Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009405.1 Hibiscus syriacus cultivar Beakdansim tig00113337_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: 1310060
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:509 original size:36 final size:34
Alignment explanation
Indices: 469--665 Score: 209
Period size: 35 Copynumber: 5.5 Consensus size: 34
459 CTATATAATA
* *
469 TATATATATATTTTTTCAAAATATTGTTTTCAAGAC
1 TATATATATATATTTTCAAAA-ATCGTTTTCAA-AC
505 TATATAATATATATTTTCAAAAATCGTTTTCAAAAC
1 TATAT-ATATATATTTTCAAAAATCGTTTTC-AAAC
541 TATATA-ATATATATTTCAAAAATCGTTTTCGAAAC
1 TATATATATATAT-TTTCAAAAATCGTTTTC-AAAC
* * *
576 TATATATATATATTTTCAAAAACCGATTTTTAAAAAG
1 TATATATATATATTTTCAAAAATCG--TTTT-CAAAC
*
613 TATATATTATATATTTTCAAAAACCGTTTTCTAAAATC
1 TATATA-TATATATTTTCAAAAATCGTTTTC--AAA-C
651 TATATAT-TATATTTT
1 TATATATATATATTTT
666 TTTCAAAACT
Statistics
Matches: 142, Mismatches: 8, Indels: 22
0.83 0.05 0.13
Matches are distributed among these distances:
34 6 0.04
35 39 0.27
36 38 0.27
37 34 0.24
38 25 0.18
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (34 bp):
TATATATATATATTTTCAAAAATCGTTTTCAAAC
Found at i:632 original size:38 final size:37
Alignment explanation
Indices: 467--694 Score: 207
Period size: 38 Copynumber: 6.2 Consensus size: 37
457 AACTATATAA
* ** * *
467 TATATATATATATTTTTTCAAAATATTG-TTTTCAAGAC
1 TATATAT-TATATATTTTCAAAA-ACCGTTTTTAAAAAC
* * *
505 TATATAATATATATTTTCAAAAATCG-TTTTCAAAAC
1 TATATATTATATATTTTCAAAAACCGTTTTTAAAAAC
* * **
541 TATATAATATATA-TTTCAAAAATCG-TTTTCGAAAC
1 TATATATTATATATTTTCAAAAACCGTTTTTAAAAAC
*
576 TATATA-TATATATTTTCAAAAACCGATTTTTAAAAAG
1 TATATATTATATATTTTCAAAAACCG-TTTTTAAAAAC
*
613 TATATATTATATATTTTCAAAAACCGTTTTCTAAAATC
1 TATATATTATATATTTTCAAAAACCGTTTT-TAAAAAC
* ** *
651 TATATATTATATTTTTTTC-AAAACTATTTTCAAAAAC
1 TATATATTATA-TATTTTCAAAAACCGTTTTTAAAAAC
688 TATATAT
1 TATATAT
695 ACTAAATAAG
Statistics
Matches: 168, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
34 6 0.04
35 38 0.23
36 25 0.15
37 43 0.26
38 50 0.30
39 6 0.04
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (37 bp):
TATATATTATATATTTTCAAAAACCGTTTTTAAAAAC
Found at i:1550 original size:11 final size:11
Alignment explanation
Indices: 1534--1582 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
1524 ATGTTAAGAG
*
1534 TGTTATTAATT
1 TGTTATTAGTT
*
1545 TGTTA-TGGTT
1 TGTTATTAGTT
*
1555 TGTTATTAGCT
1 TGTTATTAGTT
1566 TGTTATTAGTT
1 TGTTATTAGTT
1577 TGTTAT
1 TGTTAT
1583 GTTGGTTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.25
11 24 0.75
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.61
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:1559 original size:21 final size:22
Alignment explanation
Indices: 1534--1582 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
1524 ATGTTAAGAG
* *
1534 TGTTATTAATTTGTTA-TGGTT
1 TGTTATTAACTTGTTATTAGTT
*
1555 TGTTATTAGCTTGTTATTAGTT
1 TGTTATTAACTTGTTATTAGTT
1577 TGTTAT
1 TGTTAT
1583 GTTGGTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.61
Consensus pattern (22 bp):
TGTTATTAACTTGTTATTAGTT
Found at i:3517 original size:11 final size:11
Alignment explanation
Indices: 3501--3549 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
3491 ATGTTAAGAG
3501 TGTTATTAGTT
1 TGTTATTAGTT
*
3512 TGTTA-TGGTT
1 TGTTATTAGTT
*
3522 TGTTATTAGCT
1 TGTTATTAGTT
3533 TGTTATTAGTT
1 TGTTATTAGTT
3544 TGTTAT
1 TGTTAT
3550 GTTGGTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.61
Consensus pattern (11 bp):
TGTTATTAGTT
Found at i:3526 original size:21 final size:22
Alignment explanation
Indices: 3501--3549 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
3491 ATGTTAAGAG
* *
3501 TGTTATTAGTTTGTTA-TGGTT
1 TGTTATTAGCTTGTTATTAGTT
3522 TGTTATTAGCTTGTTATTAGTT
1 TGTTATTAGCTTGTTATTAGTT
3544 TGTTAT
1 TGTTAT
3550 GTTGGTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.61
Consensus pattern (22 bp):
TGTTATTAGCTTGTTATTAGTT
Found at i:15348 original size:27 final size:27
Alignment explanation
Indices: 15318--15381 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
15308 AATAAATTAT
15318 ATATTTTTAAATGAAAATAAAAATAAA
1 ATATTTTTAAATGAAAATAAAAATAAA
* ** *
15345 ATATTTTTAAATTAAGTTAATAATAAA
1 ATATTTTTAAATGAAAATAAAAATAAA
*
15372 ATATATTTAA
1 ATATTTTTAA
15382 TAAGTTAGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (27 bp):
ATATTTTTAAATGAAAATAAAAATAAA
Found at i:16221 original size:31 final size:31
Alignment explanation
Indices: 16164--16224 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
16154 CACGTCTTTG
* *
16164 TTAAATAAAAACGAAATTGATCATATTTTAA
1 TTAAATAAAAACGAAAGTAATCATATTTTAA
* *
16195 TTAAATAAAAACGGAAGTAATTATATTTTA
1 TTAAATAAAAACGAAAGTAATCATATTTTA
16225 CGTTTTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (31 bp):
TTAAATAAAAACGAAAGTAATCATATTTTAA
Found at i:19100 original size:22 final size:22
Alignment explanation
Indices: 19052--19100 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
19042 TTGAATCCTC
*
19052 AAATTTTATAATTTATATTTTT
1 AAATTTTATAATATATATTTTT
*
19074 GAATTTTATAATATA-ATTTCTT
1 AAATTTTATAATATATATTT-TT
19096 AAATT
1 AAATT
19101 ATGATTGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AAATTTTATAATATATATTTTT
Found at i:23992 original size:21 final size:21
Alignment explanation
Indices: 23951--24028 Score: 52
Period size: 23 Copynumber: 3.5 Consensus size: 21
23941 TTATGTAATA
**
23951 TTTTATAGATATTTAAT-TTAT
1 TTTTATAGAT-TAAAATATTAT
23972 TTTTATAGATTAAAATATTAT
1 TTTTATAGATTAAAATATTAT
* *
23993 AGATTTAAATG-TTAAAATTATTAT
1 --TTTTATA-GATTAAAA-TATTAT
24017 TTATTATAGATT
1 TT-TTATAGATT
24029 TTATGCATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 4 0.09
21 14 0.32
22 2 0.05
23 17 0.39
24 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTTATAGATTAAAATATTAT
Found at i:24471 original size:27 final size:27
Alignment explanation
Indices: 24435--24486 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
24425 TTTAATCATC
24435 ATGATTTATTTTATTAATAT-TTATGT
1 ATGATTTATTTTATTAATATATTATGT
24461 ATGATGTTATTTTATTAATATATTAT
1 ATGAT-TTATTTTATTAATATATTAT
24487 TAAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 5 0.21
27 15 0.62
28 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (27 bp):
ATGATTTATTTTATTAATATATTATGT
Found at i:24498 original size:27 final size:27
Alignment explanation
Indices: 24441--24498 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
24431 CATCATGATT
** **
24441 TATTTTATTAATATTTATGTATGATGT
1 TATTTTATTAATATTTATGTAAAATAA
24468 TATTTTATTAATATATTAT-TAAAATAA
1 TATTTTATTAATAT-TTATGTAAAATAA
24495 TATT
1 TATT
24499 AATTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TATTTTATTAATATTTATGTAAAATAA
Found at i:36602 original size:38 final size:39
Alignment explanation
Indices: 36553--36633 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
36543 AAGACTAGTA
*
36553 TATTCTATTAAAATTAAAAATATTATA-AATTGTAATAAT
1 TATTCTATT-AAAGTAAAAATATTATATAATTGTAATAAT
* * *
36592 TATT-TATTAAAGTAAGAATATTATATTATTTTAATAAT
1 TATTCTATTAAAGTAAAAATATTATATAATTGTAATAAT
36630 TATT
1 TATT
36634 AATAAACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 15 0.41
38 18 0.49
39 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (39 bp):
TATTCTATTAAAGTAAAAATATTATATAATTGTAATAAT
Found at i:36606 original size:19 final size:20
Alignment explanation
Indices: 36584--36634 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
36574 ATTATAAATT
36584 GTAATAATTATT-TATTAAA
1 GTAATAATTATTATATTAAA
* **
36603 GTAAGAA-TATTATATTATT
1 GTAATAATTATTATATTAAA
*
36622 TTAATAATTATTA
1 GTAATAATTATTA
36635 ATAAACATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 4 0.16
19 16 0.64
20 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (20 bp):
GTAATAATTATTATATTAAA
Found at i:36679 original size:22 final size:22
Alignment explanation
Indices: 36618--36679 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
36608 AATATTATAT
*
36618 TATTTTAATAATTATTAATAAACA
1 TATTTT-A-AATTATTATTAAACA
* *
36642 TATTTTAATTTTTTATTAAA-A
1 TATTTTAAATTATTATTAAACA
*
36663 TGTTATTAAATTATTAT
1 TATT-TTAAATTATTAT
36680 ATTAATATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 4 0.13
22 20 0.65
23 1 0.03
24 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTATTATTAAACA
Found at i:46864 original size:61 final size:60
Alignment explanation
Indices: 46769--46885 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 60
46759 GAGGTGACAC
* *
