Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 20
Found at i:518660 original size:3 final size:3
Alignment explanation
Indices: 518652--518677 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
518642 TAGTATCTTT
518652 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
518678 GGATAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:519931 original size:3 final size:3
Alignment explanation
Indices: 519923--519950 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
519913 ATTGTACTTA
519923 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
519951 CGTATTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:523340 original size:10 final size:10
Alignment explanation
Indices: 523321--523352 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
523311 TAAGTATTTG
523321 TTTT-TTTTC
1 TTTTCTTTTC
523330 TTTTCTTTTC
1 TTTTCTTTTC
523340 TTTTC-TTTC
1 TTTTCTTTTC
523349 TTTT
1 TTTT
523353 GGTTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 12 0.55
10 10 0.45
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:523350 original size:4 final size:5
Alignment explanation
Indices: 523321--523352 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
523311 TAAGTATTTG
523321 TTTT- TTTTC TTTTC TTTTC TTTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
523353 GGTTTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:523358 original size:15 final size:15
Alignment explanation
Indices: 523321--523352 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
523311 TAAGTATTTG
523321 TTTT-TTTTCTTTTC
1 TTTTCTTTTCTTTTC
523335 TTTTCTTTTC-TTTC
1 TTTTCTTTTCTTTTC
523349 TTTT
1 TTTT
523353 GGTTTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTCTTTTC
Found at i:524718 original size:16 final size:16
Alignment explanation
Indices: 524697--524729 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
524687 GAGAAAAACC
524697 ATAGTTCTATCCTCTT
1 ATAGTTCTATCCTCTT
524713 ATAGTTCTATCCTCTT
1 ATAGTTCTATCCTCTT
524729 A
1 A
524730 GCTAAGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.48
Consensus pattern (16 bp):
ATAGTTCTATCCTCTT
Found at i:528823 original size:14 final size:14
Alignment explanation
Indices: 528804--528846 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
528794 GTGGTAAAAT
528804 AAATTTAAATTTAA
1 AAATTTAAATTTAA
528818 AAATTT--ATTTAAAA
1 AAATTTAAATTT--AA
528832 AAATTTAAATTTAA
1 AAATTTAAATTTAA
528846 A
1 A
528847 TTTAAACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.16
14 17 0.68
16 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTTAAATTTAA
Found at i:529496 original size:16 final size:15
Alignment explanation
Indices: 529475--529504 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
529465 ATATTACATT
529475 TAGAATAGTAATATAG
1 TAGAATA-TAATATAG
529491 TAGAATATAATATA
1 TAGAATATAATATA
529505 AAGTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
TAGAATATAATATAG
Found at i:534072 original size:24 final size:25
Alignment explanation
Indices: 534042--534092 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
534032 ATAATTTTAT
534042 TTATATTTTATTCTTTAATATA-AATA
1 TTAT-TTTTATT-TTTAATATATAATA
*
534068 TTATTTTTATTTTTATTATATAATA
1 TTATTTTTATTTTTAATATATAATA
534093 CACATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 11 0.48
26 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTATTTTTATTTTTAATATATAATA
Found at i:534092 original size:31 final size:29
Alignment explanation
Indices: 534029--534092 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
534019 ACTCAACATA
* * *
534029 AATATAATTTTATTTATATTTTATTCTTT
1 AATATAATATTATTTATATTTTATTATAT
*
534058 AATATAAATATTATTTTTATTTTTATTATAT
1 AATAT-AATATTATTTATA-TTTTATTATAT
534089 AATA
1 AATA
534093 CACATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 11 0.38
31 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
AATATAATATTATTTATATTTTATTATAT
Found at i:534538 original size:15 final size:16
Alignment explanation
Indices: 534513--534542 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
534503 TTTATTTATT
534513 ATTATTATTTTATTAA
1 ATTATTATTTTATTAA
534529 ATTA-TATTTTATTA
1 ATTATTATTTTATTA
534543 TTATTAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATTATTTTATTAA
Found at i:534636 original size:31 final size:32
Alignment explanation
Indices: 534564--534686 Score: 115
Period size: 31 Copynumber: 3.6 Consensus size: 32
534554 TAATACTTAA
* *
534564 TTAATATAATTATAATTTTTAGTATATTTTAATAT
1 TTAATATAAATATAA-TTTTA--ATAATTTAATAT
*
534599 TTAATATAAATATAATTTTAATAATTT-ATTT
1 TTAATATAAATATAATTTTAATAATTTAATAT
*
534630 TTAATATAAATATAATTTACTAAT-TTTTAATTATT
1 TTAATATAAATATAATTT--TAATAATTTAA-TA-T
534665 ATTCAATATAAATATAATTTTA
1 -TT-AATATAAATATAATTTTA
534687 TTTAATATAA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
31 21 0.28
32 9 0.12
33 5 0.07
34 6 0.08
35 17 0.22
36 2 0.03
37 16 0.21
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.54
Consensus pattern (32 bp):
TTAATATAAATATAATTTTAATAATTTAATAT
Found at i:534642 original size:37 final size:35
Alignment explanation
Indices: 534566--534683 Score: 123
Period size: 37 Copynumber: 3.3 Consensus size: 35
534556 ATACTTAATT
* * *
534566 AATATAATTATAATTTTTAGTATA-TTTTAATATTT
1 AATATAATTATAATTTTTAATTTATTTTTAATA-TA
*
534601 AATATAAATATAATTTTAATAATTTATTTTTAATATA
1 AATATAATTATAATTTT--TAATTTATTTTTAATATA
*
534638 AATATAATTTACTAATTTTTAA-TTATTATTCAATATA
1 AATATAA-TTA-TAATTTTTAATTTATT-TTTAATATA
534675 AATATAATT
1 AATATAATT
534684 TTATTTAATA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
35 16 0.23
36 7 0.10
37 31 0.44
38 10 0.14
39 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.53
Consensus pattern (35 bp):
AATATAATTATAATTTTTAATTTATTTTTAATATA
Found at i:534688 original size:21 final size:22
Alignment explanation
Indices: 534657--534704 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
534647 TACTAATTTT
534657 TAATTATTATTCAATATAAATA
1 TAATTATTATTCAATATAAATA
*
534679 TAATT-TTATTTAATATAAATA
1 TAATTATTATTCAATATAAATA
534700 TAATT
1 TAATT
534705 CAAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTATTATTCAATATAAATA
Found at i:534698 original size:58 final size:57
Alignment explanation
Indices: 534619--534747 Score: 186
Period size: 58 Copynumber: 2.2 Consensus size: 57
534609 TATAATTTTA
* * ** *
534619 ATAATTTATTTTTAATATAAATATAATTTACTAATTTTTAATTATTATTCAATATAAAT
1 ATAATTT-TATTTAATATAAATATAATTCAAAAATTTTTAATTATTATTCAACAT-AAT
534678 ATAATTTTATTTAATATAAATATAATTCAAAAATTTTTAATTATTATTCAACATAAT
1 ATAATTTTATTTAATATAAATATAATTCAAAAATTTTTAATTATTATTCAACATAAT
*
534735 ATAATTTTGTTTA
1 ATAATTTTATTTA
534748 TATTTTATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 15 0.23
58 42 0.66
59 7 0.11
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (57 bp):
ATAATTTTATTTAATATAAATATAATTCAAAAATTTTTAATTATTATTCAACATAAT
Found at i:534706 original size:37 final size:36
Alignment explanation
Indices: 534566--534707 Score: 87
Period size: 37 Copynumber: 3.9 Consensus size: 36
534556 ATACTTAATT
* * * *
534566 AATATAA-TTATAATTTTT-AGTATATTTTAATATTT
1 AATATAATTTATAATTTTTAAATATAATTCAATA-TA
* * * * *
534601 AATATAA-ATATAATTTTAATAATTTATTTTTAATATA
1 AATATAATTTATAATTTTTA-AATATA-ATTCAATATA
* *
534638 AATATAATTTACTAATTTTTAATTATTATTCAATATA
1 AATATAATTTA-TAATTTTTAAATATAATTCAATATA
534675 AATATAATTT-T-ATTTAATATAAATATAATTCAA
1 AATATAATTTATAATTT--T-TAAATATAATTCAA
534708 AAATTTTTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
34 4 0.05
35 17 0.20
36 1 0.01
37 42 0.49
38 13 0.15
39 8 0.09
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (36 bp):
AATATAATTTATAATTTTTAAATATAATTCAATATA
Found at i:534772 original size:23 final size:25
Alignment explanation
Indices: 534746--534796 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
534736 TAATTTTGTT
534746 TATA-TTTT-ATTATTTAATATAAA
1 TATATTTTTGATTATTTAATATAAA
* *
534769 TATATTTTTGATTATTTATTATATA
1 TATATTTTTGATTATTTAATATAAA
534794 TAT
1 TAT
534797 CCATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TATATTTTTGATTATTTAATATAAA
Found at i:534778 original size:35 final size:34
Alignment explanation
Indices: 534718--534783 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
534708 AAATTTTTAA
*
534718 TTATTATTCAACATAATATAATTTTGTTTATATT
