Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002844.1 Hibiscus syriacus cultivar Beakdansim tig00005856_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: 1090609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:265566 original size:54 final size:54
Alignment explanation
Indices: 265166--265577 Score: 264
Period size: 54 Copynumber: 7.5 Consensus size: 54
265156 ATTAGTATGA
* *
265166 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
* *
265220 ATTGATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTT--AA-ATA-
1 ATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATAG
* * * * * *
265264 ATTTATTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
1 ATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTATTTT--A-AA---A-TA-T
265328 ATGG
53 A--G
* * * *
265332 ATTGATTTATTTTAAATAATTTATTTGTATAGATTAATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
265386 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-ATA-
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
* * * * * * *** *
265436 ATTTATTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGG
1 ATTGATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATAG
265498 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
265552 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTTAAATAATTTATTA
265578 TTGTAGTTGT
Statistics
Matches: 274, Mismatches: 43, Indels: 82
0.69 0.11 0.21
Matches are distributed among these distances:
44 7 0.03
45 3 0.01
46 2 0.01
48 22 0.08
49 5 0.02
50 19 0.07
51 4 0.01
52 6 0.02
54 114 0.42
55 3 0.01
56 5 0.02
57 4 0.01
58 16 0.06
59 1 0.00
60 2 0.01
61 4 0.01
62 16 0.06
63 3 0.01
64 17 0.06
65 2 0.01
66 2 0.01
68 14 0.05
69 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (54 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
Found at i:265799 original size:20 final size:20
Alignment explanation
Indices: 265774--265822 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
265764 TGCTGCAGAT
265774 GCCTGCAGATGTGGTCCGCA
1 GCCTGCAGATGTGGTCCGCA
265794 GCCTGCAGATGTGGTCCGCA
1 GCCTGCAGATGTGGTCCGCA
*
265814 GACTGCAGA
1 GCCTGCAGA
265823 CCATTTACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (20 bp):
GCCTGCAGATGTGGTCCGCA
Found at i:266513 original size:28 final size:28
Alignment explanation
Indices: 266482--266538 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
266472 AATACGTATC
*
266482 TTTTTTCTTAAAAAGCATAAATTGTCAA
1 TTTTTTCTTAAAAAGAATAAATTGTCAA
266510 TTTTTTCTTAAAAAGAATAAATTGTCAA
1 TTTTTTCTTAAAAAGAATAAATTGTCAA
266538 T
1 T
266539 ACTTAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTTTCTTAAAAAGAATAAATTGTCAA
Found at i:266550 original size:29 final size:28
Alignment explanation
Indices: 266489--266560 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
266479 ATCTTTTTTC
* * ***
266489 TTAAAAAGCATAAATTGTCAATTTTTTC
1 TTAAAAAGAATAAATTGTCAATCTTAAA
266517 TTAAAAAGAATAAATTGTCAATACTTAAA
1 TTAAAAAGAATAAATTGTCAAT-CTTAAA
*
266546 TTAAAATGAAGTAAA
1 TTAAAAAGAA-TAAA
266561 ACAAAACAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 21 0.58
29 11 0.31
30 4 0.11
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (28 bp):
TTAAAAAGAATAAATTGTCAATCTTAAA
Found at i:266989 original size:2 final size:2
Alignment explanation
Indices: 266982--267046 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
266972 TAAAACCCTA
266982 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
267024 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
267047 ATGTAAAACC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:270624 original size:102 final size:102
Alignment explanation
Indices: 270513--270743 Score: 258
Period size: 102 Copynumber: 2.3 Consensus size: 102
270503 TGAGTGGAAA
*** ** * *
270513 GAAATTTGTTTAAA-GAGAAGTTATCTCAAGTGAGATCAGA-TTTGTTTTGAGTGAAACATTTTC
1 GAAATTTGTTTAAAGGA-AAACAATCTCAAGTGAGATCA-ATTTTGTTTCAAGTAAAACAATTTC
*
270576 AAAATTTGTGTTTCAAGGAAAAACTATCTCAAGCGAGAT
64 AAAATTTATGTTTCAAGGAAAAACTATCTCAAGCGAGAT
**
270615 GAAATTTGTTTTTAGGAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTAAAACAATTTCAA
1 GAAATTTGTTTAAAGGAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTAAAACAATTTCAA
* *
270680 AATTTATGTTTCAAGGGAAAACTGTCTCAAGC-A-A-
66 AATTTATGTTTCAAGGAAAAACTATCTCAAGCGAGAT
**
270714 GACAATTTGTTTCGA-GAGAAACAATCTCAA
1 GA-AATTTGTTTAAAGGA-AAACAATCTCAA
270744 AGGCTTATGT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
99 4 0.04
100 23 0.21
101 2 0.02
102 80 0.72
103 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (102 bp):
GAAATTTGTTTAAAGGAAAACAATCTCAAGTGAGATCAATTTTGTTTCAAGTAAAACAATTTCAA
AATTTATGTTTCAAGGAAAAACTATCTCAAGCGAGAT
Found at i:270642 original size:36 final size:36
Alignment explanation
Indices: 270577--270679 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 36
270567 AACATTTTCA
* *
270577 AAATTTGTGTTTCAAGGAAAAACTATCTCAAGCGAGATG
1 AAATTTGT-TTT-AAGG-AAAACAATCTCAAGCGAGATC
* *
270616 AAATTTGTTTTTAGGAAAACAATCTCAAGTGAGATC
1 AAATTTGTTTTAAGGAAAACAATCTCAAGCGAGATC
* * * *
270652 AATTTTGTTTCAAGTAAAACAATTTCAA
1 AAATTTGTTTTAAGGAAAACAATCTCAA
270680 AATTTATGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
36 41 0.75
37 3 0.05
38 3 0.05
39 8 0.15
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (36 bp):
AAATTTGTTTTAAGGAAAACAATCTCAAGCGAGATC
Found at i:270737 original size:64 final size:67
Alignment explanation
Indices: 270638--270802 Score: 178
Period size: 66 Copynumber: 2.5 Consensus size: 67
270628 AGGAAAACAA
* * * * **
270638 TCTCAAGTGAGATCAATTTTGTTTCAAGTA-AAACAATTTCAAA-ATTTATGTTTCAAG-GGAAA
1 TCTCAAGAGAGA-CAAATTTGTTTCAAG-AGAAACAATCTCAAAGACTTATGTTTCAAGAAAAAA
*
270700 ACTG
64 AATG
* *
270704 TCTCAAGCA-AGAC-AATTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCAAGAAAAAAA
1 TCTCAAG-AGAGACAAATTTGTTTCAAGAGAAACAATCTCAAAGACTTATGTTTCAAGAAAAAAA
270767 ATG
65 ATG
270770 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
1 TCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAA
270803 TTGTCTCAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
63 1 0.01
64 23 0.28
65 14 0.17
66 27 0.33
68 17 0.21
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (67 bp):
TCTCAAGAGAGACAAATTTGTTTCAAGAGAAACAATCTCAAAGACTTATGTTTCAAGAAAAAAAA
TG
Found at i:270811 original size:68 final size:65
Alignment explanation
Indices: 270655--270802 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 65
270645 TGAGATCAAT
* ** ** *
270655 TTTGTTTCAAGTA-AAACAATTTCAAA-ATTTATGTTTCAAGGGAAAACTGTCTCAAGCAAGACA
1 TTTGTTTCAAG-AGAAACAATCTCAAAGGCTTATGTTTCAAGAAAAAAATGTCTCAAGCAAGACA
270718 A
65 A
*
270719 TTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCAAGAAAAAAAATGTCTCAAG-AGAGAC
1 TTTGTTTCAAGAGAAACAATCTCAAAGGCTTATGTTTCAAG-AAAAAAATGTCTCAAGCA-AGAC
270783 AAAA
64 --AA
270787 TTTGTTTCAAGAGAAA
1 TTTGTTTCAAGAGAAA
270803 TTGTCTCAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 22 0.31
65 13 0.19
66 17 0.24
68 17 0.24
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (65 bp):
TTTGTTTCAAGAGAAACAATCTCAAAGGCTTATGTTTCAAGAAAAAAATGTCTCAAGCAAGACAA
Found at i:274347 original size:32 final size:32
Alignment explanation
Indices: 274306--274495 Score: 263
Period size: 32 Copynumber: 5.9 Consensus size: 32
274296 GAGTCAAGTG
274306 TTACCTATGTCTTTCGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
** *
274338 TTACCTATGTCTTTCACGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
*
274370 TTACCTATGTCTTTTGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
* **
274402 TTACCTATGTCTTTCGGGACATATAGACATTA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
* * * **
274434 TTACCTATGTATTTCAGGATATATGGACAAAA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
*
274466 TTACCTATGTCTTTCGAGACATATGGACAG
1 TTACCTATGTCTTTCGGGACATATGGACAG
274496 TTACCCATGT
Statistics
Matches: 136, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 136 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGGA
Found at i:274470 original size:96 final size:96
Alignment explanation
Indices: 274306--274495 Score: 290
Period size: 96 Copynumber: 2.0 Consensus size: 96
274296 GAGTCAAGTG
* * **
274306 TTACCTATGTCTTTCGGGACATATGGACAGGATTACCTATGTCTTTCACGACATATGGACAGTAT
1 TTACCTATGTCTTTCGGGACATATAGACAGGATTACCTATGTATTTCACGACATATGGACAAAAT
* *
274371 TACCTATGTCTTTTGGGACATATGGACAGGA
66 TACCTATGTCTTTCGAGACATATGGACAGGA
** * *
274402 TTACCTATGTCTTTCGGGACATATAGACATTATTACCTATGTATTTCAGGATATATGGACAAAAT
1 TTACCTATGTCTTTCGGGACATATAGACAGGATTACCTATGTATTTCACGACATATGGACAAAAT
274467 TACCTATGTCTTTCGAGACATATGGACAG
66 TACCTATGTCTTTCGAGACATATGGACAG
274496 TTACCCATGT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (96 bp):
TTACCTATGTCTTTCGGGACATATAGACAGGATTACCTATGTATTTCACGACATATGGACAAAAT
TACCTATGTCTTTCGAGACATATGGACAGGA
Found at i:276360 original size:23 final size:24
Alignment explanation
Indices: 276334--276389 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
276324 TTTTTAAATA
276334 TTTTGAAAATAAATAATATATAGT
1 TTTTGAAAATAAATAATATATAGT
* * *
276358 TTTTGAAAATATATATTATATTG-
1 TTTTGAAAATAAATAATATATAGT
276381 TTTTGAAAA
1 TTTTGAAAA
276390 CTTTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (24 bp):
TTTTGAAAATAAATAATATATAGT
Found at i:276497 original size:38 final size:38
Alignment explanation
Indices: 276354--276703 Score: 432
Period size: 38 Copynumber: 9.3 Consensus size: 38
276344 AAATAATATA
* *
276354 TAGTTTTT-GAAAATATATATTATATTGTTTTGAAAACT
1 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAA-T
* *
276392 T--TTTTTAAAATATATATATATATAATATAGTTTTTAAAAA
1 TAGTTTTTAAAA-A-ATATATAT-T-ATATAGTTTTGAAAAT
*
276432 CA-TTTTTGAAAAACATATATATTATATAGTTTTGAAAAT
1 TAGTTTTT-AAAAA-ATATATATTATATAGTTTTGAAAAT
276471 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
1 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
*
276509 TAGTTTTTAAAATATATATATTATATAGTTTTGAAAAT
1 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
*
276547 TAGTTTTT--AAAATATATATTATACAGTTTTGAAAAT
1 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
276583 TAGTTTTTAAAAACATATATATTATATAGTTTTGAAAAT
1 TAGTTTTTAAAAA-ATATATATTATATAGTTTTGAAAAT
* *
276622 TAGTTTTT-AAAAATATATATTATATGGTTTTTAAAAT
1 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
* * * * *
276659 TA-TTTTT-TAAAACATATATTGTATAGTTTTAAAAAA
1 TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
276695 T-GTTTTTAA
1 TAGTTTTTAA
276704 TTTATTTATC
Statistics
Matches: 277, Mismatches: 22, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
36 73 0.26
37 27 0.10
38 79 0.29
39 60 0.22
40 7 0.03
41 27 0.10
42 4 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (38 bp):
TAGTTTTTAAAAAATATATATTATATAGTTTTGAAAAT
Found at i:276584 original size:112 final size:111
Alignment explanation
Indices: 276393--276703 Score: 410
Period size: 112 Copynumber: 2.7 Consensus size: 111
276383 TTGAAAACTT
**
276393 TTTTTAAAATATATATATATATAATATAGTTTTTAAAAACATTTTTGAAAAACATATATATTATA
1 TTTTTAAAA-A-ATATATAT-T-ATATAGTTTTTAAAATTATTTTT---AAA-ATATATATTATA
*
276458 TAGTTTTGAAAATTAGTTTTTAAAAAATATATATTATATAGTTTTGAAAATTAG
58 TAGTTTTGAAAATTAGTTTTTAAAACATATATATTATATAGTTTTGAAAATTAG
* * *
276512 TTTTTAAAATATATATATTATATAGTTTTGAAAATTAGTTTTTAAAATATATATTATACAGTTTT
1 TTTTTAAAAAATATATATTATATAGTTTTTAAAATTA-TTTTTAAAATATATATTATATAGTTTT
276577 GAAAATTAGTTTTTAAAAACATATATATTATATAGTTTTGAAAATTAG
65 GAAAATTAGTTTTT-AAAACATATATATTATATAGTTTTGAAAATTAG
* * *
276625 TTTTT-AAAAATATATATTATATGGTTTTTAAAATTATTTTTTAAAACATATATTGTATAGTTTT
1 TTTTTAAAAAATATATATTATATAGTTTTTAAAATTA-TTTTTAAAATATATATTATATAGTTTT
* *
276689 AAAAAAT-GTTTTTAA
65 GAAAATTAGTTTTTAA
276704 TTTATTTATC
Statistics
Matches: 175, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
110 2 0.01
111 6 0.03
112 89 0.51
113 40 0.23
115 15 0.09
116 6 0.03
117 8 0.05
119 9 0.05
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (111 bp):
TTTTTAAAAAATATATATTATATAGTTTTTAAAATTATTTTTAAAATATATATTATATAGTTTTG
AAAATTAGTTTTTAAAACATATATATTATATAGTTTTGAAAATTAG
Found at i:276712 original size:4 final size:4
Alignment explanation
Indices: 276703--276759 Score: 80
Period size: 4 Copynumber: 14.0 Consensus size: 4
276693 AATGTTTTTA
*
276703 ATTT ATTT ATCT ATTT ATTT ATTT ATTTT ATTT CATTT A-TT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT -ATTT ATTT ATTT ATTT
276752 ATTT ATTT
1 ATTT ATTT
276760 TATTATTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
3 3 0.06
4 37 0.77
5 8 0.17
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:276747 original size:29 final size:29
