original size:20 final size:21
Alignment explanation
Indices: 50124076--50124136 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
50124066 GTAAGTTGTG
50124076 TATTATGTAAGTTATGTAGGT
1 TATTATGTAAGTTATGTAGGT
*
50124097 TATGTATAATGTAAGTTAT-TATGT
1 TA--T-T-ATGTAAGTTATGTAGGT
50124121 TATTATGTAAGTTATG
1 TATTATGTAAGTTATG
50124137 CAAGTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 11 0.32
21 3 0.09
22 1 0.03
23 1 0.03
24 7 0.21
25 11 0.32
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (21 bp):
TATTATGTAAGTTATGTAGGT
Found at i:50124290 original size:45 final size:45
Alignment explanation
Indices: 50124207--50124294 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
50124197 TTATTTTTAA
* *
50124207 ATATCCATACCATATATGGGGTGATAAAATTGACATATAGGTTAT
1 ATATCCATACCATATATGGGGTGATAAAATTAAAATATAGGTTAT
*
50124252 ATATCCATACCATATATGGGGTGAT-ATATTAAAAATATAGGTT
1 ATATCCATACCATATATGGGGTGATAAAATT-AAAATATAGGTT
50124295 TTAATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 4 0.10
45 35 0.90
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (45 bp):
ATATCCATACCATATATGGGGTGATAAAATTAAAATATAGGTTAT
Found at i:50124452 original size:18 final size:18
Alignment explanation
Indices: 50124429--50124509 Score: 105
Period size: 18 Copynumber: 4.6 Consensus size: 18
50124419 ATATATAAAT
50124429 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
* *
50124447 TTTAAGTAAT-AAAT-TT
1 TTTAAGTAATGTAATATA
50124463 TTGTAAGTAATGTAATA-A
1 TT-TAAGTAATGTAATATA
50124481 TTTTAAGTAATGTAATATA
1 -TTTAAGTAATGTAATATA
50124500 TTTAAGTAAT
1 TTTAAGTAAT
50124510 ATATTTTAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.06
17 11 0.20
18 37 0.69
19 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:50124457 original size:13 final size:13
Alignment explanation
Indices: 50124439--50124618 Score: 66
Period size: 13 Copynumber: 13.4 Consensus size: 13
50124429 TTTAAGTAAT
50124439 GTAATATATTTAA
1 GTAATATATTTAA
* **
50124452 GTAATAAATTTTT
1 GTAATATATTTAA
*
50124465 GTAAGTA-ATGTAA
1 GTAA-TATATTTAA
* **
50124478 -TAATTTTAAGTAA
1 GTAA-TATATTTAA
50124491 TGTAATATATTTAA
1 -GTAATATATTTAA
*
50124505 GTAATATATTTTA
1 GTAATATATTTAA
*
50124518 GTAAGTA-ATGTAA
1 GTAA-TATATTTAA
* *
50124531 GTAATGTAATATATACT
1 GTAA--T-ATATTTA-A
*
50124548 TTAAT-T-TTAGTAA
1 GTAATATATT--TAA
*
50124561 GTAATGTATTTAA
1 GTAATATATTTAA
50124574 GTAATATATTTAA
1 GTAATATATTTAA
*
50124587 GTAA-ATTTTAGTAA
1 GTAATATATT--TAA
* *
50124601 TTAATATATTTAC
1 GTAATATATTTAA
50124614 GTAAT
1 GTAAT
50124619 GTAAGTTATA
Statistics
Matches: 124, Mismatches: 27, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
12 9 0.07
13 76 0.61
14 21 0.17
15 11 0.09
16 4 0.03
17 3 0.02
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:50124489 original size:53 final size:54
Alignment explanation
Indices: 50124426--50124535 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 54
50124416 TATATATATA
*
50124426 AATTTTAAGTAATGTAATATATTTAAGTAATAAATTTTTGTAAGTAATGTAA-T
1 AATTTTAAGTAATGTAATATATTTAAGTAATAAATTTTAGTAAGTAATGTAAGT
*
50124479 AATTTTAAGTAATGTAATATATTTAAGTAATATATTTTAGTAAGTAATGTAAGT
1 AATTTTAAGTAATGTAATATATTTAAGTAATAAATTTTAGTAAGTAATGTAAGT
50124533 AAT
1 AAT
50124536 GTAATATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 50 0.93
54 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.45
Consensus pattern (54 bp):
AATTTTAAGTAATGTAATATATTTAAGTAATAAATTTTAGTAAGTAATGTAAGT
Found at i:50124521 original size:31 final size:32
Alignment explanation
Indices: 50124431--50124544 Score: 103
Period size: 35 Copynumber: 3.5 Consensus size: 32
50124421 ATATAAATTT
*
50124431 TAAGTAATGTAATATA-TTTAAGTAA-TAAATTTTTG
1 TAAGTAATGTAATATATTTTAAGTAAGT-AA----TA
50124466 TAAGTAATGTAATA-ATTTTAAGTAATGTAATA
1 TAAGTAATGTAATATATTTTAAGTAA-GTAATA
** *
50124498 TATTTAA-GTAATATATTTT-AGTAAGTAATG
1 TAAGTAATGTAATATATTTTAAGTAAGTAATA
50124528 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
50124545 ACTTTAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
30 10 0.15
31 20 0.29
32 11 0.16
34 1 0.01
35 23 0.34
36 2 0.03
37 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (32 bp):
TAAGTAATGTAATATATTTTAAGTAAGTAATA
Found at i:50124532 original size:9 final size:9
Alignment explanation
Indices: 50124464--50124539 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
50124454 AATAAATTTT
50124464 TGTAAGTAA
1 TGTAAGTAA
50124473 TGTAA-TAA
1 TGTAAGTAA
*
50124481 TTTTAAGTAA
1 -TGTAAGTAA
50124491 TGTAA-TATA
1 TGTAAGTA-A
*
50124500 TTTAAGTAA
1 TGTAAGTAA
* ** *
50124509 TATATTTTA
1 TGTAAGTAA
50124518 -GTAAGTAA
1 TGTAAGTAA
50124526 TGTAAGTAA
1 TGTAAGTAA
50124535 TGTAA
1 TGTAA
50124540 TATATACTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
8 9 0.18
9 37 0.73
10 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.42
Consensus pattern (9 bp):
TGTAAGTAA
Found at i:50124684 original size:11 final size:11
Alignment explanation
Indices: 50124653--50124685 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
50124643 ATATATTAAT
50124653 AATTCATTGAC
1 AATTCATTGAC
50124664 -ATTCATTGAC
1 AATTCATTGAC
*
50124674 AATTCACTGAC
1 AATTCATTGAC
50124685 A
1 A
50124686 GTCAATCAAT
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:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:50125834 original size:12 final size:12
Alignment explanation
Indices: 50125813--50125843 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50125803 AAATATCGCT
*
50125813 AAACAGACTAGA
1 AAACAAACTAGA
50125825 AAACAAACTAGA
1 AAACAAACTAGA
50125837 AAACAAA
1 AAACAAA
50125844 ACCCAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.16, G:0.10, T:0.06
Consensus pattern (12 bp):
AAACAAACTAGA
Found at i:50126278 original size:16 final size:16
Alignment explanation
Indices: 50126259--50126319 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
50126249 AAATTTGAGT
50126259 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
** *
50126275 ATACCAAAATAAGAATT
1 ATACCAAAATAATTA-G
50126292 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
50126308 ATACCAAAATAA
1 ATACCAAAATAA
50126320 GAAAACAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (16 bp):
ATACCAAAATAATTAG
Found at i:50126298 original size:33 final size:33
Alignment explanation
Indices: 50126258--50126322 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
50126248 GAAATTTGAG
50126258 TATACCAAAATAATTAGATACCAAAATAAGAAT
1 TATACCAAAATAATTAGATACCAAAATAAGAAT
50126291 TATACCAAAATAATTAGATACCAAAATAAGAA
1 TATACCAAAATAATTAGATACCAAAATAAGAA
50126323 AACAGGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.23
Consensus pattern (33 bp):
TATACCAAAATAATTAGATACCAAAATAAGAAT
Found at i:50128025 original size:431 final size:437
Alignment explanation
Indices: 50127279--50128104 Score: 1189
Period size: 431 Copynumber: 1.9 Consensus size: 437
50127269 CGTAATTGCC
* * *
50127279 CCGTTTTAAGAACCTTAAATATATATTTGCGGCGTTTTTAGCAAAAACGCCGCTAAAAATTACCT
1 CCGTTTTAAGAACCTTAAATATATAGTTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTAACT
*
50127344 TACTGAATAGAAACAGTGCCATTTTAAGAAACTTTAATCCATAGTTCTGGCGTTTTCCCGAAAAA
66 TACTGAAAAGAAACAGTGCCATTTTAAGAAACTTTAATCCATA--------G-TTTCCCGAAAAA
*
50127409 CGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGTGACGTTTTGAAAAACATTAAAACATAATTG
122 CGCCACTAAAATGTCAAGTCCTGAAGAGAAACGGTGACGTTTTGAAAAACATT---AC--AATTG
* *
50127474 CGGCGTTTTTAGCATAAACGCCACTAATAGATTACACTCCTCTTCTGAAACGGTGCCGTTCTGAG
182 CGGCGTTTTTAGCATAAACGCCACTAATAGATTACACTACTCTTCTGAAACGGGGCCGTTCTGAG
50127539 AAATTATAATACATATTTACGGCGTTTTCCCAAAAAACGCCAAAAATTAAATTAAATTTCTAAAT
247 AAATTATAATACATATTTACGGCGTTTTCCCAAAAAACGCCAAAAATTAAATTAAATTTCTAAAT
* **
50127604 GGGA-ACGACGTCGTTTTGAAAAAAATGGGTACATAGTTGCGGCGTTTCTATGCAAACGCCACTA
312 -GGATACGACGCCGTTTTGAAAAAAATGGGTACATAGTTGCGGCGTTTCTACCCAAACGCCACTA
50127668 ATGTTTTTTTTTCCTTATAATGTGGTCCTGCGTAATTGCCAAAATTAAATTCTGAAACAGCA
376 ATGTTTTTTTTTCCTTATAATGTGGTCCTGCGTAATTGCCAAAATTAAATTCTGAAACAGCA
* * ** *
50127730 CCGTTTTAAGAACCTTCAATGTATAGTTGCGGCGTTTTTATTAAAAATGCCACTAAAAATTAACT
1 CCGTTTTAAGAACCTTAAATATATAGTTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTAACT
* * * *
50127795 TACTGAAAAGAAACGGTGCCGTTTTAAGAAACTTTAATTCATA-TTTCCGGAAAAACGCCACTAA
66 TACTGAAAAGAAACAGTGCCATTTTAAGAAACTTTAATCCATAGTTTCCCGAAAAACGCCACTAA
* *
50127859 AATGTCAAGTCCTGAAGTGAAACGGTGACGTTTTG-AAAA-A-T-C-CTTGCGGCGTTTTTAGCA
131 AATGTCAAGTCCTGAAGAGAAACGGTGACGTTTTGAAAAACATTACAATTGCGGCGTTTTTAGCA
* * * *
50127919 TAAACGCCACTGATAGATTACAGTACTCTTCTGAAACGGGGCCGTTTTGATAAATTATAATACAT
196 TAAACGCCACTAATAGATTACACTACTCTTCTGAAACGGGGCCGTTCTGAGAAATTATAATACAT
* * * *
50127984 ATTTATGGCGTTTTCCCATAAAATGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGT
261 ATTTACGGCGTTTTCCCAAAAAACGCCAAAAATTAAATTAAATTTCTAAATGGATACGACGCCGT
**
50128049 TTTGAAAAAAATGGGTACATAGTTGCGGCGTTTCTACCCAAACGCTGCTAATGTTT
326 TTTGAAAAAAATGGGTACATAGTTGCGGCGTTTCTACCCAAACGCCACTAATGTTT
50128105 NNNNNNNNNN
Statistics
Matches: 343, Mismatches: 31, Indels: 22
0.87 0.08 0.06
Matches are distributed among these distances:
430 3 0.01
431 184 0.54
434 1 0.00
438 1 0.00
439 1 0.00
440 4 0.01
441 53 0.15
451 96 0.28
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (437 bp):
CCGTTTTAAGAACCTTAAATATATAGTTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTAACT
TACTGAAAAGAAACAGTGCCATTTTAAGAAACTTTAATCCATAGTTTCCCGAAAAACGCCACTAA
AATGTCAAGTCCTGAAGAGAAACGGTGACGTTTTGAAAAACATTACAATTGCGGCGTTTTTAGCA
TAAACGCCACTAATAGATTACACTACTCTTCTGAAACGGGGCCGTTCTGAGAAATTATAATACAT
