Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009608.1 Hibiscus syriacus cultivar Beakdansim tig00116994_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1053610
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:352649 original size:63 final size:64
Alignment explanation
Indices: 352563--352690 Score: 233
Period size: 63 Copynumber: 2.0 Consensus size: 64
352553 AAATAAATTA
352563 AATATTAATTTTTAAATAAATTAAATATTAA-TTTTTAATATTATATTATAGATA-TTAATTTT
1 AATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTT
352625 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTT
1 AATATTAA-TTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTT
352690 A
1 A
352691 TATCATATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
62 8 0.13
63 23 0.37
64 23 0.37
65 9 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (64 bp):
AATATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTT
Found at i:352654 original size:86 final size:82
Alignment explanation
Indices: 352513--352666 Score: 254
Period size: 86 Copynumber: 1.8 Consensus size: 82
352503 TTATATTTCA
*
352513 TTTTATATTATATTTGATTTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTAA
1 TTTTATATTATATTTGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTAA
352578 ATAAATTAAATATTAAT
66 ATAAATTAAATATTAAT
352595 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTT
1 TTTT-ATATTATATT-T-GATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAATTT
*
352660 TTTAATA
62 TTAAATA
352667 TTATATTATA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
82 4 0.06
83 10 0.15
84 1 0.02
85 19 0.29
86 32 0.48
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (82 bp):
TTTTATATTATATTTGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTAA
ATAAATTAAATATTAAT
Found at i:352692 original size:85 final size:84
Alignment explanation
Indices: 352505--352716 Score: 250
Period size: 85 Copynumber: 2.5 Consensus size: 84
352495 AAGAGATTTT
* *
352505 ATATTTCATTTTATATTATATTTGATTTTAATTTTAATATTAATTTTTAAATAAATTAAATATTA
1 ATATTTAATTTTATATTATA---GATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTA
352570 ATTTTTAAATAAATTAAATATTA
63 ATTTTTAAAT-AATTAAATATTA
* *
352593 ATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT
1 ATATTTAATTTTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAAT
* *
352658 TTTTTAAT-ATTATAT-TATA
65 TTTTAAATAATTAAATAT-TA
* * *
352677 GATATTTAATTTTATATCATATAAATT-ATTTTATATATTA
1 -ATATTTAATTTTATATTATAGATATTAATTTTA-ATATTA
352717 TTAAAATTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
83 1 0.01
84 14 0.13
85 46 0.42
86 31 0.28
88 17 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (84 bp):
ATATTTAATTTTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATT
TTTAAATAATTAAATATTA
Found at i:352727 original size:64 final size:62
Alignment explanation
Indices: 352563--352690 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 62
352553 AAATAAATTA
* *
352563 AATATTAATTTTTAAATAAATTAAATATT-AATTTTTAATATTATATTATAGATATTAATTTT
1 AATATTAATTTTTTAAT-AATTAAATATTAAAATTTTAATATTATATTATAGATATTAATTTT
**
352625 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATATTTAATTTT
1 AATATTAATTTTTT-AAT-AATTAAATATTAAAATTTTAATATTATATTATAGATA-TTAATTTT
352690 A
1 A
352691 TATCATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
62 13 0.21
63 15 0.25
64 24 0.39
65 9 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (62 bp):
AATATTAATTTTTTAATAATTAAATATTAAAATTTTAATATTATATTATAGATATTAATTTT
Found at i:352745 original size:20 final size:19
Alignment explanation
Indices: 352685--352746 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
