Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009430.1 Hibiscus syriacus cultivar Beakdansim tig00113413_pilon, whole genome shotgun sequence
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: 336544
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:1294 original size:13 final size:13
Alignment explanation
Indices: 1276--1301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1266 TTCTTCTTTG
1276 ACTTTTGCACTTC
1 ACTTTTGCACTTC
1289 ACTTTTGCACTTC
1 ACTTTTGCACTTC
1302 TTTTTGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
ACTTTTGCACTTC
Found at i:11049 original size:10 final size:9
Alignment explanation
Indices: 11033--11092 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 9
11023 TAAACTTCTC
11033 TTTTTCTTT
1 TTTTTCTTT
11042 TCTTTTCTTT
1 T-TTTTCTTT
**
11052 TTTTT-TGA
1 TTTTTCTTT
11060 TTTTTCTATT
1 TTTTTCT-TT
11070 CTTTTGTCTTT
1 -TTTT-TCTTT
11081 TTCTTTCTTT
1 TT-TTTCTTT
11091 TT
1 TT
11093 GCACTCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.15
9 6 0.15
10 18 0.44
11 8 0.20
12 3 0.07
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11074 original size:18 final size:18
Alignment explanation
Indices: 11044--11093 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
11034 TTTTCTTTTC
*
11044 TTTTCTTTTTTTTTG-AT
1 TTTTCTTTCTTTTTGTAT
*
11061 TTTTCTATTC-TTTTGTCT
1 TTTTCT-TTCTTTTTGTAT
11079 TTTTCTTTCTTTTTG
1 TTTTCTTTCTTTTTG
11094 CACTCCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTTCTTTCTTTTTGTAT
Found at i:11721 original size:13 final size:13
Alignment explanation
Indices: 11703--11727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11693 GAAGAGATGA
11703 GATGCCTACAAAT
1 GATGCCTACAAAT
11716 GATGCCTACAAA
1 GATGCCTACAAA
11728 CTTACCCTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (13 bp):
GATGCCTACAAAT
Found at i:14862 original size:19 final size:19
Alignment explanation
Indices: 14831--14897 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
14821 AAATTGGAGT
14831 AAAAA-AAGAAAGAAAATAC
1 AAAAAGAAG-AAGAAAATAC
*
14850 AAAAAGAAGAAGAAAATTC
1 AAAAAGAAGAAGAAAATAC
* *
14869 AGAAGAAGAA-AAGAAGAAAAG
1 A-AA-AAGAAGAAGAA-AATAC
14890 AAAAAGAA
1 AAAAAGAA
14898 ATTCAAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 20 0.50
20 12 0.30
21 8 0.20
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAAAGAAGAAGAAAATAC
Found at i:22574 original size:8 final size:8
Alignment explanation
Indices: 22561--22616 Score: 80
Period size: 8 Copynumber: 7.0 Consensus size: 8
22551 TTTTTTTTTT
22561 CAAAAAAA
1 CAAAAAAA
22569 CAAAAAAA
1 CAAAAAAA
22577 C-AAAAAA
1 CAAAAAAA
22584 CAAAAAAA
1 CAAAAAAA
22592 -AAAAAAA
1 CAAAAAAA
22599 GGCAAAAAAA
1 --CAAAAAAA
22609 CAAAAAAA
1 CAAAAAAA
22617 GAGCCAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.32
8 23 0.52
10 7 0.16
ACGTcount: A:0.86, C:0.11, G:0.04, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:22613 original size:17 final size:15
Alignment explanation
Indices: 22563--22615 Score: 79
Period size: 15 Copynumber: 3.4 Consensus size: 15
22553 TTTTTTTTCA
22563 AAAAAACAAAAAAAC
1 AAAAAACAAAAAAAC
*
22578 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAC
22593 AAAAAAGGCAAAAAAAC
1 AAAAAA--CAAAAAAAC
22610 AAAAAA
1 AAAAAA
22616 AGAGCCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAC
Found at i:22615 original size:7 final size:7
Alignment explanation
Indices: 22563--22596 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
22553 TTTTTTTTCA
22563 AAAAAAC
1 AAAAAAC
22570 AAAAAAAC
1 -AAAAAAC
22578 AAAAAAC
1 AAAAAAC
22585 AAAAAA-
1 AAAAAAC
22591 AAAAAA
1 AAAAAA
22597 AAGGCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:22634 original size:20 final size:20
Alignment explanation
Indices: 22561--22627 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
22551 TTTTTTTTTT
22561 CAAAAAAACAAAAAAACAA--
1 CAAAAAAACAAAAAAA-AAGC
* * *
22580 AAAACAAAAAAAAAAAAAAGG
1 CAAA-AAAACAAAAAAAAAGC
*
22601 CAAAAAAACAAAAAAAGAGC
1 CAAAAAAACAAAAAAAAAGC
22621 CAAAAAA
1 CAAAAAA
22628 GCCAAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 5 0.13
20 31 0.79
21 3 0.08
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (20 bp):
CAAAAAAACAAAAAAAAAGC
Found at i:34431 original size:21 final size:20
Alignment explanation
Indices: 34405--34469 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
34395 TTTAAACTTC
34405 TCTTTTTCTTTTCTTTTCTTT
1 TCTTTTTCTTTT-TTTTCTTT
** *
34426 TCTTTTTTCTGATTTTTCTAT
1 TC-TTTTTCTTTTTTTTCTTT
34447 TCTTTTGTCTTTTTCTTTCTTT
1 TCTTTT-TCTTTTT-TTTCTTT
34469 T
1 T
34470 TGCACTCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.11
21 16 0.46
22 15 0.43
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (20 bp):
TCTTTTTCTTTTTTTTCTTT
Found at i:34466 original size:31 final size:31
Alignment explanation
Indices: 34407--34466 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
34397 TAAACTTCTC
* *
34407 TTTTTCTTTTCTTTTCTTTTCTTTTTTCTGA
1 TTTTTCTATTCTTTTCTTTTCTTCTTTCTGA
*
34438 TTTTTCTATTCTTTTGTCTTT-TTCTTTCT
1 TTTTTCTATTCTTTTCT-TTTCTTCTTTCT
34467 TTTTGCACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (31 bp):
TTTTTCTATTCTTTTCTTTTCTTCTTTCTGA
Found at i:39711 original size:15 final size:16
Alignment explanation
Indices: 39686--39718 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
39676 GAATCTACTT
39686 TATATTGCTTATATAA
1 TATATTGCTTATATAA
39702 TATA-TGCTTATATAA
1 TATATTGCTTATATAA
39717 TA
1 TA
39719 CATTTCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TATATTGCTTATATAA
Found at i:48960 original size:15 final size:15
Alignment explanation
Indices: 48929--48969 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
48919 ACAACAAAAG
*
48929 AAACAAAAAG-GGAA
1 AAACAAAAAGAAGAA
48943 AAA-AAGAAAGAAGAA
1 AAACAA-AAAGAAGAA
48958 AAACAAAAAGAA
1 AAACAAAAAGAA
48970 AAAGACTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 2 0.09
14 7 0.30
15 12 0.52
16 2 0.09
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (15 bp):
AAACAAAAAGAAGAA
Found at i:49207 original size:16 final size:16
Alignment explanation
Indices: 49173--49221 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
49163 GTAAGTTATC
* * *
49173 TTCACTTTCTTACTAT
1 TTCATTTTCTTATTCT
49189 TTCATTTTCTTATTCT
1 TTCATTTTCTTATTCT
49205 TTCATCTATTCTTATTC
1 TTCAT-T-TTCTTATTC
49222 CATTACCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTTTCTTATTCT
Found at i:56856 original size:74 final size:74
Alignment explanation
Indices: 56746--56894 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
56736 ATACAAGATA
56746 AAGCTCATTAAAGCACTTTTAATGTATGGGTAGAAATATCAGAAATATCCGAG-TATCGTGATAT
1 AAGCTCATTAAAGCACTTTTAATGTATGGGTAGAAATATCAGAAATATCCGAGTTATCGTGATAT
56810 ACATCTTTG
66 ACATCTTTG
56819 AAGCTCATTAAAGCACTTTTAAATGTATGGGTAGAAATATCAGAAATATCCGAGTTATCGTGATA
1 AAGCTCATTAAAGCACTTTT-AATGTATGGGTAGAAATATCAGAAATATCCGAGTTATCGTGATA
56884 TACATCTTTG
65 TACATCTTTG
56894 A
1 A
56895 TATGTTCATT
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 20 0.27
74 33 0.45
75 21 0.28
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (74 bp):
AAGCTCATTAAAGCACTTTTAATGTATGGGTAGAAATATCAGAAATATCCGAGTTATCGTGATAT
ACATCTTTG
Found at i:59605 original size:13 final size:14
Alignment explanation
Indices: 59577--59627 Score: 75
Period size: 14 Copynumber: 3.5 Consensus size: 14
59567 AAATTTTGGC
*
59577 TTTTTTGGCTCTTTT
1 TTTTTTTGC-CTTTT
59592 TTTTTTTGCCTTTT
1 TTTTTTTGCCTTTT
59606 TTTTTTTGCCTTTT
1 TTTTTTTGCCTTTT
59620 TTGTTTTT
1 TT-TTTTT
59628 TTGTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (14 bp):
TTTTTTTGCCTTTT
Found at i:59634 original size:15 final size:14
Alignment explanation
Indices: 59588--59637 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
59578 TTTTTGGCTC
**
59588 TTTTTTTTTTTGCC
1 TTTTTTTTTTTGTT
59602 TTTTTTTTTTTGCCTT
1 TTTTTTTTTTTG--TT
59618 TTTTGTTTTTTTGTT
1 TTTT-TTTTTTTGTT
59633 TTTTT
1 TTTTT
59638 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 13 0.42
15 6 0.19
16 4 0.13
17 8 0.26
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:65779 original size:16 final size:16
Alignment explanation
Indices: 65758--65789 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
65748 TCTTCCACCA
65758 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
65774 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
65790 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:67635 original size:27 final size:24
Alignment explanation
Indices: 67586--67634 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
67576 TTGTTTGAAC
67586 TTGGTGGTCGGTAGGATCACATCA
1 TTGGTGGTCGGTAGGATCACATCA
67610 TTGGTGGTCGGTAGGATCACATCA
1 TTGGTGGTCGGTAGGATCACATCA
67634 T
1 T
67635 CCCCCCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (24 bp):
TTGGTGGTCGGTAGGATCACATCA
Found at i:69440 original size:16 final size:14
Alignment explanation
Indices: 69419--69484 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 14
69409 TTTGAACTTC
69419 TCTTTTTCTTTCCTTT
1 TCTTTTT-TTT-CTTT
*
69435 TC-TTTTCTTCTTT
1 TCTTTTTTTTCTTT
69448 TCTTCTTTTCTTCTTT
1 TCTT-TTTT-TTCTTT
* *
69464 TCTTCTTTTTCTCT
1 TCTTTTTTTTCTTT
69478 TCTTTTT
1 TCTTTTT
69485 GCACTCCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 6 0.14
14 14 0.33
15 10 0.24
16 12 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTTTTTCTTT
Found at i:69445 original size:8 final size:8
Alignment explanation
Indices: 69434--69472 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
69424 TTCTTTCCTT
69434 TTCTTTTC
1 TTCTTTTC
69442 TTCTTTTC
1 TTCTTTTC
69450 TTCTTTTC
1 TTCTTTTC
69458 TTCTTTTC
1 TTCTTTTC
69466 TTCTTTT
1 TTCTTTT
69473 TCTCTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:69453 original size:11 final size:11
Alignment explanation
Indices: 69419--69481 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
69409 TTTGAACTTC
*
69419 TCTTTTTCTTT
1 TCTTCTTCTTT
*
69430 CCTT-TTCTTT
1 TCTTCTTCTTT
69440 TCTTCTT-TTCT
1 TCTTCTTCTT-T
69451 TCTTTTCTTCTTT
1 TC--TTCTTCTTT
69464 TCTTCTT-TTT
1 TCTTCTTCTTT
69474 CTCTTCTT
1 -TCTTCTT
69482 TTTGCACTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
10 14 0.32
11 20 0.45
13 8 0.18
14 2 0.05
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TCTTCTTCTTT
Found at i:69478 original size:8 final size:7
Alignment explanation
Indices: 69432--69483 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 7
