Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 97 of 113
Found at i:19701859 original size:103 final size:102
Alignment explanation
Indices: 19701719--19701917 Score: 258
Period size: 103 Copynumber: 1.9 Consensus size: 102
19701709 TTTTTTATAA
* * * * * *
19701719 AAATATAATCTAGATTTTAATAGATTTTATTATATATTGTAATTT-CAATGAATAAATTTTAAAA
1 AAATATAATCTAAATTTTAATAGATTTTATCAAATATTATAATTTAAAATAAATAAATTTT-AAA
*
19701783 TT-TTCTATTTTTAATAAGTTTTTTGTTTTTTATTTTTT
65 TTCTTCTATTTTTAATAA-TTTTTTCTTTTTTATTTTTT
* * *
19701821 AAATATAATTTAAAATTTTAATATATTTTATCAAATATTATAATTTAAAATAAATGAATTTTAAA
1 AAATATAATCT-AAATTTTAATAGATTTTATCAAATATTATAATTTAAAATAAATAAATTTTAAA
*
19701886 TTCTTTTATTTTTAATAATTTTTTCTTTTTTA
65 TTCTTCTATTTTTAATAATTTTTTCTTTTTTA
19701918 ATTCTCAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
102 10 0.12
103 47 0.57
104 26 0.31
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (102 bp):
AAATATAATCTAAATTTTAATAGATTTTATCAAATATTATAATTTAAAATAAATAAATTTTAAAT
TCTTCTATTTTTAATAATTTTTTCTTTTTTATTTTTT
Found at i:19703244 original size:19 final size:21
Alignment explanation
Indices: 19703217--19703256 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19703207 ATATTCTTGC
*
19703217 TTTCAATAAA-TAAATTACTA
1 TTTCAATAAATTAAATCACTA
19703237 TTTC-ATAAATTAAATCACTA
1 TTTCAATAAATTAAATCACTA
19703257 AATTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTCAATAAATTAAATCACTA
Found at i:19713253 original size:2 final size:2
Alignment explanation
Indices: 19713246--19713281 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19713236 GATGGAAAAC
19713246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19713282 TTGTGTGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19715284 original size:16 final size:16
Alignment explanation
Indices: 19715259--19715289 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19715249 TTAAAAATAA
19715259 TAAAAAATTTAAAACG
1 TAAAAAATTTAAAACG
*
19715275 TAAAAGATTTAAAAC
1 TAAAAAATTTAAAAC
19715290 AATATGTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAAAAATTTAAAACG
Found at i:19715347 original size:10 final size:9
Alignment explanation
Indices: 19715329--19715361 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
19715319 TTCGGTTCTG
19715329 AATAAAAAA
1 AATAAAAAA
19715338 AATAAAAAA
1 AATAAAAAA
19715347 AATAAAAAA
1 AATAAAAAA
*
19715356 CATAAA
1 AATAAA
19715362 GCTCCATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (9 bp):
AATAAAAAA
Found at i:19716466 original size:16 final size:16
Alignment explanation
Indices: 19716425--19716468 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
19716415 TTTAATGTCT
19716425 TATATAAATTTTTTAAA
1 TATA-AAATTTTTTAAA
* * *
19716442 AAGATAATTTTTTAAA
1 TATAAAATTTTTTAAA
19716458 TATAAAATTTT
1 TATAAAATTTT
19716469 AAATCAAGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TATAAAATTTTTTAAA
Found at i:19716606 original size:21 final size:20
Alignment explanation
Indices: 19716578--19716616 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19716568 ATAGGGTTAT
* *
19716578 TTTATAAATAACTAAAATTA
1 TTTATAAAAAAATAAAATTA
19716598 TTTATTAAAAAAATAAAAT
1 TTTA-TAAAAAAATAAAAT
19716617 CCATATTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTATAAAAAAATAAAATTA
Found at i:19716828 original size:2 final size:2
Alignment explanation
Indices: 19716817--19716857 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
19716807 TGTATGTTGT
*
19716817 TA TA TA -A TA TA TA TA TT TA TA TA TA TA TA TA TA T- 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
19716857 T
1 T
19716858 TAGATTGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:19719550 original size:12 final size:12
Alignment explanation
Indices: 19719494--19719553 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 12
19719484 CACAACCATG
*
19719494 AAAATTATTATA
1 AAAAATATTATA
19719506 AAAAATA-TATTA
1 AAAAATATTA-TA
*
19719518 AAAGTAATCTCTCATA
1 AAA--AATAT-T-ATA
19719534 AAAAATATTATA
1 AAAAATATTATA
19719546 AAAAATAT
1 AAAAATAT
19719554 ATTTATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
11 2 0.05
12 22 0.56
13 1 0.03
14 7 0.18
16 6 0.15
17 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAAATATTATA
Found at i:19720663 original size:21 final size:20
Alignment explanation
Indices: 19720639--19720695 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
19720629 TCTAAAACCT
*
19720639 TTATTTTTTTATATTTTAAAA
1 TTATTTTTTAATATTTT-AAA
**
19720660 TTATTTTTTAATAATTTTATT
1 TTATTTTTTAAT-ATTTTAAA
19720681 TTATTTTTTAATATT
1 TTATTTTTTAATATT
19720696 AAAATTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.09
21 24 0.75
22 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTTTAATATTTTAAA
Found at i:19720702 original size:21 final size:21
Alignment explanation
Indices: 19720619--19720702 Score: 66
Period size: 21 Copynumber: 3.9 Consensus size: 21
19720609 ATTACGTTAT
*
19720619 TTTTTTAATATCTAAAACCTTTA
1 TTTTTTAATAT-TAAAA-TTTTA
*
19720642 TTTTTTTATATTTTAAAA--TTA
1 -TTTTTTA-ATATTAAAATTTTA
**
19720663 TTTTTTAATAATT-TTATTTTA
1 TTTTTTAAT-ATTAAAATTTTA
19720684 TTTTTTAATATTAAAATTT
1 TTTTTTAATATTAAAATTT
19720703 ATGAAACTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
19 3 0.06
20 12 0.24
21 19 0.39
24 12 0.24
25 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTAATATTAAAATTTTA
Found at i:19720749 original size:21 final size:21
Alignment explanation
Indices: 19720686--19720750 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
19720676 TTATTTTATT
* *
19720686 TTTTAATATTAAAATTTATGAAA
1 TTTTAATATT-AAATATAT-TAA
* * * *
19720709 CTTTAATTTTAAAAAAATTAA
1 TTTTAATATTAAATATATTAA
19720730 TTTTAATATTAAATATATTAA
1 TTTTAATATTAAATATATTAA
19720751 AATTAAAATT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
21 19 0.59
22 5 0.16
23 8 0.25
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAATATTAAATATATTAA
Found at i:19723063 original size:18 final size:18
Alignment explanation
Indices: 19723040--19723080 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
19723030 TGCATAAATT
19723040 AGTGTAGGTGAAGTTCTA
1 AGTGTAGGTGAAGTTCTA
*
19723058 AGTGTAGGTTAAGTTCTA
1 AGTGTAGGTGAAGTTCTA
19723076 AGTGT
1 AGTGT
19723081 TTCTTTTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.37
Consensus pattern (18 bp):
AGTGTAGGTGAAGTTCTA
Found at i:19726241 original size:14 final size:15
Alignment explanation
Indices: 19726217--19726245 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19726207 CTTGTTGAAT
19726217 ATAATTTTAATAAAA
1 ATAATTTTAATAAAA
19726232 ATAA-TTTAATAAAA
1 ATAATTTTAATAAAA
19726246 TACTTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTTTAATAAAA
Found at i:19736209 original size:23 final size:25
Alignment explanation
Indices: 19736163--19736209 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
19736153 ATTATAGAAA
*
19736163 ATATATTTATTATTTATGTTAAAATG
1 ATATATTTATTATTTA-GTAAAAATG
19736189 ATATATTTATT-TTTA-TAAAAA
1 ATATATTTATTATTTAGTAAAAA
19736210 AATAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
25 4 0.20
26 11 0.55
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
ATATATTTATTATTTAGTAAAAATG
Found at i:19746517 original size:24 final size:22
Alignment explanation
Indices: 19746489--19746536 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
19746479 AGTGATAATG
19746489 ATATAATATTTTAACAAAAAATAT
1 ATATAA-A-TTTAACAAAAAATAT
*
19746513 ATATAAATTTAATAAAAAATAT
1 ATATAAATTTAACAAAAAATAT
19746535 AT
1 AT
19746537 TTCGTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAATTTAACAAAAAATAT
Found at i:19747630 original size:17 final size:17
Alignment explanation
Indices: 19747608--19747642 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19747598 TATATTGTAA
19747608 TTTATATAAATTTAATT
1 TTTATATAAATTTAATT
* *
19747625 TTTATATCATTTTAATT
1 TTTATATAAATTTAATT
19747642 T
1 T
19747643 GATAATCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATATAAATTTAATT
Found at i:19747800 original size:32 final size:31
Alignment explanation
Indices: 19747742--19747825 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
19747732 ATTATATAAC
19747742 TAATTTTTATAATCATATAAAATTTAAAATT
1 TAATTTTTATAATCATATAAAATTTAAAATT
* * *
19747773 TAATTTTTGTATTCAGTATGAAATTTAAAATT
1 TAATTTTTATAATCA-TATAAAATTTAAAATT
19747805 TAAATTTTT-TAAT-ATA-AAAAT
1 T-AATTTTTATAATCATATAAAAT
19747826 ATTTTGAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
29 4 0.09
30 2 0.04
31 14 0.30
32 19 0.41
33 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (31 bp):
TAATTTTTATAATCATATAAAATTTAAAATT
Found at i:19748008 original size:28 final size:27
Alignment explanation
Indices: 19747977--19748057 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 27
19747967 AATTTTAATA
*
19747977 TTTTTAATATTTTGAAGTTTTTACAAAT
1 TTTTTAATATTTT-ATGTTTTTACAAAT
* *
19748005 TTTTTCATATTTTTATTTTTTTATACAAAT
1 TTTTTAATA-TTTTA-TGTTTT-TACAAAT
19748035 TTTTATAATATTTTATGTTTTTA
1 TTTT-TAATATTTTATGTTTTTA
19748058 AAACGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 11 0.25
29 13 0.30
30 16 0.36
31 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTAATATTTTATGTTTTTACAAAT
Found at i:19748620 original size:31 final size:31
Alignment explanation
Indices: 19748582--19748641 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
19748572 AAAGACTAAG
*
19748582 TTTCAAATTTCATACGAATATAAAAATTAAA
1 TTTCAAATTTAATACGAATATAAAAATTAAA
*
19748613 TTTCAAATTTAATATGAATATAAAAATTA
1 TTTCAAATTTAATACGAATATAAAAATTA
19748642 TTTGTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTAATACGAATATAAAAATTAAA
Found at i:19750255 original size:24 final size:24
Alignment explanation
Indices: 19750228--19750281 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
19750218 CATGGATTAA
*
19750228 GTTCTTCATGTCTAGAAATTGCTT
1 GTTCTTCATGTCTACAAATTGCTT
19750252 GTTCTTCATGTCTACAAATTGCTT
1 GTTCTTCATGTCTACAAATTGCTT
19750276 GTTCTT
1 GTTCTT
19750282 TGCCCTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (24 bp):
GTTCTTCATGTCTACAAATTGCTT
Found at i:19750519 original size:3 final size:3
Alignment explanation
Indices: 19750503--19750570 Score: 79
Period size: 3 Copynumber: 23.0 Consensus size: 3
19750493 ATTTAATTTA
* *
19750503 ATT ATT -TT -TT ATT ATT ATG ATT ATT ATG ATT ATT ATT ATTT ATCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T
19750548 ATT ATT ATT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