46769 AAAGGCGCATCCCCAGGGAAGCGCTTTACTTGGGTTTATGCTAAGTCGGATGCCACGTGTG
1 AAAGGCGCATCCCCAGGGAAGCGCTTTACTTGGG-TTATGCTAAATCAGATGCCACGTGTG
* * * * *
46830 AAAGGCGTATCTCCGGGGATGCGCTTTA-TATGGGTTCTGCTAAATCAGATGCCACG
1 AAAGGCGCATCCCCAGGGAAGCGCTTTACT-TGGGTTATGCTAAATCAGATGCCACG
46886 CTGGTATTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 20 0.42
61 28 0.58
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (60 bp):
AAAGGCGCATCCCCAGGGAAGCGCTTTACTTGGGTTATGCTAAATCAGATGCCACGTGTG
Found at i:48778 original size:21 final size:21
Alignment explanation
Indices: 48751--48851 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 21
48741 AATCAGTTTC
48751 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATTCTT
* * ** *
48772 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGATTCTT
* **
48793 CAAATTCGCATTGCGATT-TT
1 CAAAATCGCAACGCGATTCTT
48813 CCAAAATCGCAAACGCGATTCTT
1 -CAAAATCGC-AACGCGATTCTT
* *
48836 GAAAATCGTAACGCGA
1 CAAAATCGCAACGCGA
48852 ACACATAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.02
21 45 0.73
22 14 0.23
23 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (21 bp):
CAAAATCGCAACGCGATTCTT
Found at i:48880 original size:20 final size:20
Alignment explanation
Indices: 48857--49011 Score: 204
Period size: 20 Copynumber: 7.7 Consensus size: 20
48847 CGCGAACACA
*
48857 TAAATCGCAACTCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
48877 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
48897 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
48917 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
48937 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
48957 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
48977 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
48998 TAAATCGCAACGCG
1 TAAATCGCAACGCG
49012 ATATTTAAAG
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 98 0.85
21 15 0.13
22 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:48909 original size:60 final size:60
Alignment explanation
Indices: 48838--49011 Score: 224
Period size: 60 Copynumber: 2.9 Consensus size: 60
48828 CGATTCTTGA
* * *
48838 AAATCGTAACGCGAACACATAAATCGCAACTCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGTAAATCGCAACGCGTATCCGT
* *** *
48898 AAATCGCAACGCGTATGGGTAAATCGCAA-TGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACT-CGTATCCGTAAATCGCAACGCGTATCCGT
** *
48958 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACTCGTATCCGTAAATCGCAACGCG
49012 ATATTTAAAG
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 64 0.67
61 30 0.32
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:49183 original size:22 final size:22
Alignment explanation
Indices: 49158--49212 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
49148 CTCTCTACGG
49158 CGAAGAAATCCGTCCCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
49180 CGAAGATTTCCGTCCCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
49202 CGGCGAAATCC
1 CGAAGAAATCC
49213 CTCACAACCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (22 bp):
CGAAGAAATCCGTCCCCATCTC
Found at i:49433 original size:33 final size:33
Alignment explanation
Indices: 49394--49464 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
49384 TTCACTTAGA
*
49394 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
49427 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
49460 TTTCA
1 TTTCA
49465 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:49601 original size:41 final size:41
Alignment explanation
Indices: 49543--49620 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
49533 TTGCAGAAGA
*
49543 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
49584 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
49621 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:49617 original size:21 final size:21
Alignment explanation
Indices: 49544--49619 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
49534 TGCAGAAGAG
*
49544 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
49565 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
49585 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
49606 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
49620 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:49623 original size:14 final size:14
Alignment explanation
Indices: 49604--49659 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
49594 GAGAAATGAA
49604 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
49618 AATCGCAACGCGATATGAA
1 AATCGCAA--CG--A-GAG
49637 AATCGCAACGAGAG
1 AATCGCAACGAGAG
49651 AATCGCAAC
1 AATCGCAAC
49660 ACGAAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:49672 original size:33 final size:33
Alignment explanation
Indices: 49602--49676 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
49592 GAGAGAAATG
* * **
49602 AAAATCGCAACGAGAGAATCGCAACGCGATATG
1 AAAATCGCAACGAGAGAATCGCAACACGAAACC
49635 AAAATCGCAACGAGAGAATCGCAACACGAAACC
1 AAAATCGCAACGAGAGAATCGCAACACGAAACC
49668 AAAATCGCA
1 AAAATCGCA
49677 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACACGAAACC
Found at i:49694 original size:19 final size:19
Alignment explanation
Indices: 49672--49769 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
49662 GAAACCAAAA
*
49672 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
49691 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
49705 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
49724 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
49738 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
49757 TCGCGTTGCGATT
1 TCGCGTTGCGATT
49770 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:49713 original size:14 final size:14
Alignment explanation
Indices: 49694--49783 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
49684 TTTCATTTCG
49694 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
49708 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
49727 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
49741 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
49760 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
49774 CGTTGCGATT
1 CGTTGCGATT
49784 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:49719 original size:33 final size:33
Alignment explanation
Indices: 49677--49791 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
49667 CAAAATCGCA
49677 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
49710 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
49743 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
49776 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
49792 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:51649 original size:93 final size:93
Alignment explanation
Indices: 51490--52144 Score: 1267
Period size: 93 Copynumber: 7.1 Consensus size: 93
51480 TAGATTGCTT
*
51490 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51555 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
51583 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51648 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
51676 AGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51741 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
51769 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51834 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
51862 AGTAAATTTGTTCGGGTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51927 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
51955 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52020 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52048 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52113 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52140 AGTAA
1 AGTAA
52145 TGCAATCCAT
Statistics
Matches: 555, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.01
93 549 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:52232 original size:19 final size:19
Alignment explanation
Indices: 52192--52320 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
52182 TAGTTTACTT
* *
52192 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
52212 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
52231 TCGCAACGCGAAATAAAAA
1 TCGCAACGCGAAACCAAAA
*
52250 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
52264 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
52283 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
52297 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