352675 TAGATATTTA
*
352685 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
352704 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
352722 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
352742 ATTTT
1 ATTTT
352747 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:353012 original size:22 final size:23
Alignment explanation
Indices: 352985--353033 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
352975 AATATTTTCT
*
352985 AAAAATAT-CATATA-ATTATAAA
1 AAAAATATGAATATATATT-TAAA
353007 AAAAATATGAATATATATTTAAA
1 AAAAATATGAATATATATTTAAA
353030 AAAA
1 AAAA
353034 TTAAAAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 13 0.54
24 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATATGAATATATATTTAAA
Found at i:353265 original size:31 final size:31
Alignment explanation
Indices: 353207--353266 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
353197 TAGTTGTATG
* ** *
353207 AATTATTTAAATTTCATTATTGTAAAACTAA
1 AATTATTTAAATCTCAGCATTGCAAAACTAA
353238 AATTATTTAAATCTCAGCATTGCAAAACT
1 AATTATTTAAATCTCAGCATTGCAAAACT
353267 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGCATTGCAAAACTAA
Found at i:353644 original size:8 final size:8
Alignment explanation
Indices: 353623--354510 Score: 148
Period size: 8 Copynumber: 108.4 Consensus size: 8
353613 TAATTTGATA
*
353623 TATATAAT
1 TATATATT
*
353631 TCTATATT
1 TATATATT
353639 TATATACTT
1 TATATA-TT
353648 TA-ATACTT
1 TATATA-TT
353656 TATAT-TGT
1 TATATAT-T
*
353664 ATATTTATAT
1 -TATATAT-T
353674 TATATAGTT
1 TATATA-TT
*
353683 TA-ATACT
1 TATATATT
353690 T-TATA-T
1 TATATATT
353696 TATATA-T
1 TATATATT
353703 T-TATA-T
1 TATATATT
353709 T-TATATT
1 TATATATT
353716 TATATACTT
1 TATATA-TT
*
353725 TA-ATACT
1 TATATATT
353732 T-TATA-T
1 TATATATT
*
353738 GATATACTT
1 TATATA-TT
353747 TA-ATATT
1 TATATATT
353754 T-TATATT
1 TATATATT
353761 TAATACTTATAT
1 T-ATA--TAT-T
353773 TATATAGTT
1 TATATA-TT
*
353782 TA-ATACT
1 TATATATT
*
353789 T-TATA-G
1 TATATATT
353795 TATATACTT
1 TATATA-TT
*
353804 TAATATATA
1 T-ATATATT
353813 TATATATAT
1 TATATAT-T
*
353822 TATA-ACT
1 TATATATT
*
353829 TATACTTTGT
1 TATA-TAT-T
353839 AGTATATACTT
1 --TATATA-TT
353850 TA-ATAATT
1 TATAT-ATT
*
353858 TA-ATACT
1 TATATATT
*
353865 TATA-ACT
1 TATATATT
353872 TATATA--
1 TATATATT
*
353878 TATATATA
1 TATATATT
*
353886 TATATACT
1 TATATATT
353894 TATATATT
1 TATATATT
353902 T-TATA-T
1 TATATATT
353908 TATATAATT
1 TATAT-ATT
353917 TA-ATACTT
1 TATATA-TT
* *
353925 TACATTATA
1 TATA-TATT
*
353934 TACTAAAACTT
1 TA-T-ATA-TT
353945 TATATATAT
1 TATATAT-T
*
353954 ATATATACT
1 -TATATATT
*
353963 TATA-CTT
1 TATATATT
* *
353970 TATATGTA
1 TATATATT
353978 TATATACTT
1 TATATA-TT
353987 T-TATA-T
1 TATATATT
353993 TATATAGTT
1 TATATA-TT
*
354002 TATATACT
1 TATATATT
*
354010 TATA-CTT
1 TATATATT
* *
354017 TATATGTG
1 TATATATT
354025 TATATACTT
1 TATATA-TT
*
354034 T-TATA-C
1 TATATATT
354040 TATATAGTT
1 TATATA-TT
*
354049 TATATACT
1 TATATATT
*
354057 TATATACT
1 TATATATT
354065 T-TATA-T
1 TATATATT
*
354071 TATATACAT
1 TATATA-TT
*
354080 TA-ATACT
1 TATATATT
354087 T-TATA-T
1 TATATATT
354093 TATATACTT
1 TATATA-TT
*
354102 TATA-GTT
1 TATATATT
354109 TATATA--
1 TATATATT
*
354115 TATATACT
1 TATATATT
*
354123 TATA-GTT
1 TATATATT
*
354130 TATATTATA
1 TATA-TATT
*
354139 TACTAAAACTT
1 TA-T-ATA-TT
354150 TATATATAT
1 TATATAT-T
*
354159 ATATATATA
1 -TATATATT
354168 TATATACTT
1 TATATA-TT
354177 TATAGT-TT
1 TATA-TATT
354185 ATATATATACT
1 -TATATAT--T
354196 TATATACTT
1 TATATA-TT
*
354205 TAT-TATA
1 TATATATT
*
354212 TACTAAAACTT
1 TA-T-ATA-TT
354223 TATAGT-TT
