Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 170 of 208
Found at i:51883475 original size:31 final size:29
Alignment explanation
Indices: 51883440--51883516 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
51883430 TTAATAGCTC
*
51883440 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
51883471 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
51883500 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
51883517 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:51884053 original size:21 final size:19
Alignment explanation
Indices: 51884028--51884067 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
51884018 CCGACCCGAT
51884028 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
51884049 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
51884068 AAAAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:51885533 original size:22 final size:23
Alignment explanation
Indices: 51885470--51885539 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
51885460 TTTTTTTTCC
*
51885470 TGCTACCATTTTGTTGTTGT-TT
1 TGCTACCATTTTGTTGTTATATT
* *
51885492 TGCTACCATTTTGCTATTATATT
1 TGCTACCATTTTGTTGTTATATT
* *
51885515 T-TTACTATTTTGTTGTTATTATT
1 TGCTACCATTTTGTTGTTA-TATT
51885538 TG
1 TG
51885540 GATATTACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 30 0.79
23 8 0.21
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (23 bp):
TGCTACCATTTTGTTGTTATATT
Found at i:51894392 original size:5 final size:5
Alignment explanation
Indices: 51894375--51894409 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
51894365 GAGGAATTTG
*
51894375 AGAAA AGAGA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
51894410 TTTAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:51897538 original size:29 final size:28
Alignment explanation
Indices: 51897506--51897562 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
51897496 ATGTCATAGG
*
51897506 TGAACTTTAATTTTATGTAATTTTATACA
1 TGAACTTTAATTTGATGTAATTTT-TACA
* * *
51897535 TGAATTTTGATTTGATTTAATTTTTACA
1 TGAACTTTAATTTGATGTAATTTTTACA
51897563 AATTATTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (28 bp):
TGAACTTTAATTTGATGTAATTTTTACA
Found at i:51900303 original size:15 final size:15
Alignment explanation
Indices: 51900279--51900318 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
51900269 TTCTTTGTCC
*
51900279 TTTTTCATTTTTTCGG
1 TTTTT-ATTTTTACGG
*
51900295 TTTTTATTTTTACGT
1 TTTTTATTTTTACGG
51900310 TTTTTATTT
1 TTTTTATTT
51900319 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTTACGG
Found at i:51900328 original size:16 final size:16
Alignment explanation
Indices: 51900295--51900343 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 16
51900285 ATTTTTTCGG
**
51900295 TTTTTA-TTTTTACGT
1 TTTTTATTTTTTAATT
51900310 TTTTTATTTATTTAATT
1 TTTTTATTT-TTTAATT
51900327 TTTTTATTTTTTAATT
1 TTTTTATTTTTTAATT
51900343 T
1 T
51900344 GTCCTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 6 0.20
16 10 0.33
17 14 0.47
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTTTAATT
Found at i:51900470 original size:21 final size:22
Alignment explanation
Indices: 51900412--51900511 Score: 141
Period size: 23 Copynumber: 4.5 Consensus size: 22
51900402 ATTTGAAATG
51900412 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATATTATTTTTTAAAA
51900435 TTTTAAATATATATTTTTTAAAA
1 TTTTAAATAT-TATTTTTTAAAA
51900458 -TTTAAATATTA-TTTTTAAAA
1 TTTTAAATATTATTTTTTAAAA
*
51900478 TTTTAAATATTATTTTTTAATA
1 TTTTAAATATTATTTTTTAAAA
*
51900500 TTATAAAATATT
1 TT-TTAAATATT
51900512 TAAAATATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
20 9 0.13
21 13 0.18
22 24 0.34
23 25 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:51900509 original size:44 final size:44
Alignment explanation
Indices: 51900413--51900511 Score: 148
Period size: 43 Copynumber: 2.2 Consensus size: 44
51900403 TTTGAAATGT
51900413 TTTATAATATTATTTTTTAAAATTTTAAATATATATTTTTTAAAA
1 TTTA-AATATTATTTTTTAAAATTTTAAATATATATTTTTTAAAA
*
51900458 TTTAAATATTA-TTTTTAAAATTTTAAATAT-TATTTTTTAATA
1 TTTAAATATTATTTTTTAAAATTTTAAATATATATTTTTTAAAA
51900500 TTATAAAATATT
1 TT-T-AAATATT
51900512 TAAAATATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
42 13 0.25
43 20 0.39
44 14 0.27
45 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (44 bp):
TTTAAATATTATTTTTTAAAATTTTAAATATATATTTTTTAAAA
Found at i:51900511 original size:20 final size:19
Alignment explanation
Indices: 51900423--51900512 Score: 74
Period size: 22 Copynumber: 4.3 Consensus size: 19
51900413 TTTATAATAT
51900423 TATTTTTTAAAATTTTAAATATA
1 TATTTTTTAAAA-TTT-AA-A-A
51900446 TATTTTTTAAAATTT-AAA
1 TATTTTTTAAAATTTAAAA
51900464 TATTATTTTTAAAATTTTAAATA
1 TA-T-TTTTTAAAA-TTTAAA-A
*
51900487 TTATTTTTTAATATTATAAAA
1 -TATTTTTTAAAATT-TAAAA
51900508 TATTT
1 TATTT
51900513 AAAATATATT
Statistics
Matches: 59, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
18 3 0.05
19 2 0.03
20 15 0.25
21 6 0.10
22 17 0.29
23 14 0.24
24 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTTTTAAAATTTAAAA
Found at i:51900617 original size:20 final size:18
Alignment explanation
Indices: 51900584--51900623 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
51900574 AATGTATATT
51900584 TTAAATATTTTTTTAAAA
1 TTAAATATTTTTTTAAAA
*
51900602 TTAAATATAATTTTTTTAAA
1 TTAAATAT--TTTTTTAAAA
51900622 TT
1 TT
51900624 CTTTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATATTTTTTTAAAA
Found at i:51900640 original size:21 final size:22
Alignment explanation
Indices: 51900616--51900664 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
51900606 ATATAATTTT
51900616 TTTAAAT-TCTTTTTAAAGATA
1 TTTAAATGTCTTTTTAAAGATA
* **
51900637 TTTAAATGTTTTTTTAATTATA
1 TTTAAATGTCTTTTTAAAGATA
51900659 TTTAAA
1 TTTAAA
51900665 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTAAATGTCTTTTTAAAGATA
Found at i:51900649 original size:32 final size:31
Alignment explanation
Indices: 51900559--51900672 Score: 88
Period size: 32 Copynumber: 3.5 Consensus size: 31
51900549 TTATTATTTG
* *
51900559 TTTTATAATATTTTAAATGTATATTTTAAATATTT
1 TTTTAAAATA-TTTAAATGT-T-TTTTAAAT-TAT
** *
51900594 TTTTAAAATTAAATATAAT-TTTTTTAAATTCT
1 TTTTAAAA-TATTTA-AATGTTTTTTAAATTAT
*
51900626 TTTTAAAGATATTTAAATGTTTTTTTAATTAT
1 TTTTAAA-ATATTTAAATGTTTTTTAAATTAT
*
51900658 ATTTAAAAT-TTTAAA
1 TTTTAAAATATTTAAA
51900673 AAATAATATG
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
30 6 0.09
31 5 0.08
32 30 0.45
33 9 0.14
34 1 0.02
35 10 0.15
36 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (31 bp):
TTTTAAAATATTTAAATGTTTTTTAAATTAT
Found at i:51907151 original size:27 final size:27
Alignment explanation
Indices: 51907121--51907205 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
51907111 CCTTGGTCAC
* *
51907121 GCCAATGGCATTGGCGGCACCAAAGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
**
51907148 GCCAAAACCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
51907175 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAATGGT
51907202 GCCA
1 GCCA
51907206 TATTGATTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAATGGT
Found at i:51907218 original size:27 final size:25
Alignment explanation
Indices: 51907121--51907221 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 25
51907111 CCTTGGTCAC
*
51907121 GCCAATGGCATTGGCGGCACCAAAGGT
1 GCCAAT-G-ATTGGCGGCACCAATGGT
**
51907148 GCCAAAACCATTGGCGGCACCAATGGT
1 GCC--AATGATTGGCGGCACCAATGGT
51907175 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATG--ATTGGCGGCACCAATGGT
*
51907202 GCCATATTGATTAGCGGCAC
1 GCCA-A-TGATTGGCGGCAC
51907222 TATTCGTATG
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 2 0.03
27 55 0.89
28 1 0.02
29 4 0.06
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.18
Consensus pattern (25 bp):
GCCAATGATTGGCGGCACCAATGGT
Found at i:51907393 original size:19 final size:21
Alignment explanation
Indices: 51907355--51907393 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
51907345 AATTTTTGAT
*
51907355 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
51907376 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
51907394 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:51907476 original size:3 final size:3
Alignment explanation
Indices: 51907470--51907501 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51907460 ATTATTATTA
51907470 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
51907502 AGTATTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:51909683 original size:39 final size:39
Alignment explanation
Indices: 51909640--51909740 Score: 136
Period size: 39 Copynumber: 2.6 Consensus size: 39
51909630 CTTCCATCTT
51909640 CTTCTTCTTTTTTTTTCTCTTCTCATTTCCTTTTCTTTC
1 CTTCTTCTTTTTTTTTCTCTTCTCATTTCCTTTTCTTTC
* *
51909679 CTTCTTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTC
1 CTTC-TTCTTTTTTTTTCTCTTCTCATTTCCTTTTCTTTC
51909718 CTTCTT-TTTCTTTCTTTCT-TTCT
1 CTTCTTCTTT-TTT-TTTCTCTTCT
51909741 TTCTTTCTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
37 3 0.05
38 4 0.07
39 36 0.65
40 12 0.22
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (39 bp):
CTTCTTCTTTTTTTTTCTCTTCTCATTTCCTTTTCTTTC
Found at i:51909687 original size:4 final size:4
Alignment explanation
Indices: 51909671--51909767 Score: 119
Period size: 4 Copynumber: 24.0 Consensus size: 4
51909661 CTCATTTCCT
*
51909671 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C -TTTC TTTC
*
51909718 CTTC -TT- TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
51909764 TTTC
1 TTTC
51909768 CCTCTCCTTC
Statistics
Matches: 84, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
3 7 0.08
4 66 0.79
5 5 0.06
6 6 0.07
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:51909700 original size:57 final size:54
Alignment explanation
Indices: 51909612--51909768 Score: 146
Period size: 57 Copynumber: 2.9 Consensus size: 54
51909602 CCTTTTTTTT
* * * ** **
51909612 CTTTTTTTTCCTTCCTTCCTTCCATC-TTCTTCTTCTTTTTTTTTCTCTTCTCATTTC
1 CTTTTCTTTCCTTCTTTCTTTCTTTCTTTCTTCTTCTTTCCTTTTCT-TTC-C--TTC
*
51909669 CTTTTCTTTCCTTCTTTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTCCTTC
1 CTTTTCTTTCCTTCTTTCTTTCTTTCTTTCTTCTTCTTTCCTTTTCTTTCCTTC
* *
51909722 TTTTTCTTTCTTTCTTTCTTTCTTTCTTTC-T-TTCTTT-C-TTTCTTTCC
1 CTTTTCTTTCCTTCTTTCTTTCTTTCTTTCTTCTTCTTTCCTTTTCTTTCC
51909769 CTCTCCTTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
50 9 0.10
51 1 0.01
52 5 0.06
53 27 0.31
54 4 0.05
55 1 0.01
56 3 0.03
57 37 0.43
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (54 bp):
CTTTTCTTTCCTTCTTTCTTTCTTTCTTTCTTCTTCTTTCCTTTTCTTTCCTTC
Found at i:51909840 original size:27 final size:27
Alignment explanation
Indices: 51909810--51909876 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