19750571 TTCTTTTCAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
2 6 0.11
3 45 0.79
4 6 0.11
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19750534 original size:28 final size:28
Alignment explanation
Indices: 19750503--19750572 Score: 70
Period size: 31 Copynumber: 2.4 Consensus size: 28
19750493 ATTTAATTTA
19750503 ATTATTTTTTAT-TATTATGATTATTATG
1 ATTATTTTTTATCTATTATGATT-TTATG
* *
19750531 ATTATTATTATTTATCTATTATTATTTTATT
1 ATTA-T-TT-TTTATCTATTATGATTTTATG
19750562 ATTATTATTTT
1 ATTATT-TTTT
19750573 CTTTTCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
28 4 0.11
29 5 0.14
30 4 0.11
31 13 0.37
32 9 0.26
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (28 bp):
ATTATTTTTTATCTATTATGATTTTATG
Found at i:19750552 original size:14 final size:14
Alignment explanation
Indices: 19750533--19750585 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
19750523 TTATTATGAT
19750533 TATTATTATTTATC
1 TATTATTATTTATC
19750547 TATTATTATTTTAT-
1 TATTATTA-TTTATC
19750561 TATTATTATTT-TC
1 TATTATTATTTATC
*
19750574 TTTTCATTATTT
1 TATT-ATTATTT
19750586 GTTAATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
12 1 0.03
13 6 0.17
14 23 0.66
15 5 0.14
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTATTATTTATC
Found at i:19750582 original size:28 final size:28
Alignment explanation
Indices: 19750514--19750594 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
19750504 TTATTTTTTA
*
19750514 TTAT-TATGATTATTATGATTATTATTAT
1 TTATCTATTATTATT-TGATTATTATTAT
*
19750542 TTATCTATTATTATTTTATTATTATTAT
1 TTATCTATTATTATTTGATTATTATTAT
* *
19750570 TT-TCTTTTCATTATTTG-TTAATATT
1 TTATCTATT-ATTATTTGATTATTATT
19750595 TTTTTTTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.26
28 25 0.54
29 9 0.20
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
TTATCTATTATTATTTGATTATTATTAT
Found at i:19755202 original size:19 final size:20
Alignment explanation
Indices: 19755154--19755204 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
19755144 TTTTAGAAAG
**
19755154 AAAAGAGCCTAAAGATAAAA
1 AAAAGAGCAAAAAGATAAAA
*
19755174 AAAGGAAGCAAAAAGA-AAAA
1 AAAAG-AGCAAAAAGATAAAA
19755194 AAAAGAGCAAA
1 AAAAGAGCAAA
19755205 GAAAAATGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
20 12 0.46
21 8 0.31
ACGTcount: A:0.71, C:0.08, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAAGAGCAAAAAGATAAAA
Found at i:19755569 original size:10 final size:10
Alignment explanation
Indices: 19755554--19755680 Score: 60
Period size: 10 Copynumber: 12.2 Consensus size: 10
19755544 TAAACGAATG
19755554 AAAAAAGAAA
1 AAAAAAGAAA
*
19755564 AAAAAACAATA
1 AAAAAAGAA-A
**
19755575 AAAAAA-ATC
1 AAAAAAGAAA
**
19755584 AAAAAA-TTA
1 AAAAAAGAAA
*
19755593 AAAAATGAAA
1 AAAAAAGAAA
*
19755603 AAAAAAGGAA
1 AAAAAAGAAA
*
19755613 AAAAATGAAAA
1 AAAAAAG-AAA
19755624 AAAAAAGGAAA
1 AAAAAA-GAAA
* *
19755635 AAAAGAGAGA
1 AAAAAAGAAA
* *
19755645 AAGAATGAAAA
1 AAAAAAG-AAA
19755656 ATTAAAAATGAAA
1 A--AAAAA-GAAA
*
19755669 AAAAATGAAA
1 AAAAAAGAAA
19755679 AA
1 AA
19755681 TGAAAAAAAG
Statistics
Matches: 87, Mismatches: 22, Indels: 16
0.70 0.18 0.13
Matches are distributed among these distances:
9 12 0.14
10 37 0.43
11 29 0.33
12 1 0.01
13 7 0.08
14 1 0.01
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:19755628 original size:32 final size:31
Alignment explanation
Indices: 19755592--19755689 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 31
19755582 TCAAAAAATT
19755592 AAAAAATGAAAAAAAAAGGAAAAAAATGAAAA
1 AAAAAATGAAAAAAAAA-GAAAAAAATGAAAA
* * *
19755624 AAAAAAGGAAAAAAAGAGAGAAAGAATGAAAA
1 AAAAAATGAAAAAAAAAGA-AAAAAATGAAAA
*
19755656 ATTAAAAATGAAAAAAAATG--AAAAATGAAAA
1 A--AAAAATGAAAAAAAAAGAAAAAAATGAAAA
19755687 AAA
1 AAA
19755690 GAGAAAATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 2 0.04
31 13 0.23
32 27 0.48
34 14 0.25
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (31 bp):
AAAAAATGAAAAAAAAAGAAAAAAATGAAAA
Found at i:19755635 original size:20 final size:20
Alignment explanation
Indices: 19755592--19755638 Score: 85
Period size: 21 Copynumber: 2.3 Consensus size: 20
19755582 TCAAAAAATT
19755592 AAAAAATGAAAAAAAAAGGA
1 AAAAAATGAAAAAAAAAGGA
19755612 AAAAAATGAAAAAAAAAAGGA
1 AAAAAATG-AAAAAAAAAGGA
19755633 AAAAAA
1 AAAAAA
19755639 GAGAGAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAAATGAAAAAAAAAGGA
Found at i:19755662 original size:24 final size:24
Alignment explanation
Indices: 19755633--19755700 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
19755623 AAAAAAAGGA
*
19755633 AAAAAAGAGAGAAAGAATGAAAAATT
1 AAAAAAGAGA-AAA-AATGAAAAATG
* *
19755659 AAAAATGAAAAAAAATGAAAAATG
1 AAAAAAGAGAAAAAATGAAAAATG
*
19755683 AAAAAA-AGAGAAAATGAA
1 AAAAAAGAGAAAAAATGAA
19755701 TACTTAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 10 0.28
24 15 0.42
25 3 0.08
26 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (24 bp):
AAAAAAGAGAAAAAATGAAAAATG
Found at i:19755679 original size:16 final size:17
Alignment explanation
Indices: 19755659--19755700 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
19755649 ATGAAAAATT
19755659 AAAAATGAAAAAAA-ATG
1 AAAAATGAAAAAAAGA-G
19755676 AAAAATGAAAAAAAGAG
1 AAAAATGAAAAAAAGAG
19755693 -AAAATGAA
1 AAAAATGAA
19755701 TACTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 15 0.62
18 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAAATGAAAAAAAGAG
Found at i:19755689 original size:10 final size:10
Alignment explanation
Indices: 19755592--19755680 Score: 63
Period size: 10 Copynumber: 8.3 Consensus size: 10
19755582 TCAAAAAATT
19755592 AAAAAATGAA
1 AAAAAATGAA
* *
19755602 AAAAAAAGGA
1 AAAAAATGAA
19755612 AAAAAATGAAAA
1 AAAAAATG--AA
*
19755624 AAAAAAGGAA
1 AAAAAATGAA
*
19755634 AAAAAGA-GAG
1 AAAAA-ATGAA
*
19755644 AAAGAATGAAAA
1 AAAAAATG--AA
19755656 ATTAAAAATGAA
1 A--AAAAATGAA
19755668 AAAAAATGAA
1 AAAAAATGAA
19755678 AAA
1 AAA
19755681 TGAAAAAAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
9 1 0.02
10 41 0.66
11 1 0.02
12 13 0.21
14 6 0.10
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.08
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:19756916 original size:21 final size:21
Alignment explanation
Indices: 19756867--19756931 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 21
19756857 TAGAGTCTTA
19756867 ATTTCAAATAAGAATCTTT-G
1 ATTTCAAATAAGAATCTTTGG
** *
19756887 AACTCAAATGAGAATCTTTGG
1 ATTTCAAATAAGAATCTTTGG
*
19756908 GTTTCAAATAAGAATCTTT-G
1 ATTTCAAATAAGAATCTTTGG
19756928 ATTT
1 ATTT
19756932 GTGAAACCCT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 20 0.56
21 16 0.44
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (21 bp):
ATTTCAAATAAGAATCTTTGG
Found at i:19757218 original size:41 final size:41
Alignment explanation
Indices: 19757160--19757238 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
19757150 GAATCTTGAG
* * *
19757160 AAACTGAAATTTTGAGAAGCAAATTTCAGTGAGTTTTGGTA
1 AAACTAAAATTTGGAGAAGCAAATTTCAGTGAATTTTGGTA
* *
19757201 AAACTAAAATTTGGAGAATCAAATTTTAGTGAATTTTG
1 AAACTAAAATTTGGAGAAGCAAATTTCAGTGAATTTTG
19757239 ACAAAGCTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (41 bp):
AAACTAAAATTTGGAGAAGCAAATTTCAGTGAATTTTGGTA
Found at i:19757480 original size:42 final size:42
Alignment explanation
Indices: 19757361--19757705 Score: 382
Period size: 42 Copynumber: 8.4 Consensus size: 42
19757351 ACGATTGTCA
*
19757361 AGGAGCAATTTA-TTTCAAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
* * *
19757402 AGGAGCAATTTATTTTTCAAAAGTCATGGTTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTCGTGGTTGCCTCTATTTAG
* *
19757445 AGGAGCAATTTACTTTCCAAAGTCGTAGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
* * * *
19757487 AGAAGC-ATTTATTTTTCAAAGTCATGGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
* * *
19757528 AAGAGAAATTTATTTTTCAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
** * * * * *
19757570 AGGAGCAATTTATTTTTTAAAGTCATGGTTACCTTTGTTTAA
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
* *
19757612 AGGAGCAATTTATTTTCCAAAAGTTGT-G-TGCCTCTATTTAA
1 AGGAGCAATTTATTTTCC-AAAGTCGTGGTTGCCTCTATTTAG
* * * *
19757653 AGGAGTAATTT-TTTT-CAAAGTCGTGG-TGCCTTTGTTTAA
1 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
19757692 AGGAGC-ATTTATTT
1 AGGAGCAATTTATTT
19757706 CTTTAAAAAT
Statistics
Matches: 260, Mismatches: 38, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
38 11 0.04
39 21 0.08
40 4 0.02
41 65 0.25
42 114 0.44
43 45 0.17
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (42 bp):
AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
Found at i:19757538 original size:83 final size:84
Alignment explanation
Indices: 19757363--19757705 Score: 445
Period size: 83 Copynumber: 4.2 Consensus size: 84
19757353 GATTGTCAAG
*
19757363 GAGCAATTTA-TTTCAAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAAGTC
1 GAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTC-AAAGTC
*
19757427 ATGGTTGCCTCTGTTTAGAG
65 ATGGTTGCCTCTGTTTAGAA
* * *
19757447 GAGCAATTTACTTTCCAAAGTCGTAGTTGCCTCTATTTAGAGAAGC-ATTTATTTTTCAAAGTCA
1 GAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCA
19757511 TGGTTGCCTCTGTTTAGAA
66 TGGTTGCCTCTGTTTAGAA
* * *
19757530 GAGAAATTTATTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTAAAGTCA
1 GAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCA
* *
19757595 TGGTTACCTTTGTTTA-AA
66 TGGTTGCCTCTGTTTAGAA
* * *
19757613 GGAGCAATTTATTTTCCAAAAGTTGT-G-TGCCTCTATTTAAAGGAGTAA-TT-TTTTTCAAAGT
1 -GAGCAATTTATTTTCC-AAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGT
* *
19757674 CGTGG-TGCCTTTGTTTA-AA
64 CATGGTTGCCTCTGTTTAGAA
19757693 GGAGC-ATTTATTT
1 -GAGCAATTTATTT
19757706 CTTTAAAAAT
Statistics
Matches: 235, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
79 8 0.03
80 18 0.08
81 14 0.06
82 2 0.01
83 87 0.37
84 67 0.29
85 39 0.17
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.41
Consensus pattern (84 bp):
GAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAGTCA
TGGTTGCCTCTGTTTAGAA
Found at i:19757592 original size:125 final size:126
Alignment explanation
Indices: 19757364--19757712 Score: 396
Period size: 125 Copynumber: 2.8 Consensus size: 126
19757354 ATTGTCAAGG
* *
19757364 AGCAATTTA--TTTCAAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAAGTC
1 AGCAATTTATTTTTCAAAAGTC-TGGTTGCCTCTATTTAGAAGAGAAATTTATTTTTC-AAAGTC
