Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000114.1 Hibiscus syriacus cultivar Beakdansim tig00000205_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: 799156
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:645977 original size:21 final size:23
Alignment explanation
Indices: 645937--645980 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
645927 AATCTTCCAA
645937 TTGAAAATATAAAATAGAATATT
1 TTGAAAATATAAAATAGAATATT
*
645960 TTGAAAAT-T-AAATGGAATATT
1 TTGAAAATATAAAATAGAATATT
645981 ATACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.36
Consensus pattern (23 bp):
TTGAAAATATAAAATAGAATATT
Found at i:647052 original size:24 final size:24
Alignment explanation
Indices: 647024--647099 Score: 134
Period size: 24 Copynumber: 3.2 Consensus size: 24
647014 TGGAAATAGA
*
647024 GTTAGGGATTTCAATTAAGGAGAG
1 GTTAGGGATTTCAATTAAGGGGAG
*
647048 GTTAGGGATTTTAATTAAGGGGAG
1 GTTAGGGATTTCAATTAAGGGGAG
647072 GTTAGGGATTTCAATTAAGGGGAG
1 GTTAGGGATTTCAATTAAGGGGAG
647096 GTTA
1 GTTA
647100 AAGACAACTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.30, C:0.03, G:0.36, T:0.32
Consensus pattern (24 bp):
GTTAGGGATTTCAATTAAGGGGAG
Found at i:650564 original size:24 final size:24
Alignment explanation
Indices: 650535--650583 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
650525 TTGGAAATAG
*
650535 GGTTAGGGATTTTAATTAAGGGGA
1 GGTTAGGGATTTCAATTAAGGGGA
650559 GGTTAGGGATTTCAATTAAGGGGA
1 GGTTAGGGATTTCAATTAAGGGGA
650583 G
1 G
650584 CGGTACTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.39, T:0.31
Consensus pattern (24 bp):
GGTTAGGGATTTCAATTAAGGGGA
Found at i:652588 original size:20 final size:20
Alignment explanation
Indices: 652529--652634 Score: 65
Period size: 20 Copynumber: 5.2 Consensus size: 20
652519 GTATTTACCT
*
652529 CAAGCCTCTGGTATGGATAC
1 CAAGCCTCTAGTATGGATAC
* * *
652549 TGAA-CCTTTCAGTTTGGATAC
1 -CAAGCCTCT-AGTATGGATAC
652570 CAAGCCTCTAGTATGGATA-
1 CAAGCCTCTAGTATGGATAC
** *
652589 CGTGCCTTCTGGTATGGATAC
1 CAAGCC-TCTAGTATGGATAC
* * *
652610 CAA-CTTTCTAGTATCGAAAC
1 CAAGC-CTCTAGTATGGATAC
652630 CAAGC
1 CAAGC
652635 ATCCGATATC
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 4 0.06
20 42 0.67
21 17 0.27
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (20 bp):
CAAGCCTCTAGTATGGATAC
Found at i:653429 original size:23 final size:23
Alignment explanation
Indices: 653393--653526 Score: 139
Period size: 23 Copynumber: 5.8 Consensus size: 23
653383 AGAATATGCA
*
653393 CTGAAGTG-CCACATAGATTTATC
1 CTGAAG-GACCACATAGAATTATC
* * *
653416 CCGAAGGACTACATAGAATTGTC
1 CTGAAGGACCACATAGAATTATC
*
653439 CTGAAGGACTACATAGAATTA-C
1 CTGAAGGACCACATAGAATTATC
653461 CGTGAAGGACCACATAGAATTA-C
1 C-TGAAGGACCACATAGAATTATC
*
653484 CGTGAAGGACCACATAGAATTGTC
1 C-TGAAGGACCACATAGAATTATC
* * *
653508 CCGAAGGATCACGTAGAAT
1 CTGAAGGACCACATAGAAT
653527 CCCTCTACTC
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
22 3 0.03
23 92 0.95
24 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (23 bp):
CTGAAGGACCACATAGAATTATC
Found at i:656281 original size:23 final size:24
Alignment explanation
Indices: 656204--656283 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
656194 GAAACTGTCG
* **
656204 CGTAGAATTTTACACCGAAGTGCCA
1 CGTAGAATTGT-CACCGAAGAACCA
*
656229 CGTAGAATATG-CACCGAAGGACCA
1 CGTAGAAT-TGTCACCGAAGAACCA
* *
656253 CATAGAATTGTC-CCGAAGAACCG
1 CGTAGAATTGTCACCGAAGAACCA
656276 CGTAGAAT
1 CGTAGAAT
656284 CCCTTGACTC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.39
24 19 0.41
25 8 0.17
26 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (24 bp):
CGTAGAATTGTCACCGAAGAACCA
Found at i:659583 original size:13 final size:13
Alignment explanation
Indices: 659539--659588 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
659529 AAGTCAACCC
*
659539 GTTGACTTTAACT
1 GTTGACTTTGACT
* *
659552 CATTGATTTTGACCT
1 -GTTGACTTTGA-CT
659567 GTTGACTTTGACT
1 GTTGACTTTGACT
659580 GTTGACTTT
1 GTTGACTTT
659589 AACCAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.37
14 17 0.57
15 2 0.07
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (13 bp):
GTTGACTTTGACT
Found at i:661088 original size:25 final size:25
Alignment explanation
Indices: 661060--661110 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
661050 TCGCCATCAA
661060 TTATGTGAGTTCTTTCGGTGTTGCT
1 TTATGTGAGTTCTTTCGGTGTTGCT
661085 TTATGTGAGTTCTTTCGGTGTTGCT
1 TTATGTGAGTTCTTTCGGTGTTGCT
661110 T
1 T
661111 GCGGAGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.12, G:0.27, T:0.53
Consensus pattern (25 bp):
TTATGTGAGTTCTTTCGGTGTTGCT
Found at i:662087 original size:20 final size:20
Alignment explanation
Indices: 662058--662102 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
662048 CTATGGTATT
* *
662058 GATATTAACTCATGGGCATC
1 GATATCAACTCATGAGCATC
*
662078 GATATCAACTCATGAGTATC
1 GATATCAACTCATGAGCATC
662098 GATAT
1 GATAT
662103 AGAACTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (20 bp):
GATATCAACTCATGAGCATC
Found at i:663904 original size:39 final size:36
Alignment explanation
Indices: 663859--663935 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
663849 ATATTTTTAA
*
663859 ATATATA-ATTC-TATTTTTTAAATATATATATACATAT
1 ATATATATATTCATATTTTTTAAA-AT-TATA-AAATAT
663896 ATATATATATTCATATTTTTTAAAATTATAAAATAT
1 ATATATATATTCATATTTTTTAAAATTATAAAATAT
663932 ATAT
1 ATAT