1 TTATTATTCAACATAATATAATTTTGATTATATT
* * *
534752 TTATTATTTAATATAAATATATTTTTGATTAT
1 TTATTATTCAACAT-AATATAATTTTGATTAT
534784 TTATTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (34 bp):
TTATTATTCAACATAATATAATTTTGATTATATT
Found at i:538172 original size:9 final size:9
Alignment explanation
Indices: 538158--538205 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
538148 AAAAGAGAGC
538158 AAAAAAA-A
1 AAAAAAAGA
*
538166 AAAAAAAGG
1 AAAAAAAGA
538175 AAAAAAAGA
1 AAAAAAAGA
*
538184 AACAAAAGA
1 AAAAAAAGA
*
538193 AAGAAAAGA
1 AAAAAAAGA
538202 AAAA
1 AAAA
538206 TGATAGTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:538179 original size:18 final size:17
Alignment explanation
Indices: 538158--538205 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
538148 AAAAGAGAGC
*
538158 AAAAAAAAAAAAAAAGG
1 AAAAAAAAAAAAAAAAG
* *
538175 AAAAAAAGAAACAAAAG
1 AAAAAAAAAAAAAAAAG
538192 AAAGAAAAGAAAAA
1 AAA-AAAA-AAAAA
538206 TGATAGTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 17 0.71
18 4 0.17
19 3 0.12
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:539254 original size:21 final size:22
Alignment explanation
Indices: 539230--539281 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
539220 TATATCAATG
*
539230 AATGTTTTAGAGT-TATAAA-CA
1 AATGTTTTAGAATCT-TAAATCA
*
539251 AATGTTTTTGAATCTTAAATCA
1 AATGTTTTAGAATCTTAAATCA
539273 AATGTTTTA
1 AATGTTTTA
539282 AAGTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (22 bp):
AATGTTTTAGAATCTTAAATCA
Found at i:539413 original size:20 final size:19
Alignment explanation
Indices: 539390--539462 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
539380 GACACCCAGA
*
539390 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
539410 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
539429 TGTATCGATACATGCACAAT
1 TGTATCGATACATGTTC-AT
539449 TGTATCGATACATG
1 TGTATCGATACATG
539463 AAATTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:540491 original size:58 final size:58
Alignment explanation
Indices: 540297--540463 Score: 244
Period size: 58 Copynumber: 2.9 Consensus size: 58
540287 TGGGCTTTCA
* * * *
540297 TGATGTAATTTTAAAAATGTTGATGTCATTTAGGTCATATTCTATGATCTAGGGACTT
1 TGATGCAATTTTATAAATGTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTT
*
540355 TGATGCAATTTTATAAATGTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGGCTT
1 TGATGCAATTTTATAAATGTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTT
* * * * *
540413 TGATCCAATTTTATGAATTTTGATGTCATTTAAGTTATTTTCCATGATCTA
1 TGATGCAATTTTATAAATGTTGATGTCATTTAGGTCATTTTCCATGATCTA
540464 ATAACTTTCA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 99 1.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (58 bp):
TGATGCAATTTTATAAATGTTGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTT
Found at i:544061 original size:19 final size:17
Alignment explanation
Indices: 544037--544100 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 17
544027 ATCCATACAA
544037 TGTATCGATACAGAAGTGT
1 TGTATCGATACA-AAGT-T
544056 TGTATCGATAC-AA---
1 TGTATCGATACAAAGTT
544069 TGTATCGATACATAAGTTT
1 TGTATCGATACA-AAG-TT
544088 TGTATCGATACAA
1 TGTATCGATACAA
544101 TGTATCGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (17 bp):
TGTATCGATACAAAGTT
Found at i:544067 original size:32 final size:32
Alignment explanation
Indices: 544023--544115 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
544013 TTTCAACAAT
*
544023 TTGTATCCATACAATGTATCGATACAGAAGTG
1 TTGTATCGATACAATGTATCGATACAGAAGTG
* *
544055 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACAGAAGTG
*
544087 TTGTATCGATACAATGTATCGCTAC-GAAG
1 TTGTATCGATACAATGTATCGATACAGAAG
544116 CTACTGCCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 3 0.05
32 53 0.95
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACAGAAGTG
Found at i:544074 original size:13 final size:13
Alignment explanation
Indices: 544056--544080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
544046 ACAGAAGTGT
544056 TGTATCGATACAA
1 TGTATCGATACAA
544069 TGTATCGATACA
1 TGTATCGATACA
544081 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:544169 original size:13 final size:13
Alignment explanation
Indices: 544151--544178 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
544141 CATTACTCAA
544151 TGTATCGATACAT
1 TGTATCGATACAT
544164 TGTATCGATACAT
1 TGTATCGATACAT
544177 TG
1 TG
544179 ATCTTTGTAT
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:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:544173 original size:33 final size:33
Alignment explanation
Indices: 544131--544197 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
544121 GCCAAGGAAA
544131 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
544164 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
544197 T
1 T
544198 TGAGAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:545151 original size:20 final size:20
Alignment explanation
Indices: 545106--545152 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
545096 GTTAACAGCC
* *
545106 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTCAG
545126 CTATGTTTCATGC-TTTTACAG
1 C-ATGTTTCATGCATTTT-CAG
545147 CATGTT
1 CATGTT
545153 CAGCACCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (20 bp):
CATGTTTCATGCATTTTCAG
Found at i:552760 original size:58 final size:58
Alignment explanation
Indices: 552690--552823 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 58
552680 CATACTTTTT
* * * *
552690 GTCATTTTCCATGA-CTTAAGGCCTTCT-ATGTCATTTTATGAATATTGATGTTATTTAG
1 GTCATTTTCCATGATC-TAAGG-ATTCTAATGTAATTTTATGAATATTGATGTCATATAG
*
552748 GTCATTTTCCATGATCTAAGGATTTTAATGTAATTTTATGAATATTGATGTCATATAG
1 GTCATTTTCCATGATCTAAGGATTCTAATGTAATTTTATGAATATTGATGTCATATAG
*
552806 GTCATTTTTCATGATCTA
1 GTCATTTTCCATGATCTA
552824 GGGTGTCGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 3 0.04
58 64 0.94
59 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (58 bp):
GTCATTTTCCATGATCTAAGGATTCTAATGTAATTTTATGAATATTGATGTCATATAG
Found at i:552812 original size:29 final size:28
Alignment explanation
Indices: 552719--552813 Score: 68
Period size: 29 Copynumber: 3.3 Consensus size: 28
552709 GGCCTTCTAT
*
552719 GTCATTTTATGAATATTGATGTTATTTAG
1 GTCATTTTATGAATATTGATG-TATATAG
* ** * *
552748 GTCATTTTCCATGATCTAAGGAT-TTTA-AT
1 GTCATTTT--ATGA-ATATTGATGTATATAG
*
552777 GTAATTTTATGAATATTGATGTCATATAG
1 GTCATTTTATGAATATTGATGT-ATATAG
552806 GTCATTTT
1 GTCATTTT
552814 TCATGATCTA
Statistics
Matches: 47, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
26 5 0.11
27 5 0.11
28 2 0.04
29 24 0.51
30 2 0.04
31 4 0.09
32 5 0.11
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.48
Consensus pattern (28 bp):
GTCATTTTATGAATATTGATGTATATAG
Found at i:556021 original size:33 final size:33
Alignment explanation
Indices: 555977--556042 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
555967 AAATTCCCCG
*
555977 ATGTATCGATACAAAGATTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
* **
556010 ATGTATTGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
556043 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:556121 original size:27 final size:27
Alignment explanation
Indices: 556076--556128 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
556066 CGATACATTA
*
556076 TATCGATACAACACCTATGTATCGATG
1 TATCGATACAAAACCTATGTATCGATG
*
556103 TATCGATACAAAACTTATGTATCGAT
1 TATCGATACAAAACCTATGTATCGAT
556129 ACATTTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (27 bp):
TATCGATACAAAACCTATGTATCGATG
Found at i:556124 original size:19 final size:20
Alignment explanation
Indices: 556100--556154 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
556090 CTATGTATCG
556100 ATGTATCGATACAAAACT-T
1 ATGTATCGATACAAAACTGT
**
556119 ATGTATCGATACATTTACTGT
1 ATGTATCGATACA-AAACTGT
*
556140 TTGTATCGATACAAA
1 ATGTATCGATACAAA
556155 TTATTGAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAAAACTGT
Found at i:561456 original size:45 final size:45
Alignment explanation
Indices: 561383--561469 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 45
561373 TAAAATATAA
561383 ATAAATTTATTTTATAAAAATTTAAAAAATAA-AATTTATATTTT
1 ATAAATTTATTTTATAAAAATTTAAAAAATAATAATTTATATTTT
*
