Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:427668 original size:17 final size:17
Alignment explanation
Indices: 427646--427734 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
427636 AATTAAGAGT
*
427646 TAGTTTAATAAATGAAC
1 TAGTTTAATGAATGAAC
*
427663 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
427680 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
427697 TAGTTTAATTAATGAAC
1 TAGTTTAATGAATGAAC
* * *
427714 TAACTTTATTCAATGAAC
1 T-AGTTTAATGAATGAAC
427732 TAG
1 TAG
427735 ATGCATGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
17 49 0.78
18 14 0.22
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:427685 original size:34 final size:35
Alignment explanation
Indices: 427646--427804 Score: 117
Period size: 34 Copynumber: 4.6 Consensus size: 35
427636 AATTAAGAGT
*
427646 TAGTTTAATAAATGAACTAGTTTG-ATGAATGAAC
1 TAGTTTAATAAATGAACTAGTATGCATGAATGAAC
* * ** *
427680 TAGTTTGATGAATGAACTAGT-TTAATTAATGAAC
1 TAGTTTAATAAATGAACTAGTATGCATGAATGAAC
* * * *
427714 TAACTTTATTCAATGAACTAG-ATGCATGAATGAAG
1 T-AGTTTAATAAATGAACTAGTATGCATGAATGAAC
* * * * *
427749 TAGCTTACTAAATGATCTAAATATGCATAAATGAAC
1 TAGTTTAATAAATGAACT-AGTATGCATGAATGAAC
***
427785 TAGTTCCTTAAATGAACTAG
1 TAGTTTAATAAATGAACTAG
427805 ATGTTTTAAA
Statistics
Matches: 94, Mismatches: 26, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
33 1 0.01
34 41 0.44
35 27 0.29
36 25 0.27
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (35 bp):
TAGTTTAATAAATGAACTAGTATGCATGAATGAAC
Found at i:429632 original size:19 final size:20
Alignment explanation
Indices: 429605--429682 Score: 79
Period size: 19 Copynumber: 4.0 Consensus size: 20
429595 ATTTGTTTTA
* *
429605 TTTATTATTATTATT-TTGT
1 TTTAATATTATTATTATTAT
429624 TTTAATATTATTATTATTAT
1 TTTAATATTATTATTATTAT
* *
429644 ATT-ATATTATTATTATTAA
1 TTTAATATTATTATTATTAT
* *
429663 ATAAATAATTATTATTATTA
1 TTTAAT-ATTATTATTATTA
429683 CAAACAGGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 31 0.61
20 7 0.14
21 13 0.25
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTAATATTATTATTATTAT
Found at i:429632 original size:22 final size:22
Alignment explanation
Indices: 429596--429661 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
429586 TTTTATTTCA
429596 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTA-TTATTATTATTAT
*
429619 TTTGTTTTAATATTATTATTAT
1 TTTGTTTTATTATTATTATTAT
* * *
429641 TATATTATATTATTATTATTA
1 TTTGTTTTATTATTATTATTA
429662 AATAAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
22 29 0.76
23 9 0.24
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTGTTTTATTATTATTATTAT
Found at i:429682 original size:3 final size:3
Alignment explanation
Indices: 429606--429661 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
429596 TTTGTTTTAT
* *
429606 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
429650 TTA TTA TTA TTA
1 TTA TTA TTA TTA
429662 AATAAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:431011 original size:12 final size:12
Alignment explanation
Indices: 430994--431058 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
430984 TTAATTCCTT
430994 TTATTTTAATTA
1 TTATTTTAATTA
*
431006 TTA-TTTACAATA
1 TTATTTTA-ATTA
431018 TTATTTTATTATTA
1 TTATTTTA--ATTA
*
431032 TTACTTTTTATTA
1 TTA-TTTTAATTA
431045 TTATTCTT-ATTA
1 TTATT-TTAATTA
431057 TT
1 TT
431059 TATATAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.09
12 17 0.39
13 13 0.30
14 6 0.14
15 4 0.09
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:431022 original size:3 final size:3
Alignment explanation
Indices: 431016--431058 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
431006 TTATTTACAA
* *
431016 TAT TAT T-T TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
431059 TATATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:431042 original size:16 final size:15
Alignment explanation
Indices: 431021--431058 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
431011 TACAATATTA
431021 TTTTATTATTATTACT
1 TTTTATTATTATT-CT
431037 TTTTATTATTATTCT
1 TTTTATTATTATTCT
*
431052 TATTATT
1 TTTTATT
431059 TATATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTATTATTCT
Found at i:431061 original size:16 final size:15
Alignment explanation
Indices: 431016--431058 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
431006 TTATTTACAA
431016 TATTATT-TTATTAT
1 TATTATTCTTATTAT
*
431030 TATTA--CTTTTTAT
1 TATTATTCTTATTAT
431043 TATTATTCTTATTAT
1 TATTATTCTTATTAT
431058 T
1 T
431059 TATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 11 0.46
14 5 0.21
15 8 0.33
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTCTTATTAT
Found at i:431278 original size:20 final size:19
Alignment explanation
Indices: 431253--431294 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
431243 TTATTTTATA
431253 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
431273 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
431292 AAT
1 AAT
431295 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:431279 original size:119 final size:120
Alignment explanation
Indices: 431156--431386 Score: 306
Period size: 120 Copynumber: 1.9 Consensus size: 120
431146 TAATATATAT
* * * *
431156 TTATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTCCATTTTCT
1 TTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGT-CATTTTCT
* *
431219 AATATTTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTGTTTTAA
65 AATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTGTTTTAA
* * ** * *
431275 TTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTTCTG
1 TTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTA
*
431340 ATATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
66 ATATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
431387 ATTTTCCATA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
119 30 0.31
120 45 0.47
121 21 0.22
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (120 bp):
TTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTA
ATATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTGTTTTAA
Found at i:436984 original size:6 final size:6
Alignment explanation
Indices: 436973--436997 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
436963 ATTTTATATT
436973 TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA T
436998 ATAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TTAAAA
Found at i:437067 original size:28 final size:29
Alignment explanation
Indices: 437007--437067 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
436997 TATAATTTAA
* *
437007 AAATATAAAAAGTGAATTATAAAAATATT
1 AAATATAAAAAGTGAAATATAAAAATATG
437036 AAATAATAAAAA-T-AAATATAAAAATATG
1 AAAT-ATAAAAAGTGAAATATAAAAATATG
437064 AAAT
1 AAAT
437068 TTAAGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 17 0.59
29 5 0.17
30 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (29 bp):
AAATATAAAAAGTGAAATATAAAAATATG
Found at i:437169 original size:20 final size:19
Alignment explanation
Indices: 437130--437169 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
437120 TAATTAGTAT
*
437130 TAAAATATAAATTATAAAA
1 TAAAATATAAAATATAAAA
*
437149 TAAATATATAAAATATTAAA
1 TAAA-ATATAAAATATAAAA
437169 T
1 T
437170 TTAGTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATATAAAATATAAAA
Found at i:437196 original size:29 final size:29
Alignment explanation
Indices: 437150--437207 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
437140 ATTATAAAAT
*
437150 AAATATATAAAATATTAAATTTAGTTTTA
1 AAATATAAAAAATATTAAATTTAGTTTTA
* *
437179 AAATATAAAAAATTTTAAATTTATTTTTA
1 AAATATAAAAAATATTAAATTTAGTTTTA
437208 CCATAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
AAATATAAAAAATATTAAATTTAGTTTTA
Found at i:442466 original size:14 final size:15
Alignment explanation
Indices: 442340--442504 Score: 154
Period size: 15 Copynumber: 10.5 Consensus size: 15
442330 TAATAAGGTT
442340 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
442355 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
442370 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
442385 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
442400 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
442415 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
442434 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
442452 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* * *
442466 ATTTATTAGTATGAATTG
1 ATTTATT--T-TAAAATA
442484 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
442498 ATTTATT
1 ATTTATT
442505 AGTATGGATT
Statistics
Matches: 127, Mismatches: 12, Indels: 23
0.78 0.07 0.14
Matches are distributed among these distances:
14 22 0.17
15 72 0.57
16 6 0.05
17 3 0.02
18 11 0.09
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:442489 original size:18 final size:18
Alignment explanation
Indices: 442466--442522 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
442456 ATTTTAAATA
442466 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
442484 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
442498 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
442516 ATTTATT
1 ATTTATT
442523 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:442491 original size:32 final size:32
Alignment explanation
Indices: 442452--442581 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
442442 TTTTAAAATA
*
442452 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
442484 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
442516 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
442538 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
442570 ATTTATTTTAAA
1 ATTTATTTTAAA
442582 ATATGGATTG
Statistics
Matches: 87, Mismatches: 1, Indels: 20
0.81 0.01 0.19
Matches are distributed among these distances:
22 14 0.16
23 4 0.05
25 1 0.01
26 3 0.03
28 3 0.03
29 1 0.01
31 4 0.05
32 57 0.66
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:442532 original size:22 final size:22
Alignment explanation
Indices: 442507--442549 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
442497 AATTTATTAG
442507 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
442529 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
442550 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:442651 original size:32 final size:32
Alignment explanation
Indices: 442608--443021 Score: 265
Period size: 32 Copynumber: 13.7 Consensus size: 32
442598 TATTGTAGTT
442608 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
442640 GCATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
442672 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
442695 -TATGGATTGATTTATTTTAAAA---------
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