69422 TTTTCTTTCC
69432 TTTTCTT
1 TTTTCTT
69439 TTCTTCTT
1 TT-TTCTT
69447 TTCTTCTT
1 TT-TTCTT
69455 TTCTTCTT
1 TT-TTCTT
69463 TTCTTCTT
1 TT-TTCTT
69471 TTTCTCTT
1 TTT-TCTT
69479 CTTTT
1 -TTTT
69484 TGCACTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 3 0.07
8 36 0.86
9 3 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTCTT
Found at i:72759 original size:23 final size:23
Alignment explanation
Indices: 72703--72759 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
72693 GAATTGTTGA
*
72703 TGAGTGCTTCCAACTTTTCTTTTT
1 TGAGTGCTTTCAAC-TTTCTTTTT
**
72727 CAAGTGCTTTCAA-TTTCTTCTTT
1 TGAGTGCTTTCAACTTTCTT-TTT
72750 TGAGTGCTTT
1 TGAGTGCTTT
72760 TGTTTTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 6 0.22
23 11 0.41
24 10 0.37
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (23 bp):
TGAGTGCTTTCAACTTTCTTTTT
Found at i:89659 original size:5 final size:5
Alignment explanation
Indices: 89649--89722 Score: 52
Period size: 5 Copynumber: 15.8 Consensus size: 5
89639 GAACTTCTCT
* **
89649 TTTTC TTTTC TTTTC TTTTC TTCTTC CTTTC --TTC TTTTC TGAT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
89697 TCTTC -TTT- TTGTC TTTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
89723 TGCACTCAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.68
6 4 0.08
ACGTcount: A:0.01, C:0.22, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:89700 original size:19 final size:18
Alignment explanation
Indices: 89642--89724 Score: 68
Period size: 18 Copynumber: 4.6 Consensus size: 18
89632 TCTTTTTGAA
89642 CTTCTCTTTT-TCTTTTCT
1 CTTCT-TTTTGTCTTTTCT
*
89660 TTTCTTTTCT-TCTTCCTT-T
1 CTTCTTTT-TGTCTT--TTCT
89679 CTTCTTTTCTGAT-TTTTCT
1 CTTCTTTT-TG-TCTTTTCT
89698 CTTCTTTTTGTCTTTTCT
1 CTTCTTTTTGTCTTTTCT
89716 -TTCTTTTTG
1 CTTCTTTTTG
89725 CACTCAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
17 13 0.23
18 19 0.34
19 19 0.34
20 4 0.07
21 1 0.02
ACGTcount: A:0.01, C:0.23, G:0.04, T:0.72
Consensus pattern (18 bp):
CTTCTTTTTGTCTTTTCT
Found at i:91666 original size:13 final size:11
Alignment explanation
Indices: 91625--91709 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
91615 ACAATCTGTC
91625 CATCACCATTAT
1 CATCACCA-TAT
*
91637 CA-CGCCTATAT
1 CATCACC-ATAT
91648 CATCACCATAGT
1 CATCACCATA-T
91660 CCATCACCATTAT
1 -CATCACCA-TAT
*
91673 CA-CGCCTATAT
1 CATCACC-ATAT
91684 CATCACCATATT
1 CATCACCATA-T
91696 CCATCACCATAT
1 -CATCACCATAT
91708 CA
1 CA
91710 CGCCAATAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:91669 original size:36 final size:36
Alignment explanation
Indices: 91622--91723 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
91612 GATACAATCT
91622 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
91658 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
91694 TTCCATCACCA-TATCACGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
91724 TCCTTCCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 17 0.27
36 46 0.73
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.26
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:91738 original size:33 final size:34
Alignment explanation
Indices: 91623--91739 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 34
91613 ATACAATCTG
* *
91623 TCCATCACCATTATCACGCCTATATCATCACCAT
1 TCCATCACCATTATCACGCCAATAACATCACCAT
* *
91657 AGTCCATCACCATTATCACGCCTATATCATCACCATAT
1 --TCCATCACCATTATCACGCCAATAACATCACC--AT
91695 TCCATCACCA-TATCACGCCAATAACATCATCC-T
1 TCCATCACCATTATCACGCCAATAACATCA-CCAT
*
91728 TCCATTACCATT
1 TCCATCACCATT
91740 TCATCACCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
33 10 0.14
34 1 0.01
35 17 0.23
36 44 0.59
38 2 0.03
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (34 bp):
TCCATCACCATTATCACGCCAATAACATCACCAT
Found at i:91757 original size:33 final size:33
Alignment explanation
Indices: 91623--91762 Score: 88
Period size: 36 Copynumber: 4.1 Consensus size: 33
91613 ATACAATCTG
* * *
91623 TCCATCACCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACACCAATAACATCATCC-T
* * *
91657 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACACCAATAACATCATCC---T
*
91695 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACACCAATAACATCATCCT
* * *
91728 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CACCAATAACATCATCCT
91761 TC
1 TC
91763 ATTCATCAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.07
35 17 0.18
36 44 0.47
38 2 0.02
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.30
Consensus pattern (33 bp):
TCCATCACCATATCACACCAATAACATCATCCT
Found at i:95688 original size:13 final size:13
Alignment explanation
Indices: 95670--95729 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
95660 ACGCCTATAT
*
95670 CATCACCATAGTC
1 CATCACCATATTC
*
95683 CATCACCAT-TTT
1 CATCACCATATTC
*
95695 CA-CGCC-TATAT-
1 CATCACCATAT-TC
95706 CATCACCATATTC
1 CATCACCATATTC
95719 CATCACCATAT
1 CATCACCATAT
95730 CACGCCAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.16
12 8 0.21
13 23 0.61
ACGTcount: A:0.30, C:0.37, G:0.03, T:0.30
Consensus pattern (13 bp):
CATCACCATATTC
Found at i:95691 original size:36 final size:36
Alignment explanation
Indices: 95644--95745 Score: 161
Period size: 36 Copynumber: 2.9 Consensus size: 36
95634 GATACAAACT
95644 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
95680 GTCCATCACCATTTTCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
95716 TTCCATCACCA-TATCACGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
95746 TCCTTCCATT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 16 0.26
36 45 0.74
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.27
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:95779 original size:33 final size:33
Alignment explanation
Indices: 95716--95780 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
95706 CATCACCATA
*
95716 TTCCATCACCATATCACGCCAATAACATCATCC
1 TTCCATCACCATATCACACCAATAACATCATCC
* * *
95749 TTCCATTACCATTTCATCACCATTAA-ATCATC
1 TTCCATCACCATATCA-CACCAATAACATCATC
95781 ATTCATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.32, C:0.35, G:0.02, T:0.31
Consensus pattern (33 bp):
TTCCATCACCATATCACACCAATAACATCATCC
Found at i:102332 original size:19 final size:20
Alignment explanation
Indices: 102310--102373 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
102300 TTTGAACTTC
102310 TCTTTTTCTT-TTCTTT-TCT
1 TCTTTTTCTTATT-TTTCTCT
102329 TC-TTTTCTTATTTTTCTCT
1 TCTTTTTCTTATTTTTCTCT
* * *
102348 TC-TTTTATGATTTTTGTCT
1 TCTTTTTCTTATTTTTCTCT
102367 TCTTTTT
1 TCTTTTT
102374 GCACTCCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 10 0.26
19 25 0.64
20 4 0.10
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (20 bp):
TCTTTTTCTTATTTTTCTCT
Found at i:108152 original size:20 final size:20
Alignment explanation
Indices: 108127--108178 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
108117 AGGTAGCTAG
108127 AAGTAGCTGGAAGAGTACCT
1 AAGTAGCTGGAAGAGTACCT
*
108147 AAGTAGCTGAAAGAGTACCT
1 AAGTAGCTGGAAGAGTACCT
*
108167 AAG-AGCTAGAAG
1 AAGTAGCTGGAAG
108179 CATGTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.40, C:0.13, G:0.29, T:0.17
Consensus pattern (20 bp):
AAGTAGCTGGAAGAGTACCT
Found at i:108871 original size:23 final size:25
Alignment explanation
Indices: 108845--108899 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
108835 AAATGCAGCA
108845 AAGAAAATCAAAGCACTC-AAAA-G
1 AAGAAAATCAAAGCACTCAAAAAGG
* *
108868 AAGAAATTGAAAGCACTCAAAAAGG
1 AAGAAAATCAAAGCACTCAAAAAGG
108893 AAGAAAA
1 AAGAAAA
108900 AGAAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 4 0.15
25 7 0.26
ACGTcount: A:0.62, C:0.13, G:0.16, T:0.09
Consensus pattern (25 bp):
AAGAAAATCAAAGCACTCAAAAAGG
Found at i:117869 original size:20 final size:20
Alignment explanation
Indices: 117821--117877 Score: 96
Period size: 21 Copynumber: 2.8 Consensus size: 20
117811 ATCTTCATTT
117821 AAATCATGTATTTTCATAAA
1 AAATCATGTATTTTCATAAA
*
117841 AATATCATGTATTTTCATCAA
1 AA-ATCATGTATTTTCATAAA
117862 AAATCATGTATTTTCA
1 AAATCATGTATTTTCA
117878 AAGGGGTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATCATGTATTTTCATAAA
Found at i:120841 original size:16 final size:16
Alignment explanation
Indices: 120820--120851 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
120810 TCTTCCACCA
120820 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
120836 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
120852 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:122962 original size:5 final size:5
Alignment explanation
Indices: 122952--123025 Score: 61
Period size: 5 Copynumber: 15.8 Consensus size: 5
122942 GAACTTCTCT
**
122952 TTTTC TTTTC TTTTC TTTTC TTCTTC TTTTC --TTC TTTTC TGAT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
123000 TCTTC -TTT- TTGTC TTTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
123026 TGCACTCCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.67
6 5 0.09
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:122965 original size:11 final size:11
Alignment explanation
Indices: 122949--123020 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
122939 TTTGAACTTC
122949 TCTTTTTCTTT
1 TCTTTTTCTTT
122960 TC-TTTTCTTT
1 TCTTTTTCTTT
*
122970 TCTTCTTCTTT
1 TCTTTTTCTTT
*
122981 TCTTCTTT-TCT
1 TCTT-TTTCTTT
** *
122992 GATTTTTCTCT
1 TCTTTTTCTTT
123003 TCTTTTTGTCTTT
1 TC-TTTT-TCTTT
123016 TCTTT
1 TCTTT
123021 CTTTTTGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 13 0.27
11 20 0.42
12 9 0.19
13 6 0.12
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:122970 original size:16 final size:17
Alignment explanation
Indices: 122949--122984 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
122939 TTTGAACTTC
122949 TCTTTTTCTT-TTCTTT
1 TCTTTTTCTTCTTCTTT
122965 TC-TTTTCTTCTTCTTT
1 TCTTTTTCTTCTTCTTT
122981 TCTT
1 TCTT
122985 CTTTTCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 10 0.56
17 1 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTCTTCTTT
Found at i:122975 original size:8 final size:8
Alignment explanation
Indices: 122959--123025 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
122949 TCTTTTTCTT
122959 TTCTTTTC
1 TTCTTTTC
122967 TT-TTCTTC
1 TTCTT-TTC
122975 TTCTTTTC
1 TTCTTTTC
122983 TTCTTTTC
1 TTCTTTTC
*
122991 TGATTTTTCTC
1 T--TCTTT-TC
123002 TTCTTTT-
1 TTCTTTTC
123009 TGTCTTTTC
1 T-TCTTTTC
123018 TTTCTTTT
1 -TTCTTTT