Alignment explanation
Indices: 276698--276763 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 29
276688 TAAAAAATGT
276698 TTTTAATTTATTTATCTATTTATTTATTTA
1 TTTT-ATTTATTTATCTATTTATTTATTTA
276728 TTTTATTTCATTTAT-TATTTATTTATTTA
1 TTTTATTT-ATTTATCTATTTATTTATTTA
276757 TTTTATT
1 TTTTATT
276764 ATTGTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTTATTTATTTATCTATTTATTTATTTA
Found at i:276766 original size:8 final size:9
Alignment explanation
Indices: 276699--276763 Score: 64
Period size: 8 Copynumber: 7.2 Consensus size: 9
276689 AAAAAATGTT
*
276699 TTTAATTTA
1 TTTATTTTA
*
276708 TTTA-TCTA
1 TTTATTTTA
276716 TTTA-TTTA
1 TTTATTTTA
276724 TTTATTTTA
1 TTTATTTTA
276733 TTTCATTTATTA
1 TTT-A-TT-TTA
276745 TTTA-TTTA
1 TTTATTTTA
276753 TTTATTTTA
1 TTTATTTTA
276762 TT
1 TT
276764 ATTGTTTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
8 21 0.43
9 18 0.37
10 1 0.02
11 3 0.06
12 6 0.12
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTTTA
Found at i:278075 original size:22 final size:21
Alignment explanation
Indices: 278027--278161 Score: 77
Period size: 22 Copynumber: 6.3 Consensus size: 21
278017 TTTCATTCTT
*
278027 TTTTTTTA-TT-TTTTT-ATT
1 TTTTTTTATTTCTTTTTAATA
278045 TTTTGTATTATTTCTTTTTAATA
1 TTTT-T-TTATTTCTTTTTAATA
278068 --TTTTTATTTCATTTTTTAATA
1 TTTTTTTATTTC--TTTTTAATA
278089 TTTTTTATATGTT-TTTTT-ATA
1 TTTTTT-TAT-TTCTTTTTAATA
* * *
278110 TGTTTTTTTTTTCAATTTTATTTA
1 T-TTTTTTATTTC-TTTTTA-ATA
* *
278134 TTTTTTTATTATCATATTAATA
1 TTTTTTTATT-TCTTTTTAATA
278156 TTTTTT
1 TTTTTT
278162 GTATCTATTT
Statistics
Matches: 93, Mismatches: 7, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
18 4 0.04
19 8 0.09
20 6 0.06
21 19 0.20
22 27 0.29
23 19 0.20
24 8 0.09
25 2 0.02
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTTTATTTCTTTTTAATA
Found at i:278085 original size:21 final size:19
Alignment explanation
Indices: 278052--278093 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
278042 ATTTTTTGTA
278052 TTATTTCTTTTTAATATTT
1 TTATTTCTTTTTAATATTT
278071 TTATTTCATTTTTTAATATTT
1 TTATTTC--TTTTTAATATTT
278092 TT
1 TT
278094 TATATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.33
21 14 0.67
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTCTTTTTAATATTT
Found at i:278140 original size:12 final size:12
Alignment explanation
Indices: 278013--278143 Score: 50
Period size: 12 Copynumber: 11.5 Consensus size: 12
278003 TGTTTTTTAC
278013 TTTATTTCATTCTT
1 TTTATTT-ATT-TT
*
278027 TTTTTTTATTTT
1 TTTATTTATTTT
278039 TTTA--T-TTTT
1 TTTATTTATTTT
* *
278048 TGTA-TTATTTC
1 TTTATTTATTTT
* *
278059 TTT-TTAATATT
1 TTTATTTATTTT
278070 TTTATTTCA-TTT
1 TTTATTT-ATTTT
*
278082 TTTA-ATA-TTT
1 TTTATTTATTTT
* *
278092 TTTATATGTTTT
1 TTTATTTATTTT
* *
278104 TTTATATGTTTT
1 TTTATTTATTTT
*
278116 TTT-TTTCA--AT
1 TTTATTT-ATTTT
278126 TTTATTTATTTT
1 TTTATTTATTTT
278138 TTTATT
1 TTTATT
278144 ATCATATTAA
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
9 7 0.08
10 15 0.17
11 20 0.22
12 38 0.42
13 4 0.04
14 6 0.07
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:281955 original size:6 final size:6
Alignment explanation
Indices: 281324--281939 Score: 691
Period size: 6 Copynumber: 102.5 Consensus size: 6
281314 AAACCCTAAT
* * * * *
281324 ATACAC ATACAC ATACAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
* * * * * * * *
281372 ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
* * * * * * * *
281420 ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
* * * * * * * *
281468 ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC ATGCAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
* * *
281516 ATGCAC ATGCAC ATGCAC ATACAC ATACAC ATACAC ATACAC ATACAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
*** * * * * ** * * * *
281564 ATATGT A-ACAC ACACAC ACACGC ACA-AGC ACGCGC ACACGC ACACGA-
1 ATACAC ATACAC ATACAC ATACAC ATACA-C ATACAC ATACAC ATAC-AC
* * * * * * *
281611 ATA-AGC ATATGCAT ATACAT ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATACA-C ATA--CAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
281661 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
281709 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
281757 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
281805 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
281853 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC
281901 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATA
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAC ATA
281940 TGTAACACAC
Statistics
Matches: 582, Mismatches: 19, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
4 1 0.00
5 2 0.00
6 575 0.99
8 3 0.01
9 1 0.00
ACGTcount: A:0.44, C:0.32, G:0.07, T:0.17
Consensus pattern (6 bp):
ATACAC
Found at i:281979 original size:6 final size:6
Alignment explanation
Indices: 281972--282116 Score: 245
Period size: 6 Copynumber: 24.2 Consensus size: 6
281962 GCACGCGTAC
* * * *
281972 ACGCAC ACGAAT AAGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGTAT
1 ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT
*
282020 ACGCAT ATGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT
1 ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT
282068 ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT
1 ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT ACGCAT
282116 A
1 A
282117 ATTATTGTTG
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 130 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (6 bp):
ACGCAT
Found at i:284134 original size:2 final size:2
Alignment explanation
Indices: 284065--284118 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
284055 GGTGTGCCAA
284065 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
284107 AT AT AT AT AT AT
1 AT AT AT AT AT AT
284119 CTGTTTAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:289359 original size:3 final size:3
Alignment explanation
Indices: 289351--289405 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
289341 AAGCACGGTT
289351 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
289399 TTA TTA T
1 TTA TTA T
289406 GATGATGATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:291975 original size:2 final size:2
Alignment explanation
Indices: 291968--291997 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
291958 GTGAAGACGA
291968 AG AG 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 AG AG
291998 GAAGTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:298156 original size:2 final size:2
Alignment explanation
Indices: 298149--298188 Score: 62
Period size: 2 Copynumber: 19.0 Consensus size: 2
298139 GTGACTAAAA
298149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT
298189 TGGCATATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 32 0.89
3 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:305328 original size:20 final size:21
Alignment explanation
Indices: 305284--305330 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
305274 TTATTTTTTT
*
305284 TAATATATACTTGTTTTCAAA
1 TAATATATACTTGTTTTAAAA
305305 -AATATATA-TT-TTTTAAATA
1 TAATATATACTTGTTTTAAA-A
305324 TAATATA
1 TAATATA
305331 CACATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 14 0.61
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATATATACTTGTTTTAAAA
Found at i:305365 original size:2 final size:2
Alignment explanation
Indices: 305360--305384 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
305350 TATTTTTCCA
305360 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 A
305385 AAAGAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:305411 original size:42 final size:40
Alignment explanation
Indices: 305364--305465 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 40
305354 TTTCCAATAT
305364 ATATATATATATATATATATAAAAGAACTATACATTTTCAAA
1 ATATATATATATATATATATAAAAG--CTATACATTTTCAAA
* * *
305406 ATATATAATACATATATACTTTAAAAGCTATATATTTTCAAA
1 ATATAT-ATATATATATA-TATAAAAGCTATACATTTTCAAA
*
305448 ATA-ATATATACATATATA
1 ATATATATATATATATATA
305466 ATTATATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.02
40 9 0.17
41 2 0.04
42 23 0.44
43 10 0.19
44 7 0.13
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (40 bp):
ATATATATATATATATATATAAAAGCTATACATTTTCAAA
Found at i:310533 original size:19 final size:18
Alignment explanation
Indices: 310506--310561 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
310496 ATAAATTAAG
*
310506 TTTTT-TTAAAAAAAATC
1 TTTTTATTAAAAAAAATA
310523 TTTTTCATTAAAAAATAATA
1 TTTTT-ATTAAAAAA-AATA
310543 TTTTTATTATTAAAAAAAT
1 TTTTTATTA--AAAAAAAT
310562 TAAAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 5 0.15
19 12 0.36
20 11 0.33
21 5 0.15
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTTTATTAAAAAAAATA
Found at i:310536 original size:20 final size:20
Alignment explanation
Indices: 310512--310561 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
310502 TAAGTTTTTT
*
310512 TAAAAAAAATCTTTTTCATTA
1 TAAAAAAAATATTTTT-ATTA
*
310533 -AAAAATAATATTTTTATTA
1 TAAAAAAAATATTTTTATTA
*
310552 TTAAAAAAAT
1 TAAAAAAAAT
310562 TAAAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAAAAATATTTTTATTA
Found at i:322340 original size:43 final size:43
Alignment explanation
Indices: 322271--322425 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 43
322261 GCGACGTTTG
* * * *
322271 TAGGTGTTGAGGTTTAGCAGCGTTTTTCCCACAAACGTCGTAA
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCTCACAAACGTCGCAA
* * *
322314 TAGGTGTTGAGTTTTAGTGGCTTTTTTCTCACAAACGTCGCAA
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCTCACAAACGTCGCAA
* * *
322357 TAGGTGTTAAGATTTAGCGGCGTTTTTCTCACAAACGCCACAA
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCTCACAAACGTCGCAA
* *
322400 TAGGTGTTGAGATTTAACGGTGTTTT
1 TAGGTGTTGAGATTTAGCGGCGTTTT
322426 GTGGGTGTTG
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (43 bp):
TAGGTGTTGAGATTTAGCGGCGTTTTTCTCACAAACGTCGCAA
Found at i:322579 original size:44 final size:44
Alignment explanation
Indices: 322525--322642 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
322515 AAGATATTTT
* * *
322525 GCGACATTTTTTGGATACAAACGCTGCTAAAGGTCTGGTATATA
1 GCGACGTTTTTTGGATACAAACGCCGCTAAAGGTATGGTATATA
* * *
322569 GCGACGTTTTTAGGATACAAACGCCGCAAAATGTATGGTATATA
1 GCGACGTTTTTTGGATACAAACGCCGCTAAAGGTATGGTATATA
* **
322613 ACGGTGTTTTTT--ATTACAAACGCCGCTAAA
1 GCGACGTTTTTTGGA-TACAAACGCCGCTAAA
322643 AAACACATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.02
43 15 0.24
44 46 0.74
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
GCGACGTTTTTTGGATACAAACGCCGCTAAAGGTATGGTATATA
Found at i:323042 original size:21 final size:21
Alignment explanation
Indices: 322960--323064 Score: 104
Period size: 21 Copynumber: 5.0 Consensus size: 21
322950 CTGCTGATAT
* *
322960 GTTGCTTCTCTCTGTGCTGCC
1 GTTGCTTCTCTCTCTGCTTCC
* * * * *
322981 GCTGCTTCTCTTTGTACTACC
1 GTTGCTTCTCTCTCTGCTTCC
** *
323002 ACTGCTTCTCTCTCTACTTCC
1 GTTGCTTCTCTCTCTGCTTCC
323023 GTTGCTTCTCTCTCTGCTTCC
1 GTTGCTTCTCTCTCTGCTTCC
323044 GTTG-TTGCTCTCTCTGCTTCC
1 GTTGCTT-CTCTCTCTGCTTCC
323065 CTTTCTTCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
20 2 0.03
21 70 0.97
ACGTcount: A:0.04, C:0.36, G:0.15, T:0.45
Consensus pattern (21 bp):
GTTGCTTCTCTCTCTGCTTCC
Found at i:328281 original size:18 final size:18
Alignment explanation
Indices: 328258--328301 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
328248 TTAGAAAGTT
*
328258 TTCGACTCCATTTCGATA
1 TTCGACGCCATTTCGATA
328276 TTCGACGCCATTTCGATA
1 TTCGACGCCATTTCGATA
328294 TTCGACGC
1 TTCGACGC
328302 TAACCCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (18 bp):
TTCGACGCCATTTCGATA
Found at i:332249 original size:41 final size:41
Alignment explanation
Indices: 332204--332316 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
332194 ATATAAGTTT
*
332204 GCGGCGTTTGTAAAAAAACGCATCTATAGTGCTAA-TATATC
1 GCGGCGTTTGTAAAAAAACGCATCTATAGT-CTAACTATATA
* * * *
332245 GCGGCGTTTACTTAAAAAACGCCA-CTATTGTCTAACTCTATA
1 GCGGCGTTT-GTAAAAAAACG-CATCTATAGTCTAACTATATA
** *
332287 GCGGCGTTTGTACGAAAACGCCTCTATAGT
1 GCGGCGTTTGTAAAAAAACGCATCTATAGT
332317 TCAACTCTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
40 1 0.02
41 26 0.46
42 28 0.49
43 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTGTAAAAAAACGCATCTATAGTCTAACTATATA
Found at i:332291 original size:42 final size:42
Alignment explanation
Indices: 332245--332546 Score: 190
Period size: 42 Copynumber: 7.3 Consensus size: 42