442717 -TATGGATTGTTTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
442748 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
442780 GTATGGATTGATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * * *
442811 G-ATTTATT-ATTGTAGTTGTATGGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
442845 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
442882 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
442914 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
442937 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
442968 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
443000 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
443022 ATATGGATTG
Statistics
Matches: 314, Mismatches: 26, Indels: 84
0.74 0.06 0.20
Matches are distributed among these distances:
22 48 0.15
23 8 0.03
25 2 0.01
26 3 0.01
28 6 0.02
29 4 0.01
30 7 0.02
31 13 0.04
32 188 0.60
33 5 0.02
34 10 0.03
36 7 0.02
37 1 0.00
38 2 0.01
39 1 0.00
40 9 0.03
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:442655 original size:112 final size:112
Alignment explanation
Indices: 442529--443101 Score: 862
Period size: 112 Copynumber: 5.2 Consensus size: 112
442519 TATTTTAAAA
442529 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
442594 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
*
442641 CATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*** *
442706 TTA-T-TT-TA-AAATATGGATTGTTTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
*
442749 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
442814 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
** ** * ** * * *
442861 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
***
442923 GATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAG
63 GATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
*
442969 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
443034 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
443081 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
443102 ATATGGATTG
Statistics
Matches: 410, Mismatches: 37, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
108 170 0.41
109 17 0.04
110 14 0.03
111 17 0.04
112 192 0.47
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:442698 original size:22 final size:22
Alignment explanation
Indices: 442673--442737 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
442663 AATTTATTAG
442673 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
442695 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
442717 TATGGATTGTTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
442738 TAATTTATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:442715 original size:188 final size:186
Alignment explanation
Indices: 442507--443198 Score: 579
Period size: 188 Copynumber: 3.7 Consensus size: 186
442497 AATTTATTAG
442507 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * ***
442572 TTATTTT-AA-AA-TA-TGGATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATA
66 TTATTTTAAATAATTATTGGATGGATTGATTTATTGTA-AAATATGGATTGATTTA--TT--AT-
*
442632 ATTTA-TTAGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
125 -TGTAGTT-GCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
442695 TATGGATTGATTTATTTTAAAATATGGATTGTTTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* *
442760 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA
66 TTATTTTAAATAA-TTA-TTGGATGGATTGATTTATTGTAAAATATGGATTGATTTATTATTGTA
*
442825 GTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
129 GTTGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * *
442883 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
1 TATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATT
* * * * *
442945 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTG
63 GATTTATTTTAAATAA-TTATT-GGATGGATTGATTTATTGT-AA-AA--TA--TGGATTGATTT
* ** *
443010 ATTTATTTTAAAAT--ATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTT
120 A-TTATTGT-AGTTGCATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TT
443066 TAAATAATTTATTA
181 T---TAA---A--A
*
443080 GTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 -TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
* * *
443138 ATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
64 ATTTATTTTAAATAA-TTATT-GGATGGATTGATTTATTGTAAAATATGGATTGATTTATT
443199 TTAAATAATT
Statistics
Matches: 429, Mismatches: 41, Indels: 71
0.79 0.08 0.13
Matches are distributed among these distances:
185 2 0.00
186 9 0.02
187 6 0.01
188 219 0.51
189 21 0.05
190 12 0.03
191 5 0.01
192 60 0.14
193 1 0.00
194 45 0.10
195 15 0.03
196 5 0.01
197 2 0.00
198 23 0.05
199 4 0.01
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (186 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
TTATTTTAAATAATTATTGGATGGATTGATTTATTGTAAAATATGGATTGATTTATTATTGTAGT
TGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:442881 original size:80 final size:82
Alignment explanation
Indices: 442695--442935 Score: 344
Period size: 80 Copynumber: 2.9 Consensus size: 82
442685 TATTTTAAAA
* *
442695 TATGGATTGATTTATTTTAAAATATGGATTGTTTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-AAT-ATGTATTAGTATGGATTGAT
*
442760 TTATTTTAAATAATTTATTTG
62 TTATTTTAAATAATTTATTAG
442781 TATGGATTGATTTATTTTAAAATATGGATTGATTTATT-AT-TGTAGTT-GTATGGATTGATTTA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTA-TTAGTATGGATTGATTTA
442843 TTTTAAATAATTTATTAG
65 TTTTAAATAATTTATTAG
*
442861 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT-AAT-ATGTATTAGTATGGATTGAT
442926 TTATTTTAAA
62 TTATTTTAAA
442936 ATATGGATTG
Statistics
Matches: 143, Mismatches: 4, Indels: 16
0.88 0.02 0.10
Matches are distributed among these distances:
80 71 0.50
81 2 0.01
82 4 0.03
84 4 0.03
85 2 0.01
86 60 0.42
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTAATATGTATTAGTATGGATTGATTTAT
TTTAAATAATTTATTAG
Found at i:442886 original size:22 final size:22
Alignment explanation
Indices: 442861--442903 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
442851 AATTTATTAG
442861 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
442883 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
442904 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:442940 original size:22 final size:22
Alignment explanation
Indices: 442915--442957 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
442905 AATTTATTAG
442915 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
442937 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
442958 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:443095 original size:18 final size:18
Alignment explanation
Indices: 443072--443119 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
443062 ATTTTAAATA
*
443072 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
443090 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
443112 ATTTATTA
1 ATTTATTA
443120 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:443101 original size:80 final size:80
Alignment explanation
Indices: 442883--443198 Score: 535
Period size: 80 Copynumber: 3.9 Consensus size: 80
442873 TATTTTAAAA
442883 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
442948 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
*
442969 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
443034 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
443049 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
443114 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
443129 TATGGATTGATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
443194 TTATT
66 TTATT
443199 TTAAATAATT
Statistics
Matches: 225, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
80 152 0.68
81 2 0.01
82 2 0.01
84 2 0.01
86 67 0.30
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:443114 original size:220 final size:220
Alignment explanation
Indices: 442452--443118 Score: 1022
Period size: 220 Copynumber: 3.0 Consensus size: 220
442442 TTTTAAAATA
* ** **
442452 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATAATTTATTAGTATGGA-TT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATTT
* ** * * * *
442515 GATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
63 TAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT
*
442579 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCAT
128 AAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
**
442644 GGATTGATTTATTTT-AAATAATTTATTAG
193 GGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *
442673 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAAATATGGATTGTTTTATTTTA
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTA
442736 AATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAA
65 AATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAA
442801 AATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
130 AATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
442866 ATTGATTTATTTTAAAATATGGATTG
195 ATTGATTTATTTTAAAATATGGATTG
442892 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
442957 ATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA
443022 ATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
131 ATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
443087 TTGATTTATTTTAAAATATGGATTG
196 TTGATTTATTTTAAAATATGGATTG
443112 ATTTATT
1 ATTTATT
443119 ATTGTAGTTG
Statistics
Matches: 406, Mismatches: 33, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
218 5 0.01
219 20 0.05
220 361 0.89
221 17 0.04
222 3 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (220 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA
ATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
TTGATTTATTTTAAAATATGGATTG
Found at i:443186 original size:22 final size:22
Alignment explanation
Indices: 443161--443203 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
443151 AATTTATTAG
443161 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
443183 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
443204 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:443213 original size:54 final size:53
Alignment explanation
Indices: 442475--443212 Score: 448
Period size: 54 Copynumber: 13.6 Consensus size: 53
442465 AATTTATTAG
*
442475 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAA
442529 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAA
*
442583 TATGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTT--A-AA---A
442637 TTAGCATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 -T---ATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAA
** ** * ** * * *
442695 TATGGATTGATTTATTTTAAA-ATATGGATTGT-TTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTGTATGGA-TTGATTTATTTTA-AAA