561427 ATAAATTTTAATTTATATGAAAA-TT-AAAAATAATTAATTTATA
1 ATAAA-TTT-ATTT-TATAAAAATTTAAAAAATAA-TAATTTATA
561470 AATTTGAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
44 5 0.14
45 11 0.30
46 6 0.16
47 15 0.41
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (45 bp):
ATAAATTTATTTTATAAAAATTTAAAAAATAATAATTTATATTTT
Found at i:563434 original size:25 final size:24
Alignment explanation
Indices: 563379--563430 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
563369 TGATTAAGCT
563379 AAATATAATAAGAAAAAGAAAAATC
1 AAATATAATAAGAAAAAGAAAAA-C
*
563404 AAATATAGATAAGAATAAG-AAAAC
1 AAATATA-ATAAGAAAAAGAAAAAC
563428 AAA
1 AAA
563431 ATATGACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.16
25 11 0.44
26 10 0.40
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (24 bp):
AAATATAATAAGAAAAAGAAAAAC
Found at i:564873 original size:19 final size:19
Alignment explanation
Indices: 564836--564874 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
564826 AAAAAACCTA
*
564836 TGTTAATAAAAGATTATAT
1 TGTTAATAAAAGATGATAT
*
564855 TGTTAATAAAAGGTGATAT
1 TGTTAATAAAAGATGATAT
564874 T
1 T
564875 ATTATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (19 bp):
TGTTAATAAAAGATGATAT
Found at i:565388 original size:18 final size:19
Alignment explanation
Indices: 565361--565405 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
565351 TATTATAATA
*
565361 TTTA-TAATAATATTAT-T
1 TTTATTAATAATATAATCT
565378 TTTATTAATAATATAATCT
1 TTTATTAATAATATAATCT
*
565397 TTTGTTAAT
1 TTTATTAAT
565406 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 9 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTATTAATAATATAATCT
Found at i:565432 original size:27 final size:28
Alignment explanation
Indices: 565402--565456 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
565392 AATCTTTTGT
* *
565402 TAATTTAAAAAATAT-CACATAATAATA
1 TAATTAAAAAAATATAAACATAATAATA
565429 TAATTAAAAAAATATAAACATAATAATA
1 TAATTAAAAAAATATAAACATAATAATA
565457 ACACTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
TAATTAAAAAAATATAAACATAATAATA
Found at i:565498 original size:43 final size:41
Alignment explanation
Indices: 565412--565505 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
565402 TAATTTAAAA
*
565412 AATATCACATAATAATATAATTAAAAAAATATAAACATAAT
1 AATAACACATAATAATATAATTAAAAAAATATAAACATAAT
* * *
565453 AATAACAC-TAATAATATTATTAAACAAATAATAAA-ATTAT
1 AATAACACATAATAATATAATTAAAAAAAT-ATAAACATAAT
*
565493 AATAATA-ATAATA
1 AATAACACATAATA
565506 GATGATTAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 34 0.74
41 12 0.26
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (41 bp):
AATAACACATAATAATATAATTAAAAAAATATAAACATAAT
Found at i:566966 original size:2 final size:2
Alignment explanation
Indices: 566959--566988 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
566949 ACCACAAGTA
566959 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
566989 AAATACACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:572451 original size:15 final size:15
Alignment explanation
Indices: 572427--572456 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
572417 TAATTTTTCA
*
572427 TATTAGAAAATTAAT
1 TATTAAAAAATTAAT
572442 TATTAAAAAATTAAT
1 TATTAAAAAATTAAT
572457 ATTTTAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
TATTAAAAAATTAAT
Found at i:572459 original size:14 final size:14
Alignment explanation
Indices: 572426--572459 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
572416 TTAATTTTTC
*
572426 ATATTAGAAAATTA
1 ATATTAAAAAATTA
572440 ATTATTAAAAAATTA
1 A-TATTAAAAAATTA
572455 ATATT
1 ATATT
572460 TTAATAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATTAAAAAATTA
Found at i:572583 original size:48 final size:47
Alignment explanation
Indices: 572531--572631 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
572521 ATTTAATTCC
*
572531 TTTTAATAATAAATA-AT-ATTATTTTAAATATTTAATATTAATACAATA
1 TTTTAATAATAAATATATAATTACTTT---TATTTAATATTAATACAATA
* * *
572579 TTTTAAATATTTAATATTTAATTACTTTTATTTAATATTAATACAATA
1 TTTT-AATAATAAATATATAATTACTTTTATTTAATATTAATACAATA
572627 TTTTA
1 TTTTA
572632 TTACTAATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.02
48 28 0.61
49 9 0.20
50 1 0.02
51 7 0.15
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (47 bp):
TTTTAATAATAAATATATAATTACTTTTATTTAATATTAATACAATA
Found at i:572584 original size:27 final size:27
Alignment explanation
Indices: 572550--572631 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
572540 TAAATAATAT
572550 TATTTTAAATATTTAATATTAATACAA
1 TATTTTAAATATTTAATATTAATACAA
*
572577 TATTTTAAATATTTAATATT--TA-AT
1 TATTTTAAATATTTAATATTAATACAA
*
572601 TACTTT---TATTTAATATTAATACAA
1 TATTTTAAATATTTAATATTAATACAA
572625 TATTTTA
1 TATTTTA
572632 TTACTAATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 11 0.23
23 2 0.04
24 12 0.26
25 2 0.04
27 20 0.43
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTAAATATTTAATATTAATACAA
Found at i:572651 original size:48 final size:47
Alignment explanation
Indices: 572559--572665 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 47
572549 TTATTTTAAA
* *
572559 TATTTAATATTAATACAATATTTTAAATATTTAATATTTAATTACTTT
1 TATTTAATATTAATACAATATTTTAAATATCTAATATTTAATTAC-AT
* * *
572607 TATTTAATATTAATACAATATTTT-ATTA-CTAATTCTTTTTATTACAT
1 TATTTAATATTAATACAATATTTTAAATATCTAA-T-ATTTAATTACAT
572654 T-TTTAATATTAA
1 TATTTAATATTAA
572666 AAGTTAAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
46 14 0.27
47 6 0.12
48 32 0.62
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (47 bp):
TATTTAATATTAATACAATATTTTAAATATCTAATATTTAATTACAT
Found at i:577062 original size:53 final size:56
Alignment explanation
Indices: 576969--577279 Score: 304
Period size: 58 Copynumber: 5.5 Consensus size: 56
576959 TGGCGAGCTA
* * * * * * *
576969 AGTTTTGGTGACTTGGCATCGCTTAGTGTGTGAATTCGGTCGGC-T-T-GAATCTG
1 AGTTTGGGTGACTTGGCATCACTTAGCGCGTGGATCCGGTCGCCTTGTGGAATCTG
* *
577022 ATTTTGGGTGACTTGTCATCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGCAATCTG
1 AGTTTGGGTGACTTGGCATCACTTAGCGCGTGGATCCGGTCGCCTT-GTGG-AATCTG
* * *
577080 AGTTCGGGTGACTTGTCATCACTTAGCGCATGGATCCGGTCGCCTTGGTGGAGATCTG
1 AGTTTGGGTGACTTGGCATCACTTAGCGCGTGGATCCGGTCGCCTT-GTGGA-ATCTG
* * * * * *
577138 AGTTTGGGTAACTTGGCGTCACTTAGCGTGTGGATCCGATCACCTTGGTGGTGATCTG
1 AGTTTGGGTGACTTGGCATCACTTAGCGCGTGGATCCGGTCGCCTT-GTGG-AATCTG
* ** * * *
577196 AGTTTGGGTAACTTGGTGTCACTTAGCGTGTGGATCCGGTCGCCTTGGTGGTGATTTG
1 AGTTTGGGTGACTTGGCATCACTTAGCGCGTGGATCCGGTCGCCTT-GTGG-AATCTG
*
577254 AGTTTGGGTGACTTGGCGTCACTTAG
1 AGTTTGGGTGACTTGGCATCACTTAG
577280 TGTATGATGA
Statistics
Matches: 224, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
53 35 0.16
54 1 0.00
56 1 0.00
57 2 0.01
58 185 0.83
ACGTcount: A:0.14, C:0.19, G:0.33, T:0.34
Consensus pattern (56 bp):
AGTTTGGGTGACTTGGCATCACTTAGCGCGTGGATCCGGTCGCCTTGTGGAATCTG
Found at i:577089 original size:58 final size:58
Alignment explanation
Indices: 577016--577279 Score: 343
Period size: 58 Copynumber: 4.6 Consensus size: 58
577006 GGTCGGCTTG
* * *
577016 AATCTGATTTTGGGTGACTTGTCATCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGC
1 AATCTGAGTTTGGGTGACTTGTCGTCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGT
* * *
577074 AATCTGAGTTCGGGTGACTTGTCATCACTTAGCGCATGGATCCGGTCGCCTTGGTGG-
1 AATCTGAGTTTGGGTGACTTGTCGTCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGT
* * * * *
577131 AGATCTGAGTTTGGGTAACTTGGCGTCACTTAGCGTGTGGATCCGATCACCTTGGTGGT
1 A-ATCTGAGTTTGGGTGACTTGTCGTCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGT
* * *
577190 GATCTGAGTTTGGGTAACTTGGT-GTCACTTAGCGTGTGGATCCGGTCGCCTTGGTGGT
1 AATCTGAGTTTGGGTGACTT-GTCGTCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGT
* * *
577248 GATTTGAGTTTGGGTGACTTGGCGTCACTTAG
1 AATCTGAGTTTGGGTGACTTGTCGTCACTTAG
577280 TGTATGATGA
Statistics
Matches: 184, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
57 2 0.01
58 181 0.98
59 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.33
Consensus pattern (58 bp):
AATCTGAGTTTGGGTGACTTGTCGTCACTTAGCGCGTGGATCCGGTCGCCTTGGTGGT
Found at i:583808 original size:18 final size:18
Alignment explanation
Indices: 583785--583834 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
583775 ATTATATATT
*
583785 TTAAAATATAAATAAATA