52316 TCGCA
1 TCGCA
52321 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:52266 original size:33 final size:32
Alignment explanation
Indices: 52228--52320 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
52218 CGCGAAACCA
**
52228 AAATCGCAACGCGAAATAAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
52260 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
52293 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
52321 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:52318 original size:52 final size:52
Alignment explanation
Indices: 52192--52320 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
52182 TAGTTTACTT
* **
52192 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
*** *
52244 TAAAAATCGC--AACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAA-CGCGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
52297 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACGCGAAACACAAAATCGCA
52321 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
51 3 0.05
52 47 0.78
53 7 0.12
54 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACGCGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:52338 original size:19 final size:19
Alignment explanation
Indices: 52316--52434 Score: 132
Period size: 19 Copynumber: 6.8 Consensus size: 19
52306 GAAACCAAAA
52316 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
52335 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
52351 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
52368 TCGCATTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
52384 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
**
52401 TCGCATTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
52420 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
52435 AAGTTTCGTG
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
14 12 0.14
16 16 0.19
17 16 0.19
19 42 0.49
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:52357 original size:14 final size:14
Alignment explanation
Indices: 52338--52394 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
52328 TTTCATTTCG
52338 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
52352 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
52369 CGCATTGCGATTCTTT
1 CG--TTGCGATTCTTT
52385 CGTTGCGATT
1 CGTTGCGATT
52395 TTCATTTCGC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 16 0.42
16 8 0.21
17 8 0.21
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:52363 original size:33 final size:33
Alignment explanation
Indices: 52321--52413 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
52311 CAAAATCGCA
*
52321 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
52354 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
52387 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
52414 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.20, G:0.19, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
Found at i:52442 original size:20 final size:19
Alignment explanation
Indices: 52385--52450 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
52375 GCGATTCTTT
52385 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
* *
52404 CATTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
52423 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
52443 TGTTGCGA
1 CGTTGCGA
52451 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:54389 original size:14 final size:14
Alignment explanation
Indices: 54370--54405 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
54360 ATTGTTTAAT
54370 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
54384 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
54398 TGATTTGT
1 TGATTTGT
54406 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:54528 original size:19 final size:19
Alignment explanation
Indices: 54512--54608 Score: 150
Period size: 19 Copynumber: 5.4 Consensus size: 19
54502 AAAAATGACT
54512 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
54531 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
54550 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
54564 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
54583 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
54602 ATCGCAA
1 ATCGCAA
54609 AGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 55 0.77
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:54646 original size:52 final size:52
Alignment explanation
Indices: 54512--54626 Score: 221
Period size: 52 Copynumber: 2.2 Consensus size: 52
54502 AAAAATGACT
*
54512 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAAGAGAGA
54564 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAAGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAAGAGAGA
54616 ATCGCAATGCG
1 ATCGCAATGCG
54627 TTTATAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAAGAGAGA
Found at i:54670 original size:33 final size:33
Alignment explanation
Indices: 54633--54853 Score: 227
Period size: 33 Copynumber: 6.5 Consensus size: 33
54623 TGCGTTTATA
54633 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
54666 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *
54706 GTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTC
*
54738 ATTTCGCATTGCGATTCTCTCGTCGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
54771 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
54804 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
54838 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
54854 GTAATTTCCG
Statistics
Matches: 161, Mismatches: 13, Indels: 28
0.80 0.06 0.14
Matches are distributed among these distances:
32 9 0.06
33 76 0.47
34 43 0.27
35 7 0.04
36 4 0.02
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:54825 original size:53 final size:52
Alignment explanation
Indices: 54633--54786 Score: 290
Period size: 53 Copynumber: 2.9 Consensus size: 52
54623 TGCGTTTATA
54633 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
54685 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
*
54738 ATTTCGCATTGCGATTCTCTCGTCGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
54787 CTCTCGTTGC
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
52 49 0.49
53 51 0.51
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:54861 original size:86 final size:86
Alignment explanation
Indices: 54633--54853 Score: 315
Period size: 86 Copynumber: 2.6 Consensus size: 86
54623 TGCGTTTATA
* * *
54633 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
1 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTG
54696 CGATTCTCTCGTTGCGATTTTC
65 CGATTCTCTCGTTGCGATTTTC
* * * * *
54718 ATTTCCGCATTGCGATTTTCAT-TTCGCA-TTGCGATTCTCTCGTCGCGATTTTCATTTCGCATT
1 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTC-ATT-TCGCGTTGCGATTTTCATTTCGCATT
54781 GCGATTCTCTCGTTGCGATTTTC
64 GCGATTCTCTCGTTGCGATTTTC
54804 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
54854 GTAATTTCCG
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
84 3 0.03
85 10 0.09
86 93 0.79
87 8 0.07
88 3 0.03
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (86 bp):
ATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGC
GATTCTCTCGTTGCGATTTTC
Found at i:57140 original size:12 final size:12
Alignment explanation
Indices: 57123--57147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57113 TCTTCGGGGA
57123 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57135 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57147 C
1 C
57148 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:57356 original size:24 final size:24
Alignment explanation
Indices: 57322--57368 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57312 CTGAAACATC
57322 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
57346 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
57369 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:58078 original size:20 final size:20
Alignment explanation
Indices: 58050--58279 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
58040 AAATTTCAGT
* ** *
58050 GTTGTGATTTACATATTCTC
1 GTTGCGATTTACGGATTCGC
**
58070 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
58090 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
58110 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
58130 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
58150 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