332235 CTAATATATC
* *
332245 GCGGCGTTTACTTA-AAAAACGCCACTATTGTCTAACTCTATA
1 GCGGCGTTTA-TTACGAAAACGCCACTATTGTCCAACTCTATA
* * * *
332287 GCGGCGTTT-GTACGAAAACGCCTCTATAGTTCAACTCTATCA
1 GCGGCGTTTATTACGAAAACGCCACTATTGTCCAACTCTAT-A
* * * * *
332329 -CGACATTTACTTA-TAAAATGCCACTACTGTCCAACTCTATA
1 GCGGCGTTTA-TTACGAAAACGCCACTATTGTCCAACTCTATA
* * * * * * *
332370 GCGGCGTTT-GTACGAAAACGCCTCTATAGTTCAAATATATC
1 GCGGCGTTTATTACGAAAACGCCACTATTGTCCAACTCTATA
* * * * *
332411 TCGACGTTTACTTA-TAAAACGCCACTAATATCCAACTCTATA
1 GCGGCGTTTA-TTACGAAAACGCCACTATTGTCCAACTCTATA
* * * * * *
332453 GCGGCATTT-GTACGAAAATGCCTCTATAT-TTCAACTCTATC
1 GCGGCGTTTATTACGAAAACGCCACTAT-TGTCCAACTCTATA
* * * *
332494 TCGGCGTTTACTTA-TAAAACGCCACTAATGTCCAACTCTGTA
1 GCGGCGTTTA-TTACGAAAACGCCACTATTGTCCAACTCTATA
332536 GCGGCGTTTAT
1 GCGGCGTTTAT
332547 ATAAAAACGC
Statistics
Matches: 187, Mismatches: 60, Indels: 27
0.68 0.22 0.10
Matches are distributed among these distances:
40 6 0.03
41 84 0.45
42 91 0.49
43 6 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTATTACGAAAACGCCACTATTGTCCAACTCTATA
Found at i:332323 original size:41 final size:41
Alignment explanation
Indices: 332260--332544 Score: 172
Period size: 41 Copynumber: 6.9 Consensus size: 41
332250 GTTTACTTAA
*
332260 AAAACGCCACTATTG-TCTAACTCTATAGCGGCGTTTGTACG
1 AAAACGCCACTATAGTTC-AACTCTATAGCGGCGTTTGTACG
* * * * *
332301 AAAACGCCTCTATAGTTCAACTCTATCA-CGACATTTACTTA-T
1 AAAACGCCACTATAGTTCAACTCTAT-AGCGGCGTTT--GTACG
* *
332343 AAAATGCCACTACT-GTCCAACTCTATAGCGGCGTTTGTACG
1 AAAACGCCACTA-TAGTTCAACTCTATAGCGGCGTTTGTACG
* * * ** * * *
332384 AAAACGCCTCTATAGTTCAAATATATCTCGACGTTTACTTA-T
1 AAAACGCCACTATAGTTCAACTCTATAGCGGCGTTT--GTACG
* *
332426 AAAACGCCACTAATA-TCCAACTCTATAGCGGCATTTGTACG
1 AAAACGCCACT-ATAGTTCAACTCTATAGCGGCGTTTGTACG
* * * ** * *
332467 AAAATGCCTCTATATTTCAACTCTATCTCGGCGTTTACTTA-T
1 AAAACGCCACTATAGTTCAACTCTATAGCGGCGTTT--GTACG
* *
332509 AAAACGCCACTA-ATGTCCAACTCTGTAGCGGCGTTT
1 AAAACGCCACTATA-GTTCAACTCTATAGCGGCGTTT
332545 ATATAAAAAC
Statistics
Matches: 180, Mismatches: 48, Indels: 31
0.69 0.19 0.12
Matches are distributed among these distances:
40 8 0.04
41 81 0.45
42 81 0.45
43 10 0.06
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (41 bp):
AAAACGCCACTATAGTTCAACTCTATAGCGGCGTTTGTACG
Found at i:332352 original size:83 final size:83
Alignment explanation
Indices: 332204--332544 Score: 468
Period size: 83 Copynumber: 4.1 Consensus size: 83
332194 ATATAAGTTT
** * * * * *
332204 GCGGCGTTTGTAAAAAAACGCATCTATAGTGCTAA-TATATCGCGGCGTTTACTTAAAAAACGCC
1 GCGGCGTTTGTACGAAAACGCCTCTATAGTTC-AACTATATCTCGACGTTTACTTATAAAACGCC
* *
332268 ACTATTGTCTAACTCTATA
65 ACTAATGTCCAACTCTATA
* * * *
332287 GCGGCGTTTGTACGAAAACGCCTCTATAGTTCAACTCTATCACGACATTTACTTATAAAATGCCA
1 GCGGCGTTTGTACGAAAACGCCTCTATAGTTCAACTATATCTCGACGTTTACTTATAAAACGCCA
*
332352 CTACTGTCCAACTCTATA
66 CTAATGTCCAACTCTATA
*
332370 GCGGCGTTTGTACGAAAACGCCTCTATAGTTCAAATATATCTCGACGTTTACTTATAAAACGCCA
1 GCGGCGTTTGTACGAAAACGCCTCTATAGTTCAACTATATCTCGACGTTTACTTATAAAACGCCA
*
332435 CTAATATCCAACTCTATA
66 CTAATGTCCAACTCTATA
* * * * *
332453 GCGGCATTTGTACGAAAATGCCTCTATATTTCAACTCTATCTCGGCGTTTACTTATAAAACGCCA
1 GCGGCGTTTGTACGAAAACGCCTCTATAGTTCAACTATATCTCGACGTTTACTTATAAAACGCCA
*
332518 CTAATGTCCAACTCTGTA
66 CTAATGTCCAACTCTATA
332536 GCGGCGTTT
1 GCGGCGTTT
332545 ATATAAAAAC
Statistics
Matches: 229, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
82 2 0.01
83 227 0.99
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (83 bp):
GCGGCGTTTGTACGAAAACGCCTCTATAGTTCAACTATATCTCGACGTTTACTTATAAAACGCCA
CTAATGTCCAACTCTATA
Found at i:332620 original size:41 final size:42
Alignment explanation
Indices: 332575--332668 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
332565 TACTACTCTT
*
332575 TTGCAGCGTTTATT-GAAAAAAGCCACTATAGGGGTACACTA
1 TTGCAACGTTTATTGGAAAAAAGCCACTATAGGGGTACACTA
* * * * *
332616 TTGCAACGTTTGTTGGTAAAACGCCGCTATAGGGGTAGACTA
1 TTGCAACGTTTATTGGAAAAAAGCCACTATAGGGGTACACTA
*
332658 TTGCGACGTTT
1 TTGCAACGTTT
332669 GTAAAGAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 12 0.27
42 33 0.73
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TTGCAACGTTTATTGGAAAAAAGCCACTATAGGGGTACACTA
Found at i:332651 original size:42 final size:42
Alignment explanation
Indices: 332591--332670 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
332581 CGTTTATTGA
332591 AAAAAGCCACTATAGGGGTACACTATTGCAACGTTTGTTGGT
1 AAAAAGCCACTATAGGGGTACACTATTGCAACGTTTGTTGGT
* * * *
332633 AAAACGCCGCTATAGGGGTAGACTATTGCGACGTTTGT
1 AAAAAGCCACTATAGGGGTACACTATTGCAACGTTTGT
332671 AAAGAAACGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
AAAAAGCCACTATAGGGGTACACTATTGCAACGTTTGTTGGT
Found at i:333669 original size:22 final size:22
Alignment explanation
Indices: 333641--333682 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
333631 CACGTTTTCA
333641 AAAGCTATTATTTTCCTATTTG
1 AAAGCTATTATTTTCCTATTTG
*
333663 AAAGCTATTATTTTTCTATT
1 AAAGCTATTATTTTCCTATT
333683 CGAAGGCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (22 bp):
AAAGCTATTATTTTCCTATTTG
Found at i:334220 original size:6 final size:6
Alignment explanation
Indices: 334209--334261 Score: 83
Period size: 6 Copynumber: 9.0 Consensus size: 6
334199 AAAAGTTAAT
334209 TAAAAA TAAAAA TAAAAAA TAAAAA T--AAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
334256 TAAAAA
1 TAAAAA
334262 AGGACTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.09
6 34 0.77
7 6 0.14
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:334224 original size:23 final size:23
Alignment explanation
Indices: 334212--334259 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
334202 AGTTAATTAA
334212 AAATAAAAATAAAAAATAAAAAT
1 AAATAAAAATAAAAAATAAAAAT
334235 AAATAAAAAT-AAAAATAAAAAT
1 AAATAAAAATAAAAAATAAAAAT
334257 AAA
1 AAA
334260 AAAGGACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (23 bp):
AAATAAAAATAAAAAATAAAAAT
Found at i:334271 original size:29 final size:29
Alignment explanation
Indices: 334195--334261 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
334185 TAACAATGAT
* *
334195 AAATAAAAGTTAATTAAAAATAAAAATAAA
1 AAATAAAA-ATAAATAAAAATAAAAATAAA
334225 AAATAAAAATAAATAAAAATAAAAAT-AA
1 AAATAAAAATAAATAAAAATAAAAATAAA
334253 AAATAAAAA
1 AAATAAAAA
334262 AGGACTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 11 0.31
29 16 0.46
30 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.01, T:0.19
Consensus pattern (29 bp):
AAATAAAAATAAATAAAAATAAAAATAAA
Found at i:336084 original size:106 final size:106
Alignment explanation
Indices: 335887--337575 Score: 2883
Period size: 106 Copynumber: 16.0 Consensus size: 106
335877 GTTTCGATGT
* *
335887 CAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACAATCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* * * * *
335946 CGCCCCTTCGTCGTAAAGTTGAGCTTGTGTTGTCTTGG-GTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTC
* * * * *
335987 CAAGATCCTTCGCTGAGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
336052 GATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * * * *
336093 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGT
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* *
336158 GGTCCCTTCGTCCTGAAGTTGAACTTGTGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
336199 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
336264 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
336305 CAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
336370 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
336411 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTTTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
336476 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
336517 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
336582 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
336623 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* *
336688 GGTCCCTTCGTCGTGAAGTTGAGCTTGCGTTGTCTGAAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
336729 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
336794 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
336835 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
336900 GGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
336941 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
337006 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
337047 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-AGGAAATTGTTTGTTGACAACCAG
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAGTTGTTTGTTGACAACCAG
337111 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
337153 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
337218 GGCCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
337259 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
*
337324 GGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* *
337365 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAAGTTATTTATTGACAACCAG
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTGTTGACAACCAG
**
337429 CGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTC
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
337471 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
* *
337536 GGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
337576 GGCACGATAT
Statistics
Matches: 1507, Mismatches: 71, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
100 31 0.02
101 2 0.00
102 2 0.00
103 2 0.00
105 6 0.00
106 1462 0.97
107 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
Found at i:341739 original size:6 final size:6
Alignment explanation
Indices: 341728--341887 Score: 67
Period size: 6 Copynumber: 26.7 Consensus size: 6
341718 GTTAGATTGT
* * * ** * * *
341728 AAAATA AAAATA AAAATG AATATG AAAA-A AATGTT AATATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * * * *
341775 ATAATA ATAATA ATAATA ATAATA ATAATA AAAGA-A ATAAA-A TAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA A-AAATA AAAATA
* * * * * *
341823 ACAATGA TAAATA AAAGTT AATA-A AAAAGA AAAATAA AAAATA AAAATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA
341872 AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAA
341888 AGGACCAAAA
Statistics
Matches: 120, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
5 7 0.06
6 100 0.83
7 13 0.11
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:341772 original size:3 final size:3
Alignment explanation
Indices: 341762--341805 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
341752 AAAAAAATGT
341762 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
341806 AAGAAATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:341860 original size:13 final size:13
Alignment explanation
Indices: 341842--341889 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
341832 AATAAAAGTT
341842 AATAAAAAAGAAA
1 AATAAAAAAGAAA
*
341855 AATAAAAAATAAA
1 AATAAAAAAGAAA
*
341868 AAT-AAAAATAAA
1 AATAAAAAAGAAA
341880 AATAAAAAAG
1 AATAAAAAAG
341890 GACCAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.12
Consensus pattern (13 bp):
AATAAAAAAGAAA
Found at i:343250 original size:22 final size:22
Alignment explanation
Indices: 343210--343252 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
343200 TATTATTAAC
*
343210 AATAATAATAATAATATAAAAA
1 AATAATAATAATAAGATAAAAA
* *
343232 AATAATAATTATACGATAAAA
1 AATAATAATAATAAGATAAAA
343253 TGTTTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAAGATAAAAA
Found at i:343654 original size:41 final size:40
Alignment explanation
Indices: 343605--343730 Score: 108
Period size: 42 Copynumber: 3.0 Consensus size: 40
343595 AGTATATTTT
343605 TTGCGGCGTTTTTTGCACAAACGCCACTATATACAACTCTA
1 TTGCGGCGTTTTTTG-ACAAACGCCACTATATACAACTCTA
* * * * *
343646 TTGTGGCGTTTGTTTGATAAACACCACTAAATTACTACTCTA
1 TTGCGGCGTTT-TTTGACAAACGCCACTATA-TACAACTCTA
* * * * * * *
343688 TAGCGTCGCTTGTTGGACAAACGCCATTATAAACAACCCTA
1 TTGCGGCG-TTTTTTGACAAACGCCACTATATACAACTCTA
343729 TT
1 TT
343731 ATAGTATTTG
Statistics
Matches: 64, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
41 30 0.47
42 32 0.50
43 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (40 bp):
TTGCGGCGTTTTTTGACAAACGCCACTATATACAACTCTA
Found at i:347508 original size:24 final size:24
Alignment explanation
Indices: 347481--347537 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
347471 GTGTGGGGGT
347481 GGGCTGGAGAATCGTAGAAGGAGA
1 GGGCTGGAGAATCGTAGAAGGAGA
*
347505 GGGCTGGAGAATCGTAGAGGGAGA