1 TTAAAATATAAATAAAAA
583803 TTAAAA-ATTAAATTAAAAA
1 TTAAAATA-TAAA-TAAAAA
*
583822 TTAATAT-TAAATA
1 TTAAAATATAAATA
583835 TTTTATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.11
18 14 0.52
19 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAAAATATAAATAAAAA
Found at i:583819 original size:19 final size:19
Alignment explanation
Indices: 583762--583825 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
583752 TTTTTATTTT
*
583762 TATTAAAAA-TAATATTATA
1 TATTAAAAATTAA-ATTAAA
*
583781 TATTTTAAAATATAAA-TAAA
1 TA-TTAAAAAT-TAAATTAAA
583801 TATTAAAAATTAAATTAAA
1 TATTAAAAATTAAATTAAA
*
583820 AATTAA
1 TATTAA
583826 TATTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 11 0.30
21 1 0.03
22 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAAAATTAAATTAAA
Found at i:583821 original size:13 final size:13
Alignment explanation
Indices: 583794--583832 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
583784 TTTAAAATAT
*
583794 AAATAAATATTAA
1 AAATTAATATTAA
583807 AAATTAA-ATTAA
1 AAATTAATATTAA
583819 AAATTAATATTAA
1 AAATTAATATTAA
583832 A
1 A
583833 TATTTTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAATATTAA
Found at i:583822 original size:25 final size:24
Alignment explanation
Indices: 583763--583832 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
583753 TTTTATTTTT
**
583763 ATTAAAAATAATATTATATATTTTAA
1 ATTAAAAATAATATTA-A-AAATTAA
* *
583789 AATATAAATAAATATTAAAAATTAA
1 ATTAAAAAT-AATATTAAAAATTAA
583814 ATTAAAAATTAATATTAAA
1 ATTAAAAA-TAATATTAAA
583833 TATTTTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
25 20 0.56
26 9 0.25
27 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTAAAAATAATATTAAAAATTAA
Found at i:588283 original size:16 final size:16
Alignment explanation
Indices: 588259--588289 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
588249 CTAAAATAGT
*
588259 TTTTTTTAATTTTTAA
1 TTTTCTTAATTTTTAA
588275 TTTTCTTAATTTTTA
1 TTTTCTTAATTTTTA
588290 TACTTAAAAA
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:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCTTAATTTTTAA
Found at i:591160 original size:21 final size:23
Alignment explanation
Indices: 591135--591176 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
591125 TTGGTAATAC
591135 TGATTAAAAAAT-TA-TAATAGT
1 TGATTAAAAAATATATTAATAGT
*
591156 TGATTATAAAATATATTAATA
1 TGATTAAAAAATATATTAATA
591177 TTCAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (23 bp):
TGATTAAAAAATATATTAATAGT
Found at i:593292 original size:2 final size:2
Alignment explanation
Indices: 593287--593352 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
593277 ATATATATAT
593287 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
593329 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
593353 TTTAACTCAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:593837 original size:2 final size:2
Alignment explanation
Indices: 593830--593870 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
593820 CTTATTTACT
593830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
593871 TTCTTTGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:594135 original size:25 final size:25
Alignment explanation
Indices: 594107--594155 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
594097 TTAAATTATT
594107 AATTATTGACTATTA-AAATATTAAA
1 AATTATTGA-TATTATAAATATTAAA
* *
594132 AATTATTTATTTTATAAATATTAA
1 AATTATTGATATTATAAATATTAA
594156 TGTTTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
AATTATTGATATTATAAATATTAAA
Found at i:594240 original size:26 final size:25
Alignment explanation
Indices: 594184--594241 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
594174 TTTAATCATA
* *
594184 ATATTTAATACTAAAATATTATATT
1 ATATTAAATACTAAAATAATATATT
594209 AATATTAAATACTTAAAATAATACTATT
1 -ATATTAAATAC-TAAAATAATA-TATT
594237 -TATTA
1 ATATTA
594242 TTAAAACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.54
27 9 0.32
28 4 0.14
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTAAATACTAAAATAATATATT
Found at i:594446 original size:19 final size:18
Alignment explanation
Indices: 594409--594457 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
594399 TAATAATAAT
*
594409 AATTAATGATAAAATATTA
1 AATTAAT-ATTAAATATTA
*
594428 TATTAATATTAAATCATTA
1 AATTAATATTAAAT-ATTA
*
594447 AAATAATATTA
1 AATTAATATTA
594458 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AATTAATATTAAATATTA
Found at i:594573 original size:19 final size:20
Alignment explanation
Indices: 594535--594573 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
594525 TTCTATTGAT
*
594535 ATTTTTCTATTAAAATATTA
1 ATTTTTATATTAAAATATTA
594555 ATTTTTATATTAAAA-ATTA
1 ATTTTTATATTAAAATATTA
594574 TTATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTTATATTAAAATATTA
Found at i:595954 original size:27 final size:28
Alignment explanation
Indices: 595924--595979 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
595914 TTTTTTTTAG
*
595924 AATTTT-ACATGAT-TAAATTTTTAATTA
1 AATTTTGACAT-ATATAAAATTTTAATTA
*
595951 AATTTTGTCATATATAAAATTTTAATTA
1 AATTTTGACATATATAAAATTTTAATTA
595979 A
1 A
595980 CTTCTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (28 bp):
AATTTTGACATATATAAAATTTTAATTA
Found at i:596756 original size:15 final size:15
Alignment explanation
Indices: 596738--596770 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
596728 TCTTTATATT
*
596738 TTTATTTCATTTTTA
1 TTTATTTCATTTTCA
596753 TTTATTTCATTTTCA
1 TTTATTTCATTTTCA
596768 TTT
1 TTT
596771 CTTTTAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTCATTTTCA
Found at i:604674 original size:22 final size:22
Alignment explanation
Indices: 604644--604685 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
604634 TGCGATCATT
*
604644 TAATCTAATATAAATTCATTCC
1 TAATATAATATAAATTCATTCC
*
604666 TAATATAATATAATTTCATT
1 TAATATAATATAAATTCATT
604686 TAAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATAATATAAATTCATTCC
Found at i:609291 original size:2 final size:2
Alignment explanation
Indices: 609284--609323 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
609274 ACAACAAGTA
609284 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
609324 TAATATCAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:611213 original size:2 final size:2
Alignment explanation
Indices: 611206--611243 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
611196 GTGCCTTGAA
611206 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
611244 TTAAAAATTG
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:612433 original size:15 final size:15
Alignment explanation
Indices: 612407--612445 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
612397 GATGTTCAAG
*
612407 AAATTTA-AAAATTA
1 AAATTTATAAATTTA
612421 AATATTTATAAATTTA
1 AA-ATTTATAAATTTA
612437 AAATTTATA
1 AAATTTATA
612446 TTTACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
16 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTATAAATTTA
Found at i:612500 original size:2 final size:2
Alignment explanation
Indices: 612493--612518 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
612483 AATGGAGGTG
612493 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
612519 AGAATGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:617538 original size:20 final size:21
Alignment explanation
Indices: 617513--617554 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
617503 AATATTTAAA
617513 TAATTTAA-ATATTATAATTT
1 TAATTTAATATATTATAATTT
* *
617533 TAATTTAATTTTTTATAATTT
1 TAATTTAATATATTATAATTT
617554 T
1 T
617555 TTAATTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTTAATATATTATAATTT
Found at i:617576 original size:19 final size:18
Alignment explanation
Indices: 617549--617599 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
617539 AATTTTTTAT
*
617549 AATTTTTTAATTAAGTATA
1 AATTATTTAATTAA-TATA
617568 AATTATTTAATT--TATA
1 AATTATTTAATTAATATA
617584 ATATTAATTTAATTAA
1 A-ATT-ATTTAATTAA
617600 AAAATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 5 0.19
17 3 0.11
18 8 0.30
19 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AATTATTTAATTAATATA
Found at i:617595 original size:18 final size:18
Alignment explanation
Indices: 617513--617597 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