51909800 TATTATTAAC
51909810 TGGTGCCGCCAATGGTATTGACACCAT
1 TGGTGCCGCCAATGGTATTGACACCAT
* * * *
51909837 TGGTGCTGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGTATTGACACCAT
51909864 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
51909877 ACCATTGGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAATGGTATTGACACCAT
Found at i:51910001 original size:27 final size:26
Alignment explanation
Indices: 51909943--51910015 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 26
51909933 TTTTGTTTTT
51909943 TTATATATTTTGGTAAATAAAAAAA-
1 TTATATATTTTGGTAAATAAAAAAAG
51909968 TTATATATTTTTTGGTAAATAAAAAAAAG
1 TTATATA--TTTTGGTAAAT-AAAAAAAG
*
51909997 TTATAACATTTTGGTAAAT
1 TTAT-ATATTTTGGTAAAT
51910016 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 7 0.17
27 11 0.26
28 18 0.43
29 4 0.10
30 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (26 bp):
TTATATATTTTGGTAAATAAAAAAAG
Found at i:51910753 original size:34 final size:33
Alignment explanation
Indices: 51910700--51910770 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 33
51910690 AATAACAGTT
*
51910700 CAGT-TCAGTTGGGCTTTAGCCCATTACAGTAA
1 CAGTATCAGTTGGGCCTTAGCCCATTACAGTAA
* *
51910732 CAGTATCAGTGTGGGCCTTAGCCCATTATAGTGA
1 CAGTATCAGT-TGGGCCTTAGCCCATTACAGTAA
51910766 CAGTA
1 CAGTA
51910771 ACAATTCAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 4 0.12
33 5 0.15
34 25 0.74
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (33 bp):
CAGTATCAGTTGGGCCTTAGCCCATTACAGTAA
Found at i:51912932 original size:21 final size:21
Alignment explanation
Indices: 51912906--51912947 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51912896 CAAAACAACG
*
51912906 TAGTTTTGCCGTTTAACTTTA
1 TAGTTTTGACGTTTAACTTTA
*
51912927 TAGTTTTGACTTTTAACTTTA
1 TAGTTTTGACGTTTAACTTTA
51912948 GAAGAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACGTTTAACTTTA
Found at i:51912960 original size:70 final size:70
Alignment explanation
Indices: 51912847--51912985 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
51912837 TAGAAAGCCT
*
51912847 TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAACAACGTAGTTT
1 TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAACAACATAGTTT
51912912 TGCCG
66 TGCCG
* * *
51912917 TTTAACTTTATAGTTTTGACTTTTAACTTTAGAAGAA-GTAAACATTTATCAAAGCGACATAGTT
1 TTTAACTTTATAGTTTTGACTTTTAACATTAGAA-AAGGTAAACATTTATCAAAACAACATAGTT
51912981 TTGCC
65 TTGCC
51912986 TTTTTTTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 62 0.97
71 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (70 bp):
TTTAACTTTATAGTTTTGACTTTTAACATTAGAAAAGGTAAACATTTATCAAAACAACATAGTTT
TGCCG
Found at i:51913296 original size:30 final size:30
Alignment explanation
Indices: 51913240--51913295 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51913230 CAAAATTATT
51913240 ATTTTATTAAATTTTTAATATATTTTTTAG
1 ATTTTATTAAATTTTTAATATATTTTTTAG
* *
51913270 ATTTTTTTAAAATTTT-ATA-ATTTTTT
1 ATTTTATTAAATTTTTAATATATTTTTT
51913296 TAATAGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 3 0.12
30 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (30 bp):
ATTTTATTAAATTTTTAATATATTTTTTAG
Found at i:51913323 original size:18 final size:19
Alignment explanation
Indices: 51913302--51913337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51913292 TTTTTAATAG
51913302 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
51913320 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
51913338 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:51913337 original size:19 final size:18
Alignment explanation
Indices: 51913280--51913350 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
51913270 ATTTTTTTAA
* *
51913280 AATTTTAT-AATTTTTTT
1 AATTTTATAAATATTTTG
** *
51913297 AATAGTATAAAT-TTTAG
1 AATTTTATAAATATTTTG
51913314 AATTTCTATAAATATTTTG
1 AATTT-TATAAATATTTTG
*
51913333 AATTTTAAAAATTATTTT
1 AATTTTATAAA-TATTTT
51913351 CAAAATTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 12 0.29
18 15 0.36
19 15 0.36
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (18 bp):
AATTTTATAAATATTTTG
Found at i:51913344 original size:18 final size:21
Alignment explanation
Indices: 51913307--51913350 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
51913297 AATAGTATAA
*
51913307 ATTTTAGAATTTCTATAAA-T
1 ATTTTAGAATTTCTAAAAATT
51913327 ATTTT-GAATTT-TAAAAATT
1 ATTTTAGAATTTCTAAAAATT
51913346 ATTTT
1 ATTTT
51913351 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTAGAATTTCTAAAAATT
Found at i:51917246 original size:2 final size:2
Alignment explanation
Indices: 51917239--51917273 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
51917229 GATTGAACCC
51917239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51917274 GTTTTTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51918907 original size:49 final size:49
Alignment explanation
Indices: 51918850--51918956 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
51918840 TGTCTCTCTA
* ** * *
51918850 GAGCTTCCCAATATTGGCTCGCTTGAACCTTCCCGATA-TTGGCTCATAT
1 GAGCTTCCCAATAATGGCTCGCCGGAA-CTTCCCGATACATGGCTCACAT
* *
51918899 GAGCTTCCCATTAATGGCTCGCCGGAACTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCAATAATGGCTCGCCGGAACTTCCCGATACATGGCTCACAT
51918948 GAGCTTCCC
1 GAGCTTCCC
51918957 GTTTATGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 9 0.18
49 41 0.82
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (49 bp):
GAGCTTCCCAATAATGGCTCGCCGGAACTTCCCGATACATGGCTCACAT
Found at i:51918916 original size:24 final size:24
Alignment explanation
Indices: 51918889--51918983 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
51918879 TTCCCGATAT
*
51918889 TGGCTCATATGAGCTTCCCATTAA
1 TGGCTCACATGAGCTTCCCATTAA
* ** * *
51918913 TGGCTCGCCGGAACTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCATTA-A
* *
51918938 TGGCTCACATGAGCTTCCCGTTTA
1 TGGCTCACATGAGCTTCCCATTAA
* *
51918962 TGTGCTCATATAAGCATTCCCA
1 TG-GCTCACATGAGC-TTCCCA
51918984 AATATGATTT
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 20 0.37
25 29 0.54
26 5 0.09
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCATTAA
Found at i:51918954 original size:25 final size:24
Alignment explanation
Indices: 51918878--51918969 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
51918868 TCGCTTGAAC
* * *
51918878 CTTCCCGATATTGGCTCATATGAG
1 CTTCCCGTTAATGGCTCACATGAG
* * ** *
51918902 CTTCCCATTAATGGCTCGCCGGAA
1 CTTCCCGTTAATGGCTCACATGAG
51918926 CTTCCCGTTACATGGCTCACATGAG
1 CTTCCCGTTA-ATGGCTCACATGAG
*
51918951 CTTCCCGTTTATGTGCTCA
1 CTTCCCGTTAATG-GCTCA
51918970 TATAAGCATT
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
24 28 0.54
25 24 0.46
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTCACATGAG
Found at i:51919921 original size:42 final size:42
Alignment explanation
Indices: 51919857--51919951 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
51919847 TTTCATCCAT
*
51919857 ACGGGCATGTGTCTCAGTCGTGTGTGACACACGGCCTAGCAC
1 ACGGGCATGTGTCTCAGTCGTGTATGACACACGGCCTAGCAC
51919899 ACGGGCATGTGTCTCA-TCCGTGTATGACACACGGCCTAGCAC
1 ACGGGCATGTGTCTCAGT-CGTGTATGACACACGGCCTAGCAC
*
51919941 ATGGGCATGTG
1 ACGGGCATGTG
51919952 ACTTGGCCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (42 bp):
ACGGGCATGTGTCTCAGTCGTGTATGACACACGGCCTAGCAC
Found at i:51925435 original size:13 final size:13
Alignment explanation
Indices: 51925419--51925446 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51925409 TATAAATATT
51925419 ATATATCAAAAAA
1 ATATATCAAAAAA
51925432 ATATATCAAAAAA
1 ATATATCAAAAAA
51925445 AT
1 AT
51925447 TAATTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (13 bp):
ATATATCAAAAAA
Found at i:51925992 original size:19 final size:19
Alignment explanation
Indices: 51925952--51925994 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
51925942 AAAACTTGAA
* *
51925952 AAAAATATATTTATTAATT
1 AAAAATATATTTATAAAAT
51925971 AAAAATATTATTTA-AAAAT
1 AAAAATA-TATTTATAAAAT
51925990 AAAAA
1 AAAAA
51925995 AAGTTGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATATATTTATAAAAT
Found at i:51925994 original size:20 final size:19
Alignment explanation
Indices: 51925951--51925995 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
51925941 AAAAACTTGA
**
51925951 AAAAAATATATTTATTAAT
1 AAAAAATATATTTAAAAAT
*
51925970 TAAAAATATTATTTAAAAAT
1 AAAAAATA-TATTTAAAAAT
51925990 AAAAAA
1 AAAAAA
51925996 AGTTGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAATATATTTAAAAAT
Found at i:51927477 original size:13 final size:13
Alignment explanation
Indices: 51927455--51927488 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51927445 GTATTCAATT
51927455 CAATCCAATTACC
1 CAATCCAATTACC
*
51927468 CAATCTAATTACC
1 CAATCCAATTACC
*
51927481 CAACCCAA
1 CAATCCAA
51927489 CCCAATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (13 bp):
CAATCCAATTACC
Found at i:51927610 original size:9 final size:9
Alignment explanation
Indices: 51927596--51927698 Score: 125
Period size: 9 Copynumber: 11.4 Consensus size: 9
51927586 TGTATGATTC
*
51927596 AATTAGGTT
1 AATTCGGTT
* *
51927605 AATTAGGGT
1 AATTCGGTT
* *
51927614 AAGTCGGGT
1 AATTCGGTT
51927623 AATTCGGTT
1 AATTCGGTT
51927632 AATTCGGTT
1 AATTCGGTT
51927641 AATTCGGTT
1 AATTCGGTT
* *
51927650 AGTTCGGGT
1 AATTCGGTT
51927659 AATTCGGTT
1 AATTCGGTT
*
51927668 AATTCGGGT
1 AATTCGGTT
51927677 AATTCGGTT
1 AATTCGGTT
*
51927686 AATTTGGTT
1 AATTCGGTT
51927695 AATT
1 AATT
51927699 GTTAACTAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 82 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:51930992 original size:25 final size:25
Alignment explanation
Indices: 51930936--51930992 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
51930926 GATAAATATC
*
51930936 TTGATTTGATTTGATTTGATTCCAA
1 TTGATTTGATTTGATTTGATTCAAA
** *
51930961 TAAATTTGATTTGATTTTATTCAAA
1 TTGATTTGATTTGATTTGATTCAAA
51930986 TTGATTT
1 TTGATTT
51930993 AAAGGCTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.54
Consensus pattern (25 bp):
TTGATTTGATTTGATTTGATTCAAA
Found at i:51952387 original size:45 final size:45
Alignment explanation
Indices: 51952338--51952424 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
51952328 TTATACGCCT
* * * *
51952338 AAAATAAGCAAGATCATGGCTGAAAGATGCTATGGCATCATGATA
1 AAAATAAGCAAGACCATAGCTGAAAGACGCTATGACATCATGATA
* *
51952383 AAAATAAGTAAGACCATAGCTGAAAGACGTTATGACATCATG
1 AAAATAAGCAAGACCATAGCTGAAAGACGCTATGACATCATG
51952425 TGAAAACACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (45 bp):
AAAATAAGCAAGACCATAGCTGAAAGACGCTATGACATCATGATA
Found at i:51963306 original size:13 final size:13
Alignment explanation
Indices: 51963288--51963319 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
51963278 AATCCATAAG