663936 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 9 0.24
37 11 0.30
38 6 0.16
39 11 0.30
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (36 bp):
ATATATATATTCATATTTTTTAAAATTATAAAATAT
Found at i:663956 original size:24 final size:26
Alignment explanation
Indices: 663910--663968 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
663900 ATATATTCAT
663910 ATTTTTTAAAATTATAAAATATAT-A
1 ATTTTTTAAAATTATAAAATATATGA
* * **
663935 TTTTTTTAAAATTA-CACCTATATGA
1 ATTTTTTAAAATTATAAAATATATGA
663960 ATTTTTTAA
1 ATTTTTTAA
663969 TTCATCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTTTTAAAATTATAAAATATATGA
Found at i:664175 original size:20 final size:19
Alignment explanation
Indices: 664136--664175 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
664126 TAAGTTTAAA
**
664136 TATAATTTAAAAATGCATT
1 TATAATTTAAAAATAAATT
664155 TATAATTTTAAAAATAAATT
1 TATAA-TTTAAAAATAAATT
664175 T
1 T
664176 TGAAATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
TATAATTTAAAAATAAATT
Found at i:665720 original size:19 final size:19
Alignment explanation
Indices: 665696--665754 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
665686 TAAAACGTTT
665696 TTTCTTATATATACTATTC
1 TTTCTTATATATACTATTC
* *
665715 TTTCTTAT-T-T-TTTTTC
1 TTTCTTATATATACTATTC
665731 -TTCTTATATATACTATTC
1 TTTCTTATATATACTATTC
665749 TTTCTT
1 TTTCTT
665755 TTAACTAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 7 0.22
16 5 0.16
17 2 0.06
18 5 0.16
19 13 0.41
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTTATATATACTATTC
Found at i:666910 original size:16 final size:17
Alignment explanation
Indices: 666891--666927 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
666881 ATATGAACGT
666891 AAATCGAAAGTAACAC-
1 AAATCGAAAGTAACACG
*
666907 AAATCGAATGTAACACG
1 AAATCGAAAGTAACACG
666924 AAAT
1 AAAT
666928 AATATGCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (17 bp):
AAATCGAAAGTAACACG
Found at i:671275 original size:15 final size:15
Alignment explanation
Indices: 671255--671283 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
671245 TGGCCGACCG
671255 AACCGAATTAACCAT
1 AACCGAATTAACCAT
671270 AACCGAATTAACCA
1 AACCGAATTAACCA
671284 AACTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:671793 original size:184 final size:183
Alignment explanation
Indices: 671411--671791 Score: 566
Period size: 177 Copynumber: 2.1 Consensus size: 183
671401 TTTTCTAATT
* * *
671411 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
* *
671475 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAATTTTA-ATAAATTTTATAATAAATTAATATTGATTTAAGTTTAAAAGTTATT
* *
671540 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTTAGCCTATATTTTA
130 GGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGCTTAGCCCATATTTTA
*
671594 TATATAATATATTTAATATTTTTTAATT-AAAAAACTGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATATATAA
*
671658 -T-TAAAA-AAATA-TTT-AT-AA-TTTATAATAAATTAATTATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAATTTTAATAAATTTTATAATAAATTAA-TATTGATTTAAGTTTAAAAGTTAT
*
671716 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGG-TTGAGCCCATATGTTA
129 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGCTT-AGCCCATATTTTA
671771 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
671792 AAAATTTAAT
Statistics
Matches: 184, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
176 15 0.08
177 96 0.52
178 2 0.01
180 3 0.02
181 4 0.02
182 5 0.03
183 14 0.08
184 45 0.24
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (183 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTTAATAAATTTTATAATAAATTAATATTGATTTAAGTTTAAAAGTTATTG
GATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGCTTAGCCCATATTTTA
Found at i:671819 original size:9 final size:9
Alignment explanation
Indices: 671797--671830 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
671787 TATTTAAAAT
671797 TTAATTTCGG
1 TTAA-TTCGG
*
671807 TTAATTCGT
1 TTAATTCGG
671816 TTAATTCGG
1 TTAATTCGG
671825 TTAATT
1 TTAATT
671831 AACCGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (9 bp):
TTAATTCGG
Found at i:676584 original size:22 final size:21
Alignment explanation
Indices: 676542--676581 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
676532 AAGATTATTT
*
676542 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
676563 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
676582 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:680963 original size:59 final size:59
Alignment explanation
Indices: 680894--681175 Score: 478
Period size: 59 Copynumber: 4.8 Consensus size: 59
680884 TATATTTCCC
* *
680894 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAA-GTGCCCT
680953 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCT
* *
681012 ATACGAAAATTCATACACTTAGTAAGAATTTCTTATCATTTTAGCACACGAAGTGTCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCT
**
681071 ATACGAAAATTCATACACTTAGTATGAAAGTCTTATCATTTTAGCACACGAAGTGCCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCT
681130 ATAC-AGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCA
1 ATACGA-AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCA
681176 TGCTTAGTGT
Statistics
Matches: 211, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
58 1 0.00
59 208 0.99
60 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (59 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCT
Found at i:681537 original size:20 final size:18
Alignment explanation
Indices: 681512--681560 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
681502 TGGTTCTTCA
681512 GTATCGATACCCCTGCCATG
1 GTATCGATACCCCT-CCA-G
* *
681532 GTATCGATACCCGTTCAG
1 GTATCGATACCCCTCCAG
681550 GTATCGATACC
1 GTATCGATACC
681561 AAAATTAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
19 2 0.07
20 13 0.48
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (18 bp):
GTATCGATACCCCTCCAG
Found at i:681554 original size:18 final size:18
Alignment explanation
Indices: 681507--681560 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
681497 ATTTCTGGTT
681507 CTTCA-GTATCGATACCC
1 CTTCAGGTATCGATACCC
*
681524 CTGCCATGGTATCGATACCC
1 CT-TCA-GGTATCGATACCC
*
681544 GTTCAGGTATCGATACC
1 CTTCAGGTATCGATACC
681561 AAAATTAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 2 0.06
18 14 0.45
19 2 0.06
20 13 0.42
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (18 bp):
CTTCAGGTATCGATACCC
Found at i:681607 original size:20 final size:21
Alignment explanation
Indices: 681582--681637 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
681572 CAATGTGGCT
681582 TGGTATCGATACCCT-CACTA
1 TGGTATCGATACCCTACACTA
* *
681602 TGGTATCGATACTACTATACTA
1 TGGTATCGATAC-CCTACACTA
*
681624 TGGTACCGATACCC
1 TGGTATCGATACCC
681638 CTCCGGTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 15 0.50
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (21 bp):
TGGTATCGATACCCTACACTA
Found at i:701555 original size:17 final size:18
Alignment explanation
Indices: 701535--701571 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
701525 TTAATTCATT
701535 TTATATTTTTA-TTATAA
1 TTATATTTTTATTTATAA
701552 TTATATTTTTATTTATAA
1 TTATATTTTTATTTATAA
701570 TT
1 TT
701572 TAATTTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTTTTATTTATAA
Found at i:701575 original size:23 final size:22
Alignment explanation
Indices: 701524--701576 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
701514 TAGGAATTTT
*
701524 TTTAATTCATTTTATATTTTTA
1 TTTAATTCATTTTATATTTTAA
*
701546 TTATAATT-ATATTTTTATTTATAA
1 TT-TAATTCAT-TTTATATTT-TAA
701570 TTTAATT
1 TTTAATT
701577 TGATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 18 0.69
24 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTAATTCATTTTATATTTTAA
Found at i:701577 original size:18 final size:18
Alignment explanation
Indices: 701534--701577 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
701524 TTTAATTCAT
701534 TTTATATTTTTATTATAA
1 TTTATATTTTTATTATAA
701552 -TTATATTTTTATTTATAA
1 TTTATATTTTTA-TTATAA
701570 TTTA-ATTT
1 TTTATATTT
701578 GATATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.46
18 10 0.42
19 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATATTTTTATTATAA
Found at i:701600 original size:16 final size:16
Alignment explanation
Indices: 701581--701642 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 16
701571 TTAATTTGAT
*
701581 ATATTTTATATTTAAA
1 ATATTTTAAATTTAAA
*
701597 ATATTAATAAATTTAAA
1 ATATT-TTAAATTTAAA
* *
701614 ATAATTTAAA-TTAAC
1 ATATTTTAAATTTAAA
701629 ATATTTTAAATTTA
1 ATATTTTAAATTTA
701643 TATTATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 13 0.34
16 12 0.32
17 13 0.34
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTTTAAATTTAAA
Found at i:703070 original size:25 final size:24
Alignment explanation
Indices: 703042--703091 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
703032 ATAGCATAAT
703042 ATATATAATAAATATAG-TTTTTGAA
1 ATATATAAT--ATATAGTTTTTTGAA
703067 ATATATAATATATAGTTTTTTGAA
1 ATATATAATATATAGTTTTTTGAA
703091 A
1 A
703092 CTTACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
ATATATAATATATAGTTTTTTGAA
Found at i:703152 original size:28 final size:28
Alignment explanation
Indices: 703116--703275 Score: 97
Period size: 28 Copynumber: 5.2 Consensus size: 28
703106 AATGTATAAT
*
703116 ATATAGTTTTTAAAACGATTTTGAAAAC
1 ATATAGTTTTTAAAACAATTTTGAAAAC
* * *
703144 ATATAGTTTTTAAGATAACTTTGAAAAC
1 ATATAGTTTTTAAAACAATTTTGAAAAC
*
703172 ATATAATATATAGTTTTTAAAAAAAATAGTTTTGAACATAAC
1 -------ATATAGTTTTT--AAAACA-A-TTTTG-A-A-AAC
*
703214 ATAT-GTTTTTTAAAACGATTTTGAAAAC
1 ATATAG-TTTTTAAAACAATTTTGAAAAC
* *
703242 ATATAGCTTTTTAAGATAATTTTGAAAAC
1 ATATAG-TTTTTAAAACAATTTTGAAAAC
703271 ATATA
1 ATATA
703276 ATAAATATTG
Statistics
Matches: 103, Mismatches: 13, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
28 31 0.30
29 26 0.25
30 1 0.01
31 5 0.05
32 1 0.01
33 4 0.04
34 1 0.01
35 20 0.19
37 4 0.04
38 1 0.01
39 4 0.04
40 1 0.01
41 1 0.01
42 3 0.03
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.40
Consensus pattern (28 bp):
ATATAGTTTTTAAAACAATTTTGAAAAC
Found at i:703255 original size:29 final size:29
Alignment explanation
Indices: 703211--703275 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
703201 TTTTGAACAT
* *
703211 AACATAT-GTTTTTTAAAACGATTTTGAA
1 AACATATAGCTTTTTAAAACAATTTTGAA
* *
703239 AACATATAGCTTTTTAAGATAATTTTGAA
1 AACATATAGCTTTTTAAAACAATTTTGAA
703268 AACATATA
1 AACATATA
703276 ATAAATATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (29 bp):
AACATATAGCTTTTTAAAACAATTTTGAA
Found at i:703277 original size:99 final size:99
Alignment explanation
Indices: 703122--703372 Score: 339
Period size: 98 Copynumber: 2.5 Consensus size: 99