442749 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAAA
*
442803 TATGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTGTATGGATTGATTTA-TTT---TAA---A--A
** ** * ** * * *
442860 GTATGGATTGATTTATTTTAAA-ATATGGATTG-ATTTATTTTAAATAATTTATTAG
1 -TATGGATTGATTTATTTTAAATA-ATTTATTGTATGGA-TTGATTTATTTTA-AAA
** ** * ** * * *
442915 TATGGATTGATTTATTTTAAA-ATATGGATTG-ATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTGTATGGA-TTGATTTATTTTA-AAA
442969 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAAA
*
443023 TATGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAAA
** ** * ** * *** ***
443070 TAATTTATTAGTATGGA-TTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTGTATGGATTGATTTA-T-TT-TA-AAA
*
443129 TATGGATTGATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAA
443183 TATGGATTGATTTATTTTAAATAATTTATT
1 TATGGATTGATTTATTTTAAATAATTTATT
443213 ATTGTAGTTG
Statistics
Matches: 549, Mismatches: 74, Indels: 122
0.74 0.10 0.16
Matches are distributed among these distances:
47 4 0.01
48 71 0.13
49 6 0.01
50 10 0.02
51 3 0.01
52 11 0.02
53 13 0.02
54 269 0.49
55 35 0.06
56 12 0.02
57 15 0.03
58 47 0.09
59 3 0.01
60 4 0.01
61 2 0.00
62 9 0.02
63 10 0.02
64 25 0.05
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (53 bp):
TATGGATTGATTTATTTTAAATAATTTATTGTATGGATTGATTTATTTTAAAA
Found at i:443263 original size:31 final size:31
Alignment explanation
Indices: 443228--443286 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
443218 AGTTGTATGG
* *
443228 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
443259 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
443287 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:447246 original size:24 final size:24
Alignment explanation
Indices: 447207--447255 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
447197 TAAAATTATT
*
447207 AAACCCTAATCTCAAATCTCAACCC
1 AAACCCTAATCCCAAA-CTCAACCC
*
447232 AAACCC-AATCCCAAACTCACCCC
1 AAACCCTAATCCCAAACTCAACCC
447255 A
1 A
447256 TCCGTTTGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 8 0.36
25 6 0.27
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (24 bp):
AAACCCTAATCCCAAACTCAACCC
Found at i:457548 original size:17 final size:20
Alignment explanation
Indices: 457504--457551 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
457494 TTTTATATAA
457504 ATTAAAATTTTAATTTAGTT
1 ATTAAAATTTTAATTTAGTT
457524 ATGATAAAATTTTAA-TTA-TT
1 AT--TAAAATTTTAATTTAGTT
457544 -TTAAAATT
1 ATTAAAATT
457552 ATAAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.27
19 1 0.04
20 4 0.15
21 3 0.12
22 11 0.42
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTAAAATTTTAATTTAGTT
Found at i:460376 original size:3 final size:3
Alignment explanation
Indices: 460362--460405 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
460352 ACTCTTATTT
*
460362 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
460406 GAAATCTGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:463014 original size:2 final size:2
Alignment explanation
Indices: 463007--463064 Score: 107
Period size: 2 Copynumber: 28.5 Consensus size: 2
462997 ATTTCTTGCT
463007 TA TA TA TA TA TA TA TA TA TA TA TCA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
463050 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
463065 GTGTGTGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 53 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:463825 original size:35 final size:35
Alignment explanation
Indices: 463779--463851 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
463769 AGGATCATTT
463779 TATAATTTTAATAGTCAAGATACTTAATAAAATAA
1 TATAATTTTAATAGTCAAGATACTTAATAAAATAA
463814 TATAATTTTAATAGTCAAGATACTTAATAAAATAA
1 TATAATTTTAATAGTCAAGATACTTAATAAAATAA
463849 TAT
1 TAT
463852 TCTATAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (35 bp):
TATAATTTTAATAGTCAAGATACTTAATAAAATAA
Found at i:464564 original size:16 final size:16
Alignment explanation
Indices: 464543--464574 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
464533 GCATCTAATT
464543 CCTTTTTGAGTTCAAG
1 CCTTTTTGAGTTCAAG
464559 CCTTTTTGAGTTCAAG
1 CCTTTTTGAGTTCAAG
464575 TTTCAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (16 bp):
CCTTTTTGAGTTCAAG
Found at i:465322 original size:13 final size:13
Alignment explanation
Indices: 465304--465331 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
465294 ATATAGATCT
465304 TTTTAAATTTTTA
1 TTTTAAATTTTTA
465317 TTTTAAATTTTTA
1 TTTTAAATTTTTA
465330 TT
1 TT
465332 CTTCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTAAATTTTTA
Found at i:465573 original size:3 final size:3
Alignment explanation
Indices: 465565--465596 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
465555 ATTTTAAACT
465565 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
465597 TACAAAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:471108 original size:23 final size:24
Alignment explanation
Indices: 471069--471120 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
471059 AACAATTTTC
*
471069 AATAA-TTTAAATCCATA-TTATG
1 AATAATTTTAAAACCATAGTTATG
* *
471091 AATAATTTTAAAAGCATAGTTATT
1 AATAATTTTAAAACCATAGTTATG
471115 AATAAT
1 AATAAT
471121 AAGTTCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 10 0.40
24 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
AATAATTTTAAAACCATAGTTATG
Found at i:471841 original size:36 final size:36
Alignment explanation
Indices: 471794--471863 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
471784 TAGGTCCATA
* *
471794 AGGAATTACCAGCTTGATCGGTGCTGAACTTGCATG
1 AGGAATTACCAGCTTGATCGGAGCTGAACCTGCATG
*
471830 AGGAATTACCAGCTTGATTGGAGCTGAACCTGCA
1 AGGAATTACCAGCTTGATCGGAGCTGAACCTGCA
471864 AAGACTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (36 bp):
AGGAATTACCAGCTTGATCGGAGCTGAACCTGCATG
Found at i:472650 original size:22 final size:22
Alignment explanation
Indices: 472609--472651 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
472599 TTTGACTTTT
*
472609 TGGTCAAAGTTAACGATCAAAC
1 TGGTCAAAGTTAAAGATCAAAC
472631 TGGTCAAAGGTTAAAG-TCAAA
1 TGGTCAAA-GTTAAAGATCAAA
472652 TTCAATGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (22 bp):
TGGTCAAAGTTAAAGATCAAAC
Found at i:479196 original size:118 final size:117
Alignment explanation
Indices: 479073--479426 Score: 302
Period size: 118 Copynumber: 3.1 Consensus size: 117
479063 AGCATAATAT
* *
479073 CATATTAGGTAGCACTTATGTAACGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTTGAA
1 CATATTAGGTAG-ACTTATGTAACGTAATAGGTAGCACCTTTTTAAAGCTGATGGGGCTTTAGAA
479138 ATCCGACGATAACAAAATAGGTTAATTACTTAATTTATTATTAGAATTATCAA
65 ATCCGACGATAACAAAATAGGTTAATTACTTAATTTATTATTAGAATTATCAA
* * * * * *** * * *
479191 TATATTATGTA-AC----G---CCTAA-ATGATACCA-AAGTTT-AAGCTGATGGAGCCTTAGGA
1 CATATTAGGTAGACTTATGTAACGTAATA-GGTAGCACCTTTTTAAAGCTGATGGGGCTTTAGAA
** * ** *** * * *
479245 ATCATACGATAACATAACCGGTTAATTAC-TAGAAACATTATAAAGCATAAT-AA
65 ATCCGACGATAACAAAATAGGTTAATTACTTA-ATTTATTAT-TAGAATTATCAA
* * *
479298 CATATTAGGTAGTGCTTATGTAACGTAATAAGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAA
1 CATATTAGGTAG-ACTTATGTAACGTAATAGGTAGCACCTTTTTAAAGCTGATGGGGCTTTAGAA
* * *
479363 ATCCGACGATAACAAAATAGGTTAATCACTTAATTTGTTATTAGTATTATCAA
65 ATCCGACGATAACAAAATAGGTTAATTACTTAATTTATTATTAGAATTATCAA
479416 CATATTAGGTA
1 CATATTAGGTA
479427 ACGCCTAAAA
Statistics
Matches: 168, Mismatches: 51, Indels: 34
0.66 0.20 0.13
Matches are distributed among these distances:
106 2 0.01
107 56 0.33
108 10 0.06
109 10 0.06
112 1 0.01
113 1 0.01
116 9 0.05
117 10 0.06
118 67 0.40
119 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (117 bp):
CATATTAGGTAGACTTATGTAACGTAATAGGTAGCACCTTTTTAAAGCTGATGGGGCTTTAGAAA
TCCGACGATAACAAAATAGGTTAATTACTTAATTTATTATTAGAATTATCAA
Found at i:479430 original size:225 final size:225
Alignment explanation
Indices: 479025--479709 Score: 929
Period size: 225 Copynumber: 3.1 Consensus size: 225
479015 AAAAATATAG
* * **
479025 ACGATAACATAACCTGTTAATTACTGGAAACATTATCAAGCATAATATCATATTAGGTAGCACTT
1 ACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTT
*
479090 ATGTAACGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTTGAAATCCGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTAGAAATCCGACGATAACAAAA
* * * *
479155 TAGGTTAATTACTTAATTTATTATTAGAATTATCAATATATTATGTAACGCCT-AAATGATACCA
131 TAGGTTAATTACTTAATTT-TTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
479219 AAGTTTAAGCTGATGGAGCCTTAGGAATCAT
195 AAGTTTAAGCTGATGGAGCCTTAGGAATCAT
* *
479250 ACGATAACATAACCGGTTAATTACTAGAAACATTATAAAGCATAATAACATATTAGGTAGTGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTT
* * *
479315 ATGTAACGTAATAAGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAA
66 ATGTAACGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTAGAAATCCGACGATAACAAAA
*
479380 TAGGTTAATCACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
131 TAGGTTAATTACTTAATTT-TTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCA
*
479445 AAGTTTAAGTTGATGGAGCCTTA-GAA--AT
195 AAGTTTAAGCTGATGGAGCCTTAGGAATCAT
* *
479473 -C-----C--GA-C-G---ATAACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTT
1 ACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTT
* * * * * * *
479525 ATGTAACGTAATAGGTATCACATTATTAAAGTTGATGGAGCCTTAGAAATCCAACGATAACAAAA
66 ATGTAACGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTAGAAATCCGACGATAACAAAA
* * * *
479590 TAGGTTAATTACTTAATTTTTATCAGTACTATCAACATATTAGGTAACACCTAAAATGTTAACAA
131 TAGGTTAATTACTTAATTTTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAA
* *
479655 AGTTTAAGCTAATGAAGCCTTAGGAATC-T
196 AGTTTAAGCTGATGGAGCCTTAGGAATCAT
*
479684 GACGATAACATAACCGATTAATTACT
1 -ACGATAACATAACCGGTTAATTACT
479710 TGATTTGTTA
Statistics
Matches: 401, Mismatches: 41, Indels: 36
0.84 0.09 0.08
Matches are distributed among these distances:
209 61 0.15
210 120 0.30
211 1 0.00
213 2 0.00
214 1 0.00
215 1 0.00
217 1 0.00
218 1 0.00
220 1 0.00
221 1 0.00
222 1 0.00
223 2 0.00
225 176 0.44
226 32 0.08
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (225 bp):
ACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTT
ATGTAACGTAATAGGTAGCACCTTTTTAAAGATGATGGGGCTTTAGAAATCCGACGATAACAAAA
TAGGTTAATTACTTAATTTTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAA
AGTTTAAGCTGATGGAGCCTTAGGAATCAT
Found at i:483227 original size:410 final size:400
Alignment explanation
Indices: 482434--483226 Score: 1036
Period size: 410 Copynumber: 2.0 Consensus size: 400
482424 TTTTACATGC
** * *
482434 TTTGTCATATTGAAACCGGTTTTATCAATTTTCAACCTGTTATATTTTCATGTATCGATACATGT
1 TTTGTCATATTGAAACCAATTTTATCAATTTTCAACCTGTTATATTGTCATGTATCAATACATGT
* * * * *
482499 GTATTAGGTATCGATACTTTCTGCGTGCATCTAGTTTGGGAAGCATAATGGACACAAAGTATCGA
66 GTATTAGGTATCGATACATTATACGTGCATCTAGTTTGGGAAGCATAATGGACAAAAAGTATCAA