1 GGGCTGGAGAATCGTAGAAGGAGA
347529 GGGCTGGAG
1 GGGCTGGAG
347538 GTAGGGGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.51, T:0.12
Consensus pattern (24 bp):
GGGCTGGAGAATCGTAGAAGGAGA
Found at i:347621 original size:19 final size:19
Alignment explanation
Indices: 347578--347622 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
347568 GAATAATAAA
347578 AAAATAAATTATTATGATT
1 AAAATAAATTATTATGATT
347597 -AAATAAATT-TTAGTGATT
1 AAAATAAATTATTA-TGATT
347615 AAAATAAA
1 AAAATAAA
347623 AGAGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 14 0.58
19 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAATAAATTATTATGATT
Found at i:349957 original size:186 final size:184
Alignment explanation
Indices: 349640--350000 Score: 580
Period size: 186 Copynumber: 2.0 Consensus size: 184
349630 ATTAAATTTT
* *
349640 AAATATTAAATATATTATATATAACATATGGGCTCACCCAAACCATTTAAAACTCAATTAATAAT
1 AAATATTAAATATATTATATATAACATATGGGCTAACCCAAACCATTTAAAACCCAATTAATAAT
* * *
349705 TTAAGATACAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTT
66 TTAAAATACAATAACTTTTAAACCTAAATCAATATTAATCAATTAAAAAAATTATATAAAATTTT
*
349770 TATTTTATAATTATATATTATTTAAATTAATTGCAAACTGTTTTTTATAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTACAAACT-TTTTTTATAATTAAA
349825 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAA-CCCAAACCATTTAAAACCCAATTAATAA
* * * * *
349890 TTTAAAATCCAATAACTTTTAAACCTAAATTAATATTAATCAATT-AAAAAATATATCTGATATT
65 TTTAAAATACAATAACTTTTAAACCTAAATCAATATTAATCAATTAAAAAAAT-TATATAAAATT
*
349954 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTT
129 TTTATTTTATAATTATATATTATTTAAATTAATTACAAACTTTTTTT
350001 GAATTTAAAA
Statistics
Matches: 162, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
185 48 0.30
186 114 0.70
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGCTAACCCAAACCATTTAAAACCCAATTAATAAT
TTAAAATACAATAACTTTTAAACCTAAATCAATATTAATCAATTAAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTACAAACTTTTTTTATAATTAAA
Found at i:362251 original size:4 final size:4
Alignment explanation
Indices: 362242--362280 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
362232 TCCAACTATG
*
362242 TATT TATT TATT TATT TATT CATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
362281 ACATGCATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:363025 original size:3 final size:3
Alignment explanation
Indices: 363019--363073 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
363009 ATTTGGTTTT
363019 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTTA TTA TTA TTAA TT- TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA
363066 TTA -TA TTA
1 TTA TTA TTA
363074 CAGGCCCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.09
3 34 0.72
4 9 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:363034 original size:13 final size:13
Alignment explanation
Indices: 363018--363069 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
363008 CATTTGGTTT
363018 TTTATTATTATTA
1 TTTATTATTATTA
363031 TTTATTATTATTA
1 TTTATTATTATTA
363044 -TTATTTATTATTA
1 TTTA-TTATTATTA
*
363057 TTAATT-TTATTA
1 TTTATTATTATTA
363069 T
1 T
363070 ATTACAGGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
12 10 0.28
13 24 0.67
14 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:363038 original size:16 final size:16
Alignment explanation
Indices: 363019--363073 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
363009 ATTTGGTTTT
363019 TTATTATTATTATTTA
1 TTATTATTATTATTTA
363035 TTATTATTATTATTTA
1 TTATTATTATTATTTA
*
363051 TTATTATTAAT-TTTA
1 TTATTATTATTATTTA
363066 TTA-TATTA
1 TTATTATTA
363074 CAGGCCCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
14 5 0.13
15 7 0.18
16 26 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTATTATTTA
Found at i:372132 original size:114 final size:113
Alignment explanation
Indices: 371928--372150 Score: 374
Period size: 114 Copynumber: 2.0 Consensus size: 113
371918 GTGCCACGTT
371928 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTTGGAAGTGTTCTTTGAGTTATCTGATCTGA
* * * *
371993 TTTGGTATGAACCCCAAAACTAATCATTAGATTTGAAAGATGAATTTG
66 TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
*
372041 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTATGGAAGTGTTCTTTGATTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTT-TGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
372106 GTTCGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAA
65 ATTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
372151 CTGTGTGATC
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 35 0.34
114 67 0.66
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (113 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTTGGAAGTGTTCTTTGAGTTATCTGATCTGA
TTCGGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTG
Found at i:373292 original size:76 final size:75
Alignment explanation
Indices: 373209--373384 Score: 210
Period size: 76 Copynumber: 2.3 Consensus size: 75
373199 TTAGCATCTG
*
373209 TATCAGCAAATGTTGGGGCATGCTGAAAACCTTTTTTCAATCAGAATCAGGAA-TGTTGATGTAT
1 TATCAGCAAATGTTGGGGCATGCTGAAAACC-TTTTTCAATCAGAATCAAGAAGT-TTGATGTAT
* *
373273 CCTGAATGTTTA
64 CCTGAACGTTCA
* * * * *
373285 TATCAGCAAAATGCTGGGGCATGCTGAAAGCCTTTTTCAATCAGAATGAATAAGTTTGATGTATT
1 TATCAGC-AAATGTTGGGGCATGCTGAAAACCTTTTTCAATCAGAATCAAGAAGTTTGATGTATC
* *
373350 TTGAACGTTCG
65 CTGAACGTTCA
* *
373361 TATAAGCAATTGTTGGGGCATGCT
1 TATCAGCAAATGTTGGGGCATGCT
373385 AAAGGCCCAC
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
75 15 0.18
76 47 0.55
77 23 0.27
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (75 bp):
TATCAGCAAATGTTGGGGCATGCTGAAAACCTTTTTCAATCAGAATCAAGAAGTTTGATGTATCC
TGAACGTTCA
Found at i:375526 original size:36 final size:36
Alignment explanation
Indices: 375480--375666 Score: 167
Period size: 37 Copynumber: 5.1 Consensus size: 36
375470 TAGAACTTTA
375480 TCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTG
* ** ** ** * *
375516 TCTCGCTTGAGACAGTTTCACTCGAAACAGAACTTTA
1 TCTCACTTGAGATTGTTTTTCTTAAAACA-AAATTTG
375553 TCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTG
** ** ** ** * *
375589 TCTTGCTTGAGACAGTTTCACTCGAAACAGAACTTTA
1 TCTCACTTGAGATTGTTTTTCTTAAAACA-AAATTTG
*
375626 TCTCACTTGAGATTGTTTTTCTTAAAATAAAGATTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTG
375663 TCTC
1 TCTC
375667 GTTTAAGACA
Statistics
Matches: 109, Mismatches: 39, Indels: 5
0.71 0.25 0.03
Matches are distributed among these distances:
36 50 0.46
37 59 0.54
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (36 bp):
TCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTG
Found at i:375563 original size:37 final size:37
Alignment explanation
Indices: 375471--375637 Score: 149
Period size: 36 Copynumber: 4.6 Consensus size: 37
375461 GTTTTCAAAT
** ** *
375471 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AGAACTTTATCTCACTTGAGACAGTTTCACTCAAAAC
* * * *
375508 A-AAATTTGTCTCGCTTGAGACAGTTTCACTCGAAAC
1 AGAACTTTATCTCACTTGAGACAGTTTCACTCAAAAC
** ** *
375544 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AGAACTTTATCTCACTTGAGACAGTTTCACTCAAAAC
* * ** *
375581 A-AAATTTGTCTTGCTTGAGACAGTTTCACTCGAAAC
1 AGAACTTTATCTCACTTGAGACAGTTTCACTCAAAAC
375617 AGAACTTTATCTCACTTGAGA
1 AGAACTTTATCTCACTTGAGA
375638 TTGTTTTTCT
Statistics
Matches: 96, Mismatches: 32, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
36 53 0.55
37 43 0.45
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (37 bp):
AGAACTTTATCTCACTTGAGACAGTTTCACTCAAAAC
Found at i:375590 original size:73 final size:73
Alignment explanation
Indices: 375471--375679 Score: 373
Period size: 73 Copynumber: 2.8 Consensus size: 73
375461 GTTTTCAAAT
375471 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
1 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
375536 CTCGAAAC
66 CTCGAAAC
*
375544 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTTGCTTGAGACAGTTTCA
1 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
375609 CTCGAAAC
66 CTCGAAAC
* * *
375617 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAATAAAGATTTGTCTCGTTTAAGACAGTT
1 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-ATTTGTCTCGCTTGAGACAGTT
375680 ATTTCGAATT
Statistics
Matches: 130, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
73 111 0.85
74 19 0.15
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (73 bp):
AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
CTCGAAAC
Found at i:376078 original size:76 final size:76
Alignment explanation
Indices: 375849--376142 Score: 516
Period size: 76 Copynumber: 3.9 Consensus size: 76
375839 TATTTTCCAT
* *
375849 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCATA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
375914 GCCTTAGGGTC
66 GCCTTAGGGTC
** *
375925 ATCTGTAAGTCCTGTAGTGCATGATGTTTCAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
375990 AGCCTTAGGGTC
65 AGCCTTAGGGTC
*
376002 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
376067 GCCTTAGGGTC
66 GCCTTAGGGTC
*
376078 ATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
376143 ACATTCGATG
Statistics
Matches: 208, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
76 136 0.65
77 72 0.35
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:376291 original size:113 final size:113
Alignment explanation
Indices: 376144--377134 Score: 1684
Period size: 113 Copynumber: 8.8 Consensus size: 113
376134 GTTTTCAAAA
376144 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376209 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
* * *
376257 CATTCGATGGATCAACATTACCAGGTGGATTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376322 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
* * *
376370 CATTCGATGGATTAGCATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376434 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
*
376482 CATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376547 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
* *
376595 CATTCGATAGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376660 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
* *
376708 CATTCGATGGATCAGCATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* *
376772 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTTAAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
* * *
376820 CATTCGATTGATCAGCATTACCGGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
376885 AGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCAT
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTT-GCTTGAATTCAT
* * *
376933 CATTCGATTGATCAGCATTACCAGGTAGAGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAG
* *
376998 AAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCAT
65 AAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTT-GCTTGAATTCAT
* * * * *
377047 CATTCGATAGATCAGCATTGCCAGGTCGAGTTCATAATGAAAAGAACTCATCTGAAGAAAGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
377112 AGAAGTTCATAATGAGAAGAACT
66 AGAAGTTCATAATGAGAAGAACT
377135 CATCTGAAGA
Statistics
Matches: 835, Mismatches: 39, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
112 216 0.26
113 511 0.61
114 108 0.13
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCAT
Found at i:376561 original size:225 final size:226
Alignment explanation
Indices: 376144--377134 Score: 1684
Period size: 225 Copynumber: 4.4 Consensus size: 226
376134 GTTTTCAAAA
*
376144 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATAGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376209 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
* *
376274 TTACCAGGTGGATTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
131 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
376339 AGAACTTATTCAACCTTTTGCTTGAATTCAT
196 AGAACTTATTCAACCTTTTGCTTGAATTCAT
* * * *
376370 CATTCGATGGATTAGCATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATAGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376434 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
376499 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
131 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
376564 AGAACTTATTCAACCTTTTGCTTGAATTCAT
196 AGAACTTATTCAACCTTTTGCTTGAATTCAT
*
376595 CATTCGATAGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATAGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
376660 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCA
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