58170 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
58190 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
58210 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
58230 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
58250 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
58270 GTTGCGATTT
1 GTTGCGATTT
58280 TGGAAAATCG
Statistics
Matches: 179, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 178 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:58296 original size:21 final size:21
Alignment explanation
Indices: 58266--58348 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
58256 ATTTTCATAT
*
58266 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
58287 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
58308 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
58329 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
58349 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:58339 original size:42 final size:43
Alignment explanation
Indices: 58246--58344 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
58236 ATTTATGTGT
* *
58246 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
58287 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
58329 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
58345 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:65550 original size:20 final size:20
Alignment explanation
Indices: 65521--65566 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
65511 CCATTGTCGA
*
65521 GCTTCCGTATACAAGAGTCT
1 GCTTCAGTATACAAGAGTCT
65541 GCTTCAGTATACAAGAGTCT
1 GCTTCAGTATACAAGAGTCT
65561 GCTTCA
1 GCTTCA
65567 ATTACTCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (20 bp):
GCTTCAGTATACAAGAGTCT
Found at i:72754 original size:23 final size:23
Alignment explanation
Indices: 72728--72774 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
72718 AAACTAAACC
*
72728 ATGTTAATCTTGTAGCCAAATGA
1 ATGTTAATCTTCTAGCCAAATGA
72751 ATGTTAATCTTCTAGCCAAATGA
1 ATGTTAATCTTCTAGCCAAATGA
72774 A
1 A
72775 ACCTTTCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (23 bp):
ATGTTAATCTTCTAGCCAAATGA
Found at i:73754 original size:10 final size:10
Alignment explanation
Indices: 73739--73766 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
73729 TAAAAGTTCT
73739 CAAATTGAGA
1 CAAATTGAGA
73749 CAAATTGAGA
1 CAAATTGAGA
73759 CAAATTGA
1 CAAATTGA
73767 CGCCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (10 bp):
CAAATTGAGA
Found at i:78169 original size:41 final size:41
Alignment explanation
Indices: 78124--78221 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
78114 ATTCGCGTTG
*
78124 CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
78165 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
78206 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
78222 TTTCTATTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:78174 original size:20 final size:20
Alignment explanation
Indices: 78149--78282 Score: 151
Period size: 20 Copynumber: 6.6 Consensus size: 20
78139 TAGTTGGAAA
78149 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
78169 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
78190 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
78210 TCGCGTTGCGATTTTCTATT
1 TCGCGTTGCGATTTTCCATT
* ** **
78230 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
78251 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
78271 TCGCGTTGCGAT
1 TCGCGTTGCGAT
78283 AGTTGAAAAT
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
20 61 0.67
21 30 0.33
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:78214 original size:61 final size:61
Alignment explanation
Indices: 78149--78282 Score: 259
Period size: 61 Copynumber: 2.2 Consensus size: 61
78139 TAGTTGGAAA
78149 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
*
78210 TCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
78271 TCGCGTTGCGAT
1 TCGCGTTGCGAT
78283 AGTTGAAAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (61 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:78242 original size:102 final size:102
Alignment explanation
Indices: 78125--78323 Score: 353
Period size: 102 Copynumber: 2.0 Consensus size: 102
78115 TTCGCGTTGC
*
78125 ATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*** *
78190 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCT
66 TCGCAACGCGATTTTCCATTTCGCATTGCGATTTTCT
78227 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
78292 TCGCAACGCGATTTTCCATTTCGCATTGCGAT
66 TCGCAACGCGATTTTCCATTTCGCATTGCGAT
78324 AGTCTACAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (102 bp):
ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
TCGCAACGCGATTTTCCATTTCGCATTGCGATTTTCT
Found at i:78255 original size:41 final size:41
Alignment explanation
Indices: 78210--78366 Score: 196
Period size: 41 Copynumber: 3.9 Consensus size: 41
78200 ATTTTCCATT
*
78210 TCGCGTTGCGATTTTCTATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
78251 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*** * *
78292 TCGCAACGCGATTTTCCATTTCGCATTGCGATAGTCT-ACAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
*
78333 T-GTCGTTGCGATTTTCCAAATT--CGTTGCGATAGT
1 TCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGT
78367 GTACAGTTTT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
40 12 0.12
41 86 0.84
42 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:78384 original size:22 final size:22
Alignment explanation
Indices: 78354--78407 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
78344 TTTTCCAAAT
* *
78354 TCGTTGCGATAGTGTACAGTTT
1 TCGTTGCGATAGTCTACAGTTG
* *
78376 TTGTTGCGAAAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
78398 TCGTTGCGAT
1 TCGTTGCGAT
78408 TTTCCAAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.39
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:79052 original size:6 final size:5
Alignment explanation
Indices: 79017--79062 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
79007 GTCCGTCTCG
*
79017 GGTCG GGTCT GGTCT GGTCT GGTCT GGTCGT GGTCGT GGTCGT GGT
1 GGTCT GGTCT GGTCT GGTCT GGTCT GGTC-T GGTC-T GGTC-T GGT
79063 AATACGTGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
5 23 0.59
6 16 0.41
ACGTcount: A:0.00, C:0.17, G:0.48, T:0.35
Consensus pattern (5 bp):
GGTCT
Found at i:79121 original size:20 final size:20
Alignment explanation
Indices: 79096--79243 Score: 73
Period size: 20 Copynumber: 7.6 Consensus size: 20
79086 CGCGAATACT
79096 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
*
79116 ATCGCAACGCG-A-T----T
1 ATCGCAACGCGAACTGGAAA
* *
79130 TTCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAA-CTGGAAA
**
79149 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAACTG--GAAA
*
79171 ATCGCAACGCGAACTAGAAA
1 ATCGCAACGCGAACTGGAAA
** ** *
79191 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAACTGGAA-A
79212 ATCGCAACGCGAAAC-GGAAA
1 ATCGCAACGCG-AACTGGAAA
79232 ATCGCAACGCGA
1 ATCGCAACGCGA
79244 TTTTCAATTA
Statistics
Matches: 93, Mismatches: 20, Indels: 31
0.65 0.14 0.22
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 6 0.06
15 1 0.01
18 1 0.01
19 8 0.09
20 41 0.44
21 16 0.17
22 17 0.18
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAACTGGAAA
Found at i:79194 original size:42 final size:41
Alignment explanation
Indices: 79145--79265 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 41
79135 AACGAATTTG
79145 GAAAATCGCAACGACAACTGT-AGACTATCGCAACGCG-AACTA
1 GAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAAC-A
* * * *
79187 GAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAACG
1 GAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACA
* * * *
79228 GAAAATCGCAACGCGATTTTCAATTATCGCAACGCGAA
1 GAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAA
79266 TTTGCGATAG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
41 55 0.76
42 17 0.24
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
GAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAACA
Found at i:79213 original size:41 final size:40
Alignment explanation
Indices: 79168--79265 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 40
79158 ACAACTGTAG
79168 ACTATCGCAACGCGAACTAGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAC-AGAAAATCGCAACGCGATTTTCA
*
79209 ACTATCGCAACGCGAAACGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCG-AACAGAAAATCGCAACGCGATTTTCA
*
79250 ATTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