* *
482564 TACATATACAAAACGTATCGATACTTTATGTTAACATATTTTGTCATTAAACTAATATATTTTTA
131 TACACATACAAAACGTATCGATACTTTATGTTAACATATTTTGTCATTAAACCAATATATTTTTA
*
482629 CCACTTACATTGTAAATTTACCTATTACTTGAAAGTAATCGGTTTCAAAGTTTTAAGAATCGATA
196 CCACTTACATTGTAAATTTACCTATTACTTGAAAGTAATAGGTTTCAAAGTTTTAAGAATCGATA
*
482694 CTTTTCATATGTGTATCGATACTTTATAGGCGCAATTATTGAAACCAGTTTTATCAATTTTCAAC
261 CTTTTCATATGTG--TCGATAC-ATATA---GC-A--A-TGAAACCAGTTTTATCAATTTTCAAC
* * *
482759 TTGTTATGTTATTTATATTTAATCGATACCCTTACCCTTACCGAAGTGTCGATACTTTTATGTAA
316 ATGTTATGTAATTTATATTTAATCGATACCATTACCCTTACCGAAGTGTCGATACTTTTATGTAA
482824 GGTATCAATACTTTAACGGT
381 GGTATCAATACTTTAACGGT
* * * *
482844 TTTGTCATATTGAAACCAATTTTGTCCATTTTTAACCTGTTATATTGTCATGTATCAATATATGT
1 TTTGTCATATTGAAACCAATTTTATCAATTTTCAACCTGTTATATTGTCATGTATCAATACATGT
* * * * *
482909 TTCA-TAGGTATTGATACATTATACGTGTATCTAGTTTGGGAATCATACTGGACAAAAAGTATCA
66 GT-ATTAGGTATCGATACATTATACGTGCATCTAGTTTGGGAAGCATAATGGACAAAAAGTATCA
* *
482973 ATACACATACAATAA-GTATTGATACTTTATGTTAACATATTTTGTCATTAAACCGATATATTTT
130 ATACACATACAA-AACGTATCGATACTTTATGTTAACATATTTTGTCATTAAACCAATATATTTT
* * * *
483037 TACCGCTTATATTGTAAATTTACCTATTACTTTAAAGTAATATGTTTCAAAGTTTTAAGAATCGA
194 TACCACTTACATTGTAAATTTACCTATTACTTGAAAGTAATAGGTTTCAAAGTTTTAAGAATCGA
* * *
483102 TAC-TTT-ATA-G-G-C-ATA-AT-TA-C-A-GAAACCGGTTTTGTCAATTTTGAACATGTTATG
259 TACTTTTCATATGTGTCGATACATATAGCAATGAAACCAGTTTTATCAATTTTCAACATGTTATG
* * * * *
483156 TAATTTATATTTAATCGATACCATTACCCTTACCGAAGTATTGATACTTTTGTGTAAGGTTTCGA
324 TAATTTATATTTAATCGATACCATTACCCTTACCGAAGTGTCGATACTTTTATGTAAGGTATCAA
483221 TACTTT
389 TACTTT
483227 TGAGACGTTT
Statistics
Matches: 342, Mismatches: 39, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
389 93 0.27
391 1 0.00
395 1 0.00
399 2 0.01
400 1 0.00
402 3 0.01
403 1 0.00
406 1 0.00
407 1 0.00
408 3 0.01
409 3 0.01
410 229 0.67
411 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (400 bp):
TTTGTCATATTGAAACCAATTTTATCAATTTTCAACCTGTTATATTGTCATGTATCAATACATGT
GTATTAGGTATCGATACATTATACGTGCATCTAGTTTGGGAAGCATAATGGACAAAAAGTATCAA
TACACATACAAAACGTATCGATACTTTATGTTAACATATTTTGTCATTAAACCAATATATTTTTA
CCACTTACATTGTAAATTTACCTATTACTTGAAAGTAATAGGTTTCAAAGTTTTAAGAATCGATA
CTTTTCATATGTGTCGATACATATAGCAATGAAACCAGTTTTATCAATTTTCAACATGTTATGTA
ATTTATATTTAATCGATACCATTACCCTTACCGAAGTGTCGATACTTTTATGTAAGGTATCAATA
CTTTAACGGT
Found at i:483434 original size:19 final size:19
Alignment explanation
Indices: 483412--483449 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
483402 ATTTAATCGA
*
483412 TTTTGTCAAATTTTAACCG
1 TTTTGTCAAATATTAACCG
483431 TTTTGTCAAATATTAACCG
1 TTTTGTCAAATATTAACCG
483450 GTGTAGAAAT
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:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTTGTCAAATATTAACCG
Found at i:486198 original size:12 final size:12
Alignment explanation
Indices: 486181--486209 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
486171 AAGACTCCAT
486181 TGACATAAAAAA
1 TGACATAAAAAA
486193 TGACATAAAAAA
1 TGACATAAAAAA
486205 TGACA
1 TGACA
486210 AGTTTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (12 bp):
TGACATAAAAAA
Found at i:487115 original size:2 final size:2
Alignment explanation
Indices: 487108--487161 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
487098 TAAAATCCGA
487108 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
487150 AT AT AT AT AT AT
1 AT AT AT AT AT AT
487162 CCTTGCCCAT
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:488284 original size:199 final size:198
Alignment explanation
Indices: 487944--488375 Score: 582
Period size: 199 Copynumber: 2.2 Consensus size: 198
487934 GCAGTGTTTT
* * *
487944 CATACTGGACAAGAAGTATCGATACATATGCAAAATATCGATACTTTATGTTTACGTATTTTATC
1 CATACTGGACAAAAAGTATCGATACAAATACAAAATATCGATACTTTATGTTTACGTATTTTATC
* *
488009 ATTAAACCGGTATATTTTTACCACTTACATTGAAAATTTACCTATTACTTTATAGTAATAGGTTT
66 ATTAAACCGATATATTTTTACCACTTACATTGAAAATTTACCTATTACCTTATAGTAATAGGTTT
* * *
488074 CGAACTTTTAAGAATCGATACTT-TAATACGCGTATCGATACTTTCTACGTGCATCTCGTTTGGG
131 CGAACTTTTAAGAATCGATACTTCTAATACGCGTATCGATACATTCTACATGCATCTAGTTTGGG
*
488138 AAG
196 AAA
* * *
488141 CATACTGGAAAAAAAGTATCGATACAAATACAACAAGTATCGATACTTTATGTTTATGTATTTTT
1 CATACTGGACAAAAAGTATCGATACAAATACAA-AA-TATCGATACTTTATGTTTACGTATTTTA
* * *
488206 TCATTAAACTGATATATTTTTACCGCTTACATT-ATAAATTTACTTATTACCTTATAGTAATCA-
64 TCATTAAACCGATATATTTTTACCACTTACATTGA-AAATTTACCTATTACCTTATAGTAAT-AG
* * * * * * *
488269 GTTTTGAAGTTTTAAGAATCGATATTTCTGATACGTGTATCGATACATTCTGCATGCATGTAGTT
127 GTTTCGAACTTTTAAGAATCGATACTTCTAATACGCGTATCGATACATTCTACATGCATCTAGTT
*
488334 TGTGAAA
192 TGGGAAA
* *
488341 CATACTGGACAAAAAGTATCGATACACATAAAAAA
1 CATACTGGACAAAAAGTATCGATACAAATACAAAA
488376 GTTTCTAACC
Statistics
Matches: 204, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
197 29 0.14
198 3 0.01
199 106 0.52
200 66 0.32
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (198 bp):
CATACTGGACAAAAAGTATCGATACAAATACAAAATATCGATACTTTATGTTTACGTATTTTATC
ATTAAACCGATATATTTTTACCACTTACATTGAAAATTTACCTATTACCTTATAGTAATAGGTTT
CGAACTTTTAAGAATCGATACTTCTAATACGCGTATCGATACATTCTACATGCATCTAGTTTGGG
AAA
Found at i:488922 original size:213 final size:213
Alignment explanation
Indices: 488555--488970 Score: 814
Period size: 213 Copynumber: 2.0 Consensus size: 213
488545 TAAAAAACAA
488555 GAAGTCATATTTAGATGTTGTTCATGCACTTGAAGAAGGAATTAGTAGAATGCATATCAACGAGT
1 GAAGTCATATTTAGATGTTGTTCATGCACTTGAAGAAGGAATTAGTAGAATGCATATCAACGAGT
488620 TGAAAGCAGATTACTTAAGTTCCCAGATAAAGCCCTTCAAGATCACAAAATTGATTGACCTTGAA
66 TGAAAGCAGATTACTTAAGTTCCCAGATAAAGCCCTTCAAGATCACAAAATTGATTGACCTTGAA
*
488685 AGCCATGCTGCTGATATTTACACGCGTGAATCTTTTCGTTTATTCCAAGAAGAACTTCAACGGGG
131 AGCCATGCTGCTGATATTTACACGCGTGAATCTTTTCGTTTATTCCAAGAAGAACTTCAACGGGA
488750 GACATTGTTCGTGCACTT
196 GACATTGTTCGTGCACTT
*
488768 GAAGTCATATTTAGATGTTGTTCGTGCACTTGAAGAAGGAATTAGTAGAATGCATATCAACGAGT
1 GAAGTCATATTTAGATGTTGTTCATGCACTTGAAGAAGGAATTAGTAGAATGCATATCAACGAGT
488833 TGAAAGCAGATTACTTAAGTTCCCAGATAAAGCCCTTCAAGATCACAAAATTGATTGACCTTGAA
66 TGAAAGCAGATTACTTAAGTTCCCAGATAAAGCCCTTCAAGATCACAAAATTGATTGACCTTGAA
488898 AGCCATGCTGCTGATATTTACACGCGTGAATCTTTTCGTTTATTCCAAGAAGAACTTCAACGGGA
131 AGCCATGCTGCTGATATTTACACGCGTGAATCTTTTCGTTTATTCCAAGAAGAACTTCAACGGGA
488963 GACATTGT
196 GACATTGT
488971 ACCGACTTCA
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 201 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (213 bp):
GAAGTCATATTTAGATGTTGTTCATGCACTTGAAGAAGGAATTAGTAGAATGCATATCAACGAGT
TGAAAGCAGATTACTTAAGTTCCCAGATAAAGCCCTTCAAGATCACAAAATTGATTGACCTTGAA
AGCCATGCTGCTGATATTTACACGCGTGAATCTTTTCGTTTATTCCAAGAAGAACTTCAACGGGA
GACATTGTTCGTGCACTT
Found at i:489897 original size:19 final size:18
Alignment explanation
Indices: 489860--489908 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
489850 TTGCTCATCT
* *
489860 CATACATAATTTTATTCA
1 CATACAAAATTTAATTCA
489878 CATACAAAATTATAATTCA
1 CATACAAAATT-TAATTCA
489897 CATACAAAATTT
1 CATACAAAATTT
489909 GGCTTACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (18 bp):
CATACAAAATTTAATTCA
Found at i:493453 original size:19 final size:19
Alignment explanation
Indices: 493425--493502 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
493415 CATTTATACA
*
493425 ACCTACAATATCATTTTCT
1 ACCTATAATATCATTTTCT
* * *
493444 ACCTATAATATTATATAC-
1 ACCTATAATATCATTTTCT
** *
493462 AAGTATCAATATTTATTTTCT
1 ACCTAT-AATA-TCATTTTCT
*
493483 ACCTATAATATCACTTTCT
1 ACCTATAATATCATTTTCT
493502 A
1 A
493503 ACTCTAATCG
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
18 4 0.09
19 26 0.59
20 10 0.23
21 4 0.09
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (19 bp):
ACCTATAATATCATTTTCT
Found at i:493776 original size:230 final size:231
Alignment explanation
Indices: 493369--493790 Score: 679
Period size: 230 Copynumber: 1.8 Consensus size: 231
493359 TAATAAAACG
* *
493369 GTTTCCTTCAAAGGAATCGAAATACTCTCTACTATAAGAATCGATACATTTATACAACCTACAAT
1 GTTTCCTTCAAACGAATCGAAATACTCTCTACTACAAGAATCGATACATTTATACAACCTACAAT
* *
493434 ATCATTTTCTACCTATAATATTATATACAAGTATCAATATTTATTTTCTACCTATAATATCACTT
66 ATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACTT
* * *
493499 TCTAACTCTAATCGGTCCCAAATCCTTCTTTGCTTTGAAATCCCCAAACCCATAAA-CCCTAATC
131 TCTAACTATAATCGGTCCCAAATCCTTCTTTACTTTGAAAACCCCAAACCCATAAAGCCCTAATC
493563 CATATTTTCAATTACTATAATACTAAAAAAACTAGA
196 CATATTTTCAATTACTATAATACTAAAAAAACTAGA
* *
493599 GTTTCCTTTAAACGAAT-GAGAATACTCTCTACTACAAGTATC-AGTACATTTATACAACCTACA
1 GTTTCCTTCAAACGAATCGA-AATACTCTCTACTACAAGAATCGA-TACATTTATACAACCTACA
* * *
493662 ATATCATTTTCTACCTATAATATTTTATAAAAGTATCGATATTTATTTTGTACCTAGAATATCAC
64 ATATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCAC
* *
493727 TTTCTACCTATAATCGGTCCCAAATGCTTCTTTACTTTGAAAACCCCAAACCCATAAAGCCCTA
129 TTTCTAACTATAATCGGTCCCAAATCCTTCTTTACTTTGAAAACCCCAAACCCATAAAGCCCTA
493791 TTTTTGACTA
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
229 3 0.02
230 167 0.95
231 5 0.03
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (231 bp):
GTTTCCTTCAAACGAATCGAAATACTCTCTACTACAAGAATCGATACATTTATACAACCTACAAT
ATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACTT
TCTAACTATAATCGGTCCCAAATCCTTCTTTACTTTGAAAACCCCAAACCCATAAAGCCCTAATC
CATATTTTCAATTACTATAATACTAAAAAAACTAGA
Found at i:496936 original size:35 final size:35
Alignment explanation
Indices: 496873--496939 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
496863 CTTAGATCCG
**
496873 TAAGGAATTACCAGCTTGATTGGTCTGAACCTACA
1 TAAGGAATTACCAGCTTGACCGGTCTGAACCTACA
*
496908 TAAGGAATTACCAGTTTGACCGAG-CTGAACCT
1 TAAGGAATTACCAGCTTGACCG-GTCTGAACCT
496940 GCAGAAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (35 bp):
TAAGGAATTACCAGCTTGACCGGTCTGAACCTACA
Found at i:497518 original size:27 final size:27
Alignment explanation
Indices: 497461--497518 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
497451 TAATATAGTC
* *
497461 ATTTTACACTTCAAGGGTATTTTGGTT
1 ATTTTACACTTCAAGGGTATTCTGGTA
*
497488 ATTTTACACTTTAAGGGTAATTCT-GTA
1 ATTTTACACTTCAAGGGT-ATTCTGGTA
497515 ATTT
1 ATTT
497519 CATAATTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (27 bp):
ATTTTACACTTCAAGGGTATTCTGGTA
Found at i:503917 original size:21 final size:21
Alignment explanation
Indices: 503893--503974 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
503883 CCAGAACCCC
*
503893 CAGGGGGTATCGATTCCCCTA
1 CAGGGGGAATCGATTCCCCTA
503914 CAGGGGGAATC-AGTTCCCCTTCA
1 CAGGGGGAATCGA-TTCCCC-T-A
* * * *
503937 AAGGGGGAATTGGTTCCCCTT
1 CAGGGGGAATCGATTCCCCTA
*
503958 CAGGAGGGTATCGATTC
1 CAGG-GGGAATCGATTC
503975 ACTCTGCACC
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 19 0.40
22 11 0.23
23 16 0.34
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (21 bp):
CAGGGGGAATCGATTCCCCTA
Found at i:503965 original size:24 final size:23