* * ** * * *
19757427 ATGGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTAGTTGCCTCTATTTAGAGA
64 GTGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTCATAGTTACCTCTATTTAAAGA
*
19757490 AGC-ATTTATTTTTC-AAAGTCATGGTTGCCTCTGTTTAGAAGAGAAATTTATTTTTCAAAGTCG
1 AGCAATTTATTTTTCAAAAGTC-TGGTTGCCTCTATTTAGAAGAGAAATTTATTTTTCAAAGTCG
* * * * *
19757553 TGGTTGCCTCTATTTAGAGGAGCAATTTATTTTTTAAAGTCATGGTTACCTTTGTTTAAAGG
65 TGGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTCATAGTTACCTCTATTTAAAGA
* *
19757615 AGCAATTTATTTTCCAAAAGT-T-GTGTGCCTCTATTTA-AAGGAGTAA-TT-TTTTTCAAAGTC
1 AGCAATTTATTTTTCAAAAGTCTGGT-TGCCTCTATTTAGAA-GAGAAATTTATTTTTCAAAGTC
* *
19757675 GTGG-TGCCTTTGTTTAAAGGAGC-ATTTATTTCTTTAAA
64 GTGGTTGCCTCTGTTTAGAGGAGCAATTTATTT-TTTAAA
19757713 AATTGTAGGG
Statistics
Matches: 194, Mismatches: 22, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
121 8 0.04
122 22 0.11
123 16 0.08
124 6 0.03
125 82 0.42
126 51 0.26
127 9 0.05
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (126 bp):
AGCAATTTATTTTTCAAAAGTCTGGTTGCCTCTATTTAGAAGAGAAATTTATTTTTCAAAGTCGT
GGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTCATAGTTACCTCTATTTAAAGA
Found at i:19757778 original size:44 final size:45
Alignment explanation
Indices: 19757724--19757834 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
19757714 ATTGTAGGGT
* * *
19757724 CTCTGTTTAGAGGAGATTTGTTTTATTTT-TCAAAGTCATTGAGC
1 CTCTGATTAGAGGAGCTTTGATTTATTTTATCAAAGTCATTGAGC
*
19757768 CTCTGATTAGAGGAGCTTT-ATTTATTTTACTCAAAGTTATTGAGC
1 CTCTGATTAGAGGAGCTTTGATTTATTTTA-TCAAAGTCATTGAGC
19757813 CTCT-ACTTAGAGGAGCTTTGAT
1 CTCTGA-TTAGAGGAGCTTTGAT
19757835 CATAATTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
43 8 0.14
44 18 0.31
45 31 0.53
46 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (45 bp):
CTCTGATTAGAGGAGCTTTGATTTATTTTATCAAAGTCATTGAGC
Found at i:19757853 original size:1 final size:1
Alignment explanation
Indices: 19757847--19757886 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
19757837 TAATTTTAAC
* * *
19757847 AAAAAAAAATAAAAAAAAAACAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19757887 TGTCGAGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.93, C:0.05, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:19757862 original size:10 final size:10
Alignment explanation
Indices: 19757844--19757886 Score: 68
Period size: 10 Copynumber: 4.2 Consensus size: 10
19757834 TCATAATTTT
19757844 AACAAAAAAA
1 AACAAAAAAA
*
19757854 AATAAAAAAAA
1 AA-CAAAAAAA
19757865 AACAAAAAAA
1 AACAAAAAAA
19757875 AACAAAAAAA
1 AACAAAAAAA
19757885 AA
1 AA
19757887 TGTCGAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (10 bp):
AACAAAAAAA
Found at i:19757868 original size:21 final size:21
Alignment explanation
Indices: 19757844--19757886 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19757834 TCATAATTTT
*
19757844 AACAAAAAAAAATAAAAAAAA
1 AACAAAAAAAAACAAAAAAAA
19757865 AACAAAAAAAAACAAAAAAAA
1 AACAAAAAAAAACAAAAAAAA
19757886 A
1 A
19757887 TGTCGAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.02
Consensus pattern (21 bp):
AACAAAAAAAAACAAAAAAAA
Found at i:19758080 original size:3 final size:3
Alignment explanation
Indices: 19758066--19758160 Score: 97
Period size: 3 Copynumber: 31.7 Consensus size: 3
19758056 ATTTAATTTT
* *
19758066 TTA TTA TGA TTA TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
19758114 TTTA TCTA TTA ATA TT- TT- TTA TCTA TTA ATA TT- TTT TTA TTA TTA
1 -TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
19758159 TT
1 TT
19758161 TTCTTTTAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
2 6 0.08
3 63 0.81
4 9 0.12
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19758129 original size:14 final size:14
Alignment explanation
Indices: 19758102--19758194 Score: 59
Period size: 14 Copynumber: 6.6 Consensus size: 14
19758092 ATGATTATTA
*
19758102 TTAT-TATTATTAT
1 TTATCTATTAATAT
19758115 TTATCTATTAATATTTT
1 TTATCTATTAATA---T
19758132 TTATCTATTAATAT
1 TTATCTATTAATAT
* * *
19758146 TTTTTTATTATTAT
1 TTATCTATTAATAT
*
19758160 TT-TCTTTTAATTAT
1 TTATCTATTAA-TAT
* *
19758174 TTGT-TAAT-ATAT
1 TTATCTATTAATAT
19758186 TTATCTATT
1 TTATCTATT
19758195 TTTTTTCTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
12 6 0.10
13 13 0.21
14 28 0.45
15 1 0.02
17 14 0.23
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (14 bp):
TTATCTATTAATAT
Found at i:19758147 original size:17 final size:17
Alignment explanation
Indices: 19758099--19758150 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
19758089 ATTATGATTA
* *
19758099 TTAT-TATTATTATTAT
1 TTATCTATTAATATTTT
19758115 TTATCTATTAATATTTT
1 TTATCTATTAATATTTT
19758132 TTATCTATTAATATTTT
1 TTATCTATTAATATTTT
19758149 TT
1 TT
19758151 TATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
16 4 0.12
17 29 0.88
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATCTATTAATATTTT
Found at i:19758147 original size:31 final size:30
Alignment explanation
Indices: 19758102--19758162 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
19758092 ATGATTATTA
*
19758102 TTATTATTATTATTTATCTATTAATATTTT
1 TTATTATTAATATTTATCTATTAATATTTT
* * *
19758132 TTATCTATTAATATTTTTTTATTATTATTTT
1 TTAT-TATTAATATTTATCTATTAATATTTT
19758163 CTTTTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTATTATTAATATTTATCTATTAATATTTT
Found at i:19758157 original size:17 final size:18
Alignment explanation
Indices: 19758096--19758158 Score: 78
Period size: 17 Copynumber: 3.6 Consensus size: 18
19758086 ATTATTATGA
*
19758096 TTAT-TATTATTATTATTAT
1 TTATCTATTAATATT-TT-T
19758115 TTATCTATTAATA-TTTT
1 TTATCTATTAATATTTTT
19758132 TTATCTATTAATATTTTT
1 TTATCTATTAATATTTTT
19758150 TTAT-TATTA
1 TTATCTATTA
19758159 TTTTCTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
17 19 0.46
18 10 0.24
19 5 0.12
20 7 0.17
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATCTATTAATATTTTT
Found at i:19758167 original size:17 final size:16
Alignment explanation
Indices: 19758062--19758174 Score: 66
Period size: 17 Copynumber: 6.8 Consensus size: 16
19758052 TTTAATTTAA
*
19758062 TTTTTTATTATGATTAT
1 TTTTTTATTATTATT-T
* *
19758079 TATTATTATTATTA-TG
1 T-TTTTTATTATTATTT
* * *
19758095 ATTATTATTATTATTA
1 TTTTTTATTATTATTT
* * *
19758111 TTATTTATCTATTAATA
1 TTTTTTAT-TATTATTT
*
19758128 TTTTTTATCTATTAATAT
1 TTTTTTAT-TATT-ATTT
19758146 TTTTTTATTATTATTT
1 TTTTTTATTATTATTT
*
19758162 TCTTTTAATTATT
1 T-TTTTTATTATT
19758175 TGTTAATATA
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
15 12 0.16
16 10 0.13
17 35 0.46
18 19 0.25
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTTATTATTATTT
Found at i:19759287 original size:68 final size:66
Alignment explanation
Indices: 19759112--19759323 Score: 185
Period size: 68 Copynumber: 3.3 Consensus size: 66
19759102 TTTGAAGGAG
* * * *
19759112 AGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGG-TTT--AATATATATATATTTTTAGGAAA
1 AGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGGTTTTAAAAAATTTATAAAATTTTAGGAAA
19759174 A
66 A
* ** *
19759175 AGTTG-AAGTATCAATTTTC-TT-AAAA-AAAAAATTTTTAAATAAAAATTTCTAAAACCATTTT
1 AGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGGTTTT--A-AAAAATTTAT-AAA--ATTTT
19759236 AGG-AAA
60 AGGAAAA
* *
19759242 AGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGGTTTTAAAAAA-TTAT--ATTTTTAGAAAA
1 AGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGGTTTTAAAAAATTTATAAAATTTTAG-GAA
19759304 AA
65 AA
*
19759306 AATTGAAAGTATCAATTT
1 AGTTGAAAGTATCAATTT
19759324 TTTCTTGAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
59 5 0.04
60 7 0.06
61 2 0.02
62 19 0.16
63 5 0.04
64 21 0.18
65 6 0.05
66 2 0.02
67 11 0.09
68 25 0.21
69 3 0.03
70 4 0.03
71 9 0.08
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (66 bp):
AGTTGAAAGTATCAATTTCCTTTGAAAATAAAAAGGTTTTAAAAAATTTATAAAATTTTAGGAAA
A
Found at i:19761159 original size:16 final size:16
Alignment explanation
Indices: 19761138--19761172 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
19761128 ATTACATTTT
19761138 GTAAAATTCTTAAATA
1 GTAAAATTCTTAAATA
19761154 GTAAAATTCTTAAATA
1 GTAAAATTCTTAAATA
19761170 GTA
1 GTA
19761173 CCTTTCACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (16 bp):
GTAAAATTCTTAAATA
Found at i:19763839 original size:56 final size:57
Alignment explanation
Indices: 19763771--19764379 Score: 590
Period size: 56 Copynumber: 10.6 Consensus size: 57
19763761 AAAAAAAATA
** * *
19763771 TTTTTGAAAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAA-TTTCAAAAACGG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAGG
* * * * * ** * **
19763827 TTTTCGAGAAAAAGTTAAAATTATCAATTTTTCTCGAAATTAAAGTTTCCAAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTT-CAAAAAAGG
* * * *
19763885 TTTTT-AGGTAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTAAAAAAAAAAAGTT
1 TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTT----CAAAAAAG-G
** * **
19763946 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTT-CAAAAAAGG
** * *
19764004 TTTTTG-GGAAAAAGTTGAAAACATCAATTTTCCTTAAAAATAAACTTTAAAAAAAGG
1 TTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAGG
* * *
19764061 TTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAGG
*
19764118 TTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAACTTTCAAAAAAGG
1 ---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAGTTTCAAAAAAGG
* *
19764179 TTTTTGAGGAAAAGTTGAAAGTATTAATTTTTC-TAAAAAT-AAGTTTTCAAAAAAGG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAG-TTTCAAAAAAGG
* * * **
19764235 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCAAAAGATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAGG
* ** * * *
19764292 TTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCGAGATTAAAATTTCTAAAAAA--
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTC-AAAAAAGG
*
19764347 TATTTTG-GGAAAAAGTTGAAAGAATCAATTTTC
1 T-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTC
19764380 TCTGTACAAA
Statistics
Matches: 463, Mismatches: 68, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
55 3 0.01
56 127 0.27
57 112 0.24
58 114 0.25
59 6 0.01
60 39 0.08
61 56 0.12
62 6 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCAAAAAAGG
Found at i:19768804 original size:11 final size:11
Alignment explanation