ATTTACGGCGTTTTCCCAAAAAACGCCAAAAATTAAATTAAATTTCTAAATGGATACGACGCCGT
TTTGAAAAAAATGGGTACATAGTTGCGGCGTTTCTACCCAAACGCCACTAATGTTTTTTTTTCCT
TATAATGTGGTCCTGCGTAATTGCCAAAATTAAATTCTGAAACAGCA
Found at i:50146555 original size:27 final size:27
Alignment explanation
Indices: 50146512--50146826 Score: 222
Period size: 27 Copynumber: 11.7 Consensus size: 27
50146502 GACATTTTGT
*
50146512 TAGCCTCTGTGGCAAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * *
50146539 TAGCCTTTATGGTAAACTTTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * **
50146566 TATCCTCTATGGCGAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * *
50146593 TAGCCGCTGTGGCT-AACTTTGAAATAA
1 TAGCCTCTGTGG-TAAACTCTGAAAGAA
** *
50146620 TAGGATTTGTGGCT-AACTCTGAAAGAA
1 TAGCCTCTGTGG-TAAACTCTGAAAGAA
** * * * *
50146647 TAGGATTTATGGCAAACTTTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * * *
50146674 TATCCTTTGTGGCAAACTTTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* *
50146701 TATCCTCTGTGGTGAAA-TATGAAAGAA
1 TAGCCTCTGTGGT-AAACTCTGAAAGAA
* *
50146728 TAACCTCTGTGGTGAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* ** * *
50146755 TATCCTCCATGATGAACTCTGAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* * * * *
50146782 TATCCTCTATTGTGAACTCTAAAAGAA
1 TAGCCTCTGTGGTAAACTCTGAAAGAA
* *
50146809 TAGCCTTTGTGGTGAACT
1 TAGCCTCTGTGGTAAACT
50146827 ATAACATACC
Statistics
Matches: 238, Mismatches: 46, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 233 0.98
28 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
TAGCCTCTGTGGTAAACTCTGAAAGAA
Found at i:50146597 original size:54 final size:54
Alignment explanation
Indices: 50146515--50146814 Score: 280
Period size: 54 Copynumber: 5.6 Consensus size: 54
50146505 ATTTTGTTAG
* *
50146515 CCTCTGTGGCAAACTCTGAAAGAATAGCCTTTATGGTAAACTTTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
* * * * *
50146569 CCTCTATGGCGAACTCTGAAAGAATAGCCGCTGTGGCT-AACTTTGAAATAATAG
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGG-TAAACTTTGAAAGAATAT
** * * ** * *
50146623 GATTTGTGGCTAACTCTGAAAGAATAGGATTTATGGCAAACTTTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
* * * * * * *
50146677 CCTTTGTGGCAAACTTTGAAAGAATATCCTCTGTGGTGAAA-TATGAAAGAATAA
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGT-AAACTTTGAAAGAATAT
* * * * * *
50146731 CCTCTGTGGTGAACTCTGAAAGAATATCCTCCATGATGAACTCTGAAAGAATAT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
* * * *
50146785 CCTCTATTGTGAACTCTAAAAGAATAGCCT
1 CCTCTGTGGCGAACTCTGAAAGAATAGCCT
50146815 TTGTGGTGAA
Statistics
Matches: 196, Mismatches: 46, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
53 2 0.01
54 190 0.97
55 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (54 bp):
CCTCTGTGGCGAACTCTGAAAGAATAGCCTCTATGGTAAACTTTGAAAGAATAT
Found at i:50146647 original size:81 final size:81
Alignment explanation
Indices: 50146512--50146761 Score: 261
Period size: 81 Copynumber: 3.1 Consensus size: 81
50146502 GACATTTTGT
* * * *
50146512 TAGCCTCTGTGGCAAACTCTGAAAGAATAGCCTTTATGGTAAACTTTGAAAGAATATCCTCTATG
1 TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGGTAAACTATGAAAGAATAACCTCTATG
50146577 GCGAACTCTGAAAGAA
66 GCGAACTCTGAAAGAA
* * * ** * *** *
50146593 TAGCCGCTGTGGCTAACTTTGAAATAATAGGATTTGTGGCT-AACTCTGAAAGAATAGGATTTAT
1 TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGG-TAAACTATGAAAGAATAACCTCTAT
* *
50146657 GGCAAACTTTGAAAGAA
65 GGCGAACTCTGAAAGAA
* * * * *
50146674 TATCCTTTGTGGCAAACTTTGAAAGAATATCCTCTGTGGTGAAA-TATGAAAGAATAACCTCTGT
1 TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGGT-AAACTATGAAAGAATAACCTCTAT
*
50146738 GGTGAACTCTGAAAGAA
65 GGCGAACTCTGAAAGAA
*
50146755 TATCCTC
1 TAGCCTC
50146762 CATGATGAAC
Statistics
Matches: 133, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
80 1 0.01
81 129 0.97
82 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (81 bp):
TAGCCTCTGTGGCAAACTTTGAAAGAATAGCCTTTGTGGTAAACTATGAAAGAATAACCTCTATG
GCGAACTCTGAAAGAA
Found at i:50149533 original size:31 final size:32
Alignment explanation
Indices: 50149480--50149544 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
50149470 ATAAGTATTA
*
50149480 TTAAGTATTTATTGGTTTTGGCTT-GTAATTT
1 TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
*
50149511 TTAATTATTT-TTGGTTTGTGGCTTGGTAACTT
1 TTAAGTATTTATTGGTTT-TGGCTTGGTAACTT
50149543 TT
1 TT
50149545 CTTTTGGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 15 0.50
32 8 0.27
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.58
Consensus pattern (32 bp):
TTAAGTATTTATTGGTTTTGGCTTGGTAACTT
Found at i:50150091 original size:27 final size:27
Alignment explanation
Indices: 50150053--50150368 Score: 294
Period size: 27 Copynumber: 11.7 Consensus size: 27
50150043 CAAAGCCCTT
* * * *
50150053 AACTTTGAAAGACTAACCTTTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* *
50150080 AACTTTGAAAGAATAACCCCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* *
50150107 AACTCTAAAAGAATAACCTCTATAGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
50150134 AACTCTGAAAGAATAACCTCTATGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* * *
50150161 AACTATGAAAGAATATCCTCTATGATG
1 AACTCTGAAAGAATAACCTCTATGGTG
* * **
50150188 AACTCTGAAAGAATATCCTCTATAGCA
1 AACTCTGAAAGAATAACCTCTATGGTG
* * *
50150215 AACTCTGAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGTG
* * *
50150242 AACTATGAAAGAATAGCCT-T-CGTGTCG
1 AACTCTGAAAGAATAACCTCTATG-GT-G
* * * * * *
50150269 AATTCTTAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAAGAATAACCTCTATGGTG
* *
50150296 AATTCTGAAAGAATAACCTCTGTGGTG
1 AACTCTGAAAGAATAACCTCTATGGTG
* ** * *
50150323 AACTCTAAAAGAATAGTCTTTATGGCG
1 AACTCTGAAAGAATAACCTCTATGGTG
50150350 AACTCTGAAAGAATAACCT
1 AACTCTGAAAGAATAACCT
50150369 TTGTGGCGAA
Statistics
Matches: 239, Mismatches: 46, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 2 0.01
27 233 0.97
28 2 0.01
29 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
AACTCTGAAAGAATAACCTCTATGGTG
Found at i:50150378 original size:81 final size:81
Alignment explanation
Indices: 50150053--50150368 Score: 346
Period size: 81 Copynumber: 3.9 Consensus size: 81
50150043 CAAAGCCCTT
* * * * * * * *
50150053 AACTTTGAAAGACTAACCTTTGTGGTGAACTTTGAAAGAATAACCCCTATGGTGAACTCTAAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
*
50150118 AATAACCTCTATAGTG
66 AATAACCTCTATAGCG
* * **
50150134 AACTCTGAAAGAATAACCTCTATGGTGAACTATGAAAGAATATCCTCTATGATGAACTCTGAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
* *
50150199 AATATCCTCTATAGCA
66 AATAACCTCTATAGCG
* * * * * *
50150215 AACTCTGAAAGAATAACCTTTGTGGCGAACTATGAAAGAATAGCCT-TCGTGTCGAATTCTTAAA
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCT-ATGGCGAACTCTGAAA
* * * *
50150279 GAATAGCCTTTGTGGCG
65 GAATAACCTCTATAGCG
* * * * *
50150296 AATTCTGAAAGAATAACCTCTGTGGTGAACTCTAAAAGAATAGTCTTTATGGCGAACTCTGAAAG
1 AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
50150361 AATAACCT
66 AATAACCT
50150369 TTGTGGCGAA
Statistics
Matches: 196, Mismatches: 37, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 194 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (81 bp):
AACTCTGAAAGAATAACCTCTGTGGTGAACTATGAAAGAATAGCCTCTATGGCGAACTCTGAAAG
AATAACCTCTATAGCG
Found at i:50152847 original size:124 final size:123
Alignment explanation
Indices: 50152681--50152910 Score: 352
Period size: 124 Copynumber: 1.9 Consensus size: 123
50152671 TTACAATTTG
* * *
50152681 ATTACCAGCTATCATCTAAGTAAAGCTAACATGGTAGCTAATGTATTAAGCCAGAAATCTTTGTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTT-TT
* * *
50152746 TTTTTAAAGCAATGAACACTCATCTGACTTTGCAACGTGATGGGAAATGTTACGATCTA
65 TTTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATGGGAAATGTTACGATCTA
** *
50152805 ATTACCAACTATCATCTGGGTAAACCTAACATGGTAGCTAATGCATTAAGCCATAAATCTTTTTT
1 ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTTTT
* *
50152870 TTTTGAAGCAATGAACACTTATCTAAATTTGAAACGTGATG
66 TTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATG
50152911 ATTCTATTCT
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
123 39 0.41
124 56 0.59
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (123 bp):
ATTACCAACTATCATCTAAGTAAACCTAACATGGTAGCTAATGCATTAAGCCAGAAATCTTTTTT
TTTTAAAGCAATGAACACTCATCTAAATTTGAAACGTGATGGGAAATGTTACGATCTA
Found at i:50154630 original size:19 final size:18
Alignment explanation
Indices: 50154606--50154662 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
50154596 AGTAAACTGT
50154606 GTTAATTATAATTAAGTTA
1 GTTAATTATAATTAA-TTA
*
50154625 GTTAATTATAGTTAATTA
1 GTTAATTATAATTAATTA
* *
50154643 GACTAATTATTGATTAATTA
1 G-TTAATTA-TAATTAATTA
50154663 ATGGTTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.12
19 20 0.62
20 8 0.25
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (18 bp):
GTTAATTATAATTAATTA
Found at i:50155610 original size:22 final size:22
Alignment explanation
Indices: 50155582--50155636 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
50155572 AGCATTTCTG
**
50155582 TGCTCTCTGATTAACACTTTAA
1 TGCTCTCTGATTAACACTACAA
* * *
50155604 TGCTCTCTGTTTAGCACTACAG
1 TGCTCTCTGATTAACACTACAA
50155626 TGCTCTCTGAT
1 TGCTCTCTGAT
50155637 GTGGTGTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (22 bp):
TGCTCTCTGATTAACACTACAA
Found at i:50156430 original size:18 final size:19
Alignment explanation
Indices: 50156403--50156445 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
50156393 GTACTCTTGA
* *
50156403 ATAAACAATCAATT-TCAG
1 ATAAATAATCAATTAACAG
*
50156421 ATAAATAATCACTTAACAG
1 ATAAATAATCAATTAACAG
50156440 ATAAAT
