Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007248.1 Hibiscus syriacus cultivar Beakdansim tig00019204_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: 103770
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:6645 original size:22 final size:22
Alignment explanation
Indices: 6614--6667 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
6604 TGGCTGGAAA
*
6614 GCTTAGCAGCACGGAAAGACAG
1 GCTTAACAGCACGGAAAGACAG
6636 GCTTAACAGCACGGAAAGACAG
1 GCTTAACAGCACGGAAAGACAG
6658 GCTTAACAGC
1 GCTTAACAGC
6668 TCTTGACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.24, G:0.28, T:0.11
Consensus pattern (22 bp):
GCTTAACAGCACGGAAAGACAG
Found at i:7082 original size:20 final size:21
Alignment explanation
Indices: 7057--7108 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 21
7047 ACTAAACTTG
7057 ATAGTTTA-GATACTAAATGC
1 ATAGTTTACGATACTAAATGC
7077 ATAGTTTACCCGATACTAAATGC
1 ATAGTTTA--CGATACTAAATGC
7100 ATAGTTTAC
1 ATAGTTTAC
7109 CCGATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.28
21 1 0.03
23 20 0.69
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (21 bp):
ATAGTTTACGATACTAAATGC
Found at i:7095 original size:23 final size:23
Alignment explanation
Indices: 7065--7114 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
7055 TGATAGTTTA
7065 GATACTAAATGCATAGTTTACCC
1 GATACTAAATGCATAGTTTACCC
7088 GATACTAAATGCATAGTTTACCC
1 GATACTAAATGCATAGTTTACCC
7111 GATA
1 GATA
7115 AAAAACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (23 bp):
GATACTAAATGCATAGTTTACCC
Found at i:8065 original size:8 final size:8
Alignment explanation
Indices: 8054--8096 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
8044 ATATTTGCAT
*
8054 ATACATAC
1 ATACATGC
*
8062 ATACTTGC
1 ATACATGC
8070 ATACATGC
1 ATACATGC
*
8078 ATGCATGC
1 ATACATGC
*
8086 ATACATAC
1 ATACATGC
8094 ATA
1 ATA
8097 TGTATGTATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (8 bp):
ATACATGC
Found at i:8075 original size:16 final size:16
Alignment explanation
Indices: 8054--8096 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
8044 ATATTTGCAT
*
8054 ATACATACATACTTGC
1 ATACATACATACATGC
* *
8070 ATACATGCATGCATGC
1 ATACATACATACATGC
8086 ATACATACATA
1 ATACATACATA
8097 TGTATGTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (16 bp):
ATACATACATACATGC
Found at i:10631 original size:58 final size:57
Alignment explanation
Indices: 10481--10631 Score: 142
Period size: 58 Copynumber: 2.5 Consensus size: 57
10471 AAATTGGTCT
* * * * * * * *
10481 TCAAACTTTTAAATATTTCAATTCCATCCCTAAATTATGATTATCATTCTAAATTAGTCT
1 TCAAACTTTTTAA-GTTTCAATTTCATCCC--AATTATGACTACCATTCTAAATCAATCC
* *
10541 TCAGACTTTTTACGTTTCAATTTCATCCCCCAATTATGACT-CCATTCTAAATCAATCC
1 TCAAACTTTTTAAGTTTCAATTTCAT--CCCAATTATGACTACCATTCTAAATCAATCC
10599 TCAAACTTTTTCAAAGTTTCAATTTCATCCCAA
1 TCAAACTTTTT--AAGTTTCAATTTCATCCCAA
10632 ACTATACGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
58 28 0.37
59 20 0.27
60 24 0.32
61 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (57 bp):
TCAAACTTTTTAAGTTTCAATTTCATCCCAATTATGACTACCATTCTAAATCAATCC
Found at i:10862 original size:60 final size:60
Alignment explanation
Indices: 10769--10923 Score: 215
Period size: 60 Copynumber: 2.6 Consensus size: 60
10759 TTTGGGGTTG
* *
10769 AAATTAGAGTATTCAAAAGTTTGAGGACCAATTTAGAAAGAGA-ATCATAGTTTAGGG-ATA
1 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGA-CATAGTTT-GGGAATA
* * ** *
10829 AAATTGGAATGTTCAAAAGTTTAAGGATTAATTTAGAATGAGAGACATAGTTTGGGAATA
1 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGACATAGTTTGGGAATA
10889 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTA
1 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTA
10924 AGATGAGGGT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 3 0.04
60 78 0.95
61 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (60 bp):
AAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGAGACATAGTTTGGGAATA
Found at i:13712 original size:20 final size:20
Alignment explanation
Indices: 13683--13720 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13673 CAGATCCCCA
*
13683 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
13703 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
13721 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:13742 original size:22 final size:22
Alignment explanation
Indices: 13703--13764 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
13693 ATTCCCCTGT
13703 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCCTTCAAA
**
13726 GGGGGAATCGGTTCCC-TCAGG
1 GGGGGAATCGGTTCCCTTCAAA
*
13747 GGGAGGAATCGATTCCCT
1 GGG-GGAATCGGTTCCCT
13765 CTGCACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.18
22 15 0.44
23 13 0.38
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.21
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCTTCAAA
Found at i:20284 original size:36 final size:36
Alignment explanation
Indices: 20237--20376 Score: 253
Period size: 36 Copynumber: 3.9 Consensus size: 36
20227 CAACTCGTAA
20237 GAGTTTCAGCACTTTCGTTTCCACTCTTGATTTTAC
1 GAGTTTCAGCACTTTCGTTTCCACTCTTGATTTTAC
*
20273 GAGTTTCAGCACTTTCGTTTTCACTCTTGATTTTAC
1 GAGTTTCAGCACTTTCGTTTCCACTCTTGATTTTAC
* *
20309 GAGTTTTAGCACTTTCGTTTTCACTCTTGATTTTAC
1 GAGTTTCAGCACTTTCGTTTCCACTCTTGATTTTAC
20345 GAGTTTCAGCACTTTCGTTTCCACTCTTGATT
1 GAGTTTCAGCACTTTCGTTTCCACTCTTGATT
20377 CTCTGGTACA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.46
Consensus pattern (36 bp):
GAGTTTCAGCACTTTCGTTTCCACTCTTGATTTTAC
Found at i:21640 original size:78 final size:78
Alignment explanation
Indices: 21480--21650 Score: 245
Period size: 78 Copynumber: 2.2 Consensus size: 78
21470 ACACGATTTG
* * *
21480 ATGGAATGGAGGTGGATGTTGGTAGATATGGAGATGGATGCTGTGAAGATGATGAAGTAGATAGT
1 ATGGAATGGAGGTGGATGTTGATAGAGATGGAGATGGATGCTGTGAAGATGATGAAGTAGATAAT
* * *
21545 TCTAATGGTGTAG
66 TCTAATGATGAAA
*
21558 ATGGAACGGAGGTGGATGTTGATAGAGATGGAGATGGATG-TCGTGAAGATGATGAAGTAGATAA
1 ATGGAATGGAGGTGGATGTTGATAGAGATGGAGATGGATGCT-GTGAAGATGATGAAGTAGATAA
*
21622 TTGTAATGATGAAA
65 TTCTAATGATGAAA
*
21636 ATGGAATTGAGGTGG
1 ATGGAATGGAGGTGG
21651 GTGGAGATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 81 0.99
ACGTcount: A:0.32, C:0.02, G:0.38, T:0.27
Consensus pattern (78 bp):
ATGGAATGGAGGTGGATGTTGATAGAGATGGAGATGGATGCTGTGAAGATGATGAAGTAGATAAT
TCTAATGATGAAA
Found at i:30170 original size:209 final size:210
Alignment explanation
Indices: 29800--30359 Score: 892
Period size: 209 Copynumber: 2.6 Consensus size: 210
29790 ATTTAAGAAT
*
29800 TAAATTGAACAAATATGAAATTACAAATCAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAC-A-ACACA---A--AG
* *
29865 GGATCAAATTGAAATAATTTTAAATTGCGAGGTTGAAATTAATAC-AAAAAGTACTAAATTATAC
59 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * * *
29929 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGT-AATAAGTATGAGTTAATTTCAT
124 CCATTTAAAAAGTTATAGGCCAATTAAAAAATAGAAATAAGTAAAAAAGTATGAGTCAATTTCAG
*
29993 ATGCAAATATAATTTGGAGGAC
189 ATGCAAATAAAATTTGGAGGAC
*
30015 TAGATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
30080 ATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
66 ATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
* *
30145 AAAAGTTATAGGCCAATTAAAAAATAGAAATAAGTAAAAAAGTATGGGTCAATTTTAGATGCAAA
131 AAAAGTTATAGGCCAATTAAAAAATAGAAATAAGTAAAAAAGTATGAGTCAATTTCAGATGCAAA
30210 TAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
* * *
30225 TAAATTGAATAAATATG-AATTACAAATAAAAAATTAAATAAATTAAACAACACAAAGGGATTAA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
*
30289 ATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTAA
66 ATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
30354 AAAAGT
131 AAAAGT
30360 ACAAATATAT
Statistics
Matches: 326, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
208 45 0.14
209 174 0.53
210 54 0.17
213 5 0.02
214 1 0.00
215 47 0.14
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.28
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
ATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
AAAAGTTATAGGCCAATTAAAAAATAGAAATAAGTAAAAAAGTATGAGTCAATTTCAGATGCAAA
TAAAATTTGGAGGAC
Found at i:30411 original size:7 final size:7
Alignment explanation
Indices: 30399--30472 Score: 64
Period size: 7 Copynumber: 10.7 Consensus size: 7
30389 TTTACATTAA
30399 GGTTTAT
1 GGTTTAT
30406 GGTTTAT
1 GGTTTAT
30413 GGTTTA-
1 GGTTTAT
30419 GTGTTTAT
1 G-GTTTAT
30427 GGTTTA-
1 GGTTTAT
* *
30433 AGCTTA-
1 GGTTTAT
30439 GAGTTTAT
1 G-GTTTAT
30447 GGTTTAT
1 GGTTTAT
* *
30454 GATTTAA
1 GGTTTAT
*
30461 GGTTTAG
1 GGTTTAT
30468 GGTTT
1 GGTTT
30473 CTATAAACTA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
6 5 0.09
7 48 0.87
8 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.28, T:0.51
Consensus pattern (7 bp):
GGTTTAT
Found at i:30444 original size:20 final size:21
Alignment explanation
Indices: 30400--30453 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
30390 TTACATTAAG
* * *
30400 GTTTATGGTTTATGGTTTAGT
1 GTTTATGGTTTATAGCTTAGA