1 TATA-TATT
354231 ATATATATACT
1 -TATATAT--T
*
354242 TATATA-C
1 TATATATT
354249 T-TATATT
1 TATATATT
*
354256 TA-ATACT
1 TATATATT
354263 TATATATT
1 TATATATT
354271 ATATATATACT
1 -TATATAT--T
354282 T-TATA-T
1 TATATATT
**
354288 TATATGCT
1 TATATATT
354296 TATATACTT
1 TATATA-TT
* *
354305 TA-GTCTT
1 TATATATT
354312 TATA-A-T
1 TATATATT
354318 TATACT-TT
1 TATA-TATT
*
354326 T-TATATG
1 TATATATT
*
354333 TATATAATA
1 TATAT-ATT
354342 TACTTATACTT
1 TA--TATA-TT
354353 TATAGTA-T
1 TATA-TATT
354361 TATATATGT
1 TATATAT-T
354370 ATATATACTT
1 -TATATA-TT
*
354380 TATATACT
1 TATATATT
354388 TATATACTT
1 TATATA-TT
354397 TATA-ATT
1 TATATATT
* *
354404 AGACTATATA
1 -TA-TATATT
354414 TATATATAT
1 TATATAT-T
* *
354423 AATATACT
1 TATATATT
*
354431 TATA-CTT
1 TATATATT
354438 TATAT-TAT
1 TATATAT-T
*
354446 TATATATG
1 TATATATT
354454 TATATATGCT
1 TATATAT--T
354464 T-TATATGT
1 TATATAT-T
354472 ATATATAGTT
1 -TATATA-TT
354482 TATATATAT
1 TATATAT-T
*
354491 ATATATATA
1 -TATATATT
354500 TATATATT
1 TATATATT
354508 TAT
1 TAT
354511 TTATATTTAA
Statistics
Matches: 657, Mismatches: 91, Indels: 264
0.65 0.09 0.26
Matches are distributed among these distances:
6 47 0.07
7 143 0.22
8 201 0.31
9 157 0.24
10 71 0.11
11 31 0.05
12 7 0.01
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (8 bp):
TATATATT
Found at i:353660 original size:35 final size:36
Alignment explanation
Indices: 353620--354287 Score: 243
Period size: 36 Copynumber: 18.7 Consensus size: 36
353610 TTATAATTTG
353620 ATATATATA-ATTCTATATTTATATACTTTAATACTT
1 ATATATATATATT-TATATTTATATACTTTAATACTT
* *
353656 -TATATTGTATATTTATA-TTATATAGTTTAATACTTTAT
1 ATATA-TATATATTTATATTTATATACTTTAATAC--T-T
353694 ATTATATATTTATATTTATATTTATATACTTTAATACTT
1 A-TATATA--TATATTTATATTTATATACTTTAATACTT
353733 -TATATGATATACTTTAATATTT-TATA-TTTAATACTT
1 ATATAT-ATATA-TTT-ATATTTATATACTTTAATACTT
* * *
353769 ATAT-TATATAGTTTAATACTT-TATAGTAT-ATACTT
1 ATATATATATA-TTT-ATATTTATATACTTTAATACTT
*
353804 -TA-ATATATATATATATATTATA-AC-TT-ATACTT
1 ATATATATATATTTATAT-TTATATACTTTAATACTT
*
353836 -TGTAGTATATACTTTAATAATTTA-ATAC-TT-ATAACTT
1 ATATA-TATATA-TTT-AT-ATTTATATACTTTAAT-ACTT
* *
353873 ATATATATATATATATATACTTATATA-TTTTATA-TT
1 ATATATATATAT-T-TATATTTATATACTTTAATACTT
* * *
353909 ATATAATTTAATACTTTACA-TTATATAC--TAAAACTT
1 ATAT-ATAT-ATA-TTTATATTTATATACTTTAATACTT
* *
353945 -TATATATATATATATA-CT-TATACTTT-ATA-TGT
1 ATATATATATATTTATATTTATATACTTTAATACT-T
* *
353977 ATATATA-CT-TTTATA-TTATATAGTTTATATACTT
1 ATATATATATATTTATATTTATATACTTTA-ATACTT
* * * *
354011 ATACTTTATATGTGTATATACTTT-TATACTAT-ATAGTTT
1 ATA-TATATATAT-T-TATA-TTTATATACTTTAATA-CTT
*
354050 ATATACTTATATACTTTATA-TTATATACATTAATACTT
1 ATATA--TATATA-TTTATATTTATATACTTTAATACTT
*
354088 -TATATTATATACTTTATAGTTTATATA-TAT-ATACTT
1 ATATA-TATATA-TTTATA-TTTATATACTTTAATACTT
* *
354124 ATAGT-T-TATA-TTATATACTA-AAACTTT-ATA-TAT
1 ATA-TATATATATTTATAT-TTATATACTTTAATACT-T
* * *
354157 ATATATATATATATATACTT-TATAGTTT-ATA--T
1 ATATATATATATTTATATTTATATACTTTAATACTT
* * *
354189 ATATACTTATATACTTTATTATATACTAAAACTTT-ATAGTT
1 ATATA--TATATA-TTTA-TATTTA-T-ATACTTTAATACTT
* *
354230 -TATATATATACTTATATACT-TATA-TTTAATACTT
1 ATATATATATATTTATAT-TTATATACTTTAATACTT
*
354264 ATATAT-TATATATATACTTTATAT
1 ATATATATATATTTATA-TTTATAT
354288 TATATGCTTA
Statistics
Matches: 490, Mismatches: 60, Indels: 165
0.69 0.08 0.23
Matches are distributed among these distances:
31 12 0.02
32 38 0.08
33 36 0.07
34 61 0.12
35 77 0.16
36 83 0.17
37 60 0.12
38 46 0.09
39 27 0.06
40 21 0.04
41 14 0.03
42 15 0.03
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (36 bp):