Indices: 19768788--19768813 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19768778 GAAGATGATC
19768788 AAAAAAAATAA
1 AAAAAAAATAA
19768799 AAAAAAAATAA
1 AAAAAAAATAA
19768810 AAAA
1 AAAA
19768814 TGAGAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:19770473 original size:41 final size:41
Alignment explanation
Indices: 19770411--19770494 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
19770401 ATGATTGTCA
* * *
19770411 AGGAGCCATTTATTTTCCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTTCCGGTGCCTCTATTTAG
**
19770452 AGGAGCAATTTACTTTT-CAAAGTTTTGGTGCCTCTATTTAG
1 AGGAGCAATTTA-TTTTCCAAAGTTCCGGTGCCTCTATTTAG
19770493 AG
1 AG
19770495 ACTCTGTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 33 0.89
42 4 0.11
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (41 bp):
AGGAGCAATTTATTTTCCAAAGTTCCGGTGCCTCTATTTAG
Found at i:19770524 original size:54 final size:54
Alignment explanation
Indices: 19770442--19770548 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
19770432 GTTCCGTTGC
**
19770442 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTTTGGTGCCTCTATTTAGAGA
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGA
*
19770496 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAG
19770549 GAGCAATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (54 bp):
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGA
Found at i:19770583 original size:42 final size:41
Alignment explanation
Indices: 19770496--19770845 Score: 529
Period size: 42 Copynumber: 8.4 Consensus size: 41
19770486 TATTTAGAGA
19770496 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
* **
19770537 CTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCACGGTGC
1 CTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGC
*
19770579 CTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCATGGTGC
1 CTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGGTGC
* *
19770621 CTCTGTTTATAGGAGCAATTTACTTTTCAAAAGTCGTGATGC
1 CTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGC
* *
19770663 CTCTGTTTAGAAGAGCAATTTACTTTCTCAAAAGTCGTGGTAC
1 CTCTGTTTAGAGGAGCAATTTACTTT-TC-AAAGTCGTGGTGC
*
19770706 CTCTGTTTAGAGGAGTAATTTACTTTTTCAAAGTCGTGGTGC
1 CTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTGC
19770748 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
* *
19770789 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAGC
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
* *
19770830 CTCTATTTAGATGAGC
1 CTCTGTTTAGAGGAGC
19770846 TTTGAAAAAA
Statistics
Matches: 284, Mismatches: 20, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
41 100 0.35
42 143 0.50
43 38 0.13
44 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (41 bp):
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGC
Found at i:19770856 original size:1 final size:1
Alignment explanation
Indices: 19770850--19770927 Score: 75
Period size: 1 Copynumber: 78.0 Consensus size: 1
19770840 ATGAGCTTTG
* * * * * ** *
19770850 AAAAAAAAACAAAAAAAAAAAACAAAAAACAAAAAAAAAAAACAAAAAACAAAAAAGCAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
19770915 AAACAAAAAAAAA
1 AAAAAAAAAAAAA
19770928 TTACCTCTGT
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:19770865 original size:7 final size:7
Alignment explanation
Indices: 19770853--19770924 Score: 100
Period size: 7 Copynumber: 10.9 Consensus size: 7
19770843 AGCTTTGAAA
19770853 AAAAAAC
1 AAAAAAC
19770860 AAAAAA-
1 AAAAAAC
19770866 AAAAAAC
1 AAAAAAC
19770873 AAAAAAC
1 AAAAAAC
19770880 AAAAAA-
1 AAAAAAC
19770886 AAAAAAC
1 AAAAAAC
19770893 AAAAAAC
1 AAAAAAC
19770900 AAAAAAGC
1 AAAAAA-C
19770908 ---AAAC
1 AAAAAAC
19770912 AAAAAAC
1 AAAAAAC
19770919 AAAAAA
1 AAAAAA
19770925 AAATTACCTC
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.02
5 3 0.05
6 12 0.20
7 42 0.71
8 1 0.02
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:19770878 original size:20 final size:20
Alignment explanation
Indices: 19770853--19770927 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
19770843 AGCTTTGAAA
19770853 AAAAAACAAAAAAAAAAAAC
1 AAAAAACAAAAAAAAAAAAC
19770873 AAAAAACAAAAAAAAAAAAC
1 AAAAAACAAAAAAAAAAAAC
**
19770893 AAAAAAC-AAAAAAGCAAAC
1 AAAAAACAAAAAAAAAAAAC
19770912 AAAAAACAAAAAAAAA
1 AAAAAACAAAAAAAAA
19770928 TTACCTCTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.34
20 33 0.66
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAAAAAAAAAAC
Found at i:19771591 original size:32 final size:31
Alignment explanation
Indices: 19771555--19771617 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
19771545 AAAATAGAAA
* *
19771555 AAAGATAGAGGAAGAATCCGAATAGGAAGAGG
1 AAAGATAAAAGAAGAATCCGAATAGG-AGAGG
*
19771587 AAAGATAAAAGAAGAATCTGAATAGGAGAGG
1 AAAGATAAAAGAAGAATCCGAATAGGAGAGG
19771618 GGAGGTAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.52, C:0.05, G:0.32, T:0.11
Consensus pattern (31 bp):
AAAGATAAAAGAAGAATCCGAATAGGAGAGG
Found at i:19773401 original size:59 final size:59
Alignment explanation
Indices: 19773205--19773531 Score: 391
Period size: 59 Copynumber: 5.6 Consensus size: 59
19773195 TTTTGTGCAG
* * *
19773205 GGAAAATTGATAGTTTCAACTTTT-CCCAAAAATATTCTTTTG-AAACTTT-AATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAAACTTTGATTTTCAA
* *
19773262 GGAAAATTGATACGTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAA-TTT-A--TT-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA--TA-TTTTTTGAAAACTTTGATTTTCAA
* * * *
19773319 GAAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTTATTTTGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAA
* * * * * *
19773378 GGAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTGGAAACCTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAA
* * *
19773437 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAA
*
19773496 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT
19773532 ATATTTTTTT
Statistics
Matches: 233, Mismatches: 27, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
54 11 0.05
55 5 0.02
56 1 0.00
57 52 0.22
58 11 0.05
59 137 0.59
60 11 0.05
61 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAA
Found at i:19773608 original size:5 final size:5
Alignment explanation
Indices: 19773566--19773658 Score: 93
Period size: 5 Copynumber: 18.2 Consensus size: 5
19773556 AAAATAGAAT
*
19773566 AATAA AACAA AATAA AAGTGAA AAT-A AAT-A AA-AA AATAA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
* *
19773615 AATAA AATAA AGTAA AACAAA AATAAA AATAA AATAA AGATAA A
1 AATAA AATAA AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA A
19773659 TAGAATATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
4 10 0.13
5 45 0.60
6 16 0.21
7 4 0.05
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:19773660 original size:42 final size:43
Alignment explanation
Indices: 19773566--19773658 Score: 127
Period size: 42 Copynumber: 2.1 Consensus size: 43
19773556 AAAATAGAAT
* *
19773566 AATAAAACAAAATAAAAGTGAAAATAAATAAAAAAATAAAATAA
1 AATAAAATAAAAT-AAAGTGAAAACAAATAAAAAAATAAAATAA
19773610 AATAAAATAAAATAAAGT-AAAACAAA-AATAAAAATAAAATAA
1 AATAAAATAAAATAAAGTGAAAACAAATAA-AAAAATAAAATAA
19773652 AGATAAA
1 A-ATAAA
19773659 TAGAATATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
41 2 0.04
42 21 0.47
43 10 0.22
44 12 0.27
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.16
Consensus pattern (43 bp):
AATAAAATAAAATAAAGTGAAAACAAATAAAAAAATAAAATAA
Found at i:19773727 original size:12 final size:12
Alignment explanation
Indices: 19773683--19773730 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
19773673 AACCTAATCT
19773683 AATAAATAAAAATA
1 AATAAAT-AAAA-A
19773697 AATAAATAAAAA
1 AATAAATAAAAA
* **
19773709 AACAAATAAGCA
1 AATAAATAAAAA
19773721 AATAAATAAA
1 AATAAATAAA
19773731 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 18 0.62
13 4 0.14
14 7 0.24
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:19774091 original size:20 final size:20
Alignment explanation
Indices: 19774066--19774111 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
19774056 CGGTTGAATG
*
19774066 TTCATCGAATTCTGGATTTT
1 TTCATCGAAATCTGGATTTT
*
19774086 TTCATCGAAATCTGGGTTTT
1 TTCATCGAAATCTGGATTTT
19774106 TT-ATCG
1 TTCATCG
19774112 GAAGTTAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (20 bp):
TTCATCGAAATCTGGATTTT
Found at i:19774604 original size:21 final size:21
Alignment explanation
Indices: 19774545--19774638 Score: 77
Period size: 21 Copynumber: 4.3 Consensus size: 21
19774535 AATTTTCAAC
*
19774545 CAGATAAATAAAAAAAAATAAA
1 CAGATAAAT-CAAAAAAATAAA
*
19774567 -A-AAAAATCAAACGAAAATAAA
1 CAGATAAATCAAA--AAAATAAA
*
19774588 TCAGATAAATCAAAAAAATTAA
1 -CAGATAAATCAAAAAAATAAA
*
19774610 CAGATAAATTAAAATTAAAT-AA
1 CAGATAAATCAAAA--AAATAAA
19774632 CAGATAA
1 CAGATAA
19774639 TTAAATAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.05
20 5 0.08
21 22 0.37
22 16 0.27
23 5 0.08
24 9 0.15
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.18
Consensus pattern (21 bp):
CAGATAAATCAAAAAAATAAA
Found at i:19774635 original size:22 final size:21
Alignment explanation
Indices: 19774545--19774655 Score: 75
Period size: 22 Copynumber: 5.1 Consensus size: 21
19774535 AATTTTCAAC
* *
19774545 CAGATAAATAAAAAAAAATAA
1 CAGATAAATTAAAAAAATTAA
* * * *
19774566 -AAAAAAATCAAACGAAAATAAA
1 CAGATAAATTAAA--AAAATTAA
*
19774588 TCAGATAAATCAAAAAAATTAA
1 -CAGATAAATTAAAAAAATTAA
19774610 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAATTAAAA--AAATTAA
19774632 CAGAT-AATTAAATAAATATTAA
1 CAGATAAATTAAA-AAA-ATTAA
19774654 CA
1 CA
19774656 AAAAAAAGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
20 11 0.15
21 21 0.29
22 27 0.38
23 3 0.04
24 10 0.14
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.21
Consensus pattern (21 bp):
CAGATAAATTAAAAAAATTAA
Found at i:19774778 original size:5 final size:5
Alignment explanation
Indices: 19774731--19774838 Score: 71
Period size: 5 Copynumber: 21.0 Consensus size: 5
19774721 CCTAAGATAA
* * * * *
19774731 AAAAT AATAAT AAAAG AAAAG AAAAA AAAAT ATACAT -ATAT AAAAT AATAAT
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AA-AAT
*
19774783 -AAA- AAAAT AAAAT AAAAT AAAATGT AAAAT ACAA- AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA--T AAAAT AAAAT AAAAT -AAAAT
19774828 AAAAAT AAAAT
1 -AAAAT AAAAT
19774839 GAAGAAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
4 11 0.13
5 47 0.55