123026 TGCACTCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 3 0.06
8 26 0.53
9 12 0.24
10 5 0.10
11 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (8 bp):
TTCTTTTC
Found at i:122991 original size:16 final size:17
Alignment explanation
Indices: 122960--123025 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 17
122950 CTTTTTCTTT
122960 TCTTTTCTT-TTCTTCT-
1 TCTTTTCTTCTT-TTCTG
122976 TCTTTTCTTCTTTTCTG
1 TCTTTTCTTCTTTTCTG
*
122993 ATTTTTCTCTTCTTTT-TG
1 -TCTTT-TCTTCTTTTCTG
123011 TCTTTTCTTTCTTTT
1 TCTTTTC-TTCTTTT
123026 TGCACTCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
16 15 0.35
17 13 0.30
18 6 0.14
19 9 0.21
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTCTTCTTTTCTG
Found at i:122997 original size:27 final size:27
Alignment explanation
Indices: 122945--123018 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
122935 TCTTTTTGAA
**
122945 CTTCTCTTTT-TCTTTTCTTTTCTTTTCTT
1 CTTCT-TTTTGTCTTTTCTGAT-TTTTC-T
122974 CTTCTTTTCT-TCTTTTCTGATTTTTCT
1 CTTCTTTT-TGTCTTTTCTGATTTTTCT
123001 CTTCTTTTTGTCTTTTCT
1 CTTCTTTTTGTCTTTTCT
123019 TTCTTTTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 1 0.02
27 17 0.41
28 8 0.20
29 15 0.37
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (27 bp):
CTTCTTTTTGTCTTTTCTGATTTTTCT
Found at i:123024 original size:17 final size:18
Alignment explanation
Indices: 122976--123027 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
122966 CTTTTCTTCT
122976 TCTTTTC-TTCTTTTCTGA
1 TCTTTTCTTTCTTTT-TGA
122994 T-TTTTCTCTTCTTTTTG-
1 TCTTTTCT-TTCTTTTTGA
123011 TCTTTTCTTTCTTTTTG
1 TCTTTTCTTTCTTTTTG
123028 CACTCCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 15 0.48
18 9 0.29
19 7 0.23
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.73
Consensus pattern (18 bp):
TCTTTTCTTTCTTTTTGA
Found at i:124454 original size:16 final size:16
Alignment explanation
Indices: 124433--124464 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
124423 TCTTCCACCA
124433 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
124449 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
124465 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:124905 original size:36 final size:36
Alignment explanation
Indices: 124833--124936 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
124823 TTTATAAGTC
* * *
124833 GGTGATAATATAGGCGTGAT-ATGGTGATAGAATAT
1 GGTGATGATATAGGCGTGATAATGGTGATGGACTAT
124868 GGTGATGATATAGGCGTGATAATGGTGATGGACTAT
1 GGTGATGATATAGGCGTGATAATGGTGATGGACTAT
124904 GGTGATGATATAGGCGTGATAATGGTGATGGAC
1 GGTGATGATATAGGCGTGATAATGGTGATGGAC
124937 AGATTGTATC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 19 0.29
36 46 0.71
ACGTcount: A:0.30, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
GGTGATGATATAGGCGTGATAATGGTGATGGACTAT
Found at i:149056 original size:24 final size:25
Alignment explanation
Indices: 149025--149076 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
149015 TAAAAAAGGT
*
149025 TAAGAAAAGGAT-AAAGTAAA-GAAA
1 TAAGAAAA-GATGAAAGAAAAGGAAA
149049 TAAGAAAAGATGAAAGAAAAGGAAA
1 TAAGAAAAGATGAAAGAAAAGGAAA
149074 TAA
1 TAA
149077 AATAGTAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 3 0.12
24 15 0.60
25 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (25 bp):
TAAGAAAAGATGAAAGAAAAGGAAA
Found at i:149721 original size:13 final size:12
Alignment explanation
Indices: 149702--149787 Score: 67
Period size: 11 Copynumber: 7.2 Consensus size: 12
149692 ATATAGGCGT
149702 GATATGGTGATG
1 GATATGGTGATG
149714 GAATATGGTGAT-
1 G-ATATGGTGATG
*
149726 GATATAGGCG-T-
1 GATAT-GGTGATG
149737 GATAATGGTGATG
1 GAT-ATGGTGATG
149750 GACTATGGTGAT-
1 GA-TATGGTGATG
149762 GATATAGGTG-T-
1 GATAT-GGTGATG
149773 GATAATGGTGATG
1 GAT-ATGGTGATG
149786 GA
1 GA
149788 CAGATTGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 22 0.35
12 17 0.27
13 22 0.35
14 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:149757 original size:36 final size:36
Alignment explanation
Indices: 149684--149788 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
149674 ATTTATAAGT
* *
149684 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
149719 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
149755 TGGTGATGATATAGGTGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
149789 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:154056 original size:16 final size:16
Alignment explanation
Indices: 154035--154066 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
154025 TCTTCCACCA
154035 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
154051 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
154067 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:156124 original size:5 final size:5
Alignment explanation
Indices: 156114--156175 Score: 60
Period size: 5 Copynumber: 12.8 Consensus size: 5
156104 GAACTTCTCT
*
156114 TTTTC TTTTC TTTTC TTTTC --TTC TTTTC TTCTT- TTCTTC TTTTC TTCT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC TTTTC
*
156162 TTTTC TCTTC TTTT
1 TTTTC TTTTC TTTT
156176 TGCACTCCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
3 3 0.06
4 3 0.06
5 38 0.79
6 4 0.08
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:156132 original size:16 final size:16
Alignment explanation
Indices: 156111--156175 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
156101 TTTGAACTTC
156111 TCTTTTTCTTTTCTTT
1 TCTTTTTCTTTTCTTT
156127 TCTTTTCTTCTTTTCTTCT
1 TC-TTT-TTCTTTTCTT-T
*
156146 T-TTCTTCTTTTC--T
1 TCTTTTTCTTTTCTTT
*
156159 TCTTTTTCTCTTCTTT
1 TCTTTTTCTTTTCTTT
156175 T
1 T
156176 TGCACTCCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.05
14 9 0.22
16 12 0.30
17 5 0.12
18 10 0.25
19 2 0.05
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTTCTTTTCTTT
Found at i:156137 original size:8 final size:8
Alignment explanation
Indices: 156107--156164 Score: 82
Period size: 8 Copynumber: 7.0 Consensus size: 8
156097 TCTTTTTGAA
156107 CTTCTCTTT
1 CTTCT-TTT
156116 -TTCTTTT
1 CTTCTTTT
156123 CTTTTCTTTT
1 C--TTCTTTT
156133 CTTCTTTT
1 CTTCTTTT
156141 CTTCTTTT
1 CTTCTTTT
156149 CTTCTTTT
1 CTTCTTTT
156157 CTTCTTTT
1 CTTCTTTT
156165 TCTCTTCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
7 3 0.07
8 35 0.76
10 8 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTCTTTT
Found at i:156170 original size:8 final size:7
Alignment explanation
Indices: 156124--156175 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 7
156114 TTTTCTTTTC
156124 TTTTCTT
1 TTTTCTT
156131 TTCTTCTT
1 TT-TTCTT
156139 TTCTTCTT
1 TT-TTCTT
156147 TTCTTCTT
1 TT-TTCTT
156155 TTCTTCTT
1 TT-TTCTT
156163 TTTCTCTT
1 TTT-TCTT
156171 CTTTT
1 -TTTT
156176 TGCACTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 3 0.07
8 36 0.86
9 3 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTCTT
Found at i:157546 original size:16 final size:16
Alignment explanation
Indices: 157525--157556 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
157515 AAATATAAAA
157525 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
157541 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
157557 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:160387 original size:226 final size:227
Alignment explanation
Indices: 159993--160445 Score: 899
Period size: 226 Copynumber: 2.0 Consensus size: 227
159983 CTTATATTAT
159993 TACCCTTTATTAAGTCCATTATTAAACATATTTTCTTATCTTATTTTGCAGCCAAACTTATAAAT
1 TACCCTTTATTAAGTCCATTATTAAACATATTTTCTTATCTTATTTTGCAGCCAAACTTATAAAT
160058 TCGAGGACATCAGTACTTGTCAATCCTAGATCAGGACACATTAAGGCTATCTACTCTTCTCACCA
66 TCGAGGACATCAGTACTTGTCAATCCTAGATCAGGACACATTAAGGCTATCTACTCTTCTCACCA
160123 AAGTGTGTAGATTCGCCTTACATCAAGCGGTAATCAGAGCATAGTTAGATTGACAAC-AAAGTGT
131 AAGTGTGTAGATTCGCCTTACATCAAGCGGTAATCAGAGCATAGTTAGATTGACAACAAAAGTGT
160187 CATTGGCGTGCAAAGCAAAAAGAAATTCAAAA
196 CATTGGCGTGCAAAGCAAAAAGAAATTCAAAA
160219 TACCCTTTATTAAGTCCATTATTAAACATATTTTCTTATCTTATTTTGCAGCCAAACTTATAAAT
1 TACCCTTTATTAAGTCCATTATTAAACATATTTTCTTATCTTATTTTGCAGCCAAACTTATAAAT
160284 TCGAGGACATCAGTACTTGTCAATCCTAGATCAGGACACATTAAGGCTATCTACTCTTCTCACCA
66 TCGAGGACATCAGTACTTGTCAATCCTAGATCAGGACACATTAAGGCTATCTACTCTTCTCACCA
160349 AAGTGTGTAGATTCGCCTTACATCAAGCGGTAATCAGAGCATAGTTAGATTGACAACAAAAGTGT
131 AAGTGTGTAGATTCGCCTTACATCAAGCGGTAATCAGAGCATAGTTAGATTGACAACAAAAGTGT
160414 CATTGGCGTGCAAAGCAAAAAGAAATTCAAAA
196 CATTGGCGTGCAAAGCAAAAAGAAATTCAAAA
160446 GAGAAAAGAC
Statistics
Matches: 226, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
226 187 0.83
227 39 0.17
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (227 bp):
TACCCTTTATTAAGTCCATTATTAAACATATTTTCTTATCTTATTTTGCAGCCAAACTTATAAAT
TCGAGGACATCAGTACTTGTCAATCCTAGATCAGGACACATTAAGGCTATCTACTCTTCTCACCA
AAGTGTGTAGATTCGCCTTACATCAAGCGGTAATCAGAGCATAGTTAGATTGACAACAAAAGTGT
CATTGGCGTGCAAAGCAAAAAGAAATTCAAAA
Found at i:160493 original size:11 final size:10
Alignment explanation
Indices: 160477--160523 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
160467 ATTGGAGTGC
160477 AAAAGAAGAGA
1 AAAAGAAGA-A
160488 AAAAGAAGAA
1 AAAAGAAGAA
*
160498 AAGAAAAAG-A
1 AA-AAGAAGAA
160508 AAAA-AAGAA
1 AAAAGAAGAA
160517 AAAAGAA
1 AAAAGAA
160524 AGTTCAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 3 0.09
9 7 0.22
10 8 0.25
11 14 0.44
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAGAAGAA
Found at i:160499 original size:8 final size:7
Alignment explanation
Indices: 160477--160524 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 7
160467 ATTGGAGTGC
160477 AAAAGAAG
1 AAAA-AAG
160485 AGAAAAAG
1 A-AAAAAG
160493 AAGAAAAG
1 AA-AAAAG
160501 -AAAAAG
1 AAAAAAG
160507 AAAAAAAG
1 -AAAAAAG
160515 AAAAAAG
1 AAAAAAG
160522 AAA
1 AAA
160525 GTTCAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 5 0.14
7 12 0.33
8 16 0.44
9 3 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:160502 original size:14 final size:14
Alignment explanation
Indices: 160479--160519 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
160469 TGGAGTGCAA
*
160479 AAGAAGAGAAAAAG
1 AAGAAAAGAAAAAG
160493 AAGAAAAGAAAAAG
1 AAGAAAAGAAAAAG
*
160507 AAAAAAAGAAAAA
1 AAGAAAAGAAAAA
160520 AGAAAGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAAAAG
Found at i:160512 original size:22 final size:21
Alignment explanation
Indices: 160482--160524 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
160472 AGTGCAAAAG
*