1 ATAAAT
50156446 TGGTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAATAATCAATTAACAG
Found at i:50160285 original size:25 final size:25
Alignment explanation
Indices: 50160251--50160325 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
50160241 TTAGGAGTCG
50160251 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
50160276 TCCACTTCGATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
* *
50160301 TCCACTCCAATGCCCAAGACAAAGC
1 TCCACTTCGATGCCCAAGACAAAGC
50160326 ATTTCCCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.37, G:0.15, T:0.15
Consensus pattern (25 bp):
TCCACTTCGATGCCCAAGACAAAGC
Found at i:50177405 original size:35 final size:35
Alignment explanation
Indices: 50177347--50177441 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
50177337 ATAAATTTAG
* **
50177347 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
50177383 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
50177418 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
50177442 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:50179266 original size:16 final size:15
Alignment explanation
Indices: 50179243--50179277 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
50179233 ACGAAAATAT
50179243 AAAGGAAAGAAAGAG
1 AAAGGAAAGAAAGAG
*
50179258 AAAGAGAAAGAAAGAT
1 AAAG-GAAAGAAAGAG
50179274 AAAG
1 AAAG
50179278 TTGACATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
AAAGGAAAGAAAGAG
Found at i:50183697 original size:43 final size:43
Alignment explanation
Indices: 50183635--50183717 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
50183625 GTACAGGTTA
*
50183635 TGCTTCAGTTTATTAGATGATGCACTATGTGTGCCAGTATAGT
1 TGCTTCAGTATATTAGATGATGCACTATGTGTGCCAGTATAGT
* *
50183678 TGCTTCAGTATATTTGATGATGCACTGTGTGTGCCAGTAT
1 TGCTTCAGTATATTAGATGATGCACTATGTGTGCCAGTAT
50183718 GCACTATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (43 bp):
TGCTTCAGTATATTAGATGATGCACTATGTGTGCCAGTATAGT
Found at i:50184723 original size:30 final size:30
Alignment explanation
Indices: 50184689--50184772 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
50184679 AAACCTTTTT
* *
50184689 ACTTTTCCCTCAAAACTTTTACTCTTTCTC
1 ACTTTCCCCCCAAAACTTTTACTCTTTCTC
50184719 ACTTTCCCCCCAAAACTTTTACTCTTTCTC
1 ACTTTCCCCCCAAAACTTTTACTCTTTCTC
50184749 ACTTTCCCCCCAAAACTTTTACTC
1 ACTTTCCCCCCAAAACTTTTACTC
50184773 CCCTCCCCTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.40
Consensus pattern (30 bp):
ACTTTCCCCCCAAAACTTTTACTCTTTCTC
Found at i:50184883 original size:30 final size:31
Alignment explanation
Indices: 50184849--50184908 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
50184839 AAACCTTTTA
*
50184849 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
50184879 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
50184909 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:50187184 original size:24 final size:24
Alignment explanation
Indices: 50187145--50187195 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50187135 TCAAAGTAAG
** *
50187145 TTTTAAATGTTGTCCAAAATATGT
1 TTTTAAATGTCATCCAAAACATGT
*
50187169 TTTTAAATGTCATCCAAAGCATGT
1 TTTTAAATGTCATCCAAAACATGT
50187193 TTT
1 TTT
50187196 AAGAATTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (24 bp):
TTTTAAATGTCATCCAAAACATGT
Found at i:50187898 original size:35 final size:35
Alignment explanation
Indices: 50187859--50188045 Score: 137
Period size: 35 Copynumber: 5.4 Consensus size: 35
50187849 AGGCACCCAT
*
50187859 TTGTCGATTATACCAACCAGTGTTGGGCACATCTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
* *
50187894 TTGTCGGTTATACCGACCAGTGCTT-GGTACATCTA
1 TTGTCGATTATACCGACCAGTG-TTGGGCACATCTA
* * * * * *
50187929 TTATTGGTTTTACCGACCAGTGCTGGACACATCTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
* ** * * ** *
50187964 TTGTTGATTATATTGACCAATGCTACGCACATTTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
* * * * *
50187999 TTGTCAATTTTACC--CTAGTCTTGGGCACATTTA
1 TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
*
50188032 TTGTCGATTTTACC
1 TTGTCGATTATACC
50188046 AGCCAGCGCA
Statistics
Matches: 119, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
33 26 0.22
34 1 0.01
35 90 0.76
36 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (35 bp):
TTGTCGATTATACCGACCAGTGTTGGGCACATCTA
Found at i:50195367 original size:17 final size:15
Alignment explanation
Indices: 50195317--50195371 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
50195307 AGTACCATTG
*
50195317 AATAAATAATCAATTT
1 AATAAATAAT-TATTT
50195333 CAGATAAATAATTATTT
1 -A-ATAAATAATTATTT
50195350 AATAAATAAATTAGTTT
1 AATAAAT-AATTA-TTT
50195367 AATAA
1 AATAA
50195372 TCGAAGTATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 13 0.38
18 9 0.26
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (15 bp):
AATAAATAATTATTT
Found at i:50197720 original size:23 final size:24
Alignment explanation
Indices: 50197667--50197726 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
50197657 TTATTAACAT
50197667 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
***
50197691 TGTTCGTGAACATGTTTGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
50197714 TGTTCGTGAACAT
1 TGTTCGTGAACAT
50197727 TAAACAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:50202970 original size:11 final size:12
Alignment explanation
Indices: 50202954--50202992 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
50202944 GCAAATTGGA
50202954 TAAATTAA-TAT
1 TAAATTAATTAT
50202965 TAAATTAATTAT
1 TAAATTAATTAT
*
50202977 ATAAAATAATTAT
1 -TAAATTAATTAT
50202990 TAA
1 TAA
50202993 TCTAATCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 8 0.32
12 6 0.24
13 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTAATTAT
Found at i:50206129 original size:9 final size:9
Alignment explanation
Indices: 50206115--50206139 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
50206105 ATAATAAAAA
50206115 ATATTTTTT
1 ATATTTTTT
50206124 ATATTTTTT
1 ATATTTTTT
50206133 ATATTTT
1 ATATTTT
50206140 AAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATATTTTTT
Found at i:50206164 original size:11 final size:10
Alignment explanation
Indices: 50206133--50206170 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
50206123 TATATTTTTT
50206133 ATATTTTAAA
1 ATATTTTAAA
50206143 ATATTTTAAA
1 ATATTTTAAA
*
50206153 ATTATTTAAAA
1 A-TATTTTAAA
50206164 ATATTTT
1 ATATTTT
50206171 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATATTTTAAA
Found at i:50211083 original size:29 final size:29
Alignment explanation
Indices: 50211050--50211114 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
50211040 GCAGTTTAAT
*
50211050 TTTTTTTCTTTTATGTTCTTTGAACTTTC
1 TTTTTTTCTTTTATGTTCTTTAAACTTTC
50211079 TTTTTTTCTTTTATGTTCTTTAAACTTTC
1 TTTTTTTCTTTTATGTTCTTTAAACTTTC
50211108 TTTTTTT
1 TTTTTTT
50211115 TTATTCTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.11, C:0.12, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTTTTTCTTTTATGTTCTTTAAACTTTC
Found at i:50211997 original size:25 final size:25
Alignment explanation
Indices: 50211968--50212019 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
50211958 AAAATTGGTA
50211968 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
50211993 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
50212018 AG
1 AG
50212020 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:50214648 original size:14 final size:14
Alignment explanation
Indices: 50214605--50214649 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
50214595 ATTTTACAGA
50214605 ACAGTAAAACATTTT
1 ACAG-AAAACATTTT
* *
50214620 CCAGAAATCATTTT
1 ACAGAAAACATTTT
*
50214634 ACGGAAAACATTTT
1 ACAGAAAACATTTT
50214648 AC
1 AC
50214650 TGCCAAACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (14 bp):
ACAGAAAACATTTT
Found at i:50217881 original size:14 final size:15
Alignment explanation
Indices: 50217849--50217881 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
50217839 TAAATAATTT
50217849 TTATATTTAAAAAAC
1 TTATATTTAAAAAAC
50217864 TTATATTTAAAAAA-
1 TTATATTTAAAAAAC
50217878 TTAT
1 TTAT
50217882 GCACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATTTAAAAAAC
Found at i:50217911 original size:16 final size:16
Alignment explanation
Indices: 50217890--50217929 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50217880 ATGCACTTTT
50217890 ATTTTAAATATATATA
1 ATTTTAAATATATATA
* *
50217906 ATTTTAAATTTTTATA
1 ATTTTAAATATATATA
*
50217922 TTTTTAAA
1 ATTTTAAA
50217930 ATTGACAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATATATATA
Found at i:50218112 original size:32 final size:31
Alignment explanation
Indices: 50218059--50218134 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 31
50218049 TTGAACCAAC
50218059 TTTTATAATTTTTATAATTTATTTGAC-TTAA
1 TTTTATAATTTTTATAATTTATTTG-CTTTAA
*
50218090 TTTTATAATTTTATATAATTTATTTGCTTTTA
1 TTTTATAATTTT-TATAATTTATTTGCTTTAA
50218122 TTTTATAATTTTT
1 TTTTATAATTTTT
50218135 GTATATATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
31 14 0.33
32 28 0.67
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTATAATTTTTATAATTTATTTGCTTTAA
Found at i:50218637 original size:103 final size:103
Alignment explanation
Indices: 50218458--50218664 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
50218448 AAGGAGACCT
50218458 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
*
50218523 TGAGAGATCAAGAGGGACTAGGATTAGTCATAAAATTG
66 TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
*