6 22 0.26
7 5 0.06
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:19774805 original size:44 final size:42
Alignment explanation
Indices: 19774727--19774849 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 42
19774717 AATACCTAAG
* * * *
19774727 ATAAAAAATAATAATAAAAGAAAAGAAAAAAAAATATACATAT
1 ATAAAAAATAATAAAAAAATAAAATAAAAAAAAATATA-AAAT
* *
19774770 ATAAAATAATAATAAAAAAATAAAATAAAATAAAATGTAAAAT
1 ATAAAA-AATAATAAAAAAATAAAATAAAAAAAAATATAAAAT
* *
19774813 ACAAAAAATAAAAATAAAAATAAAATGAAGAAAAAAA
1 ATAAAAAATAATAA-AAAAATAAAAT-AA-AAAAAAA
19774850 ATGTATATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 7 0.10
43 25 0.37
44 29 0.43
45 6 0.09
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (42 bp):
ATAAAAAATAATAAAAAAATAAAATAAAAAAAAATATAAAAT
Found at i:19774826 original size:22 final size:22
Alignment explanation
Indices: 19774786--19774838 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
19774776 TAATAATAAA
19774786 AAAATAAAATAAAATAAAATGT
1 AAAATAAAATAAAATAAAATGT
* *
19774808 AAAATACAA-AAAATAAAAAT-A
1 AAAATAAAATAAAAT-AAAATGT
19774829 AAAATAAAAT
1 AAAATAAAAT
19774839 GAAGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAATGT
Found at i:19774827 original size:6 final size:6
Alignment explanation
Indices: 19774730--19774837 Score: 56
Period size: 6 Copynumber: 16.7 Consensus size: 6
19774720 ACCTAAGATA
* * * * *
19774730 AAAAAT AATAAT AAAAGAA AAGAAAA AAAAAT ATACATAT ATAAAAT AATAAT
1 AAAAAT AAAAAT AAAA-AT AA-AAAT AAAAAT A-A-AAAT A-AAAAT AAAAAT
* * *
19774783 AAAAAA ATAAAAT -AAAAT AAAATGT AAAATACA AAAAAT AAAAAT AAAAAT
1 AAAAAT A-AAAAT AAAAAT AAAA-AT AAAA-A-T AAAAAT AAAAAT AAAAAT
19774834 AAAA
1 AAAA
19774838 TGAAGAAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
5 5 0.06
6 40 0.50
7 23 0.29
8 12 0.15
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:19775097 original size:42 final size:43
Alignment explanation
Indices: 19775050--19775156 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
19775040 TCCTCTAGGC
** * *
19775050 AGAGGCTCAATGACTTTG-AGAATATAAATGGCTCCTCCAATT
1 AGAGGCTCAACAACTTTGAAAAAAATAAATGGCTCCTCCAATT
* * **
19775092 AGAGGCTTAACAACTTTGAAAAAAATAAATTGCTCCTCCAAAC
1 AGAGGCTCAACAACTTTGAAAAAAATAAATGGCTCCTCCAATT
* *
19775135 AGAGGCACCACAACTTTGAAAA
1 AGAGGCTCAACAACTTTGAAAA
19775157 GTAAATTGCT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 15 0.28
43 38 0.72
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (43 bp):
AGAGGCTCAACAACTTTGAAAAAAATAAATGGCTCCTCCAATT
Found at i:19775176 original size:41 final size:41
Alignment explanation
Indices: 19775112--19775501 Score: 566
Period size: 41 Copynumber: 9.4 Consensus size: 41
19775102 CAACTTTGAA
* * *
19775112 AAAAATAAATTGCTCCTCCAAACAGAGGCACCACAACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
19775153 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
19775194 AGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTTA
1 A-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTG
* *
19775237 AAAAGTAAATTGCTCCTCTAAGCAGAGGCACCACGACTTTA
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* * *
19775278 AAAAATAAATTGCTCGTCTAAACAGAGGCACCATGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
19775319 AAAAATAAATTGCTCCTCTAAACAGAGGCACTACGACTTTGG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-G
19775361 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTG
* * *
19775403 GAAAGTAAATTGCTGCTCTAAACAGAGGCACCATGACTTTG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
* *
19775444 AAAAATGAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
1 AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-G
*
19775486 AAAA-TAAATTACTCCT
1 AAAAGTAAATTGCTCCT
19775502 TGACAATCAT
Statistics
Matches: 317, Mismatches: 27, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
41 165 0.52
42 145 0.46
43 7 0.02
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
Found at i:19775319 original size:166 final size:165
Alignment explanation
Indices: 19775111--19775501 Score: 613
Period size: 166 Copynumber: 2.4 Consensus size: 165
19775101 ACAACTTTGA
* *
19775111 AAAAAATAAATTGCTCCTCCAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATTGCTCCTCTAAAC
*
19775176 AGAGGCACCACGACTTT-GAGAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTTAAAA
65 AGAGGCACCACGACTTTGGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAAAA
*
19775240 AGTAAATTGCTCCTCTAAGCAGAGGCACCACGACTTT
129 AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
* *
19775277 AAAAAATAAATTGCTCGTCTAAACAGAGGCACCATGACTTTGAAAAATAAATTGCTCCTCTAAAC
1 AAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-AAAATAAATTGCTCCTCTAAAC
* **
19775342 AGAGGCACTACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAA
65 AGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAAAAA
* *
19775407 GTAAATTGCTGCTCTAAACAGAGGCACCATGACTTT
130 GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
* * *
19775443 GAAAAATGAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTACTCCT
1 AAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAATAAATTGCTCCT
19775502 TGACAATCAT
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
166 199 0.97
167 7 0.03
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (165 bp):
AAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATTGCTCCTCTAAACA
GAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTAAAAAG
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTT
Found at i:19776817 original size:16 final size:16
Alignment explanation
Indices: 19776747--19776821 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 16
19776737 CAATTTGAAT
19776747 ATCTTTTTTCATTTTCTC
1 ATCTTTTTT--TTTTCTC
19776765 AT-TTTTTCCTTCTTTCT-
1 ATCTTTTT--TT-TTTCTC
*
19776782 TTCTTTTTTTTTTTCATC
1 ATC-TTTTTTTTTTC-TC
19776800 ATCTTTTTTTTTTCTC
1 ATCTTTTTTTTTTCTC
19776816 AT-TTTT
1 ATCTTTT
19776822 CATCCATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
15 4 0.08
16 8 0.17
17 21 0.44
18 9 0.19
19 6 0.12
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (16 bp):
ATCTTTTTTTTTTCTC
Found at i:19777164 original size:10 final size:10
Alignment explanation
Indices: 19777149--19777176 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
19777139 ATGTGTGGCA
19777149 TTTTTTTTCT
1 TTTTTTTTCT
19777159 TTTTTTTTCT
1 TTTTTTTTCT
19777169 TTTTTTTT
1 TTTTTTTT
19777177 TATTTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19777165 original size:11 final size:11
Alignment explanation
Indices: 19777149--19777183 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
19777139 ATGTGTGGCA
19777149 TTTTTTTTC-T
1 TTTTTTTTCTT
19777159 TTTTTTTTCTT
1 TTTTTTTTCTT
*
19777170 TTTTTTTTATT
1 TTTTTTTTCTT
19777181 TTT
1 TTT
19777184 GAGACTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:19780916 original size:59 final size:57
Alignment explanation
Indices: 19780730--19780934 Score: 249
Period size: 57 Copynumber: 3.6 Consensus size: 57
19780720 TTTTGTGCAG
* * *
19780730 GAAAAATTGATACTTTTAACTTTT-TCCAAAAATATTCTTTTG-AAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAAACTTT-ATTTCAA
*
19780787 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAA-TTTA-TT-AA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA--TA-TTTTTTGAAAACTTTATTTCAA
* *
19780844 GAAAAATTGATACTTACAACTTTTCCCCAAAAACATTTTTTGAAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAAC-TTTA-TTTCAA
*
19780903 GAAAAATTGATACTTTCAACTTTTCCTCAAAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAA
19780935 GTTGATTTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 18
0.83 0.06 0.12
Matches are distributed among these distances:
54 11 0.09
55 1 0.01
56 4 0.03
57 55 0.43
58 10 0.08
59 33 0.26
60 10 0.08
61 5 0.04
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTATTTCAA
Found at i:19780967 original size:116 final size:114
Alignment explanation
Indices: 19780730--19780946 Score: 328
Period size: 116 Copynumber: 1.9 Consensus size: 114
19780720 TTTTGTGCAG
** * * *
19780730 GAAAAATTGATACTTTTAACTTTTTCCAAAAATATTCTTTTGAAACTTTAATTTCGAGAAAAATT
1 GAAAAATTGATACTTACAACTTTTCCCAAAAACATTCTTTTGAAACTTTAATTTCAAGAAAAATT
*
19780795 GATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTAA
66 GATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTAA
*
19780844 GAAAAATTGATACTTACAACTTTTCCCCAAAAACATT-TTTTGAAAACTTTTATTTTCAAGAAAA
1 GAAAAATTGATACTTACAACTTTT-CCCAAAAACATTCTTTTG-AAAC-TTTAATTTCAAGAAAA
*
19780908 ATTGATACTTTCAACTTTTCCTCAAAAGTTGATTTTTTT
63 ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTT
19780947 TTTTTTTTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
114 27 0.29
115 14 0.15
116 51 0.55
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (114 bp):
GAAAAATTGATACTTACAACTTTTCCCAAAAACATTCTTTTGAAACTTTAATTTCAAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTAA
Found at i:19782636 original size:5 final size:5
Alignment explanation
Indices: 19782626--19782689 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
19782616 TAGTATTTCA
* *
19782626 TATTT TATTT TACTC TATTTT TATCTT TATTT TATTT T-TTT GTATTTT
1 TATTT TATTT TATTT TA-TTT TAT-TT TATTT TATTT TATTT -TA-TTT
19782674 TATTT TATTT TATTT T
1 TATTT TATTT TATTT T
19782690 TATTCTCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
4 3 0.06
5 34 0.68
6 10 0.20
7 3 0.06
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:19782657 original size:27 final size:26
Alignment explanation
Indices: 19782626--19782689 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
19782616 TAGTATTTCA
19782626 TATTTTATTTTACTCTATTTTTATCTT
1 TATTTTATTTTACTCTATTTTTAT-TT
** *
19782653 TATTTTATTTTTTTGTATTTTTATTT
1 TATTTTATTTTACTCTATTTTTATTT
19782679 TATTTTATTTT
1 TATTTTATTTT
19782690 TATTCTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 13 0.38
27 21 0.62
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (26 bp):
TATTTTATTTTACTCTATTTTTATTT
Found at i:19782674 original size:16 final size:16
Alignment explanation
Indices: 19782626--19782693 Score: 70
Period size: 16 Copynumber: 4.2 Consensus size: 16
19782616 TAGTATTTCA
* *
19782626 TATTTTATTTTA-CTC
1 TATTTTATTTTATTTT
19782641 TATTTTTATCTTTA-TTT
1 TA-TTTTAT-TTTATTTT
19782658 TATTTT-TTTGTATTTT
1 TATTTTATTT-TATTTT
19782674 TATTTTATTTTATTTT
1 TATTTTATTTTATTTT
19782690 TATT
1 TATT
19782694 CTCTTTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