79266 TTTGCGATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 2 0.04
41 49 0.91
42 3 0.06
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (40 bp):
ACTATCGCAACGCGAACAGAAAATCGCAACGCGATTTTCA
Found at i:79217 original size:21 final size:20
Alignment explanation
Indices: 79191--79264 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
79181 GAACTAGAAA
79191 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAA-T
***** *
79212 ATCGCAACGCGAAACGGAAA
1 ATCGCAACGCGATTTTCAAT
79232 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAA-T
79253 ATCGCAACGCGA
1 ATCGCAACGCGA
79265 ATTTGCGATA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGATTTTCAAT
Found at i:88730 original size:20 final size:21
Alignment explanation
Indices: 88694--88735 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
88684 TCTTAAGTTT
88694 TTCAAATCTGCAGATTG-TTA
1 TTCAAATCTGCAGATTGCTTA
*
88714 TTCAAATGCTTCA-ATTGCTTA
1 TTCAAAT-CTGCAGATTGCTTA
88735 T
1 T
88736 CGAATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
TTCAAATCTGCAGATTGCTTA
Found at i:88802 original size:26 final size:26
Alignment explanation
Indices: 88765--88821 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
88755 CTGTGACCGT
*
88765 AGCTTCAGCCGAAAGAAGTTTCTCGA
1 AGCTTCAACCGAAAGAAGTTTCTCGA
88791 AGCTTCAACCGAAAGAAGTTTCTCGA
1 AGCTTCAACCGAAAGAAGTTTCTCGA
88817 AGCTT
1 AGCTT
88822 AAATTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (26 bp):
AGCTTCAACCGAAAGAAGTTTCTCGA
Found at i:95001 original size:31 final size:31
Alignment explanation
Indices: 94956--95040 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
94946 ATTTGAATCA
*
94956 TAAATTTTAAATAAAATAT-AAACTTAACTCT
1 TAAATTTTAGATAAAATATCAAA-TTAACTCT
* *
94987 TAAACTTTAGATAAAATATCTAATTAACTCT
1 TAAATTTTAGATAAAATATCAAATTAACTCT
*
95018 TAAATTTTAGATTAAAAAATCAA
1 TAAATTTTAGA-TAAAATATCAA
95041 TAAATTTGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 35 0.76
32 11 0.24
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (31 bp):
TAAATTTTAGATAAAATATCAAATTAACTCT
Found at i:95297 original size:2 final size:2
Alignment explanation
Indices: 95290--95318 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95280 GTGATTCATT
95290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95319 TTTTTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97102 original size:155 final size:155
Alignment explanation
Indices: 96792--97098 Score: 607
Period size: 155 Copynumber: 2.0 Consensus size: 155
96782 GTAGATTGTT
96792 GAGACCCGTCGGGCTCACGTTTATTAGCTTAAAGACTTTATTAGAAGTTAAAACTCATGAATCAA
1 GAGACCCGTCGGGCTCACGTTTATTAGCTTAAAGACTTTATTAGAAGTTAAAACTCATGAATCAA
96857 TGTCTTTCAGCCTGCTAACATCAAAGGGGCTGGCGGCCCTTAATTCCACTATATAGGCTAGGAAA
66 TGTCTTTCAGCCTGCTAACATCAAAGGGGCTGGCGGCCCTTAATTCCACTATATAGGCTAGGAAA
96922 CACTGAAGCAAACGACACCGTTTGG
131 CACTGAAGCAAACGACACCGTTTGG
96947 GAGACCCGTCGGGCTCACGTTTATTAGCTTAAAGACTTTATTAGAAGTTAAAACTCATGAATCAA
1 GAGACCCGTCGGGCTCACGTTTATTAGCTTAAAGACTTTATTAGAAGTTAAAACTCATGAATCAA
97012 TGTCTTTCAGCCTGCTAACATCAAAGGGGCTGGCGGCCCTTAATTCCACTATATAGGCTAGGAAA
66 TGTCTTTCAGCCTGCTAACATCAAAGGGGCTGGCGGCCCTTAATTCCACTATATAGGCTAGGAAA
97077 CACTGAAGC-AACGACACCGTTT
131 CACTGAAGCAAACGACACCGTTT
97099 TGGGTTCATT
Statistics
Matches: 152, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 13 0.09
155 139 0.91
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (155 bp):
GAGACCCGTCGGGCTCACGTTTATTAGCTTAAAGACTTTATTAGAAGTTAAAACTCATGAATCAA
TGTCTTTCAGCCTGCTAACATCAAAGGGGCTGGCGGCCCTTAATTCCACTATATAGGCTAGGAAA
CACTGAAGCAAACGACACCGTTTGG
Found at i:97951 original size:22 final size:23
Alignment explanation
Indices: 97924--97972 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
97914 AAATATGAGG
*
97924 GGAATG-AGTTTATAAAACTTTA
1 GGAATGAACTTTATAAAACTTTA
*
97946 GGAATGATACTTTATAAAATTTTA
1 GGAATGA-ACTTTATAAAACTTTA
97970 GGA
1 GGA
97973 GACGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
24 17 0.74
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (23 bp):
GGAATGAACTTTATAAAACTTTA
Found at i:98180 original size:17 final size:17
Alignment explanation
Indices: 98158--98191 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98148 AATCCTTATA
98158 CTATAAACTTTAAATCC
1 CTATAAACTTTAAATCC
*
98175 CTATAAATTTTAAATCC
1 CTATAAACTTTAAATCC
98192 TTAATCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (17 bp):
CTATAAACTTTAAATCC
Found at i:112200 original size:19 final size:19
Alignment explanation
Indices: 112176--112212 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
112166 AATCCGAAAG
112176 GTTTCCTATTAATTAGTTA
1 GTTTCCTATTAATTAGTTA
112195 GTTTCCTATTAATTAGTT
1 GTTTCCTATTAATTAGTT
112213 CGAGCAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (19 bp):
GTTTCCTATTAATTAGTTA
Found at i:114098 original size:9 final size:9
Alignment explanation
Indices: 114084--114109 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
114074 GAAATCGGTT
114084 AATTAACCG
1 AATTAACCG
114093 AATTAACCG
1 AATTAACCG
114102 AATTAACC
1 AATTAACC
114110 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:114246 original size:17 final size:17
Alignment explanation
Indices: 114224--114262 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
114214 TGAATTAAAT
114224 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
114241 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
114258 -AATTA
1 TAATTA
114263 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:116181 original size:20 final size:22
Alignment explanation
Indices: 116157--116222 Score: 50
Period size: 22 Copynumber: 3.1 Consensus size: 22
116147 GAAATAATAT
*
116157 ATTTA-TTAA-AAAAATATTAT
1 ATTTATTTAATAAAAATAATAT
* *
116177 TTTTATTTAATAAAAATAA-AG
1 ATTTATTTAATAAAAATAATAT
*
116198 ATTTAATTGAA-AGAAAATAATAT
1 ATTT-ATTTAATA-AAAATAATAT
116221 AT
1 AT
116223 AGAAGGATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.11
21 9 0.26
22 19 0.54
23 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
ATTTATTTAATAAAAATAATAT
Found at i:118124 original size:21 final size:21
Alignment explanation
Indices: 118080--118122 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
118070 TTTGTAAAAA
*
118080 TTAAATAAATTTGATAATTAT
1 TTAAATAAATTTAATAATTAT
*
118101 TTAAAT-AATTTAATTATTAT
1 TTAAATAAATTTAATAATTAT
118121 TT
1 TT
118123 TATAACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATAAATTTAATAATTAT
Found at i:119108 original size:2 final size:2
Alignment explanation
Indices: 119103--119137 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
119093 TAAGGAATTA
119103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
119138 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:119142 original size:2 final size:2
Alignment explanation
Indices: 119137--119162 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
119127 ATATATATAT
119137 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
119163 GGGGGGGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:120069 original size:2 final size:2
Alignment explanation
Indices: 120064--120114 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
120054 TAAAAAGGAA
120064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120106 AT AT AT AT A
1 AT AT AT AT A
120115 AAAACAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120509 original size:20 final size:20
Alignment explanation
Indices: 120481--120519 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120471 CCGCCTCACC
*
120481 GCCGCCGTTGATCGGCGGCG
1 GCCGCCGTTCATCGGCGGCG
*
120501 GCCGTCGTTCATCGGCGGC
1 GCCGCCGTTCATCGGCGGC
120520 CAAACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.36, G:0.41, T:0.18
Consensus pattern (20 bp):
GCCGCCGTTCATCGGCGGCG
Found at i:121814 original size:106 final size:106
Alignment explanation
Indices: 121655--122208 Score: 784
Period size: 106 Copynumber: 5.3 Consensus size: 106
121645 GTATTGTTCC
* * * * * * *
121655 GAGTCCAATATACTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * * *
121720 TCAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTC
66 CCAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTG
* * * * * * * *
121761 AAGTCTAATGTCCTTCGTTGTGAAGTTGAAATTGGATCCGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
121826 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
121867 GAGTCCAATATCCTT--C------GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
121924 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