160482 AAGAGAAAAAGAAGAAAAGAAA
1 AAGAAAAAAAGAA-AAAAGAAA
160504 AAGAAAAAAAGAAAAAAGAAA
1 AAGAAAAAAAGAAAAAAGAAA
160525 GTTCAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAGAAAAAAGAAA
Found at i:167187 original size:14 final size:14
Alignment explanation
Indices: 167157--167209 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
167147 GCTATTTTTT
167157 CAAAAAAAAAAA--
1 CAAAAAAAAAAAGG
167169 -AAAAAACAAAAAGG
1 CAAAAAA-AAAAAGG
167183 CAAAAAAAAAAAGG
1 CAAAAAAAAAAAGG
167197 CAAAAAAACAAAA
1 CAAAAAAA-AAAA
167210 AAAGAGCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.17
12 5 0.14
14 15 0.42
15 10 0.28
ACGTcount: A:0.83, C:0.09, G:0.08, T:0.00
Consensus pattern (14 bp):
CAAAAAAAAAAAGG
Found at i:167190 original size:22 final size:22
Alignment explanation
Indices: 167158--167212 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
167148 CTATTTTTTC
167158 AAAA-AAAAAAAAAAAAACAAA
1 AAAACAAAAAAAAAAAAACAAA
** **
167179 AAGGCAAAAAAAAAAAGGCAAA
1 AAAACAAAAAAAAAAAAACAAA
167201 AAAACAAAAAAA
1 AAAACAAAAAAA
167213 GAGCCAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAAAAAAAAACAAA
Found at i:167209 original size:19 final size:20
Alignment explanation
Indices: 167184--167224 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
167174 ACAAAAAGGC
167184 AAAA-AAAAAAAG-G-CAAA
1 AAAACAAAAAAAGAGCCAAA
167201 AAAACAAAAAAAGAGCCAAA
1 AAAACAAAAAAAGAGCCAAA
167221 AAAA
1 AAAA
167225 GCCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 1 0.05
20 8 0.38
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAACAAAAAAAGAGCCAAA
Found at i:167221 original size:9 final size:10
Alignment explanation
Indices: 167188--167231 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
167178 AAAGGCAAAA
*
167188 AAAAAAAGGC
1 AAAAAAAGCC
*
167198 AAAAAAA-CA
1 AAAAAAAGCC
167207 AAAAAAGAGCC
1 AAAAAA-AGCC
167218 AAAAAAAGCC
1 AAAAAAAGCC
167228 AAAA
1 AAAA
167232 TTTCAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 6 0.21
10 16 0.55
11 7 0.24
ACGTcount: A:0.75, C:0.14, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGCC
Found at i:171695 original size:136 final size:136
Alignment explanation
Indices: 171451--171696 Score: 431
Period size: 136 Copynumber: 1.8 Consensus size: 136
171441 CTACTTGCTA
* *
171451 CCGCCACCTTCCCCTATTCGTTCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGGTTTGATTC
1 CCGCCACCTTCCCATATTCGATCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGGTTTGATTC
171516 TTCAACAAGAGCAACGTTCATCAATCAGCCACCGCTTCCCTATCAGAAACCCTAAACAATCCTAG
66 TTCAACAAGAGCAACGTTCATCAATCAGCCACCGCTTCCCTATCAGAAACCCTAAACAATCCTAG
171581 TGACTG
131 TGACTG
* *
171587 CCGCCACCTTCTCATATTC-ATCACCTTTGTTCTTCATCGAGTCTAGAGCTTTCTAGGTTTGATT
1 CCGCCACCTTCCCATATTCGATC-CCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGGTTTGATT
*
171651 CTTCAACAAGAGCAACGTTCATCAATCCGCCACCGCTTCCCTATCA
65 CTTCAACAAGAGCAACGTTCATCAATCAGCCACCGCTTCCCTATCA
171697 ATTGGTATCA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
135 2 0.02
136 102 0.98
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.31
Consensus pattern (136 bp):
CCGCCACCTTCCCATATTCGATCCCTTTGTTCTTAATCGAGTCTAGAGCTTTCTAGGTTTGATTC
TTCAACAAGAGCAACGTTCATCAATCAGCCACCGCTTCCCTATCAGAAACCCTAAACAATCCTAG
TGACTG
Found at i:171908 original size:11 final size:11
Alignment explanation
Indices: 171892--171948 Score: 93
Period size: 11 Copynumber: 5.5 Consensus size: 11
171882 AACAAAAAAC
171892 AAAAAAAGGCA
1 AAAAAAAGGCA
171903 AAAAAAAGGCA
1 AAAAAAAGGCA
171914 AAAAAAAGGCA
1 AAAAAAAGGCA
171925 AAAAAAA--C-
1 AAAAAAAGGCA
171933 AAAAAAAGGCA
1 AAAAAAAGGCA
171944 AAAAA
1 AAAAA
171949 GCCAAAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.16
9 1 0.02
10 1 0.02
11 34 0.79
ACGTcount: A:0.77, C:0.09, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAGGCA
Found at i:171955 original size:9 final size:9
Alignment explanation
Indices: 171876--171948 Score: 62
Period size: 11 Copynumber: 7.8 Consensus size: 9
171866 ATTTTGTTTT
171876 CAAAAAAA-
1 CAAAAAAAG
171884 C-AAAAAA-
1 CAAAAAAAG
171891 CAAAAAAAGG
1 CAAAAAAA-G
171901 CAAAAAAAAGG
1 C-AAAAAAA-G
171912 CAAAAAAAAGG
1 C-AAAAAAA-G
*
171923 CAAAAAAAA
1 CAAAAAAAG
171932 CAAAAAAAGG
1 CAAAAAAA-G
171942 CAAAAAA
1 CAAAAAA
171949 GCCAAAATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
7 7 0.12
8 7 0.12
9 8 0.14
10 15 0.26
11 21 0.36
ACGTcount: A:0.78, C:0.11, G:0.11, T:0.00
Consensus pattern (9 bp):
CAAAAAAAG
Found at i:176237 original size:23 final size:23
Alignment explanation
Indices: 176192--176237 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
176182 TTATACCTAT
*
176192 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
176215 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
176238 TATTATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:177862 original size:19 final size:19
Alignment explanation
Indices: 177800--177859 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
177790 TTGGAGTGCA
* *
177800 AAAAGAAGACAAAAATCAG
1 AAAAGAAGAGAAAAATAAG
177819 AAAAGAAGAGAAAAATAAG
1 AAAAGAAGAGAAAAATAAG
177838 AAAAGAAGA-AAAGAA-AAG
1 AAAAGAAGAGAAA-AATAAG
177856 AAAA
1 AAAA
177860 AGAGAAGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 10 0.26
19 28 0.74
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (19 bp):
AAAAGAAGAGAAAAATAAG
Found at i:180768 original size:22 final size:24
Alignment explanation
Indices: 180743--180787 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
180733 ATCTTTATAC
180743 TTAT-AGATACTTA-TTTCATATG
1 TTATAAGATACTTATTTTCATATG
*
180765 TTATAAGATAGTTATTTTCATAT
1 TTATAAGATACTTATTTTCATAT
180788 ATATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (24 bp):
TTATAAGATACTTATTTTCATATG
Found at i:180792 original size:23 final size:23
Alignment explanation
Indices: 180747--180792 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
180737 TTATACTTAT
*
180747 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
180770 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
180793 TATTATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:185998 original size:6 final size:6
Alignment explanation
Indices: 185987--186033 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
185977 GATGTAGGAG
*
185987 TCTTTT TC-TTT TCTTTT TGTTTT TCTTCTT TC-TTT T-TTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTTTT TCTTTT
186033 T
1 T
186034 GTTGCTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 12 0.34
6 19 0.54
7 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:186011 original size:17 final size:16
Alignment explanation
Indices: 185989--186033 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
185979 TGTAGGAGTC
185989 TTTTTC-TTTTCTTTTT
1 TTTTTCTTTTTC-TTTT
186005 GTTTTTCTTCTTTCTTTT
1 -TTTTTCTT-TTTCTTTT
186023 TTTTTCTTTTT
1 TTTTTCTTTTT
186034 GTTGCTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 5 0.19
19 4 0.15
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTT
Found at i:186041 original size:24 final size:24
Alignment explanation
Indices: 185987--186033 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
185977 GATGTAGGAG
*
185987 TCTT-TTTCTTTTCTTTTTGTTTT
1 TCTTCTTTCTTTTCTTTTTCTTTT
186010 TCTTCTTTCTTTT-TTTTTCTTTT
1 TCTTCTTTCTTTTCTTTTTCTTTT
186033 T
1 T
186034 GTTGCTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (24 bp):
TCTTCTTTCTTTTCTTTTTCTTTT
Found at i:187614 original size:8 final size:8
Alignment explanation
Indices: 187601--187626 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
187591 GTAATATATG
187601 ATATAAAT
1 ATATAAAT
187609 ATATAAAT
1 ATATAAAT
187617 ATATAAAT
1 ATATAAAT
187625 AT
1 AT
187627 GTGGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:189719 original size:13 final size:11
Alignment explanation
Indices: 189678--189762 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
189668 ACAATCTGTC
189678 CATCACCATTAT
1 CATCACCA-TAT
*
189690 CA-CGCCTATAT
1 CATCACC-ATAT
189701 CATCACCATAGT
1 CATCACCATA-T
189713 CCATCACCATTAT
1 -CATCACCA-TAT
*
189726 CA-CGCCTATAT
1 CATCACC-ATAT
189737 CATCACCATAGT
1 CATCACCATA-T
189749 CCATCACCATAT
1 -CATCACCATAT
189761 CA
1 CA
189763 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.27
Consensus pattern (11 bp):
CATCACCATAT
Found at i:189722 original size:36 final size:36
Alignment explanation
Indices: 189675--189779 Score: 194
Period size: 36 Copynumber: 2.9 Consensus size: 36
189665 GATACAATCT
189675 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
189711 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
189747 GTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
189780 ACTTATAAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
35 21 0.31
36 47 0.69
ACGTcount: A:0.30, C:0.36, G:0.06, T:0.28
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:190187 original size:24 final size:23
Alignment explanation
Indices: 190144--190192 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
190134 AAAGTGCTAC
*
190144 AAAAAAAAGCAACAAGAAAGAAG
1 AAAAAAAAACAACAAGAAAGAAG
190167 AAAAAAAAACATA-AAG-AA-AAG
1 AAAAAAAAACA-ACAAGAAAGAAG
190188 AAAAA
1 AAAAA
190193 GACTCCTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.33
22 2 0.08
23 13 0.54
24 1 0.04
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAAAAAAACAACAAGAAAGAAG
Found at i:193866 original size:16 final size:16
Alignment explanation
Indices: 193845--193876 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
193835 TAGTTAGCTC
193845 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
193861 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
193877 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:195307 original size:8 final size:8
Alignment explanation
Indices: 195284--195345 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 8
195274 ATTGGAGTGC
195284 AAAAAGAA
1 AAAAAGAA
195292 AGAAAAGATAA
1 A-AAAAG--AA
*
195303 AAAGAAGAG
1 AAA-AAGAA
195312 AAAAAGAA
1 AAAAAGAA
*
195320 GAAAAGAA
1 AAAAAGAA
*
195328 GAAAAGAA
1 AAAAAGAA
*
195336 GAAAAGAA
1 AAAAAGAA
195344 AA
1 AA
195346 GAAAAAGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 29 0.63
9 9 0.20
10 2 0.04
11 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:195310 original size:16 final size:15
Alignment explanation
Indices: 195284--195345 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 15
195274 ATTGGAGTGC