703112 TAATATATAG
*
703122 TTTTTAAAACGATTTTGAAAACATATAG-TTTTTAAGATAACTTTGAAAACATATAAT-ATATAG
1 TTTTTAAAACGATTTTGAAAACATATAGCTTTTTAAGATAATTTTGAAAACATATAATAATATAG
703185 TTTTTAAAAAAAATAGTTTTG-AAC-ATAACATATGT
66 TTTTT--AAAAAA-AGTTTTGAAACTATAACATATGT
*
703220 TTTTTAAAACGATTTTGAAAACATATAGCTTTTTAAGATAATTTTGAAAACATATAATAAATATT
1 TTTTTAAAACGATTTTGAAAACATATAGCTTTTTAAGATAATTTTGAAAACATATAAT-AATATA
* *
703285 GTTTTTAAAAAAAGTTTTGAAAACTTATTATATATGT
65 GTTTTTAAAAAAAGTTTTG-AAAC-TATAACATATGT
* * * *
703322 TTTTTAAAACGGTTTTGAAACATATATAACTTTTTAAAATAATTTTGAAAA
1 TTTTTAAAACGATTTTGAAA-ACATATAGCTTTTTAAGATAATTTTGAAAA
703373 TGTATATAGT
Statistics
Matches: 137, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
98 35 0.26
99 34 0.25
100 3 0.02
101 10 0.07
102 28 0.20
103 27 0.20
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (99 bp):
TTTTTAAAACGATTTTGAAAACATATAGCTTTTTAAGATAATTTTGAAAACATATAATAATATAG
TTTTTAAAAAAAGTTTTGAAACTATAACATATGT
Found at i:703358 original size:30 final size:29
Alignment explanation
Indices: 703313--703446 Score: 90
Period size: 29 Copynumber: 4.3 Consensus size: 29
703303 GAAAACTTAT
* *
703313 TATATATGTTTTTTAAAACGGTTTTGAAACA
1 TATATAT-ATTTTTAAAACAGTTTTGAAA-A
* *
703344 TATATA-ACTTTTTAAAATAATTTTGAAAA
1 TATATATA-TTTTTAAAACAGTTTTGAAAA
* *
703373 TGTATATAGTTTTAAAACAGTTTTGAAAAAGTA
1 TATATATATTTTTAAAACAGTTTTG--AAA--A
* *
703406 TAATATATAGTTTTTAAAACGGTTTTTAAAA
1 T-ATATATA-TTTTTAAAACAGTTTTGAAAA
*
703437 AACTATATAT
1 TA-TATATAT
703447 ATTATATAGT
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
29 20 0.25
30 20 0.25
31 16 0.20
33 5 0.06
34 6 0.07
35 14 0.17
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (29 bp):
TATATATATTTTTAAAACAGTTTTGAAAA
Found at i:703472 original size:12 final size:13
Alignment explanation
Indices: 703455--703485 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
703445 ATATTATATA
703455 GTTTTT-AAAATG
1 GTTTTTGAAAATG
703467 GTTTTTGAAAATG
1 GTTTTTGAAAATG
703480 GTTTTT
1 GTTTTT
703486 TTCGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (13 bp):
GTTTTTGAAAATG
Found at i:703518 original size:30 final size:29
Alignment explanation
Indices: 703484--703546 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
703474 AAAATGGTTT
*
703484 TTTTCGAAAATATATTAATATATTATATAG
1 TTTTCGAAAATATAAT-ATATATTATATAG
**
703514 TTTTCGGGAATATAATATATATTATATAG
1 TTTTCGAAAATATAATATATATTATATAG
703543 TTTT
1 TTTT
703547 TAGTATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (29 bp):
TTTTCGAAAATATAATATATATTATATAG
Found at i:703576 original size:15 final size:15
Alignment explanation
Indices: 703553--703600 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
703543 TTTTTAGTAT
*
703553 TTATGTTATTTATTA
1 TTATTTTATTTATTA
703568 TTATTTTATGTTA-TA
1 TTATTTTAT-TTATTA
703583 TTA-TTTATTTATTTA
1 TTATTTTATTTA-TTA
703598 TTA
1 TTA
703601 AATTTTAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 18 0.62
16 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (15 bp):
TTATTTTATTTATTA
Found at i:703592 original size:4 final size:4
Alignment explanation
Indices: 703550--703599 Score: 50
Period size: 4 Copynumber: 12.0 Consensus size: 4
703540 TAGTTTTTAG
703550 TATT TATGT TATT TA-T TA-T TATTT TATGT TATAT TATT TATT TATT
1 TATT TAT-T TATT TATT TATT TA-TT TAT-T TAT-T TATT TATT TATT
703596 TATT
1 TATT
703600 AAATTTTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
3 6 0.15
4 20 0.49
5 15 0.37
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:706025 original size:18 final size:17
Alignment explanation
Indices: 706004--706037 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
705994 TCTTACTAAC
*
706004 TTTTTTTTTCATTTTTTG
1 TTTTCTTTT-ATTTTTTG
706022 TTTTCTTTTATTTTTT
1 TTTTCTTTTATTTTTT
706038 CATTCGCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTATTTTTTG
Found at i:706030 original size:12 final size:12
Alignment explanation
Indices: 706004--706041 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
705994 TCTTACTAAC
706004 TTTTTTTTTCAT
1 TTTTTTTTTCAT
706016 TTTTTGTTTTC-T
1 TTTTT-TTTTCAT
706028 TTTATTTTTTCAT
1 TTT-TTTTTTCAT
706041 T
1 T
706042 CGCATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTCAT
Found at i:720619 original size:20 final size:21
Alignment explanation
Indices: 720594--720699 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 21
720584 TTTTAGTGCA
*
720594 GAGGGAATCGATACCCCC-AT
1 GAGGGAATCGATTCCCCCTAT
*
720614 GAGGGAATCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCTAT
*
720635 GAAGGGGAATCGATTCCCCCTTT
1 G-A-GGGAATCGATTCCCCCTAT
* *
720658 GAAGGGGAACCGATTCCCCCCA-
1 G-A-GGGAATCGATTCCCCCTAT
* *
720680 CAGGGGAATCGATACCCCCT
1 GA-GGGAATCGATTCCCCCT
720700 GGGGTAGTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.23
21 18 0.24
22 1 0.01
23 38 0.51
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCTAT
Found at i:720645 original size:23 final size:23
Alignment explanation
Indices: 720596--720677 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
720586 TTAGTGCAGA
* *
720596 GGGAATCGATACCCCC-ATG-A-
1 GGGAATCGATTCCCCCTTTGAAG
720616 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCTTTGAAG
720639 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCTTTGAAG
*
720662 GGGAACCGATTCCCCC
1 GGGAATCGATTCCCCC
720678 CACAGGGGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.27