30421 GTTTATGGTTTA-AGCTTAGA
1 GTTTATGGTTTATAGCTTAGA
30441 GTTTATGGTTTAT
1 GTTTATGGTTTAT
30454 GATTTAAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.54
Consensus pattern (21 bp):
GTTTATGGTTTATAGCTTAGA
Found at i:30575 original size:23 final size:24
Alignment explanation
Indices: 30547--30591 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
30537 TAATTTACTT
*
30547 TATATAGTTTATATATA-TATATA
1 TATATAGGTTATATATACTATATA
30570 TATATAGGTTATATATACTATA
1 TATATAGGTTATATATACTATA
30592 CATGGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
TATATAGGTTATATATACTATATA
Found at i:30982 original size:21 final size:21
Alignment explanation
Indices: 30958--31029 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
30948 GAGTTTATGG
30958 TTTATGGTTTAATATTTAGGA
1 TTTATGGTTTAATATTTAGGA
* *
30979 TTTAGGGTTTAATATTTAGTA
1 TTTATGGTTTAATATTTAGGA
*
31000 TTTATGGTTTAA-AGTTTAGGT
1 TTTATGGTTTAATA-TTTAGGA
31021 TTTA-GGTTT
1 TTTATGGTTT
31030 TAGGGTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 6 0.13
21 39 0.87
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (21 bp):
TTTATGGTTTAATATTTAGGA
Found at i:31156 original size:15 final size:14
Alignment explanation
Indices: 31129--31165 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
31119 TATATAGTTG
31129 ATATATATTTATAT
1 ATATATATTTATAT
31143 ATATATAGTTTATAT
1 ATATATA-TTTATAT
31158 ATACTATA
1 ATA-TATA
31166 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 10 0.48
16 4 0.19
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (14 bp):
ATATATATTTATAT
Found at i:31333 original size:587 final size:572
Alignment explanation
Indices: 30456--32613 Score: 2135
Period size: 532 Copynumber: 3.9 Consensus size: 572
30446 TGGTTTATGA
* * * *
30456 TTTAAGGTTTAGGGTTTCTATAAACTATATACTTTATTATTTTGTATAGTTTATGCATAGTATTT
1 TTTAAGGTTTAGGATTTCTATAAACTATATACTTTATTACTCTATATAGTTTATGCATAGTATTT
30521 CTATAAAATATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATAGGTTATATAT
66 CTATAAAATATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATAGGTTATATAT
30586 ACTATACATGGTTTATACATACATATTATATAAAATTAATAAAATTATTTAAATGTAAATTATAT
131 ACTATACATGGTTTATACATACATATTATATAAAATTAATAAAATTATTTAAATGTAAATTATAT
*
30651 AAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAAT
196 AAAACATGATTAATTAGGTGTTAAATAAGTAGTATGTCACATTGCATATTATATGGTTCATAAAT
30716 AGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTA-ATTAGTTGCATGTTAGG-TAATTC
261 AGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATATTAGTTGCATGTTAGGTTAATTC
* * * *
30779 ATATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTTATAGTAAAACCCAAAAATAAGTCCAT
326 ACATTAATAGCCCATTTATTTTGTTATTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCAT
* * *
30844 TTGCATTAGTGCAAATCCATTTACATCAGTTTACATAGGCTCAATACATAAGCCCACTCTTTTAT
391 TTGCATTAGTGCAAATCCACTTACATCAGTTTACATAAGCCCAATACATAAGCCCACTCTTTTAT
** *
30909 TACAAATATTTATACATTAGTGCTAGTTTATTTACATTAGAGTTTATGGTTTATGGTTTAATATT
456 TACAAATA--TATACATTAGTGCTAGTCCATTTACATTAGAGCTTATGGTTTATGGTTTAATATT
30974 TAGGATTTAGGGTTTAATATTTAGTATTTATGGTTTAAAGTTTAGGTTTTAGGT
519 TAGGATTTAGGGTTTAATATTTAGTATTTATGGTTTAAAGTTTAGGTTTTAGGT
* * *
31028 TTTAGGGTTTATGATTTCTATAAACTATATACTTTATTACTCTATATAGTTTATGCATAGTGTTT
1 TTTAAGGTTTAGGATTTCTATAAACTATATACTTTATTACTCTATATAGTTTATGCATAGTATTT
* * *
31093 CTATAAACTATATAA-TGAATTTACTTTATATAGTTGATATATATTTATATATATATAGTTTATA
66 CTATAAAATATATAAGT-AATTTACTTTATATAGTT--TATATATATATATATATATAGGTTATA
31157 TATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATT
128 TATACTATACATGGTTTATACATAC-------AT---ATTA--T-ATAAAATTAATAAAATTATT
*
31222 TAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAAGTAGTATGTTACATTGCATAT
180 TAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAAGTAGTATGTCACATTGCATAT
*
31287 TATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTG
245 TATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATATTAGTTG
*
31352 CATGTTAGGTTAATTCACATTAATAGTCCATTTATTTTGTTATTATGAATAAGTAATAATAAAAC
310 CATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTATTATGAATAAGTAATAATAAAAC
* * *
31417 CCAAAAATAAGTCCATTTGCATTAGTGCTACTCCACTTACATTAGTTTACATAAGCCCAATACAT
375 CCAAAAATAAGTCCATTTGCATTAGTGCAAATCCACTTACATCAGTTTACATAAGCCCAATACAT
*
31482 AAGCCCACTCTTTTATTACAAATATATACATTAGTGCTAGTCCATTTACATTAGGGCTTATGG-T
440 AAGCCCACTCTTTTATTACAAATATATACATTAGTGCTAGTCCATTTACATTAGAGCTTATGGTT
* * * * * *** * * * *
31546 TA-GTGTTTAGTGTTTATGG-TTTATGATTT-CTAGAAACTATATACT--TTTATTACTTTA---
505 TATG-GTTTAATATTTA-GGATTTAGGGTTTAATATTTAGTATTTA-TGGTTTA-AAGTTTAGGT
*
31603 TATA-G-
566 TTTAGGT
* * * * *
31608 TTT-ATGTATAGTG-TTTCTATAAACTATATA----AGTA----ATTTACTTTAT--ATAG---T
1 TTTAAGGTTTAG-GATTTCTATAAACTATATACTTTATTACTCTATATAGTTTATGCATAGTATT
* * *
31658 T-TAT---ATATAT-AG--A-TTA-TATATATAG-TT-TATATATA-CTATACAT-GG-T-T-TA
65 TCTATAAAATATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATAGGTTATATA
*
31707 TAC-ATACAT-ATTATATA-A-A-ATTATT-TAATAAAATTAATAAAATTATTTAAATGTAAATT
130 TACTATACATGGTT-TATACATACA-TATTAT-ATAAAATTAATAAAATTATTTAAATGTAAATT
*
31766 ATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCAT
192 ATATAAAACATGATTAATTAGGTGTTAAATAAGTAGTATGTCACATTGCATATTATATGGTTCAT
* *
31831 AAATAGTAGTACATGCCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTA
257 AAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATATTAGTTGCATGTTAGGTTA
* * * * *
31896 ATTCATATTATTAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCTAAACA-AAGT
322 ATTCACATTAATAGCCCATTTATTTTGTTATTATGAATAAGTAATAATAAAACCCAAAAATAAGT
* * * * *
31960 CCATTTGCATTAGTGCTAGTCCACTTACATTAGTTTACATAGGCTCAATACATAAGCCCACTCTT
387 CCATTTGCATTAGTGCAAATCCACTTACATCAGTTTACATAAGCCCAATACATAAGCCCACTCTT
* * *
32025 TTATTACAAATCTATATGCATTAGTGCTAGTCCATTTACATTAG-GTCTTATGGTATAGGGTTTA
452 TTATTACAAA--TATATACATTAGTGCTAGTCCATTTACATTAGAG-CTTATGGTTTATGGTTTA
* * *** * *** * * *
32089 GA-GTTT-GAAATTTAGGGTTTAGGGTTT-CTA--TAAACTATATAAG--TA--ATTTACGT
514 -ATATTTAG-GATTTAGGGTTTAATATTTAGTATTTATGGTTTA-AAGTTTAGGTTTTAGGT
* * * * * * * * *
32142 TATATA-GTTTA-TATATATATATA-TATATA-TATA-TA-TATATATA-TATATAG-AGAG-A-
1 TTTA-AGGTTTAGGATTTCTATAAACTATATACTTTATTACTCTATATAGTTTAT-GCATAGTAT
* * * * * * * * ** ** * * *
32197 ---GAGAGAGAGAGA-GAG-AGTTTA-TATATACTA-TACAT-GGT-T-TCTACATACA---TAT
64 TTCTATA-AAATATATAAGTAATTTACTTTATA-TAGTTTATATATATATATATATATAGGTTAT
* * *
32249 -TATA-TAGA-A----TTAT---T---TAGTA-A-AATA-T-ATAAAATTATTTAAATGTAAATT
127 ATATACTATACATGGTTTATACATACATATTATATAAAATTAATAAAATTATTTAAATGTAAATT
* *
32297 ATATAAAACATGATTAATTAAGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCAT
192 ATATAAAACATGATTAATTAGGTGTTAAATAAGTAGTATGTCACATTGCATATTATATGGTTCAT
* * * *
32362 AAATTGTAGTACATTTCATATTAATTTCATTTGAATAATTAGTATTTTAGTTGCATGTTAGGTTA
257 AAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATATTAGTTGCATGTTAGGTTA
* *
32427 ATTCACATTAATAGCCCATTTATTTTGTTATTATAAATAAGTAATAATAAAACCCAAAAATAATT
322 ATTCACATTAATAGCCCATTTATTTTGTTATTATGAATAAGTAATAATAAAACCCAAAAATAAGT
* * * * * * * *
32492 CCATTTGCATTAGTGCTAGTCAATTTATATTAGTTTACATAGGCCCAATACATAAGTCCACTCTT
387 CCATTTGCATTAGTGCAAATCCACTTACATCAGTTTACATAAGCCCAATACATAAGCCCACTCTT
* * * *
32557 TTATTACAAATATATATGCATTAGTACTAGTCCATTTATATTAGGGTTTATGGTTTA
452 TTATTACAAATATATA--CATTAGTGCTAGTCCATTTACATTAGAGCTTATGGTTTA
32614 ATATTTAGTG
Statistics
Matches: 1384, Mismatches: 130, Indels: 184
0.82 0.08 0.11
Matches are distributed among these distances:
530 5 0.00
531 280 0.20
532 329 0.24
533 54 0.04
534 32 0.02
535 13 0.01
536 2 0.00
537 5 0.00
538 6 0.00
539 6 0.00
540 1 0.00
542 5 0.00
543 2 0.00
544 22 0.02
545 4 0.00
546 4 0.00
547 10 0.01
548 5 0.00
549 1 0.00
550 1 0.00
551 1 0.00
552 6 0.00
553 7 0.01
554 1 0.00
556 1 0.00
557 8 0.01
558 3 0.00
559 1 0.00
561 1 0.00
562 5 0.00
565 3 0.00
566 2 0.00
569 4 0.00
571 10 0.01
572 90 0.07
574 50 0.04
575 3 0.00
579 21 0.02
580 4 0.00
581 3 0.00
582 3 0.00
584 8 0.01
585 14 0.01
586 23 0.02
587 176 0.13
588 16 0.01
589 133 0.10
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (572 bp):
TTTAAGGTTTAGGATTTCTATAAACTATATACTTTATTACTCTATATAGTTTATGCATAGTATTT
CTATAAAATATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATAGGTTATATAT
ACTATACATGGTTTATACATACATATTATATAAAATTAATAAAATTATTTAAATGTAAATTATAT
AAAACATGATTAATTAGGTGTTAAATAAGTAGTATGTCACATTGCATATTATATGGTTCATAAAT
AGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATATTAGTTGCATGTTAGGTTAATTC
ACATTAATAGCCCATTTATTTTGTTATTATGAATAAGTAATAATAAAACCCAAAAATAAGTCCAT
TTGCATTAGTGCAAATCCACTTACATCAGTTTACATAAGCCCAATACATAAGCCCACTCTTTTAT
TACAAATATATACATTAGTGCTAGTCCATTTACATTAGAGCTTATGGTTTATGGTTTAATATTTA
GGATTTAGGGTTTAATATTTAGTATTTATGGTTTAAAGTTTAGGTTTTAGGT
Found at i:31482 original size:13 final size:13
Alignment explanation
Indices: 31464--31488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31454 TACATTAGTT
31464 TACATAAGCCCAA
1 TACATAAGCCCAA
31477 TACATAAGCCCA
1 TACATAAGCCCA
31489 CTCTTTTATT
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:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (13 bp):