617503 AATATTTAAA
*
617513 TAATTTAAATATTATAATTT
1 TAATTT-AAT-TTATAATAT
* *
617533 TAATTTAATTTTTTATAAT
1 TAATTTAATTTATAAT-AT
*
617552 T-TTTTAATTAAGTATAA-AT
1 TAATTTAATT---TATAATAT
617571 T-ATTTAATTTATAATAT
1 TAATTTAATTTATAATAT
617588 TAATTTAATT
1 TAATTTAATT
617598 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
16 5 0.10
17 3 0.06
18 20 0.38
19 15 0.29
20 6 0.12
21 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TAATTTAATTTATAATAT
Found at i:618086 original size:20 final size:19
Alignment explanation
Indices: 618063--618127 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 19
618053 TTTAAAATAT
618063 TATATTTATATAAATTTT-
1 TATATTTATATAAATTTTA
618081 TATATATTA-AT-AA-TTTA
1 TATAT-TTATATAAATTTTA
618098 T-T-TTTATATAAATTTTA
1 TATATTTATATAAATTTTA
*
618115 GTATATTAATATA
1 -TATATTTATATA
618128 TTTATATTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
14 3 0.08
15 3 0.08
16 6 0.16
17 7 0.18
18 8 0.21
19 4 0.11
20 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATTTATATAAATTTTA
Found at i:618109 original size:33 final size:32
Alignment explanation
Indices: 618036--618162 Score: 127
Period size: 33 Copynumber: 3.9 Consensus size: 32
618026 TCATGCACGA
* *
618036 TTATATTAATTTTTATAT-TTAAAATATTATAT
1 TTATATAAATTTTTATATATTAAAAT-TTATTT
618068 TTATATAAATTTTTATATATTAATAATTTATTT
1 TTATATAAATTTTTATATATTAA-AATTTATTT
*
618101 TTATATAAA-TTTTAGTATATTAATATATTTA-TA
1 TTATATAAATTTTTA-TATATTAA-A-ATTTATTT
* *
618134 TTATAATTAATTTTTATTTA-TAAAATTTA
1 TTAT-ATAAATTTTTATATATTAAAATTTA
618163 AAATTATAAG
Statistics
Matches: 84, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
31 5 0.06
32 23 0.27
33 36 0.43
34 15 0.18
35 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (32 bp):
TTATATAAATTTTTATATATTAAAATTTATTT
Found at i:618261 original size:22 final size:24
Alignment explanation
Indices: 618233--618276 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
618223 TTTTTTTATA
618233 AAAAAAATCATA-AT-TTAAAAAT
1 AAAAAAATCATACATATTAAAAAT
*
618255 AAAAAAATTATACATATTAAAA
1 AAAAAAATCATACATATTAAAA
618277 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAAATCATACATATTAAAAAT
Found at i:618592 original size:32 final size:31
Alignment explanation
Indices: 618555--618636 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
618545 TAGTAGATTA
*
618555 GATAAATATTAAATAAAATTACTTATAAATTT
1 GATAAATATTAAA-AAAATTACTCATAAATTT
* * *
618587 TATAAATATTAGACATAATTACTCATAAATTT
1 GATAAATATTA-AAAAAATTACTCATAAATTT
*
618619 GATAACTA-TAAAAAAATT
1 GATAAATATTAAAAAAATT
618637 TCAATCTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 6 0.15
31 2 0.05
32 32 0.78
33 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (31 bp):
GATAAATATTAAAAAAATTACTCATAAATTT
Found at i:622447 original size:23 final size:22
Alignment explanation
Indices: 622402--622446 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
622392 CTTCAAAAAA
622402 AAATTTTAATAAATTTAAATTTT
1 AAATTTTAAT-AATTTAAATTTT
622425 AAATTTTAAT-ATTTATAATTTT
1 AAATTTTAATAATTTA-AATTTT
622447 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTTTAATAATTTAAATTTT
Found at i:626790 original size:2 final size:2
Alignment explanation
Indices: 626785--626827 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
626775 ATATATATAT
*
626785 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
626827 A
1 A
626828 TATATATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.47, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:627247 original size:2 final size:2
Alignment explanation
Indices: 627240--627282 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
627230 AAAAGAAAAG
*
627240 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
627282 T
1 T
627283 CTACGAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:630701 original size:2 final size:2
Alignment explanation
Indices: 630694--630727 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
630684 AAGAAAGCAC
630694 AT AT AT AT AT -T A- 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
630728 TATCCATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:632018 original size:13 final size:13
Alignment explanation
Indices: 631987--632021 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
631977 ATAATTAAAT
631987 ATATTTTTTATAA
1 ATATTTTTTATAA
*
632000 AT-TTTTTTATTA
1 ATATTTTTTATAA
632012 ATATTTTTTA
1 ATATTTTTTA
632022 AAAAATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTTTATAA
Found at i:632129 original size:21 final size:21
Alignment explanation
Indices: 632081--632151 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
632071 ATTTAATGAA
*
632081 ATAAAATTATAATAA-T-TATT
1 ATAAAAATATAA-AATTATATT
632101 AT-AAAATATAAAATTATATT
1 ATAAAAATATAAAATTATATT
*
632121 ATAAAAATATAAATTTTATAATT
1 ATAAAAATATAAA-ATTAT-ATT
*
632144 AAAAAAAT
1 ATAAAAAT
632152 TATTTAGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.05
19 9 0.21
20 8 0.19
21 10 0.23
22 4 0.09
23 10 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATATAAAATTATATT
Found at i:632147 original size:20 final size:21
Alignment explanation
Indices: 632102--632147 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
632092 ATAATTATTA
*
632102 TAAAATATAAAATTATATTAT
1 TAAAATATAAAATTATATAAT
* *
632123 AAAAATAT-AAATTTTATAAT
1 TAAAATATAAAATTATATAAT
632143 TAAAA
1 TAAAA
632148 AAATTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAATATAAAATTATATAAT
Found at i:633496 original size:4 final size:4
Alignment explanation
Indices: 633487--633577 Score: 83
Period size: 4 Copynumber: 22.8 Consensus size: 4
633477 CATATATGTG
* * * * *
633487 TATA TATA TATA TATG TATG TGTA TATA TATA TATA TGTA TGTA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * *
633535 TATA TGTA TGTG TATA TATA TATG TATG TGTA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TAT
633578 TTTCATTTGA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 73 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:633499 original size:16 final size:16
Alignment explanation
Indices: 633478--633577 Score: 100
Period size: 16 Copynumber: 6.4 Consensus size: 16
633468 TACACTATCC
633478 ATATATGTGTATATAT
1 ATATATGTGTATATAT
* * *
633494 ATATATATGTATGTGT
1 ATATATGTGTATATAT
633510 ATATA----TATATAT
1 ATATATGTGTATATAT
* *
633522 ATGTATGTATATATAT
1 ATATATGTGTATATAT
*
633538 ATGTATGTGTATATAT
1 ATATATGTGTATATAT
633554 ATATGTATGTGTATATAT
1 ATA--TATGTGTATATAT
633572 ATATAT
1 ATATAT
633578 TTTCATTTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
12 9 0.13
16 45 0.64
18 16 0.23
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
ATATATGTGTATATAT
Found at i:633501 original size:18 final size:18
Alignment explanation
Indices: 633491--633575 Score: 143
Period size: 18 Copynumber: 4.6 Consensus size: 18
633481 TATGTGTATA
633491 TATATATATATGTATGTG
1 TATATATATATGTATGTG
*
633509 TATATATATATATATGTATG
1 TATATATATATGTATG--TG
633529 TATATATATATGTATGTG
1 TATATATATATGTATGTG
633547 TATATATATATGTATGTG
1 TATATATATATGTATGTG
633565 TATATATATAT
1 TATATATATAT
633576 ATTTTCATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
18 46 0.73
20 17 0.27
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (18 bp):
TATATATATATGTATGTG
Found at i:633506 original size:22 final size:22
Alignment explanation
Indices: 633481--633577 Score: 124
Period size: 22 Copynumber: 4.9 Consensus size: 22
633471 ACTATCCATA
633481 TATGTGTATATATATATATATG
1 TATGTGTATATATATATATATG
633503 TATGTGTATATATATATATATG
1 TATGTGTATATATATATATATG
633525 TA--TG----TATATATATATG
1 TATGTGTATATATATATATATG
633541 TATGTGTATATATATA----TG
1 TATGTGTATATATATATATATG
633559 TATGTGTATATATATATAT
1 TATGTGTATATATATATAT
633578 TTTCATTTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 19
0.78 0.00 0.22
Matches are distributed among these distances:
16 14 0.21
18 20 0.30
20 2 0.03
22 30 0.45
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (22 bp):
TATGTGTATATATATATATATG
Found at i:637349 original size:2 final size:2
Alignment explanation
Indices: 637342--637386 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
637332 GAAATTTAAA
637342 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
637384 AT A
1 AT A