ATATATATATATTTATATTTATATACTTTAATACTT
Found at i:353692 original size:22 final size:22
Alignment explanation
Indices: 353667--354306 Score: 226
Period size: 22 Copynumber: 29.2 Consensus size: 22
353657 ATATTGTATA
*
353667 TTTATATTATATAGTTTAATAC
1 TTTATATTATATACTTTAATAC
353689 TTTATATTATATA-TTT-ATA-
1 TTTATATTATATACTTTAATAC
353708 TTTATATTTATATACTTTAATAC
1 TTTATA-TTATATACTTTAATAC
* *
353731 TTTATATGATATACTTTAATAT
1 TTTATATTATATACTTTAATAC
353753 TTTATATT-TAATAC-TT-ATA-
1 TTTATATTAT-ATACTTTAATAC
*
353772 TTATATAGTT-TAATACTTT-ATAG
1 TT-TATA-TTAT-ATACTTTAATAC
* *
353795 TATATACTT-TA-A-TATATATA-
1 TTTATA-TTATATACTTTA-ATAC
*
353815 TATATATTATA-AC-TT-ATAC
1 TTTATATTATATACTTTAATAC
* * *
353834 TTTGTAGTATATACTTTAATAA
1 TTTATATTATATACTTTAATAC
353856 TTTAATACTTATA-AC-TTATATA-
1 TTT-ATA-TTATATACTTTA-ATAC
* *
353878 TATATATATATATAC-TTATATAT
1 TTTATAT-TATATACTTTA-ATAC
*
353901 TTTATATTATATAATTTAATAC
1 TTTATATTATATACTTTAATAC
* *
353923 TTTACATTATATAC--TAAAAC
1 TTTATATTATATACTTTAATAC
*
353943 TTTATA-TATATA-TAT-ATAC
1 TTTATATTATATACTTTAATAC
* *
353962 -TTATACTT-TATATGTATATATAC
1 TTTATA-TTATATA-CTTTA-ATAC
*
353985 TTTTATATTATATAGTTTATATAC
1 -TTTATATTATATACTTTA-ATAC
354009 -TTATACTT-TATA-TGTGTATATAC
1 TTTATA-TTATATACT-T-TA-ATAC
* *
354032 TTTTATACTATATAGTTTATATAC
1 -TTTATATTATATACTTTA-ATAC
*
354056 TTATATACTTTATATTATATACATTAATAC
1 TT-TATA---T-T---ATATACTTTAATAC
*
354086 TTTATATTATATACTTT-ATAG
1 TTTATATTATATACTTTAATAC
*
354107 TTTATATATATATAC-TT-ATAG
1 TTTATAT-TATATACTTTAATAC
*
354128 TTTATATTATATAC--TAAAAC
1 TTTATATTATATACTTTAATAC
*
354148 TTTATATATATATATATATATATATAC
1 TTTATAT-TATATA-CT-T-TA-ATAC
*
354175 TTTATAGTT-TATA-TAT-ATAC
1 TTTATA-TTATATACTTTAATAC
* *
354195 TTATATACTTTATTATA-TACTAAAAC
1 TT-TATA--TTA-TATACT-TTAATAC
*
354221 TTTATAGTT-TATA-TAT-ATAC
1 TTTATA-TTATATACTTTAATAC
*
354241 TTATATACT-TATA-TTTAATAC
1 TT-TATATTATATACTTTAATAC
354262 TTATATATTATATA---T-ATAC
1 TT-TATATTATATACTTTAATAC
*
354281 TTTATATTATATGC-TTATATAC
1 TTTATATTATATACTTTA-ATAC
354303 TTTA
1 TTTA
354307 GTCTTTATAA
Statistics
Matches: 501, Mismatches: 44, Indels: 146
0.73 0.06 0.21
Matches are distributed among these distances:
18 18 0.04
19 40 0.08
20 79 0.16
21 84 0.17
22 139 0.28
23 38 0.08
24 35 0.07
25 25 0.05
26 13 0.03
27 10 0.02
28 2 0.00
29 4 0.01
30 6 0.01
31 8 0.02
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (22 bp):
TTTATATTATATACTTTAATAC
Found at i:353723 original size:77 final size:78
Alignment explanation
Indices: 353620--354400 Score: 332
Period size: 77 Copynumber: 9.5 Consensus size: 78
353610 TTATAATTTG
* *
353620 ATATATATA-ATTCTATATTTATATACTTTAATACTTTATATTGTATA-TTTATATTATATAGTT
1 ATATATTTATATT-TATATTTATATACTTTAATACTTTATATTATATACTTTATATTATATAGTT
353683 TAATACTTTATATT
65 TAATACTTTATATT
* *
353697 ATATATTTATATTTATATTTATATACTTTAATACTTTATATGATATACTTTAATATTTTATA-TT
1 ATATATTTATATTTATATTTATATACTTTAATACTTTATATTATATACTTT-ATATTATATAGTT
353761 TAATAC-TTATATT
65 TAATACTTTATATT
*
353774 ATATAGTTTAATACTTTATA-GTATATACTTTAATA-TATATATATATATTATAACTTATACTTT
1 ATATA-TTT-ATA-TTTATATTTATATACTTTAATACT-T-TATAT-TA-TAT-ACTT-TA----
* * *
353837 GTAGTATATACTTTAATAATTTAATACTT
53 -TATTATATAGTTTAATACTTT-ATA-TT
* * * *
353866 ATA-ACTTATATATATATATATATATAC-TTATATATTTTATATTATATAATTTAATACTTTACA
1 ATATA-TT-TATATTTATATTTATATACTTTA-ATACTTTATATTATATACTTT-ATA--TT--A
* *
353929 TTATA-TACTAAAACTTTATATATAT
58 -TATAGT-TTAATAC-TT-TATAT-T
*
353954 ATATATACTTATACTTTATATGTATATATACTTTTATA-TTATATAGTTTATATAC-TTATACTT
1 ATATAT--TTATA-TTTATAT-T-TATATACTTTAATACTT-TATA--TTATATACTTTATA-TT
* *
354017 -TATATGTGTATATACTTTTATACT