121965 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
122030 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
122071 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
122136 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
122177 GAGTCTGATATCCTTCGCTGTGAAGTTGAAAT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
122209 CGTGGATGTT
Statistics
Matches: 406, Mismatches: 33, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
98 92 0.23
100 1 0.00
106 312 0.77
107 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:122029 original size:204 final size:206
Alignment explanation
Indices: 121678--122208 Score: 753
Period size: 204 Copynumber: 2.6 Consensus size: 206
121668 TCCGCTGTGA
* * * * ** * *
121678 AGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCG-CTGTGAA
1 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC-GTGAA
* * * ** * *
121742 GTTGAGCTTGTGCTGTCTCAAGTCTAATGTCCTTCGTTGTGAAGTTGAAATTGGATCCGAAATTG
65 GTTGAACTTGCGTTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGATCCGAAATTG
*
121807 GGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
130 AGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
121872 CAATATCCTT-C
195 CAATATCCTTCC
*
121883 -GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
1 AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * *
121947 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
66 TTGAACTTGCGTTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGATCCGAAATTGA
* *
122012 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
131 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
122077 AATATCCTTCGC
196 AATATCCTTC-C
* *
122089 TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTTTTTATTGACAACCAGCGGTCCCTTCGTCG
1 -----AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
*
122154 TGAAGTTGAACTTGCGTTGTCTGGAGTCTGATATCCTTCGCTGTGAAGTTGAAAT
61 TGAAGTTGAACTTGCGTTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAAT
122209 CGTGGATGTT
Statistics
Matches: 290, Mismatches: 27, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
204 179 0.62
205 1 0.00
206 1 0.00
212 109 0.38
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (206 bp):
AGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
TTGAACTTGCGTTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGATCCGAAATTGA
GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
AATATCCTTCC
Found at i:123044 original size:9 final size:8
Alignment explanation
Indices: 123028--123052 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
123018 TCACCCTAAA
123028 TGTTTTTT
1 TGTTTTTT
123036 TGTTTTTT
1 TGTTTTTT
123044 TGTTTTTT
1 TGTTTTTT
123052 T
1 T
123053 CTTTCGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TGTTTTTT
Found at i:136843 original size:21 final size:20
Alignment explanation
Indices: 136778--136843 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
136768 TACTCAGTTC
136778 TATTTTAATTATA-ATTATA
1 TATTTTAATTATATATTATA
* * * *
136797 TCTTTTATTTATATTTTCAAA
1 TATTTTAATTATATATT-ATA
136818 T-TTTTAATTAATATATTATA
1 TATTTTAATT-ATATATTATA
136838 TATTTT
1 TATTTT
136844 TTACCAGCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 11 0.31
20 12 0.33
21 13 0.36
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTAATTATATATTATA
Found at i:137903 original size:24 final size:24
Alignment explanation
Indices: 137871--137919 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
137861 GCTTTGAGTA
*
137871 CGATCAACTGGATCTATATTTTTT
1 CGATCAACTGGATCTATATATTTT
*
137895 CGATTAACTGGATCTATATATTTT
1 CGATCAACTGGATCTATATATTTT
137919 C
1 C
137920 ATCGTCATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (24 bp):
CGATCAACTGGATCTATATATTTT
Found at i:140046 original size:29 final size:28
Alignment explanation
Indices: 139996--140054 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
139986 ATTGAGTTTG
* *
139996 TAGAATATTTAATTTTATTTATATGAATA
1 TAGAATATTGAATTTTAATTATAT-AATA
*
140025 TAGAAT-TTGAATTTTAAATTATCTAATA
1 TAGAATATTGAATTTT-AATTATATAATA
140053 TA
1 TA
140055 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (28 bp):
TAGAATATTGAATTTTAATTATATAATA
Found at i:142143 original size:16 final size:16
Alignment explanation
Indices: 142122--142183 Score: 106
Period size: 16 Copynumber: 3.9 Consensus size: 16
142112 AATTAGCAGC
* *
142122 AACATAGACAATTATA
1 AACATAAACATTTATA
142138 AACATAAACATTTATA
1 AACATAAACATTTATA
142154 AACATAAACATTTATA
1 AACATAAACATTTATA
142170 AACATAAACATTTA
1 AACATAAACATTTA
142184 AAGTTAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (16 bp):
AACATAAACATTTATA
Found at i:142300 original size:11 final size:10
Alignment explanation
Indices: 142283--142319 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
142273 CATAAGAGAG
142283 TTATAAACAA
1 TTATAAACAA
142293 TTATTAAACAA
1 TTA-TAAACAA
142304 TTATAAACAA
1 TTATAAACAA
*
142314 TCATAA
1 TTATAA
142320 CATGAGTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (10 bp):
TTATAAACAA
Found at i:149014 original size:21 final size:21
Alignment explanation
Indices: 148988--149035 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
148978 GTTTCCAGAT
148988 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
149009 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
149030 TCGCAA
1 TCGCAA
149036 TGTGATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:149080 original size:21 final size:21
Alignment explanation
Indices: 149055--149272 Score: 105
Period size: 21 Copynumber: 10.3 Consensus size: 21
149045 CCAAATTCGT
149055 GTTGCGATTTATTCAAAGTGC
1 GTTGCGATTTATTCAAAGTGC
* * *
149076 ATTGCGA--TAGTCGAAGTTCGC
1 GTTGCGATTTATTCAAAG-T-GC
*
149097 GTTGCGATTTATTCCAAA-TTC
1 GTTGCGATTTATT-CAAAGTGC
* *
149118 GTTGCGATTTATTCCAAATTCAC
1 GTTGCGATTTATT-CAAAGT-GC
* *
149141 GTTGCGA--TAGTCGAAGTTCGC
1 GTTGCGATTTATTCAAAG-T-GC
* *
149162 GTTGCGATTTATTCCAAGTTC
1 GTTGCGATTTATTCAAAGTGC
* *
149183 GTTGCGA--TAGTCGAAGTTCGC
1 GTTGCGATTTATTCAAAG-T-GC
* *
149204 GTTGCGATTTATTCCAAGTTC
1 GTTGCGATTTATTCAAAGTGC
* *
149225 GTTGCGA--TAGTCTAAGTTCGC
1 GTTGCGATTTATTCAAAG-T-GC
*
149246 GTTGCGATTTATTCCAAA-TTC
1 GTTGCGATTTATT-CAAAGTGC
149267 GTTGCG
1 GTTGCG
149273 GTAGTCCAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
19 21 0.14
20 6 0.04
21 85 0.56
22 5 0.03
23 28 0.19
24 6 0.04
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (21 bp):
GTTGCGATTTATTCAAAGTGC
Found at i:149148 original size:65 final size:63
Alignment explanation
Indices: 149043--149190 Score: 226
Period size: 65 Copynumber: 2.3 Consensus size: 63
149033 CAATGTGATT
149043 TTCCAAATTCGTGTTGCGATTTATTCAAAGTGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTA
1 TTCCAAATTC--GTTGCGATTTATTCAAAGTGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTA
*
149108 TTCCAAATTCGTTGCGATTTATTCCAAA-TTCACGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
1 TTCCAAATTCGTTGCGATTTATT-CAAAGTGCA--TTGCGATAGTCGAAGTTCGCGTTGCGATTT
149172 A
63 A
*
149173 TTCCAAGTTCGTTGCGAT
1 TTCCAAATTCGTTGCGAT
149191 AGTCGAAGTT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
63 16 0.21
64 4 0.05
65 58 0.74
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (63 bp):
TTCCAAATTCGTTGCGATTTATTCAAAGTGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTA
Found at i:149199 original size:42 final size:42
Alignment explanation
Indices: 149117--149287 Score: 270
Period size: 42 Copynumber: 4.0 Consensus size: 42
149107 ATTCCAAATT
149117 CGTTGCGATTTATTCCAAATTCACGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAATT--CGTTGCGATAGTCGAAGTTCG
*
149161 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
* *
149203 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCTAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
* * *
149245 CGTTGCGATTTATTCCAAATTCGTTGCGGTAGTCCAAATTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
149287 C
1 C
149288 AACGACTGGT
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
42 101 0.83
44 20 0.17
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
Found at i:149223 original size:65 final size:64
Alignment explanation
Indices: 149077--149287 Score: 193
Period size: 65 Copynumber: 3.3 Consensus size: 64
149067 TCAAAGTGCA
* *
149077 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCACG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA-TTAGTCCAAATTCACG
* * * * *
149142 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAATTCACG
* * * * *