*
51963288 TATTTACTAGAAA
1 TATTTACTAAAAA
51963301 TATTTACTAAAAA
1 TATTTACTAAAAA
51963314 TATTTA
1 TATTTA
51963320 TGGGCTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (13 bp):
TATTTACTAAAAA
Found at i:51963489 original size:20 final size:22
Alignment explanation
Indices: 51963451--51963491 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51963441 ATTATAATAC
*
51963451 TATATTTGAATCATAAATATTA
1 TATATTTGAATAATAAATATTA
51963473 TATATTT-AATAAT-AATATT
1 TATATTTGAATAATAAATATT
51963492 TACGAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TATATTTGAATAATAAATATTA
Found at i:51964358 original size:41 final size:41
Alignment explanation
Indices: 51964312--51964395 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
51964302 GATGGTTAAA
51964312 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
1 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
51964353 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
1 TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
51964394 TA
1 TA
51964396 TGTATACATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.44
Consensus pattern (41 bp):
TACTTTCAAAGTGATGAATGTGTTTTGGCATGGTTGATCTT
Found at i:51966376 original size:51 final size:51
Alignment explanation
Indices: 51966300--51966401 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
51966290 ATAAAGCCAT
51966300 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
1 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
51966351 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
1 GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
51966402 CAATCTCTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (51 bp):
GATGTTTTCAATCAATGTCTGAGACTCCCCCATTTGAAGTAATCATATCAA
Found at i:51988319 original size:5 final size:5
Alignment explanation
Indices: 51988309--51988349 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
51988299 ATATTTCTCT
51988309 TTTTC TTTTC TTTTC TTTTC -TTT- TTTTC TTTT- TCTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTT
51988350 AGAATTAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 7 0.22
5 24 0.75
6 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:51988328 original size:23 final size:23
Alignment explanation
Indices: 51988302--51988349 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
51988292 CTTATAAATA
51988302 TTTCTCTTTTTC-TTTTCTTTTCT
1 TTTCTCTTTTTCTTTTTC-TTTCT
*
51988325 TTTCTTTTTTTCTTTTTCTTTCT
1 TTTCTCTTTTTCTTTTTCTTTCT
51988348 TT
1 TT
51988350 AGAATTAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTCTCTTTTTCTTTTTCTTTCT
Found at i:51988335 original size:18 final size:18
Alignment explanation
Indices: 51988314--51988349 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
51988304 TCTCTTTTTC
51988314 TTTTC-TTTTCTTTTCTTT
1 TTTTCTTTTTC-TTTCTTT
51988332 TTTTCTTTTTCTTTCTTT
1 TTTTCTTTTTCTTTCTTT
51988350 AGAATTAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTCTTTCTTT
Found at i:51995393 original size:20 final size:20
Alignment explanation
Indices: 51995368--51995413 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
51995358 GTACAGTTTT
* *
51995368 GCCACGAACATGGAATGCCC
1 GCCACGAACATAGAATACCC
51995388 GCCACGAACATAGAATACCC
1 GCCACGAACATAGAATACCC
51995408 GCCACG
1 GCCACG
51995414 TCAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.37, G:0.22, T:0.09
Consensus pattern (20 bp):
GCCACGAACATAGAATACCC
Found at i:51995751 original size:138 final size:137
Alignment explanation
Indices: 51995489--51996149 Score: 627
Period size: 138 Copynumber: 4.8 Consensus size: 137
51995479 CTTTATATTA
* * * * * * *
51995489 TATAATGGTTTGTC-AGTTTATGATCGCAACCTCCAAAAATGGCTTGCGAACTTACGCTTCTAAC
1 TATAAAGGTTTGTCGA-TTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGC
* * * * * *
51995553 TAATATTCTAAAAGTTCAC-AGGTTTAAGCTCATAGCTTCAACATAGCTAGCGAACTTACGTTCC
65 TAATATTCTAAGAGCTCGCAAGG-TTAAGCTCATAGCTCCAACACAGCTAGAGAAC-TACGTTCC
* *
51995617 TAACTGATGT
128 CAATTGATGT
* * *
51995627 TATAAAGGTTTTTCGATTTATGATCGCAACCTCCAAAAATAGTTAGCGAACCTACGCTCTCAGCT
1 TATAAAGGTTTGTCGATTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCT
* *
51995692 AATATTCTAAGAGCCCGCAAGGTTAAGCTCATAGCTCCAACACAACTAGAGAACATACGTTCCCA
66 AATATTCTAAGAGCTCGCAAGGTTAAGCTCATAGCTCCAACACAGCTAGAGAAC-TACGTTCCCA
*
51995757 GTTGATGT
130 ATTGATGT
* * * * * * * *
51995765 TATAAAAGTTTGTCGGTTTATGATCACAACCTCTAAAAATAGCTATCGGACCTACGCTCCCAACA
1 TATAAAGGTTTGTCGATTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCT
* * * * * * * *
51995830 AATATTCTAAGAGTTCACAAAGTTAAGCTCGTAGCTCCAATATAGCTAGCGGAACTACATTCCCA
66 AATATTCTAAGAGCTCGCAAGGTTAAGCTCATAGCTCCAACACAGCTAG-AGAACTACGTTCCCA
51995895 ATTGATGT
130 ATTGATGT
* * * * *
51995903 TATAAAGGTTT-ACCAGTTTATGA-CTGTAACCTCCAAAAATAACTAGC-AGACCTATGCTCCCA
1 TATAAAGGTTTGTCGA-TTTATGATC-GCAACCTCCAAAAATAGCTAGCGA-ACCTACGCTCCCA
* * * * * *
51995965 GTTGATATTCTAAGAGCTCGCAGGGTTAAGCTTGC-T-GGTCCAACACAGCTAGTGGACCTACGT
63 GCTAATATTCTAAGAGCTCGCAAGGTTAAGC-T-CATAGCTCCAACACAGCTAG-AGAACTACGT
51996028 TCCCAATTGATGT
125 TCCCAATTGATGT
* * * * * *
51996041 TATAAAGGTTTGCCGATTTATGATTGCAACCTCTAAAAATAGCTAGCGGACCTATGCTCCTAGCT
1 TATAAAGGTTTGTCGATTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCT
* * * * *
51996106 GATATTCTAAGAGCTTG-TAGGATTAAGCTCACAACTCCAACACA
66 AATATTCTAAGAGCTCGCAAGG-TTAAGCTCATAGCTCCAACACA
51996150 AGTAACAAAC
Statistics
Matches: 425, Mismatches: 84, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
136 1 0.00
137 5 0.01
138 406 0.96
139 12 0.03
140 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (137 bp):
TATAAAGGTTTGTCGATTTATGATCGCAACCTCCAAAAATAGCTAGCGAACCTACGCTCCCAGCT
AATATTCTAAGAGCTCGCAAGGTTAAGCTCATAGCTCCAACACAGCTAGAGAACTACGTTCCCAA
TTGATGT
Found at i:51995994 original size:276 final size:276
Alignment explanation
Indices: 51995496--51996118 Score: 740
Period size: 276 Copynumber: 2.3 Consensus size: 276
51995486 TTATATAATG
* * * * * *
51995496 GTTTGTCAGTTTATGATCGCAACCTCCAAAAATGGCT-TGCGAACTTACGCTTCTAACTAATATT
1 GTTTGTCGGTTTATGATCGCAACCTCTAAAAATAGCTAT-CGGACCTACGCTCCTAACTAATATT
* * * * *
51995560 CTAAAAGTTCACAGGTTTAAGCTCATAGCTTCAACATAGCTAGCGAACTTACGTTCCTAACTGAT
65 CTAAGAGTTCACAAGTTTAAGCTCATAGCTCCAACATAGCTAGCGAACTTACATTCCCAACTGAT
** ** *
51995625 GTTATAAAGGTTTTTCGATTTATGATCGCAACCTCCAAAAATAGTTAGCGAACCTACGCTCTCAG
130 GTTATAAAGGTTTACCGATTTATGATCGCAACCTCCAAAAATAACTAGCGAACCTACGCTCCCAG
51995690 CTAATATTCTAAGAGCCCGCAAGGTTAAGC-T-CATAGCTCCAACACAACTAGAGAACATACGTT
195 CTAATATTCTAAGAGCCCGCAAGGTTAAGCTTGC-T-GCTCCAACACAACTAGAGAACATACGTT
*
51995753 CCCAGTTGATGTTATAAAA
258 CCCAATTGATGTTATAAAA
* * *
51995772 GTTTGTCGGTTTATGATCACAACCTCTAAAAATAGCTATCGGACCTACGCTCCCAACAAATATTC
1 GTTTGTCGGTTTATGATCGCAACCTCTAAAAATAGCTATCGGACCTACGCTCCTAACTAATATTC
* * *
51995837 TAAGAGTTCACAAAG-TTAAGCTCGTAGCTCCAATATAGCTAGCGGAAC-TACATTCCCAATTGA
66 TAAGAGTTCAC-AAGTTTAAGCTCATAGCTCCAACATAGCTAGC-GAACTTACATTCCCAACTGA
* *
51995900 TGTTATAAAGGTTTACC-AGTTTATGA-CTGTAACCTCCAAAAATAACTAGC-AGACCTATGCTC
129 TGTTATAAAGGTTTACCGA-TTTATGATC-GCAACCTCCAAAAATAACTAGCGA-ACCTACGCTC
* * * * * * * * *
51995962 CCAGTTGATATTCTAAGAGCTCGCAGGGTTAAGCTTGCTGGTCCAACACAGCTAGTGGACCTACG
191 CCAGCTAATATTCTAAGAGCCCGCAAGGTTAAGCTTGCTGCTCCAACACAACTAGAGAACATACG
*
51996027 TTCCCAATTGATGTTATAAAG
256 TTCCCAATTGATGTTATAAAA
* * * * * * *
51996048 GTTTGCCGATTTATGATTGCAACCTCTAAAAATAGCTAGCGGACCTATGCTCCTAGCTGATATTC
1 GTTTGTCGGTTTATGATCGCAACCTCTAAAAATAGCTATCGGACCTACGCTCCTAACTAATATTC
51996113 TAAGAG
66 TAAGAG
51996119 CTTGTAGGAT
Statistics
Matches: 294, Mismatches: 45, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
275 3 0.01
276 281 0.96
277 9 0.03
278 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (276 bp):
GTTTGTCGGTTTATGATCGCAACCTCTAAAAATAGCTATCGGACCTACGCTCCTAACTAATATTC
TAAGAGTTCACAAGTTTAAGCTCATAGCTCCAACATAGCTAGCGAACTTACATTCCCAACTGATG
TTATAAAGGTTTACCGATTTATGATCGCAACCTCCAAAAATAACTAGCGAACCTACGCTCCCAGC
TAATATTCTAAGAGCCCGCAAGGTTAAGCTTGCTGCTCCAACACAACTAGAGAACATACGTTCCC
AATTGATGTTATAAAA
Found at i:51996997 original size:23 final size:23
Alignment explanation
Indices: 51996971--51997019 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
51996961 CTTCAGCAGT
*
51996971 CCTCCTTAATTCAGCATCCAAGG
1 CCTCCTTAACTCAGCATCCAAGG
51996994 CCTCCTTAACTCAGCATCCAAGG
1 CCTCCTTAACTCAGCATCCAAGG
51997017 CCT
1 CCT
51997020 TACTTCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.39, G:0.12, T:0.24
Consensus pattern (23 bp):
CCTCCTTAACTCAGCATCCAAGG
Found at i:52003733 original size:2 final size:2
Alignment explanation
Indices: 52003728--52003757 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52003718 TTTATATATT
52003728 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
52003758 CGCACCTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:52009376 original size:39 final size:39
Alignment explanation
Indices: 52009322--52009399 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
52009312 AAGCAAAACA
*
52009322 GTAATGGAAAGAAATCAAATGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
52009361 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
1 GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
52009400 CTAAACAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.22
Consensus pattern (39 bp):
GTAATGGAAAGAAATCAAAAGATTGAGAATCAAATCAAT
Found at i:52014279 original size:22 final size:22
Alignment explanation
Indices: 52014253--52014300 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
52014243 CCTCCATACG
52014253 CGCCACGTCCCCTGACACCGTA
1 CGCCACGTCCCCTGACACCGTA
52014275 CGCCACGTCCCCTGACACCGTA
1 CGCCACGTCCCCTGACACCGTA
52014297 CGCC
1 CGCC
52014301 GTACCTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.52, G:0.19, T:0.12
Consensus pattern (22 bp):
CGCCACGTCCCCTGACACCGTA
Found at i:52015463 original size:27 final size:25
Alignment explanation
Indices: 52015407--52015471 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
52015397 TTCATATATG
*
52015407 ATTATTTTAACTTGCTTTATAGATT
1 ATTATTTTAAGTTGCTTTATAGATT
*
52015432 ATTATTTTAAGTTGCTTTATATATT
1 ATTATTTTAAGTTGCTTTATAGATT
52015457 ATTTTATTTTAAGTT
1 A--TTATTTTAAGTT
52015472 ATTCTACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 24 0.67
27 12 0.33
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTATTTTAAGTTGCTTTATAGATT
Found at i:52015482 original size:27 final size:26
Alignment explanation
Indices: 52015408--52015494 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
52015398 TCATATATGA
* * * *
52015408 TTATTTTAACTTGCTTTATAGATTA-
1 TTATTTTAAGTTGATTTACATATTAC
* * *
52015433 TTATTTTAAGTTGCTTTATATATTATT
1 TTATTTTAAGTTGATTTACATATTA-C
52015460 TTATTTTAAGTT-ATTCTACATATTAC
1 TTATTTTAAGTTGATT-TACATATTAC
52015486 TTATTTTAA
1 TTATTTTAA