57 ATATA-GTTTA-ATAC-TTTATATT
* * *
354041 ATATAGTT-TA--TATACTTATATACTTT-ATA-TTATATACATTA-ATACTTTATATTATATAC
1 ATATATTTATATTTATATTTATATACTTTAATACTT-TAT--ATTATATACTTTATATTATATAG
*
354100 TTT-ATAGTTTATATAT
63 TTTAATACTTTATAT-T
* * * *
354116 ATATACTTATAGTTTATA-TTATATAC--TAAAACTTTATA-TATATA-TATATATATATATACT
1 ATATATTTATA-TTTATATTTATATACTTTAATACTTTATATTATATACTTTATAT-TATATAGT
*
354176 TT-ATAGTTTATA-T
64 TTAATACTTTATATT
* * * *
354189 ATATACTTATATACTTTATTATATACTAAAACTTT-ATAGTTTATA-TATATACTTATATACT-T
1 ATATA-TT-TATA-TTTA-TATTTA-T-ATACTTTAATACTTTATATTATATACTT-TATATTAT
354251 ATA-TTTAATACTTATATATT
59 ATAGTTTAATACTT-TATATT
* * *
354271 ATATATATACTTTATATTATATGCTTATATACTTTAGT-CTTTATAATTATACT-TTTTATATGT
1 ATATAT-T--TATAT-TTATAT--TTATATACTTTAATACTTTAT-ATTATA-TACTTTATAT-T
* * *
354334 ATATAATATACTTATACTTTATAGT
57 ATATAGT-T--TAATACTTTATATT
* * *
354359 ATTATATATGTATATATACTTTATATAC-TTATATACTTTATA
1 A-TATATTTATATTTATA-TTTATATACTTTA-ATACTTTATA
354401 ATTAGACTAT
Statistics
Matches: 554, Mismatches: 57, Indels: 179
0.70 0.07 0.23
Matches are distributed among these distances:
73 6 0.01
74 15 0.03
75 43 0.08
76 5 0.01
77 67 0.12
78 50 0.09
79 47 0.08
80 36 0.06
81 13 0.02
82 31 0.06
83 21 0.04
84 23 0.04
85 17 0.03
86 9 0.02
87 24 0.04
88 32 0.06
89 34 0.06
90 22 0.04
91 24 0.04
92 24 0.04
93 4 0.01
94 7 0.01
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (78 bp):
ATATATTTATATTTATATTTATATACTTTAATACTTTATATTATATACTTTATATTATATAGTTT
AATACTTTATATT
Found at i:353879 original size:2 final size:2
Alignment explanation
Indices: 353872--354516 Score: 105
Period size: 2 Copynumber: 319.5 Consensus size: 2
353862 ACTTATAACT
*
353872 TA TA TA TA TA TA TA TA TA TA CT- TA TA TA T- TT TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
353912 TA -A TT TA -A TA CTT TA CA T- TA TA TA CTA -A AA CTT TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * *
353951 TA TA TA TA TA CT- TA TA CTT TA TA TG TA TA TA TA CT- TT TA TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
353992 T- TA TA TA GTT TA TA TA CT- TA TA CTT TA TA TG TG TA TA TA CT-
1 TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
354033 TT TA TA CTA TA TA GTT TA TA TA CT- TA TA TA CTT TA TA T- TA TA
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA
* * * *
354075 TA CA T- TA -A TA CTT TA TA T- TA TA TA CTT TA TA GTT TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * *
354115 TA TA TA CT- TA TA GTT TA TA T- TA TA TA CTA -A AA CTT TA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* *
354156 TA TA TA TA TA TA TA TA TA CTT TA TA GTT TA TA TA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA
* * * *
354198 TA TA CTT TA T- TA TA TA CTA -A AA CTT TA TA GTT TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA
*
354240 CT- TA TA TA CT- TA TA TT TA -A TA CT- TA TA TA T- TA TA TA TA
1 -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
354278 TA CTT TA TA T- TA TA TGC T- TA TA TA CTT TA GTC TT TA TA -A T-
1 TA -TA TA TA TA TA TA T-A TA TA TA TA -TA TA -TA TA TA TA TA TA
* * * *
354318 TA TA CTT TT TA TA TG TA TA TA -A TA TA CT- TA TA CTT TA TA GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA
* * *
354360 T- TA TA TA TG TA TA TA TA CTT TA TA TA CT- TA TA TA CTT TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA TA
* *
354401 -A T- TA GA CTA TA TA TA TA TA TA TA -A TA TA CT- TA TA CTT TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * *
354440 TA T- TA T- TA TA TA TG TA TA TA TGC TT TA TA TG TA TA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA -TA
* *
354482 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