TACATAAGCCCAA
Found at i:31632 original size:49 final size:49
Alignment explanation
Indices: 31572--31666 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
31562 TGGTTTATGA
* ** *
31572 TTTCTAGAAACTATAT-ACTTTTATTACTTTATATAGTTTATGTATAGTG
1 TTTCTAGAAACTATATAAGTAAT-TTACTTTATATAGTTTATATATAGTG
*
31621 TTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
1 TTTCTAGAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
31667 TAGATTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 37 0.93
50 3 0.08
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (49 bp):
TTTCTAGAAACTATATAAGTAATTTACTTTATATAGTTTATATATAGTG
Found at i:31668 original size:13 final size:13
Alignment explanation
Indices: 31650--31692 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
31640 TAATTTACTT
31650 TATATAGTTTATA
1 TATATAGTTTATA
*
31663 TATATAGATTATA
1 TATATAGTTTATA
31676 TATATAGTTTATA
1 TATATAGTTTATA
31689 TATA
1 TATA
31693 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:31697 original size:20 final size:21
Alignment explanation
Indices: 31673--31723 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
31663 TATATAGATT
*
31673 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
31694 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
31714 ATATTATATA
1 ATA-TATATA
31724 AAATTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:32156 original size:2 final size:2
Alignment explanation
Indices: 32151--32190 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32141 TTATATAGTT
32151 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
32191 GAGAGAGAGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32293 original size:25 final size:22
Alignment explanation
Indices: 32249--32304 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
32239 ACATACATAT
*
32249 TATATAGAATTATTTAGTAAAA
1 TATATAAAATTATTTAGTAAAA
*
32271 TATATAAAATTATTTAAATGTAAAT
1 TATATAAAATTATTT--A-GTAAAA
32296 TATATAAAA
1 TATATAAAA
32305 CATGATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 14 0.48
24 1 0.03
25 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
TATATAAAATTATTTAGTAAAA
Found at i:32329 original size:531 final size:531
Alignment explanation
Indices: 31015--32634 Score: 2223
Period size: 531 Copynumber: 3.0 Consensus size: 531
31005 GGTTTAAAGT
* * * *
31015 TTAGGTTTTAG-GTTTTAGGGTTTATGATTTCTATAAACTATATACT-TTATTAC-TCTATATAG
1 TTAGGGTTTAGTG-TTTAGGGTTTAGGATTTCTAGAAACTATATACTAATATTACGT-TATATAG
** * * * * * * * * * *
31077 TTTATGCATAGTGTTTCTATAAACTATATAA-TGAATTTACTTTATATAGTTGATATATATTTAT
64 TTTATATATAGTATATATATAAACTATATAAGT-AATATACTATATATAGTAGAGAGAGA--GAT
* * * *
31141 -ATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATA
126 GAGAGAGAGAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATA
*
31205 AAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAAGTAG
191 AAATTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAG
*
31270 TATGTTACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCAT
256 TATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCAT
*
31335 AATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGTCCATTTATTTTGTTATTATGA
321 AATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTATTATGA
*
31400 ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTACTCCACTTACATTAGTTT
386 ATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCACTTACATTAGTTT
* *
31465 ACATAAGCCCAATACATAAGCCCACTCTTTTATTACAAA-TATATACATTAGTGCTAGTCCATTT
451 ACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAATTATATGCATTAGTGCTAGTCCATTT
*
31529 ACATTAGGGCTTATGG
516 ACATTAGGTCTTATGG
* * * ** *
31545 TTAGTGTTTAGTGTTTATGGTTTATGATTTCTAGAAACTATATACTTTTATTACTTTATATAGTT
1 TTAGGGTTTAGTGTTTAGGGTTTAGGATTTCTAGAAACTATATACTAATATTACGTTATATAGTT
* * * * * * * * * * * *
31610 TATGTATAGTGTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATAGATTAT
66 TATATATAGTATATATATAAACTATATAAGTAATATACTATATATAG--TAGAGAGAGAGATGAG
* * *
31675 ATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
129 AGAGAGAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
31740 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
194 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
*
31805 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGCCATATTAATTTCATTTGCATAAT
259 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
* * *
31870 TAGTATTTTAGTTGCATGTTAGGTTAATTCATATTATTAGCCCATTTATTTTGTTGTTATGAATA
324 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTATTATGAATA
* *
31935 AGTAATAATAAAACCTAAACA-AAGTCCATTTGCATTAGTGCTAGTCCACTTACATTAGTTTACA
389 AGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCACTTACATTAGTTTACA
*
31999 TAGGCTCAATACATAAGCCCACTCTTTTATTACAAATCTATATGCATTAGTGCTAGTCCATTTAC
454 TAGGCCCAATACATAAGCCCACTCTTTTATTACAAAT-TATATGCATTAGTGCTAGTCCATTTAC
32064 ATTAGGTCTTATGG
518 ATTAGGTCTTATGG
* * *
32078 TATAGGGTTTAGAGTTTGAAATTTAGGGTTTAGGGTTTCTATAAACTATATAAGTAAT-TTACGT
1 T-TAGGGTTT--AG--TG---TTTAGGGTTTAGGATTTCTAGAAACTATAT-ACTAATATTACGT
*
32142 TATATAGTTTATATATA-TATATATATATA-TATAT-A-T-ATATA-TATATATAG-AGAGAGAG
57 TATATAGTTTATATATAGTATATATATAAACTATATAAGTAATATACTATATATAGTAGAGAGAG
* *
32200 AGA-GAGAGAGAGAGTTTATATATACTATACATGGTTTCTACATACATATTATATAGAATTATTT
122 AGATGAGAGAGAGAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTT
* *
32264 AGTAAAA-TATATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAAGTGTTAAATA
187 AATAAAATTA-ATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATA
* *
32328 ATTAGTATGTCACATTGCATATTATATGGTTCATAAATTGTAGTACATTTCATATTAATTTCATT
251 ATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATT
*
32393 TGAATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTAT
316 TGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTAT
* * * * *
32458 TATAAATAAGTAATAATAAAACCCAAAAATAATTCCATTTGCATTAGTGCTAGTCAATTTATATT
381 TATGAATAAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCACTTACATT
* *
32523 AGTTTACATAGGCCCAATACATAAGTCCACTCTTTTATTACAAATATATATGCATTAGTACTAGT
446 AGTTTACATAGGCCCAATACATAAGCCCACTCTTTTATTACAAAT-TATATGCATTAGTGCTAGT
*
32588 CCATTTATATTAGGGT-TTATGG
510 CCATTTACATTA-GGTCTTATGG
*** *
32610 TTTAATATTTAGTGTTTATGGTTTA
1 -TTAGGGTTTAGTGTTTAGGGTTTA
32635 AAGTTTAGGG
Statistics
Matches: 994, Mismatches: 74, Indels: 49
0.89 0.07 0.04
Matches are distributed among these distances:
525 10 0.01
528 2 0.00
530 44 0.04
531 401 0.40
532 397 0.40
533 52 0.05
534 7 0.01
535 8 0.01
536 6 0.01
537 1 0.00
538 3 0.00
539 5 0.01
540 8 0.01
541 47 0.05
542 3 0.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (531 bp):
TTAGGGTTTAGTGTTTAGGGTTTAGGATTTCTAGAAACTATATACTAATATTACGTTATATAGTT
TATATATAGTATATATATAAACTATATAAGTAATATACTATATATAGTAGAGAGAGAGATGAGAG
AGAGAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATT
AATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGT
CACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTA
GTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTATTATGAATAAG
TAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCACTTACATTAGTTTACATA
GGCCCAATACATAAGCCCACTCTTTTATTACAAATTATATGCATTAGTGCTAGTCCATTTACATT
AGGTCTTATGG
Found at i:32626 original size:21 final size:21
Alignment explanation
Indices: 32597--32653 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
32587 TCCATTTATA
32597 TTAGGGTTTATGGTTTAATA-T
1 TTAGGGTTTATGGTTTAA-AGT
*
32618 TTAGTGTTTATGGTTTAAAGT
1 TTAGGGTTTATGGTTTAAAGT
32639 TTAGGGTTTA-GGTTT
1 TTAGGGTTTATGGTTT
32654 TCTATAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAAGT
Found at i:32760 original size:17 final size:17
Alignment explanation
Indices: 32738--32780 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
32728 TTATATAGTT
*
32738 TATATATATAGGTTATA
1 TATATATATAAGTTATA
*
32755 TATATATATAATTTATA
1 TATATATATAAGTTATA
32772 TATACTATA
1 TATA-TATA
32781 CATGGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
TATATATATAAGTTATA
Found at i:32762 original size:15 final size:13
Alignment explanation
Indices: 32729--32760 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32719 TAATTTATTT
32729 TATATAGTTTATA
1 TATATAGTTTATA
*
32742 TATATAGGTTATA
1 TATATAGTTTATA
32755 TATATA
1 TATATA
32761 TATAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:32847 original size:2 final size:2
Alignment explanation
Indices: 32840--32872 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32830 TTTGGTTTTT
32840 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
32873 TAGAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:33127 original size:19 final size:20
Alignment explanation
Indices: 33087--33127 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33077 AATTTTTCTA
* *
33087 TTCCTTCTAAATTTCTCAAT
1 TTCCGTCTAAATTTCCCAAT
33107 TTCCGTCTAAA-TTCCCAAT
1 TTCCGTCTAAATTTCCCAAT
33126 TT
1 TT
33128 ATTTTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.46
Consensus pattern (20 bp):
TTCCGTCTAAATTTCCCAAT