52015495 AATTAACCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 23 0.43
26 11 0.20
27 20 0.37
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGATTTACATATTAC
Found at i:52030193 original size:44 final size:44
Alignment explanation
Indices: 52030122--52030245 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
52030112 GAGCAAGATA
* * * * * *
52030122 AAGCTACAAATCATATATCCCTAAAGTTACAGTGGATCAGATTT
1 AAGCTACAAATCCTATATCCTTGAAGTTGCAGTGGATCAAATTG
* *
52030166 AAGCTACAAATCCTATATCCTTGAAGTTGTAATGGATCAAATTG
1 AAGCTACAAATCCTATATCCTTGAAGTTGCAGTGGATCAAATTG
* * * *
52030210 AAGATACCAATTCCTATACCCTTGATGTTGCAGTGG
1 AAGCTA-CAAATCCTATATCCTTGAAGTTGCAGTGG
52030246 GTCGGAATAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 41 0.63
45 24 0.37
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (44 bp):
AAGCTACAAATCCTATATCCTTGAAGTTGCAGTGGATCAAATTG
Found at i:52030233 original size:45 final size:44
Alignment explanation
Indices: 52030154--52030239 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
52030144 AAAGTTACAG
* * * *
52030154 TGGATCAGATTTAAGCTACAAATCCTATATCCTTGAAGTTGTAA
1 TGGATCAAATTGAAGATACAAATCCTATACCCTTGAAGTTGTAA
* *
52030198 TGGATCAAATTGAAGATACCAATTCCTATACCCTTGATGTTG
1 TGGATCAAATTGAAGATA-CAAATCCTATACCCTTGAAGTTG
52030240 CAGTGGGTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 15 0.43
45 20 0.57
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (44 bp):
TGGATCAAATTGAAGATACAAATCCTATACCCTTGAAGTTGTAA
Found at i:52030361 original size:94 final size:95
Alignment explanation
Indices: 52030173--52030682 Score: 503
Period size: 94 Copynumber: 5.4 Consensus size: 95
52030163 TTTAAGCTAC
* * * * * * * *
52030173 AAATCCTATATCCTTGAAGTTGTAATGGATCAA-ATTGAAGATACCAATTCCTATACCCTTGATG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGATA-CAATTCCTATACCCCTGAAG
* * * *
52030237 TTGCAGTGGGTCGGAATAAAACTAA-AATGGT
64 TTGCAGTGGGTTGGAATGAAACTAACGATAGT
*
52030268 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTGAAGTT
* *
52030333 GCAGTGGGTTAGAATGAAAC-AACGATGGT
66 GCAGTGGGTTGGAATGAAACTAACGATAGT
* * * * * *
52030362 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCTCTAAAATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTGAAGTT
* *
52030427 GCAGTGGGTTGG-ATTAAATCT-ACCATAGT
66 GCAGTGGGTTGGAATGAAA-CTAACGATAGT
* * * * *
52030456 AAATTTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGTTACAATTCCTATACCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTGAAGTT
* * * * *
52030521 GCAGTAGGTTGGATTG-AACTTATGATAGC
66 GCAGTGGGTTGGAATGAAACTAACGATAGT
* * * * * *
52030550 AAATCTTATCTCCCTTAAGTTGCGGTGGAGCAAGTTGAAGCTGCAATTCTTATACCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTGAAGTT
* * * * **
52030615 GCAGTGGGTTGGTATGAAGCT-ACAACAAC
66 GCAGTGGGTTGGAATGAAACTAACGATAGT
* * * *
52030644 AAATCTTATCTCCTTGAAGTTGTAATGGAGCAAAATGAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
52030683 ACCGTGATAG
Statistics
Matches: 347, Mismatches: 61, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
93 9 0.03
94 299 0.86
95 38 0.11
96 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (95 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTGAAGTT
GCAGTGGGTTGGAATGAAACTAACGATAGT
Found at i:52030400 original size:50 final size:49
Alignment explanation
Indices: 52030263--52030401 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 49
52030253 TAAAACTAAA
*
52030263 ATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATAC
1 ATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGAAAC
* * **
52030312 A-----ATTCCTATAC-CCCTGAAGTTGCAGTGG-GTTAGAATGAA-ACAAC
1 ATGGTGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAAG-ATGAAGA-AAC
52030356 GATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAG
1 -ATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAG
52030402 CTACAAATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
43 4 0.06
44 30 0.43
45 2 0.03
49 2 0.03
50 28 0.41
51 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
ATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGAAAC
Found at i:52030468 original size:188 final size:188
Alignment explanation
Indices: 52030080--52030682 Score: 522
Period size: 188 Copynumber: 3.2 Consensus size: 188
52030070 TGAATTTACC
* * * * * * * * *
52030080 ATAGTGAATCTTATCTCCCTAAAGTTGCAATAGAGCAAGATAAAGCTACAAATCATATATCCCTA
1 ATAGTAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGATACAATTCCTATACCCCTA
* * * * * * * * * *
52030145 AAGTTACAGT-GGATCAG-AT---TTAA-GCTA-CAAATCCTATATCCTTGAAGTTGTAATGGAT
66 AAGTTGCAGTAGG-TTAGAATGAACTAACGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * ** *
52030203 CAA-ATTGAAGATACCAATTCCTATACCCTTGATGTTGCAGTGGGTCGGAATAAAACTAAA
130 CAAGA-TGAAGCTA-CAAATCCTATACCCCTAAAATTGCAGTGGGTTGGAATAAAACTAAA
* * * * *
52030263 ATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGATACAATTCCTATACCCCTG
1 ATAGTAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGATACAATTCCTATACCCCTA
* * **
52030328 AAGTTGCAGTGGGTTAGAATGAAAC-AACGATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 AAGTTGCAGTAGGTTAGAATG-AACTAACGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * **
52030392 CAAGATGAAGCTACAAATCCTATACCTCTAAAATTGCAGTGGGTTGGATTAAATCTACC
130 CAAGATGAAGCTACAAATCCTATACCCCTAAAATTGCAGTGGGTTGGAATAAAACTAAA
* *
52030451 ATAGTAAATTTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGTTACAATTCCTATACCCCTA
1 ATAGTAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGATACAATTCCTATACCCCTA
* * * * * *
52030516 AAGTTGCAGTAGGTTGGATTGAACTTATGATAGCAAATCTTATCTCCCTTAAGTTGCGGTGGAGC
66 AAGTTGCAGTAGGTTAGAATGAACTAACGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * * * * *
52030581 AAGTTGAAGCTGCAATTCTTATACCCCTGAAGTTGCAGTGGGTTGGTATGAAGCTACA
131 AAGATGAAGCTACAAATCCTATACCCCTAAAATTGCAGTGGGTTGGAATAAAACTAAA
* ** * ** *
52030639 ACAACAAATCTTATCTCCTTGAAGTTGTAATGGAGCAAAATGAA
1 ATAGTAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAA
52030683 ACCGTGATAG
Statistics
Matches: 338, Mismatches: 72, Indels: 15
0.80 0.17 0.04
Matches are distributed among these distances:
183 67 0.20
184 4 0.01
187 5 0.01
188 228 0.67
189 33 0.10
190 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (188 bp):
ATAGTAAATCTTATCTCCCTGAAGTTACAATGGAGCAAGATGAAGATACAATTCCTATACCCCTA
AAGTTGCAGTAGGTTAGAATGAACTAACGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
AAGATGAAGCTACAAATCCTATACCCCTAAAATTGCAGTGGGTTGGAATAAAACTAAA
Found at i:52031016 original size:15 final size:15
Alignment explanation
Indices: 52030991--52031023 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
52030981 TGCTGACTTA
52030991 AAAACCCTAAAAGCCT
1 AAAACCCTAAAA-CCT
52031007 AAAA-CCTAAAACCT
1 AAAACCCTAAAACCT
52031021 AAA
1 AAA
52031024 CAAGAAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 7 0.41
16 4 0.24
ACGTcount: A:0.58, C:0.27, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAACCCTAAAACCT
Found at i:52032837 original size:93 final size:93
Alignment explanation
Indices: 52032678--52032864 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
52032668 TTCCTCATAT
*
52032678 GCAACCGACTCCCGAACCCATTTCCTGGATTTTGTAGACCGAAAATTATTGTTTTAATAAATCTA
1 GCAACCGACTCCCGAACCCATTTCCTGGATTTTGTAGACCGAAAATTATCGTTTTAATAAATCTA
52032743 ACATTTTATTAAAATGACCAAGTTTTGA
66 ACATTTTATTAAAATGACCAAGTTTTGA
52032771 GCAACCGACTCCCGAACCCATTTCCTGGATTTTGTAGACCGAAAATTATCGTTTTAATAAATCTA
1 GCAACCGACTCCCGAACCCATTTCCTGGATTTTGTAGACCGAAAATTATCGTTTTAATAAATCTA
52032836 ACATTTTATTAAAATGACCAAGTTTTGA
66 ACATTTTATTAAAATGACCAAGTTTTGA
52032864 G
1 G
52032865 TGATTCAATC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (93 bp):
GCAACCGACTCCCGAACCCATTTCCTGGATTTTGTAGACCGAAAATTATCGTTTTAATAAATCTA
ACATTTTATTAAAATGACCAAGTTTTGA
Found at i:52033327 original size:21 final size:21
Alignment explanation
Indices: 52033293--52033336 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
52033283 TAATTGGAGC
52033293 TACAAAAAAAATCTAG-AAAA
1 TACAAAAAAAATCTAGTAAAA
* *
52033313 TACAAAACTAAATCTGGTAAAA
1 TACAAAA-AAAATCTAGTAAAA
52033335 TA
1 TA
52033337 ATCGATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.20
Consensus pattern (21 bp):
TACAAAAAAAATCTAGTAAAA
Found at i:52037783 original size:43 final size:41
Alignment explanation
Indices: 52037727--52037978 Score: 310
Period size: 42 Copynumber: 6.0 Consensus size: 41
52037717 GCGTTTACAG
*
52037727 AAAAAA-ACACCGCTAAATG-TCATGTTCTTTAGCGGCGCTT
1 AAAAAAGACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTT
* * *
52037767 GGAAAAAAGATGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTT
1 --AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TT
*
52037811 AAAAAAAGATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 -AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
52037853 AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 -AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * *
52037895 AAAGAAAAACACCGCTAAAGATCACGTTCTTTCGCGGCGCTT
1 AAA-AAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
52037937 AAAGAAAAACGCCGCTAAAGATCACGTTCTTTCGCGGCGCTT
1 AAA-AAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
52037979 GTTTCACAAA
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
41 3 0.02
42 125 0.64
43 64 0.33
44 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:52037926 original size:84 final size:83
Alignment explanation
Indices: 52037727--52037978 Score: 346
Period size: 84 Copynumber: 3.0 Consensus size: 83
52037717 GCGTTTACAG
* * *
52037727 AAAAAAACACCGCTAAATG-TCATGTTCTTTAGCGGCGCTTGGAAAAAAGATGCCGCTAAAGGTC
1 AAAAAAACACCGCTAAA-GATCATGTTCTTTAGCGGCGCTT-AAAAAAAGACGCCGCTAAAGATC
*
52037791 ATGTTCTTTAGCAGCGCTTTA
64 ATGTTCTTTAGCGGCGC-TTA
**
52037812 AAAAAAGATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCGCTAAAGATCA
1 AAAAAA-ACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCGCTAAAGATCA
52037877 TGTTCTTTAGCGGCGCTTA
65 TGTTCTTTAGCGGCGCTTA
* *
52037896 AAGAAAAACACCGCTAAAGATCACGTTCTTTCGCGGCGCTTAAAGAAAA-ACGCCGCTAAAGATC
1 AA-AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAA-AAAAGACGCCGCTAAAGATC
* *
52037960 ACGTTCTTTCGCGGCGCTT
64 ATGTTCTTTAGCGGCGCTT
52037979 GTTTCACAAA
Statistics
Matches: 151, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
84 70 0.46
85 51 0.34
86 30 0.20
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (83 bp):
AAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTA
Found at i:52038424 original size:33 final size:33
Alignment explanation
Indices: 52038385--52038467 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
52038375 TTCTTTTGAA
52038385 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
1 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
* * * *
52038418 CTTCTGCTTCTCTCACTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