354517 TTAAACTATA
Statistics
Matches: 464, Mismatches: 89, Indels: 180
0.63 0.12 0.25
Matches are distributed among these distances:
1 42 0.09
2 372 0.80
3 50 0.11
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:354005 original size:7 final size:6
Alignment explanation
Indices: 353654--354292 Score: 131
Period size: 7 Copynumber: 94.2 Consensus size: 6
353644 ACTTTAATAC
353654 TTTATA TTGTATA TTTATA TTATATA GTTTAATA CTTTATA TTATATA
1 TTTATA TT-TATA TTTATA TT-TATA -TTT-ATA -TTTATA TT-TATA
*
353702 TTTATA TTTATA TTTATATA CTTTAATA CTTTATA TGATATA CTTTAATA
1 TTTATA TTTATA -TT-TATA -TTT-ATA -TTTATA T-TTATA -TTT-ATA
* *
353752 TTTTATA TTTAATA CTTATA TTATATA GTTTAATA CTTTATA GTATATA
1 -TTTATA TTT-ATA TTTATA TT-TATA -TTT-ATA -TTTATA -TTTATA
* * * * *
353801 CTTTA-A TATATA TATATA TATTATAA CTTATA CTTTGTA GTATATA CTTTAATAA
1 -TTTATA TTTATA TTTATA T-TTAT-A TTTATA -TTTATA -TTTATA -TTT-AT-A
* * * *
353856 TTTAATA CTTATAA CTTATA --TATA TATATA TATATA CTTATATA TTTTATA
1 TTT-ATA TTTAT-A TTTATA TTTATA TTTATA TTTATA -TT-TATA -TTTATA
* * * * *
353907 TTATATAA TTTAATA CTTTACA TTATATA CTAAAA CTTTATA TATATA
1 TT-TAT-A TTT-ATA -TTTATA TT-TATA TTTATA -TTTATA TTTATA
* * * *
353955 TATATA CTTATA CTTTATA TGTATA TATACT- TTTATA TTATATA GTTTATA
1 TTTATA TTTATA -TTTATA TTTATA TTTA-TA TTTATA TT-TATA -TTTATA
* * * *
354006 TACTTATA CTTTATA TGTGTA TATACT- TTTATA CTATATA GTTTATATA
1 T--TTATA -TTTATA TTTATA TTTA-TA TTTATA -TTTATA --TT-TATA
*
354055 CTTATATA CTTTATA TTATATACA TTAATA CTTTATA TTATATA CTTTATA
1 -TT-TATA -TTTATA TT-TAT--A TTTATA -TTTATA TT-TATA -TTTATA
* * * *
354106 GTTTATA TATATATA CTTATA GTTTATA TTATATA CTAAAA CTTTATA
1 -TTTATA T-T-TATA TTTATA -TTTATA TT-TATA TTTATA -TTTATA
* * *
354154 TATATATA TATATA TATATA CTTTATA GTTTATA TATATA CTTATATA
1 T-T-TATA TTTATA TTTATA -TTTATA -TTTATA TTTATA -TT-TATA
* * * * * *
354202 CTTTAT- TATATA CTAAAA CTTTATA GTTTATA TATATA CTTATATA CTTATA
1 -TTTATA TTTATA TTTATA -TTTATA -TTTATA TTTATA -TT-TATA TTTATA
* *
354254 TTTAATA CTTATA TATTATA TATATA CTTTATA -TTATA T
1 TTT-ATA TTTATA T-TTATA TTTATA -TTTATA TTTATA T
354293 GCTTATATAC
Statistics
Matches: 482, Mismatches: 82, Indels: 138
0.69 0.12 0.20
Matches are distributed among these distances:
4 4 0.01
5 14 0.03
6 145 0.30
7 209 0.43
8 101 0.21
9 9 0.02
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTATA
Found at i:354013 original size:47 final size:44
Alignment explanation
Indices: 353767--354305 Score: 265
Period size: 47 Copynumber: 11.9 Consensus size: 44
353757 TATTTAATAC
* *
353767 TTATATTATATAGTTTAATACTTTATA-G--TATATACTTTAATAT
1 TTATATTATATA-CTT-ATACTTTATATGTATATATACTTTTATAT
* * *
353810 ATATA-TATATA-TTATAACTTATACTTTGTAGTATATACTTTAATAAT
1 TTATATTATATACTTAT-ACTT-TA-TATGTA-TATATACTTTTAT-AT
* * *
353857 TTAATACTTATA-ACTTATA-TATATATATATATATACTTATATATT
1 TT-ATA-TTATATACTTATACTTTATATGTATATATACTTTTATA-T
* *
353902 TTATATTATATAATTTAATACTTTACAT-TATATACTAAAAC-TTTATAT
1 TTATATTATAT-ACTT-ATACTTTATATGTATATA-T---ACTTTTATAT
*
353950 ATATA-TATATACTTATACTTTATATGTATATATACTTTTATAT
1 TTATATTATATACTTATACTTTATATGTATATATACTTTTATAT
*
353993 TATATAGTTTATATACTTATACTTTATATGTGTATATACTTTTATACT
1 T-TATA--TTATATACTTATACTTTATATGTATATATACTTTTATA-T
* * *
354041 ATATAGTTTATATACTTATATACTTTATA--T-TATATACATTAATACT
1 TTATA--TTATATAC-T-TATACTTTATATGTATATATACTTTTATA-T
*
354087 TTATATTATATACTTTATAGTTTATA--TATATATAC--TTATAGT
1 TTATATTATATAC-TTATACTTTATATGTATATATACTTTTATA-T
* * *
354129 TTATATTATATACTAAAACTTTATATATATATATA-TATATATATACT
1 TTATATTATATACTTATACTTTATATGTATATATACT-T-T-TATA-T
*