* *
376725 TTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
131 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
376789 AGAACTTATTCAACCTTTCGCTTAAATTCAT
196 AGAACTTATTCAACCTTTTGCTTGAATTCAT
* * *
376820 CATTCGATTGATCAGCATTACCGGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATAGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* * *
376885 AGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATTGATCAGC
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTT-GCTTGAATTCATCATTCGATGGATCAAC
* * *
376949 ATTACCAGGTAGAGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAA
130 ATTACCAGGTAGAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
377014 GAAGAACTTGTTCAA-CTTTTCGCTTGAATTCAT
194 GAAGAACTTATTCAACCTTTT-GCTTGAATTCAT
* * * *
377047 CATTCGATAGATCAGCATTGCCAGGTCGAGTTCATAATGAAAAGAACTCATCTGAAGAAAGAAGA
1 CATTCGATAGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
377112 AGAAGTTCATAATGAGAAGAACT
66 AGAAGTTCATAATGAGAAGAACT
377135 CATCTGAAGA
Statistics
Matches: 724, Mismatches: 36, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
224 5 0.01
225 427 0.59
226 144 0.20
227 148 0.20
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (226 bp):
CATTCGATAGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTATTCAACCTTTTGCTTGAATTCAT
Found at i:376760 original size:338 final size:338
Alignment explanation
Indices: 376144--377134 Score: 1725
Period size: 338 Copynumber: 2.9 Consensus size: 338
376134 GTTTTCAAAA
376144 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
376209 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAACA
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATAGATCAACA
* *
376274 TTACCAGGTGGATTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
131 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
376339 AGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATTAGCATTTCCAGAAGAGTTCAT
196 AGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCAT
376404 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTT
261 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTT
* *
376469 TGCTTGAATTCAT
326 CGCTTAAATTCAT
*
376482 CATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
376547 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATAGATCAACA
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATAGATCAACA
376612 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
131 TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
376677 AGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCAT
196 AGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCAT
376742 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTT
261 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTT
376807 CGCTTAAATTCAT
326 CGCTTAAATTCAT
* * *
376820 CATTCGATTGATCAGCATTACCGGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* * *
376885 AGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATTGATCAGC
66 AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTT-GCTTGAATTCATCATTCGATAGATCAAC
* * *
376949 ATTACCAGGTAGAGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAA
130 ATTACCAGGTAGAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * **
377014 GAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATAGATCAGCATTGCCAGGTCGAGT
194 GAAGAACTTATTCAACCTTTT-GCTTGAATTCATCATTCGATGGATCAGCATTTCCA-GAAGAGT
* *
377078 TCATAATGAAAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACT
257 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
377135 CATCTGAAGA
Statistics
Matches: 625, Mismatches: 24, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
337 5 0.01
338 471 0.75
339 89 0.14
340 60 0.10
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (338 bp):
CATTCGATGGATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATAGATCAACA
TTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTT
CGCTTAAATTCAT
Found at i:377132 original size:40 final size:40
Alignment explanation
Indices: 377075--377172 Score: 178
Period size: 40 Copynumber: 2.5 Consensus size: 40
377065 TGCCAGGTCG
*
377075 AGTTCATAATGAAAAGAACTCATCTGAAGAAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
*
377115 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
377155 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
377173 TTTGTTCAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.18
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
Found at i:377155 original size:153 final size:153
Alignment explanation
Indices: 376961--377287 Score: 537
Period size: 153 Copynumber: 2.1 Consensus size: 153
376951 TACCAGGTAG
*
376961 AGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTT
* * *
377026 CAACTTTTCGCTTGAATTCATCATTCGATAGATCAGCATTGCCAGGTCGAGTTCATAATGAAAAG
65 CAACTTTTCACTTGAATTCATCATTCAATAGATCAACATTGCCAGGTCGAGTTCATAATGAAAAG
377091 AACTCATCTGAAGAAAGAAGAAGA
130 AACTCATCTGAAGAAAGAAGAAGA
* * *
377115 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTTC
* * *
377180 AACTTTTCACTTGAATTCATCATTCAATTGATCAACATTGTCAGGTCGAGTTCATAATGAGAAGA
66 AACTTTTCACTTGAATTCATCATTCAATAGATCAACATTGCCAGGTCGAGTTCATAATGAAAAGA
* *
377245 ACTCATCTGAAGAAGGAAGAATA
131 ACTCATCTGAAGAAAGAAGAAGA
377268 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
377288 TGTTCAACTT
Statistics
Matches: 161, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
153 154 0.96
154 7 0.04
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (153 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTTC
AACTTTTCACTTGAATTCATCATTCAATAGATCAACATTGCCAGGTCGAGTTCATAATGAAAAGA
ACTCATCTGAAGAAAGAAGAAGA
Found at i:377157 original size:380 final size:378
Alignment explanation
Indices: 376730--377412 Score: 1134
Period size: 380 Copynumber: 1.8 Consensus size: 378
376720 CAGCATTTCC
376730 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * * *
376795 TATTCAACCTTTCGCTTAAATTCATCATTCGATTGATCAGCATTACCGGGTAGAGTTCATAATAA
66 TATTCAACCTTTCACTTAAATTCATCATTCAATTGATCAACATTACCAGGTAGAGTTCATAATAA
376860 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
131 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
* * *
376925 GAATTCATCATTCGATTGATCAGCATTACCAGGTAGAGTTCATAAATAAGAAGAACTCATCTGAA
196 GAAATCATCACTCGATTGATCAGCATTACC-GGAAGAGTTCAT-AATAAGAAGAACTCATCTGAA
376990 GAAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGA
259 GAAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTCGCTTGAATTCATCATTCGA
377054 TAGATCAGCATTGCCAGGTCGAGTTCATAATGAAAAGAACTCATCTGAAGAAAGA
324 TAGATCAGCATTGCCAGGTCGAGTTCATAATGAAAAGAACTCATCTGAAGAAAGA
*
377109 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * ** * *
377174 TTGTTCAACTTTTCACTTGAATTCATCATTCAATTGATCAACATTGTCAGGTCGAGTTCATAATG
65 TTATTCAACCTTTCACTTAAATTCATCATTCAATTGATCAACATTACCAGGTAGAGTTCATAATA
* *
377239 AGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCT
130 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCT
* * *
377304 TGAAATCATCACTCGATTGATGAGCATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
195 TGAAATCATCACTCGATTGATCAGCATTACCGGAAGAGTTCATAATAAGAAGAACTCATCTGAAG
* *
377369 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
260 AAGGAAAAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTT
377413 GCATGACTCT
Statistics
Matches: 280, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
378 57 0.20
379 21 0.08
380 202 0.72
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (378 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
TATTCAACCTTTCACTTAAATTCATCATTCAATTGATCAACATTACCAGGTAGAGTTCATAATAA
GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTT
GAAATCATCACTCGATTGATCAGCATTACCGGAAGAGTTCATAATAAGAAGAACTCATCTGAAGA
AGGAAAAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTCGCTTGAATTCATCATTCGATA
GATCAGCATTGCCAGGTCGAGTTCATAATGAAAAGAACTCATCTGAAGAAAGA
Found at i:377232 original size:113 final size:112
Alignment explanation
Indices: 377110--377658 Score: 506
Period size: 123 Copynumber: 4.7 Consensus size: 112
377100 GAAGAAAGAA
*
377110 GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
1 GAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* *
377175 TGTTCAACTTTTCACTTGAATTCATCATTCAATTGATCAACATTGTCAG
65 TGTTCAACTTTTCACTTGAAATCATCACTCAATTGATCAACATTG-CAG
** *
377224 GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTT
1 GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
** * * * *
377289 GTTCAACTTTTTGCTTGAAATCATCACTCGATTGATGAGCATTGCCG
66 GTTCAACTTTTCACTTGAAATCATCACTCAATTGATCAACATTGCAG
377336 GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* ** * *
377401 GTTCAACCTTTTGCA--TG-ACTCTATCACAGAAGGAGGTAGATCAGCATACACTTTTCCAG
66 GTTCAA-CTTTT-CACTTGAAATC-ATCAC-TCA--A--TTGAT---CA-ACA---TTGCAG
*
377460 AGAA-AGTTCATAATGAGAATAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACT
1 -GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* ** * *
377523 TGTTCAACCTTTTGCA--T-AACTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAG
65 TGTTCAA-CTTTT-CACTTGAAATC-ATCAC----TCA-ATTGAT---CA-ACA---TTGCAG
377583 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACT
1 -GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
377646 TGTTCAACCTTTT
65 TGTTCAA-CTTTT
377659 GCATGACTAT
Statistics
Matches: 385, Mismatches: 30, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
111 3 0.01
112 77 0.20
113 101 0.26
114 2 0.01
115 1 0.00
117 4 0.01
120 1 0.00
121 2 0.01
123 154 0.40
124 32 0.08
125 5 0.01
126 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (112 bp):
GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACTTTTCACTTGAAATCATCACTCAATTGATCAACATTGCAG
Found at i:377564 original size:123 final size:123
Alignment explanation
Indices: 377340--377868 Score: 843
Period size: 123 Copynumber: 4.3 Consensus size: 123
377330 TTGCCGGAAG
377340 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
377405 AACCTTTTGCATGACTCTATCACAGAAGGAGGTAGATCAGCATACACTTTTCCAGAGAA
65 AACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCCAGAGAA
*
377464 AGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
*
377529 ACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
66 ACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCCAGAGAA
377587 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * *
377652 ACCTTTTGCATGACTATATCACAGAAGGAGATAGATTAGCATACACTTTTCCAGAGAA
66 ACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCCAGAGAA
*
377710 AGTTCATAATGAGAATAACTCATCTGAAGAGGAAGAA-ACAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGA-AGTTCATAATGAGAAGAACTTGTTC
* * * * *
377774 AACCTTTTGCA-AGATTCTATCACAGAAGAAGATAGATCAGCAT-CAACATTGCCAGA-AG
65 AACCTTTTGCATA-ACTCTATCACAGAAGGAGATAGATCAGCATAC-ACTTTTCCAGAGAA
* *
377832 TGTTCATAATAAGAAGAACTCATCTGAA-AGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAG-GAAGAA
377869 TTTGTTCAAC
Statistics
Matches: 380, Mismatches: 21, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
121 2 0.01
122 34 0.09
123 316 0.83
124 28 0.07
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (123 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCATAACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCCAGAGAA
Found at i:377604 original size:492 final size:488
Alignment explanation
Indices: 376623--377549 Score: 1237
Period size: 492 Copynumber: 1.9 Consensus size: 488
376613 TACCAGGTAG
376623 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* * *
376688 AACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAA
66 AACCTTTTACTTGAATTCATCATTCAATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAA
376753 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTTAAATTC
131 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTTAAATTC
* *
376818 ATCATTCGATTGATCAGCATTACCGGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAA
196 ATCACTCGATTGATCAGCATTACCGGGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAA
* ** *
376883 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATTGATCAG
261 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCATGAATTCATCAAACGATAGATCAG
*
376948 CATTACCAGGTAGAGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATA
326 CATTACCAGGTAAAGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATA
* * * * ** *
377013 AGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATAGATCAGCATTGCCAGGTCGAGT
391 AGAAGAACTTGTTCAACTTTTCGCATGAACTCATCA-TCGAGAGATCAGCATTGCAACATCGACT
377078 TCATAATGAAAAGAACTCATCTGAAGAAAGAAGAAGA
455 TCATAATGAAAAG-ACTCA-CTGAAG-AAGAAGAAGA
* *