52038451 CCTCTGCTTCTCTCGCT
1 CCTCTGCTTCTCTCGCT
52038468 GTAGCCTCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.06, C:0.41, G:0.14, T:0.39
Consensus pattern (33 bp):
CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
Found at i:52038459 original size:21 final size:21
Alignment explanation
Indices: 52038433--52038497 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
52038423 GCTTCTCTCA
52038433 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
52038454 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
52038475 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
52038496 CT
1 CT
52038498 TCTTTAAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:52040209 original size:20 final size:20
Alignment explanation
Indices: 52040184--52040227 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
52040174 ATACGAAATT
52040184 TTATCTTAATATTATATAAC
1 TTATCTTAATATTATATAAC
*
52040204 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAC
52040224 TTAT
1 TTAT
52040228 GTAATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATCTTAATATTATATAAC
Found at i:52040245 original size:37 final size:37
Alignment explanation
Indices: 52040204--52040297 Score: 144
Period size: 32 Copynumber: 2.7 Consensus size: 37
52040194 ATTATATAAC
52040204 TTATCTTAATATTATATAAGTTATGTAATTAGAAAAT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAAAT
*
52040241 TTATCTTAATA-T-TAT---TTATGTAATTAGAAATT
1 TTATCTTAATATTATATAAGTTATGTAATTAGAAAAT
52040273 TTATCTTAATATTATATAAGTTATG
1 TTATCTTAATATTATATAAGTTATG
52040298 AAGTGTCCTG
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
32 27 0.53
33 1 0.02
34 3 0.06
35 3 0.06
36 1 0.02
37 16 0.31
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (37 bp):
TTATCTTAATATTATATAAGTTATGTAATTAGAAAAT
Found at i:52041923 original size:27 final size:27
Alignment explanation
Indices: 52041893--52041975 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
52041883 GGTTACCGTA
52041893 TTAATACCTAAAAATGTTCTTACTTTC
1 TTAATACCTAAAAATGTTCTTACTTTC
* ** * ** *
52041920 TTAA-CCCT-AATTTGAAT-TTACCGTA
1 TTAATACCTAAAAATG-TTCTTACTTTC
52041945 TTAATACCTAAAAATGTTCTTACTTTC
1 TTAATACCTAAAAATGTTCTTACTTTC
52041972 TTAA
1 TTAA
52041976 CCCTAATTTG
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
25 13 0.34
26 8 0.21
27 17 0.45
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (27 bp):
TTAATACCTAAAAATGTTCTTACTTTC
Found at i:52041947 original size:52 final size:52
Alignment explanation
Indices: 52041885--52041990 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
52041875 ATGGTTAAGG
52041885 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
1 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
52041937 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
1 TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
52041989 TT
1 TT
52041991 TCTTATTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (52 bp):
TTACCGTATTAATACCTAAAAATGTTCTTACTTTCTTAACCCTAATTTGAAT
Found at i:52041980 original size:26 final size:26
Alignment explanation
Indices: 52041899--52041981 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 26
52041889 CGTATTAATA
52041899 CCTAAAAATGTTCTTACTTTCTTAAC
1 CCTAAAAATGTTCTTACTTTCTTAAC
** * ** * *
52041925 CCT-AATTTGAAT-TTACCGTATTAATA
1 CCTAAAAATG-TTCTTACTTTCTTAA-C
52041951 CCTAAAAATGTTCTTACTTTCTTAAC
1 CCTAAAAATGTTCTTACTTTCTTAAC
52041977 CCTAA
1 CCTAA
52041982 TTTGAATTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
25 13 0.33
26 13 0.33
27 13 0.33
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.41
Consensus pattern (26 bp):
CCTAAAAATGTTCTTACTTTCTTAAC
Found at i:52042265 original size:15 final size:15
Alignment explanation
Indices: 52042245--52042284 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
52042235 ACCTCTAAGT
52042245 TGGCGATTTCAAGGC
1 TGGCGATTTCAAGGC
52042260 TGGCGATTTCAAGGC
1 TGGCGATTTCAAGGC
*
52042275 TGCCGATTTC
1 TGGCGATTTC
52042285 GGGAAACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (15 bp):
TGGCGATTTCAAGGC
Found at i:52045868 original size:20 final size:20
Alignment explanation
Indices: 52045843--52045882 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52045833 AGTCTTTCTG
52045843 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
52045863 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
52045883 TTCATCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.45, G:0.05, T:0.40
Consensus pattern (20 bp):
CGATTTCCCCTCATCCTTTC
Found at i:52047545 original size:17 final size:17
Alignment explanation
Indices: 52047523--52047555 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52047513 TTATTTTCTA
52047523 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
52047540 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
52047556 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:52047601 original size:15 final size:16
Alignment explanation
Indices: 52047564--52047602 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
52047554 ATAATTATTC
*
52047564 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
52047580 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
52047595 TAAATTTA
1 TAAATTTA
52047603 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:52047603 original size:61 final size:61
Alignment explanation
Indices: 52047534--52047683 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 61
52047524 ATAAGTTTTC
52047534 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* * * * * *
52047595 TAAATTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
52047656 CAATTTTACACGTTTTGTAAATAATTAT
1 TAAATTTATAAGTTTTGTAAATAATTAT
52047684 ATTTTTTTAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.96
62 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:52047938 original size:95 final size:95
Alignment explanation
Indices: 52047826--52048089 Score: 388
Period size: 95 Copynumber: 2.8 Consensus size: 95
52047816 AATCATTTGC
* * * *
52047826 TTACTTAATACATAATAACACAATGCATAA-TTGGTATATAAGCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTT-ATATATAAGCTTGCATAACTTACATAATAAC
52047890 TTCCATAACGTATATATAATAAT-ATAATAAA
65 TTCCATAACGTATATATAAT-ATGATAATAAA
*
52047921 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACATAATAACT
1 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
* * * *
52047986 TTCATAACTTATATATAATCTGATAATACA
66 TCCATAACGTATATATAATATGATAATAAA
* *
52048016 TTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACATAATAGC
1 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACATAATAAC
52048081 TTCCATAAC
65 TTCCATAAC
52048090 TTAATACACC
Statistics
Matches: 153, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
94 1 0.01
95 117 0.76
96 35 0.23
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (95 bp):
TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
TCCATAACGTATATATAATATGATAATAAA
Found at i:52047957 original size:53 final size:52
Alignment explanation
Indices: 52047893--52048058 Score: 154
Period size: 53 Copynumber: 3.3 Consensus size: 52
52047883 TAATAACTTC
*
52047893 CATAACGTATATATAATAATATAATAAATTACATAATACATAATAACATAATA
1 CATAACTTATATATAATAATATAAT-AATTACATAATACATAATAACATAATA
** * * *
52047946 CATAACTTATATATAA-GCT-T-GT-ATAAC-T--TACATAATAAC-T--TT
1 CATAACTTATATATAATAATATAATAATTACATAATACATAATAACATAATA
***
52047988 CATAACTTATATATAATCTGATAATACATTACATAATACATAATAACATAATA
1 CATAACTTATATATAATAATATAATA-ATTACATAATACATAATAACATAATA
52048041 CATAACTTATATTATAAT
1 CATAACTTATA-TATAAT
52048059 CTTGCATAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
42 17 0.19
44 2 0.02
45 12 0.13
47 5 0.06
48 5 0.06
50 12 0.13
51 2 0.02
52 1 0.01
53 27 0.30
54 6 0.07
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.36
Consensus pattern (52 bp):
CATAACTTATATATAATAATATAATAATTACATAATACATAATAACATAATA
Found at i:52047972 original size:21 final size:20
Alignment explanation
Indices: 52047946--52048003 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
52047936 TAACATAATA
52047946 CATAACTTATATATAAGCTTGT
1 CATAACTTATATATAA-CTT-T
*
52047968 -ATAACTTACATAATAACTTT
1 CATAACTTATAT-ATAACTTT
52047988 CATAACTTATATATAA
1 CATAACTTATATATAA
52048004 TCTGATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 23 0.72
22 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (20 bp):
CATAACTTATATATAACTTT
Found at i:52048025 original size:12 final size:14
Alignment explanation
Indices: 52048008--52048044 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
52047998 ATATAATCTG
52048008 ATAATACAT-T-AC
1 ATAATACATATAAC
52048020 ATAATACATAATAAC
1 ATAATACAT-ATAAC
52048035 ATAATACATA
1 ATAATACATA
52048045 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:52048038 original size:8 final size:7
Alignment explanation
Indices: 52048008--52048045 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
52047998 ATATAATCTG
52048008 ATAATAC
1 ATAATAC
52048015 AT--TAC
1 ATAATAC
52048020 ATAATAC
1 ATAATAC
52048027 ATAATAAC
1 ATAAT-AC
52048035 ATAATAC
1 ATAATAC
52048042 ATAA
1 ATAA
52048046 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:52048057 original size:27 final size:27
Alignment explanation
Indices: 52047988--52048058 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
52047978 TAATAACTTT
***
52047988 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
52048014 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
52048041 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
52048059 CTTGCATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Found at i:52048191 original size:9 final size:9
Alignment explanation
Indices: 52048163--52048344 Score: 81
Period size: 9 Copynumber: 21.8 Consensus size: 9
52048153 CATATATAGA
*
52048163 AACTGACAT
1 AACTTACAT
* *
52048172 AAATTAAAT
1 AACTTACAT
52048181 AACTTACAT
1 AACTTACAT
52048190 AACTTACAT
1 AACTTACAT
* *
52048199 AAATTAAAT
1 AACTTACAT
*
52048208 TACTTACAT
1 AACTTACAT
52048217 AACTTACAT
1 AACTTACAT
*
52048226 TA--TACAT
1 AACTTACAT
*
52048233 AACCTT-CTT
1 AA-CTTACAT
52048242 AACTTACAT
1 AACTTACAT
* *
52048251 TA--TACAC
1 AACTTACAT
* *
52048258 GACTCACAT
1 AACTTACAT
52048267 AA-TTA-AT
1 AACTTACAT
* *
52048274 -ATTATACAC
1 AACT-TACAT
52048283 AACTTACAT
1 AACTTACAT
*
52048292 AA-TAAC-T
1 AACTTACAT
**
52048299 TTCTTACAT
1 AACTTACAT
52048308 AACTTACAT
1 AACTTACAT
52048317 AA--TACAT
1 AACTTACAT
52048324 AA--TACAT
1 AACTTACAT
52048331 AA--TACAT
1 AACTTACAT
52048338 AACTTAC
1 AACTTAC
52048345 GTAATTCATT
Statistics
Matches: 128, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
6 1 0.01
7 36 0.28
8 13 0.10
9 75 0.59
10 3 0.02
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:52048193 original size:27 final size:27
Alignment explanation