Alignment explanation
Indices: 503915--503959 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
503905 ATTCCCCTAC
503915 AGGGGGAATCAGTTCCCCTTCAA
1 AGGGGGAATCAGTTCCCCTTCAA
**
503938 AGGGGGAATTGGTTCCCCTTCA
1 AGGGGGAATCAGTTCCCCTTCA
503960 GGAGGGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (23 bp):
AGGGGGAATCAGTTCCCCTTCAA
Found at i:511181 original size:23 final size:22
Alignment explanation
Indices: 511159--511226 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 22
511149 TCCTTTGGGA
511159 ATATTCTATGTGGTC-CTTCGGG
1 ATATTCTATGTGG-CACTTCGGG
*
511181 ATAAATCTATGTGGCACTTCGGTG
1 AT-ATTCTATGTGGCACTTCGG-G
* *
511205 CATATTCTACGTGGCTCTTCGG
1 -ATATTCTATGTGGCACTTCGG
511227 TGCAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 3 0.08
23 16 0.42
24 17 0.45
25 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (22 bp):
ATATTCTATGTGGCACTTCGGG
Found at i:511718 original size:20 final size:19
Alignment explanation
Indices: 511693--511738 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
511683 AAATATATTA
*
511693 AATATTTGTTTTCATTGTTT
1 AATATTTATTTTCATT-TTT
*
511713 AATATTTATTTTGATTTTT
1 AATATTTATTTTCATTTTT
511732 AACTATT
1 AA-TATT
511739 GTTAATGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (19 bp):
AATATTTATTTTCATTTTT
Found at i:516952 original size:19 final size:20
Alignment explanation
Indices: 516917--516958 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
516907 AACTGTTTGA
* *
516917 ATTATTTTATGTTAAATTTT
1 ATTATTTTATCTTAAATTGT
516937 ATTATTTTA-CTTAAATTGT
1 ATTATTTTATCTTAAATTGT
516956 ATT
1 ATT
516959 TCATAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTATTTTATCTTAAATTGT
Found at i:517144 original size:23 final size:23
Alignment explanation
Indices: 517118--517187 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
517108 GTTCTACGCT
*
517118 GTCCTTTGGGACAATTCTATGTG
1 GTCCTTCGGGACAATTCTATGTG
* ***
517141 GTCCTTCAGGACAATTCTACACG
1 GTCCTTCGGGACAATTCTATGTG
* *
517164 ATCCTTCGGGACAAATCTATGTG
1 GTCCTTCGGGACAATTCTATGTG
517187 G
1 G
517188 CACTTTGGTG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (23 bp):
GTCCTTCGGGACAATTCTATGTG
Found at i:517717 original size:20 final size:20
Alignment explanation
Indices: 517694--517731 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
517684 TAAATATTTG
517694 TTTTCATTGTTTAA-TATTAA
1 TTTTCATT-TTTAACTATTAA
*
517714 TTTTGATTTTTAACTATT
1 TTTTCATTTTTAACTATT
517732 GTTAATGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTCATTTTTAACTATTAA
Found at i:522453 original size:36 final size:36
Alignment explanation
Indices: 522406--522477 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
522396 ATAGTATACA
*
522406 ATAACTTATGAAAATCTCTATTCTTGATACGACTCT
1 ATAACTTATGAAAATCTCTAATCTTGATACGACTCT
522442 ATAACTTATGAAAATCTCTAATCTTGATACGACTCT
1 ATAACTTATGAAAATCTCTAATCTTGATACGACTCT
522478 CTCATTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (36 bp):
ATAACTTATGAAAATCTCTAATCTTGATACGACTCT
Found at i:522478 original size:19 final size:19
Alignment explanation
Indices: 522420--522479 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
522410 CTTATGAAAA
*
522420 TCTCTATTCTTGATACGAC
1 TCTCTAATCTTGATACGAC
* * *
522439 TCTATAA-CTT-ATGA-AAA
1 TCTCTAATCTTGAT-ACGAC
522456 TCTCTAATCTTGATACGAC
1 TCTCTAATCTTGATACGAC
522475 TCTCT
1 TCTCT
522480 CATTTAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
17 9 0.30
18 8 0.27
19 13 0.43
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTCTAATCTTGATACGAC
Found at i:525522 original size:14 final size:14
Alignment explanation
Indices: 525503--525530 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
525493 TGTTAAATAG
525503 CTAAGATGTTAACA
1 CTAAGATGTTAACA
525517 CTAAGATGTTAACA
1 CTAAGATGTTAACA
525531 TGTGTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
CTAAGATGTTAACA
Found at i:531159 original size:91 final size:93
Alignment explanation
Indices: 530942--531169 Score: 248
Period size: 93 Copynumber: 2.5 Consensus size: 93
530932 TTGATCCCTT
* * **
530942 GAGTGAGGCGTTGCTGATTCGAAATGTCGTAAATCGAG-CAATGGTTGAACAAATTCTTCATTGT
1 GAGTGAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCCAA-GGTTGAACAAATTCTTCATCAT
* *
531006 GAATTCTCTACTAGAAATATTGGTCCCTC
65 GAATTCTCCACTAGAAATATTGGTACCTC
** * * * *
531035 GAGTGAGGCGTCACTGATTCAAAATGTCATGAATCGAGCCAAGGTTGAATAATTTC-TCCTCATG
1 GAGTGAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCCAAGGTTGAACAAATTCTTCATCATG
*
531099 AATTCTCCACTAGAAATGTTGG-ACCTC
66 AATTCTCCACTAGAAATATTGGTACCTC
* * * * *
531126 -ATGTGAAGCGTTGTTGATTTAAAATGTCGTGAATCAAGCAAAGG
1 GA-GTGAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCCAAGG
531170 AAATTTTAAT
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
90 1 0.01
91 38 0.34
92 25 0.22
93 45 0.40
94 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (93 bp):
GAGTGAGGCGTTGCTGATTCAAAATGTCGTGAATCGAGCCAAGGTTGAACAAATTCTTCATCATG
AATTCTCCACTAGAAATATTGGTACCTC
Found at i:531351 original size:59 final size:59
Alignment explanation
Indices: 531140--531351 Score: 343
Period size: 59 Copynumber: 3.6 Consensus size: 59
531130 GAAGCGTTGT
* * *
531140 TGATTTAAAATGTCGTGAATCAAGCAAAGGAAATTTTAATCCCTCGAGTGAGGCGTCGC
1 TGATTCAAAATGTCGTGAATCGAGCAAAGGAAATGTTAATCCCTCGAGTGAGGCGTCGC
* * * *
531199 TGATTCAAAATGTCTTGAATTGAGTAAAGGAAATATTAATCCCTCGAGTGAGGCGTCGC
1 TGATTCAAAATGTCGTGAATCGAGCAAAGGAAATGTTAATCCCTCGAGTGAGGCGTCGC
*
531258 TGATTCAAAATGTCGTGAATCGAGTAAAGGAAATGTTAATCCCTCGAGTGAGGCGTCGC
1 TGATTCAAAATGTCGTGAATCGAGCAAAGGAAATGTTAATCCCTCGAGTGAGGCGTCGC
*
531317 TAATTCAAAATGTCGTGAATCGAGCAAAGGAAATG
1 TGATTCAAAATGTCGTGAATCGAGCAAAGGAAATG
531352 AAATATTCTC
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 142 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (59 bp):
TGATTCAAAATGTCGTGAATCGAGCAAAGGAAATGTTAATCCCTCGAGTGAGGCGTCGC
Found at i:531453 original size:36 final size:37
Alignment explanation
Indices: 531409--531483 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
531399 GAATGAAAAT
*
531409 AAATTTATTT-GAAGAGG-AACTATCTCAGGTGAGATA
1 AAATTTATTTCG-AGAGGAAACTATCTCAAGTGAGATA
* *
531445 AAATTTATTTCGAGGGGAAACTGTCTCAAGTGAGATA
1 AAATTTATTTCGAGAGGAAACTATCTCAAGTGAGATA
531482 AA
1 AA
531484 CTTCTTGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (37 bp):
AAATTTATTTCGAGAGGAAACTATCTCAAGTGAGATA
Found at i:531748 original size:39 final size:38
Alignment explanation
Indices: 531557--531975 Score: 117
Period size: 36 Copynumber: 11.1 Consensus size: 38
531547 TGAAATTTGC
*
531557 TTTAAGAAAAACAATCTTGAGTGAAATGAAATTTCTTGT
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAATGTCTTGT
** ** ** * *
531596 TTCGAGTAAAAACTGTCTCAAGTGAGACAAA-GT-TTGT
1 TTTAAG-AAAAACAATCTTGAGTGAAATAAATGTCTTGT
* ** * * *
531633 TTTAAGAAAAACAATATCAAGTGAGATAAAATTTC-TAT
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAATGTCTTGT
** * ** * * **
531671 TTTGCGTAAAAACTATCTAAAGCGAGACGAA-GT-TTGT
1 TTTAAG-AAAAACAATCTTGAGTGAAATAAATGTCTTGT
531708 TTTAAGAAAAACAATCTTGAGTGAAATTAAATGTCTTGT
1 TTTAAGAAAAACAATCTTGAGTGAAA-TAAATGTCTTGT
* *** ** * * **
531747 TTCAAGTAAAAATTGTCTCAAGCGAGA-CGATGT-TTGT
1 TTTAAG-AAAAACAATCTTGAGTGAAATAAATGTCTTGT
*
531784 TTTAAGAAAAACAATCTTGAGTGAAATGAATTGTCTTGT
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAATGTCTTGT
** ** ** * * *
531823 TTCGAGTAAAAACCGTCTCAAGCGAGATAAA-GT-TTAT
1 TTTAAG-AAAAACAATCTTGAGTGAAATAAATGTCTTGT
** *
531860 TTTAAGAAAAACAATCTCAAGTGAGATGAAAT-T-TATGT
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAATGTCT-TGT
** * * ** ** * **
531898 TTCGAGTGAAATCTGTCTCAAGTGAGACGAA-GT-TTGT
1 TTTAAG-AAAAACAATCTTGAGTGAAATAAATGTCTTGT
531935 TTTAAGAAAAACAATCTTGAGTGAAATGAAATGTCTTGT
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAATGTCTTGT
531974 TT
1 TT
531976 CGACTAAAAA
Statistics
Matches: 266, Mismatches: 92, Indels: 44
0.66 0.23 0.11
Matches are distributed among these distances:
36 76 0.29
37 50 0.19
38 33 0.12
39 64 0.24
40 43 0.16
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (38 bp):
TTTAAGAAAAACAATCTTGAGTGAAATAAATGTCTTGT
Found at i:531930 original size:227 final size:224
Alignment explanation
Indices: 531529--532397 Score: 1002
Period size: 227 Copynumber: 3.9 Consensus size: 224
531519 ATTTCAGGGG
* ** * **
531529 AAATTTTCTCAAGCGAGATGAAATTTGCTTTAAGAAAAACAATCTTGAGTGAAATGAAAT-TTCT
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAAT-AAATCTTC-
* * * *
531593 TGTTTCGAGTAAAAACTGTCTCAAGTGAGACAAAGT-TTGTTTTAAGAAAAACAATATCAAGTGA
64 TGTTTCGAGT-AAAACTATCTCAAGCGAGATAAA-TCTTGTTTTAAGAAAAACAATCTCAAGTGA
* * * *
531657 GATAAA-ATTTCTATTTTGCGTAAAAACTATCTAAAGCGAGACGAAGT-TTGTTTTAAGAAAAAC
127 GATAAATA-TTCTATTTCGAGT-GAAACTATCTCAAGCGAGACGAA-TATTGTTTTAAGAAAAAC
*
531720 AATCTTGAGTGAAATTAAATGTCTTGTTTCAAGTAA
189 AATCTTGAGTGAAATTAAATGTCTTGTTTCGAGTAA
* ** ** *
531756 AAATTGTCTCAAGCGAGACGATGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAT-TGTCT
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATCT-TC-
** *
531820 TGTTTCGAGTAAAAACCGTCTCAAGCGAGATAAAGT-TTATTTTAAGAAAAACAATCTCAAGTGA
64 TGTTTCGAGT-AAAACTATCTCAAGCGAGATAAA-TCTTGTTTTAAGAAAAACAATCTCAAGTGA
* * * *
531884 GATGAAAT-TTATGTTTCGAGTGAAATCTGTCTCAAGTGAGACGAAGT-TTGTTTTAAGAAAAAC
127 GAT-AAATATTCTATTTCGAGTGAAA-CTATCTCAAGCGAGACGAA-TATTGTTTTAAGAAAAAC
* *
531947 AATCTTGAGTGAAATGAAATGTCTTGTTTCGACTAA
189 AATCTTGAGTGAAATTAAATGTCTTGTTTCGAGTAA
* * * * *
531983 AAATTGTCTCAATCGAGACAAAGTTTATTTCAAGAAAAACAATCTCAAGTGAGATAAATCTTCTG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATCTTCTG
* * * * *
532048 TTTCGAGTGAAACAATCTCAAGCTAGATGAATCTTGTTTTAGGAAAAACAATCTCAAGTGAGATA
66 TTTCGAGTAAAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
* * * * **
532113 AATATTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACGATCTCA
131 AATATTCTATTTCGAGTGAAACTATCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCTTG
* * * *
532178 AGTGAGA-TAAATATTTTGTTTCGAGT-G
196 AGTGAAATTAAATGTCTTGTTTCGAGTAA
* * * **
532205 AAACTATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGGGATAAATCTTCTG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATCTTCTG
* * *
532270 TTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAATAATCTCAAGAGAGATA
66 TTTCGAGTAAAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
* *
532335 AATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCT
131 AATATTCTATTTCGAGTGAAACTATCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCT
532398 CAAGTGAGAT
Statistics
Matches: 565, Mismatches: 69, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
222 175 0.31
223 16 0.03
224 47 0.08
225 63 0.11
226 17 0.03
227 243 0.43
228 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (224 bp):
AAATTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATCTTCTG
TTTCGAGTAAAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