354176 TTATAGTT-TATA-TATATACTTATATACTTTATTATATACTAAAACTTTATAGT
1 TTATA-TTATATACT-TATACTT-TATA-TGTA-TATATACT-----TTTATA-T
*
354229 TTATA-TATATACTTATA-TACTTATAT-T-TA-ATACTTATATA-
1 TTATATTATATACTTATACT--TTATATGTATATATACTTTTATAT
354269 TTATA-TATATACTT-TA-TATTATATGCT-TATATACTTT
1 TTATATTATATACTTATACT-TTATATG-TATATATACTTT
354306 AGTCTTTATA
Statistics
Matches: 405, Mismatches: 36, Indels: 112
0.73 0.07 0.20
Matches are distributed among these distances:
38 6 0.01
39 5 0.01
40 23 0.06
41 17 0.04
42 32 0.08
43 36 0.09
44 25 0.06
45 28 0.07
46 55 0.14
47 91 0.22
48 19 0.05
49 21 0.05
50 17 0.04
51 4 0.01
52 12 0.03
53 12 0.03
54 1 0.00
55 1 0.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (44 bp):
TTATATTATATACTTATACTTTATATGTATATATACTTTTATAT
Found at i:354253 original size:73 final size:72
Alignment explanation
Indices: 354088--354281 Score: 246
Period size: 73 Copynumber: 2.7 Consensus size: 72
354078 ATTAATACTT
354088 TATATTATATACTTTATAGTTTATATATATATACTTATAGT-TTATATTATATACTAAAACTTTA
1 TATATTATATACTTTATAG-TT-TATATATATACTTATA-TATTATATTATATACTAAAACTTTA
354152 TATATATATA
63 TATATATATA
354162 TATATATATATACTTTATAGTTTATATATATACTTATATACTT-TATTATATACTAAAACTTTAT
1 TATAT-TATATACTTTATAGTTTATATATATACTTATATA-TTATATTATATACTAAAACTTTAT
*
354226 AGTTTATATA
64 A-TATATATA
354236 TATACTTATATAC-TTATA---T-T-TA-ATACTTATATATTATA-TATATACT
1 TATA-TTATATACTTTATAGTTTATATATATACTTATATATTATATTATATACT
354282 TTATATTATA
Statistics
Matches: 113, Mismatches: 1, Indels: 20
0.84 0.01 0.15
Matches are distributed among these distances:
66 10 0.09
67 13 0.12
68 2 0.02
69 1 0.01
70 1 0.01
72 1 0.01
73 43 0.38
74 27 0.24
75 15 0.13
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (72 bp):
TATATTATATACTTTATAGTTTATATATATACTTATATATTATATTATATACTAAAACTTTATAT
ATATATA
Found at i:354298 original size:13 final size:14
Alignment explanation
Indices: 353623--354516 Score: 244
Period size: 14 Copynumber: 63.4 Consensus size: 14
353613 TAATTTGATA
*
353623 TATATAATTCTATATT
1 TATATACTT-TATA-T
353639 TATATACTTTAATACT
1 TATATACTTT-ATA-T
353655 T-TATA-TTGTATAT
1 TATATACTT-TATAT
353668 T-TATA-TTATATAGT
1 TATATACTT-TATA-T
353682 T-TAATACTTTATAT
1 TAT-ATACTTTATAT
353696 TATATA-TTTATAT
1 TATATACTTTATAT
353709 T-TATA-TTTATAT
1 TATATACTTTATAT
*
353721 ACTTTAATACTTTATAT
1 --TAT-ATACTTTATAT
*
353738 GATATACTTTAATAT
1 TATATACTTT-ATAT
*
353753 TTTATA-TTTAATACT
1 TATATACTTT-ATA-T
*
353768 TATAT--TATATAGT
1 TATATACTTTATA-T
*
353781 T-TAATACTTTATAG
1 TAT-ATACTTTATAT
353795 TATATACTTTAATAT
1 TATATACTTT-ATAT
*
353810 ATATATA-TATATTAT
1 -TATATACTTTA-TAT
* * *
353825 AACTTATACTTTGTAG
1 TA--TATACTTTATAT
353841 TATATACTTTA-A-
1 TATATACTTTATAT
*
353853 TA-AT--TTAATACT
1 TATATACTTTATA-T
353865 TATA-ACTTATATAT
1 TATATACTT-TATAT
*
353879 ATATATA-TATATACT
1 -TATATACTTTATA-T
*
353894 TATATATTTTATAT
1 TATATACTTTATAT
*
353908 TATATAATTTA-A-
1 TATATACTTTATAT
* *
353920 TACTTTACATTATA-
1 TA-TATACTTTATAT
*
353934 TACTAAAACTTTATA-
1 TA-T-ATACTTTATAT
* *
353949 TATATA-TATATAC
1 TATATACTTTATAT
353962 T-TATACTTTATATGT
1 TATATACTTTATA--T
353977 ATATATACTTTTATAT
1 -TATATAC-TTTATAT
*
353993 TATATAGTTTATA-
1 TATATACTTTATAT
354006 TACTTATACTTTATATGT
1 TA--TATACTTTATA--T
*
354024 GTATATACTTTTATAC
1 -TATATAC-TTTATAT
*
354040 TATATAGTTTATATACT
1 TATATA-CTT-TATA-T
354057 TATATACTTTATAT
1 TATATACTTTATAT
*
354071 TATATACATTAATACT
1 TATATAC-TTTATA-T
354087 T-TATA-TTATATACT
1 TATATACTT-TATA-T
*
354101 T-TATAGTTTATAT
1 TATATACTTTATAT
354114 ATATATAC-TTATAGT
1 -TATATACTTTATA-T
*
354129 T-TATA-TTATATAC
1 TATATACTT-TATAT
*
354142 TA-AAACTTTATA-
1 TATATACTTTATAT