50218561 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTCGTGGTGAATCTTAGTTTTCAAGGCGAGT
1 AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
*
50218626 TGAGAGATCAAGAAGGACTAGGGTTAGTCATAAAATTG
66 TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
50218664 A
1 A
50218665 GGATGAGTAA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (103 bp):
AATATTTGCTAGACCTTTAAATGAGAGCTACGATTTAGTGGTGAATCTTAGTTTTCAAGGCGAGT
TGAGAGATCAAGAAGGACTAGGATTAGTCATAAAATTG
Found at i:50220944 original size:9 final size:9
Alignment explanation
Indices: 50220930--50220966 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50220920 TATAGTTTGA
50220930 TATTCGAAT
1 TATTCGAAT
50220939 TATTCGAAT
1 TATTCGAAT
*
50220948 TATTCGAGT
1 TATTCGAAT
50220957 TATTCGAAT
1 TATTCGAAT
50220966 T
1 T
50220967 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50221818 original size:27 final size:26
Alignment explanation
Indices: 50221788--50221856 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
50221778 AATTAATATA
*
50221788 TTTCCTTTTTTTTTCTTTTTCCCT-TT
1 TTTCCTTTTTTTTTCATTTT-CCTGTT
*
50221814 CTTTCCCTTGTTTTTTCATTTTCCTGTT
1 -TTT-CCTTTTTTTTTCATTTTCCTGTT
*
50221842 TTTCCTTTTTCTTTC
1 TTTCCTTTTTTTTTC
50221857 CCATTTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.28
27 9 0.25
28 17 0.47
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTCCTTTTTTTTTCATTTTCCTGTT
Found at i:50224065 original size:23 final size:23
Alignment explanation
Indices: 50224022--50224074 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
50224012 AGTGCTATTG
50224022 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
50224045 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
50224068 ATCAGTG
1 ATCAGTG
50224075 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:50225925 original size:2 final size:2
Alignment explanation
Indices: 50225918--50225955 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
50225908 TAGATTGTTG
*
50225918 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50225956 TTTGTTGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:50231733 original size:22 final size:22
Alignment explanation
Indices: 50231691--50231733 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50231681 AAAACAGGCT
**
50231691 TTTAGCGGCGCTTTTTTAAGCC
1 TTTAGCGGCGCTTTTAGAAGCC
50231713 TTTAGCGGCGCTTTTAGAAGC
1 TTTAGCGGCGCTTTTAGAAGC
50231734 GCCAGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TTTAGCGGCGCTTTTAGAAGCC
Found at i:50232161 original size:43 final size:43
Alignment explanation
Indices: 50231769--50232148 Score: 568
Period size: 43 Copynumber: 8.8 Consensus size: 43
50231759 GCGTCGCTAA
* ** *
50231769 CTTTAGCGGCGCTTT-TCTCACAAACGCCGCTAAAGAGCAGGAC
1 CTTTAGCGGCGCTTTCTC-CACAAACGCCGCTAAAGAACCTGAT
50231812 CTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCT-CCACAAACGCCGCTAAAGAACCTGAT
*
50231855 CTTTAGCGGCGCTTTCTCCACAAACGCGGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
50231898 CTTTAGCGGCCCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
50231941 ATTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
50231984 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACCTG-T
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
* * *
50232026 GCTTTAGCGGCGCTTTCTCTACAAACGCCGCTAAAGAATCTGGT
1 -CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
* * * *
50232070 CTTTAGCGGCGTTTTCTCCACAAACGCCGCAAAAGACCCTTAT
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
*
50232113 CTTTAGCGGCGCTTTCTACACAAACGCCGCTAAAGA
1 CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGA
50232149 CCCTTCTCTT
Statistics
Matches: 309, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
42 1 0.00
43 305 0.99
44 3 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAACCTGAT
Found at i:50232568 original size:21 final size:21
Alignment explanation
Indices: 50232539--50232630 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
50232529 TTTTACGCTG
50232539 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
50232560 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
50232581 CTCTGCTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
50232602 CTCTGCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
50232623 ATCTGCTT
1 CTCTGCTT
50232631 TAAGCTGCTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.05, C:0.43, G:0.16, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:50232767 original size:66 final size:65
Alignment explanation
Indices: 50232592--50232771 Score: 218
Period size: 66 Copynumber: 2.7 Consensus size: 65
50232582 TCTGCTTCCC
* * * * * *
50232592 TCGTTGCAGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATAC
1 TCGTTG-AACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATAC
50232657 TT
64 TT
* *
50232659 TCGTTGAACCTCGGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATATC
1 TCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-C
50232724 TT
64 TT
* * *
50232726 T-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 TCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
50232772 TAATTTGCTC
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 89 0.88
67 10 0.10
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.39
Consensus pattern (65 bp):
TCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTT
Found at i:50236049 original size:16 final size:16
Alignment explanation
Indices: 50236028--50236063 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50236018 TCTTGCAAGT
*
50236028 TTATGTATAATGTAGG
1 TTATGTATAATGTAAG
50236044 TTATGTATAATGTAAG
1 TTATGTATAATGTAAG
50236060 TTAT
1 TTAT
50236064 TATGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
TTATGTATAATGTAAG
Found at i:50236117 original size:53 final size:54
Alignment explanation
Indices: 50236037--50236143 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 54
50236027 TTTATGTATA
*
50236037 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTTA-TTATACAAGTT
1 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATACAAGTT
*
50236090 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATGCAAGTT
1 ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATACAAGTT
50236144 TATATATAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 41 0.80
54 10 0.20
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (54 bp):
ATGTAGGTTATGTATAATGTAAGTTATTATGTTATTATGTAAGTTATACAAGTT
Found at i:50236131 original size:20 final size:20
Alignment explanation
Indices: 50236067--50236136 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
50236057 AAGTTATTAT
**
50236067 GTTATTATGTTATTATACAA
1 GTTATTATGTTATTATGTAA
*
50236087 GTTATGTAGGTTATGTATAATGTAA
1 GTTAT-TATGTTA--T-T-ATGTAA
50236112 GTTATTATGTTATTATGTAA
1 GTTATTATGTTATTATGTAA
50236132 GTTAT
1 GTTAT
50236137 GCAAGTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 16 0.39
21 7 0.17
22 1 0.02
23 1 0.02
24 7 0.17
25 9 0.22
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (20 bp):
GTTATTATGTTATTATGTAA
Found at i:50236392 original size:39 final size:41
Alignment explanation
Indices: 50236348--50236447 Score: 141
Period size: 44 Copynumber: 2.4 Consensus size: 41
50236338 ATTTATTGAC
50236348 AATAAAATTGAAATATAGGTTATATATCCATACCATATATAT
1 AATAAAATTGAAATATAGGTTATATATCCATACCA-ATATAT
50236390 AAAATAAAATTGAAATATAGGTTATATATCCATACC-ATATAT
1 --AATAAAATTGAAATATAGGTTATATATCCATACCAATATAT
* *
50236432 -ATAAATTTTAAATATA
1 AATAAAATTGAAATATA
50236448 TATATATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
39 14 0.26
42 6 0.11
44 34 0.63
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (41 bp):
AATAAAATTGAAATATAGGTTATATATCCATACCAATATAT
Found at i:50236398 original size:44 final size:44
Alignment explanation
Indices: 50236348--50236436 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
50236338 ATTTATTGAC
50236348 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATAA
1 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATAA
50236392 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATAA
1 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATAA
50236436 A
1 A
50236437 TTTTAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.34
Consensus pattern (44 bp):
AATAAAATTGAAATATAGGTTATATATCCATACCATATATATAA
Found at i:50236488 original size:18 final size:19
Alignment explanation
Indices: 50236463--50236554 Score: 100
Period size: 18 Copynumber: 4.6 Consensus size: 19
50236453 ATATATATAA
50236463 ATTTTAAGTAATGTAATAT
1 ATTTTAAGTAATGTAATAT
50236482 A-TTTAAGTAATGTAAGTTAT
1 ATTTTAAGTAATGTAA--TAT
50236502 AAATTTTTGTAAGTAATGTAATA-
1 --A--TTT-TAAGTAATGTAATAT
50236525 ATTTTAAGTAATGTAATAT
1 ATTTTAAGTAATGTAATAT
50236544 A-TTTAAGTAAT
1 ATTTTAAGTAAT
50236555 ATATTTTAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 19
0.77 0.00 0.23
Matches are distributed among these distances:
18 38 0.59
19 5 0.08
20 3 0.05
21 1 0.02
22 1 0.02
24 2 0.03
25 2 0.03
26 12 0.19
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (19 bp):
ATTTTAAGTAATGTAATAT
Found at i:50236513 original size:22 final size:23
Alignment explanation
Indices: 50236470--50236541 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 23
50236460 TAAATTTTAA
50236470 GTAATGTAAT-ATATTTAAGTAAT
1 GTAATGTAATAAT-TTTAAGTAAT
* *
50236493 GTAA-GTTATAAATTTT-TGTAA-
1 GTAATGTAAT-AATTTTAAGTAAT
50236514 GTAATGTAATAATTTTAAGTAAT
1 GTAATGTAATAATTTTAAGTAAT
50236537 GTAAT
1 GTAAT
50236542 ATATTTAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 10 0.25
22 16 0.40
23 12 0.30
24 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (23 bp):