195284 AAAAAGAAAGAAAAGA
1 AAAAAG-AAGAAAAGA
195300 TAAAAAGAAG---AG-
1 -AAAAAGAAGAAAAGA
195312 AAAAAGAAGAAAAGA
1 AAAAAGAAGAAAAGA
195327 AGAAAAGAAGAAAAGA
1 A-AAAAGAAGAAAAGA
195343 AAA
1 AAA
195346 GAAAAAGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
11 9 0.22
13 2 0.05
14 2 0.05
15 3 0.08
16 18 0.45
17 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAAAGAAGAAAAGA
Found at i:195315 original size:11 final size:11
Alignment explanation
Indices: 195296--195353 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
195286 AAAGAAAGAA
*
195296 AAGATAAAAAG
1 AAGAGAAAAAG
195307 AAGAGAAAAAG
1 AAGAGAAAAAG
195318 AAGA-AAAGAAG
1 AAGAGAAA-AAG
*
195329 AAAAGAAGAAAAG
1 AAGAG-A-AAAAG
*
195342 AAAAGAAAAAG
1 AAGAGAAAAAG
195353 A
1 A
195354 GAAGTTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 3 0.07
11 26 0.63
12 1 0.02
13 9 0.22
14 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
AAGAGAAAAAG
Found at i:195341 original size:35 final size:36
Alignment explanation
Indices: 195285--195353 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 36
195275 TTGGAGTGCA
*
195285 AAAAGAAAGAAAAGATAAAAAGAAGAGAAAAAGAAG
1 AAAAGAAAGAAAAGATAAAAAGAAAAGAAAAAGAAG
195321 AAAAG-AAGAAAAGA-AGAAAAGAAAAGAAAAAGA
1 AAAAGAAAGAAAAGATA-AAAAGAAAAGAAAAAGA
195354 GAAGTTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 1 0.03
35 25 0.81
36 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (36 bp):
AAAAGAAAGAAAAGATAAAAAGAAAAGAAAAAGAAG
Found at i:195353 original size:27 final size:26
Alignment explanation
Indices: 195285--195350 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
195275 TTGGAGTGCA
195285 AAAAG-AAAGAAAAGATAAAAAGAAG
1 AAAAGAAAAGAAAAGATAAAAAGAAG
195310 AGAAA-AAGAAGAAAAGA-AGAAAAGAAG
1 A-AAAGAA-AAGAAAAGATA-AAAAGAAG
195337 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
195351 AGAGAAGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 1 0.03
26 15 0.42
27 20 0.56
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (26 bp):
AAAAGAAAAGAAAAGATAAAAAGAAG
Found at i:197471 original size:16 final size:16
Alignment explanation
Indices: 197450--197481 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
197440 TAGTTAGCTC
197450 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
197466 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
197482 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:199419 original size:13 final size:11
Alignment explanation
Indices: 199378--199462 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
199368 ACAATTTGTC
199378 CATCACCATTAT
1 CATCACCA-TAT
*
199390 CA-CGCCTATAT
1 CATCACC-ATAT
199401 CATCACCATAGT
1 CATCACCATA-T
199413 CCATCACCATTAT
1 -CATCACCA-TAT
*
199426 CA-CGCCTATAT
1 CATCACC-ATAT
199437 CATCACCATATT
1 CATCACCATA-T
199449 CCATCACCATAT
1 -CATCACCATAT
199461 CA
1 CA
199463 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:199422 original size:36 final size:36
Alignment explanation
Indices: 199375--199479 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
199365 GATACAATTT
199375 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
199411 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
199447 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
199480 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:203414 original size:16 final size:16
Alignment explanation
Indices: 203393--203424 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
203383 TCTTCCACCA
203393 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
203409 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
203425 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:204292 original size:23 final size:23
Alignment explanation
Indices: 204247--204292 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
204237 TTATACCTAT
*
204247 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
204270 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
204293 TATATTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:222129 original size:17 final size:18
Alignment explanation
Indices: 222107--222158 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
222097 AATTGGAGTG
222107 CAAAAAGAAAGAAAAGA-
1 CAAAAAGAAAGAAAAGAT
222124 CAAAAAGAAGAGAAAA-AT
1 CAAAAAGAA-AGAAAAGAT
222142 CAGAAAAG-AAGAAAAGA
1 CA-AAAAGAAAGAAAAGA
222159 AGAAGAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 16 0.52
18 10 0.32
19 5 0.16
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (18 bp):
CAAAAAGAAAGAAAAGAT
Found at i:222139 original size:11 final size:11
Alignment explanation
Indices: 222114--222185 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
222104 GTGCAAAAAG
222114 AAAGAAAAGACAA
1 AAAGAAAAG--AA
*
222127 AAAGAAGAGAA
1 AAAGAAAAGAA
* *
222138 AAATCAGAA-AA
1 AAA-GAAAAGAA
*
222149 GAAGAAAAGAA
1 AAAGAAAAGAA
*
222160 GAAGAAAAG-A
1 AAAGAAAAGAA
222170 AAAGAAAAGAA
1 AAAGAAAAGAA
222181 AAAGA
1 AAAGA
222186 GAAGTTCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 12 0.25
11 26 0.54
12 2 0.04
13 8 0.17
ACGTcount: A:0.75, C:0.03, G:0.21, T:0.01
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:222151 original size:5 final size:5
Alignment explanation
Indices: 222109--222182 Score: 61
Period size: 5 Copynumber: 15.8 Consensus size: 5
222099 TTGGAGTGCA
* * **
222109 AAAAG -AAAG AAAAG -ACA- AAAAG AAGAG AAAA- ATCAG AAAAG --AAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
222153 AAAAG AAGAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AA-AAG AAAAG AAAAG AAAAG AAAA
222183 AGAGAAGTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.67
6 5 0.09
ACGTcount: A:0.76, C:0.03, G:0.20, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:222154 original size:8 final size:8
Alignment explanation
Indices: 222109--222175 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
222099 TTGGAGTGCA
222109 AAAAGAAAG
1 AAAAG-AAG
222118 AAAAGACA-
1 AAAAGA-AG
222126 AAAAGAAG
1 AAAAGAAG
*
222134 AGAAAAATCAG
1 A-AAAGA--AG
222145 AAAAGAAG
1 AAAAGAAG
222153 AAAAGAAG
1 AAAAGAAG
222161 AAGAA-AAG
1 AA-AAGAAG
222169 AAAAGAA
1 AAAAGAA
222176 AAGAAAAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 3 0.06
8 27 0.55
9 12 0.24
10 4 0.08
11 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.21, T:0.01
Consensus pattern (8 bp):
AAAAGAAG
Found at i:222162 original size:16 final size:17
Alignment explanation
Indices: 222109--222174 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 17
222099 TTGGAGTGCA
222109 AAAAGAAAGAAAAGACA-
1 AAAAG-AAGAAAAGACAG
*
222126 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGA-AAAGA-CAG
222145 AAAAGAAGAAAAGA-AG
1 AAAAGAAGAAAAGACAG
222161 AAGAA-AAGAAAAGA
1 AA-AAGAAGAAAAGA
222175 AAAGAAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
16 17 0.40
17 11 0.26
18 6 0.14
19 9 0.21
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.02
Consensus pattern (17 bp):
AAAAGAAGAAAAGACAG
Found at i:222175 original size:16 final size:15
Alignment explanation
Indices: 222109--222182 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 15
222099 TTGGAGTGCA
222109 AAAAG-AAAGAAAAG
1 AAAAGAAAAGAAAAG
* *
222123 -ACA-AAAAGAAGAG
1 AAAAGAAAAGAAAAG
**
222136 AAAA-ATCAGAAAAG
1 AAAAGAAAAGAAAAG
222150 --AAGAAAAGAAGAAG
1 AAAAGAAAAGAA-AAG
222164 AAAAGAAAAGAAAAG
1 AAAAGAAAAGAAAAG
222179 AAAA
1 AAAA
222183 AGAGAAGTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
12 2 0.04
13 15 0.33
14 12 0.26
15 7 0.15
16 10 0.22
ACGTcount: A:0.76, C:0.03, G:0.20, T:0.01
Consensus pattern (15 bp):
AAAAGAAAAGAAAAG
Found at i:222185 original size:16 final size:16
Alignment explanation
Indices: 222150--222182 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
222140 ATCAGAAAAG
222150 AAGAAAAGAAGAAGAA
1 AAGAAAAGAAGAAGAA
222166 AAGAAAAGAA-AAGAA
1 AAGAAAAGAAGAAGAA
222181 AA
1 AA
222183 AGAGAAGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAGAAGAA
Found at i:232477 original size:20 final size:19
Alignment explanation
Indices: 232436--232477 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
232426 ATAATTGGTT
232436 AAGTAAATGAATAATTAAGA
1 AAGTAAATGAATAATT-AGA
232456 AAGTAAATGGAAATAATT-GA
1 AAGTAAAT-G-AATAATTAGA
232476 AA
1 AA
232478 TGGATAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.24
Consensus pattern (19 bp):
AAGTAAATGAATAATTAGA
Found at i:240862 original size:36 final size:36
Alignment explanation
Indices: 240832--241008 Score: 284
Period size: 36 Copynumber: 4.9 Consensus size: 36
240822 CATCACTACC
* *
240832 TTCCATCACCATTTTCACGACTATATCATCACCATA
1 TTCCATCACCATTATCACGCCTATATCATCACCATA
*
240868 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 TTCCATCACCATTATCACGCCTATATCATCACCATA
*
240904 TTCCATCACCATTATCACGCCTATATCTTCACCATA
1 TTCCATCACCATTATCACGCCTATATCATCACCATA
*
240940 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 TTCCATCACCATTATCACGCCTATATCATCACCATA
* *
240976 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 TTCCATCACCATTATCACGCCTATATCATCACCA
241009 ACTTATAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
35 20 0.15
36 111 0.85
ACGTcount: A:0.30, C:0.36, G:0.04, T:0.30
Consensus pattern (36 bp):
TTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:240876 original size:13 final size:11
Alignment explanation
Indices: 240854--240991 Score: 93
Period size: 11 Copynumber: 11.5 Consensus size: 11
240844 TTTCACGACT
240854 ATATCATCACC
1 ATATCATCACC
240865 ATAGTCCATCACC
1 ATA-T-CATCACC
*
240878 ATTATCA-CGCC
1 A-TATCATCACC
240889 TATATCATCACC
1 -ATATCATCACC
240901 ATATTCCATCACC
1 ATA-T-CATCACC
*
240914 ATTATCA-CGCC
1 A-TATCATCACC
*
240925 TATATCTTCACC
1 -ATATCATCACC
240937 ATAGTCCATCACC
1 ATA-T-CATCACC
*
240950 ATTATCA-CGCC
1 A-TATCATCACC
240961 TATATCATCACC
1 -ATATCATCACC
240973 ATATTCCATCACC
1 ATA-T-CATCACC
240986 ATATCA
1 ATATCA
240992 CGCCCATATT
Statistics
Matches: 102, Mismatches: 8, Indels: 34
0.71 0.06 0.24
Matches are distributed among these distances:
11 37 0.36
12 23 0.23
13 36 0.35
14 6 0.06
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.30
Consensus pattern (11 bp):
ATATCATCACC
Found at i:240898 original size:23 final size:22
Alignment explanation
Indices: 240855--240991 Score: 66
Period size: 23 Copynumber: 5.7 Consensus size: 22
240845 TTCACGACTA
240855 TATCATCACCATAGTCCATCACCAT
1 TATCA-CACCATA-T-CATCACCAT
*
240880 TATCACGCCTATATCATCACCA-