377115 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* **
377180 AA-CTTTTCACTTGAATTCATCATTCAATTGATCAACATTGT-CAGGTCGAGTTCATAATGAGAA
66 AACCTTTT-ACTTGAATTCATCATTCAATGGATCAACATT-TCCA-GAAGAGTTCATAATGAGAA
* * * *
377243 GAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAA
128 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTT-AA
* * *
377308 A-TCATCACTCGATTGATGAGCATTGCC-GGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAA
192 ATTCATCACTCGATTGATCAGCATTACCGGGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA
* *
377371 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCATG-ACTCTATCACAGAAGG
257 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCATGAATTC-AT--CA-AACG
* * *
377434 AGGTAGATCAGCATACACTTTTCCAGAG-AAAGTTCAT-AATGAGAATAACTCATCTGAAG-AGG
317 A--TAGATCAG----CA--TTACCAG-GTAAAGTTCATAAATAAGAAGAACTCATCTGAAGAAGG
* *
377496 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCAT-AACTCTATCA
373 AAAAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCATGAACTC-ATCA
377550 CAGAAGGAGA
Statistics
Matches: 384, Mismatches: 31, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
491 8 0.02
492 170 0.44
493 104 0.27
494 5 0.01
495 2 0.01
497 7 0.02
500 4 0.01
501 44 0.11
502 25 0.07
503 14 0.04
504 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (488 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
AACCTTTTACTTGAATTCATCATTCAATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTTAAATTC
ATCACTCGATTGATCAGCATTACCGGGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCATGAATTCATCAAACGATAGATCAG
CATTACCAGGTAAAGTTCATAAATAAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATA
AGAAGAACTTGTTCAACTTTTCGCATGAACTCATCATCGAGAGATCAGCATTGCAACATCGACTT
CATAATGAAAAGACTCACTGAAGAAGAAGAAGA
Found at i:378107 original size:3 final size:3
Alignment explanation
Indices: 378101--378158 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
378091 TTTAGTTTTT
*
378101 TTA TTA TTTA TTA TTA TTA TTA TTA ATA TTA TTA TTTA TTA TTAA TT-
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
378148 TTA TTA -TA TTA
1 TTA TTA TTA TTA
378159 CATGCCCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.73
4 9 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:378125 original size:19 final size:18
Alignment explanation
Indices: 378101--378158 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
378091 TTTAGTTTTT
378101 TTATTATTTATTATTATTA
1 TTATTA-TTATTATTATTA
*
378120 TTATTAATATTATTATTTA
1 TTATTATTATTATTA-TTA
378139 TTATTAATT-TTATTA-TA
1 TTATT-ATTATTATTATTA
378156 TTA
1 TTA
378159 CATGCCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 5 0.14
18 8 0.23
19 20 0.57
20 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATTATTA
Found at i:378139 original size:28 final size:27
Alignment explanation
Indices: 378101--378158 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
378091 TTTAGTTTTT
378101 TTATTATTTATTATT-ATTATTATTAATA
1 TTATTATTTATTATTAATT-TTATT-ATA
378129 TTATTATTTATTATTAATTTTATTATA
1 TTATTATTTATTATTAATTTTATTATA
378156 TTA
1 TTA
378159 CATGCCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 6 0.21
28 20 0.69
29 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTATTATTTATTATTAATTTTATTATA
Found at i:381025 original size:19 final size:18
Alignment explanation
Indices: 380993--381028 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
380983 AGGGAAGGAT
380993 ATTCATTTGTTTATATTC
1 ATTCATTTGTTTATATTC
381011 ATTCATTTAGTTTATATT
1 ATTCATTT-GTTTATATT
381029 TATTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (18 bp):
ATTCATTTGTTTATATTC
Found at i:385161 original size:87 final size:87
Alignment explanation
Indices: 385024--385282 Score: 410
Period size: 87 Copynumber: 3.0 Consensus size: 87
385014 TTATTTAATC
* *
385024 AGAAACATTATCAAGCATAATAACATATTAGGTACCGTTTATATAATGTAATAGATAGCGCTTAT
1 AGAAACATTATCAAGCATAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
*
385089 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAAGTTAATTACT
* *
385111 GGAAACATTATCAAGCATAACAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
1 AGAAACATTATCAAGCATAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
385176 ATAATAAAATAAGTTAATTACT
66 ATAATAAAATAAGTTAATTACT
* * * * * *
385198 AGAAACATTATCAAGCACAATAATATATTATGTAGCGCTTATATAACGTAATAGGTAGCACTTAT
1 AGAAACATTATCAAGCATAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
*
385263 ATAATAAAATATGTTAATTA
66 ATAATAAAATAAGTTAATTA
385283 TTTAATTTGT
Statistics
Matches: 158, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (87 bp):
AGAAACATTATCAAGCATAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATAAGTTAATTACT
Found at i:385186 original size:23 final size:23
Alignment explanation
Indices: 385139--385186 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
385129 AACAACATAT
**
385139 TAGGTACCGCTTATATAATGTAA
1 TAGGTACCGCTTATATAATAAAA
*
385162 TAGGTAGCGCTTATATAATAAAA
1 TAGGTACCGCTTATATAATAAAA
385185 TA
1 TA
385187 AGTTAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGGTACCGCTTATATAATAAAA
Found at i:385273 original size:23 final size:23
Alignment explanation
Indices: 385229--385273 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
385219 AATATATTAT
* **
385229 GTAGCGCTTATATAACGTAATAG
1 GTAGCACTTATATAACAAAATAG
*
385252 GTAGCACTTATATAATAAAATA
1 GTAGCACTTATATAACAAAATA
385274 TGTTAATTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (23 bp):
GTAGCACTTATATAACAAAATAG
Found at i:385720 original size:113 final size:113
Alignment explanation
Indices: 385510--385872 Score: 606
Period size: 113 Copynumber: 3.2 Consensus size: 113
385500 TAACGCCTAT
385510 AAAGTATCGAT-A-TTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
1 AAAGTATCGATCATTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
* * *
385573 AAACCAGTTTCATTATGACAAAACCGGTAAAATTTACCGGATATGTTG
66 AAACCAATTTCATTATGACAAAACCAGTAAAATTTACCTGATATGTTG
385621 AAAGTATCGATCATTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
1 AAAGTATCGATCATTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
385686 AAACCAATTTCATTATGACAAAACCAGTAAAATTTACCTGATATGTTG
66 AAACCAATTTCATTATGACAAAACCAGTAAAATTTACCTGATATGTTG
* * *
385734 AAAGTATCGATCCTTTTTATAAAAAAGGATCGATACTTTACAATATAACAGGTAAAAATATGAC-
1 AAAGTATCGATCATTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
* *
385798 AAACTCAATTTCATTATGACAAAACTAGTAAAATTTACCTAATATGTTG
66 AAAC-CAATTTCATTATGACAAAACCAGTAAAATTTACCTGATATGTTG
**
385847 AAAGTATTAATCATTTTTATAAAAAT
1 AAAGTATCGATCATTTTTATAAAAAT
385873 CGATAAGTAT
Statistics
Matches: 237, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
111 11 0.05
112 5 0.02
113 221 0.93
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (113 bp):
AAAGTATCGATCATTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
AAACCAATTTCATTATGACAAAACCAGTAAAATTTACCTGATATGTTG
Found at i:393355 original size:22 final size:23
Alignment explanation
Indices: 393330--393374 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
393320 TAAAAAGACT
393330 AAAAACGCACCAT-AAAACAGAA
1 AAAAACGCACCATAAAAACAGAA
* **
393352 AAAAGCTTACCATAAAAACAGAA
1 AAAAACGCACCATAAAAACAGAA
393375 TTATTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.62, C:0.20, G:0.09, T:0.09
Consensus pattern (23 bp):
AAAAACGCACCATAAAAACAGAA
Found at i:404361 original size:18 final size:18
Alignment explanation
Indices: 404338--404390 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
404328 GAGGGTTCTA
* *
404338 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGAGACAT
404356 AGTGGTCATTCGAGACAT
1 AGTGGTCATTCGAGACAT
*
404374 AGTTGTCATTCGAGACA
1 AGTGGTCATTCGAGACA
404391 AGTTTAAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (18 bp):
AGTGGTCATTCGAGACAT
Found at i:406002 original size:15 final size:15
Alignment explanation
Indices: 405982--406033 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
405972 TGAGACATTA
*
405982 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
405997 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
*
406012 CTCGCCCCACATCCG
1 CCCGCCCCACATCCG
*
406027 CTCGCCC
1 CCCGCCC
406034 AGCTAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.10, C:0.65, G:0.15, T:0.10
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:408179 original size:35 final size:36
Alignment explanation
Indices: 408106--408179 Score: 91
Period size: 34 Copynumber: 2.1 Consensus size: 36
408096 TTTTTATATT
*
408106 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
*
408142 TTTAA-TTT-TAAATAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
408177 TTT
1 TTT
408180 GTAATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 17 0.50
35 12 0.35
36 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:410847 original size:18 final size:18
Alignment explanation
Indices: 410821--410865 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
410811 TAAGTGGTCC
410821 TTCGGGACATAGTAGTCA
1 TTCGGGACATAGTAGTCA
* *
410839 TTCGAGACATAGTGGTCA
1 TTCGGGACATAGTAGTCA
410857 TTCGGGACA
1 TTCGGGACA
410866 AGTTTAAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (18 bp):
TTCGGGACATAGTAGTCA
Found at i:411438 original size:16 final size:17
Alignment explanation
Indices: 411410--411441 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
411400 ATATTATGAG
411410 ATTTTGTAAAAGTAAAC
1 ATTTTGTAAAAGTAAAC
411427 ATTTTG-AAAAGTAAA
1 ATTTTGTAAAAGTAAA
411442 TGTGACACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (17 bp):
ATTTTGTAAAAGTAAAC
Found at i:416514 original size:45 final size:46
Alignment explanation
Indices: 416458--416562 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 46
416448 TGCATCAATC
*
416458 CATGCATCGATGCACCATT-GAATAAATT-AAACATCGAATGCATTT
1 CATGCATCGATGCACC-TTGGAATAAATTAAAACATCAAATGCATTT
** **
416503 CATGCATCGATGCA-CTTGGGTTTTATTAAAACATCAAATGCATTT
1 CATGCATCGATGCACCTTGGAATAAATTAAAACATCAAATGCATTT
416548 CATGCATCGATGCAC
1 CATGCATCGATGCAC
416563 AAGCAATACA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.04
44 6 0.12
45 44 0.85
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACCTTGGAATAAATTAAAACATCAAATGCATTT
Found at i:418590 original size:21 final size:21
Alignment explanation
Indices: 418566--418605 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
418556 AAGACTCTAT
418566 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
418587 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
418606 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:424797 original size:19 final size:20
Alignment explanation
Indices: 424773--424812 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
424763 GAGAAGTGTA
*
424773 AAATGTTTTA-AAGGGGGAG
1 AAATGTTATAGAAGGGGGAG
424792 AAATGTTATAGTAAGGGGGAG
1 AAATGTTATAG-AAGGGGGAG
424813 TAATTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (20 bp):
AAATGTTATAGAAGGGGGAG
Found at i:430230 original size:21 final size:22
Alignment explanation
Indices: 430204--430246 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
430194 AATGTAAAGC
*
430204 TTTTATTATGTTTTATT-TTTA
1 TTTTATGATGTTTTATTCTTTA
*
430225 TTTTATGGTGTTTTATTCTTTA
1 TTTTATGATGTTTTATTCTTTA
430247 AAGTCTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTATGATGTTTTATTCTTTA
Found at i:430678 original size:19 final size:19
Alignment explanation
Indices: 430654--430691 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
430644 GTTTGCCAAT
430654 TTGATTTTACATCAAAGAA
1 TTGATTTTACATCAAAGAA
*
430673 TTGATTTTACATTAAAGAA
1 TTGATTTTACATCAAAGAA
430692 GTTATGTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGATTTTACATCAAAGAA
Found at i:432696 original size:36 final size:35
Alignment explanation
Indices: 432651--433295 Score: 421
Period size: 36 Copynumber: 18.1 Consensus size: 35
432641 GTAAAAGTTT
* * * * *
432651 ATGCTTATAATAATTATTCACATGCACATGAATATC
1 ATGCATATAATCATTATT-ACAAGCGCATGTATATC
* ** *
432687 ATGCATATAAACATTAGCAACAAGCGCATGTATATT
1 ATGCATATAATCATTA-TTACAAGCGCATGTATATC
* * *
432723 ATGCATGTAATCATCAGTAGCAAGCGCATGTATATC
1 ATGCATATAATCATTATTA-CAAGCGCATGTATATC
* * *
432759 ATGCATGTGATTATTATTA-ACAGACGCATGTATATC
1 ATGCATATAATCATTATTACA-AG-CGCATGTATATC
* *
432795 ATGCATATAATCATTATTAACAGGTGCATG--TA--
1 ATGCATATAATCATTATT-ACAAGCGCATGTATATC
*
432827 ATGCATATAATCATTATTAGCAAGCACATGTATATC
1 ATGCATATAATCATTATTA-CAAGCGCATGTATATC
*
432863 ATGCATATAATCATTATTAGC-AG-ACATGTATATC
1 ATGCATATAATCATTATTA-CAAGCGCATGTATATC
* ** * * *
432897 ATGCATATATTCATTAACAACAAACACGTGTATATC
1 ATGCATATAATCATT-ATTACAAGCGCATGTATATC