14 2 0.04
15 5 0.11
16 29 0.63
17 10 0.22
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTATTTTATTTT
Found at i:19782776 original size:59 final size:59
Alignment explanation
Indices: 19782713--19782999 Score: 339
Period size: 59 Copynumber: 4.8 Consensus size: 59
19782703 TAAAATTCCA
* *
19782713 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * * * *
19782772 -AAAAAATATTTTTGAGAAAAAGTTAAAAGAATCAATTTTCCTTAAAAATAAGTTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
*
19782830 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG--TTTTCT
*
19782891 -AAAAAATATTTTTGAGGAAAAGTTGAAGGTATCAA-TTTTCTTTGAAAATAA-TTTTCCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTTTT-CT
** * *
19782949 AAAAAGGTTTTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAA------AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
19783000 TACAAAAGCA
Statistics
Matches: 197, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
57 4 0.02
58 53 0.27
59 56 0.28
60 44 0.22
61 6 0.03
65 29 0.15
66 5 0.03
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (59 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:19782783 original size:58 final size:58
Alignment explanation
Indices: 19782714--19782999 Score: 342
Period size: 58 Copynumber: 4.8 Consensus size: 58
19782704 AAAATTCCAA
* *
19782714 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * * * *
19782772 AAAAAATATTTTTGAGAAAAAGTTAAAAGAATCAATTTTCCTTAAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
*
19782830 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG--TTTTCT
*
19782891 AAAAAATATTTTTGAGGAAAAGTTGAAGGTATCAA-TTTTCTTTGAAAATAA-TTTTCCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTTTT-CT
* * *
19782949 AAAAAGGTTTTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAA-------ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
19783000 TACAAAAGCA
Statistics
Matches: 198, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
57 4 0.02
58 58 0.29
59 52 0.26
60 44 0.22
61 6 0.03
65 29 0.15
66 5 0.03
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:19782963 original size:60 final size:58
Alignment explanation
Indices: 19782714--19782953 Score: 356
Period size: 58 Copynumber: 4.1 Consensus size: 58
19782704 AAAATTCCAA
* * *
19782714 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * * *
19782772 AAAAAATATTTTTGAGAAAAAGTTAAAAGAATCAATTTTCCTTAAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
19782830 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
1 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--TTTTCT
* *
19782891 AAAAAATATTTTTGAGGAAAAGTTGAAGGTATCAATTTTCTTTGAAAATAA-TTTTCCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTT-CT
19782949 AAAAA
1 AAAAA
19782954 GGTTTTTTTT
Statistics
Matches: 165, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
57 4 0.02
58 58 0.35
59 48 0.29
60 49 0.30
61 6 0.04
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
Found at i:19794579 original size:42 final size:42
Alignment explanation
Indices: 19794465--19794707 Score: 187
Period size: 41 Copynumber: 5.8 Consensus size: 42
19794455 ATGAACAATA
* * *
19794465 TTTTC-AAAGTTG-TGATGCCTCTGTTTAGAGGAGCAATCTAT
1 TTTTCAAAAGTCGTTGA-GCCTCTGTTCAGAGGAGCAATTTAT
* * * *
19794506 TTTTC-AAAGTTG-TGATGCCTCTGATAAGAGGAGCAATTTAC
1 TTTTCAAAAGTCGTTGA-GCCTCTGTTCAGAGGAGCAATTTAT
* * *
19794547 TTTTCAAAAGTCGTTGAGCCTTTGTTCAGAGGAACGATTTAT
1 TTTTCAAAAGTCGTTGAGCCTCTGTTCAGAGGAGCAATTTAT
* * **
19794589 TTTTCAAAAGTCGTTGAGCCTTTG-GCTAGAGGAGCCTTTTAT
1 TTTTCAAAAGTCGTTGAGCCTCTGTTC-AGAGGAGCAATTTAT
* * * *
19794631 TTTT-AAAAGTCATTGAGCCTCTATTTAGAGGAGC--TTTGTT
1 TTTTCAAAAGTCGTTGAGCCTCTGTTCAGAGGAGCAATTT-AT
* * *
19794671 TATTGTCCAAAGTCATTGAGCCTCTGTTTAGAGGAGC
1 T-TT-TCAAAAGTCGTTGAGCCTCTGTTCAGAGGAGC
19794708 CTTCGTTTAT
Statistics
Matches: 171, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 2 0.01
41 69 0.40
42 66 0.39
43 31 0.18
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (42 bp):
TTTTCAAAAGTCGTTGAGCCTCTGTTCAGAGGAGCAATTTAT
Found at i:19794660 original size:41 final size:41
Alignment explanation
Indices: 19794481--19794707 Score: 188
Period size: 42 Copynumber: 5.4 Consensus size: 41
19794471 AAGTTGTGAT
* *
19794481 GCCTCTGTTTAGAGGAGCAATCTATTTTTCAAAGT--TGTGA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTAAAAGTCAT-TGA
* * * *
19794521 TGCCTCTGATAAGAGGAGCAATTTACTTTTCAAAAGTCGTTGA
1 -GCCTCTGTTTAGAGGAGCAATTTA-TTTTTAAAAGTCATTGA
* * * * *
19794564 GCCTTTGTTCAGAGGAACGATTTATTTTTCAAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTT-AAAAGTCATTGA
* ** **
19794606 GCCTTTGGCTAGAGGAGCCTTTTATTTTTAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTAAAAGTCATTGA
* ** * **
19794647 GCCTCTATTTAGAGGAGCTTTGTTTATTGTCCAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGC--AATTTATTTTTAAAAGTCATTGA
19794690 GCCTCTGTTTAGAGGAGC
1 GCCTCTGTTTAGAGGAGC
19794708 CTTCGTTTAT
Statistics
Matches: 152, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
41 50 0.33
42 63 0.41
43 38 0.25
44 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
GCCTCTGTTTAGAGGAGCAATTTATTTTTAAAAGTCATTGA
Found at i:19794661 original size:83 final size:83
Alignment explanation
Indices: 19794481--19794662 Score: 199
Period size: 83 Copynumber: 2.2 Consensus size: 83
19794471 AAGTTGTGAT
* *
19794481 GCCTCTGTTTAGAGGAGCAATCTATTTTTCAAAGTTGTGATGCCTCTGATAAGAGGAGCAATTTA
1 GCCTCTGTTTAGAGGAACAATCTATTTTTCAAAGTCGTGATGCCTCTGATAAGAGGAGCAATTTA
*
19794546 CTTTTCAAAAGTCGTTGA
66 CTTTTCAAAAGTCATTGA
* * * * * * **
19794564 GCCTTTGTTCAGAGGAACGATTTATTTTTCAAAAGTCGTTGA-GCCTTTGGCT-AGAGGAGCCTT
1 GCCTCTGTTTAGAGGAACAATCTATTTTTC-AAAGTCG-TGATGCCTCT-GATAAGAGGAGCAAT
*
19794627 TTA-TTTTTAAAAGTCATTGA
63 TTACTTTTCAAAAGTCATTGA
*
19794647 GCCTCTATTTAGAGGA
1 GCCTCTGTTTAGAGGA
19794663 GCTTTGTTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
83 53 0.65
84 23 0.28
85 5 0.06
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (83 bp):
GCCTCTGTTTAGAGGAACAATCTATTTTTCAAAGTCGTGATGCCTCTGATAAGAGGAGCAATTTA
CTTTTCAAAAGTCATTGA
Found at i:19794687 original size:43 final size:45
Alignment explanation
Indices: 19794636--19794728 Score: 145
Period size: 43 Copynumber: 2.1 Consensus size: 45
19794626 TTTATTTTTA
*
19794636 AAAGTCATTGAGCCTCTATTTAGAGGAG-CTTTGTTTATT-GTCC
1 AAAGTCATTGAGCCTCTATTTAGAGGAGCCTTCGTTTATTCGTCC
* *
19794679 AAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTCGTTTATTCTTCC
1 AAAGTCATTGAGCCTCTATTTAGAGGAGCCTTCGTTTATTCGTCC
19794724 AAAGT
1 AAAGT
19794729 TGTTGAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 27 0.60
44 10 0.22
45 8 0.18
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (45 bp):
AAAGTCATTGAGCCTCTATTTAGAGGAGCCTTCGTTTATTCGTCC
Found at i:19794742 original size:45 final size:43
Alignment explanation
Indices: 19794636--19794742 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
19794626 TTTATTTTTA
* * *
19794636 AAAGTCATTGAGCCTCTATTTAGAGGAGCTTTGTTTATTGTCC
1 AAAGTCATTGAGCATCTGTTTAGAGGAGCTTCGTTTATTGTCC
* *
19794679 AAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTCGTTTATTCTTCC
1 AAAGTCATTGAGCATCTGTTTAGAGGAG-CTTCGTTTATT-GTCC
** *
19794724 AAAGTTGTTGAGTATCTGT
1 AAAGTCATTGAGCATCTGT
19794743 AATTGAGCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 27 0.49
44 10 0.18
45 18 0.33
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (43 bp):
AAAGTCATTGAGCATCTGTTTAGAGGAGCTTCGTTTATTGTCC
Found at i:19794992 original size:22 final size:21
Alignment explanation
Indices: 19794965--19795039 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 21
19794955 CATTCTATTT
19794965 TATTTTATTTTTTATTTTTCTA
1 TATTTTATTTTTTATTTTT-TA
*
19794987 TATTTTATATTTTTATTTTTTG
1 TATTTTAT-TTTTTATTTTTTA
* *
19795009 TATCTTATTTATTATTTATTTA
1 TATTTTATTTTTTATTT-TTTA
19795031 T-TTATTATT
1 TATT-TTATT
19795040 ACTATTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 9 0.20
22 25 0.56
23 11 0.24
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (21 bp):
TATTTTATTTTTTATTTTTTA
Found at i:19795000 original size:8 final size:7
Alignment explanation
Indices: 19794967--19795039 Score: 65
Period size: 7 Copynumber: 10.0 Consensus size: 7
19794957 TTCTATTTTA
19794967 TTTTATT
1 TTTTATT
19794974 TTTTATT
1 TTTTATT
*
19794981 TTTCTATA
1 TTT-TATT
19794989 TTTTATAT
1 TTTTAT-T
19794997 TTTTATT
1 TTTTATT
* *
19795004 TTTTGTA
1 TTTTATT
*
19795011 TCTTATT
1 TTTTATT
*
19795018 TATTATT
1 TTTTATT
19795025 TATTTATT
1 T-TTTATT
*
19795033 TATTATT
1 TTTTATT
19795040 ACTATTTATT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 35 0.66
8 18 0.34
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTATT
Found at i:19795007 original size:15 final size:14
Alignment explanation
Indices: 19794967--19795039 Score: 65
Period size: 15 Copynumber: 5.0 Consensus size: 14
19794957 TTCTATTTTA
19794967 TTTTATTTTTTATT
1 TTTTATTTTTTATT
*
19794981 TTTCTATATTTTATAT
1 TTT-TATTTTTTAT-T
* *
19794997 TTTTATTTTTTGTA
1 TTTTATTTTTTATT
* *
19795011 TCTTATTTATTATT
1 TTTTATTTTTTATT
*
19795025 TATTTATTTATTATT
1 T-TTTATTTTTTATT
19795040 ACTATTTATT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
14 14 0.30
15 29 0.62
16 4 0.09
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:19795027 original size:4 final size:4
Alignment explanation
Indices: 19794963--19795113 Score: 81
Period size: 4 Copynumber: 38.5 Consensus size: 4
19794953 TTCATTCTAT
* *
19794963 TTTA TTTTA TTT- TTTA TTT- TTCTA TAT- TTTA TATT- TTTA TTTT TTGTA
1 TTTA -TTTA TTTA TTTA TTTA TT-TA TTTA TTTA T-TTA TTTA TTTA TT-TA
* * *
19795011 TCTTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TTTA TTAA TATA TATA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA
* * *
19795060 -TT- TTTA TTTA -TTA TTTA TCTA TTTA TATA TATA CTTTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
19795104 TTTA TTTA TT
1 TTTA TTTA TT
19795114 AGTATTTTTA
Statistics
Matches: 117, Mismatches: 12, Indels: 35
0.71 0.07 0.21
Matches are distributed among these distances:
3 27 0.23
4 70 0.60
5 15 0.13
6 5 0.04
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:19795066 original size:35 final size:36
Alignment explanation
Indices: 19795027--19795120 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
19795017 TTATTATTTA
19795027 TTTATTTATTATTACTATTTAT-TAATATA-TATATT
1 TTTATTTATTATTACTATTTATAT-ATATACTATATT
*