1 TATCACACC-ATATCATCACCAT
*
240902 TATTCCATCACCAT-T-ATCACGCCT
1 TA-T-CA-CACCATATCATCAC-CAT
*
240926 ATATCTTCACCATAGTCCATCACCAT
1 -TATC-ACACCATA-T-CATCACCAT
*
240952 TATCACGCCTATATCATCACCA-
1 TATCACACC-ATATCATCACCAT
240974 TATTCCATCACCATATCA
1 TA-T-CA-CACCATATCA
240992 CGCCCATATT
Statistics
Matches: 88, Mismatches: 8, Indels: 33
0.68 0.06 0.26
Matches are distributed among these distances:
22 9 0.10
23 27 0.31
24 21 0.24
25 24 0.27
26 2 0.02
27 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.30
Consensus pattern (22 bp):
TATCACACCATATCATCACCAT
Found at i:243031 original size:90 final size:91
Alignment explanation
Indices: 242877--243058 Score: 267
Period size: 90 Copynumber: 2.0 Consensus size: 91
242867 CCTAGAACAC
*
242877 CCATGTGCCTTGCATATGAGCAGCCCCCATGTGCCTTGCATGAGGATCAGTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATGAGGATCAGTTAGGCGCCAAGATG
*
242942 AAGAGTTCTCTCACTATTCGGCCAAG
66 AAGAGCTCTCTCACTATTCGGCCAAG
** * * * * *
242968 CCATGTGTTTTGCATGTGAACAG-CCCCATGTGCCTTGCATGTGGTTTATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATGAGGATCAGTTAGGCGCCAAGATG
*
243032 AAGAGCTCTCTCCCTATTCGGCCAAG
66 AAGAGCTCTCTCACTATTCGGCCAAG
243058 C
1 C
243059 ATCATTTCCC
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 62 0.77
91 19 0.23
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATGAGGATCAGTTAGGCGCCAAGATG
AAGAGCTCTCTCACTATTCGGCCAAG
Found at i:247230 original size:90 final size:91
Alignment explanation
Indices: 247075--247256 Score: 267
Period size: 90 Copynumber: 2.0 Consensus size: 91
247065 CCTAGAACGC
* *
247075 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATGAGGATCATTTAGGTGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTACATGAGGATCATTTAGGTGCCAAGATG
*
247140 AAGAGTTCTCTCCCTATTCGGCCAAG
66 AAGAGCTCTCTCCCTATTCGGCCAAG
** * * * * *
247166 CCATGTGTTTTGCATGTGAACAG-CCCCATGTGCCTTACATGTGGTTTATTTAGGTGCCAGGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTACATGAGGATCATTTAGGTGCCAAGATG
247230 AAGAGCTCTCTCCCTATTCGGCCAAG
66 AAGAGCTCTCTCCCTATTCGGCCAAG
247256 C
1 C
247257 ATCATTTCCC
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 62 0.77
91 19 0.23
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTACATGAGGATCATTTAGGTGCCAAGATG
AAGAGCTCTCTCCCTATTCGGCCAAG
Found at i:249192 original size:15 final size:15
Alignment explanation
Indices: 249172--249205 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
249162 CCAGCATAAA
249172 AAGACGCACATCAGG
1 AAGACGCACATCAGG
*
249187 AAGACGCACATCATG
1 AAGACGCACATCAGG
249202 AAGA
1 AAGA
249206 ACAAGAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (15 bp):
AAGACGCACATCAGG
Found at i:253365 original size:16 final size:16
Alignment explanation
Indices: 253334--253364 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
253324 TCAAACAATG
253334 CAGTGCATGAAAAAAA
1 CAGTGCATGAAAAAAA
253350 CAGTGCA-GAAAAAAA
1 CAGTGCATGAAAAAAA
253365 AACAGAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.13, G:0.19, T:0.10
Consensus pattern (16 bp):
CAGTGCATGAAAAAAA
Found at i:255078 original size:76 final size:76
Alignment explanation
Indices: 254987--255152 Score: 237
Period size: 76 Copynumber: 2.2 Consensus size: 76
254977 TTAAACTCAA
*
254987 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTT-AAATAGGTTTTTAG
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAAATAGG-TTTTAG
255050 TATTTTAATTAAG
64 TATTTTAATTAAG
* * * *
255063 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAAATAGGTTTTAGTA
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAAATAGGTTTTAGTA
*
255128 TTTTAATTAGG
66 TTTTAATTAAG
*
255139 ATTTAGAATATTAT
1 ATTTAGGATATTAT
255153 ATTATTTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
75 7 0.09
76 66 0.82
77 7 0.09
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (76 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAAATAGGTTTTAGTA
TTTTAATTAAG
Found at i:255912 original size:11 final size:10
Alignment explanation
Indices: 255878--255913 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
255868 TCCCCCTTTA
*
255878 TATTTATATT
1 TATTAATATT
255888 TATTAATATT
1 TATTAATATT
255898 TATTAATATTT
1 TATTAATA-TT
255909 TATTA
1 TATTA
255914 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATTAATATT
Found at i:265122 original size:32 final size:33
Alignment explanation
Indices: 265081--265142 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
265071 AAAAGCTGAG
265081 TAGTGTG-TTTCATCTCTTTCATAGGATTTGTC
1 TAGTGTGTTTTCATCTCTTTCATAGGATTTGTC
*
265113 TAGTGTGTTTTCATCTCTTTTATAGGATTT
1 TAGTGTGTTTTCATCTCTTTCATAGGATTT
265143 TCGAGAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (33 bp):
TAGTGTGTTTTCATCTCTTTCATAGGATTTGTC
Found at i:265154 original size:33 final size:33
Alignment explanation
Indices: 265082--265154 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
265072 AAAGCTGAGT
*
265082 AGTGTGTTTCATCTCTTTCATAGGATTTGTCTAG
1 AGTGT-TTTCATCTCTTTCATAGGATTTGTCGAG
* *
265116 TGTGTTTTCATCTCTTTTATAGGATTT-TCGAG
1 AGTGTTTTCATCTCTTTCATAGGATTTGTCGAG
265148 AAGTGTT
1 -AGTGTT
265155 AGTTGATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 4 0.12
33 26 0.76
34 4 0.12
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.49
Consensus pattern (33 bp):
AGTGTTTTCATCTCTTTCATAGGATTTGTCGAG
Found at i:266106 original size:21 final size:21
Alignment explanation
Indices: 266080--266129 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
266070 TGGGGGAATG
266080 ATACATGCACTATAGTTCATA
1 ATACATGCACTATAGTTCATA
266101 ATACATGCACTATAGTTCATA
1 ATACATGCACTATAGTTCATA
266122 ATACATGC
1 ATACATGC
266130 TTGTTTGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (21 bp):
ATACATGCACTATAGTTCATA
Found at i:271099 original size:21 final size:21
Alignment explanation
Indices: 271058--271100 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
271048 CTAAGGGAGT
271058 TCTACCTTACTTTATCTTATA
1 TCTACCTTACTTTATCTTATA
271079 TCTA-CTTA-TTTATACTCTATA
1 TCTACCTTACTTTAT-CT-TATA
271100 T
1 T
271101 ATTATTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (21 bp):
TCTACCTTACTTTATCTTATA
Found at i:272016 original size:19 final size:20
Alignment explanation
Indices: 271992--272034 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
271982 AGAATTTATA
*
271992 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
272011 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
272031 TTCA
1 TTCA
272035 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:279784 original size:40 final size:39
Alignment explanation
Indices: 279716--279806 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 39
279706 CACGGTACAA
*
279716 AACACTACGGTG--TACTAGGTGAGTAAAGC-CTGACCTC
1 AACACTACGGTGCATACTAGGTGAGCAAAGCTC-GACCTC
*
279753 AACACTACGGTGCATTATTAGGTGAGCAAAGCTCGACCTC
1 AACACTACGGTGCA-TACTAGGTGAGCAAAGCTCGACCTC
* *
279793 AGCACTTCGGTGCA
1 AACACTACGGTGCA
279807 ACATTTGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 12 0.26
40 33 0.72
41 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (39 bp):
AACACTACGGTGCATACTAGGTGAGCAAAGCTCGACCTC
Found at i:279950 original size:45 final size:45
Alignment explanation
Indices: 279886--280066 Score: 290
Period size: 45 Copynumber: 4.0 Consensus size: 45
279876 ATAAACTAGC
279886 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
279931 AAATAAGCTTACTAGCTTATGGAATAAATGGTAAGCATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
279976 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATGTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * * *
280021 AAATAAGCTTACGAGCTTACGGGATAAATGGTAAATCTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
280066 A
1 A
280067 GAAATTTTAT
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 125 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:280004 original size:25 final size:25
Alignment explanation
Indices: 279931--280004 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
279921 TATATTGGTA
*
279931 AAATAAGCTTACTAGCTTATGGAAT
1 AAATAAGCTTACAAGCTTATGGAAT
* * *
279956 AAAT--G-GT--AAGCATATTGGTA-
1 AAATAAGCTTACAAGCTTA-TGGAAT
279976 AAATAAGCTTACAAGCTTATGGAAT
1 AAATAAGCTTACAAGCTTATGGAAT
280001 AAAT
1 AAAT
280005 GGTAAGTATG
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
20 9 0.26
21 4 0.11
22 2 0.06
23 2 0.06
24 4 0.11
25 14 0.40
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (25 bp):
AAATAAGCTTACAAGCTTATGGAAT
Found at i:282900 original size:16 final size:16
Alignment explanation
Indices: 282881--282912 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
282871 ATAATATAAG
282881 GAAAAAAAGAGAAACA
1 GAAAAAAAGAGAAACA
*
282897 GAAAAAGAGAGAAACA
1 GAAAAAAAGAGAAACA
282913 ATACTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGAGAAACA
Found at i:292389 original size:815 final size:817
Alignment explanation
Indices: 290271--293785 Score: 4036
Period size: 815 Copynumber: 4.3 Consensus size: 817
290261 GCTCACATCA
* *
290271 TTTTGCATAGCATCAAAGTTTTTCTCAAGCTGTTGTTGATCTTGAAGTACTTGGTGTGATGGCAT
1 TTTTGCATAGCATCAAAGTTTTTCTTAAGCTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCAT
* * *
290336 TGGTACTAACGTGATTCTTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGTA
66 TGGTACTAACGTGATTCTTCTTCTTCTATGGATGAATGAATAATGATTTAAGAACCCATCATGCA
* * **** * * ** * ** *
290401 ATGCTCATTTTTCACACTATGTAGGACGTATGAGAAGTAGATGGCTTGAATTCATGGAAATAACG
131 ATGCTCGTTTATCACACTGCCAAGAATGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACA
* * *
290466 TCACACAAGACTTCATCTTCATATCTCCTAATTGAAAATGGCACAAGGACTTGCTCTATGACTTC
196 TCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTTC
* *
290531 T-A------A-C-TC--TTCATCTTCATTGAATCATCATT-T---TAAAA-AAA-TAATAAGTAG
261 TAACTCTTCATCTTCATTTCATCTTCATTGAATCATCATTCTAAATAAAACAAAGTTAGAAGTAG
* * * **
290579 ATAATTCAAAATCAAAGAAAATGAAAGGATAAATTTCATGAATGAATGAATTTGTTCGTTTAACA
326 ATAATTCAAAATCAAAGAAAATGAAATGATCAATTTCATGAATGAATGAATTTGTGCGTTTAAGG
* * * * *
290644 TTCTCATTGGACAGGTTCATTAAAACTT-CCTCTTCTTGAGATTGTTTGAAGTTTGAATGTAGAA
391 TCCTCATTGGATAGGTTCATTGAAACTTCCCT-TTCATGAGATTGTTTGAACTTTGAATGTAGAA
*
290708 TGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTACAACCTTTGGAACT
455 TGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATAACAAATGTTACAACCTTTGGAACT
* *
290773 TCAATGGATAAATTTGAATT-ATCAATTTGCAATGGTATGGCCTTTGGAATAACTTTTC-AATCA
520 TCAATGGACAAATTTG-ATTCATCAATTTGCAATGGTATGGCCTTTGGAATAAC-CTTCAAATCA