GTAATGTAATAATTTTAAGTAAT
Found at i:50236553 original size:13 final size:13
Alignment explanation
Indices: 50236537--50236663 Score: 64
Period size: 13 Copynumber: 9.4 Consensus size: 13
50236527 TTTAAGTAAT
50236537 GTAATATATTTAA
1 GTAATATATTTAA
*
50236550 GTAATATATTTTA
1 GTAATATATTTAA
*
50236563 GTAAGTA-ATGTAA
1 GTAA-TATATTTAA
* *
50236576 GTAATGTAATATATACT
1 GTAA--T-ATATTTA-A
*
50236593 TTAAT-T-TTAGTAA
1 GTAATATATT--TAA
*
50236606 GTAATGTATTTAA
1 GTAATATATTTAA
50236619 GTAATATATTTAA
1 GTAATATATTTAA
*
50236632 GTAA-ATTTTAGTAA
1 GTAATATATT--TAA
* *
50236646 TTAATATATTTAC
1 GTAATATATTTAA
50236659 GTAAT
1 GTAAT
50236664 NNNNNNNNNN
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
12 5 0.06
13 54 0.62
14 13 0.15
15 8 0.09
16 4 0.05
17 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:50236575 original size:62 final size:62
Alignment explanation
Indices: 50236462--50236635 Score: 181
Period size: 62 Copynumber: 2.7 Consensus size: 62
50236452 TATATATATA
* ** * **
50236462 AATTTTAAGTAATGTAATATATTTAAGTAATGTAAGTTA-TAAATTTTTGTAAGTAATGTAAT
1 AATTTTAAGTAATGTAATATATTTAAGTAATATATTTTAGT-AAGTAATGTAAGTAATGTAAT
50236524 AATTTTAAGTAATGTAATATATTTAAGTAATATATTTTAGTAAGTAATGTAAGTAATGTAAT
1 AATTTTAAGTAATGTAATATATTTAAGTAATATATTTTAGTAAGTAATGTAAGTAATGTAAT
* *
50236586 ATATACTTTAATTTTAGTAA-GTAATGTATTTAAGTAATATATTTAAGTAA
1 A-AT--TTT-A----AGTAATGTAATATATTTAAGTAATATATTTTAGTAA
50236636 ATTTTAGTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
62 55 0.58
63 3 0.03
65 3 0.03
66 1 0.01
69 28 0.29
70 5 0.05
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.45
Consensus pattern (62 bp):
AATTTTAAGTAATGTAATATATTTAAGTAATATATTTTAGTAAGTAATGTAAGTAATGTAAT
Found at i:50241104 original size:42 final size:40
Alignment explanation
Indices: 50241044--50241237 Score: 208
Period size: 41 Copynumber: 4.7 Consensus size: 40
50241034 TGTCCTGAGT
* * *
50241044 GGCGCTTTTCCATGAAACGCCGCTAAATACCCCAGCATTAGC
1 GGCGCTTTTTCA-AAAACGCCGCTAAA-GCCCCAGCATTAGC
**
50241086 GGCGCTTTTTCACAAAACGCCGCTAAAGGCCAAAGCATTAGC
1 GGCGCTTTTTCA-AAAACGCCGCTAAA-GCCCCAGCATTAGC
* * * *
50241128 GGCGCTTTTACAAAAACGCCGTTAAAGCCCATAGAATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCCC-CAGCATTAGC
* *
50241169 GGCGCTTATTCAAAAACGCCGCTAAAGCCTACAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGCC-CCAGCATTAGC
* *
50241210 GGCGCTTCTTAATAAAACGCCGCTAAAG
1 GGCGCTTTTTCA-AAAACGCCGCTAAAG
50241238 ACCCGAAAGG
Statistics
Matches: 129, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 3 0.02
41 65 0.50
42 61 0.47
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (40 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAGCATTAGC
Found at i:50241206 original size:82 final size:84
Alignment explanation
Indices: 50241058--50241237 Score: 244
Period size: 83 Copynumber: 2.2 Consensus size: 84
50241048 CTTTTCCATG
* * * *
50241058 AAACGCCGCTAAATACCC-CAGCATTAGCGGCGCTTTTTCACAAAACGCCGCTAAAGGCCAAAGC
1 AAACGCCGCTAAA-GCCCATAGAATTAGCGGCGCTTATTCACAAAACGCCGCTAAAGGCCAAAGC
50241122 ATTAGCGGCGCTT-TTACA-A
65 ATTAGCGGCGCTTCTTA-ATA
* *
50241141 AAACGCCGTTAAAGCCCATAGAATTAGCGGCGCTTATTCA-AAAACGCCGCTAAA-GCCTACAGC
1 AAACGCCGCTAAAGCCCATAGAATTAGCGGCGCTTATTCACAAAACGCCGCTAAAGGCC-AAAGC
50241204 ATTAGCGGCGCTTCTTAATA
65 ATTAGCGGCGCTTCTTAATA
50241224 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
50241238 ACCCGAAAGG
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
81 3 0.03
82 35 0.41
83 48 0.56
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (84 bp):
AAACGCCGCTAAAGCCCATAGAATTAGCGGCGCTTATTCACAAAACGCCGCTAAAGGCCAAAGCA
TTAGCGGCGCTTCTTAATA
Found at i:50241973 original size:21 final size:20
Alignment explanation
Indices: 50241917--50241977 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
50241907 TGATCAGTAG
*
50241917 ACGACACATAAGTGCCTGTA
1 ACGACACATAAGTGCCTGAA
* *
50241937 ACGACACACGAGGTGCCTGAA
1 ACGACACA-TAAGTGCCTGAA
50241958 ACGACACATAAAGTGCCTGA
1 ACGACACAT-AAGTGCCTGA
50241978 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (20 bp):
ACGACACATAAGTGCCTGAA
Found at i:50242991 original size:3 final size:3
Alignment explanation
Indices: 50242983--50243020 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
50242973 ATGCATTAGT
*
50242983 TAA TAA TAA TAA TATA TTA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
50243021 TTTTATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:50243196 original size:15 final size:16
Alignment explanation
Indices: 50243178--50243209 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50243168 TTAATTAATA
50243178 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
50243193 TAATTTAATAATATTT
1 TAATTTAATAATATTT
50243209 T
1 T
50243210 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:50243200 original size:25 final size:26
Alignment explanation
Indices: 50243165--50243217 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
50243155 TATTATCTTA
50243165 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
50243189 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
50243216 AT
1 AT
50243218 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:50265243 original size:12 final size:12
Alignment explanation
Indices: 50265222--50265252 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50265212 AAATATCGCT
*
50265222 AAACAGACTAGA
1 AAACAAACTAGA
50265234 AAACAAACTAGA
1 AAACAAACTAGA
50265246 AAACAAA
1 AAACAAA
50265253 ACCCAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.16, G:0.10, T:0.06
Consensus pattern (12 bp):
AAACAAACTAGA
Found at i:50265685 original size:16 final size:16
Alignment explanation
Indices: 50265666--50265726 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
50265656 AAATTTGAGT
50265666 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
** *
50265682 ATACCAAAATAAGAATT
1 ATACCAAAATAATTA-G
50265699 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
50265715 ATACCAAAATAA
1 ATACCAAAATAA
50265727 GAAAACAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (16 bp):
ATACCAAAATAATTAG
Found at i:50265705 original size:33 final size:33
Alignment explanation
Indices: 50265665--50265729 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
50265655 GAAATTTGAG
50265665 TATACCAAAATAATTAGATACCAAAATAAGAAT
1 TATACCAAAATAATTAGATACCAAAATAAGAAT
50265698 TATACCAAAATAATTAGATACCAAAATAAGAA
1 TATACCAAAATAATTAGATACCAAAATAAGAA
50265730 AACAGGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.23
Consensus pattern (33 bp):
TATACCAAAATAATTAGATACCAAAATAAGAAT
Found at i:50266408 original size:83 final size:84
Alignment explanation
Indices: 50266317--50266521 Score: 195
Period size: 83 Copynumber: 2.5 Consensus size: 84
50266307 AAATATATAT
** * *
50266317 TTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTAC-CTTACTGAATAGAAACGGTGCCGTTTT
1 TTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAAGTACTGAAGAGAAACGGTGACGTTTT
* ** *
50266381 -AAGAAACTTTAATCCATAG
66 GAA-AAACATTAAAACATAA
** * * * *
50266400 TT-CTGGCG-TTTTCCCGAAAAACGGCACT-AAAATTTCAAGTCCTGAAGAGAAACGGTGATGTT
1 TTGC-GGCGTTTTTAGC-AAAAACGCCACTAAAAATTACAAGTACTGAAGAGAAACGGTGACGTT
50266462 TTGAAAAACATTAAAACATAA
64 TTGAAAAACATTAAAACATAA
* *
50266483 TTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTACA
1 TTGCGGCGTTTTTAGCAAAAACGCCACTAA-AAATTACA
50266522 CTCCTCTTCT
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
82 13 0.14
83 66 0.70
84 9 0.10
85 6 0.06
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (84 bp):
TTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAAGTACTGAAGAGAAACGGTGACGTTTT
GAAAAACATTAAAACATAA
Found at i:50267487 original size:21 final size:20
Alignment explanation
Indices: 50267457--50267497 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
50267447 NNNNNNNNCT
*
50267457 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
50267478 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
50267498 TAGTCCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:50268445 original size:42 final size:41
Alignment explanation
Indices: 50268399--50268484 Score: 145
Period size: 42 Copynumber: 2.1 Consensus size: 41
50268389 TAAAATTTCC
* *
50268399 TTAGCGGCGCTTTTCCATAAAACGCCGCTAAATACCCCAGCA
1 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGA-CCCAGCA
50268441 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCCAGCA
1 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCCAGCA
50268482 TTA
1 TTA
50268485 AAAAGCGCCG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 10 0.24
42 32 0.76
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCCAGCA
Found at i:50268554 original size:41 final size:42
Alignment explanation
Indices: 50268484--50268633 Score: 189
Period size: 41 Copynumber: 3.5 Consensus size: 42
50268474 ACCCAGCATT
*
50268484 AAAAAGCGCCGCTAAAGGCCAAAGCATTAGCGGCGCTT-TTAC
1 AAAAA-CGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTATTAC
* *
50268526 AAAAACGCCGCTAAAGCCCATAGAATTAGCGGCGCTTATT-C
1 AAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTATTAC
* * *
50268567 AAAAACGCCGCTAAAGCCTACAGCATTAGCGGCGCTTCTTA-
1 AAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTATTAC
50268608 ATAAAACGCCGCTAAAGACCCGAAAG
1 A-AAAACGCCGCTAAAG-CCC-AAAG
50268634 GTAGGAAAAC
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
41 67 0.71
42 22 0.23
43 2 0.02
44 3 0.03
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTATTAC
Found at i:50269586 original size:21 final size:21
Alignment explanation