Indices: 52048163--52048225 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
52048153 CATATATAGA
*
52048163 AACTGACATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
*
52048190 AACTTACATAAATTAAATTACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
52048217 AACTTACAT
1 AACTTACAT
52048226 TATACATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (27 bp):
AACTTACATAAATTAAATAACTTACAT
Found at i:52048324 original size:7 final size:7
Alignment explanation
Indices: 52048312--52048339 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
52048302 TTACATAACT
52048312 TACATAA
1 TACATAA
52048319 TACATAA
1 TACATAA
52048326 TACATAA
1 TACATAA
52048333 TACATAA
1 TACATAA
52048340 CTTACGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
TACATAA
Found at i:52053849 original size:21 final size:21
Alignment explanation
Indices: 52053825--52053875 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
52053815 GGTACAACTT
* *
52053825 GAAGAAGAGGCGGCAGCGAGG
1 GAAGCAGAGGCGGCAGCGAGA
* *
52053846 GAAGCGGAGGCTGCAGCGAGA
1 GAAGCAGAGGCGGCAGCGAGA
52053867 GAAGCAGAG
1 GAAGCAGAG
52053876 CAGAGCAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.49, T:0.02
Consensus pattern (21 bp):
GAAGCAGAGGCGGCAGCGAGA
Found at i:52054240 original size:42 final size:42
Alignment explanation
Indices: 52054182--52054385 Score: 293
Period size: 42 Copynumber: 4.9 Consensus size: 42
52054172 GCGTTTTTGT
*
52054182 AAAAAAA-GCTGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
** *
52054223 AAAAAAACGCCGCTAAAGAACATGTTCTTTAAAGGTGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * *
52054265 AAAAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* * *
52054307 AGAAAAATGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
52054349 AAGAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
52054386 TTTTTGTTTG
Statistics
Matches: 143, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
41 7 0.05
42 136 0.95
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:52054279 original size:84 final size:83
Alignment explanation
Indices: 52054182--52054385 Score: 327
Period size: 84 Copynumber: 2.4 Consensus size: 83
52054172 GCGTTTTTGT
*
52054182 AAAAAAAGCTGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATG
1 AAAAAAAGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATG
*
52054247 TTCTTTAAAGGTGCTTAG
66 TTCTTTAAAGGCGCTTAG
* *
52054265 AAAAAAATGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAGAAAAATGCCGCTAAAGAACAT
1 AAAAAAA-GCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAT
*
52054330 GTTCTTTAGAGGCGCTTAG
65 GTTCTTTAAAGGCGCTTAG
* *
52054349 AAGAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
1 AA-AAAAAGCTGCTAAAGACCATGTTCTTTAGCGGCG
52054386 TTTTTGTTTG
Statistics
Matches: 112, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
83 7 0.06
84 101 0.90
85 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (83 bp):
AAAAAAAGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATG
TTCTTTAAAGGCGCTTAG
Found at i:52057066 original size:31 final size:31
Alignment explanation
Indices: 52057028--52057127 Score: 200
Period size: 31 Copynumber: 3.2 Consensus size: 31
52057018 GTGAATATTG
52057028 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
52057059 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
52057090 TAAATCCTAAAGGATAAGATTGTATAGAGTT
1 TAAATCCTAAAGGATAAGATTGTATAGAGTT
52057121 TAAATCC
1 TAAATCC
52057128 CTTAGTACTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
TAAATCCTAAAGGATAAGATTGTATAGAGTT
Found at i:52079624 original size:16 final size:16
Alignment explanation
Indices: 52079600--52079632 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52079590 AACCAATAAA
*
52079600 TAATTTTTTATATTTT
1 TAATATTTTATATTTT
52079616 TAATATTTTATATTTT
1 TAATATTTTATATTTT
52079632 T
1 T
52079633 TAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TAATATTTTATATTTT
Found at i:52079709 original size:9 final size:9
Alignment explanation
Indices: 52079695--52079837 Score: 66
Period size: 9 Copynumber: 15.9 Consensus size: 9
52079685 TTTAAGAATT
52079695 TTTTTATAA
1 TTTTTATAA
52079704 TTTTTATAA
1 TTTTTATAA
* *
52079713 GTTTATAAAA
1 -TTTTTATAA
*
52079723 GTTTTA-AA
1 TTTTTATAA
* *
52079731 TGTTT-TAG
1 TTTTTATAA
*
52079739 TTATTATAATA
1 TTTTTAT-A-A
52079750 TTTTTATAA
1 TTTTTATAA
*
52079759 TTTATTA-GA
1 TTT-TTATAA
* *
52079768 TTTTTCTAT
1 TTTTTATAA
52079777 TTTTTATGAA
1 TTTTTAT-AA
52079787 TTTTTTTATAA
1 --TTTTTATAA
52079798 TTTTTAT-A
1 TTTTTATAA
*
52079806 --TATATAA
1 TTTTTATAA
52079813 TTTTTATAA
1 TTTTTATAA
* *
52079822 GTTTAAT-A
1 TTTTTATAA
52079830 TTTTTATA
1 TTTTTATA
52079838 CTTCTAAAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 28
0.66 0.16 0.19
Matches are distributed among these distances:
6 4 0.04
7 1 0.01
8 18 0.19
9 46 0.47
10 13 0.13
11 8 0.08
12 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:52079801 original size:20 final size:21
Alignment explanation
Indices: 52079750--52079801 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
52079740 TATTATAATA
*
52079750 TTTTTATAA-TTTATTAGATT
1 TTTTTATAATTTTATGAGATT
* *
52079770 TTTCTAT-TTTTTATGA-ATT
1 TTTTTATAATTTTATGAGATT
52079789 TTTTTATAATTTT
1 TTTTTATAATTTT
52079802 TATATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTATAATTTTATGAGATT
Found at i:52084294 original size:30 final size:30
Alignment explanation
Indices: 52084260--52084510 Score: 167
Period size: 30 Copynumber: 8.4 Consensus size: 30
52084250 TCATCGACCA
*
52084260 ATGAAAAGGGATAGCT-TCGACTATCAAACT
1 ATGAAAAGGGAT-GCTGTCGACCATCAAACT
* * * *
52084290 ATGAAAAGGGATAGCT-CCGGCTATCAAATT
1 ATGAAAAGGGAT-GCTGTCGACCATCAAACT
* *
52084320 ATGAAAAGGGATGGTGAT-GACCATC-AACA
1 ATGAAAAGGGATGCTG-TCGACCATCAAACT
* * * *
52084349 ATGAAAAAGGATGGTGACGACCATCGAACT
1 ATGAAAAGGGATGCTGTCGACCATCAAACT
* * * * *
52084379 ATGAAAATGGATAGCT-TCGGCTATCGAATT
1 ATGAAAAGGGAT-GCTGTCGACCATCAAACT
* **
52084409 ATGAAAAGGGATGGTGAT-GACCATC-GGCT
1 ATGAAAAGGGATGCTG-TCGACCATCAAACT
* * *
52084438 ATGAAAAGGGATGGTGACGACCATCAAAAT
1 ATGAAAAGGGATGCTGTCGACCATCAAACT
* *
52084468 ATGGAAAGGGATAGCT-TCGACTATCAAACT
1 ATGAAAAGGGAT-GCTGTCGACCATCAAACT
*
52084498 ATGGAAAGGGATG
1 ATGAAAAGGGATG
52084511 GTAACAACCA
Statistics
Matches: 177, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
29 53 0.30
30 119 0.67
31 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGCTGTCGACCATCAAACT
Found at i:52084523 original size:89 final size:89
Alignment explanation
Indices: 52084251--52084512 Score: 355
Period size: 89 Copynumber: 2.9 Consensus size: 89
52084241 TATCGACGAT
* * * *
52084251 CATCGACCAATGAAAAGGGATAGCT-TCGACTATCAAACTATGAAAAGGGATAGCTCCGGCTATC
1 CATCGA-CAATGAAAAGGGAT-GGTGACGACCATCAAACTATGAAAAGGGATAGCTTCGGCTATC
52084315 AAATTATGAAAAGGGATGGTGATGAC
64 AAATTATGAAAAGGGATGGTGATGAC
* * * * *
52084341 CATCAACAATGAAAAAGGATGGTGACGACCATCGAACTATGAAAATGGATAGCTTCGGCTATCGA
1 CATCGACAATGAAAAGGGATGGTGACGACCATCAAACTATGAAAAGGGATAGCTTCGGCTATCAA
52084406 ATTATGAAAAGGGATGGTGATGAC
66 ATTATGAAAAGGGATGGTGATGAC
* * * * *
52084430 CATCGGCTATGAAAAGGGATGGTGACGACCATCAAAATATGGAAAGGGATAGCTTCGACTATCAA
1 CATCGACAATGAAAAGGGATGGTGACGACCATCAAACTATGAAAAGGGATAGCTTCGGCTATCAA
* *
52084495 ACTATGGAAAGGGATGGT
66 ATTATGAAAAGGGATGGT
52084513 AACAACCATC
Statistics
Matches: 150, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
88 2 0.01
89 143 0.95
90 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.21
Consensus pattern (89 bp):
CATCGACAATGAAAAGGGATGGTGACGACCATCAAACTATGAAAAGGGATAGCTTCGGCTATCAA
ATTATGAAAAGGGATGGTGATGAC
Found at i:52089895 original size:2 final size:2
Alignment explanation
Indices: 52089890--52089919 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52089880 TCAAGTACCC
52089890 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
52089920 GTATGTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52095689 original size:15 final size:15
Alignment explanation
Indices: 52095669--52095700 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52095659 CATTTCACTA
*
52095669 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
52095684 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
52095699 TT
1 TT
52095701 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:52098361 original size:98 final size:100
Alignment explanation
Indices: 52098247--52098450 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 100
52098237 ATGAATATAA
*
52098247 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATTTATTTGAGCCCC
1 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
*
52098312 -TTTTTTT-AAAAAAGAATAAATATCCATATGGAT
66 TTTTTTTTAAAAAAAGAATAAATATCCACATGGAT
52098345 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
1 ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
52098410 TTTTTTTTTAAAAAAAGAATAAATATCCACATGGAT
66 -TTTTTTTTAAAAAAAGAATAAATATCCACATGGAT
52098446 ATAAA
1 ATAAA
52098451 CAAAACATTT
Statistics
Matches: 101, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
98 64 0.63
100 7 0.07
101 30 0.30
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (100 bp):
ATAAAAATAGATAAACATATATAGATTATAAAATAGGTATTTAAAAATATATATATTTGAGCCCC
TTTTTTTTAAAAAAAGAATAAATATCCACATGGAT
Found at i:52098650 original size:4 final size:4
Alignment explanation
Indices: 52098641--52098716 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
52098631 ATATTTGTTT
* * * *
52098641 TAAA TAAA TAAA TAAA TAAA TAAA AACAA CAAA TATA TATA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA
* * *
52098690 -AAC TAAT TAAA AAAA TAAAA TAAA TAA
1 TAAA TAAA TAAA TAAA T-AAA TAAA TAA
52098717 TTACATTATG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
3 2 0.03
4 50 0.85
5 7 0.12
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:52098674 original size:25 final size:27
Alignment explanation
Indices: 52098646--52098716 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 27
52098636 TGTTTTAAAT
52098646 AAATAAATAAATAAATAAAAAC-AA-C
1 AAATAAATAAATAAATAAAAACTAATC
* * *
52098671 AAATATATATATAAATAAAAACTAATT
1 AAATAAATAAATAAATAAAAACTAATC
*
52098698 AAAAAAATAAAATAAATAA
1 AAATAAAT-AAATAAATAA
52098717 TTACATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 20 0.54
26 2 0.05
27 6 0.16
28 9 0.24
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (27 bp):
AAATAAATAAATAAATAAAAACTAATC
Found at i:52099130 original size:19 final size:21
Alignment explanation
Indices: 52099092--52099130 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
52099082 CCTTTTTTAA
*
52099092 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
52099113 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
52099131 CAGTAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:52099334 original size:23 final size:22