* * *
290836 AATGAAAGAATAGGAAGAAAAGATTGATTAGT----ATAATCTCCTCACATTCGTTTTCTCTCAT
583 AATGAAAGAATAGGAAGAAAAGATTGATTAGTAAGAATATTCTCCTCGCATTCTTTTTCTCTCAT
*
290897 GCTCATGTC-CATTATGAAATTTCTCTTCTTAATACTGCTCTCT-TATGCTCTCTTTACGCTCTT
648 GCTCATGTCTC-TTATGAAATTTCTCTTCTTAATACTGCTCT-TGTATGCTCTCTTTACACTCTT
* *
290960 GTTCGTTTTG-AGTTCCTCTCTCACACTCATCG-TTTTCTTCACACTCAATCTCTTAAATATTCT
711 GTTC-TTTTGTAGTTCCACTCTCACACTCAT-GTTTTTCTTCACACTCAATCTCTTCAATATTCT
*
291023 CATTTTCAAATACTCTAAATGCCTTTGTTTTCTCACAATGTTCT
774 CATTTTCAAATACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
*
291067 TTTTGCATAGCATCAACGTTTTTCTTAA---GTTGTTAATCTTGAAGTACTTGGTGTGATGGCAT
1 TTTTGCATAGCATCAAAGTTTTTCTTAAGCTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCAT
* *
291129 TGG---TAACGTGATTCTTCTTCTTCTTCTATGGATGAATGAGTAATGATTTAGGAACCCATCAT
66 TGGTACTAACGTGA---TTCTTCTTCTTCTATGGATGAATGAATAATGATTTAAGAACCCATCAT
* * * * * * * **
291191 TCAATGCTCGTTTATCAAAATGCAAAGAACGTCTGAGAAGTAGATCGATTGAATGAATGGAAGCA
128 GCAATGCTCGTTTATCACACTGCCAAGAATGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCA
* * * *
291256 ACATCACACAAGACTTCATATTCATATC-CTTCAATTGAAAAGGGCATAAGTACTTGCTCTATTA
193 ACATCACACAAGACTTCATCTTCATATCTC-CCAATTGAAAAGGGCACAAGTACTTGCTCTATGA
** * * *
291320 CTTCTAACTCTTCATCTTCATTGAAT-TATCATT--AT-A--A--ATAAATAAAGCAAAGTTATA
257 CTTCTAACTCTTCATCTTCATTTCATCT-TCATTGAATCATCATTCTAAATAAAACAAAGTTAGA
* * * * *
291377 AGTATATAATTCAAAATCAAAGAAAATGAAATGATCAATTTCACGAATGAAGGAATTTATGCGCT
321 AGTAGATAATTCAAAATCAAAGAAAATGAAATGATCAATTTCATGAATGAATGAATTTGTGCGTT
* * * *
291442 TGAGGTCCTCCTTGGATAGGTTCATTGAAACTTCCCTTTCATGGGACTGTTTGAACTTTGAATGT
386 TAAGGTCCTCATTGGATAGGTTCATTGAAACTTCCCTTTCATGAGATTGTTTGAACTTTGAATGT
* ** *
291507 AGAATGAACATACTTTTAATGTCAAAGAGCACATGTTTTGGAAT-ACAAAATGTTACAACCTTTG
451 AGAATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATAAC-AAATGTTACAACCTTTG
* * * *
291571 GAACTTTAATGGACAAATTTGATTAATCAATTTGCAATGGTATGACTTTTGGAATAACCTTCAAA
515 GAACTTCAATGGACAAATTTGATTCATCAATTTGCAATGGTATGGCCTTTGGAATAACCTTCAAA
* *
291636 TCAAATGAAATAACAGGAAGAAAAGATTGATTAGT-AG-A-ATTCTCCTCGCATTCTTTTTCTCT
580 TCAAATGAAAGAATAGGAAGAAAAGATTGATTAGTAAGAATATTCTCCTCGCATTCTTTTTCTCT
* * *
291698 CATGCTTATATCTCTTATGAAATTTCTCTTCTTAATA-TTCATCTTGTATGCTCTCTTTACACTC
645 CATGCTCATGTCTCTTATGAAATTTCTCTTCTTAATACTGC-TCTTGTATGCTCTCTTTACACTC
* * *
291762 TTGTTCATTTTGCA-TTCCACTCTCAAACTTATGTTTTTCTTCACACTCAATCTCTTCAATATTC
709 TTGTTC-TTTTGTAGTTCCACTCTCACACTCATGTTTTTCTTCACACTCAATCTCTTCAATATTC
* *
291826 TCATTTTCAACTACTCCAAATGCATTTGTTTTCTCACAATGTTCT
773 TCATTTTCAAATACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
*
291871 TTTTGCATAGCATCAACA-TTTTTCTTAAGTTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCA
1 TTTTGCATAGCATCAA-AGTTTTTCTTAAGCTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCA
* * * * *
291935 TTGGTACTAACGTGATTCTTCTTCTTCTATAGATAAATGAATAATGACTTAGGAACCCATCATAC
65 TTGGTACTAACGTGATTCTTCTTCTTCTATGGATGAATGAATAATGATTTAAGAACCCATCATGC
* * *
292000 AATGCTCGTTTAACAAACTGCCAAGAATATCCGAGAAGTAGATGGATTGAATTCATGGAAGCAAC
130 AATGCTCGTTTATCACACTGCCAAGAATGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAAC
* ***
292065 ATCACACAAGACTTCATATTCATATCTTGAAATTGAAAA-GGCACAAGTACTTGCTCTATGACTT
195 ATCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTT
*
292129 CTAACTCTTCATCTTCATTTCATCTTCATTGAATCATCGTTCTGAAAATAAAACAAAGTTAGAAG
260 CTAACTCTTCATCTTCATTTCATCTTCATTGAATCATCATTCT--AAATAAAACAAAGTTAGAAG
* ** * *
292194 TATATAATTCAAAATCAAAGAAAATGATTTGATCAATTTCATGAATGAATGAATTTGTGCATTTT
323 TAGATAATTCAAAATCAAAGAAAATGAAATGATCAATTTCATGAATGAATGAATTTGTGCGTTTA
* * *
292259 AGGTCCTCATTGGATATGTTCATTGAAACTTTCCTTTCACGAGATTGTTTGAACTTTGAATGTAG
388 AGGTCCTCATTGGATAGGTTCATTGAAACTTCCCTTTCATGAGATTGTTTGAACTTTGAATGTAG
* *
292324 AATGAACGTACTTCGAATGTTAAAGAGCACATGTTTTGGAATAACAAATGTTACAACCTTTGGAA
453 AATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATAACAAATGTTACAACCTTTGGAA
* *
292389 CTTCAATGGACAAATTTGATTCATCAATTTACAATGGTATGGCCTTTGGAATAACCTGCAAATCA
518 CTTCAATGGACAAATTTGATTCATCAATTTGCAATGGTATGGCCTTTGGAATAACCTTCAAATCA
* * * *
292454 AATGAAAGAATATGAAGAAAAGGTTAATTAGTAGAGAGCAAAACTTCATTCTCCTCCCATTC-TT
583 AATGAAAGAATAGGAAGAAAAGATTGATTAGT--A-AG---AA--T-ATTCTCCTCGCATTCTTT
* * * *
292518 TTCTCTCATGATCATGTCCCTTTTGAAATTTCTCTTCTTCATACTGCTCTTGTATGCTCTCTTTA
639 TTCTCTCATGCTCATGTCTCTTATGAAATTTCTCTTCTTAATACTGCTCTTGTATGCTCTCTTTA
* * *
292583 CACTCTTGTT-TTTT-TATTTCCACTTTCACACTCATGTTTTTCTTCACTCTCAATCTCTTCAAT
704 CACTCTTGTTCTTTTGTAGTTCCACTCTCACACTCATGTTTTTCTTCACACTCAATCTCTTCAAT
* * * **
292646 ATTCTTATTTTCAAATATTCCAAATGCCTATGTTTTCTCTGAATGTTCT
769 ATTCTCATTTTCAAATACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
* * *
292695 TTTTTCATAGCATCAAAGTTTTTCTTAA---GTTGTTGATCTTTAAGTACTT-G-GTG-T-G-A-
1 TTTTGCATAGCATCAAAGTTTTTCTTAAGCTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCAT
* *
292751 T-G-----AC---A----------T-T-TGTATGAATGAATAATGATTTAAGAACCCGTCATGCA
66 TGGTACTAACGTGATTCTTCTTCTTCTATGGATGAATGAATAATGATTTAAGAACCCATCATGCA
* * * * * * *
292795 ATGCTCATTTATCACACTACGAAGGACGTCCGAGAAGTAGCTGAATTGAATTCATGGAAGCAACA
131 ATGCTCGTTTATCACACTGCCAAGAATGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACA
* * *
292860 TCACACAAGACTTCATCTTCATATCTCCCAATTTAAAAGGGTAGAAGTACTTGCTCTATGACTTC
196 TCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTTC
*
292925 TAACTCTTCATCTTCATTTCATCTTCATTTCATCTTCATTTCATCTTCATTTCATCATCATTATG
261 TAACTCTTCATCTTCATTTCA---TC--TTCA--TTGA----A---TCA--TCAT--TC----T-
*
292990 AAAAATAAAAGCAAAGTTAGAAGTAGATAA-T-----TC---GAAAATGAAATAATCAATTTCAT
303 --AAATAAAA-CAAAGTTAGAAGTAGATAATTCAAAATCAAAGAAAATGAAATGATCAATTTCAT
** * *
293046 GAATGAATGAATTTGTTTGTTTAAGGTCCTCATTGGATAGGTTTATTGAAACTTCCCTTTCTTGA
365 GAATGAATGAATTTGTGCGTTTAAGGTCCTCATTGGATAGGTTCATTGAAACTTCCCTTTCATGA
293111 GATTGTTTGAACTTTGAATGTAGAATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAAT
430 GATTGTTTGAACTTTGAATGTAGAATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAAT
* * * *
293176 ACCAAATGTTACAACCTTTGGAACTTCAATGGAAAAATTTGATTCATTAATTTGCAAAGGTATGG
495 AACAAATGTTACAACCTTTGGAACTTCAATGGACAAATTTGATTCATCAATTTGCAATGGTATGG
* * * *
293241 CCTTTGGAATAACCTACAAATCAAATGAAAGAATAAGAAGGAAAGTTTGATTAGTAGAAAGCAAA
560 CCTTTGGAATAACCTTCAAATCAAATGAAAGAATAGGAAGAAAAGATTGATTAGT---AAG---A
* * * *
293306 ATTGCATTCTCCTCGCATTATTTTTCTCTCATGCTCATGT-TCCTTTTGAAATTTCTCTTTTTCA
619 A-T--ATTCTCCTCGCATTCTTTTTCTCTCATGCTCATGTCT-CTTATGAAATTTCTCTTCTTAA
* * *
293370 TACTCCTCTTGTATGCTCTCTTTACACTCTTGTTCTTTTTTAGTTCCACTCCCACACTCATGTTT
680 TACTGCTCTTGTATGCTCTCTTTACACTCTTGTTCTTTTGTAGTTCCACTCTCACACTCATGTTT
* * * *
293435 TTCTTCATACTCAGTCTCTTCAATATTCT-ATTTTTCAACTACTCCAAATGCCTTTGTTTTCTCT
745 TTCTTCACACTCAATCTCTTCAATATTCTCA-TTTTCAAATACTCCAAATGCCTTTGTTTTCTCA
*
293499 TAATGTTCT
809 CAATGTTCT
* * * *
293508 TTTTGCATAGTATCAAAGTTTTTCGTAAGCTATTGTTGATCTTGAAGTACTTGGTGTGATGGCAT
1 TTTTGCATAGCATCAAAGTTTTTCTTAAGCTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCAT
* * * *
293573 TGGTACTAATGTGA-TCATTCTTCTCCCATGGATGAATGATTAATGATTTAAGAACCCATCATGC
66 TGGTACTAACGTGATTC-TTCTTCTTCTATGGATGAATGAATAATGATTTAAGAACCCATCATGC
* * * * * * *
293637 AATGCTCGTTTTTCACACTGCCAAGGATGTCCGAAAAGTAGATGGCTTGAATCCATAGAAGAAAC
130 AATGCTCGTTTATCACACTGCCAAGAATGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAAC
* * *
293702 ATCATACAAGACTTCATCTTCATATCTCCCAATTTAAAAGGGCACAAGTACTTTCTCTATGACTT
195 ATCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTT
293767 CTAACTCTTCATCTTCATT
260 CTAACTCTTCATCTTCATT
293786 GAATCATCAT
Statistics
Matches: 2332, Mismatches: 258, Indels: 211
0.83 0.09 0.08
Matches are distributed among these distances:
790 8 0.00
792 1 0.00
793 186 0.08
794 119 0.05
795 46 0.02
796 27 0.01
798 3 0.00
799 1 0.00
800 5 0.00
801 6 0.00
802 17 0.01
803 258 0.11
804 208 0.09
805 3 0.00
806 51 0.02
807 174 0.07
808 2 0.00
809 8 0.00
810 278 0.12
811 76 0.03
812 5 0.00
813 116 0.05
814 1 0.00
815 279 0.12
816 22 0.01
817 3 0.00
818 14 0.01
819 24 0.01
820 2 0.00
821 20 0.01
822 1 0.00
823 4 0.00
824 113 0.05
826 67 0.03
827 16 0.01
828 1 0.00
831 1 0.00
843 166 0.07
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (817 bp):
TTTTGCATAGCATCAAAGTTTTTCTTAAGCTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCAT
TGGTACTAACGTGATTCTTCTTCTTCTATGGATGAATGAATAATGATTTAAGAACCCATCATGCA
ATGCTCGTTTATCACACTGCCAAGAATGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACA
TCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTTC
TAACTCTTCATCTTCATTTCATCTTCATTGAATCATCATTCTAAATAAAACAAAGTTAGAAGTAG
ATAATTCAAAATCAAAGAAAATGAAATGATCAATTTCATGAATGAATGAATTTGTGCGTTTAAGG
TCCTCATTGGATAGGTTCATTGAAACTTCCCTTTCATGAGATTGTTTGAACTTTGAATGTAGAAT
GAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATAACAAATGTTACAACCTTTGGAACTT
CAATGGACAAATTTGATTCATCAATTTGCAATGGTATGGCCTTTGGAATAACCTTCAAATCAAAT
GAAAGAATAGGAAGAAAAGATTGATTAGTAAGAATATTCTCCTCGCATTCTTTTTCTCTCATGCT
CATGTCTCTTATGAAATTTCTCTTCTTAATACTGCTCTTGTATGCTCTCTTTACACTCTTGTTCT
TTTGTAGTTCCACTCTCACACTCATGTTTTTCTTCACACTCAATCTCTTCAATATTCTCATTTTC
AAATACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
Found at i:292947 original size:11 final size:11
Alignment explanation
Indices: 292931--292986 Score: 103
Period size: 11 Copynumber: 5.1 Consensus size: 11
292921 CTTCTAACTC
292931 TTCATCTTCAT
1 TTCATCTTCAT
292942 TTCATCTTCAT
1 TTCATCTTCAT
292953 TTCATCTTCAT
1 TTCATCTTCAT
292964 TTCATCTTCAT
1 TTCATCTTCAT
*
292975 TTCATCATCAT
1 TTCATCTTCAT
292986 T
1 T
292987 ATGAAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
11 44 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.54
Consensus pattern (11 bp):
TTCATCTTCAT
Found at i:293794 original size:810 final size:796
Alignment explanation
Indices: 290271--293836 Score: 3897
Period size: 810 Copynumber: 4.4 Consensus size: 796
290261 GCTCACATCA
*
290271 TTTTGCATAGCATCAAAGTTTTTCTCAAGCTGTTGTTGATCTTGAAGTACTTGGTGTGATGGCAT
1 TTTTGCATAGCATCAAAGTTTTTCTTAAG-T-TTGTTGATCTTGAAGTACTTGGTGTGATGGCAT
*
290336 TGGTACTAACGTGATTCTTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGTA
64 TGGTACTAACGTGA-TCTTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGCA
* * **** ** * ** *
290401 ATGCTCATTTTTCACACTATGTAGGACGTATGAGAAGTAGATGGCTTGAATTCATGGAAATAACG
128 ATGCTCGTTTATCACACTGCCAAGGACGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACA
* * *