21 2 0.04
22 1 0.02
23 38 0.68
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (23 bp):
GGGAATCGATTCCCCCTTTGAAG
Found at i:720698 original size:44 final size:42
Alignment explanation
Indices: 720596--720699 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 42
720586 TTAGTGCAGA
* *
720596 GGGAATCGATACCCCC-ATGAGGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCCTATGAGGGAACCGATTCCCCC--TCAAG
* *
720639 GGGAATCGATTCCCCCTTTGAAGGGGAACCGATTCCCCC-CACAG
1 GGGAATCGATACCCCCTATG-A-GGGAACCGATTCCCCCTCA-AG
720683 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
720700 GGGGTAGTGG
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 16 0.31
44 20 0.38
45 1 0.02
46 15 0.29
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (42 bp):
GGGAATCGATACCCCCTATGAGGGAACCGATTCCCCCTCAAG
Found at i:722338 original size:12 final size:12
Alignment explanation
Indices: 722321--722349 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
722311 AGATGAGCCT
722321 GAGCAGCCCGAG
1 GAGCAGCCCGAG
722333 GAGCAGCCCGAG
1 GAGCAGCCCGAG
722345 GAGCA
1 GAGCA
722350 AGCACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.41, T:0.00
Consensus pattern (12 bp):
GAGCAGCCCGAG
Found at i:722694 original size:17 final size:17
Alignment explanation
Indices: 722661--722694 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
722651 TTGAATATTT
* *
722661 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
722678 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
722695 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:723316 original size:21 final size:21
Alignment explanation
Indices: 723290--723330 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
723280 CAGTTTGTCC
*
723290 AGAGGGAACTGATTCCCCCCA
1 AGAGGGAACCGATTCCCCCCA
*
723311 AGAGGGTACCGATTCCCCCC
1 AGAGGGAACCGATTCCCCCC
723331 CTGAATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (21 bp):
AGAGGGAACCGATTCCCCCCA
Found at i:725984 original size:12 final size:12
Alignment explanation
Indices: 725967--725999 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
725957 TTTCCAGTTC
725967 AGATTTCAAGCT
1 AGATTTCAAGCT
*
725979 AGATTTCGAGCT
1 AGATTTCAAGCT
725991 AGATTTCAA
1 AGATTTCAA
726000 CTTTACAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (12 bp):
AGATTTCAAGCT
Found at i:726343 original size:23 final size:23
Alignment explanation
Indices: 726315--726360 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
726305 ATAGAATAAT
*
726315 ATATATAATAAATATAGTTTTTGAA
1 ATATATAAT--ATATAATTTTTGAA
726340 ATATATAATATATAATTTTTG
1 ATATATAATATATAATTTTTG
726361 GAAACTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
ATATATAATATATAATTTTTGAA
Found at i:726460 original size:35 final size:35
Alignment explanation
Indices: 726416--726558 Score: 162
Period size: 35 Copynumber: 4.3 Consensus size: 35
726406 TTTTGAAAAC
726416 ATATAGTTTTTAAGATAATTTTGAAAACATATAAT
1 ATATAGTTTTTAAGATAATTTTGAAAACATATAAT
*
726451 ATATAGTTTTTTAA-ATAGTTTTGAAAACATATAAT
1 ATATAG-TTTTTAAGATAATTTTGAAAACATATAAT
* **
726486 ATAT-GTTTTTTAAAACGATTTTGAAAAC-------
1 ATATAG-TTTTTAAGATAATTTTGAAAACATATAAT
726514 ATATA-TTTTTAAGATAATTTTGAAAACATATAAT
1 ATATAGTTTTTAAGATAATTTTGAAAACATATAAT
726548 ATATAGTTTTT
1 ATATAGTTTTT
726559 TTTAAAAAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
27 19 0.21
28 4 0.04
34 14 0.16
35 46 0.51
36 7 0.08
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
ATATAGTTTTTAAGATAATTTTGAAAACATATAAT
Found at i:726496 original size:98 final size:97
Alignment explanation
Indices: 726376--726686 Score: 394
Period size: 98 Copynumber: 3.1 Consensus size: 97
726366 TTACTTTAAA
*
726376 AAAACCTATAATATATAGTTTTTAAAACGATTTTGAAAACATATAGTTTTTAAGATAATTTTGAA
1 AAAACGTATAATATAT-GTTTTTAAAACGATTTTGAAAACATATAGTTTTTAAGATAATTTTGAA
726441 AACATATAATATATAGTTTTTTAAATAGTTTTG
65 AACATATAATATATAGTTTTTTAAATAGTTTTG
*
726474 AAAACATATAATATATGTTTTTTAAAACGATTTTGAAAACATATA-TTTTTAAGATAATTTTGAA
1 AAAACGTATAATATATG-TTTTTAAAACGATTTTGAAAACATATAGTTTTTAAGATAATTTTGAA
726538 AACATATAATATATAGTTTTTTTTAAAAAAAAATAGTTTTG
65 AACATATAATATATAG--TTTTTT------AAATAGTTTTG
* * * *
726579 AAAACGTATAATATATGATTTTAAAGCGGTTTTGAAAACATATATAGCTTTTTAAAATAATTTTG
1 AAAACGTATAATATATGTTTTTAAAACGATTTTGAAAAC--ATATAG-TTTTTAAGATAATTTTG
** * *
726644 AAAATGTAT-A-ATATAGTTTTTAAAATAATTTTG
63 AAAACATATAATATATAGTTTTTTAAATAGTTTTG
726677 AAAACGTATA
1 AAAACGTATA
726687 TAATTTTAAA
Statistics
Matches: 190, Mismatches: 10, Indels: 26
0.84 0.04 0.12
Matches are distributed among these distances:
97 36 0.19
98 62 0.33
99 6 0.03
104 24 0.13
105 27 0.14
106 11 0.06
107 1 0.01
108 23 0.12
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (97 bp):
AAAACGTATAATATATGTTTTTAAAACGATTTTGAAAACATATAGTTTTTAAGATAATTTTGAAA
ACATATAATATATAGTTTTTTAAATAGTTTTG
Found at i:726714 original size:62 final size:64
Alignment explanation
Indices: 726567--726726 Score: 191
Period size: 62 Copynumber: 2.5 Consensus size: 64
726557 TTTTTAAAAA
* * * ** *
726567 AAAATAGTTTTGAAAACGTATAATATATGATTTTAAAGCGGTTTTGAAAACATATATAGCTTTTT
1 AAAATAATTTTGAAAATGTATAATATATGATTTTAAAACAATTTTGAAAACATATATA-CATTTT
* * *
726632 AAAATAATTTTGAAAATGTATAATATA-GTTTTTAAAATAATTTTGAAAACGTATATA-ATTTT
1 AAAATAATTTTGAAAATGTATAATATATGATTTTAAAACAATTTTGAAAACATATATACATTTT
* *
726694 AAAATATTTTTGCAAATGTATAATATAT-ATTTT
1 AAAATAATTTTGAAAATGTATAATATATGATTTT