Indices: 50269560--50269628 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
50269550 AAAAAAGAAA
*
50269560 AAAAGAAAAAAAATAAAATGGG
1 AAAAGAAAAAAAA-AAAAGGGG
* *
50269582 -AAAGAGAAAGAAAAAAGGGG
1 AAAAGAAAAAAAAAAAAGGGG
*
50269602 AAAAGGAAAAAAAAAAGAAAGGG
1 AAAA-GAAAAAAAAAA-AAGGGG
50269625 AAAA
1 AAAA
50269629 ATAGAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 7 0.18
21 13 0.34
22 9 0.24
23 9 0.24
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAAAGGGG
Found at i:50269602 original size:20 final size:20
Alignment explanation
Indices: 50269567--50269618 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
50269557 AAAAAAAGAA
*
50269567 AAAAAATAAAATGGG-AAAGAG
1 AAAAAA-AAAAGGGGAAAAG-G
*
50269588 AAAGAAAAAAGGGGAAAAGG
1 AAAAAAAAAAGGGGAAAAGG
50269608 AAAAAAAAAAG
1 AAAAAAAAAAG
50269619 AAAGGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAGGGGAAAAGG
Found at i:50270257 original size:61 final size:65
Alignment explanation
Indices: 50270183--50270318 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 65
50270173 TTGCATCGTC
* *
50270183 TCATAATGTTGAAAAC-AAA-ATTTCT-A-GCTGATTTTAATTTCAGTTTTTCACCAAAACTTTT
1 TCATAATGTTGAAAACAAAATATTTCTCATACTGATTTTAATTTCAATTTTTCACCAAAACTTTT
* *
50270244 TCATAATGTTGAAAACAAAAGTTTATTTCTCATACTGATTTTATTTTCAATTTTTCACCAAGACT
1 TCATAATGTTGAAAACAAAA---TATTTCTCATACTGATTTTAATTTCAATTTTTCACCAAAACT
50270309 TTT
63 TTT
*
50270312 TAATAAT
1 TCATAAT
50270319 TTGTAGTCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
61 16 0.25
62 3 0.05
66 6 0.10
67 1 0.02
68 37 0.59
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (65 bp):
TCATAATGTTGAAAACAAAATATTTCTCATACTGATTTTAATTTCAATTTTTCACCAAAACTTTT
Found at i:50276376 original size:16 final size:16
Alignment explanation
Indices: 50276355--50276394 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50276345 CCTACTCCCT
* *
50276355 CCCAATTTAAACTCAG
1 CCCAATTTAAACCCAA
*
50276371 CCCAATATAAACCCAA
1 CCCAATTTAAACCCAA
50276387 CCCAATTT
1 CCCAATTT
50276395 TTTCTTAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.23
Consensus pattern (16 bp):
CCCAATTTAAACCCAA
Found at i:50276945 original size:3 final size:3
Alignment explanation
Indices: 50276937--50276981 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
50276927 TGTGCTGTGA
50276937 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50276982 TCTCATTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:50277141 original size:4 final size:4
Alignment explanation
Indices: 50277132--50277165 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
50277122 TTAGTTGTCT
50277132 ATTA ATTA ATTA ATTA ATTA ATTA A--A ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
50277166 TGTAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:50277477 original size:9 final size:9
Alignment explanation
Indices: 50277448--50277517 Score: 95
Period size: 9 Copynumber: 7.6 Consensus size: 9
50277438 AAAAATGTTT
50277448 TAATTCGGG
1 TAATTCGGG
50277457 TAATGTTCGGG
1 TAA--TTCGGG
*
50277468 TAATTTGGG
1 TAATTCGGG
*
50277477 TAATTCGGA
1 TAATTCGGG
*
50277486 TAAGTCGGG
1 TAATTCGGG
50277495 TAATTCGGG
1 TAATTCGGG
50277504 TAATTCGGG
1 TAATTCGGG
50277513 TAATT
1 TAATT
50277518 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
9 44 0.83
11 9 0.17
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.36
Consensus pattern (9 bp):
TAATTCGGG
Found at i:50283814 original size:7 final size:7
Alignment explanation
Indices: 50283802--50283831 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
50283792 TAATAACAAT
50283802 TAATATA
1 TAATATA
50283809 TAATATA
1 TAATATA
50283816 TAATATA
1 TAATATA
50283823 TAATATA
1 TAATATA
50283830 TA
1 TA
50283832 TTAATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:50288149 original size:56 final size:50
Alignment explanation
Indices: 50288105--50288290 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
50288095 CATTGAGGTT
*
50288105 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAG
** *
50288155 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACT-GGCACCGAG
** * * * *
50288205 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCG-AG
* * ** *
50288254 AAGAAAAATCCCATGTAAGACCATGTTTGGGACATGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
50288291 ATTTGGCATG
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 33 0.28
50 81 0.70
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAG
Found at i:50294945 original size:145 final size:152
Alignment explanation
Indices: 50294672--50294958 Score: 349
Period size: 145 Copynumber: 1.9 Consensus size: 152
50294662 GTTGTTTTTG
* * * * *
50294672 TTGGAGTTTTAAGGGAGATATTGTGATAGTTTTAAGGTAGATTTTTATTGTTTGTAATAATAATT
1 TTGGAGTTTTAAGAGAGAGATTATGATAATTTTAAGGTAGATTTTTATTGTTTATAATAATAA-T
* * * *
50294737 TGTATGTTGTATGTTTATATTTTAATTTATTATTAATCTTTAGATTTAATATTTAAGATTATATT
65 TGTATATTATATGTTTATATTTTAA-TTATTATTAATATTTAGATTTAATATTTAAGAATATA-T
50294802 TTTGTTTGTAAAAAAATTGTTTGAA
128 TTTGTTTGTAAAAAAATTGTTTGAA
* *
50294827 TTGGAGTTTT-AGAGATAGATTATGATAATTTTAAGGTA-TTTTTTAGTT-TTTATAATAATAA-
1 TTGGAGTTTTAAGAGAGAGATTATGATAATTTTAAGGTAGATTTTTA-TTGTTTATAATAATAAT
* * *
50294888 T-TATATTATATGTTTATATTTT-A-T-TT-TTAATATTTAGATTTGATGTTTTAGAATATATTT
65 TGTATATTATATGTTTATATTTTAATTATTATTAATATTTAGATTTAATATTTAAGAATATATTT
50294948 TGTTTGTAAAA
130 TGTTTGTAAAA
50294959 TTTTTTTTTT
Statistics
Matches: 117, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
144 14 0.12
145 26 0.22
146 2 0.02
147 1 0.01
149 1 0.01
150 19 0.16
151 1 0.01
153 18 0.15
154 25 0.21
155 10 0.09
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (152 bp):
TTGGAGTTTTAAGAGAGAGATTATGATAATTTTAAGGTAGATTTTTATTGTTTATAATAATAATT
GTATATTATATGTTTATATTTTAATTATTATTAATATTTAGATTTAATATTTAAGAATATATTTT
GTTTGTAAAAAAATTGTTTGAA
Found at i:50294976 original size:145 final size:152
Alignment explanation
Indices: 50294666--50294988 Score: 342
Period size: 145 Copynumber: 2.2 Consensus size: 152
50294656 AAGTTGGTTG
* * * * *
50294666 TTTT-TGTTGGAGTTTTAAGGGAGATATTGTGATAGTTTTAAGGTAGATTTTTATTGTTTGTAAT
1 TTTTGTGTTGGAGTTTT-AGAGAGAGATTATGATAATTTTAAGGTAGATTTTTATTGTTTATAAT
* * *
50294730 AATAATTTGTATGTTGTATGTTTATATTTTAATTTATTATTAATCTTTAGATTTAATATTTAAGA
65 AATAA-TTGTATATTATATGTTTATATTTTAA-TTATTATTAATATTTAGATTTAATATTTAAGA
*
50294795 TTATATTTTTGTTTGTAAAAAAATT
128 ATATATTTTTGTTTGTAAAAAAATT
* ** * *
50294820 GTTTGAATTGGAGTTTTAGAGATAGATTATGATAATTTTAAGGTA-TTTTTTAGTT-TTTATAAT
1 TTTTGTGTTGGAGTTTTAGAGAGAGATTATGATAATTTTAAGGTAGATTTTTA-TTGTTTATAAT
* * *
50294883 AATAA-T-TATATTATATGTTTATATTTT-A-T-TT-TTAATATTTAGATTTGATGTTTTAGAAT
65 AATAATTGTATATTATATGTTTATATTTTAATTATTATTAATATTTAGATTTAATATTTAAGAAT
***
50294942 ATA-TTTTGTTTGTAAAATTTTTT
130 ATATTTTTGTTTGTAAAA-AAATT
*
50294965 TTTTGTGTTGGAGTTTTGGAGAGA
1 TTTTGTGTTGGAGTTTTAGAGAGA
50294989 AAACAGGTTG
Statistics
Matches: 141, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
144 14 0.10
145 47 0.33
146 2 0.01
147 1 0.01
149 1 0.01
150 19 0.13
151 1 0.01
153 18 0.13
154 28 0.20
155 10 0.07
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.54
Consensus pattern (152 bp):
TTTTGTGTTGGAGTTTTAGAGAGAGATTATGATAATTTTAAGGTAGATTTTTATTGTTTATAATA
ATAATTGTATATTATATGTTTATATTTTAATTATTATTAATATTTAGATTTAATATTTAAGAATA
TATTTTTGTTTGTAAAAAAATT
Found at i:50303386 original size:7 final size:7
Alignment explanation
Indices: 50303374--50303400 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
50303364 TAATACAAAC
50303374 AATTTAT
1 AATTTAT
50303381 AATTTAT
1 AATTTAT
50303388 AATTTAT
1 AATTTAT
50303395 AATTTA
1 AATTTA
50303401 ATTCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTAT
Found at i:50314652 original size:34 final size:34
Alignment explanation
Indices: 50314614--50314692 Score: 124
Period size: 34 Copynumber: 2.3 Consensus size: 34
50314604 TGATGAATGG
*
50314614 GTGAGAGATTAT-GAGATGAGGGATGATTGAAAAA
1 GTGAGAGATGATAG-GATGAGGGATGATTGAAAAA
50314648 GTGAGAGATGATAGGATGAGGGATGATTGAAAAA
1 GTGAGAGATGATAGGATGAGGGATGATTGAAAAA
*
50314682 GTGAGAAATGA
1 GTGAGAGATGA
50314693 GCTTTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 41 0.98
35 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (34 bp):
GTGAGAGATGATAGGATGAGGGATGATTGAAAAA
Found at i:50314657 original size:19 final size:19
Alignment explanation
Indices: 50314630--50314692 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
50314620 GATTATGAGA
*
50314630 TGAGGGATGATTGAAAAAG
1 TGAGAGATGATTGAAAAAG
**
50314649 TGAGAGATGA-T--AGGA-
1 TGAGAGATGATTGAAAAAG
*
50314664 TGAGGGATGATTGAAAAAG
1 TGAGAGATGATTGAAAAAG
*
50314683 TGAGAAATGA
1 TGAGAGATGA
50314693 GCTTTTATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
15 9 0.28
16 3 0.09
18 3 0.09
19 17 0.53
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATTGAAAAAG
Found at i:50323169 original size:16 final size:17
Alignment explanation
Indices: 50323138--50323170 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50323128 TTTTCCTCTT
50323138 TTTTTTCTATTATTTTC
1 TTTTTTCTATTATTTTC
*
50323155 TTTTTTC-ATTTTTTTC
1 TTTTTTCTATTATTTTC
50323171 GATTTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCTATTATTTTC
Found at i:50324155 original size:5 final size:5
Alignment explanation
Indices: 50324145--50324198 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
50324135 CGCACCAATA
*
50324145 AAAAT AAAAT AAAA- AACAA- AAAACA AAAAT AAACA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AA-AAT AAAA-T AAAAT AAA-AT AAAAT AAAAT
50324190 AAAAT AAAA
1 AAAAT AAAA
50324199 AATACAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