290466 TCACACAAGACTTCATCTTCATATCTCCTAATTGAAAATGGCACAAGGACTTGCTCTATGACTTC
193 TCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTTC
* * * * *
290531 TAACTCTTCATCTTCATTGAATCATCATTTTAAAAAAATAATAAGTAGATAATT-CAA--A-ATC
258 TAACTCTTCATCTTCATTGAATCATCATTAT-GAAAAATAA-AAGCA-A-AGTTAGAAGTAGAT-
* ** * * ** *
290592 AA--AGAAAATGAAAGGATAAATTTCATGAATGAATGAATTTGTTCGTTTAACATTCTCATTGGA
318 AATTCGAAAATGAAATAATCAATTTCATGAATGAATGAATTTGTGCGTTTAAGGTCCTCATTGGA
* * * *
290655 CAGGTTCATTAAAACTT-CCTCTTCTTGAGATTGTTTGAAGTTTGAATGTAGAATGAACGTACTT
383 TAGGTTCATTGAAACTTCCCT-TTCATGAGATTGTTTGAACTTTGAATGTAGAATGAACGTACTT
*
290719 CGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTACAACCTTTGGAACTTCAATGGATAA
447 CGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTACAACCTTTGGAACTTCAATGGACAA
*
290784 ATTTGAATT-ATCAATTTGCAATGGTATGGCCTTTGGAATAACTTTTC-AATCAAATGAAAGAAT
512 ATTTG-ATTCATCAATTTGCAATGGTATGGCCTTTGGAATAAC-CTTCAAATCAAATGAAAGAAT
* * *
290847 AGGAAGAAAAGATTGATTAGT--ATAATCTCCTCACATTCGTTTTCTCTCATGCTCATG-TCCAT
575 AGGAAGAAAAGATTGATTAGTAGATATTCTCCTCGCATTCTTTTTCTCTCATGCTCATGTTCC-T
* * * *
290909 TATGAAATTTCTCTTCTTAATACTGCTCTCT-TATGCTCTCTTTACGCTCTTGTTCGTTTTGAGT
639 TATGAAATTTCTCTTCTTAATACTCCTCT-TGTATGCTCTCTTTACACTCTTGTTCTTTTTTAGT
* *
290973 TCCTCTCTCACACTCATCG-TTTTCTTCACACTCAATCTCTTAAATATTCTCATTTTCAAATACT
703 TCCACTCTCACACTCAT-GTTTTTCTTCACACTCAATCTCTTCAATATTCTCATTTTCAAATACT
*
291037 CTAAATGCCTTTGTTTTCTCACAATGTTCT
767 CCAAATGCCTTTGTTTTCTCACAATGTTCT
* *
291067 TTTTGCATAGCATCAACGTTTTTCTTAAG-TTGTTAATCTTGAAGTACTTGGTGTGATGGCATTG
1 TTTTGCATAGCATCAAAGTTTTTCTTAAGTTTGTTGATCTTGAAGTACTTGGTGTGATGGCATTG
* * * *
291131 G---TAACGTGATTCTTCTTCTTCTTCTATGGATGAATGAGTAATGATTTAGGAACCCATCATTC
66 GTACTAACGTGA-TCTTCTTC-TC--CCATGGATGAATGAATAATGATTTAAGAACCCATCATGC
* * * * * * **
291193 AATGCTCGTTTATCAAAATGCAAAGAACGTCTGAGAAGTAGATCGATTGAATGAATGGAAGCAAC
127 AATGCTCGTTTATCACACTGCCAAGGACGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAAC
* * * *
291258 ATCACACAAGACTTCATATTCATATC-CTTCAATTGAAAAGGGCATAAGTACTTGCTCTATTACT
192 ATCACACAAGACTTCATCTTCATATCTC-CCAATTGAAAAGGGCACAAGTACTTGCTCTATGACT
* * * *
291322 TCTAACTCTTCATCTTCATTGAATTATCATTATAAATAAAT-AAAGCAAAGTTATAAGTATATAA
256 TCTAACTCTTCATCTTCATTGAATCATCATTATGAA-AAATAAAAGCAAAGTTAGAAGTAGATAA
* * * * * *
291386 TTCAAAATCAAAGAAAATGAAATGATCAATTTCACGAATGAAGGAATTTATGCGCTTGAGGTCCT
320 -T-----TC---GAAAATGAAATAATCAATTTCATGAATGAATGAATTTGTGCGTTTAAGGTCCT
* * *
291451 CCTTGGATAGGTTCATTGAAACTTCCCTTTCATGGGACTGTTTGAACTTTGAATGTAGAATGAAC
376 CATTGGATAGGTTCATTGAAACTTCCCTTTCATGAGATTGTTTGAACTTTGAATGTAGAATGAAC
* ** * * *
291516 ATACTTTTAATGTCAAAGAGCACATGTTTTGGAATACAAAATGTTACAACCTTTGGAACTTTAAT
441 GTACTTCGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTACAACCTTTGGAACTTCAAT
* * *
291581 GGACAAATTTGATTAATCAATTTGCAATGGTATGACTTTTGGAATAACCTTCAAATCAAATGAAA
506 GGACAAATTTGATTCATCAATTTGCAATGGTATGGCCTTTGGAATAACCTTCAAATCAAATGAAA
* * * *
291646 TAACAGGAAGAAAAGATTGATTAGTAGA-ATTCTCCTCGCATTCTTTTTCTCTCATGCTTAT-AT
571 GAATAGGAAGAAAAGATTGATTAGTAGATATTCTCCTCGCATTCTTTTTCTCTCATGCTCATGTT
* * *
291709 CTCTTATGAAATTTCTCTTCTTAATATTCATCTTGTATGCTCTCTTTACACTCTTGTTCATTTTG
636 C-CTTATGAAATTTCTCTTCTTAATACTCCTCTTGTATGCTCTCTTTACACTCTTGTTC-TTTTT
* * * *
291774 CA-TTCCACTCTCAAACTTATGTTTTTCTTCACACTCAATCTCTTCAATATTCTCATTTTCAACT
699 TAGTTCCACTCTCACACTCATGTTTTTCTTCACACTCAATCTCTTCAATATTCTCATTTTCAAAT
*
291838 ACTCCAAATGCATTTGTTTTCTCACAATGTTCT
764 ACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
*
291871 TTTTGCATAGCATCAACA-TTTTTCTTAAGTTGTTGTTAATCTTGAAGTACTTGGTGTGATGGCA
1 TTTTGCATAGCATCAA-AGTTTTTCTTAAG-T-TTGTTGATCTTGAAGTACTTGGTGTGATGGCA
* * * * * * *
291935 TTGGTACTAACGTGATTCTTCTTCTTCTATAGATAAATGAATAATGACTTAGGAACCCATCATAC
63 TTGGTACTAACGTGA-TCTTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGC
* * * **
292000 AATGCTCGTTTAACAAACTGCCAAGAATATCCGAGAAGTAGATGGATTGAATTCATGGAAGCAAC
127 AATGCTCGTTTATCACACTGCCAAGGACGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAAC
* ***
292065 ATCACACAAGACTTCATATTCATATCTTGAAATTGAAAA-GGCACAAGTACTTGCTCTATGACTT
192 ATCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTT
* *
292129 CTAACTCTTCATCTTCATTTCATCTTCATTGAATCATCGTTCTG-AAAATAAAA-CAAAGTTAGA
257 CT-A------A-C-TC--TTCATCTTCATTGAATCATCATTATGAAAAATAAAAGCAAAGTTAGA
* *
292192 AGTATATAATTC-AAAATCAAAGAAAATGATTTGATCAATTTCATGAATGAATGAATTTGTGCAT
311 AGTAGATAATTCGAAAAT----G-AAAT-A----ATCAATTTCATGAATGAATGAATTTGTGCGT
* * * *
292256 TTTAGGTCCTCATTGGATATGTTCATTGAAACTTTCCTTTCACGAGATTGTTTGAACTTTGAATG
366 TTAAGGTCCTCATTGGATAGGTTCATTGAAACTTCCCTTTCATGAGATTGTTTGAACTTTGAATG
* * *
292321 TAGAATGAACGTACTTCGAATGTTAAAGAGCACATGTTTTGGAATAACAAATGTTACAACCTTTG
431 TAGAATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTACAACCTTTG
* *
292386 GAACTTCAATGGACAAATTTGATTCATCAATTTACAATGGTATGGCCTTTGGAATAACCTGCAAA
496 GAACTTCAATGGACAAATTTGATTCATCAATTTGCAATGGTATGGCCTTTGGAATAACCTTCAAA
* * * *
292451 TCAAATGAAAGAATATGAAGAAAAGGTTAATTAGTAGAGAGCAAAACTTCATTCTCCTCCCATTC
561 TCAAATGAAAGAATAGGAAGAAAAGATTGATTAGT----AG----A--T-ATTCTCCTCGCATTC
* * * * *
292516 -TTTTCTCTCATGATCATGTCCCTTTTGAAATTTCTCTTCTTCATACTGCTCTTGTATGCTCTCT
615 TTTTTCTCTCATGCTCATGTTCCTTATGAAATTTCTCTTCTTAATACTCCTCTTGTATGCTCTCT
* * *
292580 TTACACTCTTG-T-TTTTTTATTTCCACTTTCACACTCATGTTTTTCTTCACTCTCAATCTCTTC
680 TTACACTCTTGTTCTTTTTTAGTTCCACTCTCACACTCATGTTTTTCTTCACACTCAATCTCTTC
* * * **
292643 AATATTCTTATTTTCAAATATTCCAAATGCCTATGTTTTCTCTGAATGTTCT
745 AATATTCTCATTTTCAAATACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
* *
292695 TTTTTCATAGCATCAAAGTTTTTCTTAAG-TTGTTGATCTTTAAGTACTT-G-GTG-T-G-A-T-
1 TTTTGCATAGCATCAAAGTTTTTCTTAAGTTTGTTGATCTTGAAGTACTTGGTGTGATGGCATTG
* *
292752 G-----AC---A------T-T----TGTATGAATGAATAATGATTTAAGAACCCGTCATGCAATG
66 GTACTAACGTGATCTTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGCAATG
* * * * *
292798 CTCATTTATCACACTACGAAGGACGTCCGAGAAGTAGCTGAATTGAATTCATGGAAGCAACATCA
131 CTCGTTTATCACACTGCCAAGGACGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACATCA
* * *
292863 CACAAGACTTCATCTTCATATCTCCCAATTTAAAAGGGTAGAAGTACTTGCTCTATGACTTCTAA
196 CACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATG-------A
*
292928 CTCTTCATCTTCATTTCATCTTCATTTCATCTTCATTTCATCTTCATTTCATCATCATTATGAAA
254 --C-T--TC-T-A----A-C-TC--TTCA---TC--TTCA--TTGA----ATCATCATTATGAAA
292993 AATAAAAGCAAAGTTAGAAGTAGATAATTCGAAAATGAAATAATCAATTTCATGAATGAATGAAT
293 AATAAAAGCAAAGTTAGAAGTAGATAATTCGAAAATGAAATAATCAATTTCATGAATGAATGAAT
** * *
293058 TTGTTTGTTTAAGGTCCTCATTGGATAGGTTTATTGAAACTTCCCTTTCTTGAGATTGTTTGAAC
358 TTGTGCGTTTAAGGTCCTCATTGGATAGGTTCATTGAAACTTCCCTTTCATGAGATTGTTTGAAC
293123 TTTGAATGTAGAATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTAC
423 TTTGAATGTAGAATGAACGTACTTCGAATGTCAAAGAGCACATATTTTGGAATACCAAATGTTAC
* * *
293188 AACCTTTGGAACTTCAATGGAAAAATTTGATTCATTAATTTGCAAAGGTATGGCCTTTGGAATAA
488 AACCTTTGGAACTTCAATGGACAAATTTGATTCATCAATTTGCAATGGTATGGCCTTTGGAATAA
* * * *
293253 CCTACAAATCAAATGAAAGAATAAGAAGGAAAGTTTGATTAGTAGAAAGCAAAATTGCATTCTCC
553 CCTTCAAATCAAATGAAAGAATAGGAAGAAAAGATTGATTAGT----AG----A-T--ATTCTCC
* * * *
293318 TCGCATTATTTTTCTCTCATGCTCATGTTCCTTTTGAAATTTCTCTTTTTCATACTCCTCTTGTA
607 TCGCATTCTTTTTCTCTCATGCTCATGTTCCTTATGAAATTTCTCTTCTTAATACTCCTCTTGTA
* *
293383 TGCTCTCTTTACACTCTTGTTCTTTTTTAGTTCCACTCCCACACTCATGTTTTTCTTCATACTCA
672 TGCTCTCTTTACACTCTTGTTCTTTTTTAGTTCCACTCTCACACTCATGTTTTTCTTCACACTCA
* * **
293448 GTCTCTTCAATATTCT-ATTTTTCAACTACTCCAAATGCCTTTGTTTTCTCTTAATGTTCT
737 ATCTCTTCAATATTCTCA-TTTTCAAATACTCCAAATGCCTTTGTTTTCTCACAATGTTCT
* *
293508 TTTTGCATAGTATCAAAGTTTTTCGTAAGCTATTGTTGATCTTGAAGTACTTGGTGTGATGGCAT
1 TTTTGCATAGCATCAAAGTTTTTCTTAAG-T-TTGTTGATCTTGAAGTACTTGGTGTGATGGCAT
* *
293573 TGGTACTAATGTGATCATTCTTCTCCCATGGATGAATGATTAATGATTTAAGAACCCATCATGCA
64 TGGTACTAACGTGATC-TTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGCA
* * * * * * *
293638 ATGCTCGTTTTTCACACTGCCAAGGATGTCCGAAAAGTAGATGGCTTGAATCCATAGAAGAAACA
128 ATGCTCGTTTATCACACTGCCAAGGACGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACA
* * *
293703 TCATACAAGACTTCATCTTCATATCTCCCAATTTAAAAGGGCACAAGTACTTTCTCTATGACTTC
193 TCACACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTTC
* * * *
293768 TAACTCTTCATCTTCATTGAATCATCATTCTGAAAAAT-ATAGCAAATTTAGAAGTTGATAATTC
258 TAACTCTTCATCTTCATTGAATCATCATTATGAAAAATAAAAGCAAAGTTAGAAGTAGATAATTC
293832 -AAAAT
323 GAAAAT
293837 AAAAGAAAAT
Statistics
Matches: 2367, Mismatches: 265, Indels: 264
0.82 0.09 0.09
Matches are distributed among these distances:
789 3 0.00
790 20 0.01
791 6 0.00
792 8 0.00
793 209 0.09
794 118 0.05
795 19 0.01
796 27 0.01
798 1 0.00
799 1 0.00
802 7 0.00
803 233 0.10
804 198 0.08
805 12 0.01
806 41 0.02
807 164 0.07
808 7 0.00
809 33 0.01
810 302 0.13
811 75 0.03
812 2 0.00
813 121 0.05
814 7 0.00
815 261 0.11
816 29 0.01
817 34 0.01
818 15 0.01
819 27 0.01
820 7 0.00
821 23 0.01
822 1 0.00
823 10 0.00
824 111 0.05
825 2 0.00
826 64 0.03
827 15 0.01
828 1 0.00
829 1 0.00
830 1 0.00
831 3 0.00
833 1 0.00
834 1 0.00
836 1 0.00
838 1 0.00
839 1 0.00
843 143 0.06
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (796 bp):
TTTTGCATAGCATCAAAGTTTTTCTTAAGTTTGTTGATCTTGAAGTACTTGGTGTGATGGCATTG
GTACTAACGTGATCTTCTTCTCCCATGGATGAATGAATAATGATTTAAGAACCCATCATGCAATG
CTCGTTTATCACACTGCCAAGGACGTCCGAGAAGTAGATGGATTGAATTCATGGAAGCAACATCA
CACAAGACTTCATCTTCATATCTCCCAATTGAAAAGGGCACAAGTACTTGCTCTATGACTTCTAA
CTCTTCATCTTCATTGAATCATCATTATGAAAAATAAAAGCAAAGTTAGAAGTAGATAATTCGAA
AATGAAATAATCAATTTCATGAATGAATGAATTTGTGCGTTTAAGGTCCTCATTGGATAGGTTCA
TTGAAACTTCCCTTTCATGAGATTGTTTGAACTTTGAATGTAGAATGAACGTACTTCGAATGTCA
AAGAGCACATATTTTGGAATACCAAATGTTACAACCTTTGGAACTTCAATGGACAAATTTGATTC
ATCAATTTGCAATGGTATGGCCTTTGGAATAACCTTCAAATCAAATGAAAGAATAGGAAGAAAAG
ATTGATTAGTAGATATTCTCCTCGCATTCTTTTTCTCTCATGCTCATGTTCCTTATGAAATTTCT
CTTCTTAATACTCCTCTTGTATGCTCTCTTTACACTCTTGTTCTTTTTTAGTTCCACTCTCACAC
TCATGTTTTTCTTCACACTCAATCTCTTCAATATTCTCATTTTCAAATACTCCAAATGCCTTTGT
TTTCTCACAATGTTCT
Found at i:294587 original size:19 final size:20
Alignment explanation
Indices: 294549--294599 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
294539 GAAACCCCTT
294549 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
294569 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
294588 TGAATATACATG
1 TGAAAATACATG
294600 CTCTTGGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Done.