AATATTCTATTTCGAGTGAAACTATCTCAAGCGAGACGAATATTGTTTTAAGAAAAACAATCTTG
AGTGAAATTAAATGTCTTGTTTCGAGTAA
Found at i:532102 original size:74 final size:72
Alignment explanation
Indices: 531535--532487 Score: 952
Period size: 74 Copynumber: 12.8 Consensus size: 72
531525 GGGGAAATTT
* ** *
531535 TCTCAAGCGAGATGAAATTTGCTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTCTTGTTTCG
1 TCTCAAGCGAGATG-AATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTC-TGTTTCG
* *
531600 AGTAAAAACTG
63 AGT-GAAACTA
* ** * * * *
531611 TCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATATCAAGTGAGATAAAATTTCTATTTTGC
1 TCTCAAGCGAGATGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTCTGTTTCGA
*
531676 GTAAAAACTA
64 GT-GAAACTA
* * ** * * *
531686 TCTAAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATTAAATGTCTTGTTTCA
1 TCTCAAGCGAGATGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGA-TAAATTTC-TGTTTCG
* * *
531751 AGTAAAAATTG
63 AGT-GAAACTA
* * ** * *
531762 TCTCAAGCGAGACGATGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAATTGTCTTGTTTCG
1 TCTCAAGCGAGATGA-ATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT-TC-TGTTTCG
* **
531827 AGTAAAAACCG
63 AGT-GAAACTA
* * *
531838 TCTCAAGCGAGATAAAGTTTATTTTAAGAAAAACAATCTCAAGTGAGATGAAATTTATGTTTCGA
1 TCTCAAGCGAGATGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTCTGTTTCGA
*
531903 GTGAAATCTG
64 GTGAAA-CTA
* * ** * *
531913 TCTCAAGTGAGACGAAGTTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATGTCTTGTTTCG
1 TCTCAAGCGAGATGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTC-TGTTTCG
* * * *
531978 ACTAAAAATTG
63 AGT-GAAACTA
* ** * *
531989 TCTCAATCGAGACAAAGTTTATTTCAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTCGA
1 TCTCAAGCGAGATGAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGA
*
532054 GTGAAACAA
64 GTGAAACTA
* *
532063 TCTCAAGCTAGATGAATCTTGTTTTAGGAAAAACAATCTCAAGTGAGATAAATATTCTGTTTCGA
1 TCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGA
532128 GTGAAACTA
64 GTGAAACTA
* *
532137 TCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAATATTTTGTTTCGA
1 TCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGA
532202 GTGAAACTA
64 GTGAAACTA
* *
532211 TCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGGGATAAATCTTCTGTTTCGA
1 TCTCAAGCGAGAT-GAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGA
532276 GTGAAACTA
64 GTGAAACTA
* * * *
532285 TCTCAAGCGAGATAAATCTTGTTTTAAGAAAAATAATCTCAAGAGAGATAAATCTTCTATTTCGA
1 TCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGA
532350 GTGAAACTA
64 GTGAAACTA
* *
532359 TCTCAAGCGAGATGAATATTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTATGTTCCGA
1 TCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGA
* *
532424 GCGAAAATA
64 GTGAAACTA
* * * *
532433 TCTCAAGCAAGATGAATATTATTTTAATAATAACAATCTCAAGTGAGATAAATTT
1 TCTCAAGCGAGATGAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTT
532488 TGTATTAAAT
Statistics
Matches: 757, Mismatches: 106, Indels: 31
0.85 0.12 0.03
Matches are distributed among these distances:
73 7 0.01
74 383 0.51
75 143 0.19
76 217 0.29
77 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (72 bp):
TCTCAAGCGAGATGAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTGTTTCGAGT
GAAACTA
Found at i:535967 original size:16 final size:16
Alignment explanation
Indices: 535946--535976 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
535936 TCATTATTTT
535946 TGTTTTAATGAATGAA
1 TGTTTTAATGAATGAA
*
535962 TGTTTTAATGCATGA
1 TGTTTTAATGAATGA
535977 TTTGGACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
TGTTTTAATGAATGAA
Found at i:538302 original size:16 final size:16
Alignment explanation
Indices: 538281--538311 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
538271 AAATGAAGGG
538281 TAAAAATAAAATAAAT
1 TAAAAATAAAATAAAT
*
538297 TAAAAATAAATTAAA
1 TAAAAATAAAATAAA
538312 GGACTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAATAAAATAAAT
Found at i:540738 original size:13 final size:13
Alignment explanation
Indices: 540716--540783 Score: 91
Period size: 13 Copynumber: 5.2 Consensus size: 13
540706 GTTCTAACTT
*
540716 ATGGTCTCATCTC
1 ATGGTTTCATCTC
540729 ATGGTTTCATCTC
1 ATGGTTTCATCTC
*
540742 ATTGTTTCATCTC
1 ATGGTTTCATCTC
* *
540755 ATTGTTTCATCAC
1 ATGGTTTCATCTC
*
540768 ATGGTTTTATCTC
1 ATGGTTTCATCTC
540781 ATG
1 ATG
540784 CTCGGAATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (13 bp):
ATGGTTTCATCTC
Found at i:540950 original size:9 final size:9
Alignment explanation
Indices: 540936--541012 Score: 67
Period size: 8 Copynumber: 9.1 Consensus size: 9
540926 CTTTTCCTTT
540936 TCTTTTTTC
1 TCTTTTTTC
540945 TCTTTTTTC
1 TCTTTTTTC
*
540954 -CTCTTTT-
1 TCTTTTTTC
540961 TC-TTTTTC
1 TCTTTTTTC
*
540969 TATTTTTTC
1 TCTTTTTTC
540978 T-TTTTTTC
1 TCTTTTTTC
*
540986 -CTCTTTTC
1 TCTTTTTTC
*
540994 -CTTTTTCTT
1 TCTTTTT-TC
541003 TCTTTTTTC
1 TCTTTTTTC
541012 T
1 T
541013 TTTCAAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
7 4 0.07
8 26 0.47
9 19 0.35
10 6 0.11
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:540966 original size:24 final size:23
Alignment explanation
Indices: 540933--541015 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 23
540923 TTCCTTTTCC
540933 TTTTCTTTTTTCTCTTTTTTCCTCT
1 TTTTC-TTTTTCTCTTTTTT-CTCT
* *
540958 TTTTCTTTTTCTATTTTTTCTTT
1 TTTTCTTTTTCTCTTTTTTCTCT
*
540981 TTTTCCTCTTTTC-CTTTTTCTTTCTT
1 TTTT-CT-TTTTCTCTTTTT-TCTC-T
541007 TTTTCTTTT
1 TTTTCTTTT
541016 CAAAATTGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 7 0.14
24 23 0.47
25 14 0.29
26 5 0.10
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCTTTTTCTCTTTTTTCTCT
Found at i:540983 original size:32 final size:33
Alignment explanation
Indices: 540926--541015 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 33
540916 TTCTATTTTC
*
540926 CTTTTCC-TTTTCTT-TTTTCTC-TTTTTTCCT
1 CTTTTCCTTTTTCTTATTTTTTCTTTTTTTCCT
*
540956 CTTTTTCTTTTTC-TATTTTTTCTTTTTTTCCT
1 CTTTTCCTTTTTCTTATTTTTTCTTTTTTTCCT
*
540988 CTTTTCCTTTTTCTTTCTTTTTTCTTTT
1 CTTTTCCTTTTTC-TTATTTTTTCTTTT
541016 CAAAATTGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
30 7 0.14
31 11 0.22
32 21 0.41
34 12 0.24
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (33 bp):
CTTTTCCTTTTTCTTATTTTTTCTTTTTTTCCT
Found at i:540998 original size:23 final size:23
Alignment explanation
Indices: 540972--541016 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
540962 CTTTTTCTAT
540972 TTTTTCTTT-TTTTCCTCTTTTCC
1 TTTTTCTTTCTTTT-CTCTTTTCC
*
540995 TTTTTCTTTCTTTTTTCTTTTC
1 TTTTTCTTTCTTTTCTCTTTTC
541017 AAAATTGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTCTTTTCTCTTTTCC
Found at i:541015 original size:16 final size:17
Alignment explanation
Indices: 540910--541016 Score: 64
Period size: 17 Copynumber: 6.1 Consensus size: 17
540900 TCACTTTGGA
540910 TCTTTCTTCTATTTTCCTTT
1 TCTTTC-TCT-TTTT-CTTT
540930 TCCTTT-TCTTTTTTCTCTT
1 T-CTTTCTC-TTTTTCT-TT
540949 T-TTTCCTCTTTTTCTTT
1 TCTTT-CTCTTTTTCTTT
* *
540966 T-TCTAT-TTTTTCTTT
1 TCTTTCTCTTTTTCTTT
*
540981 T-TTTCCTCTTTTCCTTTT
1 TCTTT-CTCTTTTTC-TTT
540999 TCTTTCT-TTTTTCTTT
1 TCTTTCTCTTTTTCTTT
541015 TC
1 TC
541017 AAAATTGTGG
Statistics
Matches: 72, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
15 12 0.17
16 7 0.10
17 18 0.25
18 15 0.21
19 14 0.19
20 2 0.03
21 4 0.06
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTTCTCTTTTTCTTT
Found at i:541722 original size:33 final size:32
Alignment explanation
Indices: 541685--541754 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
541675 CCACTTTTCA
*
541685 TTTCTCTTCTT-TCTTTATATT-TTTTTCTCTCTT
1 TTTCTCTTATTATCTTT-T-TTCTTTTTCTCT-TT
541718 TTTCTCTTATTATCTTTTTTCTTTTTCTCTTT
1 TTTCTCTTATTATCTTTTTTCTTTTTCTCTTT
541750 TTTCT
1 TTTCT
541755 TTTTTTTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 9 0.26
33 20 0.59
34 5 0.15
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTCTCTTATTATCTTTTTTCTTTTTCTCTTT
Found at i:541725 original size:8 final size:8
Alignment explanation
Indices: 541707--541758 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
541697 CTTTATATTT
541707 TTTTCTCTC
1 TTTT-TCTC
541716 TTTTTCTC
1 TTTTTCTC
* *
541724 TTATTATC
1 TTTTTCTC
541732 TTTTT-TC
1 TTTTTCTC
541739 TTTTTCTC
1 TTTTTCTC
541747 TTTTT-TC
1 TTTTTCTC
541754 TTTTT
1 TTTTT
541759 TTTTCTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 14 0.36
8 21 0.54
9 4 0.10
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCTC
Found at i:541727 original size:25 final size:27
Alignment explanation
Indices: 541687--541739 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 27
541677 ACTTTTCATT
541687 TCTCTTCTTTCTTTA-TAT-TTTTTTC
1 TCTCTTCTTTCTTTATTATCTTTTTTC
541712 TCTCTT-TTTCTCTTATTATCTTTTTTC
1 TCTCTTCTTTCT-TTATTATCTTTTTTC
541739 T
1 T
541740 TTTTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.20
25 9 0.36
26 3 0.12
27 8 0.32
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (27 bp):
TCTCTTCTTTCTTTATTATCTTTTTTC
Found at i:541728 original size:23 final size:22
Alignment explanation
Indices: 541685--541764 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
541675 CCACTTTTCA
*
541685 TTTCTCTTCTTTCTTTATATTTTT
1 TTTCTCTT-TTTCTCT-TATTTTT
541709 TTCTCTCTTTTTCTCTTATTATCTT
1 TT-TCTCTTTTTCTCTTATT-T-TT
*
541734 TTT-TCTTTTTCTCTT-TTTTC
1 TTTCTCTTTTTCTCTTATTTTT
541754 TTT-T-TTTTTCT
1 TTTCTCTTTTTCT
541765 TCAAGCATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 7 0.14
20 5 0.10
21 1 0.02
22 2 0.04
23 16 0.31
24 10 0.20
25 10 0.20
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTCTCTTTTTCTCTTATTTTT
Found at i:541756 original size:15 final size:15
Alignment explanation
Indices: 541706--541758 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
541696 TCTTTATATT
541706 TTTTTCTCTCTTTTTC
1 TTTTTCTCT-TTTTTC
*
541722 TCTTATTATCTTTTTTC
1 T-TT-TTCTCTTTTTTC
541739 TTTTTCTCTTTTTTC
1 TTTTTCTCTTTTTTC
541754 TTTTT
1 TTTTT
541759 TTTTCTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 16 0.48
16 3 0.09
17 9 0.27
18 5 0.15
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCTCTTTTTTC
Found at i:563267 original size:20 final size:20
Alignment explanation
Indices: 563242--563281 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
563232 TAAAGAGCCT
*
563242 AAAACCTAAGG-CTTAATTAA
1 AAAACCAAAGGAC-TAATTAA
563262 AAAACCAAAGGACTAATTAA
1 AAAACCAAAGGACTAATTAA
563282 TATTACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (20 bp):
AAAACCAAAGGACTAATTAA
Found at i:564940 original size:12 final size:12
Alignment explanation
Indices: 564908--564940 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
564898 ATGGATCATA
*
564908 AAATGCAACATG
1 AAATGCAATATG
564920 AAATGCAATATG
1 AAATGCAATATG
564932 AAATGCAAT
1 AAATGCAAT