726727 TTAAATCGTT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 33 0.40
64 24 0.29
65 25 0.30
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (64 bp):
AAAATAATTTTGAAAATGTATAATATATGATTTTAAAACAATTTTGAAAACATATATACATTTT
Found at i:726722 original size:64 final size:65
Alignment explanation
Indices: 726567--726731 Score: 185
Period size: 64 Copynumber: 2.6 Consensus size: 65
726557 TTTTTAAAAA
* * * * ** *
726567 AAAATAGTTTTGAAAACGTATAATATAT-GATTTTAAAGCGGTTTTGAAAACATATATAGCTTTT
1 AAAATAATTTTGAAAATGTATAATATATAGTTTTTAAAACAATTTTGAAAACATATATA-CATTT
726631 T
65 T
* *
726632 AAAATAATTTTGAAAATGTAT-A-ATATAGTTTTTAAAATAATTTTGAAAACGTATATA-ATTTT
1 AAAATAATTTTGAAAATGTATAATATATAGTTTTTAAAACAATTTTGAAAACATATATACATTTT
* * *
726694 AAAATATTTTTGCAAATGTATAATATATATTTTTTAAA
1 AAAATAATTTTGAAAATGTATAATATATAGTTTTTAAA
726732 TCGTTTTTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
62 23 0.27
63 5 0.06
64 38 0.45
65 19 0.22
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (65 bp):
AAAATAATTTTGAAAATGTATAATATATAGTTTTTAAAACAATTTTGAAAACATATATACATTTT
Found at i:726912 original size:22 final size:20
Alignment explanation
Indices: 726860--726912 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
726850 TTATATAGTT
*
726860 TTTATTATTTATGTTATTTA
1 TTTATTATTTAGGTTATTTA
726880 -TTATTATTTTAGGTTATATTA
1 TTTATTA-TTTAGGTTAT-TTA
726901 TTTATTTATTTA
1 TTTA-TTATTTA
726913 TTCATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 3 0.11
22 7 0.25
23 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTATTATTTAGGTTATTTA
Found at i:726914 original size:15 final size:15
Alignment explanation
Indices: 726860--726914 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 15
726850 TTATATAGTT
726860 TTTATTATTTATGTTA
1 TTTATTATTTAT-TTA
726876 TTTATTA-TTATTTTA
1 TTTATTATTTA-TTTA
726891 GGTTATATTATTTATTTA
1 --TT-TATTATTTATTTA
726909 TTTATT
1 TTTATT
726915 CATTAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.29
16 10 0.29
17 2 0.06
18 9 0.26
19 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (15 bp):
TTTATTATTTATTTA
Found at i:742038 original size:2 final size:2
Alignment explanation
Indices: 742031--742057 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
742021 TTATGAAAAC
742031 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 T
742058 TGTTTCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:752585 original size:29 final size:29
Alignment explanation
Indices: 752552--752610 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
752542 CACTCAACAC
* *
752552 TAGGTTATGGACTTATTAAGAGTAAATAT
1 TAGGTTATGAAATTATTAAGAGTAAATAT
752581 TAGGTTATGAAATTATTAAGAGTAAATAT
1 TAGGTTATGAAATTATTAAGAGTAAATAT
752610 T
1 T
752611 CACCCAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (29 bp):
TAGGTTATGAAATTATTAAGAGTAAATAT
Found at i:754018 original size:12 final size:13
Alignment explanation
Indices: 753994--754018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
753984 GAATATTTCA
753994 GAAAATAATTTTT
1 GAAAATAATTTTT
754007 GAAAATAATTTT
1 GAAAATAATTTT
754019 ATAATATTTG
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
GAAAATAATTTTT
Found at i:754300 original size:65 final size:66
Alignment explanation
Indices: 754237--754372 Score: 178
Period size: 64 Copynumber: 2.1 Consensus size: 66
754227 CTAATATATT
754237 TTATTAAAATAA-AAATATTAT-AAGTTATA-TAATTAT-TTATT-AAAATAAAAATATTATATT
1 TTATTAAAATAATAAATATTATGAA-TTATATTAATT-TCTTATTAAAAATAAAAATATTATATT
754297 ATA
64 ATA
* *
754300 TTATTAAAATAATAAATATTATGAATTATATTAATTTCTTATTAAAAATAAGAATA-T-CATTAT
1 TTATTAAAATAATAAATATTATGAATTATATTAATTTCTTATTAAAAATAAAAATATTATATTAT
754363 A
66 A
*
754364 CTATTAAAA
1 TTATTAAAA
754373 ATTATAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
63 12 0.18
64 29 0.45
65 13 0.20
66 11 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (66 bp):
TTATTAAAATAATAAATATTATGAATTATATTAATTTCTTATTAAAAATAAAAATATTATATTAT
A
Found at i:754303 original size:27 final size:29
Alignment explanation
Indices: 754264--754332 Score: 108
Period size: 27 Copynumber: 2.4 Consensus size: 29
754254 TTATAAGTTA
754264 TATAATTAT-TTATTAAAATAA-AAATAT
1 TATAATTATATTATTAAAATAATAAATAT
754291 TAT-ATTATATTATTAAAATAATAAATAT
1 TATAATTATATTATTAAAATAATAAATAT
754319 TATGAATTATATTA
1 TAT-AATTATATTA
754333 ATTTCTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.13
27 15 0.39
28 9 0.24
30 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
TATAATTATATTATTAAAATAATAAATAT
Found at i:754317 original size:34 final size:36
Alignment explanation
Indices: 754241--754315 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
754231 TATATTTTAT
** *
754241 TAAAATAAAAATATTATAAGTTATATAATTATTTAT
1 TAAAATAAAAATATTATAAGTTATATAATTAAATAA
*
754277 TAAAATAAAAATATTAT-A-TTATATTATTAAAATAA
1 TAAAATAAAAATATTATAAGTTATATAATT-AAATAA
754312 TAAA
1 TAAA
754316 TATTATGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 9 0.26
35 8 0.24
36 17 0.50
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (36 bp):
TAAAATAAAAATATTATAAGTTATATAATTAAATAA
Found at i:754414 original size:17 final size:19
Alignment explanation
Indices: 754370--754415 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
754360 TATACTATTA
*
754370 AAAATTATAATATTCAATT
1 AAAATTATTATATTCAATT
754389 AACAA-TATTATA-TC-ATT
1 AA-AATTATTATATTCAATT
754406 AAAATTATTA