19795062 TTTATTTATTATTTATCTATTTATATATATACTTTATT
1 TTTATTTATTA-TTA-CTATTTATATATATACTATATT
* *
19795100 ATTATTTATTTATTAGTATTT
1 TTTATTTA-TTATTACTATTT
19795121 TTATCTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
35 11 0.22
36 3 0.06
37 18 0.35
38 16 0.31
39 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (36 bp):
TTTATTTATTATTACTATTTATATATATACTATATT
Found at i:19795087 original size:31 final size:30
Alignment explanation
Indices: 19794967--19795130 Score: 119
Period size: 29 Copynumber: 5.4 Consensus size: 30
19794957 TTCTATTTTA
* *
19794967 TTTTATTTTTTATTTTTCTATATT-TTATAT
1 TTTTATTTATTATTTATCTAT-TTATTATAT
*
19794997 TTTTATTT-TT-TGTATCTTATTTATTAT-T
1 TTTTATTTATTATTTATC-TATTTATTATAT
*
19795025 TATTTATTTATTATTACTATTTATTAATATATATAT
1 T-TTTATTTATTATT--TATCTATT--TAT-TATAT
19795061 TTTTATTTATTATTTATCTATTTA-TATA-
1 TTTTATTTATTATTTATCTATTTATTATAT
* *
19795089 -TATACTTTATTA-TTATTTATTTATTAGTAT
1 TTTTA-TTTATTATTTATCTATTTATTA-TAT
*
19795119 TTTTATCTATTA
1 TTTTATTTATTA
19795131 ATATATTATC
Statistics
Matches: 109, Mismatches: 9, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
27 13 0.12
28 17 0.16
29 22 0.20
30 16 0.15
31 6 0.06
32 4 0.04
33 10 0.09
34 3 0.03
35 16 0.15
36 2 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTTATTTATTATTTATCTATTTATTATAT
Found at i:19795129 original size:16 final size:17
Alignment explanation
Indices: 19795024--19795130 Score: 56
Period size: 16 Copynumber: 6.8 Consensus size: 17
19795014 TATTTATTAT
* *
19795024 TTATTTATTTATTATTA
1 TTATTTATCTATTAGTA
* *
19795041 CTATTTAT-TAATA-TA
1 TTATTTATCTATTAGTA
19795056 TATATTT-T-TATT--TA
1 T-TATTTATCTATTAGTA
19795070 TTATTTATCTATT--TA
1 TTATTTATCTATTAGTA
* *
19795085 -TATATATACT-TTATTA
1 TTATTTAT-CTATTAGTA
*
19795101 TTATTTATTTATTAGTA
1 TTATTTATCTATTAGTA
19795118 TT-TTTATCTATTA
1 TTATTTATCTATTA
19795131 ATATATTATC
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.07
14 12 0.16
15 14 0.19
16 22 0.30
17 20 0.27
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (17 bp):
TTATTTATCTATTAGTA
Found at i:19796115 original size:6 final size:5
Alignment explanation
Indices: 19796070--19796123 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
19796060 TTAGTATTTC
*
19796070 TTATT TTATT TTATT TTATT TTATT CTATTT TTATCT TTATTT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTA-TT TTAT-T TTA-TT TTATT
19796118 TT-TT TT
1 TTATT TT
19796124 GTAATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
4 4 0.09
5 27 0.61
6 12 0.27
7 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:19796218 original size:60 final size:60
Alignment explanation
Indices: 19796154--19796279 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
19796144 TATTCTCTTT
19796154 AAATAAAATTCCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAAATTCCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
** ***** * * * *
19796214 AAATAAGTTTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAGGTATCAATTTTCTTTGA
1 AAATAAAATTCCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
19796274 AAATAA
1 AAATAA
19796280 TTTTCCGAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (60 bp):
AAATAAAATTCCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
Found at i:19798514 original size:15 final size:16
Alignment explanation
Indices: 19798489--19798519 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19798479 TCGGATTATT
19798489 TAAAGAAAAATAAAAA
1 TAAAGAAAAATAAAAA
19798505 TAAA-AAAAATAAAAA
1 TAAAGAAAAATAAAAA
19798520 AGGAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
TAAAGAAAAATAAAAA
Found at i:19798709 original size:59 final size:59
Alignment explanation
Indices: 19798550--19798873 Score: 390
Period size: 59 Copynumber: 5.5 Consensus size: 59
19798540 TCTTGTGCAG
* * *
19798550 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTG-AAAC-TTTAATTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAAACTTTTATTTTTAA
* ** *
19798608 GGAAAATTGATACTTTCAACTTCTCCTTAAAAATATTTTTTTGAAAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAACTTTTATTTTTAA
* *
19798668 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTTATTTTTAA
* * **
19798727 GGAAAATTGATACTTTTAACTTTTCCTCAAAAACCTTTTTTGAAAA--TTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTTA-TTTTTAA
* * * *
19798785 AGAAAATTGATATTTTCAACTTTTCCTCAAAAA-ACTTTTTTTGAAAA-ATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAACTTTTATTTTTAA
**
19798844 AAAAAATTGATACTTTCAACTTTTCCCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAA
19798874 CTCTTTTGTT
Statistics
Matches: 235, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
57 4 0.02
58 74 0.31
59 113 0.48
60 44 0.19
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTTATTTTTAA
Found at i:19798766 original size:118 final size:116
Alignment explanation
Indices: 19798550--19798869 Score: 403
Period size: 117 Copynumber: 2.7 Consensus size: 116
19798540 TCTTGTGCAG
* * *
19798550 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTGAAACTTTAATTTTGAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAACTTTATTTTTAAGGAAAAT
* * *
19798615 TGATACTTTCAACTTCTCCTTAAAAATATTTTTTTGAAAACTTT-TATTTTCAA
65 TGATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAA-TTTAT-TTTTCAA
*
19798668 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTTTAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAC-TTTATTTTTAAGGAAAA
* * *
19798733 TTGATACTTTTAACTTTTCCTCAAAAA-CCTTTTTTGAAAATTTATTTTTTAA
64 TTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAATTTATTTTTCAA
* * * * **
19798785 AGAAAATTGATATTTTCAACTTTTCCTCAAAAA-ACTTTTTTTGAAAAATTTATTTTTAAAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTG-AAACTTTATTTTTAAGGAAA
19798849 ATTGATACTTTCAACTTTTCC
63 ATTGATACTTTCAACTTTTCC
19798870 CCAACTCTTT
Statistics
Matches: 179, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
116 1 0.01
117 77 0.43
118 62 0.35
119 39 0.22
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATACTTTTTTGAAAATTTATTTTTCAA
Found at i:19799195 original size:26 final size:24
Alignment explanation
Indices: 19799149--19799197 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
19799139 CGAAATATGG
19799149 AAATTTTCCAAAAATTACCAAAAA
1 AAATTTTCCAAAAATTACCAAAAA
19799173 AAATTTTCGTCAAAAATCT-CCAAAA
1 AAATTTTC--CAAAAAT-TACCAAAA
19799198 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATTTTCCAAAAATTACCAAAAA
Found at i:19799498 original size:20 final size:20
Alignment explanation
Indices: 19799473--19799522 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
19799463 CCCAAAAAAA
* *
19799473 GAAAAAAAAATCTGATAAAT
1 GAAAAAAAAATCAGATAAAC
19799493 G-AAAAAAAATCAGATAAAC
1 GAAAAAAAAATCAGATAAAC
19799512 GAAAAAGAAAA
1 GAAAAA-AAAA
19799523 AAAATAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 17 0.65
20 5 0.19
21 4 0.15
ACGTcount: A:0.70, C:0.06, G:0.12, T:0.12
Consensus pattern (20 bp):
GAAAAAAAAATCAGATAAAC
Found at i:19799499 original size:19 final size:19
Alignment explanation
Indices: 19799475--19799517 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
19799465 CAAAAAAAGA
* *
19799475 AAAAAAAATCTGATAAATG
1 AAAAAAAATCAGATAAACG
19799494 AAAAAAAATCAGATAAACG
1 AAAAAAAATCAGATAAACG
19799513 AAAAA
1 AAAAA
19799518 GAAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAAAAAATCAGATAAACG
Found at i:19799554 original size:21 final size:21
Alignment explanation
Indices: 19799519--19799599 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
19799509 AACGAAAAAG
*
19799519 AAAAAAAATAA-AAGATAATT
1 AAAAATAATAATAAGATAATT
*
19799539 AAAAATAATAATAAGATAAAT
1 AAAAATAATAATAAGATAATT
* * *
19799560 AAAAA-ATATTACAAGATAAATA
1 AAAAATA-ATAATAAGAT-AATT
19799582 AAAAATAATAATAA-ATAA
1 AAAAATAATAATAAGATAA
19799600 ACTATATTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 13 0.27
21 23 0.47
22 12 0.24
23 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAATAATAATAAGATAATT
Found at i:19799565 original size:42 final size:42
Alignment explanation
Indices: 19799519--19799600 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
19799509 AACGAAAAAG
*
19799519 AAAAAAAATAAAAGAT-AATTAAAAATAATAATAAGATAAATA
1 AAAAAAAATAAAAGATAAATAAAAAATAATAATAA-ATAAATA
* * *
19799561 AAAAATATTACAAGATAAATAAAAAATAATAATAAATAAA
1 AAAAAAAATAAAAGATAAATAAAAAATAATAATAAATAAA
19799601 CTATATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 18 0.51
43 17 0.49
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (42 bp):
AAAAAAAATAAAAGATAAATAAAAAATAATAATAAATAAATA
Found at i:19799600 original size:21 final size:21
Alignment explanation
Indices: 19799519--19799625 Score: 87
Period size: 22 Copynumber: 5.1 Consensus size: 21
19799509 AACGAAAAAG
19799519 AAAAAA-AATAA-AAGAT-AAT
1 AAAAAATAATAATAA-ATAAAT
*
19799538 TAAAAATAATAATAAGATAAAT
1 AAAAAATAATAATAA-ATAAAT
* *
19799560 AAAAAATATTACA-AGATAAAT
1 AAAAAATAATA-ATAAATAAAT
19799581 AAAAAATAATAATAAATAAACT
1 AAAAAATAATAATAAATAAA-T
* ** *
19799603 ATATTATAATAATAAATATAT
1 AAAAAATAATAATAAATAAAT
19799624 AA
1 AA
19799626 CTAGATAAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
19 5 0.07
20 6 0.08
21 29 0.41
22 30 0.42
23 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (21 bp):
AAAAAATAATAATAAATAAAT
Found at i:19799613 original size:19 final size:18
Alignment explanation
Indices: 19799575--19799638 Score: 69
Period size: 17 Copynumber: 3.5 Consensus size: 18
19799565 ATATTACAAG
*
19799575 ATAAATAAA-AAATAATA
1 ATAAATAAATATATAATA
*
19799592 ATAAATAAACTATATTATA
1 ATAAATAAA-TATATAATA
19799611 AT-AATAAATATATAACTA
1 ATAAATAAATATATAA-TA
19799629 GATAAATAAA
1 -ATAAATAAA
19799639 ACACATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 15 0.38
18 8 0.21
19 10 0.26
20 6 0.15
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAAATAAATATATAATA
Found at i:19799768 original size:17 final size:15
Alignment explanation
Indices: 19799732--19799770 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
19799722 AAATACAAAG
19799732 AAAAA-AATAAAAAT
1 AAAAATAATAAAAAT
19799746 AAAAATAATATAAAAT
1 AAAAATAATA-AAAAT
19799762 ATAAAATAA
1 A-AAAATAA
19799771 AAGCCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 4 0.18
16 6 0.27
17 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:19799941 original size:10 final size:10
Alignment explanation
Indices: 19799926--19799978 Score: 72
Period size: 10 Copynumber: 5.3 Consensus size: 10