Found at i:33366 original size:273 final size:276
Alignment explanation
Indices: 32876--33426 Score: 1072
Period size: 273 Copynumber: 2.0 Consensus size: 276
32866 ACACACATAG
32876 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTGAAAATTCAAGAAGATA
1 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTGAAAATTCAAGAAGATA
32941 TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAAATGATGA
66 TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAAATGATGA
*
33006 TTGTTGGAGGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
131 TTGTTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
33071 TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
196 TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
33136 TAGTTGATTTTATTGT
261 TAGTTGATTTTATTGT
33152 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTGAAAATTCAAG-A-ATA
1 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTGAAAATTCAAGAAGATA
33215 TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTG-AAAAAATGATGA
66 TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAAATGATGA
33279 TTGTTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
131 TTGTTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
33344 TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
196 TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
33409 TAGTTGATTTTATTGT
261 TAGTTGATTTTATTGT
33425 AA
1 AA
33427 TTTTAGTGTT
Statistics
Matches: 274, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
273 159 0.58
274 55 0.20
275 1 0.00
276 59 0.22
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (276 bp):
AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTGAAAATTCAAGAAGATA
TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAAATGATGA
TTGTTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
TAGTTGATTTTATTGT
Found at i:33400 original size:19 final size:20
Alignment explanation
Indices: 33360--33400 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33350 AATTTTTCTA
* *
33360 TTCCTTCTAAATTTCTCAAT
1 TTCCGTCTAAATTTCCCAAT
33380 TTCCGTCTAAA-TTCCCAAT
1 TTCCGTCTAAATTTCCCAAT
33399 TT
1 TT
33401 ATTTTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.46
Consensus pattern (20 bp):
TTCCGTCTAAATTTCCCAAT
Found at i:33722 original size:19 final size:20
Alignment explanation
Indices: 33682--33722 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33672 AATTTTTCTA
* *
33682 TTCCTTCTAAATTTCTCAAT
1 TTCCGTCTAAATTTCCCAAT
33702 TTCCGTCTAAA-TTCCCAAT
1 TTCCGTCTAAATTTCCCAAT
33721 TT
1 TT
33723 ATTTTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.46
Consensus pattern (20 bp):
TTCCGTCTAAATTTCCCAAT
Found at i:33734 original size:322 final size:319
Alignment explanation
Indices: 33152--33763 Score: 1179
Period size: 322 Copynumber: 1.9 Consensus size: 319
33142 ATTTTATTGT
*
33152 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTGAAAATTCAAGAATATT
1 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTAAAAATTCAAGAATATT
33217 TACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAATGATGATTG
66 TACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAATGATGATTG
33282 TTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAACTTC
131 TTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAACTTC
33347 CCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTATAG
196 CCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTATAG
33412 TTGATTTTATTGTAATTTTAGTGTTTTCAACACACACACACACACACACATACATATAG
261 TTGATTTTATTGTAATTTTAGTGTTTTCAACACACACACACACACACACATACATATAG
33471 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTAAAAATTCAAGAAGATA
1 AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTAAAAATTCAAG-A-ATA
33536 TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAAATGATGA
64 TTTACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTG-AAAAAATGATGA
*
33601 TTGTTGGAGGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
128 TTGTTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAAC
33666 TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
193 TTCCCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTA
33731 TAGTTGATTTTATTGTAATTTTAGTGTTTTCAA
258 TAGTTGATTTTATTGTAATTTTAGTGTTTTCAA
33764 GTATAATAAA
Statistics
Matches: 288, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
319 58 0.20
320 1 0.00
321 55 0.19
322 174 0.60
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (319 bp):
AAAATTAAAAGTAATTAGAATGTATACATGATTAAATTGCATCGAATTAAAAATTCAAGAATATT
TACAATTAATCATGACTAAAATGAAAGAAATCAAAAATTAAATACAAGTGAAAAAATGATGATTG
TTGGAAGAGCATGAGCCAAATTAACCCAAAATATCTTGTTGGACACTATCCTTGGCACCAACTTC
CCAAATTTTTCTATTCCTTCTAAATTTCTCAATTTCCGTCTAAATTCCCAATTTATTTTGTATAG
TTGATTTTATTGTAATTTTAGTGTTTTCAACACACACACACACACACACATACATATAG
Found at i:34106 original size:38 final size:39
Alignment explanation
Indices: 34047--34123 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
34037 AGAAATATAA
34047 ATAATATAAAGAATTAGAATTAACATAAAAACCAAATTT
1 ATAATATAAAGAATTAGAATTAACATAAAAACCAAATTT
* * * *
34086 ATAATATACA-AATTATAATTAATATAAAAACTAAATTT
1 ATAATATAAAGAATTAGAATTAACATAAAAACCAAATTT
34124 CAAAAAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 25 0.74
39 9 0.26
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (39 bp):
ATAATATAAAGAATTAGAATTAACATAAAAACCAAATTT
Found at i:35078 original size:41 final size:41
Alignment explanation
Indices: 35033--35112 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
35023 AGAGTTGTAA
*
35033 TTTAGTGGCGTTTTT-AAATAAATGACGCAATTGTTTTCTTC
1 TTTAGTGGC-TTTTTGAAATAAACGACGCAATTGTTTTCTTC
* *
35074 TTTAGTGGCTTTTTGTAATAAACGCCGCAATTGTTTTCT
1 TTTAGTGGCTTTTTGAAATAAACGACGCAATTGTTTTCT
35113 CCGTTAGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTAGTGGCTTTTTGAAATAAACGACGCAATTGTTTTCTTC
Found at i:40949 original size:139 final size:139
Alignment explanation
Indices: 40779--41053 Score: 505
Period size: 139 Copynumber: 2.0 Consensus size: 139
40769 AATAGAACAG
40779 TTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAGTTTATCTCTTACTTTGAAACCGTGTAA
1 TTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAGTTTATCTCTTACTTTGAAACCGTGTAA
* * *
40844 CTCTGTTGATTGCCTTAATAAATTATTTCCCTCCCCGTGGATGTAGGTCACTTTGAGTGAACCAC
66 CTCTGTTGATTGCCTTAATAAATTATTTCCCTCCCCGTGAATATAGGTCACTTTGACTGAACCAC
40909 GTAAAATAA
131 GTAAAATAA
*
40918 TTTGTATTAGGTTATTCTAGAGAGATGTTTAAACTCAGTTTATCTCTTACTTTGAAACCGTGTAA
1 TTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAGTTTATCTCTTACTTTGAAACCGTGTAA
*
40983 CTCTGTTGATTGCCTTAATAAATTCTTTCCCTCCCCGTGAATATAGGTCACTTTGACTGAACCAC
66 CTCTGTTGATTGCCTTAATAAATTATTTCCCTCCCCGTGAATATAGGTCACTTTGACTGAACCAC
41048 GTAAAA
131 GTAAAA
41054 CCTTTGGTGT
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 131 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (139 bp):
TTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAGTTTATCTCTTACTTTGAAACCGTGTAA
CTCTGTTGATTGCCTTAATAAATTATTTCCCTCCCCGTGAATATAGGTCACTTTGACTGAACCAC
GTAAAATAA
Found at i:45568 original size:139 final size:139
Alignment explanation
Indices: 45312--45592 Score: 526
Period size: 139 Copynumber: 2.0 Consensus size: 139
45302 GGAGAAATAT
*
45312 AACATTTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAATTTATCTCTTACTTTGAAACCG
1 AACAGTTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAATTTATCTCTTACTTTGAAACCG
*
45377 TGTAACTCTATTGATTGCCTTAATAAATTCTTTCCCTCCCCGTGGATGTAGGTCACTTTGACTGA
66 TGTAACTCTATTGATTGCCTTAATAAATTCTTTCCCTCCCCGTGGATATAGGTCACTTTGACTGA
45442 ACCACGTAA
131 ACCACGTAA
*
45451 AACAGTTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAGTTTATCTCTTACTTTGAAACCG
1 AACAGTTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAATTTATCTCTTACTTTGAAACCG
*
45516 TGTAACTCTATTGATTTCCTTAATAAATTCTTTCCCTCCCCGTGGATATAGGTCACTTTGACTGA
66 TGTAACTCTATTGATTGCCTTAATAAATTCTTTCCCTCCCCGTGGATATAGGTCACTTTGACTGA
45581 ACCACGTAA
131 ACCACGTAA
45590 AAC
1 AAC
45593 CTTTGGTGTT
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 138 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (139 bp):
AACAGTTTGTATTAGGTTATTCTAGAGAGAGGTTTAAACTCAATTTATCTCTTACTTTGAAACCG
TGTAACTCTATTGATTGCCTTAATAAATTCTTTCCCTCCCCGTGGATATAGGTCACTTTGACTGA
ACCACGTAA
Found at i:47436 original size:21 final size:21
Alignment explanation
Indices: 47410--47464 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
47400 GCGAAAGTAG
* *
47410 AGAGAGAAGCAATGGCATCAC
1 AGAGAGAAGCAACGGCAGCAC
*
47431 AGAGAGAAGCAGCGGCAGCAC
1 AGAGAGAAGCAACGGCAGCAC
47452 AGAGAGAAGCAAC
1 AGAGAGAAGCAAC
47465 ATATCAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.33, T:0.04
Consensus pattern (21 bp):
AGAGAGAAGCAACGGCAGCAC
Found at i:47850 original size:44 final size:44
Alignment explanation
Indices: 47799--47927 Score: 152
Period size: 44 Copynumber: 2.9 Consensus size: 44
47789 GTTTGTAACA
* * *
47799 AAAAACGCCACAATATACCATACATTTCGCGGTGTTTGTATCCT
1 AAAAACGCCACTATATACCATACATTTAGCGGCGTTTGTATCCT
* * *
47843 AAAAACGCCACTATACACCATA-ACTTTAACGGCCTTTGTATCCT
1 AAAAACGCCACTATATACCATACA-TTTAGCGGCGTTTGTATCCT