1 AAAATTATTA
754416 CTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 10 0.42
18 2 0.08
19 8 0.33
20 2 0.08
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTATTATATTCAATT
Found at i:755459 original size:28 final size:28
Alignment explanation
Indices: 755407--755460 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
755397 GGAGATAATT
* *
755407 TTCTCACGACGCTCGATTTTGATTCGCA
1 TTCTCACGACGCTCGATTCTAATTCGCA
*
755435 TTCTCATGACGCTCGATTCTAATTCG
1 TTCTCACGACGCTCGATTCTAATTCG
755461 TAATTATCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.37
Consensus pattern (28 bp):
TTCTCACGACGCTCGATTCTAATTCGCA
Found at i:758987 original size:21 final size:20
Alignment explanation
Indices: 758951--758996 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
758941 TGATAAAACA
*
758951 TTTGTCACTATCAATTAACTAT
1 TTTGTCACAATCAATT-AC-AT
758973 TTTGTCACAAT-AATTACAT
1 TTTGTCACAATCAATTACAT
758992 TTTGT
1 TTTGT
758997 TATAATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 2 0.09
21 4 0.17
22 10 0.43
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (20 bp):
TTTGTCACAATCAATTACAT
Found at i:759359 original size:33 final size:32
Alignment explanation
Indices: 759296--759401 Score: 92
Period size: 33 Copynumber: 3.3 Consensus size: 32
759286 TTTGTGACTA
759296 AATAAATTTTTTATAATTCGTTATTGTGAAAT
1 AATAAATTTTTTATAATTCGTTATTGTGAAAT
* *
759328 AATATATTTTTTCATAATTCTTTATAT-TGAAA-
1 AATAAATTTTTT-ATAATTCGTTAT-TGTGAAAT
* ** * *
759360 AATTAACATTTGTTATAATTTTTTATTATGATA-
1 AA-TAA-ATTTTTTATAATTCGTTATTGTGAAAT
759393 AATAAATTT
1 AATAAATTT
759402 ATCAAATGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
31 4 0.06
32 17 0.27
33 35 0.56
34 7 0.11
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (32 bp):
AATAAATTTTTTATAATTCGTTATTGTGAAAT
Found at i:759788 original size:145 final size:146
Alignment explanation
Indices: 759577--759854 Score: 398
Period size: 145 Copynumber: 1.9 Consensus size: 146
759567 TATTTGCTAT
* * * * *
759577 TGTTATTTTGACTAAATAATTTTTTCATCATTTATTATTTTGAGAAAAATAGTGTGACTAAATAA
1 TGTTATTATGACTAAATAAATTTGTCATCAATTATTATTTTAAGAAAAATAGTGTGACTAAATAA
*
759642 ATTTGACATAATTTCTTATTTTGACTAAATATAATATATTATTATGATTAAATAAATTTGTTACA
66 ATTTGACATAATTTCTTATTTTGACTAAATATAATATATTATTATGACTAAATAAATTTGTTACA
759707 ATTAGTTACAAATAAC
131 ATTAGTTACAAATAAC
* *
759723 TGTTATTATGACTATATAAATTTGTCAT-AATTAGTTATTTTAAG-AAAATATTGTGACTAAATA
1 TGTTATTATGACTAAATAAATTTGTCATCAATTA-TTATTTTAAGAAAAATAGTGTGACTAAATA
* * * * * * *
759786 AATTTGGCATAATTTTTTATTTTGATTAAATTTAATATGTTGTTATGACTAAATAGATTTGTTAC
65 AATTTGACATAATTTCTTATTTTGACTAAATATAATATATTATTATGACTAAATAAATTTGTTAC
759851 AATT
130 AATT
759855 TTTATTACAA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
145 83 0.72
146 33 0.28
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (146 bp):
TGTTATTATGACTAAATAAATTTGTCATCAATTATTATTTTAAGAAAAATAGTGTGACTAAATAA
ATTTGACATAATTTCTTATTTTGACTAAATATAATATATTATTATGACTAAATAAATTTGTTACA
ATTAGTTACAAATAAC
Found at i:766082 original size:9 final size:10
Alignment explanation
Indices: 766046--766080 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
766036 TTCGAAGAGT
766046 AAAAAACAAA
1 AAAAAACAAA
766056 AAAAAACAAA
1 AAAAAACAAA
766066 AAAAAACAAA
1 AAAAAACAAA
766076 AAAAA
1 AAAAA
766081 CATTCGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:767844 original size:29 final size:28
Alignment explanation
Indices: 767797--767987 Score: 220
Period size: 29 Copynumber: 6.6 Consensus size: 28
767787 CCGTTTAACC
*
767797 GGGTGATATTTTGTAATTATTTTGAAAA
1 GGGTGATATTTTGTAATTATTTTTAAAA
** * **
767825 TAGTGCTATTTTAGTAATTATTTGGAAAA
1 GGGTGATATTTT-GTAATTATTTTTAAAA
* *
767854 TGGTGTTATTTTTGTAATTATTTTTAAAA
1 GGGTGATA-TTTTGTAATTATTTTTAAAA
767883 GGGTGATATTTGTGTAATTATTTTTAAAA
1 GGGTGATATTT-TGTAATTATTTTTAAAA
*
767912 GGGTGATATTTGCGTAATTATTTTTAAAA
1 GGGTGATATTT-TGTAATTATTTTTAAAA
*
767941 GGGTGATATTTTCGTAAATATTTCTTAAAA
1 GGGTGATATTTT-GTAATTATTT-TTAAAA
*
767971 GGGTGATAATTGTGTAA
1 GGGTGAT-ATTTTGTAA
767988 AATGGTTGAT
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
28 12 0.08
29 106 0.74
30 21 0.15
31 4 0.03
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (28 bp):
GGGTGATATTTTGTAATTATTTTTAAAA
Found at i:767951 original size:87 final size:88
Alignment explanation
Indices: 767797--767987 Score: 251
Period size: 87 Copynumber: 2.2 Consensus size: 88
767787 CCGTTTAACC
* * * * *
767797 GGGTGATATTT-TGTAATTATTTTGAAAATAGTGCTATTTTAGTAATTATTTGGAAAATGGTGTT
1 GGGTGATATTTGTGTAATTATTTTGAAAAGAGTGATATTTGAGTAATTATTTGGAAAAGGGTGAT
* *
767861 ATTTTTGTAATTATTT-TTAAAA
66 ATTTTCGTAAATATTTCTTAAAA
* * * **
767883 GGGTGATATTTGTGTAATTATTTTTAAAAGGGTGATATTTGCGTAATTATTTTTAAAAGGGTGAT
1 GGGTGATATTTGTGTAATTATTTTGAAAAGAGTGATATTTGAGTAATTATTTGGAAAAGGGTGAT
767948 ATTTTCGTAAATATTTCTTAAAA
66 ATTTTCGTAAATATTTCTTAAAA
*
767971 GGGTGATAATTGTGTAA
1 GGGTGATATTTGTGTAA
767988 AATGGTTGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 11 0.12
87 57 0.63
88 22 0.24
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (88 bp):
GGGTGATATTTGTGTAATTATTTTGAAAAGAGTGATATTTGAGTAATTATTTGGAAAAGGGTGAT
ATTTTCGTAAATATTTCTTAAAA
Found at i:769555 original size:37 final size:33
Alignment explanation
Indices: 769478--769562 Score: 86
Period size: 37 Copynumber: 2.5 Consensus size: 33
769468 TTGTATTTAT
769478 GTTTATT-TTATCTT-TTATTTAATTTTTTAATA