564941 GCAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (12 bp):
AAATGCAATATG
Found at i:567288 original size:27 final size:24
Alignment explanation
Indices: 567247--567297 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
567237 CGGAATCAAT
567247 AGAACCTAGAACTGATG-CATCAGA
1 AGAACCTAGAACTGA-GACATCAGA
567271 AGAACCTGCAGAATCTGAGACATCAGA
1 AGAACCT--AGAA-CTGAGACATCAGA
567298 GTCTGAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 7 0.30
26 5 0.22
27 11 0.48
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (24 bp):
AGAACCTAGAACTGAGACATCAGA
Found at i:573328 original size:37 final size:38
Alignment explanation
Indices: 573268--573341 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
573258 TGTTCTTTTT
* *
573268 TGAGTGATGATTCAGTGAATGATTGCTTTTTCTTATCTG
1 TGAGTGATGATTCAGT-AATGATTCCGTTTTCTTATCTG
*
573307 TGAGTGATGATTCAGT-TTGATTCCGTTTTCTTATC
1 TGAGTGATGATTCAGTAATGATTCCGTTTTCTTATC
573342 ATCACGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 16 0.50
39 16 0.50
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.47
Consensus pattern (38 bp):
TGAGTGATGATTCAGTAATGATTCCGTTTTCTTATCTG
Found at i:575175 original size:118 final size:122
Alignment explanation
Indices: 575043--575261 Score: 306
Period size: 123 Copynumber: 1.8 Consensus size: 122
575033 AACAAAAGTA
*
575043 ATTTACATATTTTTATTATTATGAATATC-TA-TGAAGAAT-TT-T-CACAATATAAATAT-TTT
1 ATTTACATATTTTTATTATTATGAATATCTTAGT-AA-AATGTTATGCAAAATATAAATATATTT
575102 TTACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
64 TTACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
* * * * *
575161 ATTTACATCTTTTTATTATTATGAATATCTTAGTTAAATGTTGATGTAAAATTTTAATATATTTT
1 ATTTACATATTTTTATTATTATGAATATCTTAGTAAAATGTT-ATGCAAAATATAAATATATTTT
*
575226 TACATAAATTATTTAAAATTTAATATTAATTAAAAT
65 TACATAAATTATGTAAAATTTAATATTAATTAAAAT
575262 TAAAATAATA
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
118 31 0.36
119 5 0.06
120 1 0.01
121 1 0.01
122 10 0.11
123 39 0.45
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (122 bp):
ATTTACATATTTTTATTATTATGAATATCTTAGTAAAATGTTATGCAAAATATAAATATATTTTT
ACATAAATTATGTAAAATTTAATATTAATTAAAATATCTTAAATTATAAACATTTTT
Found at i:575336 original size:15 final size:15
Alignment explanation
Indices: 575316--575346 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
575306 CAACAAATAA
575316 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
575331 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
575346 A
1 A
575347 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:578917 original size:30 final size:30
Alignment explanation
Indices: 578881--578948 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
578871 AACTTGATCG
578881 TGAAATCATATTATGTTTCTTACTCTTCCA
1 TGAAATCATATTATGTTTCTTACTCTTCCA
578911 TGAAATCATATTATGTTTCTTACTCTTCCA
1 TGAAATCATATTATGTTTCTTACTCTTCCA
578941 TGAAATCA
1 TGAAATCA
578949 AGTTTCATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.44
Consensus pattern (30 bp):
TGAAATCATATTATGTTTCTTACTCTTCCA
Found at i:579089 original size:2 final size:2
Alignment explanation
Indices: 579082--579119 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
579072 TCTTTCAATC
579082 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
579120 TAGTTTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:579197 original size:21 final size:20
Alignment explanation
Indices: 579159--579201 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
579149 GTCAAGTCTC
579159 TTCATCAAATGATAGTAATCT
1 TTCATCAAATGATAGTAA-CT
* *
579180 TTCATCAAATGGTCGTAACT
1 TTCATCAAATGATAGTAACT
579200 TT
1 TT
579202 ATAATTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
TTCATCAAATGATAGTAACT
Found at i:579350 original size:15 final size:16
Alignment explanation
Indices: 579332--579370 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
579322 TCGACTGGTC
*
579332 ATTGTTGTTGT-GTTT
1 ATTGTTGTGGTCGTTT
579347 ATTGTTGTGGTCGTTT
1 ATTGTTGTGGTCGTTT
*
579363 TTTGTTGT
1 ATTGTTGT
579371 ATCCTGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.05, C:0.03, G:0.28, T:0.64
Consensus pattern (16 bp):
ATTGTTGTGGTCGTTT
Found at i:579770 original size:16 final size:13
Alignment explanation
Indices: 579734--579784 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
579724 ATTTATAATC
579734 TTTTAAAAAATTA
1 TTTTAAAAAATTA
579747 TTTTAAAAAATATA
1 TTTTAAAAAAT-TA
579761 TATTTGAAAAACA-T-
1 T-TTT-AAAAA-ATTA
579775 TTTTAAAAAA
1 TTTTAAAAAA
579785 AATCCCCCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 1 0.03
12 5 0.15
13 14 0.41
14 4 0.12
15 4 0.12
16 5 0.15
17 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (13 bp):
TTTTAAAAAATTA
Found at i:580818 original size:20 final size:20
Alignment explanation
Indices: 580785--580836 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
580775 TGATTCAATC
*
580785 AGTATCGATGCCGAAGGGGG
1 AGTATCGATACCGAAGGGGG
* *
580805 AGTATTGATACCGAA-GGGA
1 AGTATCGATACCGAAGGGGG
580824 AGGTATCGATACC
1 A-GTATCGATACC
580837 ATTTTGAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (20 bp):
AGTATCGATACCGAAGGGGG
Found at i:580885 original size:19 final size:22
Alignment explanation
Indices: 580861--580913 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 22
580851 TGAAAAAATG
580861 GTATCGATACCATAG-A-AG-A
1 GTATCGATACCATAGTATAGTA
*
580880 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAGTATAGTA
580902 GTATCGATACCA
1 GTATCGATACCA
580914 CTGTAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 1 0.03
21 2 0.07
22 12 0.41
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGTA
Found at i:581326 original size:55 final size:55
Alignment explanation
Indices: 581260--581550 Score: 410
Period size: 55 Copynumber: 5.3 Consensus size: 55
581250 AGTGTACTAT
*
581260 AGGCACTATGTGTGCAATTCCACATAATTCATCATGAGTTGATGAATAGCCGTAC
1 AGGCACTATGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAGCCGTAC
* * *
581315 AGGCACTATGTGTGCAATTCCACGGAATTCATTATGAGTTGATGACT-GCCCGTAC
1 AGGCACTATGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAG-CCGTAC
* * * *
581370 ATGCACTATGTGTGCAATTCCACGGAATTTATCATGAGTTGATGAATATCCGTAC
1 AGGCACTATGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAGCCGTAC
* *
581425 AGGCACTATGTGTGTAATTCCAC-GAAATTCACCATGAGTTGATGAATAGCCGTAC
1 AGGCACTATGTGTGCAATTCCACAG-AATTCATCATGAGTTGATGAATAGCCGTAC
* *
581480 AGGCACTATGTGTGCAATTTCACAGAATTCATCATGAGTTGATGAATTA-CCGTAT
1 AGGCACTATGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAA-TAGCCGTAC
581535 AGGCACTACT-TGTGCA
1 AGGCACTA-TGTGTGCA
581551 TTCTAATAAA
Statistics
Matches: 212, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
54 2 0.01
55 206 0.97
56 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (55 bp):
AGGCACTATGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAGCCGTAC
Found at i:583030 original size:78 final size:78
Alignment explanation
Indices: 582913--583056 Score: 207
Period size: 78 Copynumber: 1.8 Consensus size: 78
582903 GTTTGGTTTG
* * * * *
582913 ATTCAAATTTTATCTAAAAAAGATGAGTCAAATTTGGATCAGGTGAAGTCACCCTAAACTCGGAT
1 ATTCAAATTTTAACTAAAAAAGACGAGTCAAATTCGGATCAAGTAAAGTCACCCTAAACTCGGAT
582978 CGAGTTGAGTTGA
66 CGAGTTGAGTTGA
* * * *
582991 ATTCAAGTTTTAACTAAAAAAGACGGGTTAGATTCGGATCAAGTAAAGTCACCCTAAACTCGGAT
1 ATTCAAATTTTAACTAAAAAAGACGAGTCAAATTCGGATCAAGTAAAGTCACCCTAAACTCGGAT
583056 C
66 C
583057 AGACCAGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (78 bp):
ATTCAAATTTTAACTAAAAAAGACGAGTCAAATTCGGATCAAGTAAAGTCACCCTAAACTCGGAT
CGAGTTGAGTTGA
Found at i:584842 original size:26 final size:26
Alignment explanation
Indices: 584793--584842 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
584783 AAACTATGTA
*
584793 TTTAATACTTAAACTATCAGTTTTGG
1 TTTAATACTTAAACTATCAATTTTGG
* *
584819 TTTAATACTTAAACTTTTAATTTT
1 TTTAATACTTAAACTATCAATTTT
584843 TTTCAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (26 bp):
TTTAATACTTAAACTATCAATTTTGG
Found at i:585082 original size:16 final size:16
Alignment explanation
Indices: 585058--585098 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
585048 CTTTCTCTTA
*
585058 TATCTCTCCCTTGTAT
1 TATCCCTCCCTTGTAT
585074 TATCCCTCCCTTGTAT
1 TATCCCTCCCTTGTAT
585090 TATCCCTCC
1 TATCCCTCC
585099 AAAAATTCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.39, G:0.05, T:0.44
Consensus pattern (16 bp):
TATCCCTCCCTTGTAT
Found at i:588871 original size:22 final size:23
Alignment explanation
Indices: 588843--588886 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
588833 TATATGGATC
588843 TGAAAA-TAAACTTT-AATTTAAA
1 TGAAAATTAAA-TTTAAATTTAAA
588865 TGAAAATTAAATTTAAATTTAA
1 TGAAAATTAAATTTAAATTTAA
588887 TATTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (23 bp):
TGAAAATTAAATTTAAATTTAAA
Found at i:592299 original size:44 final size:44
Alignment explanation
Indices: 592202--592299 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
592192 CATTATTTTT
* * * *
592202 AATT-TTTGACAATAATTAATAACTAGATCAAATTCTGATGTAT
1 AATTCTTTGAAAATAATTAATAACTAAATCAAATTCAGATGTAC
*
592245 AATTCGTTGAAAATAATTAATAA-TCAAATCAAATTCAGATGTAC
1 AATTCTTTGAAAATAATTAATAACT-AAATCAAATTCAGATGTAC
*
592289 CATTCTTTGAA
1 AATTCTTTGAA
592300 GAAAAAAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 5 0.11
44 41 0.89
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (44 bp):
AATTCTTTGAAAATAATTAATAACTAAATCAAATTCAGATGTAC
Found at i:594061 original size:25 final size:25
Alignment explanation
Indices: 594019--594066 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
594009 TAGAGAAGGA
*
594019 AACAACTAGTATATCAATCCACGTG
1 AACAACTAGTATAACAATCCACGTG
*
594044 AACAACATAGTA-AACAATGCACG
1 AACAAC-TAGTATAACAATCCACG
594067 GTTTATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (25 bp):
AACAACTAGTATAACAATCCACGTG
Found at i:594838 original size:21 final size:22
Alignment explanation
Indices: 594812--594852 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
594802 TCAGGACAGG
*
594812 GAGTATCGGTAC-TCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
594833 GAGTATCGATACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
594853 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:600062 original size:16 final size:16
Alignment explanation
Indices: 600038--600068 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
600028 CATTTCCAAA
600038 TCATACATTAAAATAT
1 TCATACATTAAAATAT
*
600054 TCATTCATTAAAATA
1 TCATACATTAAAATA
600069 ATAATAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (16 bp):
TCATACATTAAAATAT
Found at i:605220 original size:21 final size:20
Alignment explanation
Indices: 605181--605231 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
605171 TATAAATCAT
* *
605181 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATATCACTTTGA
*