* * * * * *
432933 ATGCATGTAATCATCATTAGCAAGGGTAGGTATGTC
1 ATGCATATAATCATTATTA-CAAGCGCATGTATATC
* * ** * * * *
432969 ATGCATATGATAACAATTAGTAGGTGTATGTATATC
1 ATGCATATAATCATTATTA-CAAGCGCATGTATATC
* *
433005 ATTCATATAATCATTATTAACAAAC-CTATGTATATC
1 ATGCATATAATCATTATT-ACAAGCGC-ATGTATATC
*
433041 ATGCATATAATCATTATTAACAGGC-CTATGTATATC
1 ATGCATATAATCATTATT-ACAAGCGC-ATGTATATC
* * *
433077 ATGCATGTAATCATCATTAGCAAGCACATGTATATC
1 ATGCATATAATCATTATTA-CAAGCGCATGTATATC
* ** *
433113 ATGCATATGATCATTATTAGTAGACACATGTATATC
1 ATGCATATAATCATTATTACAAG-CGCATGTATATC
** *
433149 ATATATATAATCATTATTA-ACAGAAGCATGTATATC
1 ATGCATATAATCATTATTACA-AG-CGCATGTATATC
** * **
433185 ATGCATATAATCATTAGCAATAAGTACATGTATATC
1 ATGCATATAATCATTA-TTACAAGCGCATGTATATC
* * *
433221 A-GACATGTAATCATCATTAGCAAGCACATGTATATC
1 ATG-CATATAATCATTATTA-CAAGCGCATGTATATC
** ** *
433257 ATGCATATGTTCATTATTAGTAGATGCATGTATATC
1 ATGCATATAATCATTATTACAAG-CGCATGTATATC
433293 ATG
1 ATG
433296 AAATTTTATC
Statistics
Matches: 481, Mismatches: 101, Indels: 54
0.76 0.16 0.08
Matches are distributed among these distances:
31 1 0.00
32 25 0.05
34 31 0.06
35 17 0.04
36 397 0.83
37 8 0.02
38 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (35 bp):
ATGCATATAATCATTATTACAAGCGCATGTATATC
Found at i:432790 original size:72 final size:72
Alignment explanation
Indices: 432677--433295 Score: 485
Period size: 72 Copynumber: 8.7 Consensus size: 72
432667 TTCACATGCA
* * * ** * * *
432677 CATGAATATCATGCATATAAACATTAGCAACA-AGCGCATGTATATTATGCATGTAATCATCAGT
1 CATGTATATCATGCATATGATCATTATTAACAGA-CGCATGTATATCATGCATATAATCATCATT
432741 AGCAAGCG
65 AGCAAGCG
* * *
432749 CATGTATATCATGCATGTGATTATTATTAACAGACGCATGTATATCATGCATATAATCATTATTA
1 CATGTATATCATGCATATGATCATTATTAACAGACGCATGTATATCATGCATATAATCATCATTA
* * *
432814 ACAGGTG
66 GCAAGCG
* * * *
432821 CATG--TA--ATGCATATAATCATTATTAGCA-AGCACATGTATATCATGCATATAATCATTATT
1 CATGTATATCATGCATATGATCATTATTAACAGA-CGCATGTATATCATGCATATAATCATCATT
*
432881 AGC-AG-A
65 AGCAAGCG
** * * * *
432887 CATGTATATCATGCATAT-ATTCATTAACAACAAACACGTGTATATCATGCATGTAATCATCATT
1 CATGTATATCATGCATATGA-TCATTATTAACAGACGCATGTATATCATGCATATAATCATCATT
*
432951 AGCAAGGG
65 AGCAAGCG
* * * * ** ** ** * * *
432959 TAGGTATGTCATGCATATGATAACAATTAGTAGGTGTATGTATATCATTCATATAATCATTATTA
1 CATGTATATCATGCATATGATCATTATTAACAGACGCATGTATATCATGCATATAATCATCATTA
* *
433024 ACAAAC-
66 GCAAGCG
* * *
433030 CTATGTATATCATGCATATAATCATTATTAACAGGC-CTATGTATATCATGCATGTAATCATCAT
1 C-ATGTATATCATGCATATGATCATTATTAACAGACGC-ATGTATATCATGCATATAATCATCAT
*
433094 TAGCAAGCA
64 TAGCAAGCG
** * ** *
433103 CATGTATATCATGCATATGATCATTATTAGTAGACACATGTATATCATATATATAATCATTATTA
1 CATGTATATCATGCATATGATCATTATTAACAGACGCATGTATATCATGCATATAATCATCATTA
* *
433168 AC-AGAAG
66 GCAAG-CG
* ** * *
433175 CATGTATATCATGCATATAATCATTAGCAATA-A-GTACATGTATATCA-GACATGTAATCATCA
1 CATGTATATCATGCATATGATCATTATTAACAGACG--CATGTATATCATG-CATATAATCATCA
*
433237 TTAGCAAGCA
63 TTAGCAAGCG
* ** *
433247 CATGTATATCATGCATATGTTCATTATTAGTAGATGCATGTATATCATG
1 CATGTATATCATGCATATGATCATTATTAACAGACGCATGTATATCATG
433296 AAATTTTATC
Statistics
Matches: 429, Mismatches: 95, Indels: 45
0.75 0.17 0.08
Matches are distributed among these distances:
66 4 0.01
67 2 0.00
68 51 0.12
69 1 0.00
70 49 0.11
71 6 0.01
72 307 0.72
73 8 0.02
74 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (72 bp):
CATGTATATCATGCATATGATCATTATTAACAGACGCATGTATATCATGCATATAATCATCATTA
GCAAGCG
Found at i:433085 original size:144 final size:142
Alignment explanation
Indices: 432749--433294 Score: 588
Period size: 144 Copynumber: 3.8 Consensus size: 142
432739 GTAGCAAGCG
* * * * * * *
432749 CATGTATATCATGCATGTGATTATTATTAACAGACGCATGTATATCATGCATATAATCATTATTA
1 CATGTATATCATGCATATAATCATTATCAACAGACACATGTATATCATGCATGTAATCATCATTA
* * ** * * *
432814 ACAGGTGCATG--TA--ATGCATATAATCATTATTAGCA-AGCACATGTATATCATGCATATAAT
66 GCAAGCACATGTATATCATGCATATGATCATTATTAGTAGA-CACATGTATATCATTCATATAAT
* *
432874 CATTATTAGCAGA
130 CATTATTAACAAA
* * * *
432887 CATGTATATCATGCATATATTCATTAACAACAAACACGTGTATATCATGCATGTAATCATCATTA
1 CATGTATATCATGCATATAATCATTATCAACAGACACATGTATATCATGCATGTAATCATCATTA
*** * * * ** ****
432952 GCAAGGGTAGGTATGTCATGCATATGATAACAATTAGTAGGTGTATGTATATCATTCATATAATC
66 GCAAGCACATGTATATCATGCATATGATCATTATTAGTAGACACATGTATATCATTCATATAATC
433017 ATTATTAACAAA
131 ATTATTAACAAA
* *
433029 CCTATGTATATCATGCATATAATCATTATTAACAGGC-CTATGTATATCATGCATGTAATCATCA
1 -C-ATGTATATCATGCATATAATCATTATCAACAGACAC-ATGTATATCATGCATGTAATCATCA
433093 TTAGCAAGCACATGTATATCATGCATATGATCATTATTAGTAGACACATGTATATCATAT-ATAT
63 TTAGCAAGCACATGTATATCATGCATATGATCATTATTAGTAGACACATGTATATCAT-TCATAT
433157 AATCATTATTAACAGAA
127 AATCATTATTAACA-AA
* * *
433174 GCATGTATATCATGCATATAATCATTAGCAATA-AGTACATGTATATCA-GACATGTAATCATCA
1 -CATGTATATCATGCATATAATCATTATCAACAGA-CACATGTATATCATG-CATGTAATCATCA
* **
433237 TTAGCAAGCACATGTATATCATGCATATGTTCATTATTAGTAGATGCATGTATATCAT
63 TTAGCAAGCACATGTATATCATGCATATGATCATTATTAGTAGACACATGTATATCAT
433295 GAAATTTTAT
Statistics
Matches: 339, Mismatches: 56, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
138 60 0.18
140 1 0.00
142 47 0.14
143 3 0.01
144 223 0.66
145 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (142 bp):
CATGTATATCATGCATATAATCATTATCAACAGACACATGTATATCATGCATGTAATCATCATTA
GCAAGCACATGTATATCATGCATATGATCATTATTAGTAGACACATGTATATCATTCATATAATC
ATTATTAACAAA
Found at i:435461 original size:32 final size:32
Alignment explanation
Indices: 435420--435511 Score: 121
Period size: 32 Copynumber: 2.9 Consensus size: 32
435410 TGTATAGTAG
* *
435420 AGTCAGTGTTGCATTTATATAATGCACAACAA
1 AGTCAGTGTTGCATTTAAATAATACACAACAA
* * *
435452 AGTCAGTGTTGCATTCAAATAATATACAACAG
1 AGTCAGTGTTGCATTTAAATAATACACAACAA
**
435484 AGTCAGTGTTGCATTTAGGTAATACACA
1 AGTCAGTGTTGCATTTAAATAATACACA
435512 TGAGTGTCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (32 bp):
AGTCAGTGTTGCATTTAAATAATACACAACAA
Found at i:436753 original size:38 final size:38
Alignment explanation
Indices: 436709--436939 Score: 175
Period size: 39 Copynumber: 5.9 Consensus size: 38
436699 AATGATTTGG
* *
436709 TTCCCAA-CCTAAAATATAGTTTCTAACCTGAAATCTGA
1 TTCCCAATCCTAAAATCT-GTTTCCAACCTGAAATCTGA
* * *
436747 TTCCCAATCATGAAATCTGGTTTCCAACCTGAAACCT-A
1 TTCCCAATCCTAAAATCT-GTTTCCAACCTGAAATCTGA
* * *
436785 GTTTCCAA-CATAAAACCTGTTTTCCAACCTGAAATCT-A
1 -TTCCCAATCCTAAAATCTG-TTTCCAACCTGAAATCTGA
* * * *
436823 GTTTCCAA-CTTGAAATCTGATTCTCAATCCTGAAATCTGA
1 -TTCCCAATCCTAAAATCTGTTTC-CAA-CCTGAAATCTGA
* * **
436863 TTCTCAATCCTGAAATCTAATTCTCAATCCTGAAATCTGA
1 TTCCCAATCCTAAAATCTGTTTC-CAA-CCTGAAATCTGA
* *
436903 TTCCCAATCCTAAAATTTGGTTTCCAACCTAAAATCT
1 TTCCCAATCCTAAAATCT-GTTTCCAACCTGAAATCT
436940 AGTTTCTAAC
Statistics
Matches: 161, Mismatches: 24, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
37 4 0.02
38 52 0.32
39 53 0.33
40 49 0.30
41 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (38 bp):
TTCCCAATCCTAAAATCTGTTTCCAACCTGAAATCTGA
Found at i:436762 original size:20 final size:20
Alignment explanation
Indices: 436735--436918 Score: 155
Period size: 20 Copynumber: 9.4 Consensus size: 20
436725 TAGTTTCTAA
436735 CCTGAAATCTGATTCCCAAT
1 CCTGAAATCTGATTCCCAAT
* * *
436755 CATGAAATCTGGTTTCCAA-
1 CCTGAAATCTGATTCCCAAT
* *
436774 CCTGAAACCT-AGTTTCCAA-
1 CCTGAAATCTGA-TTCCCAAT
* * * * *
436793 CATAAAACCTGTTTTCCAA-
1 CCTGAAATCTGATTCCCAAT
*
436812 CCTGAAATCT-AGTTTCCAA-
1 CCTGAAATCTGA-TTCCCAAT
* *
436831 CTTGAAATCTGATTCTCAAT
1 CCTGAAATCTGATTCCCAAT
*
436851 CCTGAAATCTGATTCTCAAT
1 CCTGAAATCTGATTCCCAAT
* *
436871 CCTGAAATCTAATTCTCAAT
1 CCTGAAATCTGATTCCCAAT
436891 CCTGAAATCTGATTCCCAAT
1 CCTGAAATCTGATTCCCAAT
*
436911 CCTAAAAT
1 CCTGAAAT
436919 TTGGTTTCCA
Statistics
Matches: 138, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 58 0.42
20 80 0.58
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (20 bp):
CCTGAAATCTGATTCCCAAT
Found at i:436788 original size:19 final size:19
Alignment explanation
Indices: 436712--436945 Score: 156
Period size: 19 Copynumber: 12.1 Consensus size: 19
436702 GATTTGGTTC
* *
436712 CCAACCTAAAATATAGTTT
1 CCAACCTGAAATCTAGTTT
* *
436731 CTAACCTGAAATCT-GATTC
1 CCAACCTGAAATCTAG-TTT
* *
436750 CCAATCATGAAATCTGGTTT
1 CCAA-CCTGAAATCTAGTTT
*
436770 CCAACCTGAAACCTAGTTT
1 CCAACCTGAAATCTAGTTT
* * *
436789 CCAACATAAAACCT-GTTTT
1 CCAACCTGAAATCTAG-TTT
436808 CCAACCTGAAATCTAGTTT
1 CCAACCTGAAATCTAGTTT
* *
436827 CCAACTTGAAATCT-GATT
1 CCAACCTGAAATCTAGTTT
*
436845 CTCAATCCTGAAATCT-GATT
1 C-CAA-CCTGAAATCTAGTTT
*
436865 CTCAATCCTGAAATCTA-ATT
1 C-CAA-CCTGAAATCTAGTTT
*
436885 CTCAATCCTGAAATCT-GATTC
1 C-CAA-CCTGAAATCTAG-TTT
* * *
436906 CCAATCCTAAAATTTGGTTT
1 CCAA-CCTGAAATCTAGTTT
*
436926 CCAACCTAAAATCTAGTTT
1 CCAACCTGAAATCTAGTTT
436945 C
1 C
436946 TAACACATAA
Statistics
Matches: 179, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
18 6 0.03
19 87 0.49
20 82 0.46
21 4 0.02
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (19 bp):
CCAACCTGAAATCTAGTTT
Found at i:436929 original size:20 final size:20
Alignment explanation
Indices: 436835--436939 Score: 113
Period size: 20 Copynumber: 5.3 Consensus size: 20
436825 TTCCAACTTG
* *
436835 AAATCTGATTCTCAATCCTG
1 AAATCTGATTCCCAATCCTA
* *
436855 AAATCTGATTCTCAATCCTG
1 AAATCTGATTCCCAATCCTA
* * *
436875 AAATCTAATTCTCAATCCTG
1 AAATCTGATTCCCAATCCTA
436895 AAATCTGATTCCCAATCCTA
1 AAATCTGATTCCCAATCCTA
* * *
436915 AAATTTGGTTTCCAA-CCTA
1 AAATCTGATTCCCAATCCTA
436934 AAATCT
1 AAATCT
436940 AGTTTCTAAC
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
19 9 0.12
20 68 0.88
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (20 bp):
AAATCTGATTCCCAATCCTA
Found at i:440867 original size:53 final size:52
Alignment explanation
Indices: 440744--440872 Score: 152
Period size: 53 Copynumber: 2.4 Consensus size: 52
440734 ATCGAATAAT
440744 AAAAGCAGCAACGTTTAGCAAAATTTAAAAGAAAAAAACTAACAATTTTTGTA
1 AAAAGCAGCAACGTTTAGCAAAATTTAAAAG-AAAAAACTAACAATTTTTGTA
* * * * **
440797 AAAAGCGGTATCATTTAGCAAAATTTAAAAG-AAAAACTGTCAATTATATTGTA
1 AAAAGCAGCAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATT-T-TTGTA
* *
440850 AAAAGCAACAGCGTTTAGCAAAA
1 AAAAGCAGCAACGTTTAGCAAAA
440873 AATCAGATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
51 12 0.19
52 1 0.02
53 50 0.79
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (52 bp):
AAAAGCAGCAACGTTTAGCAAAATTTAAAAGAAAAAACTAACAATTTTTGTA
Found at i:445197 original size:158 final size:156
Alignment explanation
Indices: 444797--445348 Score: 497
Period size: 156 Copynumber: 3.5 Consensus size: 156
444787 TTAAGTCTAT
* * * * * * * *
444797 TTTTTACCAAATTTGAACCACATACTCCTAGACCATAGTAGAATACAAGTTTAATTTCAATTCCT
1 TTTTTACCAAATTTAAACCACATGCTCCTAAATCATAGTAGAATATATGTATACTTTCAATTCCT
* * * * * *
444862 ATTTTTTATAATAAATTTTTATTTTTCAATTTAGTCCTTCAATTTTTTATAATCT-TTTCATTTC
66 ATTTTTTATAACAATTTTTTATTTTTCAATTCAGTCCTTCAATTTTTCATAATCTCCTT-ATTCC
* *
444926 TTCAATTCGTCATTTATT-TTAAGTC-
130 TTCAATTCGTCATTTATTGTAAATTCA
* * * * * * *
444951 -CTTTACCAAATTTGTCCTAAACCATAATAGAACATGTTCCTAAACCATAGTAGAACACAAGTGT
1 TTTTTACCAAA--T-T--TAAACC--------ACATGCTCCTAAATCATAGTAGAATATATGTAT
* * * ** *
445015 ACTTTCAATTCCTATTTTTGATAACAAATATTTTTATTTTTCAATTTAGTCTTTCCGTTTTTTAT
53 ACTTTCAATTCCTATTTTTTATAAC-AAT-TTTTTATTTTTCAATTCAGTCCTTCAATTTTTCAT
* *
445080 AATCTCCTTATTTCTTCAATTCGTCATTTATTGTAAA-TCTG
116 AATCTCCTTATTCCTTCAATTCGTCATTTATTGTAAATTC-A
* * **
445121 TTTTTACCAAATTTGAGCCATGTGCTCCTAAATCATAGTAGAATATATGTATACTTTCAATTCCT
1 TTTTTACCAAATTTAAACCACATGCTCCTAAATCATAGTAGAATATATGTATACTTTCAATTCCT
445186 ATTTTTTATAACAATTTTTTATTTTTCAATTCAGTCCTTCAATTTTTCATAATCTCCTTATTCCT
66 ATTTTTTATAACAATTTTTTATTTTTCAATTCAGTCCTTCAATTTTTCATAATCTCCTTATTCCT
* * *
445251 TCAATTTGTCATTTATTTTAAGTTCA
131 TCAATTCGTCATTTATTGTAAATTCA
* * * *
445277 TTTTTACCAAATTTAAACCACATGCTCATATATCATAATAGAATATTTATGTA-AC-TTCAATTG
1 TTTTTACCAAATTTAAACCACATGCTCCTAAATCATAGTAGAATA--TATGTATACTTTCAATTC
*
445340 TTATTTTTT
64 CTATTTTTT
445349 TACTAAAGAT
Statistics
Matches: 328, Mismatches: 47, Indels: 44
0.78 0.11 0.11
Matches are distributed among these distances:
153 9 0.03
155 1 0.00
156 117 0.36
157 7 0.02
158 60 0.18
166 54 0.16
167 2 0.01
168 63 0.19
169 6 0.02
171 9 0.03
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (156 bp):
TTTTTACCAAATTTAAACCACATGCTCCTAAATCATAGTAGAATATATGTATACTTTCAATTCCT
ATTTTTTATAACAATTTTTTATTTTTCAATTCAGTCCTTCAATTTTTCATAATCTCCTTATTCCT
TCAATTCGTCATTTATTGTAAATTCA
Found at i:446636 original size:2 final size:2
Alignment explanation