* * * *
47887 AAAAACGTCGCTATATACCATACTTTTAGCGACGTTTGTAT
1 AAAAACGCCACTATATACCATACATTTAGCGGCGTTTGTAT
47928 AAAAAAACAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 69 0.99
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (44 bp):
AAAAACGCCACTATATACCATACATTTAGCGGCGTTTGTATCCT
Found at i:47935 original size:43 final size:43
Alignment explanation
Indices: 47780--47935 Score: 127
Period size: 44 Copynumber: 3.6 Consensus size: 43
47770 TTCTGTGTTA
* * *
47780 TTTAGCGATGTTTGTAAC-AAAAAACGCCACAATATACCATAC
1 TTTAGCGACGTTTGTATCAAAAAAACGCCACTATATACCATAC
* ** ** *
47822 ATTTCGCGGTGTTTGTATCCTAAAAACGCCACTATACACCATAAC
1 -TTTAGCGACGTTTGTATCAAAAAAACGCCACTATATACCAT-AC
* * * ** * *
47867 TTTAACGGCCTTTGTATCCTAAAAACGTCGCTATATACCATAC
1 TTTAGCGACGTTTGTATCAAAAAAACGCCACTATATACCATAC
47910 TTTTAGCGACGTTTGTAT-AAAAAAAC
1 -TTTAGCGACGTTTGTATCAAAAAAAC
47936 ATCGCGAAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 23 0.25
44 67 0.73
45 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (43 bp):
TTTAGCGACGTTTGTATCAAAAAAACGCCACTATATACCATAC
Found at i:48855 original size:2 final size:2
Alignment explanation
Indices: 48848--48898 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
48838 TTTTAATGAT
48848 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
48890 TA TA TA TA T
1 TA TA TA TA T
48899 GAAATCATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49958 original size:60 final size:60
Alignment explanation
Indices: 49861--50009 Score: 208
Period size: 60 Copynumber: 2.5 Consensus size: 60
49851 ATAGAAGATA
* * * * *
49861 CGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAATCAAAATCCCAAACTCGAAT
1 CGAGGTCCAGTTAAAATTCCAAATTCAAAATGGGGTCGAATCAAAATCCCAAACTCGAAT
* * *
49921 CGAGGTCCAGTTAAAATTCTAAATTCAAAATGGGGTCGAATTAAAATCCCAAACTCTAAT
1 CGAGGTCCAGTTAAAATTCCAAATTCAAAATGGGGTCGAATCAAAATCCCAAACTCGAAT
* *
49981 CAAGGTCCAGTTAAAATTCCAAAGTCAAA
1 CGAGGTCCAGTTAAAATTCCAAATTCAAA
50010 TTGTGGTCCA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (60 bp):
CGAGGTCCAGTTAAAATTCCAAATTCAAAATGGGGTCGAATCAAAATCCCAAACTCGAAT
Found at i:49995 original size:30 final size:30
Alignment explanation
Indices: 49861--50021 Score: 110
Period size: 30 Copynumber: 5.4 Consensus size: 30
49851 ATAGAAGATA
* * *
49861 CGAGGTCCAGTCAAAATCCCAAATTCGAA-
1 CGAGGTCCAGTTAAAATCCCAAACTCAAAT
* * * * *
49890 CTGTGGTCGAATCAAAATCCCAAACTCGAAT
1 C-GAGGTCCAGTTAAAATCCCAAACTCAAAT
* * *
49921 CGAGGTCCAGTTAAAATTCTAAATTCAAAAT
1 CGAGGTCCAGTTAAAATCCCAAACTC-AAAT
* * * *
49952 -GGGGTCGAATTAAAATCCCAAACTCTAAT
1 CGAGGTCCAGTTAAAATCCCAAACTCAAAT
* * *
49981 CAAGGTCCAGTTAAAATTCCAAAGTCAAAT
1 CGAGGTCCAGTTAAAATCCCAAACTCAAAT
* *
50011 TGTGGTCCAGT
1 CGAGGTCCAGT
50022 CAATTTCTCA
Statistics
Matches: 99, Mismatches: 29, Indels: 7
0.73 0.21 0.05
Matches are distributed among these distances:
29 4 0.04
30 91 0.92
31 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (30 bp):
CGAGGTCCAGTTAAAATCCCAAACTCAAAT
Found at i:52273 original size:7 final size:8
Alignment explanation
Indices: 52245--52276 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
52235 TGCACTTGCA
52245 TTTGCATC
1 TTTGCATC
52253 TTTGCATC
1 TTTGCATC
52261 TTTGCAT-
1 TTTGCATC
52268 TTTGCATC
1 TTTGCATC
52276 T
1 T
52277 GCATTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.12, C:0.22, G:0.12, T:0.53
Consensus pattern (8 bp):
TTTGCATC
Found at i:52273 original size:15 final size:16
Alignment explanation
Indices: 52245--52276 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
52235 TGCACTTGCA
52245 TTTGCATCTTTGCATC
1 TTTGCATCTTTGCATC
52261 TTTGCAT-TTTGCATC
1 TTTGCATCTTTGCATC
52276 T
1 T
52277 GCATTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.12, C:0.22, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTGCATCTTTGCATC
Found at i:53027 original size:47 final size:47
Alignment explanation
Indices: 52902--53032 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
52892 GTCAGGGATG
* **
52902 ACACTACTCATACTATGATAAGTCTTGGCCATCTAGGAAAGGTGATA
1 ACACTACTCATACTATGATAAGTCTTAGTTATCTAGGAAAGGTGATA
* * * *
52949 ACACTGCTCATACTATGATAAGTCTTCGTTATCTAGTAAGGGTGATA
1 ACACTACTCATACTATGATAAGTCTTAGTTATCTAGGAAAGGTGATA
*
52996 ACACAACTCATACTATGATAAGTCTTAGTTATCTAGG
1 ACACTACTCATACTATGATAAGTCTTAGTTATCTAGG
53033 GTTGACACAG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (47 bp):
ACACTACTCATACTATGATAAGTCTTAGTTATCTAGGAAAGGTGATA
Found at i:53203 original size:126 final size:126
Alignment explanation
Indices: 53033--53367 Score: 485
Period size: 126 Copynumber: 2.7 Consensus size: 126
53023 GTTATCTAGG
* * * *
53033 GTTGACACAGCTCCTACGTGATGAGGATATTTGGTCAGGTGATGACACTGCTCATCTGTTTATGA
1 GTTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGTTTATGA
* * *
53098 GTCTTGGCCATCTAAGGGTGATAACATGATTCCTATGTGATGAGGATGTCTGACTAT-ATGA
66 GTCTTGGCCATCTAAGGGTGATAACATGATTCATACGTGATGAGGATGACTGACTATCA-GA
* * *
53159 GTTGACACAGCTCCTACATAATAAGGAGATCTGCTCAGGTGATGACACTGCTCATCTGTTCATGA
1 GTTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGTTTATGA
* * *
53224 GTCTTGGCCATCTAAGGGTGATAACATGGTTTATACGTGATGAGGATGACTGATTATCAGA
66 GTCTTGGCCATCTAAGGGTGATAACATGATTCATACGTGATGAGGATGACTGACTATCAGA
* * * *
53285 GTTGACACAACTCCTACATAATGAGGAGA-CTTGGTGATGTGATGACACTACTCATCTGTTTATG
1 GTTGACACAGCTCCTACATAATGAGGAGATC-TGGTCAGGTGATGACACTGCTCATCTGTTTATG
53349 AGTCTTGGCCATCTAAGGG
65 AGTCTTGGCCATCTAAGGG
53368 ATTTTAATTT
Statistics
Matches: 187, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 1 0.01
126 185 0.99
127 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (126 bp):
GTTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGTTTATGA
GTCTTGGCCATCTAAGGGTGATAACATGATTCATACGTGATGAGGATGACTGACTATCAGA
Found at i:53503 original size:37 final size:38
Alignment explanation
Indices: 53461--53533 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
53451 TTTTTTTATA
53461 TGTCTCAA-ATGAGACAA-AATTTGTTTTGAAAGAAAAT
1 TGTCTCAAGA-GAGACAATAATTTGTTTTGAAAGAAAAT
* *
53498 TGTCTCAAGAGAGACAATATTTTGTTTTGAGAGAAA
1 TGTCTCAAGAGAGACAATAATTTGTTTTGAAAGAAA
53534 CAACATCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (38 bp):
TGTCTCAAGAGAGACAATAATTTGTTTTGAAAGAAAAT
Found at i:54391 original size:34 final size:32
Alignment explanation
Indices: 54338--54407 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
54328 ACCTTACAAC
*
54338 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
54370 TCCCTAGATTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
54404 TCCC
1 TCCC
54408 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:55978 original size:21 final size:21
Alignment explanation
Indices: 55953--55992 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55943 AAACCATTAA
*
55953 GGGGGAATCGGTACCCCCTTG
1 GGGGGAATCGGTACACCCTTG
*
55974 GGGGGAATCTGTACACCCT
1 GGGGGAATCGGTACACCCT
55993 GGACAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTACACCCTTG
Found at i:59024 original size:35 final size:35
Alignment explanation
Indices: 58978--59047 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
58968 CTTTTGTTTT
58978 CCTTTAGCACAAGCATCACAGATTTTATCATTATC
1 CCTTTAGCACAAGCATCACAGATTTTATCATTATC
59013 CCTTTAGCACAAGCATCACAGATTTTATCATTATC
1 CCTTTAGCACAAGCATCACAGATTTTATCATTATC
59048 AAATTTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (35 bp):
CCTTTAGCACAAGCATCACAGATTTTATCATTATC
Found at i:61194 original size:2 final size:2
Alignment explanation
Indices: 61183--61218 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
61173 AGGGATCAAT
61183 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61219 GTTATTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61734 original size:33 final size:33
Alignment explanation
Indices: 61697--61770 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
61687 TTGTTTAGCA
61697 ATTTAAGTGTTATCATATTCTCAATTGGCCTAT
1 ATTTAAGTGTTATCATATTCTCAATTGGCCTAT
61730 ATTTAAGTGTTATCATATTCTCAATTGGCCTAT
1 ATTTAAGTGTTATCATATTCTCAATTGGCCTAT
61763 ATTTAAGT
1 ATTTAAGT
61771 CCTCACTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (33 bp):
ATTTAAGTGTTATCATATTCTCAATTGGCCTAT
Found at i:62173 original size:47 final size:47
Alignment explanation
Indices: 62097--62216 Score: 177
Period size: 47 Copynumber: 2.6 Consensus size: 47
62087 GTCAGGTATG
* *
62097 ACACTACTCATACTATGATAAGTCTTGGTCATCTAGGAAGGTTGATA
1 ACACAACTCATACTATGATAAGTCTTGGTCATCTAGGAAGGGTGATA
* *
62144 ACACAATTCATACCATGATAAGTCTTGGTCATCTAGGAAGGGTGATA
1 ACACAACTCATACTATGATAAGTCTTGGTCATCTAGGAAGGGTGATA
* **
62191 ATACTGCTCATACTATGATAAGTCTT
1 ACACAACTCATACTATGATAAGTCTT
62217 AGTTATCAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (47 bp):
ACACAACTCATACTATGATAAGTCTTGGTCATCTAGGAAGGGTGATA
Found at i:63038 original size:30 final size:30
Alignment explanation
Indices: 63004--63258 Score: 284
Period size: 30 Copynumber: 8.5 Consensus size: 30
62994 CACGTCCACC
*
63004 CAAAATCCAAAACTCGAAAT-GAGGTCCAAT
1 CAAAATCCCAAACTCG-AATCGAGGTCCAAT
* * *
63034 CAAAATCCCAAATTCGAA-CTGTGGTCGAAT