637387 GTTGTAGGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:650348 original size:79 final size:79
Alignment explanation
Indices: 650256--650602 Score: 321
Period size: 79 Copynumber: 4.4 Consensus size: 79
650246 CTATAATCGA
*
650256 GGATACTCCAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTCCAACCC
1 GGATACTCTAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTCCAACCC
650321 CGTTATTTTCTAAG
66 CGTTATTTTCTAAG
* * * * * * * *
650335 GAATACTTTAACCTCAGTTTTATTTCTAAAACA-CCAATTTCCTATCATTAGGGATTCTCTAACC
1 GGATACTCTAACCTCAGTTTTATTTCTAAAACATCGATTTTCC-ACCATCAGGGATACTCCAACC
* * *
650399 CTGTTATTTTCGAGG
65 CCGTTATTTTCTAAG
* * * ** * *
650414 GGATACTCTAACCCCGGTTTTATTTCTAAAACATTGATTTTTTACAATCGGGGATACTCCAACCC
1 GGATACTCTAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTCCAACCC
*
650479 TGTTATTTT-TGAAG
66 CGTTATTTTCT-AAG
* ** *
650493 GGATACTCTAACCTC-GATTTTATTT-TCAAAACATTGATTCTT-CATTATCGGGGATACTCCAA
1 GGATACTCTAACCTCAG-TTTTATTTCT-AAAACATCGATT-TTCCACCATCAGGGATACTCCAA
* *
650555 CCCCATTATTTT-TGAGG
63 CCCCGTTATTTTCT-AAG
* * *
650572 GGATACTCCAACC-CCGTTTTTATCTCTAAAA
1 GGATACTCTAACCTCAG-TTTTATTTCTAAAA
650603 TATTAATTTT
Statistics
Matches: 221, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
78 10 0.05
79 204 0.92
80 7 0.03
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (79 bp):
GGATACTCTAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTCCAACCC
CGTTATTTTCTAAG
Found at i:650499 original size:158 final size:156
Alignment explanation
Indices: 650256--650614 Score: 411
Period size: 158 Copynumber: 2.3 Consensus size: 156
650246 CTATAATCGA
* * * ** *
650256 GGATACTCCAACCTCAGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTCCAACCC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTTTTACAATCAGGGATACTCCAACCC
*
650321 CGTTATTTTCTAAGGAATACTTTAACCTC-AGTTTTA-TTTCTAAAACACCAATTTCCTATCATT
66 CGTTATTTTCTAAGGAATACTCTAACCTCGA-TTTTATTTTC-AAAACACCAA-TT-CT-TCATT
* * **
650384 A-GGGATTCTCTAACCCTGTTATTTTCGAGG
126 ACGGGATACTCCAACCCCATTATTTTCGAGG
* *
650414 GGATACTCTAACCCCGGTTTTATTTCTAAAACATTGATTTTTTACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTTTTACAATCAGGGATACTCCAACCC
* * ***
650479 TGTTATTTT-TGAAGGGATACTCTAACCTCGATTTTATTTTCAAAACATTGATTCTTCATTATCG
66 CGTTATTTTCT-AAGGAATACTCTAACCTCGATTTTATTTTCAAAACACCAATTCTTCATTA-C-
*
650543 GGGATACTCCAACCCCATTATTTTTGAGG
128 GGGATACTCCAACCCCATTATTTTCGAGG
* * * *
650572 GGATACTCCAACCCCGTTTTTATCTCTAAAATATTAATTTTTT
1 GGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTTTT
650615 CATCGAGAGA
Statistics
Matches: 171, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
155 6 0.04
156 2 0.01
157 3 0.02
158 155 0.91
159 5 0.03
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (156 bp):
GGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTTTTACAATCAGGGATACTCCAACCC
CGTTATTTTCTAAGGAATACTCTAACCTCGATTTTATTTTCAAAACACCAATTCTTCATTACGGG
ATACTCCAACCCCATTATTTTCGAGG
Found at i:652667 original size:4 final size:4
Alignment explanation
Indices: 652651--652688 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
652641 TTTGAGGTGC
* *
652651 TTAT TTGT TTAT TTAT TCAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
652689 TGTTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:654737 original size:20 final size:20
Alignment explanation
Indices: 654708--654754 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
654698 GGATGTAGCT
654708 TATT-CCTTGGCGTGCAATA
1 TATTACCTTGGCGTGCAATA
*
654727 TATTACCTTGGCGTGCAATG
1 TATTACCTTGGCGTGCAATA
654747 TATTACCT
1 TATTACCT
654755 ATTGGAGTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
TATTACCTTGGCGTGCAATA
Found at i:661602 original size:210 final size:210
Alignment explanation
Indices: 661240--661659 Score: 840
Period size: 210 Copynumber: 2.0 Consensus size: 210
661230 GCTTCAAAAG
661240 CATTTAGGCATGGAATTGGAGCAGTTCTTATTTCACCTGATGGAAATCACTACCCTTTCACTGCA
1 CATTTAGGCATGGAATTGGAGCAGTTCTTATTTCACCTGATGGAAATCACTACCCTTTCACTGCA
661305 AGGTTGAACTTTGATTGCACCAATAATATAGCTGAATACGAAGCATGCGTTATGAGACTCCAAGC
66 AGGTTGAACTTTGATTGCACCAATAATATAGCTGAATACGAAGCATGCGTTATGAGACTCCAAGC
661370 AACCATCGAAAGAGGTATCCGAATATTGCAAGTATTTGGAGATTCAACCCTCGTTGTTTACCAAT
131 AACCATCGAAAGAGGTATCCGAATATTGCAAGTATTTGGAGATTCAACCCTCGTTGTTTACCAAT
661435 TGAAGGGAGAATGGT
196 TGAAGGGAGAATGGT
661450 CATTTAGGCATGGAATTGGAGCAGTTCTTATTTCACCTGATGGAAATCACTACCCTTTCACTGCA
1 CATTTAGGCATGGAATTGGAGCAGTTCTTATTTCACCTGATGGAAATCACTACCCTTTCACTGCA
661515 AGGTTGAACTTTGATTGCACCAATAATATAGCTGAATACGAAGCATGCGTTATGAGACTCCAAGC
66 AGGTTGAACTTTGATTGCACCAATAATATAGCTGAATACGAAGCATGCGTTATGAGACTCCAAGC
661580 AACCATCGAAAGAGGTATCCGAATATTGCAAGTATTTGGAGATTCAACCCTCGTTGTTTACCAAT
131 AACCATCGAAAGAGGTATCCGAATATTGCAAGTATTTGGAGATTCAACCCTCGTTGTTTACCAAT
661645 TGAAGGGAGAATGGT
196 TGAAGGGAGAATGGT
661660 AAATGCACGG
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (210 bp):
CATTTAGGCATGGAATTGGAGCAGTTCTTATTTCACCTGATGGAAATCACTACCCTTTCACTGCA
AGGTTGAACTTTGATTGCACCAATAATATAGCTGAATACGAAGCATGCGTTATGAGACTCCAAGC
AACCATCGAAAGAGGTATCCGAATATTGCAAGTATTTGGAGATTCAACCCTCGTTGTTTACCAAT
TGAAGGGAGAATGGT
Found at i:664296 original size:61 final size:61
Alignment explanation
Indices: 664194--664700 Score: 553
Period size: 61 Copynumber: 8.3 Consensus size: 61
664184 AACATTTTAT
* * * *
664194 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTCTAAAGCCCACATAAGTTGGTGGTA
1 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * * *
664255 CCTTTCAGTCTTCAAAGAATAGGACACATTTTTCTTTTAAAGCCCACACAAGTTAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
664316 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
664377 TGTTTCAGTCCTCAAAGAGCAGGAT--GTTTTCCTCTCAAAGCCCACACAAGTTGATGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
664436 CCTTTCAGTTCTGAAAGAGCAGGACACCTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
664497 CCTTTCAATCCTCAAAGAGCAGGAT-GC-TTTCC-TTTCAAGCCCGCAAAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
664555 CC-TTCTAGTCCTCAAAGAGCAGGAT-GCTTTCTCCTTGCAAAGCCTACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGATACCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
664616 CCTTTTAGT-CTCCAAAGAGCAAGACACTTTCCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CCTTTCAGTCCT-CAAAGAGC-AG-GA--TACCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGG
*
664680 TA
60 CA
*
664682 CCTTTTAGTCCTCAAAGAG
1 CCTTTCAGTCCTCAAAGAG
664701 TAGAGCGCAC
Statistics
Matches: 372, Mismatches: 60, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
57 3 0.01
58 45 0.12
59 55 0.15
60 6 0.02
61 208 0.56
62 4 0.01
63 1 0.00
65 1 0.00
66 47 0.13
67 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:664474 original size:120 final size:120
Alignment explanation
Indices: 664194--664700 Score: 556
Period size: 120 Copynumber: 4.2 Consensus size: 120
664184 AACATTTTAT
* * *
664194 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTCTAAAGCCCACATAAGTTGGTGGTACCTT
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* ** ** * *
664259 TCAGTCTTCAAAGAATAGGACACATTTTTCTTTTAAAGCCCACACAAGTT-AGTGGCA
66 TCAGTCCTCAAAGAGCAGG--ATGTTTTCCTTTCAAAGCCCACACAAGTTGA-TGGCA
**
664316 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATGTT
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
664381 TCAGTCCTCAAAGAGCAGGATGTTTTCCTCTCAAAGCCCACACAAGTTGATGGCA
66 TCAGTCCTCAAAGAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
* * ** **
664436 CCTTTCAGTTCTGAAAGAGCAGGACACCTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * *
664501 TCAATCCTCAAAGAGCAGGATGCTTTCCTTTC-AAGCCCGCAAAAGTTGGTGGCA
66 TCAGTCCTCAAAGAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
** *
664555 CC-TTCTAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAAAGCCTACACAAGTTGGTGGCACC
1 CCTTTC-AGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * * *
664618 TTTTAGT-CTCCAAAGAGCAAGACACTTTCCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGTA
64 TTTCAGTCCT-CAAAGAGC-AG-GA---T-GTTT-TCCTTTCAAAGCCCACACAAGTTGATGGCA
*
664682 CCTTTTAGTCCTCAAAGAG
1 CCTTTCAGTCCTCAAAGAG
664701 TAGAGCGCAC
Statistics
Matches: 326, Mismatches: 46, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
118 9 0.03
119 77 0.24
120 117 0.36
121 2 0.01
122 76 0.23
124 1 0.00
125 2 0.01
126 6 0.02
127 34 0.10