149205 TTGCGATTTATTCCAAGTT--CGTTGCGA--TAGTCTAAGTTCGCGTTGCGATTTATTCCAAATT
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGA-TTAGTCCAAATT
149266 --CG
61 CACG
* *
149268 TTGCGGTAGTCCAAATTCGC
1 TTGCGATAGTCCAAGTTCGC
149288 AACGACTGGT
Statistics
Matches: 123, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
61 18 0.15
63 41 0.33
65 64 0.52
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (64 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAATTCACG
Found at i:149386 original size:6 final size:6
Alignment explanation
Indices: 149371--149418 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
149361 GACACGTATT
*
149371 ACCACG ACCACA ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
149416 ACC
1 ACC
149419 CGAGACGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 15 0.38
6 25 0.62
ACGTcount: A:0.31, C:0.54, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:149409 original size:5 final size:5
Alignment explanation
Indices: 149387--149421 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
149377 ACCACAACCA
149387 CGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
149422 GACGACGGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.26, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:149427 original size:15 final size:16
Alignment explanation
Indices: 149373--149427 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
149363 CACGTATTAC
*
149373 CACGACCACAACCACGA
1 CACGACCACGACC-CGA
149390 CCACGACCACGACCCGA
1 -CACGACCACGACCCGA
*
149407 CCCGACC-CGACCCGA
1 CACGACCACGACCCGA
*
149422 GACGAC
1 CACGAC
149428 GGCGCGCGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 12 0.36
16 6 0.18
17 3 0.09
18 12 0.36
ACGTcount: A:0.31, C:0.51, G:0.18, T:0.00
Consensus pattern (16 bp):
CACGACCACGACCCGA
Found at i:150184 original size:21 final size:19
Alignment explanation
Indices: 150159--150228 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
150149 GATTTTGGAC
*
150159 TATCGCAACGAATTTAGAA
1 TATCGCAACGAACTTAGAA
* *
150178 TAAATCGCAACGCGAACTTCGAC
1 T--ATCGCAA--CGAACTTAGAA
*
150201 TATCGCAACGAACTTAGAC
1 TATCGCAACGAACTTAGAA
150220 TATCGCAAC
1 TATCGCAAC
150229 AAATTTGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 20 0.47
21 14 0.33
23 9 0.21
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (19 bp):
TATCGCAACGAACTTAGAA
Found at i:150251 original size:61 final size:62
Alignment explanation
Indices: 150156--150291 Score: 184
Period size: 61 Copynumber: 2.2 Consensus size: 62
150146 TGCGATTTTG
* **
150156 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTCGACTATCGCAA-CGAACTTA
1 GACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTCGAAAATCGCAACCGAACTTA
* * * * *
150217 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAATTTGGAAAATTGCAACGCGAACTTC
1 GACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTCGAAAATCGCAAC-CGAACTTA
150280 GACTATCGCAAC
1 GACTATCGCAAC
150292 GCGAACTTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
61 46 0.71
63 19 0.29
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (62 bp):
GACTATCGCAACAAATTTAGAATAAATCGCAACGCGAACTTCGAAAATCGCAACCGAACTTA
Found at i:150264 original size:21 final size:21
Alignment explanation
Indices: 150230--150336 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
150220 TATCGCAACA
150230 AATTTGGAATAAATCGCAACGCG
1 AATTTGG-A-AAATCGCAACGCG
*
150253 AATTTGGAAAATTGCAACGCG
1 AATTTGGAAAATCGCAACGCG
* * **
150274 AACTTCGACTATCGCAACGCG
1 AATTTGGAAAATCGCAACGCG
* ** *
150295 AACTTGGACTATCGCAATGCG
1 AATTTGGAAAATCGCAACGCG
* * *
150316 AATAT-GTAAATCGCAATGCG
1 AATTTGGAAAATCGCAACGCG
150336 A
1 A
150337 TAGTCGAAGT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
20 13 0.18
21 50 0.70
22 1 0.01
23 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (21 bp):
AATTTGGAAAATCGCAACGCG
Found at i:150317 original size:42 final size:42
Alignment explanation
Indices: 150181--150317 Score: 138
Period size: 42 Copynumber: 3.3 Consensus size: 42
150171 TTTAGAATAA
*
150181 ATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTAGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
* * * * * **
150221 ATCGCAA--CAAATTTGGAATAAATCGCAACGCGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTGGACT
*
150263 ATTGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
*
150305 ATCGCAATGCGAA
1 ATCGCAACGCGAA
150318 TATGTAAATC
Statistics
Matches: 73, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
38 8 0.11
40 14 0.19
42 43 0.59
44 8 0.11
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (42 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
Found at i:152810 original size:6 final size:6
Alignment explanation
Indices: 152799--152825 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
152789 CAAATAGTTT
152799 ATTTTA ATTTTA ATTTTA ATTTTA ATT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATT
152826 ATATGTAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:154330 original size:29 final size:29
Alignment explanation
Indices: 154283--154365 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
154273 CTCACCTAAC
*
154283 TAAATTGATGTAAGTAATGACATCATTACT
1 TAAA-TGATGTAAGTAATGACATCATTAAT
* *
154313 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGTAATGACATCATTAAT
154342 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGTAATGACATCA
154366 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGTAATGACATCATTAAT
Found at i:157736 original size:15 final size:15
Alignment explanation
Indices: 157716--157745 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
157706 CTTTCTCATA
157716 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
157731 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
157746 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:159021 original size:29 final size:29
Alignment explanation
Indices: 158978--159060 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
158968 CTCACCTAAC
*
158978 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
* *
159008 TAAATGATGTAAGCAGTGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
159037 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
159061 ATTTAGTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 43 0.91
30 4 0.09
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:162261 original size:19 final size:19
Alignment explanation
Indices: 162228--162264 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
162218 ATGACCAACA
**
162228 AAATCGCAATGCGATCTCT
1 AAATCGCAACACGATCTCT
162247 AAATCGCAACACGATCTC
1 AAATCGCAACACGATCTC
162265 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:162402 original size:21 final size:21
Alignment explanation
Indices: 162376--162457 Score: 146
Period size: 21 Copynumber: 3.9 Consensus size: 21
162366 TCCAAAATCA
*
162376 TTGCGATAACACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
162397 TTGCGACAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
162418 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
162439 TTGCGATAGCACTGTTCAC
1 TTGCGATAGCACTGTTCAC
162458 ATTTTATAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:162582 original size:16 final size:17
Alignment explanation
Indices: 162553--162604 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
162543 ATCATAAATA
*
162553 ATTTAGAATTTATATTT
1 ATTTAAAATTTATATTT
*
162570 ATTT-AATTTTATA-TT
1 ATTTAAAATTTATATTT
162585 ATTTAAAATTTATAGTTT
1 ATTTAAAATTTATA-TTT
162603 AT
1 AT
162605 CATAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 4 0.14
18 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTTAAAATTTATATTT
Found at i:162986 original size:16 final size:17
Alignment explanation
Indices: 162957--163008 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
162947 ATCATAAATA
*
162957 ATTTAGAATTTATATTT
1 ATTTAAAATTTATATTT
*
162974 ATTT-AATTTTATA-TT
1 ATTTAAAATTTATATTT
162989 ATTTAAAATTTATAGTTT
1 ATTTAAAATTTATA-TTT
163007 AT
1 AT
163009 CATAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.21
16 15 0.52
17 4 0.14
18 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
ATTTAAAATTTATATTT
Found at i:163191 original size:21 final size:21
Alignment explanation
Indices: 163165--163248 Score: 125
Period size: 21 Copynumber: 4.0 Consensus size: 21
163155 AATTCGCAAT
*
163165 GTGAACAGTGCTATCGCAATG
1 GTGAACAGTGCTATCGCAACG
163186 GTGAACAGTGCTATCGCAACG
1 GTGAACAGTGCTATCGCAACG
163207 GT-AAGCAGTGCTATCGCAACG
1 GTGAA-CAGTGCTATCGCAACG
* *
163228 GTAAACAGTGCTATCGTAACG