Alignment explanation
Indices: 52099291--52099348 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
52099281 AAAGGGTATC
* *
52099291 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52099312 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
52099335 TACATATCATATCT
1 TACAAATCATATCT
52099349 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52099351 original size:19 final size:19
Alignment explanation
Indices: 52099304--52099374 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 19
52099294 AAATTAAATC
*
52099304 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
52099324 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
52099346 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
52099367 TCTAAGAT
1 TCTAAGAT
52099375 CGCATATCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.20
21 17 0.39
22 7 0.16
23 11 0.25
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:52099364 original size:21 final size:21
Alignment explanation
Indices: 52099338--52099381 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
52099328 CTAAGATTAC
*
52099338 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATCGCAT
52099359 ATATCATATCTAAGATCGCAT
1 ATATCATATCTAAGATCGCAT
52099380 AT
1 AT
52099382 CCTCGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATATCATATCTAAGATCGCAT
Found at i:52112449 original size:42 final size:42
Alignment explanation
Indices: 52112403--52112606 Score: 338
Period size: 42 Copynumber: 4.9 Consensus size: 42
52112393 GCATTTTTGT
* *
52112403 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGACGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
52112445 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
52112487 AAAAAAA-GCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
* *
52112528 AGAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
*
52112570 AAGAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
52112607 TTTTTGTTTG
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 38 0.25
42 112 0.75
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG
Found at i:52112502 original size:83 final size:83
Alignment explanation
Indices: 52112403--52112603 Score: 339
Period size: 83 Copynumber: 2.4 Consensus size: 83
52112393 GCATTTTTGT
*
52112403 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGAACAT
1 AAAAAAA-GCCGCTAAAGAACATGTTCTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGAACAT
52112468 GTTCTTTAGAGGCGCTTAG
65 GTTCTTTAGAGGCGCTTAG
* * *
52112487 AAAAAAAGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGAGAAAAACGCCGCTAAAGAACATG
1 AAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGAACATG
52112552 TTCTTTAGAGGCGCTTAG
66 TTCTTTAGAGGCGCTTAG
*
52112570 AAGAAAACGCCGCTAAAGAACATGTTCTTTAGCG
1 AA-AAAAAGCCGCTAAAGAACATGTTCTTTAGCG
52112604 GCGTTTTTGT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 74 0.67
84 36 0.33
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (83 bp):
AAAAAAAGCCGCTAAAGAACATGTTCTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGAACATG
TTCTTTAGAGGCGCTTAG
Found at i:52113122 original size:21 final size:21
Alignment explanation
Indices: 52113087--52113145 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
52113077 TTAAATCTAT
52113087 CCCCATAACCCCTTAAAGCATAA
1 CCCC-TAA-CCCTTAAAGCATAA
52113110 CCCCTAACCCTTAAAGCATAA
1 CCCCTAACCCTTAAAGCATAA
* * *
52113131 CACTTAACCCCTAAA
1 CCCCTAACCCTTAAA
52113146 CTATAAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 26 0.79
22 3 0.09
23 4 0.12
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.19
Consensus pattern (21 bp):
CCCCTAACCCTTAAAGCATAA
Found at i:52113565 original size:115 final size:113
Alignment explanation
Indices: 52113364--52113584 Score: 345
Period size: 115 Copynumber: 1.9 Consensus size: 113
52113354 AAATCCCTGA
52113364 GCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTAG
1 GCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTAG
** ** *
52113429 GCTTAAATTTTTTTCGGCGCTTTCTCAACAACGCCGCTAAAGGCCTCG
66 GCTTAAATTTTTTTCAACGCTTGATCAAAAACGCCGCTAAAGGCCTCG
52113477 GCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTT
1 GCATTAGCGGCGCTTTATTGAAAACGCCGCTAAA--CCCCCGAAAGCTCAGAAAACGGCGTCGTT
* *
52113542 GGGCTT-AGTTTTTTTGCAACGCTTGATCAAAAACGCCGCTAAA
64 AGGCTTAAATTTTTTT-CAACGCTTGATCAAAAACGCCGCTAAA
52113585 CCTCCGAAAG
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
113 34 0.35
114 8 0.08
115 56 0.57
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (113 bp):
GCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTAG
GCTTAAATTTTTTTCAACGCTTGATCAAAAACGCCGCTAAAGGCCTCG
Found at i:52113762 original size:186 final size:187
Alignment explanation
Indices: 52113370--52113957 Score: 912
Period size: 186 Copynumber: 3.1 Consensus size: 187
52113360 CTGAGCATTA
* ** * *
52113370 GCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAA
1 GCGGCGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAA
* * * * *
52113435 ATTTTTTT-CGGCGCTTTC-TCAACAACGCCGCTAAAGGCCTCGGCATTAGCGGCGCTTTATTGA
66 TTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGCTAAA-GCCCCAGCATTAGCGGCGCATTATTGA
52113498 AAACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
129 AAACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
** *
52113557 GCAACGCTTGATCAAAAACGCCGCTAAACCTCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAA
1 GCGGCGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAA
* * *
52113622 TTTTTTTTGCGGCGCTTTCATAAAAATGCCGCTAAAGCCCCAGCATTATCGGTGCATTATTGAAA
66 TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTATTGAAA
52113687 ACGCCGCTAAA-CCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
131 ACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
* * *
52113743 GCGGCGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAA
1 GCGGCGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAA
* * * *
52113808 TTTTTTTTGCGGCGCTTTCATAAAAACGCCACTAAATCCCCAGCATTAGCGGCGTATTGTTGAAA
66 TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTATTGAAA
* *
52113873 ACGCCGCTAAAGCCCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
131 ACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
52113930 GCGGCGCTTGATCAAAAACGCCGCTAAA
1 GCGGCGCTTGATCAAAAACGCCGCTAAA
52113958 GCCCTCAGCA
Statistics
Matches: 366, Mismatches: 32, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
186 173 0.47
187 169 0.46
188 23 0.06
189 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (187 bp):
GCGGCGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAA
TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTATTGAAA
ACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
Found at i:52113769 original size:113 final size:113
Alignment explanation
Indices: 52113571--52113775 Score: 333
Period size: 113 Copynumber: 1.8 Consensus size: 113
52113561 CGCTTGATCA
* * *
52113571 AAAACGCCGCTAAACCTCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAATTTTTTTTGCGGCG
1 AAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTTGCGGCG
* *
52113636 CTTTCATAAAAATGCCGCTAAAGCCCCAGCATTATCGGTGCATTATTG
66 CTTTCATAAAAACGCCGCTAAACCCCCAGCATTATCGGTGCATTATTG
52113684 AAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT-AGTTTTTTTGCGGC
1 AAAACGCCGCTAAA-CCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTTGCGGC
52113748 GCTTT-ATTAAAAACGCCGCTAAACCCCC
65 GCTTTCA-TAAAAACGCCGCTAAACCCCC
52113776 GAAAGCTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
112 1 0.01
113 51 0.60
114 33 0.39
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (113 bp):
AAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTTGCGGCG
CTTTCATAAAAACGCCGCTAAACCCCCAGCATTATCGGTGCATTATTG
Found at i:52113796 original size:72 final size:73
Alignment explanation
Indices: 52113678--52113848 Score: 256
Period size: 73 Copynumber: 2.3 Consensus size: 73
52113668 TATCGGTGCA
* *
52113678 TTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTT-AGTTTTTT
1 TTATTAAAAACGCCGCTAAA-CCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAAGTTTTTT
52113742 TGCGGCGCT
65 TGCGGCGCT
* *
52113751 TTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTTTTTTT
1 TTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
52113816 GCGGCGCT
66 GCGGCGCT
* *
52113824 TTCA-TAAAAACGCCACTAAATCCCC
1 TT-ATTAAAAACGCCGCTAAACCCCC
52113849 AGCATTAGCG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 33 0.37
73 56 0.62
74 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (73 bp):
TTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAAGTTTTTTT
GCGGCGCT
Found at i:52113929 original size:115 final size:111
Alignment explanation
Indices: 52113757--52114189 Score: 598
Period size: 115 Copynumber: 3.8 Consensus size: 111
52113747 CGCTTTATTA
*
52113757 AAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTTTTTTTGCGGCG
1 AAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAA-TTTTTTTGCGGCG
*
52113822 CTTTCATAAAAACGCCACTAAATCCCCAGCATTAGCGGCGTATTGTTG
65 C-TTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTG
* *
52113870 AAAACGCCGCTAAAGCCCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGGC
1 AAAACGCCGCTAAA-CCCC-CGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAATTTTTTTGCGGC
* * * * *
52113935 GCTTGATCAAAAACGCCGCTAAAGCCCTCAGCATTAGCGACGCT-TTATTA
64 GCTTCAT-AAAAACGCCGCTAAATCCC-CAGCATTAGCGGCG-TATTGTTG
*
52113985 AAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTAATTTTTTTTGCGGC
1 AAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG-CTTAA-TTTTTTTGCGGC
52114050 GCTTTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTG
64 GC-TTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTG
** * * * *
52114099 AAAACGTTGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACG
1 AAAACGCCGCTAAA-CCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAATTTTTTTGCGGCG
* *
52114164 CTTGATAAAAACGCCGCTAAACCCCC
65 CTTCATAAAAACGCCGCTAAATCCCC
52114190 GAAAGCTCAG
Statistics
Matches: 284, Mismatches: 26, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
112 23 0.08
113 59 0.21
114 74 0.26
115 123 0.43
116 5 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (111 bp):
AAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGCTTAATTTTTTTGCGGCGC
TTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTG
Found at i:52114144 original size:228 final size:227
Alignment explanation
Indices: 52113747--52114184 Score: 797
Period size: 228 Copynumber: 1.9 Consensus size: 227
52113737 TTTTTTGCGG
52113747 CGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTTT
1 CGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTTT
52113812 TTTTGCGGCGCTTTCATAAAAACGCCACTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACGC
66 TTTTGCGGCGCTTTCATAAAAACGCCACTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACGC
* * *
52113877 CGCTAAAGCCCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGGCGCTTGAT
131 CGCTAAAGCCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGAT
52113942 CAAAAACGCCGCTAAAGCCCTCAGCATTAGCGA
196 -AAAAACGCCGCTAAAGCCCTCAGCATTAGCGA
52113975 CGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTAATTT
1 CGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG-TTTAATTT
*
52114040 TTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACG
65 TTTTTGCGGCGCTTTCATAAAAACGCCACTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACG
**
52114105 TTGCTAAA-CCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGA
130 CCGCTAAAGCCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGA
52114169 TAAAAACGCCGCTAAA
195 TAAAAACGCCGCTAAA
52114185 CCCCCGAAAG
Statistics
Matches: 203, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
227 15 0.07
228 110 0.54
229 78 0.38
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (227 bp):
CGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTTT
TTTTGCGGCGCTTTCATAAAAACGCCACTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAACGC
CGCTAAAGCCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGAT
AAAAACGCCGCTAAAGCCCTCAGCATTAGCGA
Found at i:52114177 original size:301 final size:298
Alignment explanation
Indices: 52113353--52114373 Score: 1003
Period size: 300 Copynumber: 3.4 Consensus size: 298
52113343 TAAATAAATT
* *
52113353 TAAATCCCTGAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAA-CCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
* * * * * *
52113417 CGGCGTCGTTAGGCTTAAATTTTTTT-CGGCGCTTTC-TCAACAACGCCGCTAAAGGCCTCGGCA
66 CGGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGCTAAA-CCCCCAGCA
* ** *
52113480 TTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
129 TTAGCGGCG-TTTGTTGAAAACGTTGCTAAA-CCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGG
52113545 CTTAGTTTTTTTGCAACGCTTGATCAAAAACGCCGCTAAACCTCCGAAAGCTCAGAAAACGGCGT
192 CTTAGTTTTTTTGCAACGCTTGAT-AAAAACGCCGCTAAACC-CCGAAAGCTCAGAAAACGGCGT
*
52113610 CGTTGGGTTTAATTTTTTTTGCGGCGCTTTCATAAAAATGCCGC
255 CGTTGGGTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
* * *
52113654 TAAAGCCC-CAGCATTATCGGTGCATTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
*
52113718 CGGCGTCGTTGGGCTT-AGTTTTTTTGCGGCGCTTT-ATTAAAAACGCCGCTAAACCCCCGAAAG
66 CGGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCA-TAAAAACGCCGCTAAACCCCC---AG
* * **** **** * *** *
52113781 C-TAAGAAAACGGCGTCGTTGGGTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGC-CACTAAA
127 CATTAG----CGGCGT--TT--GTTGAA--AACGTTGCTAAAC--CCCCCAAAA-GCTCA-GAAA
* ** * * * * * * *
52113844 TCCCCAG-CATTAGCGGC---GTATTGTTGAAAACGC-CGCT--AAA-G-C-C----CCTCGAAA
178 ACGGC-GTCGTT-G-GGCTTAGTTTTTTTG-CAACGCTTGATAAAAACGCCGCTAAACCCCGAAA
* * *
52113895 GCTCAGAAAACGGCGTCGTTGGGCTT-AGTTTTTTTGCGGCGC-TTGATCAAAAACGCCGC
239 GCTCAGAAAACGGCGTCGTTGGGTTTAATTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGC
* * *
52113954 TAAAGCCCTCAGCATTAGCGACGCTTTATTAAAAACGCCGCTAAA-CCCCCGAAAGCTAAGAAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
* *
52114018 CGGCGTCGTTGGGTTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGCAT
66 CGGCGTCGTTGGG-CTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAACCCCCAGCAT
52114083 TAGCGGCGTATTGTTGAAAACGTTGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCT
130 TAGCGGCGT-TTGTTGAAAACGTTGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCT
* *
52114148 TAGTTTTTTTGCGACGCTTGATAAAAACGCCGCTAAACCCCCGAAAGCTCAGTAAACGGCGTCGT
194 TAGTTTTTTTGCAACGCTTGATAAAAACGCCGCTAAA-CCCCGAAAGCTCAGAAAACGGCGTCGT
*
52114213 TGAGTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
258 TGGGTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
* * **
52114254 TAAATCCTTCAAAATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
* * * * * *
52114319 CGGCGTCGTTTGGCTTAGTTTTTTTAGCGGCGTTTTTTATTAAAACGCCGCTAAA
66 CGGCGTCGTTGGGCTTAATTTTTTTTGCGGCG-CTTTCATAAAAACGCCGCTAAA
52114374 AACCTGTTTT
Statistics
Matches: 570, Mismatches: 99, Indels: 102
0.74 0.13 0.13
Matches are distributed among these distances:
286 3 0.01
287 2 0.00
288 14 0.02
289 16 0.03
291 8 0.01
292 1 0.00
293 6 0.01
294 1 0.00
295 2 0.00
296 6 0.01
299 37 0.06
300 191 0.34
301 180 0.32
302 44 0.08
303 3 0.01
305 1 0.00
306 6 0.01
307 3 0.01
308 1 0.00
309 7 0.01
310 1 0.00
311 2 0.00
312 15 0.03
313 15 0.03
314 2 0.00
315 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (298 bp):
TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCCGAAAGCTCAGAAAA
CGGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAACCCCCAGCATT
AGCGGCGTTTGTTGAAAACGTTGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
GTTTTTTTGCAACGCTTGATAAAAACGCCGCTAAACCCCGAAAGCTCAGAAAACGGCGTCGTTGG
GTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
Found at i:52114207 original size:186 final size:187
Alignment explanation
Indices: 52113971--52114343 Score: 599
Period size: 186 Copynumber: 2.0 Consensus size: 187
52113961 CTCAGCATTA
* *
52113971 GCGACGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTA
1 GCGACGCTTGATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGAG-TTTA
** *
52114036 ATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCC-CCAGCATTAGCGGCG-TATTGTTG
65 ATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCTCCAAAATTAGCGGCGCT-TTATTG
**
52114099 AAAACGTTGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
129 AAAACGCCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
* *
52114158 GCGACGCTTGA-TAAAAACGCCGCTAAACCCCCGAAAGCTCAGTAAACGGCGTCGTTGAGTTTAA
1 GCGACGCTTGATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGAGTTTAA
*
52114222 TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCTTCAAAATTAGCGGCGCTTTATTGAA
66 TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCTCCAAAATTAGCGGCGCTTTATTGAA
* *
52114287 AACGCCGCTAAACCCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAGTTTTTTT
131 AACGCCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
52114344 AGCGGCGTTT
Statistics
Matches: 172, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
185 44 0.26
186 117 0.68
187 11 0.06
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (187 bp):
GCGACGCTTGATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGAGTTTAA
TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCTCCAAAATTAGCGGCGCTTTATTGAA
AACGCCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT
Found at i:52114226 original size:71 final size:74
Alignment explanation
Indices: 52114107--52114257 Score: 218
Period size: 71 Copynumber: 2.1 Consensus size: 74
52114097 TGAAAACGTT
* * *
52114107 GCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTT-AGTTTTTTTGCGACGC-TTGAT
1 GCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGAGCTTAATTTTTTTTGCGACGCTTTCAT
52114170 AAAAACGCC
66 AAAAACGCC
* * * *
52114179 GCTAAA-CCCCCGAAAGCTCAGTAAACGGCGTCGTTGAGTTTAATTTTTTTTGCGGCGCTTTCAT
1 GCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGAGCTTAATTTTTTTTGCGACGCTTTCAT
52114243 AAAAACGCC
66 AAAAACGCC
52114252 GCTAAA
1 GCTAAA
52114258 TCCTTCAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
71 31 0.44
72 20 0.29
73 19 0.27
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (74 bp):
GCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGAGCTTAATTTTTTTTGCGACGCTTTCAT
AAAAACGCC
Found at i:52114228 original size:414 final size:415
Alignment explanation
Indices: 52113560--52114350 Score: 1302
Period size: 414 Copynumber: 1.9 Consensus size: 415
52113550 TTTTTTTGCA
* *
52113560 ACGCTTGATCAAAAACGCCGCTAAACCTCCGAAAGCTCAGAAAACGGCGTCGTTGGGTTTAATTT
1 ACGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTT
* * *
52113625 TTTTTGCGGCGCTTTCATAAAAATGCCGCTAAAGCCCCAGCATTATCGGTGCATTATTGAAAACG
66 TTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTATTGAAAACG
* * *
52113690 CCGCTAAACCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGGCGCTTTAT
131 CCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGAT
*
52113755 TAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTTTTTTTGCGG
196 TAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGAGTTTAATTTTTTTTGCGG
** *
52113820 CGCTTTCATAAAAACGCCACTAAATCC-CCAGCATTAGCGGCG-TATTGTTGAAAACGCCGCTAA
261 CGCTTTCATAAAAACGCCACTAAATCCTCCAAAATTAGCGGCGCT-TTATTGAAAACGCCGCTAA
*
52113883 AGCCCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTT-GCGGCGCTTGATCAAAA
325 A-CCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTAGCGGCGCTTGATCAAAA
52113947 ACGCCGCTAAAGCCCTCAGCATTAGCG
389 ACGCCGCTAAAGCCCTCAGCATTAGCG
* *
52113974 ACGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTTAATT
1 ACGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGG-TTTAATT
* * *
52114039 TTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAGCATTAGCGGCGTATTGTTGAAAAC
65 TTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTATTGAAAAC
**
52114104 GTTGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGA
130 GCCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGA
* *
52114169 -TAAAAACGCCGCTAAACCCCCGAAAGCTCAGTAAACGGCGTCGTTGAGTTTAATTTTTTTTGCG
195 TTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGAGTTTAATTTTTTTTGCG
* *
52114233 GCGCTTTCATAAAAACGCCGCTAAATCCTTCAAAATTAGCGGCGCTTTATTGAAAACGCCGCTAA
260 GCGCTTTCATAAAAACGCCACTAAATCCTCCAAAATTAGCGGCGCTTTATTGAAAACGCCGCTAA
*
52114298 ACCCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAGTTTTTTTAGCGGCG
325 ACCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTAGCGGCG
52114351 TTTTTTATTA
Statistics
Matches: 348, Mismatches: 25, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
414 184 0.53
415 163 0.47
416 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (415 bp):
ACGCTTGATCAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGGGTTTAATTT
TTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCCAGCATTAGCGGCGCATTATTGAAAACG
CCGCTAAACCCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTGCGACGCTTGAT
TAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCGTCGTTGAGTTTAATTTTTTTTGCGG
CGCTTTCATAAAAACGCCACTAAATCCTCCAAAATTAGCGGCGCTTTATTGAAAACGCCGCTAAA
CCCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTTTTTAGCGGCGCTTGATCAAAAAC
GCCGCTAAAGCCCTCAGCATTAGCG
Found at i:52118419 original size:7 final size:7
Alignment explanation
Indices: 52118407--52118448 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
52118397 ATGGATCCTA
52118407 ATATTTT
1 ATATTTT
52118414 ATATTTT
1 ATATTTT
52118421 ATATTTT
1 ATATTTT
52118428 ATATTTT
1 ATATTTT
52118435 ATATTTT
1 ATATTTT
52118442 A-ATTTT
1 ATATTTT
52118448 A
1 A
52118449 GGGATAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATATTTT
Done.