19799916 GATATTTTTA
19799926 TTTTTTTGTT
1 TTTTTTTGTT
*
19799936 TTTTTTTGCT
1 TTTTTTTGTT
*
19799946 TTTTTGTGTT
1 TTTTTTTGTT
19799956 TTTTTTT-TAT
1 TTTTTTTGT-T
19799966 TTTTTTTGTT
1 TTTTTTTGTT
19799976 TTT
1 TTT
19799979 GATCAAAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 1 0.03
10 35 0.95
11 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:19799962 original size:22 final size:20
Alignment explanation
Indices: 19799920--19799978 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
19799910 CAACTTGATA
19799920 TTTTTA-TTTTTTTGTTTTT
1 TTTTTATTTTTTTTGTTTTT
** *
19799939 TTTTGCTTTTTTGTGTTTTT
1 TTTTTATTTTTTTTGTTTTT
19799959 TTTTTATTTTTTTTGTTTTT
1 TTTTTATTTTTTTTGTTTTT
19799979 GATCAAAGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.86
Consensus pattern (20 bp):
TTTTTATTTTTTTTGTTTTT
Found at i:19800086 original size:41 final size:41
Alignment explanation
Indices: 19800041--19800158 Score: 200
Period size: 41 Copynumber: 2.9 Consensus size: 41
19800031 TCCTCTAATA
* * *
19800041 AGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTTTAAAC
1 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTTTAAAC
*
19800082 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAAC
1 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTTTAAAC
19800123 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTT
1 AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTT
19800159 GACAATCATG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (41 bp):
AGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTTTAAAC
Found at i:19801160 original size:7 final size:7
Alignment explanation
Indices: 19801145--19801218 Score: 73
Period size: 7 Copynumber: 10.3 Consensus size: 7
19801135 GTCTTTTTTC
19801145 TTCACTTT
1 TTCA-TTT
19801153 TTCA-TT
1 TTCATTT
19801159 TT--TTT
1 TTCATTT
19801164 TTCATTTT
1 TTCA-TTT
19801172 TTCATTTT
1 TTCA-TTT
19801180 TTCATTT
1 TTCATTT
19801187 TTCATTT
1 TTCATTT
19801194 TTCATTTTT
1 TTCA--TTT
*
19801203 TTTATTT
1 TTCATTT
19801210 TTCATTT
1 TTCATTT
19801217 TT
1 TT
19801219 TTTCAAGCAT
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
5 4 0.07
6 4 0.07
7 25 0.43
8 19 0.33
9 6 0.10
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTCATTT
Found at i:19801161 original size:8 final size:8
Alignment explanation
Indices: 19801160--19801219 Score: 81
Period size: 8 Copynumber: 7.8 Consensus size: 8
19801150 TTTTTCATTT
19801160 TTTTTTCA
1 TTTTTTCA
19801168 TTTTTTCA
1 TTTTTTCA
19801176 TTTTTTCA
1 TTTTTTCA
19801184 -TTTTTCA
1 TTTTTTCA
19801191 -TTTTTCA
1 TTTTTTCA
*
19801198 TTTTTT-T
1 TTTTTTCA
19801205 TATTTTTCA
1 T-TTTTTCA
19801214 TTTTTT
1 TTTTTT
19801220 TTCAAGCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 15 0.32
8 31 0.66
9 1 0.02
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:19801187 original size:23 final size:24
Alignment explanation
Indices: 19801161--19801219 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
19801151 TTTTCATTTT
19801161 TTTTTCATTTTTTCA-TTTTTTCA
1 TTTTTCATTTTTTCATTTTTTTCA
*
19801184 TTTTTCA-TTTTTCATTTTTTTTA
1 TTTTTCATTTTTTCATTTTTTTCA
19801207 TTTTTCATTTTTT
1 TTTTTCATTTTTT
19801220 TTCAAGCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 7 0.21
23 21 0.64
24 5 0.15
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTCATTTTTTCATTTTTTTCA
Found at i:19811725 original size:15 final size:16
Alignment explanation
Indices: 19811693--19811723 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19811683 ACTTTTCCTC
19811693 AAAAATTGATTTTTTT
1 AAAAATTGATTTTTTT
*
19811709 AAAAATTTATTTTTT
1 AAAAATTGATTTTTT
19811724 AAGGAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
AAAAATTGATTTTTTT
Found at i:19811789 original size:119 final size:116
Alignment explanation
Indices: 19811609--19812120 Score: 653
Period size: 119 Copynumber: 4.3 Consensus size: 116
19811599 TTATGCAGGA
* * *
19811609 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTCTTTTG-AAATTTTAA-TTTCTAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATT-TTTTGAAAACTTTAATTTTCAAGAAAAAT
* *
19811672 TGATACTTTTAACTTTTCCTCAAAAATTGATTTTTTTAAAAATTTATTTTTTAAGG
64 TGATACTTTCAACTTTTCC-CAAAAA-T-ATTTTTTTAAAACTTTATTTTTTAAGG
19811728 AAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAA-TTTAATTTT-AAGAAAAA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-T-ATTTTTTGAAAACTTTAATTTTCAAGAAAAA
** *
19811791 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTT-TATTTTTGAGG
63 TTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTAAAACTTTAT-TTTTTAAGG
*
19811846 AAAATTGAT-CTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAAACTTTGATTTTCAAGAAAAA
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATA--TTTTTTGAAAACTTTAATTTTCAAGAAAAA
* *
19811910 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAACTTTAATTTTCAAGG
63 TTGATACTTTCAACTTTTCCC-AAAAATATTTTTTT-AAAACTTTATTTTTTAAGG
*
19811966 AAAATTGATACTTTCAACTTTTACCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTGAAAACTTTAATTTTCAAGAAAAATT
* ** * *
19812031 GATACTTTCAACTTTTTCTCAAAAA-CCTTTTTTGAAATTTTA-TTTTTAAGG
65 GATACTTTCAAC-TTTTCCCAAAAATATTTTTTTAAAACTTTATTTTTTAAGG
19812082 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTT
19812121 TGGATTTTAT
Statistics
Matches: 355, Mismatches: 19, Indels: 41
0.86 0.05 0.10
Matches are distributed among these distances:
115 2 0.01
116 46 0.13
117 33 0.09
118 57 0.16
119 114 0.32
120 70 0.20
121 33 0.09
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTTCAAGAAAAATTG
ATACTTTCAACTTTTCCCAAAAATATTTTTTTAAAACTTTATTTTTTAAGG
Found at i:19811810 original size:60 final size:58
Alignment explanation
Indices: 19811609--19812120 Score: 589
Period size: 59 Copynumber: 8.7 Consensus size: 58
19811599 TTATGCAGGA
* *
19811609 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTCTTTTGAAATTTTAATTTCT-AGG
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATT-TTTTGAAAATTTAATTT-TAAGG
* * *
19811667 AAAATTGATACTTTTAAC-TTTTCCTCAAAAATTGATTTTTTTAAAAATTTATTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAA-T-A-TTTTTTGAAAATTTA-ATTTTAAGG
*
19811728 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATTGATTTTTTGAAAATTTAATTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAA-T-ATTTTTTGAAAATTTAATTTTAAGG
* * *
19811787 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTTATTTTTGAGG
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTT-GAAA-ATTTAATTTTAAGG
* *
19811846 AAAATTGAT-CTTTCAACTTTTTCC-CAAAAATATTTTTTTTGAAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATA--TTTTTTGAAAA-TTTAATTTT-AAGG
*
19811906 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAAACTTTAATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATA-TTTTTTGAAAA-TTTAATTTT-AAGG
* * *
19811966 AAAATTGATACTTTCAACTTTTACC-CAAAAATATTTTTTGAAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTGAAAA-TTTAATTTT-AAGG
** * *
19812025 AAAATTGATACTTTCAACTTTTT-CTCAAAAACCTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTGAAAATTTAATTTTAAGG
19812082 AAAATTGATACTTTCAAC-TTTT-CTCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTTCCT-CAAAAATATTTTTT
19812121 TGGATTTTAT
Statistics
Matches: 403, Mismatches: 33, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
56 6 0.01
57 46 0.11
58 58 0.14
59 124 0.31
60 106 0.26
61 63 0.16
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTGAAAATTTAATTTTAAGG
Found at i:19811912 original size:178 final size:176
Alignment explanation
Indices: 19811607--19812120 Score: 665
Period size: 178 Copynumber: 2.9 Consensus size: 176
19811597 TCTTATGCAG
*
19811607 GAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTCTTTT-GAAA-TTTTAATTTCTAGGAA
1 GAAAAATTGATACTTTCAACTTTTTCCC-AAAAATATT-TTTTGGAAACTTTT-ATTTTTAGGAA
* *
19811669 AATTGATACTTTTAAC-TTTTCCTCAAAAAT-TGATTTTTTTAAAAATTTATTTTTTAAGGAAAA
63 AATTGATACTTTCAACTTTTTCC-CAAAAATAT--TTTTTTTGAAAATTTA-TTTTTAAGGAAAA
19811732 TTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAA-TTTAATTTT-AA
124 TTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTGAAAACTTTAATTTTCAA
19811785 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTATTTTTGAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTATTTTT-AGGAAAA
* *
19811850 TTGAT-CTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAAACTTTGATTTTCAAGAAAAATTGA
65 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAAA-TTT-ATTTTTAAGGAAAATTGA
19811914 TACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAAACTTTAATTTTCAA
128 TACTTTCAACTTTTCCTC-AAAAATA-TTTTTTGAAAACTTTAATTTTCAA
* * * * * *
19811964 GGAAAATTGATACTTTCAACTTTTACCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTATTTT-TAGGAAAA
* ** *
19812029 TTGATACTTTCAACTTTTTCTC-AAAA-ACCTTTTTTGAAATTTTATTTTTAAGGAAAATTGATA
65 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATA
19812092 CTTTCAACTTTT-CTCCAAAAATATTTTTT
130 CTTTCAACTTTTCCT-CAAAAATATTTTTT
19812121 TGGATTTTAT
Statistics
Matches: 303, Mismatches: 17, Indels: 35
0.85 0.05 0.10
Matches are distributed among these distances:
175 7 0.02
176 38 0.13
177 32 0.11
178 111 0.37
179 100 0.33
180 15 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (176 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTATTTTTAGGAAAAT
TGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTAATTTTCAA
Found at i:19812205 original size:17 final size:17
Alignment explanation
Indices: 19812185--19812223 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
19812175 AAAAATAAAG
19812185 AAAAGTAAAACAAAAAT
1 AAAAGTAAAACAAAAAT
* * *
19812202 AAAAATAAAATAAAGAT
1 AAAAGTAAAACAAAAAT
19812219 AAAAG
1 AAAAG
19812224 AACATTAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAGTAAAACAAAAAT
Found at i:19813161 original size:21 final size:22
Alignment explanation
Indices: 19813137--19813223 Score: 90
Period size: 21 Copynumber: 4.0 Consensus size: 22
19813127 AAAAAATAAC
19813137 AGAT-AATTAAAAATAATAATA
1 AGATAAATTAAAAATAATAATA
* * *
19813158 AGATAAATAAAAAAT-ATTACA
1 AGATAAATTAAAAATAATAATA
*
19813179 AGATAAATAAAAAATAATAATA
1 AGATAAATTAAAAATAATAATA
* *
19813201 A-ATAAACTATAATATAATAATA
1 AGATAAATTA-AAAATAATAATA
19813223 A
1 A
19813224 ATATATAACT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
21 29 0.53
22 26 0.47
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.26
Consensus pattern (22 bp):
AGATAAATTAAAAATAATAATA
Done.