128 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (120 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAGAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTGATGGCA
Found at i:664502 original size:181 final size:176
Alignment explanation
Indices: 664195--664700 Score: 654
Period size: 181 Copynumber: 2.8 Consensus size: 176
664185 ACATTTTATC
* *
664195 CTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTCTAAAGCCCACATAAGTTGGTGGTACCTTT
1 CTTTCAGTCCTCAAAGAGCAGGATG-CTTTTCCTTC-AAAGCCCACACAAGTTGGTGGCACCTTT
** * *
664260 CAGTCTTCAAAGAATAGGACACATTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGT
64 CAGTC-TCAAAGAGCAGGACACATTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
*
664325 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
128 CCTCAAAGAGCAGGATG-C-TTTCC-TTTAAAGCCCACAAAAGTTGGTGGCA
* *
664377 TGTTTCAGTCCTCAAAGAGCAGGATG-TTTTCCTCTCAAAGCCCACACAAGTTGATGGCACCTTT
1 -CTTTCAGTCCTCAAAGAGCAGGATGCTTTTCCT-TCAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
664441 CAGTTCTGAAAGAGCAGGACACCTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAAT
64 CAG-TCTCAAAGAGCAGGACACATTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
664506 CCTCAAAGAGCAGGATGCTTTCCTTTCAAGCCCGCAAAAGTTGGTGGCA
128 CCTCAAAGAGCAGGATGCTTTCCTTTAAAGCCCACAAAAGTTGGTGGCA
* *
664555 CCTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCCTACACAAGTTGGTGGCACCTT
1 CTTTC-AGTCCTCAAAGAGCAGGATGCTTT-TCCTT-CAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
664620 TTAGTCTCCAAAGAGCAAGACACTTTCCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGTACCT
63 TCAGTCT-CAAAGAGCAGGACACATT--TTT-T--TTTTAAAGCCCACACAAGTTGGTGGCACCT
*
664685 TTTAGTCCTCAAAGAG
122 TTCAGTCCTCAAAGAG
664701 TAGAGCGCAC
Statistics
Matches: 286, Mismatches: 25, Indels: 22
0.86 0.08 0.07
Matches are distributed among these distances:
177 3 0.01
178 43 0.15
179 12 0.04
180 49 0.17
181 104 0.36
182 7 0.02
183 25 0.09
185 43 0.15
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (176 bp):
CTTTCAGTCCTCAAAGAGCAGGATGCTTTTCCTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCTCAAAGAGCAGGACACATTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
CAAAGAGCAGGATGCTTTCCTTTAAAGCCCACAAAAGTTGGTGGCA
Found at i:664768 original size:45 final size:46
Alignment explanation
Indices: 664682--664768 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 46
664672 GTTGGTGGTA
* * *
664682 CCTTTTAGTCCTCAAAGAGTAGAGCGCACTTCATTTTCTTTTTTTC
1 CCTTTTAGTCCTCAAAGAATAGAGCACACTTCATTTCCTTTTTTTC
* * * *
664728 CCTTTT-GTCCTTAAAGAATAGGGCATACTTTATTTCCTTTT
1 CCTTTTAGTCCTCAAAGAATAGAGCACACTTCATTTCCTTTT
664769 CCTTTTGTCC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 28 0.82
46 6 0.18
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (46 bp):
CCTTTTAGTCCTCAAAGAATAGAGCACACTTCATTTCCTTTTTTTC
Found at i:664785 original size:41 final size:41
Alignment explanation
Indices: 664723--664991 Score: 207
Period size: 41 Copynumber: 6.7 Consensus size: 41
664713 CATTTTCTTT
* *
664723 TTTTCCCTTTTGTCCTTAAAGAATAGGGCATACTTTATTTCC
1 TTTT-CCTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
** ** *
664765 TTTTCCTTTTGTCCTCAAAGAGCAGGATGTACTTTATTTCT
1 TTTTCCTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
* * *
664806 TTTTCCCTTTGTCCTC-AA-ATTATG-CA-A-TTTATTTCC
1 TTTTCCTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
* * **
664842 TTTTCCTTTTGTCCTCAAAGAACAAGACGCACTTTATTTCC
1 TTTTCCTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
* * *
664883 TTTTCTCTTTTGTCCTCAAAGAGTAGGACACACTTAATTTCC
1 TTTTC-CTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
* ** ***
664925 TTCTTTGCC-TTTGTCCTCGAAGAGCAGGGTGTACTTT-TTT--
1 -T-TTT-CCTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
*
664965 TTTTCCTTTT-TCCTCAAGGAATAGGAC
1 TTTTCCTTTTGTCCTCAAAGAATAGGAC
664992 CCATTTCATT
Statistics
Matches: 180, Mismatches: 37, Indels: 25
0.74 0.15 0.10
Matches are distributed among these distances:
36 23 0.13
37 16 0.09
38 9 0.05
39 5 0.03
40 3 0.02
41 59 0.33
42 38 0.21
43 22 0.12
44 4 0.02
45 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (41 bp):
TTTTCCTTTTGTCCTCAAAGAATAGGACATACTTTATTTCC
Found at i:664843 original size:77 final size:78
Alignment explanation
Indices: 664756--664902 Score: 233
Period size: 77 Copynumber: 1.9 Consensus size: 78
664746 TAGGGCATAC
* * * * *
664756 TTTATTTCCTTTTCCTTTTGTCCTCAAAGAGCAGGATGTACTTTATTTCTTTTTC-CCTTTGTCC
1 TTTATTTCCTTTTCCTTTTGTCCTCAAAGAACAAGACGCACTTTATTTCCTTTTCTCCTTTGTCC
664820 TCAAATTATGCAA
66 TCAAATTATGCAA
*
664833 TTTATTTCCTTTTCCTTTTGTCCTCAAAGAACAAGACGCACTTTATTTCCTTTTCTCTTTTGTCC
1 TTTATTTCCTTTTCCTTTTGTCCTCAAAGAACAAGACGCACTTTATTTCCTTTTCTCCTTTGTCC
664898 TCAAA
66 TCAAA
664903 GAGTAGGACA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 50 0.79
78 13 0.21
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.48
Consensus pattern (78 bp):
TTTATTTCCTTTTCCTTTTGTCCTCAAAGAACAAGACGCACTTTATTTCCTTTTCTCCTTTGTCC
TCAAATTATGCAA
Found at i:665627 original size:20 final size:20
Alignment explanation
Indices: 665602--665658 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
665592 TTTTCATAAT
665602 TTGTATCGATACATTCTTCA
1 TTGTATCGATACATTCTTCA
*
665622 TTGTATCGATACCTTCTTCA
1 TTGTATCGATACATTCTTCA
*
665642 TTATATCGATACATTCT
1 TTGTATCGATACATTCT
665659 GGGCTTTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATTCTTCA
Found at i:668211 original size:51 final size:50
Alignment explanation
Indices: 668051--668221 Score: 171
Period size: 51 Copynumber: 3.3 Consensus size: 50
668041 GAAATAACGA
* * * *
668051 GGTTGGAGTATCCTCGATTGTGAAAAATTAGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATGA-TA-TTTTGAAAATAAAATCGG
** * * * * * *
668103 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGA-AAAATGATATTTTGAAAATAAAATCGG
*
668156 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAAT-GATATTTTGAAAATAAAATCGG
668207 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
668222 TCAGAAATAA
Statistics
Matches: 94, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
50 4 0.04
51 35 0.37
52 16 0.17
53 32 0.34
54 3 0.03
55 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATGATATTTTGAAAATAAAATCGG
Found at i:668267 original size:27 final size:28
Alignment explanation
Indices: 668204--668279 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
668194 AAAATAAAGT
*
668204 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
668232 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
668259 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
668280 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:670769 original size:13 final size:13
Alignment explanation
Indices: 670751--670776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
670741 ACAAAGATCC
670751 ATGTATCGATACA
1 ATGTATCGATACA
670764 ATGTATCGATACA
1 ATGTATCGATACA
670777 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:670772 original size:33 final size:33
Alignment explanation
Indices: 670730--670796 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
670720 AAAATTTCCA
***
670730 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
670763 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
670796 A
1 A
670797 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:670840 original size:19 final size:18
Alignment explanation
Indices: 670816--670883 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
670806 CAGTAGCTAA
670816 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
670835 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
670850 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
670867 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
670884 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:670856 original size:13 final size:13
Alignment explanation
Indices: 670838--670862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670828 ACAATACTTA
670838 TGTATCGATACAT
1 TGTATCGATACAT
670851 TGTATCGATACA
1 TGTATCGATACA
670863 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:670860 original size:32 final size:32
Alignment explanation
Indices: 670819--670881 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
670809 TAGCTAATTA
*
670819 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