1 GTTTATTATTAT-TTGTTATTTAATTTTTTAATA
*
769510 -TTTTTTATTATTTGTTATTTTAATTATTTTAATTAA
1 GTTTATTATTATTTGTTA-TTTAATT-TTTTAA-T-A
*
769546 GTTTATTATTAATTGTT
1 GTTTATTATTATTTGTT
769563 TTGTTTCGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
31 7 0.16
32 7 0.16
33 7 0.16
34 6 0.14
35 1 0.02
36 1 0.02
37 14 0.33
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (33 bp):
GTTTATTATTATTTGTTATTTAATTTTTTAATA
Found at i:774431 original size:9 final size:9
Alignment explanation
Indices: 774395--774431 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
774385 GATTGGAGGA
774395 TATTTTATT
1 TATTTTATT
* *
774404 AATTTTAAT
1 TATTTTATT
774413 TATTTTATT
1 TATTTTATT
774422 TATTTTATT
1 TATTTTATT
774431 T
1 T
774432 TGTATCCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTTTATT
Found at i:776268 original size:60 final size:58
Alignment explanation
Indices: 776202--776370 Score: 196
Period size: 60 Copynumber: 2.8 Consensus size: 58
776192 CTTATTTCTT
* * *
776202 ATTTTAAATTGATCCTTAAACTTTTGAATATTTTAATTTCATCCACAAACTGCAACTCTC
1 ATTTTAAATTGAT-CTTAAACTTTTGAATATTCTAATTTCATCC-CAAACTACAACCCTC
* * *
776262 ATTTTAAATTAGTTCTTAAACTTTTGAACATTCTAATTTCATCCCTAAACTACGACCCTC
1 ATTTTAAATT-GATCTTAAACTTTTGAATATTCTAATTTCATCCC-AAACTACAACCCTC
* *
776322 -TTTCTAAATTGGTCTCTAAACTTTTGAATATTCCAATTTCATCCTCAAA
1 ATTT-TAAATTGATCT-TAAACTTTTGAATATTCTAATTTCATCC-CAAA
776371 TTCATCCAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
59 8 0.08
60 84 0.88
61 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.41
Consensus pattern (58 bp):
ATTTTAAATTGATCTTAAACTTTTGAATATTCTAATTTCATCCCAAACTACAACCCTC
Found at i:776587 original size:60 final size:60
Alignment explanation
Indices: 776494--776640 Score: 163
Period size: 60 Copynumber: 2.5 Consensus size: 60
776484 GTATATATGT
* * * * *
776494 ATAGTTTGGGG-TAAAATTGGAATGTTTTAAAAGTTTGAGTACCAATTTAGAATGA-AGGCC
1 ATAGTTTGGGGATGAAATTGAAAT-ATTCAAAAGTTTGAGGACCAATTTAGAATGATA-GCC
* **
776554 ATAGTTTGGGGATGAAATTGAAATATTCAAAAGTTTGAGGACTAATTTAGAATGATATTC
1 ATAGTTTGGGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTAGAATGATAGCC
* * *
776614 ATAGTTTAGAGATGAAACTGAAATATT
1 ATAGTTTGGGGATGAAATTGAAATATT
776641 TATTTGAGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
60 63 0.85
61 11 0.15
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (60 bp):
ATAGTTTGGGGATGAAATTGAAATATTCAAAAGTTTGAGGACCAATTTAGAATGATAGCC
Found at i:777328 original size:39 final size:39
Alignment explanation
Indices: 777272--777415 Score: 207
Period size: 39 Copynumber: 3.7 Consensus size: 39
777262 GGCTCATCGA
* * * * *
777272 CTTTGTTCTCAGAGTAAGTTCTTACTGCAAGCTCCTCTG
1 CTTTGTGCTCAGGGTAAGTCCTTACTGTAGGCTCCTCTG
* *
777311 CTTTGTCCTCAGGGTAAGTCCTTACTGTAGGCTCCTCGG
1 CTTTGTGCTCAGGGTAAGTCCTTACTGTAGGCTCCTCTG
*
777350 CTTTGTGCTCAGGGTAAGTCCTTACTGTAGGCTCCTATG
1 CTTTGTGCTCAGGGTAAGTCCTTACTGTAGGCTCCTCTG
*
777389 CTTTGTGCACAGGGTAAGTCCTTACTG
1 CTTTGTGCTCAGGGTAAGTCCTTACTG
777416 GGTGTACAGG
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (39 bp):
CTTTGTGCTCAGGGTAAGTCCTTACTGTAGGCTCCTCTG
Found at i:786032 original size:52 final size:52
Alignment explanation
Indices: 785970--786093 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 52
785960 GACAAAATGT
* * **
785970 GATCTCTCGATGCTCTTACATTGCCAAGATGTGTTTTACCAAAACCCCAGGC
1 GATCTCTCGATACTCTTACATTCCCAAGACATGTTTTACCAAAACCCCAGGC
*
786022 GATCTCTCGATACTCTTACATTCCCAAGACATGTTTTACCAAAACCCCAGGT
1 GATCTCTCGATACTCTTACATTCCCAAGACATGTTTTACCAAAACCCCAGGC
786074 GATCTCTCGATACTCTTACA
1 GATCTCTCGATACTCTTACA
786094 GTATCAAGGT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (52 bp):
GATCTCTCGATACTCTTACATTCCCAAGACATGTTTTACCAAAACCCCAGGC
Found at i:786933 original size:10 final size:10
Alignment explanation
Indices: 786918--786942 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
786908 CAAATATAAC
786918 CTAAATGCAA
1 CTAAATGCAA
786928 CTAAATGCAA
1 CTAAATGCAA
786938 CTAAA
1 CTAAA
786943 ATATTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGCAA
Found at i:793517 original size:23 final size:23
Alignment explanation
Indices: 793483--793567 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
793473 TATTACAATA
*
793483 CCCAAACAAAACCCTAAACTGAG
1 CCCAAACCAAACCCTAAACTGAG
* * *
793506 CCCAAACCAAACCTTATTAC--AA
1 CCCAAACCAAACCCTA-AACTGAG
* *
793528 CACCTAAACCAAACCTTAAACTGGG
1 C-CC-AAACCAAACCCTAAACTGAG
793553 CCCAAACCAAACCCT
1 CCCAAACCAAACCCT
793568 GTTATATCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 2 0.04
23 29 0.59
24 17 0.35
25 1 0.02
ACGTcount: A:0.44, C:0.38, G:0.06, T:0.13
Consensus pattern (23 bp):
CCCAAACCAAACCCTAAACTGAG
Found at i:793542 original size:47 final size:47
Alignment explanation
Indices: 793472--793612 Score: 160
Period size: 47 Copynumber: 3.0 Consensus size: 47
793462 TTATTTATTA
*
793472 TTATTACAATACCCAAACAAAACCCTAAACTGAGCCCAAACCAAACC
1 TTATTACAACACCCAAACAAAACCCTAAACTGAGCCCAAACCAAACC
* * * *
793519 TTATTACAACACCTAAACCAAACCTTAAACTGGGCCCAAACCAAACC
1 TTATTACAACACCCAAACAAAACCCTAAACTGAGCCCAAACCAAACC
* * * * *
793566 CTGTTATATCACCCAAATCAAAACCC-AAACT-AGGCCCTAACCAAACC
1 TTATTACAACACCCAAA-CAAAACCCTAAACTGA-GCCCAAACCAAACC
793613 CGACCTGGGC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 72 0.92
48 6 0.08
ACGTcount: A:0.43, C:0.35, G:0.06, T:0.16
Consensus pattern (47 bp):
TTATTACAACACCCAAACAAAACCCTAAACTGAGCCCAAACCAAACC
Done.