4 5 0.12
5 33 0.77
6 5 0.12
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (5 bp):
AAAAT
Found at i:50324173 original size:20 final size:19
Alignment explanation
Indices: 50324141--50324200 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 19
50324131 CAGTCGCACC
50324141 AATAAAAATAAAATAAAAAA
1 AATAAAAA-AAAATAAAAAA
50324161 CAA-AAAACAAAAATAAACAAA
1 -AATAAAA-AAAAATAAA-AAA
*
50324182 AATAAAATAAAATAAAAAA
1 AATAAAAAAAAATAAAAAA
50324201 TACAATTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 3 0.09
20 22 0.63
21 10 0.29
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (19 bp):
AATAAAAAAAAATAAAAAA
Found at i:50324180 original size:10 final size:9
Alignment explanation
Indices: 50324145--50324200 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
50324135 CGCACCAATA
50324145 AAAATAAAAT
1 AAAA-AAAAT
*
50324155 AAAAAACAAA
1 AAAAAA-AAT
50324165 AAACAAAAAT
1 AAA-AAAAAT
50324175 AAACAAAAAT
1 AAA-AAAAAT
50324185 AAAATAAAAT
1 AAAA-AAAAT
50324195 AAAAAA
1 AAAAAA
50324201 TACAATTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 5 0.12
10 33 0.80
11 3 0.07
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:50324218 original size:35 final size:35
Alignment explanation
Indices: 50324141--50324226 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
50324131 CAGTCGCACC
50324141 AATAAAAATAAAATAAAAAACAAAAAACAAAAATA
1 AATAAAAATAAAATAAAAAACAAAAAACAAAAATA
* * **
50324176 AACAAAAATAAAATAAAATAA-AAAATAC-AATTTGA
1 AATAAAAATAAAATAAAA-AACAAAAAACAAAAAT-A
50324211 AATAAAAAT-AAATAAA
1 AATAAAAATAAAATAAA
50324227 GCAGAAAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 10 0.23
35 32 0.73
36 2 0.05
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.16
Consensus pattern (35 bp):
AATAAAAATAAAATAAAAAACAAAAAACAAAAATA
Found at i:50329760 original size:16 final size:16
Alignment explanation
Indices: 50329735--50329770 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
50329725 ATTAGAATGT
*
50329735 AAAA-ATTAAATTAAA
1 AAAATATTAAAATAAA
50329750 AAAATATTAAAATAAA
1 AAAATATTAAAATAAA
50329766 AAAAT
1 AAAAT
50329771 TGCTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATATTAAAATAAA
Found at i:50336696 original size:21 final size:21
Alignment explanation
Indices: 50336672--50336715 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50336662 ATTTTATTGC
50336672 TATAAATTGTATGTA-ATTGAT
1 TATAAATTGTAT-TATATTGAT
* *
50336693 TATAATTTGTGTTATATTGAT
1 TATAAATTGTATTATATTGAT
50336714 TA
1 TA
50336716 GAATCATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (21 bp):
TATAAATTGTATTATATTGAT
Found at i:50341475 original size:110 final size:106
Alignment explanation
Indices: 50341354--50341554 Score: 267
Period size: 108 Copynumber: 1.9 Consensus size: 106
50341344 AATTTCGTGT
* ***** *
50341354 TGGCCTAGCAATGGCCGGCACAACCTTTTTAAATTTTTTTTTACTTTTTTCGTGTCAAATAATAT
1 TGGCCTAGCAATGGCCGACACAACCTTTTTAAA--AAAAATTACTTTTTTCGTGTCAAATAAGAT
50341419 ATCAATATACGAAAAAAGTAAAAAAAAATTATTTATTTTGGGTGG
64 ATCAATATACG-AAAAAG-AAAAAAAAATTATTTATTTTGGGTGG
* * *
50341464 TGGCCTGGCAATGGCCGACACCACCTTTTTAAAAAAAATTACTTTTTTCGTGTCAGATAAGATAT
1 TGGCCTAGCAATGGCCGACACAACCTTTTTAAAAAAAATTACTTTTTTCGTGTCAAATAAGATAT
*
50341529 CAGTATACGAAAAAGAAAAAAAAATT
66 CAATATACGAAAAAGAAAAAAAAATT
50341555 TGTGGTGGCT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 11 0.14
107 6 0.08
108 33 0.41
110 30 0.38
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (106 bp):
TGGCCTAGCAATGGCCGACACAACCTTTTTAAAAAAAATTACTTTTTTCGTGTCAAATAAGATAT
CAATATACGAAAAAGAAAAAAAAATTATTTATTTTGGGTGG
Found at i:50343996 original size:2 final size:2
Alignment explanation
Indices: 50343989--50344026 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
50343979 TTTACAATTT
50343989 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50344027 ACATAAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50347107 original size:227 final size:227
Alignment explanation
Indices: 50346712--50347161 Score: 792
Period size: 227 Copynumber: 2.0 Consensus size: 227
50346702 GTTTATATAA
50346712 GTGAACTCTCTTGAAGGGTAATTGAATGACTAAGCTTGTAACCTTGCCTCGCGCAGGGGACGGGT
1 GTGAACTCTCTTGAAGGGTAATTGAATGACTAAGCTTGTAACCTTGCCTCGCGCAGGGGACGGGT
* * * *
50346777 GCAGGTCCAGCCCCGATGGGGTTGGGGCACACCCGCACGACCTGGGAGACGTGAAATGTTAGGAT
66 GCAAGTCCAGCCCCGACGGGGTTGGGGCACACCCGCACGACCTGGGAGACGCGAAATGTTAGGAC
*
50346842 CGGTCGGGCCCAAATGGGCCCACGGATAGCCCAACACGAATTTATTTTTCCTCAGCAGATATAAT
131 CGGGCGGGCCCAAATGGGCCCACGGATAGCCCAACACGAATTTATTTTTCCTCAGCAGATATAAT
*
50346907 CTGCTTATATATGGACAGTATCTGATTCTAAT
196 CTGCTTATATATGGACAATATCTGATTCTAAT
*
50346939 GTGAACTCTCTTGAAGGGTAATTGAATGACTAAGCTTGTAACCTTGCCTCGCGCAGGGGGCGGGT
1 GTGAACTCTCTTGAAGGGTAATTGAATGACTAAGCTTGTAACCTTGCCTCGCGCAGGGGACGGGT
* *
50347004 GCAAGTCCAGCCCCGACGGGGTTGGGGCACACCCGCACGACGTGGGAGACGCGAAATGTTTGGAC
66 GCAAGTCCAGCCCCGACGGGGTTGGGGCACACCCGCACGACCTGGGAGACGCGAAATGTTAGGAC
**
50347069 CGGGCGGGCCCAAATGGGCCTGCGGATAGCCCAACACGAATTTATTTTTCCTCAGCAGATATAAT
131 CGGGCGGGCCCAAATGGGCCCACGGATAGCCCAACACGAATTTATTTTTCCTCAGCAGATATAAT
*
50347134 CTGGTTATATATGGACAATATCTGATTC
196 CTGCTTATATATGGACAATATCTGATTC
50347162 CAATCAATTT
Statistics
Matches: 211, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
227 211 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (227 bp):
GTGAACTCTCTTGAAGGGTAATTGAATGACTAAGCTTGTAACCTTGCCTCGCGCAGGGGACGGGT
GCAAGTCCAGCCCCGACGGGGTTGGGGCACACCCGCACGACCTGGGAGACGCGAAATGTTAGGAC
CGGGCGGGCCCAAATGGGCCCACGGATAGCCCAACACGAATTTATTTTTCCTCAGCAGATATAAT
CTGCTTATATATGGACAATATCTGATTCTAAT
Found at i:50354955 original size:23 final size:23
Alignment explanation
Indices: 50354925--50354970 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50354915 CAACATATCC
50354925 ATCAAATAACATATATATATATA
1 ATCAAATAACATATATATATATA
50354948 ATCAAATAACATATATATATATA
1 ATCAAATAACATATATATATATA
50354971 TATATAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (23 bp):
ATCAAATAACATATATATATATA
Found at i:50361338 original size:126 final size:127
Alignment explanation
Indices: 50361091--50361359 Score: 382
Period size: 126 Copynumber: 2.1 Consensus size: 127
50361081 GGTCAAGCAG
* * * * *
50361091 GAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * *
50361156 TTGCTTGAAGCGTTTTTTTACACTATTTTTTCAGAACCGTCTTATCAAAATTATTTTT-TAA
66 CTGCTTGAAGCGTTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTATTTTTCTAA
*
50361217 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTTAGTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * *
50361282 CTGCTTGAAGCG-TTTTTGACATTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCTTA
66 CTGCTTGAAGCGTTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATT-ATTTTTCTAA
*
50361344 -AACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
50361360 AAAAAACAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
125 34 0.27
126 91 0.72
127 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (127 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTTGACACTATCTTTTCAGAACCATCTTATCAAAATTATTTTTCTAA
Found at i:50361480 original size:30 final size:31
Alignment explanation
Indices: 50361446--50361527 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 31
50361436 TAAACACAAA
*
50361446 AATTATTTTTTTTAAAA-TAAACCCTAATTT
1 AATTATTTTATTTAAAACTAAACCCTAATTT
* * *
50361476 AATTAATTTTCTTAAAAACTCTAAACCCTATTTT
1 AATT-ATTTTATTTAAAA--CTAAACCCTAATTT
*
50361510 AATTAATTTATTTAAAAC
1 AATTATTTTATTTAAAAC
50361528 CCCTAAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 4 0.10
31 12 0.29
33 10 0.24
34 16 0.38
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (31 bp):
AATTATTTTATTTAAAACTAAACCCTAATTT
Found at i:50361511 original size:34 final size:33
Alignment explanation
Indices: 50361463--50361567 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 33
50361453 TTTTTTAAAA
50361463 TAAACCCTAATTTAATTAATTTTCTTAAAAACTC
1 TAAACCCTAATTTAATTAATTTT-TTAAAAACTC
* * *
50361497 TAAACCCTATTTTAATTAATTTATTTAAAACCCC
1 TAAACCCTAATTTAATTAATTT-TTTAAAAACTC
* * *
50361531 TAAAACATAATTTAATTAA--TTTAAAAAACTC
1 TAAACCCTAATTTAATTAATTTTTTAAAAACTC
50361562 TAAACC
1 TAAACC
50361568 TTGATTTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 13 0.22
32 1 0.02
34 45 0.75
35 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTTTTAAAAACTC
Found at i:50362167 original size:2 final size:2
Alignment explanation
Indices: 50362160--50362191 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50362150 CCATCACACC
50362160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50362192 TTAGAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50366882 original size:21 final size:24
Alignment explanation
Indices: 50366852--50366902 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
50366842 GAAACTATAA
*
50366852 CGAAAAGAAAGA-CGAA-AGAGAG
1 CGAAAGGAAAGATCGAACAGAGAG
*
50366874 -GAAAGGAAAGATCTAACAGAGAG
1 CGAAAGGAAAGATCGAACAGAGAG
50366897 CGAAAG
1 CGAAAG
50366903 CGAGAGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 6 0.25
24 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.31, T:0.04
Consensus pattern (24 bp):
CGAAAGGAAAGATCGAACAGAGAG
Found at i:50368425 original size:35 final size:34
Alignment explanation
Indices: 50368386--50368482 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 34
50368376 TTTTAAAAAA
50368386 TAAATCAAGATTTAGATTTTTTTAAAAAAATTAAT
1 TAAAT-AAGATTTAGATTTTTTTAAAAAAATTAAT
* * * *
50368421 TAAATTAGAGTTTAAGA-GTTTTTAAGAAAATTATT
1 TAAATAAGA-TTT-AGATTTTTTTAAAAAAATTAAT
* *