1 CAAAATCCCAAACTCGAATC-GAGGTCCAAT
* *
63064 CAAAATCCCAAACTCGAATCGAGGTCTAGT
1 CAAAATCCCAAACTCGAATCGAGGTCCAAT
* *
63094 CAAAATCCTAAACTCGAATCGAGGTCCAGT
1 CAAAATCCCAAACTCGAATCGAGGTCCAAT
* * *
63124 CAAAATCCCAAATTCGAA-CTGTGGTCGAAT
1 CAAAATCCCAAACTCGAATC-GAGGTCCAAT
*
63154 CAAAATCCCAAACACGAATCGAGGTCCAAT
1 CAAAATCCCAAACTCGAATCGAGGTCCAAT
* * * *
63184 CAAAATCCCAAATTTGAA-CTGTGGTCGAAT
1 CAAAATCCCAAACTCGAATC-GAGGTCCAAT
* *
63214 CAAAATCCCAAACTTGAATCGAGGTCCAGT
1 CAAAATCCCAAACTCGAATCGAGGTCCAAT
63244 CAAAATCCCAAACTC
1 CAAAATCCCAAACTC
63259 AAACTATGGT
Statistics
Matches: 189, Mismatches: 29, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
29 4 0.02
30 182 0.96
31 3 0.02
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (30 bp):
CAAAATCCCAAACTCGAATCGAGGTCCAAT
Found at i:63118 original size:90 final size:90
Alignment explanation
Indices: 63004--63276 Score: 331
Period size: 90 Copynumber: 3.0 Consensus size: 90
62994 CACGTCCACC
63004 CAAAATCCAAAACTCGAAAT-GAGGTCCAATCAAAATCCCAAATTCGAACTGTGGTCGAATCAAA
1 CAAAATCCAAAACTCG-AATCGAGGTCCAATCAAAATCCCAAATTCGAACTGTGGTCGAATCAAA
63068 ATCCCAAACTCGAATCGAGGTCTAGT
65 ATCCCAAACTCGAATCGAGGTCTAGT
* *
63094 CAAAATCCTAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAATCAAAA
1 CAAAATCCAAAACTCGAATCGAGGTCCAATCAAAATCCCAAATTCGAACTGTGGTCGAATCAAAA
* * *
63159 TCCCAAACACGAATCGAGGTCCAAT
66 TCCCAAACTCGAATCGAGGTCTAGT
* * * * * * * *
63184 CAAAATCCCAAATTTGAA-CTGTGGTCGAATCAAAATCCCAAACTT-GAA-TCGAGGTCCAGTCA
1 CAAAATCCAAAACTCGAATC-GAGGTCCAATCAAAATCCCAAA-TTCGAACT-GTGGTCGAATCA
* *
63246 AAATCCCAAACTC-AAACTATGGTCTAGT
63 AAATCCCAAACTCGAATCGA-GGTCTAGT
63274 CAA
1 CAA
63277 TTTCTCAAAG
Statistics
Matches: 159, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
89 9 0.06
90 148 0.93
91 2 0.01
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (90 bp):
CAAAATCCAAAACTCGAATCGAGGTCCAATCAAAATCCCAAATTCGAACTGTGGTCGAATCAAAA
TCCCAAACTCGAATCGAGGTCTAGT
Found at i:66378 original size:126 final size:125
Alignment explanation
Indices: 66094--66552 Score: 507
Period size: 126 Copynumber: 3.6 Consensus size: 125
66084 CGTCTAAGGT
** * * * *
66094 TTGACACAGCTCCTATGTGATTAGGAGATCTGGTCAGG-GATGACACTGCTCATACT-ATTATAA
1 TTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCAT-CTGATCATGA
*** * * * * * * *
66157 GTCTTGGCCATCTAGGAAGGGTGATAACACTACTCATAC-T-ATGA-TAAGTCTTAGTTATCTAG
65 GTCTT-GCCATCT---AAGGGTGATAACACGGTTCCTACGTGAAGAGGACGACTGA-CTATCT-G
*
66219 GG
124 AG
* * *
66221 TTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGATCATGAG
1 TTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGATCATGAG
* *
66286 TCTTAGCCATCTAAGGGTGATAACACGGTTTCTACGTGAAGAGGACGACTGGCTATCTGAG
66 TCTT-GCCATCTAAGGGTGATAACACGGTTCCTACGTGAAGAGGACGACTGACTATCTGAG
* *
66347 TTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTACTCATCTGTTCATGAG
1 TTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGATCATGAG
* * * *
66412 TCTTGCCCATCTAAGGGTGATAACACGGTTCCTATGTGATGAGGATGACTGATTATCTGAG
66 TCTTG-CCATCTAAGGGTGATAACACGGTTCCTACGTGAAGAGGACGACTGACTATCTGAG
* *
66473 TTGACAAAGCTCCTACAAAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCT-ATTCATGA
1 TTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGA-TCATGA
66537 GTCTTGGCCATCTAAG
65 GTCTT-GCCATCTAAG
66553 AGATTTTGAT
Statistics
Matches: 290, Mismatches: 34, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
125 19 0.07
126 189 0.65
127 46 0.16
128 36 0.12
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (125 bp):
TTGACACAGCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGATCATGAG
TCTTGCCATCTAAGGGTGATAACACGGTTCCTACGTGAAGAGGACGACTGACTATCTGAG
Found at i:66698 original size:37 final size:38
Alignment explanation
Indices: 66648--66720 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
66638 TTTTTTTATA
66648 TGTCTCAAATGAGACAA-AATTTGTTTTGAAAGAAAAT
1 TGTCTCAAATGAGACAACAATTTGTTTTGAAAGAAAAT
* * *
66685 TGTCTCAAGTGAGACAACATTTTGTTTTGAGAGAAA
1 TGTCTCAAATGAGACAACAATTTGTTTTGAAAGAAA
66721 CAAGCTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 16 0.50
38 16 0.50
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (38 bp):
TGTCTCAAATGAGACAACAATTTGTTTTGAAAGAAAAT
Found at i:66729 original size:37 final size:37
Alignment explanation
Indices: 66649--66720 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
66639 TTTTTTATAT
*
66649 GTCTCAAATGAGACAAAATTTGTTTTGAAAGAAAATT
1 GTCTCAAATGAGACAAAATTTGTTTTGAAAGAAAATA
* * *
66686 GTCTCAAGTGAGACAACATTTTGTTTTGAGAGAAA
1 GTCTCAAATGAGACAA-AATTTGTTTTGAAAGAAA
66721 CAAGCTCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (37 bp):
GTCTCAAATGAGACAAAATTTGTTTTGAAAGAAAATA
Found at i:66849 original size:32 final size:32
Alignment explanation
Indices: 66801--66863 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
66791 TTTGCATCAA
66801 GATGTTAAATCCCCAAAGATACCCCAATATTC
1 GATGTTAAATCCCCAAAGATACCCCAATATTC
* * *
66833 GATGTTGAATCTCCAAAGATGCCCCAATATT
1 GATGTTAAATCCCCAAAGATACCCCAATATT
66864 TGTTATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (32 bp):
GATGTTAAATCCCCAAAGATACCCCAATATTC
Found at i:66873 original size:32 final size:32
Alignment explanation
Indices: 66808--66889 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
66798 CAAGATGTTA
* * *
66808 AATCCCCAAAGATACCCCAATATTCGATGTTG
1 AATCTCCAAAGATGCCCCAATATTCGATATTG
* *
66840 AATCTCCAAAGATGCCCCAATATTTGTTATTG
1 AATCTCCAAAGATGCCCCAATATTCGATATTG
**
66872 AATCTTTAAAGATGCCCC
1 AATCTCCAAAGATGCCCC
66890 CATTGTTCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (32 bp):
AATCTCCAAAGATGCCCCAATATTCGATATTG
Found at i:67971 original size:24 final size:22
Alignment explanation
Indices: 67943--67993 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
67933 TGTCCCTTTT
*
67943 TCTTTGTTTATTTTCTTTTTTTGC
1 TCTTTGCTTATTTTC--TTTTTGC
*
67967 TCTTTGCTTCTTTTCTTTTTGC
1 TCTTTGCTTATTTTCTTTTTGC
67989 TCTTT
1 TCTTT
67994 CTTTGCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.48
24 13 0.52
ACGTcount: A:0.02, C:0.18, G:0.08, T:0.73
Consensus pattern (22 bp):
TCTTTGCTTATTTTCTTTTTGC
Found at i:68156 original size:18 final size:19
Alignment explanation
Indices: 68114--68156 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
68104 TAGATTTTAG
* *
68114 AATTTAATTCTTAATTTTT
1 AATTTAAGTCTTAATTTTC
68133 AA-TTAAGTCTTAA-TTTC
1 AATTTAAGTCTTAATTTTC
68150 AATTTAA
1 AATTTAA
68157 TTTAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (19 bp):
AATTTAAGTCTTAATTTTC
Found at i:68816 original size:20 final size:20
Alignment explanation
Indices: 68791--68861 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
68781 TTTTTTAATT
68791 TAAATAAATATAATCATTGA
1 TAAATAAATATAATCATTGA
68811 TAAATAAATATAATTTCA-T-A
1 TAAATAAATATAA--TCATTGA
* * * *
68831 TATATATATAAAATCATCGA
1 TAAATAAATATAATCATTGA
68851 TAAATAAATAT
1 TAAATAAATAT
68862 GAAATAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
20 33 0.82
21 1 0.03
22 3 0.08
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.37
Consensus pattern (20 bp):
TAAATAAATATAATCATTGA
Found at i:69271 original size:76 final size:76
Alignment explanation
Indices: 69189--69337 Score: 178
Period size: 76 Copynumber: 2.0 Consensus size: 76
69179 TAAACTCAAG
* *
69189 TTTAGGATAATATTTTAAACAATATAT-TTT-TTCCTT-TGTATTTTAGTTTAAATAGGTTTTAG
1 TTTAGGAT-ATATTTTAAACAATATATCTTTGTT--TTAGGTATTTTAGTTTAAATAAGTTTTAG
69251 TATTTTAATTAAAT
63 TATTTTAATTAAAT
* ** * * *
69265 TTTAGGATATTTTTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTAT
1 TTTAGGATATATTTTAAACAATATATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTAT
69330 TTTAATTA
66 TTTAATTA
69338 GGATTTAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
75 14 0.23
76 46 0.74
77 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (76 bp):
TTTAGGATATATTTTAAACAATATATCTTTGTTTTAGGTATTTTAGTTTAAATAAGTTTTAGTAT
TTTAATTAAAT
Found at i:70086 original size:8 final size:7
Alignment explanation
Indices: 70043--70120 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
70033 AAAAACCCCA
70043 TTTTATT
1 TTTTATT
70050 TTTTATT
1 TTTTATT
*
70057 TTTAATT
1 TTTTATT
**
70064 CATTATT
1 TTTTATT
*
70071 TATTATT
1 TTTTATT
70078 TTGTTATT
1 TT-TTATT
*
70086 TTTTCTT
1 TTTTATT
70093 TTTTATT
1 TTTTATT
* *
70100 TATAATT
1 TTTTATT
*
70107 ATTTATT
1 TTTTATT
70114 TTATTAT
1 TT-TTAT
70121 ATCTTTTCAA
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
7 44 0.80
8 11 0.20
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (7 bp):
TTTTATT
Found at i:70113 original size:36 final size:36
Alignment explanation
Indices: 70045--70120 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
70035 AAACCCCATT
* *
70045 TTATTTTTTATTTTTAATTCATTATTTATTATTTTG
1 TTATTTTTTATTTTTAATTCATAATTTATTATTTTA
* * *
70081 TTATTTTTTCTTTTTTATTTATAA-TTATTTATTTTA
1 TTATTTTTTATTTTTAATTCATAATTTA-TTATTTTA
70117 TTAT
1 TTAT
70121 ATCTTTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (36 bp):
TTATTTTTTATTTTTAATTCATAATTTATTATTTTA
Found at i:74042 original size:19 final size:19
Alignment explanation