1 GTGAACAGTGCTATCGCAACG
163249 CGAATTCGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
20 2 0.03
21 55 0.93
22 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (21 bp):
GTGAACAGTGCTATCGCAACG
Found at i:163262 original size:21 final size:21
Alignment explanation
Indices: 163238--163287 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
163228 GTAAACAGTG
*
163238 CTATCGTAACGCGAATTCGGA
1 CTATCGCAACGCGAATTCGGA
*
163259 CTATCGCAACGCGAATTTGGA
1 CTATCGCAACGCGAATTCGGA
163280 CTATCGCA
1 CTATCGCA
163288 TTATGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
CTATCGCAACGCGAATTCGGA
Found at i:164838 original size:149 final size:149
Alignment explanation
Indices: 164594--164897 Score: 547
Period size: 149 Copynumber: 2.0 Consensus size: 149
164584 ACCGAAGTGT
164594 CGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGA
1 CGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGA
** *
164659 ATCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAATA
66 ATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAATA
164724 TATATATATCCCGAAGGAC
131 TATATATATCCCGAAGGAC
*
164743 CGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGA
1 CGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGA
*
164808 ATCATATACATATGCTAGGGATCATA-TATGTGTCTCACCAGACTTCACACATGTTCCAAAGAAT
66 ATCATATACATATGCTAGGGATCA-AGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAAT
164872 ATATATATATCCCGAAGGAC
130 ATATATATATCCCGAAGGAC
164892 CGCGTA
1 CGCGTA
164898 AACCCTCGAC
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 148 0.99
150 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAGA
ATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAATA
TATATATATCCCGAAGGAC
Found at i:165453 original size:2 final size:2
Alignment explanation
Indices: 165446--165497 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
165436 TCTCTTAGAC
165446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
165488 AT AT AT AT AT
1 AT AT AT AT AT
165498 CACATGTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:166273 original size:64 final size:64
Alignment explanation
Indices: 166157--166297 Score: 185
Period size: 64 Copynumber: 2.2 Consensus size: 64
166147 GCACTACACC
* * *
166157 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATAGGGATACATCGATGAACTCCTT
1 ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATAGGCATACATCGATGAACTCCAT
** * * *
166221 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAA-ATTCATGCATCGATGCACTGCAT
1 ATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTTAATAGGCATACATCGATGAACTCCAT
*
166285 GTGCATCGATGCA
1 ATGCATCGATGCA
166298 CCTTAAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
64 57 0.85
65 10 0.15
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATAGGCATACATCGATGAACTCCAT
Found at i:169452 original size:23 final size:23
Alignment explanation
Indices: 169426--169470 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
169416 CACCACAGCT
*
169426 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
169449 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
169471 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:169691 original size:149 final size:151
Alignment explanation
Indices: 169438--169754 Score: 534
Period size: 149 Copynumber: 2.1 Consensus size: 151
169428 TATAATTGCA
169438 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
**
169502 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTT
*
169567 CCACAG-A-ATATATATATATC
130 CCAAAGAATATATATATATATC
* *
169587 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCATATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
*
169652 TCCTTAAGAATCATATACATATGCTAGGGATCATA-TATGTGTCTCACCAGACTTCACACATGTT
66 TCCTTAAGAATCATATACATATGCTAGGGATCA-AGTATGTGTCTCACAAGACTTCACACATGTT
169716 CCAAAGAATATATATATATATC
130 CCAAAGAATATATATATATATC
169738 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
169755 CCCTCGACTC
Statistics
Matches: 158, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
148 1 0.01
149 125 0.79
150 2 0.01
151 30 0.19
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (151 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTC
CAAAGAATATATATATATATC
Found at i:170308 original size:2 final size:2
Alignment explanation
Indices: 170301--170336 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
170291 TCTCTTAGAC
170301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
170337 CACATGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:171078 original size:64 final size:63
Alignment explanation
Indices: 170980--171140 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
170970 TAATGAAGGT
* *
170980 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
171043 GG
62 GC
*
171045 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
171109 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
171141 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:174263 original size:60 final size:61
Alignment explanation
Indices: 174199--174318 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 61
174189 TTTCATCTTT
*
174199 AAACTAT-GACTATCATTCTAAATTAATCCTCAAACTTTTT-AACATTTCAATCTT-ATCCCC
1 AAACTATGGACT-TCATTCTAAATTAATCCTCAAACTTTTTGAACATTCCAAT-TTCATCCCC
* **
174259 AAACTATGGCCTTCATTCTAAATTGGTCCTCAAACTTTTTGAACATTCCAATTTCATCCC
1 AAACTATGGACTTCATTCTAAATTAATCCTCAAACTTTTTGAACATTCCAATTTCATCCC
174319 AAAGTATATG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
60 35 0.66
61 18 0.34
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (61 bp):
AAACTATGGACTTCATTCTAAATTAATCCTCAAACTTTTTGAACATTCCAATTTCATCCCC
Found at i:182754 original size:31 final size:31
Alignment explanation
Indices: 182716--182786 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
182706 TAAATTAATA
182716 TTAAAATATATATTTAATAAGATTTAATTTT
1 TTAAAATATATATTTAATAAGATTTAATTTT
182747 TTAAAATATATATTTAATAAGATTTAATTTT
1 TTAAAATATATATTTAATAAGATTTAATTTT
182778 TTAAAATAT
1 TTAAAATAT
182787 TTAAAATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
TTAAAATATATATTTAATAAGATTTAATTTT
Found at i:182777 original size:29 final size:30
Alignment explanation
Indices: 182701--182786 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
182691 TTTATAAATC
*
182701 TTTAATAA-A-TTAA-TATTAAAATATATA
1 TTTAATAAGATTTAATTTTTAAAATATATA
182728 TTTAATAAGATTTAATTTTTTAAAATATATA
1 TTTAATAAGATTTAA-TTTTTAAAATATATA
182759 TTTAATAAGATTTAATTTTTTAAAATAT
1 TTTAATAAGATTTAA-TTTTTAAAATAT
182787 TTAAAATAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
27 8 0.15
28 1 0.02
29 4 0.07
31 41 0.76
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
TTTAATAAGATTTAATTTTTAAAATATATA
Found at i:182790 original size:17 final size:17
Alignment explanation
Indices: 182737--182790 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
182727 ATTTAATAAG
182737 ATTTAATTTTTTAAAAT
1 ATTTAATTTTTTAAAAT
* *
182754 A--T-A-TATTTAATAAG
1 ATTTAATTTTTTAA-AAT
182768 ATTTAATTTTTTAAAAT
1 ATTTAATTTTTTAAAAT
182785 ATTTAA
1 ATTTAA
182791 AATAATCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
13 6 0.21
14 4 0.14
15 1 0.04
16 1 0.04
17 10 0.36
18 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTAATTTTTTAAAAT
Found at i:189235 original size:49 final size:49
Alignment explanation
Indices: 189142--189238 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
189132 CTCGATTCAC
* *
189142 CACATCATCTATAATCTCAATGAATGAGAATCACAATCTATACATATCA
1 CACATCATCGATAATCTCAATGAATGAGAATCACAATCCATACATATCA
* * * * * *
189191 CACATCATCGATGATCTTAATGAATGATAGTCACATTCCGTACATATC
1 CACATCATCGATAATCTCAATGAATGAGAATCACAATCCATACATATC
189239 TACTAAGCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (49 bp):
CACATCATCGATAATCTCAATGAATGAGAATCACAATCCATACATATCA
Found at i:195114 original size:60 final size:61
Alignment explanation
Indices: 195044--195160 Score: 132
Period size: 62 Copynumber: 1.9 Consensus size: 61
195034 ACTATTTTGT
* * * * *
195044 AACTTTTAATAGTC-AAAGACTTAATAAAAA-ATACCCTATAATCA-AAGAATCATTTTTTTA
1 AACTTCTAATAATCGAAA-ACTCAATAAAATAATACCCTATAACCATAAG-ATCATTTTTTTA
*
195104 AACTTCTAATAATCGGATAACTCAATAAAATAATACCCTATAACCATAAGATCATTT
1 AACTTCTAATAATC-GAAAACTCAATAAAATAATACCCTATAACCATAAGATCATTT
195161 GTGTACTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
60 12 0.26
61 10 0.21
62 22 0.47
63 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (61 bp):
AACTTCTAATAATCGAAAACTCAATAAAATAATACCCTATAACCATAAGATCATTTTTTTA
Done.