50368456 TAAATTAGGGTTTAG-TTTTTTTAAAAA
1 TAAA-TAAGATTTAGATTTTTTTAAAAA
50368483 TGATTTTTGT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
34 14 0.29
35 30 0.61
36 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (34 bp):
TAAATAAGATTTAGATTTTTTTAAAAAAATTAAT
Found at i:50368814 original size:127 final size:127
Alignment explanation
Indices: 50368590--50369238 Score: 842
Period size: 126 Copynumber: 5.1 Consensus size: 127
50368580 GGTTTTGTGT
* * * * * * * *
50368590 TTTTTCTACACTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * *
50368655 ACGCTTCAAGCAGGATACAATGTCAGCAAAATTACT-AAAAAAGACCCCCACGTGGATGTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGACTCCCACGTGGATGCTC
*
50368716 TTTTTCTATAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTAAAA
1 TTTTTCTATAGTAGTTCCTG-AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * *
50368781 AATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAG-CTCTCACGTGGATGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGACTCCCACGTGGATGCTC
* *
50368843 TTTTTCTATAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATAAAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * * * * *
50368908 ACACTTCAAGAAAGATGTACTATTAGCAAAATTACTGAAAAAA-ACTCCCACGTGGACGCTA
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGACTCCCACGTGGATGCTC
* * ** * *
50368969 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATAGTTTTGAAAAAAAAGTGT-AAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* * * * *
50369033 ATGCTTCAAGCAGGATGCAGTGTCAGCAAAATTACTGAAAAAAG-CTCCCAAGTGGACGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGACTCCCACGTGGATGCTC
* ** *
50369094 TTTTTCTATAGTAGTTCCTGAACAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAGAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
* *
50369159 ACGCTTCGAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAA-ACTCCCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGACTCCCACGTGGATGCTC
*
50369220 TTTTTCTACAGTAGTTCCT
1 TTTTTCTATAGTAGTTCCT
50369239 ACTTGGCCTT
Statistics
Matches: 452, Mismatches: 65, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
125 107 0.24
126 234 0.52
127 104 0.23
128 7 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (127 bp):
TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGACTCCCACGTGGATGCTC
Found at i:50369130 original size:251 final size:252
Alignment explanation
Indices: 50368589--50369238 Score: 860
Period size: 251 Copynumber: 2.6 Consensus size: 252
50368579 AGGTTTTGTG
* * * * * * *
50368589 TTTTTTCTACACTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAA
1 TTTTTTCTATAATAGTTCCTGAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * *
50368654 AACGCTTCAAGCAGGA--TACAATGTCAGCAAAATTACT-AAAAAAGACCCCCACGTGGATGTTT
65 AACGCTTCAAGCAGGATGTACTAT-T-AGCAAAATTACTGAAAAAA-ACTCCCACGTGGATGCTA
* * *
50368716 TTTTTCTATAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTAAAA
127 TTTTTCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAAAAGTGTAAAA
* * *
50368781 AATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCT
192 AATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCAAGTGGACGCT
* *
50368842 CTTTTTCTATAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATAAAA
1 TTTTTTCTATAATAGTTCCTG-AAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * *
50368907 AACACTTCAAGAAAGATGTACTATTAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTT
65 AACGCTTCAAGCAGGATGTACTATTAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTATTT
* * * *
50368972 TTCTACAGTAGTTTCTG-AAAAAATAATTTTGAGAAGATAGTTTTGAAAAAAAAGTGT-AAAAAT
130 TTCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAAAAGTGTAAAAAAT
* *
50369035 GCTTCAAGCAGGATGCAGTGTCAGCAAAATTACTGAAAAAAGCTCCCAAGTGGACGCT
195 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCAAGTGGACGCT
* ** *
50369093 TTTTTTCTATAGTAGTTCCTGAACAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAGAA
1 TTTTTTCTATAATAGTTCCTGAA-AAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAA
* * * * * *
50369158 AACGCTTCGAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAACTCCCACGTGGATGCTCTTT
65 AACGCTTCAAGCAGGATGTACTATTAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTATTT
50369223 TTCTACAGTAGTTCCT
130 TTCTACAGTAGTTCCT
50369239 ACTTGGCCTT
Statistics
Matches: 346, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
250 2 0.01
251 185 0.53
252 35 0.10
253 107 0.31
254 12 0.03
255 5 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (252 bp):
TTTTTTCTATAATAGTTCCTGAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGTACTATTAGCAAAATTACTGAAAAAAACTCCCACGTGGATGCTATTTT
TCTACAGTAGTTCCTGAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAAAAGTGTAAAAAATG
CTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCAAGTGGACGCT
Found at i:50369639 original size:16 final size:16
Alignment explanation
Indices: 50369618--50369650 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50369608 GACTCATCTC
50369618 ACTAGTGTATCACCCT
1 ACTAGTGTATCACCCT
50369634 ACTAGTGTATCACCCT
1 ACTAGTGTATCACCCT
50369650 A
1 A
50369651 TCTTGAGTTA
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:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (16 bp):
ACTAGTGTATCACCCT
Found at i:50378688 original size:28 final size:27
Alignment explanation
Indices: 50378657--50378711 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
50378647 AAAAATAATT
*
50378657 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
50378685 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
50378712 TGAATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:50385301 original size:45 final size:44
Alignment explanation
Indices: 50385245--50385446 Score: 219
Period size: 45 Copynumber: 4.5 Consensus size: 44
50385235 CAAATAAAAA
* *
50385245 CATAGTTGAAAGACACTATGGCAATATATCAGAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACATA-CAAAAATGAATAAGAC
* * *
50385290 CATAGTTGAAAGAAATTATGGCATCATGTA-AAAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACA--TACAAAAATGAATAAGAC
* * * *
50385335 TACAATTGAAAGACACTATGG-AACAGGACAAAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACA-TACAAAAATGAATAAGAC
**
50385379 CATAGTTGAAAGACACTATGGCAACATGACGGAAATGAATAAGAC
1 CATAGTTGAAAGACACTATGGCAACAT-ACAAAAATGAATAAGAC
* * *
50385424 CGTAGCTGAAAAACACTATGGCA
1 CATAGTTGAAAGACACTATGGCA
50385447 TCCTTGAACA
Statistics
Matches: 131, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.02
44 36 0.27
45 91 0.69
47 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (44 bp):
CATAGTTGAAAGACACTATGGCAACATACAAAAATGAATAAGAC
Found at i:50385386 original size:89 final size:90
Alignment explanation
Indices: 50385250--50385423 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 90
50385240 AAAAACATAG
* * * * *
50385250 TTGAAAGACACTATGGCAATATATCAGAAATGAATAAGACCATAGTTGAAAGAAATTATGGCATC
1 TTGAAAGACACTATGGCAACAGATCAAAAATGAATAAGACCATAGTTGAAAGAAACTATGGCAAC
50385315 ATGTA-AAAAATGAATAAGACTACAA
66 ATG-ACAAAAATGAATAAGACTACAA
*
50385340 TTGAAAGACACTATGG-AACAGGA-CAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCAA
1 TTGAAAGACACTATGGCAACA-GATCAAAAATGAATAAGACCATAGTTGAAAGAAACTATGGCAA
**
50385403 CATGACGGAAATGAATAAGAC
65 CATGACAAAAATGAATAAGAC
50385424 CGTAGCTGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
88 1 0.01
89 56 0.76
90 17 0.23
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (90 bp):
TTGAAAGACACTATGGCAACAGATCAAAAATGAATAAGACCATAGTTGAAAGAAACTATGGCAAC
ATGACAAAAATGAATAAGACTACAA
Found at i:50385434 original size:89 final size:90
Alignment explanation
Indices: 50385251--50385446 Score: 227
Period size: 89 Copynumber: 2.2 Consensus size: 90
50385241 AAAACATAGT
* * * * *
50385251 TGAAAGACACTATGGCAATATATCAGAAATGAATAAGACCATAGTTGAAAGAAATTATGGCATCA
1 TGAAAGACACTATGGCAACAGATCAAAAATGAATAAGACCATAGTTGAAAGAAACTATGGCAACA
* *
50385316 TGTAAAAAATGAATAAGACTACAAT
66 TGTAAAAAATGAATAAGACCACAAC
*
50385341 TGAAAGACACTATGG-AACAGGA-CAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC
1 TGAAAGACACTATGGCAACA-GATCAAAAATGAATAAGACCATAGTTGAAAGAAACTATGGCAAC
** ** *
50385404 ATG-ACGGAAATGAATAAGACCGTAGC
65 ATGTA-AAAAATGAATAAGACCACAAC
*
50385430 TGAAAAACACTATGGCA
1 TGAAAGACACTATGGCA
50385447 TCCTTGAACA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
88 1 0.01
89 71 0.80
90 17 0.19
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (90 bp):
TGAAAGACACTATGGCAACAGATCAAAAATGAATAAGACCATAGTTGAAAGAAACTATGGCAACA
TGTAAAAAATGAATAAGACCACAAC
Found at i:50386404 original size:54 final size:54
Alignment explanation
Indices: 50386328--50386459 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 54
50386318 ACAGCCTGGA
* * * * * **
50386328 GACACGACTGTGTGACCTTATTTTGAATCACACAAGGTCTGACACATGGTTTAC
1 GACATGACCGTGTGACCCTATTTTGAATCACACAAGGGCGGACACACAGTTTAC
* * * ** * * *
50386382 GACATGACCGTTTGACCCTATTTCGATTTGCACAGGGGCGGGCACACAGTTTGC
1 GACATGACCGTGTGACCCTATTTTGAATCACACAAGGGCGGACACACAGTTTAC
50386436 GACATGACCGTGTGACCCTATTTT
1 GACATGACCGTGTGACCCTATTTT
50386460 CAAACTATAC
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (54 bp):
GACATGACCGTGTGACCCTATTTTGAATCACACAAGGGCGGACACACAGTTTAC
Found at i:50388445 original size:16 final size:16
Alignment explanation
Indices: 50388423--50388459 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
50388413 TGATTCAATA
50388423 ATGGTTATGGATATTT
1 ATGGTTATGGATATTT
*
50388439 GTGGTTATGGATATTT
1 ATGGTTATGGATATTT
50388455 ATGGT
1 ATGGT
50388460 GATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (16 bp):
ATGGTTATGGATATTT
Done.