Indices: 74020--74095 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
74010 GTTTAAATAG
74020 GTTTTAGTATTTTAATTAA
1 GTTTTAGTATTTTAATTAA
* ** *
74039 GTTTTATTATCTTTGTTTTAG
1 GTTTTAGTAT-TTT-AATTAA
* *
74060 GTATTT--TAGTTTAAATAA
1 GT-TTTAGTATTTTAATTAA
74078 GTTTTAGTATTTTAATTA
1 GTTTTAGTATTTTAATTA
74096 GGATTTAGAA
Statistics
Matches: 41, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.10
19 21 0.51
20 5 0.12
21 5 0.12
22 3 0.07
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (19 bp):
GTTTTAGTATTTTAATTAA
Found at i:74134 original size:59 final size:58
Alignment explanation
Indices: 74002--74161 Score: 223
Period size: 58 Copynumber: 2.7 Consensus size: 58
73992 TTTTATCTTT
* * * ** *
74002 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTATTATCTTTGTTTTAG
1 GTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAGGATTTAGAATATTTGTTTTAG
*
74060 GTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTTTAG
1 GTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAGGATTTAGAATATT-TGTTTTAG
*
74119 GTATTTTAGTTTAAAT-AGTTTTAAGTGTTTTAATTAGGATTTA
1 GTATTTTAGTTTAAATAAGTTTT-AGTATTTTAATTAGGATTTA
74162 AGATGTTTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
58 50 0.54
59 42 0.46
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (58 bp):
GTATTTTAGTTTAAATAAGTTTTAGTATTTTAATTAGGATTTAGAATATTTGTTTTAG
Found at i:74802 original size:18 final size:18
Alignment explanation
Indices: 74778--74855 Score: 74
Period size: 19 Copynumber: 4.4 Consensus size: 18
74768 AAAAACCCCT
74778 TTTTATTTTTAATTCATTA
1 TTTTATTTTTAATT-ATTA
*
74797 -TTTATTATTTTATTATTA
1 TTTTATT-TTTAATTATTA
*
74815 TTTTATTTTT--TCATT-
1 TTTTATTTTTAATTATTA
*
74830 TTTTATTTATAATTATTTA
1 TTTTATTTTTAATTA-TTA
74849 TTTTATT
1 TTTTATT
74856 ATACATTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 2 0.04
18 15 0.31
19 19 0.39
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATTTTTAATTATTA
Found at i:74810 original size:8 final size:8
Alignment explanation
Indices: 74793--74857 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
74783 TTTTTAATTC
74793 ATTA-TTT
1 ATTATTTT
74800 ATTATTTT
1 ATTATTTT
74808 ATTATTATT
1 ATTATT-TT
74817 -TTATTTT
1 ATTATTTT
74824 -TTCATTTT
1 ATT-ATTTT
74832 -TTA-TTT
1 ATTATTTT
* *
74838 ATAATTAT
1 ATTATTTT
74846 -TTATTTT
1 ATTATTTT
74853 ATTAT
1 ATTAT
74858 ACATTTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
6 3 0.06
7 16 0.33
8 27 0.56
9 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTATTTT
Found at i:74833 original size:26 final size:25
Alignment explanation
Indices: 74777--74836 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
74767 TAAAAACCCC
*
74777 TTTTTATTTTTAATTCATTATTTAT
1 TTTTTATTATTAATTCATTATTTAT
* * *
74802 TATTTTATTATTATTTTATTTTTTCAT
1 T-TTTTATTATTAATTCATTATTT-AT
74829 TTTTTATT
1 TTTTTATT
74837 TATAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 25 0.86
27 3 0.10
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTATTATTAATTCATTATTTAT
Found at i:74835 original size:34 final size:34
Alignment explanation
Indices: 74790--74855 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
74780 TTATTTTTAA
*
74790 TTCATTATTTA-TTAT-TTTATTATTATTTTATTTT
1 TTCATTATTTATTTATAATTA-T-TTATTTTATTTT
*
74824 TTCATTTTTTATTTATAATTATTTATTTTATT
1 TTCATTATTTATTTATAATTATTTATTTTATT
74856 ATACATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 20 0.71
35 5 0.18
36 3 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (34 bp):
TTCATTATTTATTTATAATTATTTATTTTATTTT
Found at i:76159 original size:30 final size:30
Alignment explanation
Indices: 76096--76436 Score: 325
Period size: 30 Copynumber: 11.4 Consensus size: 30
76086 GTCGAACTAT
* *
76096 GGTCCAATCAATATCCCAAAGC-C-AAACCCA
1 GGTCCAATCAAAATCCCAAA-CTCGAAA-CGA
*
76126 GGTCCACTCAAAATCCCAAACTCGAAACGA
1 GGTCCAATCAAAATCCCAAACTCGAAACGA
* * * * *
76156 GGTCTAGTCAAAATCCTAAATTCG-AACTGT
1 GGTCCAATCAAAATCCCAAACTCGAAAC-GA
* *
76186 GGTCGAATCAAAATCCCAAACTCGAATCGA
1 GGTCCAATCAAAATCCCAAACTCGAAACGA
* * * * *
76216 GGTCCAGTCAAAATACCAAATTTG-AACTGT
1 GGTCCAATCAAAATCCCAAACTCGAAAC-GA
* *
76246 GGTCGAATCAAAATCCCAAACTCGAATCGA
1 GGTCCAATCAAAATCCCAAACTCGAAACGA
*
76276 GGTCCAATCAAAATCCCAAACTC-AAACTGT
1 GGTCCAATCAAAATCCCAAACTCGAAAC-GA
* *
76306 GGTCAAATCAAAATCCCAAACTCGAATCGA
1 GGTCCAATCAAAATCCCAAACTCGAAACGA
* *
76336 GGTCCAGTCAAAATCCCAAACTCG-AACTGT
1 GGTCCAATCAAAATCCCAAACTCGAAAC-GA
* * *
76366 GGTCGAATCAAAATCCCAAACTCGAATCCA
1 GGTCCAATCAAAATCCCAAACTCGAAACGA
** *
76396 GGTCCTGTCAAAATCCCAAACTCGAATCGA
1 GGTCCAATCAAAATCCCAAACTCGAAACGA
*
76426 GGTCCAGTCAA
1 GGTCCAATCAA
76437 TTTCTCAAAG
Statistics
Matches: 253, Mismatches: 48, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
29 11 0.04
30 230 0.91
31 12 0.05
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (30 bp):
GGTCCAATCAAAATCCCAAACTCGAAACGA
Found at i:76206 original size:60 final size:60
Alignment explanation
Indices: 76133--76421 Score: 470
Period size: 60 Copynumber: 4.8 Consensus size: 60
76123 CCAGGTCCAC
* * * *
76133 TCAAAATCCCAAACTCGAAACGAGGTCTAGTCAAAATCCTAAATTCGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
* * *
76193 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATACCAAATTTGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
* * *
76253 TCAAAATCCCAAACTCGAATCGAGGTCCAATCAAAATCCCAAACTCAAACTGTGGTCAAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
76313 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
* *
76373 TCAAAATCCCAAACTCGAATCCAGGTCCTGTCAAAATCCCAAACTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAA
76422 TCGAGGTCCA
Statistics
Matches: 213, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 213 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (60 bp):
TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
Found at i:80222 original size:18 final size:19
Alignment explanation
Indices: 80170--80238 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
80160 TTTTTTAATT
80170 TAAATATAATCATTGATAAA
1 TAAATATAATCA-TGATAAA
*
80190 TAAATATAATTTCAT-ATATA
1 TAAATATAA--TCATGATAAA
* *
80210 TATATATAATCATCAATAAA
1 TAAATATAATCAT-GATAAA
80230 TAAATATAA
1 TAAATATAA
80239 AATAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.10
20 33 0.80
21 1 0.02
22 3 0.07
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAATATAATCATGATAAA
Found at i:81498 original size:30 final size:30
Alignment explanation
Indices: 81464--81638 Score: 201
Period size: 30 Copynumber: 5.8 Consensus size: 30
81454 AAGTCCACTT
*
81464 AAAATCCCAAATTCGAACTGTGGTCGAATC
1 AAAATCCCAAACTCGAACTGTGGTCGAATC
* * * * *
81494 AAAATCTCATACTCAAAATGTGGTCCAATC
1 AAAATCCCAAACTCGAACTGTGGTCGAATC
* *
81524 AAAATCCCAAATTCAAACTGTGGTCGAATC
1 AAAATCCCAAACTCGAACTGTGGTCGAATC
* * *
81554 AAAATCCCAAAATCGAATTATGGTCGAATC
1 AAAATCCCAAACTCGAACTGTGGTCGAATC
*
81584 AAAATCCCAAACTCGAA-TCGAGGTAC-AATC
1 AAAATCCCAAACTCGAACT-GTGGT-CGAATC
*
81614 AAAATCCCAAACTCGAACTGCGGTC
1 AAAATCCCAAACTCGAACTGTGGTC
81639 CAGTCAATTT
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
29 2 0.02
30 119 0.97
31 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.22
Consensus pattern (30 bp):
AAAATCCCAAACTCGAACTGTGGTCGAATC
Found at i:81578 original size:90 final size:90
Alignment explanation
Indices: 81464--81638 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 90
81454 AAGTCCACTT
* * * * * *
81464 AAAATCCCAAATTCGAACTGTGGTCGAATCAAAATCTCATACTCAAAAT-GTGGTCCAATCAAAA
1 AAAATCCCAAAATCGAACTATGGTCGAATCAAAATCCCAAACTC-AAATCGAGGTACAATCAAAA
* *
81528 TCCCAAATTCAAACTGTGGTCGAATC
65 TCCCAAACTCAAACTGCGGTCGAATC
* *
81554 AAAATCCCAAAATCGAATTATGGTCGAATCAAAATCCCAAACTCGAATCGAGGTACAATCAAAAT
1 AAAATCCCAAAATCGAACTATGGTCGAATCAAAATCCCAAACTCAAATCGAGGTACAATCAAAAT
*
81619 CCCAAACTCGAACTGCGGTC
66 CCCAAACTCAAACTGCGGTC
81639 CAGTCAATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 3 0.04
90 70 0.96
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.22
Consensus pattern (90 bp):
AAAATCCCAAAATCGAACTATGGTCGAATCAAAATCCCAAACTCAAATCGAGGTACAATCAAAAT
CCCAAACTCAAACTGCGGTCGAATC
Found at i:81808 original size:3 final size:3
Alignment explanation
Indices: 81800--81824 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
81790 ATTGTGGGAC
81800 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
81825 TGGATGTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:85744 original size:68 final size:68
Alignment explanation
Indices: 85638--85839 Score: 314
Period size: 68 Copynumber: 3.0 Consensus size: 68
85628 CCGATTAGGG
** * * *
85638 ATTATTTTAGGGTAAACTATTTATTTGGTTACTTATATATTATCTAATTTATATTTTGGCCACTC
1 ATTA-TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTC
85703 GATT
65 GATT
* *
85707 ATTATTTAGGGTAAACTACCTATTTGATCACTTATATATTATCTAATTTATGTTTTGGTCACCCG
1 ATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCG
85772 ATT
66 ATT
* *
85775 ATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATAATTTAATTTATGTTTTGGTCACTCG
1 ATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCG
85840 TTTTTTTTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 118 0.97
69 4 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (68 bp):
ATTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCG
ATT
Found at i:85979 original size:32 final size:33
Alignment explanation
Indices: 85926--85990 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
85916 TGCTAACATG
*
85926 ACATTTTTTAAATTATATTTGGATGTTGGACTA
1 ACATTTTTTAAATAATATTTGGATGTTGGACTA
*
85959 ACATTTTTT-AATAATGTTTGGATGTTGGACTA
1 ACATTTTTTAAATAATATTTGGATGTTGGACTA
85991 TGTAATTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (33 bp):
ACATTTTTTAAATAATATTTGGATGTTGGACTA
Found at i:87260 original size:26 final size:26
Alignment explanation
Indices: 87224--87287 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
87214 ATAATTAATG
87224 GAAGGGAAAACCATCAACACGGACGA
1 GAAGGGAAAACCATCAACACGGACGA
87250 GAAGGGAAAACCATCAACACGGACGA
1 GAAGGGAAAACCATCAACACGGACGA
87276 GAAGGGAAAACC
1 GAAGGGAAAACC
87288 TTGGAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.47, C:0.22, G:0.28, T:0.03
Consensus pattern (26 bp):
GAAGGGAAAACCATCAACACGGACGA
Found at i:88147 original size:16 final size:16
Alignment explanation
Indices: 88126--88164 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
88116 TTTCGGGTAT
88126 CCGGTTACCCGAGTAC
1 CCGGTTACCCGAGTAC
88142 CCGGTTACCCGAGTAC
1 CCGGTTACCCGAGTAC
88158 CCGGTTA
1 CCGGTTA
88165 ATTTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.21
Consensus pattern (16 bp):
CCGGTTACCCGAGTAC
Found at i:88856 original size:60 final size:60
Alignment explanation
Indices: 88751--89037 Score: 461
Period size: 60 Copynumber: 4.8 Consensus size: 60
88741 CCAGGTCCAC
* * *
88751 TCAAAATCCC-AATTCGAAACGAGGTCCAGTC-AAATCCCAAGTTCGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
* *
88809 TCAAAATCCCAAACTCGTATTGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
88869 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
* *
88929 TCAAAATCCCAAACTCGAATCGATGTCCAGTCAAAATCCCAAACTCGAACTGTGGTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
* * * *
88989 TCAAAATCCCAAACTCGAATCCAAGTCCCGTCAAAATCCCAAACTCGAA
1 TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAA
89038 TCGAGGTCCA
Statistics
Matches: 215, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
58 10 0.05
59 17 0.08
60 188 0.87
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (60 bp):
TCAAAATCCCAAACTCGAATCGAGGTCCAGTCAAAATCCCAAATTCGAACTGTGGTCGAA
Found at i:89023 original size:30 final size:30
Alignment explanation
Indices: 88743--89052 Score: 317
Period size: 30 Copynumber: 10.4 Consensus size: 30
88733 AGCCAAACCC
* * *
88743 AGGTCCACTCAAAATCCC-AATTCGAAACG
1 AGGTCCAGTCAAAATCCCAAACTCGAATCG
**
88772 AGGTCCAGTC-AAATCCCAAGTTCGAA-CTG
1 AGGTCCAGTCAAAATCCCAAACTCGAATC-G
* * * * *
88801 TGGTCGAATCAAAATCCCAAACTCGTATTG
1 AGGTCCAGTCAAAATCCCAAACTCGAATCG
*
88831 AGGTCCAGTCAAAATCCCAAATTCGAA-CTG
1 AGGTCCAGTCAAAATCCCAAACTCGAATC-G
* * *
88861 TGGTCGAATCAAAATCCCAAACTCGAATCG
1 AGGTCCAGTCAAAATCCCAAACTCGAATCG
*
88891 AGGTCCAGTCAAAATCCCAAATTCGAA-CTG
1 AGGTCCAGTCAAAATCCCAAACTCGAATC-G
* * *
88921 TGGTCGAATCAAAATCCCAAACTCGAATCG
1 AGGTCCAGTCAAAATCCCAAACTCGAATCG
*
88951 ATGTCCAGTCAAAATCCCAAACTCGAA-CTG
1 AGGTCCAGTCAAAATCCCAAACTCGAATC-G
* * * *
88981 TGGTCGAATCAAAATCCCAAACTCGAATCC
1 AGGTCCAGTCAAAATCCCAAACTCGAATCG
* *
89011 AAGTCCCGTCAAAATCCCAAACTCGAATCG
1 AGGTCCAGTCAAAATCCCAAACTCGAATCG
89041 AGGTCCAGTCAA
1 AGGTCCAGTCAA
89053 TTTCTCAAAG
Statistics
Matches: 227, Mismatches: 44, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
28 8 0.04
29 26 0.11
30 190 0.84
31 3 0.01
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (30 bp):
AGGTCCAGTCAAAATCCCAAACTCGAATCG
Found at i:90314 original size:2 final size:2
Alignment explanation
Indices: 90307--90347 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
90297 ATTTAGGATC
90307 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
90348 GATAAAAAAT
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:91933 original size:30 final size:29
Alignment explanation
Indices: 91887--92016 Score: 100
Period size: 30 Copynumber: 4.4 Consensus size: 29
91877 GTCGAACTAT
*
91887 GGTCCAATCAATATCCCAAATCCAAACCCA
1 GGTCCAATCAAAATCCCAAATCCAAA-CCA
* * *
91917 GGTCCACTCAAAATCCCAAACTCGAAACGA
1 GGTCCAATCAAAATCCCAAA-TCCAAACCA
* * * **
91947 GGTCTAGTCAAAATCCCAAATTCAAA-TT
1 GGTCCAATCAAAATCCCAAATCCAAACCA
* * * *
91975 GTGTCAAATCAAAATCCCAAACTCGAATCGA
1 G-GTCCAATCAAAATCCCAAA-TCCAAACCA
92006 GGTCCAATCAA
1 GGTCCAATCAA
92017 TTTCTCAAAG
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 21 0.27
30 50 0.64
31 6 0.08
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (29 bp):
GGTCCAATCAAAATCCCAAATCCAAACCA
Found at i:96653 original size:13 final size:13
Alignment explanation
Indices: 96635--96662 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
96625 AATACATATG
96635 TACACAGTCGAGT
1 TACACAGTCGAGT
96648 TACACAGTCGAGT
1 TACACAGTCGAGT
96661 TA
1 TA
96663 GAGTTGCAGT
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:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (13 bp):
TACACAGTCGAGT
Found at i:99399 original size:197 final size:198
Alignment explanation
Indices: 98864--99419 Score: 628
Period size: 197 Copynumber: 2.8 Consensus size: 198
98854 TCGATCCTTC
*
98864 AAAA-GTCTAACGTTTTAACTTAGGTTGCTTTCAATTTTAAAAAATGGAGGGCAAAGAGAAATAT
1 AAAATGTCTAACGTTTTAACTTAGGTTGCTTTCAATTATAAAAAATGGAGGGCAAAGAGAAATA-
* * **
98928 TACCATGCAAAGATATTCACTAAAAAAAAATAAGGGATTAATCTCAATCTTTGATTTCTTTCATT
65 TACCATGTAAAGATATTCACT--GAAAAAATAAGGGATTAATCTCAATCTTTGA-TTCCCTCA-T
* * * *
98993 CAACAATCATATGTAAAATTATTAGTTTTATACTAAGTGTTATTGGATAATCTCTCTTCCCCTCT
126 CAACAATCATATGTAAAATT-TTAGTTTTACACTAAGCGTAATTAGATAATCTCTCTTCCCCTCT
*
99058 CTTTCTAAA
190 CTCTCTAAA
* * * * * *
99067 AAAATGTCTAACATTCTAACTTAGGTTGCTTTCAATTCTGAAAAATAGAGGGTAAAGAGAAAT-T
1 AAAATGTCTAACGTTTTAACTTAGGTTGCTTTCAATTATAAAAAATGGAGGGCAAAGAGAAATAT
* * *
99131 ACCATGTAAAGATATTCACTGAAAATATAAGGGATTAATCTCAATCTTAGATTTCCTCATCAATC
66 ACCATGTAAAGATATTCACTGAAAAAATAAGGGATTAATCTCAATCTTTGATTCCCTCATCAA-C
* ** *
99196 -ATCATATGTAAAATTGTTAGTTTTACACT-AGACGTAATTAGATCAT-TACTCTAT-TTCTTTC
130 AATCATATGTAAAATT-TTAGTTTTACACTAAG-CGTAATTAGATAATCT-CTCT-TCCCCTCTC
99257 TCTCT-AA
191 TCTCTAAA
* *
99264 AAAATGTCTAACGTTTTAAC-TAGGTTGCTTTCAATTAT-AAAAATGGAGGACAAAGAAAAATAA
1 AAAATGTCTAACGTTTTAACTTAGGTTGCTTTCAATTATAAAAAATGGAGGGCAAAGAGAAAT-A
* * * * * *
99327 TATCATGTGAAGATATTTACTGAAAAAATAA-AGATTAATCTCATTATTTGATTCCCTCATCCAA
65 TACCATGTAAAGATATTCACTGAAAAAATAAGGGATTAATCTCAATCTTTGATTCCCTCAT-CAA
*
99391 CAATCATATTTAAAACTTTTAGTTTTACA
129 CAATCATATGTAAAA-TTTTAGTTTTACA
99420 TTATGTGTAA
Statistics
Matches: 303, Mismatches: 40, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
195 19 0.06
196 42 0.14
197 76 0.25
198 55 0.18
199 7 0.02
200 28 0.09
202 20 0.07
203 4 0.01
204 52 0.17
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (198 bp):
AAAATGTCTAACGTTTTAACTTAGGTTGCTTTCAATTATAAAAAATGGAGGGCAAAGAGAAATAT
ACCATGTAAAGATATTCACTGAAAAAATAAGGGATTAATCTCAATCTTTGATTCCCTCATCAACA
ATCATATGTAAAATTTTAGTTTTACACTAAGCGTAATTAGATAATCTCTCTTCCCCTCTCTCTCT
AAA
Found at i:99735 original size:29 final size:29
Alignment explanation
Indices: 99689--99772 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
99679 CATAAATTAT
** *
99689 ATCATCATTTTGATTGATGTGACATATAC
1 ATCATCATTTTGGGTGATATGACATATAC
*
99718 ATCATCATTTTGGGTGATATCATACATATAC
1 ATCATCATTTTGGGTGATAT--GACATATAC
* * *
99749 ATCATCGTTTTAGGTGATTTGACA
1 ATCATCATTTTGGGTGATATGACA
99773 CATATTACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 20 0.44
31 25 0.56
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (29 bp):
ATCATCATTTTGGGTGATATGACATATAC
Found at i:99748 original size:31 final size:31
Alignment explanation
Indices: 99710--99785 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
99700 GATTGATGTG
* *
99710 ACATATACATCATCATTTTGGGTGATATCAT
1 ACATATACATCATCATTTTAGGTGATATCAC
* * *
99741 ACATATACATCATCGTTTTAGGTGATTTGAC
1 ACATATACATCATCATTTTAGGTGATATCAC
99772 ACATATTACATCAT
1 ACATA-TACATCAT
99786 TAATGTGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 31 0.79
32 8 0.21
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (31 bp):
ACATATACATCATCATTTTAGGTGATATCAC
Found at i:100039 original size:19 final size:19
Alignment explanation
Indices: 100011--100048 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
100001 CTCTCTCTCT
100011 CTCCACATATATATATATA
1 CTCCACATATATATATATA
*
100030 CTCCATATATATATATATA
1 CTCCACATATATATATATA
100049 TATAATGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCCACATATATATATATA
Found at i:102627 original size:1 final size:1
Alignment explanation
Indices: 102621--102646 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
102611 CATTCAGAGG
102621 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
102647 ACAACTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.