605201 TTTTCAAAATATCAACTTTGG
1 TTTTCAAAATATC-ACTTTGA
*
605222 CTTTCAAAAT
1 TTTTCAAAAT
605232 CAAATCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (20 bp):
TTTTCAAAATATCACTTTGA
Found at i:605439 original size:18 final size:18
Alignment explanation
Indices: 605416--605461 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
605406 GTTGGCTACT
605416 TCATCTTCATCATTGGAG
1 TCATCTTCATCATTGGAG
605434 TCATCTTCATCATTGGAG
1 TCATCTTCATCATTGGAG
*
605452 TCATTTTCAT
1 TCATCTTCAT
605462 TAGTCCAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
TCATCTTCATCATTGGAG
Found at i:608114 original size:76 final size:76
Alignment explanation
Indices: 607907--608116 Score: 246
Period size: 76 Copynumber: 2.8 Consensus size: 76
607897 ATCTCACTTG
* * * * * *
607907 AGATTGTTTTTCTTAAAACAAAACTTTGTCTTGTTTGAGACAGTTTTTACTCGAAACAATACATT
1 AGATTGTTTTTCTTAAAACAAGA-TTTATCTCGCTTGAGATAGTTTTTACTCGAAACAATACAAT
607972 TCATTTCACTAC
65 TCATTTCACTAC
* * * *
607984 AGATTATTTTTCTTAAAACAAGATTAATCTCACTTGAGATAGTTTTTACCCGAAACAATGA-AAT
1 AGATTGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTTTACTCGAAACAAT-ACAAT
608048 TCATTTCACT-C
65 TCATTTCACTAC
* * *
608059 AAGATTGTTTTTCTTAAAACCAGATTTTATCTCGCTTGAGATA-ATTTCACTCGAAACA
1 -AGATTGTTTTTCTTAAAACAAGA-TTTATCTCGCTTGAGATAGTTTTTACTCGAAACA
608117 GAAGTTTTTA
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
75 1 0.01
76 74 0.65
77 38 0.34
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.39
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGATAGTTTTTACTCGAAACAATACAATT
CATTTCACTAC
Found at i:608137 original size:39 final size:39
Alignment explanation
Indices: 608080--608615 Score: 743
Period size: 39 Copynumber: 13.7 Consensus size: 39
608070 TCTTAAAACC
*
608080 AGATTTTATCTCGCTTGAGATAATTTCACTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * * *
608119 AGTTTTTATCTCGTTTGAGATAGTTTCATTCGAAATAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
608158 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAGCAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
608197 AGATTTTCATCTCGCTTGAGATAGTTTTATTCGAAACAGA
1 AGATTTT-ATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
608237 AGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
608276 AGATTTTTATCTCGCTTGAGATAGTTTCACTCTAAACAAA
1 AGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
608316 AGATTTTTATCTCGCTTGAGATAGTTTCACTCGAAATATA
1 AGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
608356 AGATTTTATCTCGCTTGAGATATTTTCACTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
608395 AGATTTTATCTCGCTTGAGATGGTTT-ATCTGGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCA-CTCGAAACAGA
* * * *
608434 ATATTTTTATCTCGCTTGAGATCGTTTCACTAGAAACAAA
1 AGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
608474 AGATTTTATCTCACTTGAGATAGTTTCACTCAAAACAAA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
608513 AGATTTTATCTCGCTTGAGAGAGTTTCATTCAAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
608552 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
608591 AGA-TTTACCTCACTTGAGATTGTTT
1 AGATTTTATCTCGCTTGAGATAGTTT
608616 TTCTTAAAAC
Statistics
Matches: 444, Mismatches: 48, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
38 20 0.05
39 281 0.63
40 142 0.32
41 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (39 bp):
AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
Found at i:608231 original size:118 final size:117
Alignment explanation
Indices: 608080--608615 Score: 752
Period size: 118 Copynumber: 4.6 Consensus size: 117
608070 TCTTAAAACC
* * **
608080 AGATTTTATCTCGCTTGAGATAATTTCACTCGAAACAGAAGTTTTTATCTCGTTTGAGATAGTTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
* * *
608145 CATTCGAAATAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAGCAGA
66 CACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
608197 AGATTTTCATCTCGCTTGAGATAGTTTTATTCGAAACAGAAGATTTTATCTCACTTGAGATAGTT
1 AGATTTT-ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTT
* *
608262 TCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTTTCACTCTAAACAAA
65 TCACTCGAAACAGAAGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * * *
608316 AGATTTTTATCTCGCTTGAGATAGTTTCACTCGAAATATAAGATTTTATCTCGCTTGAGATATTT
1 AGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTT
* *
608381 TCACTCGAAACAGAAGATTTTATCTCGCTTGAGATGGTTT-ATCTGGAAACAGA
65 TCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCA-CTCGAAACAGA
* * * *
608434 ATATTTTTATCTCGCTTGAGATCGTTTCACTAGAAACAAAAGATTTTATCTCACTTGAGATAGTT
1 AGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTT
* * * * *
608499 TCACTCAAAACAAAAGATTTTATCTCGCTTGAGAGAGTTTCATTCAAAACAGA
65 TCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
608552 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGA-TTTACCTCACTTGAGATTGTTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
608616 TTCTTAAAAC
Statistics
Matches: 372, Mismatches: 42, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
116 20 0.05
117 43 0.12
118 200 0.54
119 105 0.28
120 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (117 bp):
AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAGTTT
CACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
Found at i:608246 original size:79 final size:79
Alignment explanation
Indices: 608080--608596 Score: 745
Period size: 79 Copynumber: 6.6 Consensus size: 79
608070 TCTTAAAACC
* *
608080 AGATTTTATCTCGCTTGAGATAATTTCACTCGAAACAGAAG-TTTTTATCTCGTTTGAGATAGTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTT
* *
608144 TCATTCGAAATAGA
66 TCACTCGAAACAGA
* *
608158 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAGCAGAAGATTTTCATCTCGCTTGAGATAGTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTT
* *
608223 TTATTCGAAACAGA
66 TCACTCGAAACAGA
*
608237 AGATTTTATCTCACTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTT
* *
608302 TCACTCTAAACAAA
66 TCACTCGAAACAGA
* * *
608316 AGATTTTTATCTCGCTTGAGATAGTTTCACTCGAAATATAAGA-TTTTATCTCGCTTGAGATATT
1 AGA-TTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGT
608380 TTCACTCGAAACAGA
65 TTCACTCGAAACAGA
* * * *
608395 AGATTTTATCTCGCTTGAGATGGTTT-ATCTGGAAACAGAATATTTTTATCTCGCTTGAGATCGT
1 AGATTTTATCTCGCTTGAGATAGTTTCA-CTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGT
* *
608459 TTCACTAGAAACAAA
65 TTCACTCGAAACAGA
* * * *
608474 AGATTTTATCTCACTTGAGATAGTTTCACTCAAAACAAAAGA-TTTTATCTCGCTTGAGAGAGTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTT
* *
608538 TCATTCAAAACAGA
66 TCACTCGAAACAGA
*
608552 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAATAGAAGATTT
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT
608597 ACCTCACTTG
Statistics
Matches: 389, Mismatches: 44, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
77 1 0.00
78 139 0.36
79 212 0.54
80 37 0.10
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (79 bp):
AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTTATCTCGCTTGAGATAGTT
TCACTCGAAACAGA
Found at i:613347 original size:20 final size:21
Alignment explanation
Indices: 613322--613360 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
613312 GTTGGGTCCG
613322 TTTCTAGCCG-TTGGGGATTA
1 TTTCTAGCCGTTTGGGGATTA
613342 TTTCTAGCCGTTTGGGGAT
1 TTTCTAGCCGTTTGGGGAT
613361 GTTTTCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.13, C:0.15, G:0.31, T:0.41
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATTA
Found at i:619874 original size:21 final size:20
Alignment explanation
Indices: 619844--619882 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
619834 ATAACCAACG
*
619844 AATTCGCAACACAGAATTTAA
1 AATTCACAACAC-GAATTTAA
*
619865 AATTCACAACGCGAATTT
1 AATTCACAACACGAATTT
619883 CTTTTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (20 bp):
AATTCACAACACGAATTTAA
Found at i:620737 original size:21 final size:21
Alignment explanation
Indices: 620703--620752 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
620693 AGGATAAGGA
*
620703 GAAAAGAG-AATTCGCATTGC
1 GAAAATAGAAATTCGCATTGC
*
620723 GAAAATAGAAATTCGCATTGT
1 GAAAATAGAAATTCGCATTGC
620744 GAAAATAGA
1 GAAAATAGA
620753 CATGGGTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (21 bp):
GAAAATAGAAATTCGCATTGC
Found at i:620822 original size:21 final size:21
Alignment explanation
Indices: 620787--620838 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
620777 CATTTGGGTG
620787 TTGCGAA-TTCTAAATTCTGTA
1 TTGCGAATTTC-AAATTCTGTA
* * *
620808 TTGTGAATTTCAAATTTTGTC
1 TTGCGAATTTCAAATTCTGTA
620829 TTGCGAATTT
1 TTGCGAATTT
620839 GGAAACTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (21 bp):
TTGCGAATTTCAAATTCTGTA
Found at i:621648 original size:20 final size:21
Alignment explanation
Indices: 621625--621678 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
621615 TATCATATAT
621625 TATCACAAT-AATATCGAAAC
1 TATCACAATCAATATCGAAAC
621645 TATCAC-ATCAATATCGAAAC
1 TATCACAATCAATATCGAAAC
621665 TATCAC-ATCAATAT
1 TATCACAATCAATAT
621679 TGTAGACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (21 bp):
TATCACAATCAATATCGAAAC
Found at i:622191 original size:30 final size:29
Alignment explanation
Indices: 622129--622198 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 29
622119 TGTAGTGGAA
* * *
622129 GAACTTCCCTTAACCGCGGGGCAGTGGTT
1 GAACTTCCCTGAACCGCAGGGCAGTAGTT
* *
622158 GAACTTCCCTGAACCGTCAGTGCGGTAGTT
1 GAACTTCCCTGAACCG-CAGGGCAGTAGTT
622188 GAACTTCCCTG
1 GAACTTCCCTG
622199 TGTCGTAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 15 0.43
30 20 0.57
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.26
Consensus pattern (29 bp):
GAACTTCCCTGAACCGCAGGGCAGTAGTT
Found at i:623269 original size:144 final size:145
Alignment explanation
Indices: 623084--623372 Score: 571
Period size: 144 Copynumber: 2.0 Consensus size: 145
623074 CTAGAGAAAG
623084 AAACAACTAGTAAAACAATCGACGTAAACAACATAGTAGAGAATCCATGGGATATAACAATGCAT
1 AAACAACTAGTAAAACAATCGACGTAAACAACATAGTAGAGAATCCATGGGATATAACAATGCAT
623149 TTATTGAACATTAATGTATACAAGAAAACGTGAAGTCAGAGAAAGAGAAACCAACATATTCAAAC
66 TTATTGAACATTAATGTATACAAGAAAACGTGAAGTCAGAGAAAGAGAAACCAACATATTCAAAC
623214 GTTACCTTAGGGTTT
131 GTTACCTTAGGGTTT
623229 AAACAACTAGT-AAACAATCGACGTAAACAACATAGTAGAGAATCCATGGGATATAACAATGCAT
1 AAACAACTAGTAAAACAATCGACGTAAACAACATAGTAGAGAATCCATGGGATATAACAATGCAT
623293 TTATTGAACATTAATGTATACAAGAAAACGTGAAGTCAGAGAAAGAGAAACCAACATATTCAAAC
66 TTATTGAACATTAATGTATACAAGAAAACGTGAAGTCAGAGAAAGAGAAACCAACATATTCAAAC
623358 GTTACCTTAGGGTTT
131 GTTACCTTAGGGTTT
623373 CTGACATAAG
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 133 0.92
145 11 0.08
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (145 bp):
AAACAACTAGTAAAACAATCGACGTAAACAACATAGTAGAGAATCCATGGGATATAACAATGCAT
TTATTGAACATTAATGTATACAAGAAAACGTGAAGTCAGAGAAAGAGAAACCAACATATTCAAAC
GTTACCTTAGGGTTT
Done.