670851 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
670882 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:670963 original size:21 final size:21
Alignment explanation
Indices: 670939--670995 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
670929 CATTTGTAGG
670939 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
670960 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
670981 ATGTATCGATACATT
1 ATGTATCGATACATT
670996 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:671006 original size:1 final size:1
Alignment explanation
Indices: 671000--671055 Score: 85
Period size: 1 Copynumber: 56.0 Consensus size: 1
670990 TACATTTAAA
***
671000 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
671056 CAAACACTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:671043 original size:27 final size:27
Alignment explanation
Indices: 671005--671058 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
670995 TTAAATTTTT
671005 TTTTTTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTTTTTCAA
671032 TTTTTTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTTTTTCAA
671059 ACACTTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.07, C:0.04, G:0.00, T:0.89
Consensus pattern (27 bp):
TTTTTTTTTTTTTTTTTTTTTTTTCAA
Found at i:671737 original size:55 final size:54
Alignment explanation
Indices: 671651--672273 Score: 932
Period size: 55 Copynumber: 11.3 Consensus size: 54
671641 ATAAATTGTA
* * * * * *
671651 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
671706 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
671761 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
* *
671816 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
671871 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
671926 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
671981 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
672036 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
672091 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
* *
672146 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTG
672201 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTG
*
672256 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
672274 AAAAAGCGGA
Statistics
Matches: 532, Mismatches: 21, Indels: 30
0.91 0.04 0.05
Matches are distributed among these distances:
53 2 0.00
54 18 0.03
55 494 0.93
56 16 0.03
57 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGTG
Found at i:671864 original size:165 final size:165
Alignment explanation
Indices: 671651--672273 Score: 1072
Period size: 165 Copynumber: 3.8 Consensus size: 165
671641 ATAAATTGTA
* * * * *
671651 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGTGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* *
671715 TTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT-
*
671780 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
129 GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
671816 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
671881 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGA
671946 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
671981 TCCTGCTCTTTGAGGACTGGACAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
672046 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGA
672111 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
131 AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
672146 TCCTGCTCGTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
672211 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
672274 AAAAAGCGGA
Statistics
Matches: 437, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
164 6 0.01
165 427 0.98
166 4 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGA
AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:673259 original size:1 final size:1
Alignment explanation
Indices: 673255--673307 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
673245 CTTTTCTCTC
* * * * * *
673255 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
673308 GAAGAGAAGG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:673268 original size:10 final size:9
Alignment explanation
Indices: 673255--673307 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
673245 CTTTTCTCTC
*
673255 TTTTTCTTT
1 TTTTTGTTT
*
673264 GTTTTGTTT
1 TTTTTGTTT
673273 TTTTTGTTT
1 TTTTTGTTT
*
673282 TTTTT-TGT
1 TTTTTGTTT
673290 TTTTTGTTT
1 TTTTTGTTT
673299 TTTTT-TTT
1 TTTTTGTTT
673307 T
1 T
673308 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
8 11 0.29
9 27 0.71
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:673268 original size:24 final size:24
Alignment explanation
Indices: 673241--673292 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
673231 TAAGTAGGTT
673241 TTTTCTTTTCTCTCTTTTTCTTTG
1 TTTTCTTTTCTCTCTTTTTCTTTG
* * * * *
673265 TTTTGTTTTTTTTGTTTTTTTTTG
1 TTTTCTTTTCTCTCTTTTTCTTTG
673289 TTTT
1 TTTT
673293 TTGTTTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.83
Consensus pattern (24 bp):
TTTTCTTTTCTCTCTTTTTCTTTG
Found at i:673277 original size:19 final size:18
Alignment explanation
Indices: 673255--673306 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
673245 CTTTTCTCTC
* *
673255 TTTTTCTTTGTTTTGTTT
1 TTTTTTTTTTTTTTGTTT
673273 TTTTTGTTTTTTTTTGTTT
1 TTTTT-TTTTTTTTTGTTT
673292 TTTGTTTTTTTTTTT
1 TTT-TTTTTTTTTTT
673307 TGAAGAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 23 0.77
20 2 0.07
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTTGTTT
Found at i:673299 original size:24 final size:23
Alignment explanation
Indices: 673255--673307 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
673245 CTTTTCTCTC
*
673255 TTTTTCTTTGTTTTGTTTTTTTT
1 TTTTTTTTTGTTTTGTTTTTTTT
*
673278 GTTTTTTTTTGTTTT-TTGTTTTT
1 -TTTTTTTTTGTTTTGTTTTTTTT
673301 TTTTTTT
1 TTTTTTT
673308 GAAGAGAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 7 0.26
23 7 0.26
24 13 0.48
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTGTTTTGTTTTTTTT
Found at i:681354 original size:1 final size:1
Alignment explanation
Indices: 681348--681380 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
681338 GAAACACATG
681348 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
681381 TTGGGTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:685950 original size:51 final size:50
Alignment explanation
Indices: 685790--685960 Score: 171
Period size: 51 Copynumber: 3.3 Consensus size: 50
685780 GAAATAACGA
* * * *
685790 GGTTGGAGTATCCTCGATTGTGAAAAATTAGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATGA-TA-TTTTGAAAATAAAATCGG
** * * * * * *
685842 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGA-AAAATGATATTTTGAAAATAAAATCGG
*
685895 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAAT-GATATTTTGAAAATAAAATCGG
685946 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
685961 TCAGAAATAA
Statistics
Matches: 94, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
50 4 0.04
51 35 0.37
52 16 0.17
53 32 0.34
54 3 0.03
55 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATGATATTTTGAAAATAAAATCGG
Found at i:686006 original size:27 final size:28
Alignment explanation
Indices: 685943--686018 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
685933 AAAATAAAGT
*
685943 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
685971 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
685998 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
686019 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:688508 original size:13 final size:13
Alignment explanation
Indices: 688490--688515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
688480 ACAAAGATCC
688490 ATGTATCGATACA
1 ATGTATCGATACA
688503 ATGTATCGATACA
1 ATGTATCGATACA
688516 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:688511 original size:33 final size:33
Alignment explanation
Indices: 688469--688535 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
688459 AAAATTTCCA
***
688469 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
688502 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
688535 A
1 A
688536 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Done.