Indices: 446624--446653 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
446614 ATGTATTAAT
446624 TA TA CTA 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
446654 TAATTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:447825 original size:22 final size:21
Alignment explanation
Indices: 447800--447841 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
447790 TATCGGTATC
447800 GATGAGGTAGCATCGATACCAG
1 GATGAGG-AGCATCGATACCAG
* *
447822 GATGAGGGGTATCGATACCA
1 GATGAGGAGCATCGATACCA
447842 AGAAACATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (21 bp):
GATGAGGAGCATCGATACCAG
Found at i:447958 original size:95 final size:95
Alignment explanation
Indices: 447828--448003 Score: 255
Period size: 95 Copynumber: 1.9 Consensus size: 95
447818 CCAGGATGAG
* * *
447828 GGGTATCGATACCAAGAAACATCGAATCTAATTTTGGTATCGATACCGGTA-GGGGGTATCAGTA
1 GGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATAGATACCCG-ACGGGGGTATCAGTA
* *
447892 CTATAGTAGAGTAGTATAGATAACATGGTAA
65 CCATAGTAGAGAAGTATAGATAACATGGTAA
* * *
447923 GGGTATCGATACCAAGCAACATCGAACCTATTTTTGGTATAGATACCCGACGGGGGTATTAGTAC
1 GGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATAGATACCCGACGGGGGTATCAGTAC
*
447988 CATAGTATAGAAGTAT
66 CATAGTAGAGAAGTAT
448004 CAGTATTAGG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 70 0.99
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (95 bp):
GGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATAGATACCCGACGGGGGTATCAGTAC
CATAGTAGAGAAGTATAGATAACATGGTAA
Found at i:448024 original size:95 final size:95
Alignment explanation
Indices: 447830--448029 Score: 235
Period size: 95 Copynumber: 2.1 Consensus size: 95
447820 AGGATGAGGG
* * * *
447830 GTATCGATACCAAGAAACATCGAATCTAATTTTGGTATCGATACCGGTAGGGGGTATCAGTACTA
1 GTATCGATACCAAGAAACATCGAACCTAATTTTGGTATAGATACCCGTAGGGGGTATCAGTACCA
* * *
447895 TAGTAGAGTAGTATAGATAACATGGTAAGG
66 TAGTAGAGAAGTATAGATAACAGGGTAAGA
* * *
447925 GTATCGATACCAAGCAACATCGAACCTATTTTTGGTATAGATACCCG-ACGGGGGTATTAGTACC
1 GTATCGATACCAAGAAACATCGAACCTAATTTTGGTATAGATACCCGTA-GGGGGTATCAGTACC
* **
447989 ATAGTATAGAAGTATCAG-TATTAGGGT-AGTA
65 ATAGTAGAGAAGTAT-AGATAACAGGGTAAG-A
448020 GTATCGATAC
1 GTATCGATAC
448030 TATGGAGCCA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
94 3 0.03
95 84 0.94
96 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (95 bp):
GTATCGATACCAAGAAACATCGAACCTAATTTTGGTATAGATACCCGTAGGGGGTATCAGTACCA
TAGTAGAGAAGTATAGATAACAGGGTAAGA
Found at i:448444 original size:59 final size:58
Alignment explanation
Indices: 448373--448523 Score: 225
Period size: 59 Copynumber: 2.6 Consensus size: 58
448363 TGAAAAATGT
* *
448373 TAAGAATTTCATACTAAGTGTATGAATTTCCGTATAGGGCA-CTTTGTGTGCTAACATGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACCTTT-TGTGCTAA-AGGA
* *
448432 TAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACCTTTTGTGCTAAAGGA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACCTTTTGTGCTAAAGGA
*
448490 TAAGAAATTCA-ACTAAGCGTATGAATTTCCGTAT
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
448524 GTGAAATATA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
57 21 0.25
58 14 0.16
59 46 0.54
60 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (58 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACCTTTTGTGCTAAAGGA
Found at i:448966 original size:68 final size:68
Alignment explanation
Indices: 448892--449215 Score: 459
Period size: 68 Copynumber: 4.8 Consensus size: 68
448882 AAATGATAAA
* *
448892 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATAAAAGAATAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGTC
448957 TTT
66 TTT
* * *
448960 GAGGCCTAACTGCGCATATGACAGAAATGTGTTAATTATGCCAGTTAAATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGTC
449025 TTT
66 TTT
* * * * *
449028 GAGGCCTAACTGCGCATATGACATAAAGGTATCAAATATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGTC
449093 TTT
66 TTT
* * * * * *
449096 GAGGCCTAACTGTGCATAAGACATAAATGTGTCATTTATACCAGTTAGATGAAAGGCTAAGTGCC
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGTC
449161 TTT
66 TTT
** * * *
449164 GAGGCCTAGTTGTGTATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGA
1 GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGA
449216 GCAATTAAGT
Statistics
Matches: 229, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 229 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:449305 original size:81 final size:81
Alignment explanation
Indices: 449185--449459 Score: 417
Period size: 81 Copynumber: 3.4 Consensus size: 81
449175 GTGTATATGA
* * ** *
449185 CAGAAAGGTGTCATTTATGCCAGTTAGATGAGCAATTAAGTACCGTTAAGTAAAAGAAAAATGGC
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGC
449250 CTAGCTGTGCAATTGG
66 CTAGCTGTGCAATTGG
*
449266 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCTTTAAGTAAAAGAAAAATGGC
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGC
449331 CTAGCTGTGCAATTGG
66 CTAGCTGTGCAATTGG
* * * * *
449347 AAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCATTGAGTAAAAGAATAATGGA
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGC
*
449412 CTAACTGTGC-ATTGG
66 CTAGCTGTGCAATTGG
* *
449427 CAGAAAGGTGTCAATTATGCCAATAAGATGAAC
1 CAGAAAGGTGTCAATTATGCCAGTTAGATGAAC
449460 ATTAAACAAT
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
80 35 0.20
81 144 0.80
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (81 bp):
CAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGC
CTAGCTGTGCAATTGG
Found at i:450525 original size:283 final size:283
Alignment explanation
Indices: 450018--450581 Score: 1119
Period size: 283 Copynumber: 2.0 Consensus size: 283
450008 TCTTATTCAA
450018 CTTAAGAACTTAGTTGGCATGTAATTAAGCTATGGTAAACCCTTTGTAATGTAATTAAGTGATAA
1 CTTAAGAACTTAGTTGGCATGTAATTAAGCTATGGTAAACCCTTTGTAATGTAATTAAGTGATAA
450083 TTTTTTTTGAGTTTTCAAATGATAAACATTATTTTAAAGTGAAGTGACATCCATATCTCGTGTAT
66 TTTTTTTTGAGTTTTCAAATGATAAACATTATTTTAAAGTGAAGTGACATCCATATCTCGTGTAT
*
450148 GGAAGGGTATACGGGAGATGGATGTTACATTAACACTCTATAGTTAAGGGACCGTTTGTGTACTT
131 GGAAGGGTATACGGGAGATGGATGTTACAGTAACACTCTATAGTTAAGGGACCGTTTGTGTACTT
450213 CTTATAGAAGAACACACTTGATTTTTTTATTTAATCACTAGTATCCGATCTATTGATTGATTAAT
196 CTTATAGAAGAACACACTTGATTTTTTTATTTAATCACTAGTATCCGATCTATTGATTGATTAAT
450278 CTAGATCGGGTAACGTGAACGGT
261 CTAGATCGGGTAACGTGAACGGT
450301 CTTAAGAACTTAGTTGGCATGTAATTAAGCTATGGTAAACCCTTTGTAATGTAATTAAGTGATAA
1 CTTAAGAACTTAGTTGGCATGTAATTAAGCTATGGTAAACCCTTTGTAATGTAATTAAGTGATAA
450366 TTTTTTTTGAGTTTTCAAATGATAAACATTATTTTAAAGTGAAGTGACATCCATATCTCGTGTAT
66 TTTTTTTTGAGTTTTCAAATGATAAACATTATTTTAAAGTGAAGTGACATCCATATCTCGTGTAT
450431 GGAAGGGTATACGGGAGATGGATGTTACAGTAACACTCTATAGTTAAGGGACCGTTTGTGTACTT
131 GGAAGGGTATACGGGAGATGGATGTTACAGTAACACTCTATAGTTAAGGGACCGTTTGTGTACTT
450496 CTTATAGAAGAACACACTTGATTTTTTTATTTAATCACTAGTATCCGATCTATTGATTGATTAAT
196 CTTATAGAAGAACACACTTGATTTTTTTATTTAATCACTAGTATCCGATCTATTGATTGATTAAT
450561 CTAGATCGGGTAACGTGAACG
261 CTAGATCGGGTAACGTGAACG
450582 ACCCTCCCAA
Statistics
Matches: 280, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
283 280 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (283 bp):
CTTAAGAACTTAGTTGGCATGTAATTAAGCTATGGTAAACCCTTTGTAATGTAATTAAGTGATAA
TTTTTTTTGAGTTTTCAAATGATAAACATTATTTTAAAGTGAAGTGACATCCATATCTCGTGTAT
GGAAGGGTATACGGGAGATGGATGTTACAGTAACACTCTATAGTTAAGGGACCGTTTGTGTACTT
CTTATAGAAGAACACACTTGATTTTTTTATTTAATCACTAGTATCCGATCTATTGATTGATTAAT
CTAGATCGGGTAACGTGAACGGT
Found at i:451829 original size:15 final size:15
Alignment explanation
Indices: 451779--451830 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
451769 ATATTTAGCT
*
451779 GGGCGGACGGATGTG
1 GGGCGGGCGGATGTG
*
451794 GGGCGAGCGGATGTG
1 GGGCGGGCGGATGTG
*
451809 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGTG
451824 GGGCGGG
1 GGGCGGG
451831 TAATGTCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.10, C:0.15, G:0.65, T:0.10
Consensus pattern (15 bp):
GGGCGGGCGGATGTG
Found at i:462987 original size:31 final size:30
Alignment explanation
Indices: 462949--463015 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 30
462939 GGGTGACCAC
*
462949 ATCTTAATTAAATAAAAATAAAAGTGATCA
1 ATCTTAATTAAATAAAAACAAAAGTGATCA
*
462979 TATCTTAATTAAATAAAAACGAAAGTGATCA
1 -ATCTTAATTAAATAAAAACAAAAGTGATCA
463010 ATCTTA
1 ATCTTA
463016 TATTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 6 0.18
31 28 0.82
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (30 bp):
ATCTTAATTAAATAAAAACAAAAGTGATCA
Found at i:464006 original size:3 final size:3
Alignment explanation
Indices: 463998--464141 Score: 288
Period size: 3 Copynumber: 48.0 Consensus size: 3
463988 TGTGTAAATA
463998 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
464046 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
464094 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
464142 CATGTTAGAT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 141 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:464644 original size:20 final size:20
Alignment explanation
Indices: 464619--464773 Score: 125
Period size: 20 Copynumber: 7.7 Consensus size: 20
464609 AATTGGGAAA
*
464619 ATCGCAATGCGATACTGAGT
1 ATCGCAATGCGATACTGACT
464639 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
464659 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
464680 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* ** *
464700 TTCGCAACACGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
464720 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
464740 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
464760 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
464774 TTTCAAAGCG
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.04
20 84 0.74
21 24 0.21
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:464681 original size:61 final size:61
Alignment explanation
Indices: 464616--464732 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
464606 ACGAATTGGG
* * * ** *
464616 AAAATCGCAATGCGATACTGAGTATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATACTGACTATCGCAACGCGATAATAC
* * *
464677 AAAATCGCAACGAGATACTGACTTTCGCAACACGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATACTGACTATCGCAACGCGAT
464733 TCTGACTTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATACTGACTATCGCAACGCGATAATAC
Found at i:464684 original size:41 final size:40
Alignment explanation
Indices: 464639--464773 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 40
464629 GATACTGAGT
* * *
464639 ATCGCAATGCGATACTGACTATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC-AA
* * ** *
464680 ATCGCAACGAGATACTGACTTTCGCAACACGATTCTGAC-T
1 ATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-ACAA
* *
464720 TTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA-A
*
464761 ATCGCAATGCGAT
1 ATCGCAACGCGAT
464774 TTTCAAAGCG
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.41
41 40 0.54
42 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
ATCGCAACGCGATACTGACTTTCGCAACGCGATAATACAA
Found at i:464969 original size:22 final size:22
Alignment explanation
Indices: 464941--464984 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
464931 CACTCTCTCA
464941 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
464963 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
464985 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:465294 original size:20 final size:20
Alignment explanation
Indices: 465250--465298 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
465240 GCGATTCTCT
*
465250 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTAG
**
465270 CGTTGCGATAGTCATTTTAG
1 CGTTGCGATAGTCAAATTAG
*
465290 TGTTGCGAT
1 CGTTGCGAT
465299 TTTCATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTAG
Found at i:465499 original size:25 final size:24
Alignment explanation
Indices: 465445--465499 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
465435 TGTTTATTAT
* *
465445 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
465469 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
465495 TGTTT
1 TGTTT
465500 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:466656 original size:18 final size:18
Alignment explanation
Indices: 466632--466672 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
466622 CTTCGGGAGT
*
466632 CATCACCTCGCCCAGAGC
1 CATCACCTCACCCAGAGC
*
466650 TATCACCTCACCCAGAGC
1 CATCACCTCACCCAGAGC
466668 CATCA
1 CATCA
466673 TCTGATCGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
CATCACCTCACCCAGAGC
Done.