*
354154 TATATA-TATATAT
1 TATATACTTTATAT
354167 ATATATACTTTATAGT
1 -TATATACTTTATA-T
*
354183 T-TATA-TATATACT
1 TATATACTTTATA-T
354196 TATATAC-TT-TAT
1 TATATACTTTATAT
* *
354208 TATATAC-TAAAACT
1 TATATACTTTATA-T
*
354222 T-TATAGTTTATA-
1 TATATACTTTATAT
354234 TATATACTTATATACT
1 TATATACTT-TATA-T
*
354250 TATAT--TTAATACT
1 TATATACTTTATA-T
354263 TATATA--TTATA-
1 TATATACTTTATAT
354274 TATATACTTTATAT
1 TATATACTTTATAT
*
354288 TATATGCTTATATACT
1 TATATACTT-TATA-T
354304 T-TAGT-CTTTATAAT
1 TATA-TACTTTAT-AT
*
354318 TATACT-TTTTATAT
1 TATA-TACTTTATAT
* *
354332 GTATATA--ATATAC
1 -TATATACTTTATAT
*
354345 T-TATACTTTATAG
1 TATATACTTTATAT
* *
354358 TAT-TA-TATATGT
1 TATATACTTTATAT
354370 ATATATACTTTATATACT
1 -TATATAC-TT-TATA-T
*
354388 TATATACTTTATAA
1 TATATACTTTATAT
* *
354402 T-TAGACTATATAT
1 TATATACTTTATAT
* *
354415 ATATATA-TAATATAC
1 -TATATACT-TTATAT
354430 T-TATACTTTATAT
1 TATATACTTTATAT
* *
354443 TAT-TA-TATATGT
1 TATATACTTTATAT
*
354455 ATATATGCTTTATATGT
1 -TATATACTTTATA--T
*
354472 ATATATAGTTTATA-
1 -TATATACTTTATAT
*
354486 TATATA-TATATAT
1 TATATACTTTATAT
354499 ATATATA-TTTAT-T
1 -TATATACTTTATAT
354512 TATAT
1 TATAT
354517 TTAAACTATA
Statistics
Matches: 678, Mismatches: 89, Indels: 226
0.68 0.09 0.23
Matches are distributed among these distances:
9 3 0.00
10 1 0.00
11 12 0.02
12 64 0.09
13 146 0.22
14 181 0.27
15 154 0.23
16 54 0.08
17 48 0.07
18 13 0.02
19 2 0.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (14 bp):
TATATACTTTATAT
Found at i:354302 original size:203 final size:204
Alignment explanation
Indices: 353880--354400 Score: 522
Period size: 203 Copynumber: 2.5 Consensus size: 204
353870 CTTATATATA
* * *
353880 TATATATATATACTTATATATTTTATAT-TATATAATTTAATACTTTACATTATATACTAAAACT
1 TATAT-TATATACTT-TATACTTTATATATATAT-ACTT-ATA-TTTATATTATATACTAAAACT
* *
353944 TTATATATATATATATA-CT-TATACTTTATATGTATATATACTTTTATATTATATAGTTTATAT
61 TTATATATATATATATATATATATACTTTATATGTATATATACTCTTATATTATATAG-TTATAT
* * * * *
354007 ACTTATACTTTATATGTGTATATACTTTTATACTATATAGTTTATATACTTATATACTTTATATT
125 ACTAAAACTTTATATATATATATACTTATATACTATATAGTTTATATACTTATATAC-TTATATT
354072 ATATACATTAATACTT
189 ATATACATTAATACTT
*
354088 TATATTATATACTTTATAGTTTATATATATATACTTATAGTTTATATTATATACTAAAACTTTAT
1 TATATTATATACTTTATACTTTATATATATATACTTATA-TTTATATTATATACTAAAACTTTAT
* *
354153 ATATATATATATATATATATACTTTATAGTTTATATATA-TACTTATA-TACTTTA-TTATATAC
65 ATATATATATATATATATATACTTTATA-TGTATATATACT-CTTATATTA-TATAGTTATATAC
354215 TAAAACTTTATAGTTTATATATATACTTATATACT-TATA-TTTA-ATACTTATATA-TTATA-T
127 TAAAACTTTATA---TATATATATACTTATATACTATATAGTTTATATACTTATATACTTATATT
*
354275 ATATAC-TTTATA-TT
189 ATATACATTAATACTT
* * * * *
354289 ATATGCTTATATACTTTAGT-CTTTATA-AT-TATACTTTTTATATGTATATAATATACTTATAC
1 -TAT-ATTATATACTTTA-TACTTTATATATATATAC---TTATATTTATATTATATACTAAAAC
* *
354351 TTTATAGTAT-TATATATGTATATATACTTTATATACT-TATATACT-TTATA
60 TTTATA-TATATATATATATATATATACTTTATAT-GTATATATACTCTTATA
354401 ATTAGACTAT
Statistics
Matches: 273, Mismatches: 22, Indels: 43
0.81 0.07 0.13
Matches are distributed among these distances:
201 12 0.04
202 17 0.06
203 71 0.26
204 14 0.05
205 40 0.15
206 44 0.16
207 32 0.12
208 26 0.10
209 17 0.06
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (204 bp):
TATATTATATACTTTATACTTTATATATATATACTTATATTTATATTATATACTAAAACTTTATA
TATATATATATATATATATACTTTATATGTATATATACTCTTATATTATATAGTTATATACTAAA
ACTTTATATATATATATACTTATATACTATATAGTTTATATACTTATATACTTATATTATATACA
TTAATACTT
Found at i:354527 original size:85 final size:84
Alignment explanation
Indices: 354295--354506 Score: 245
Period size: 85 Copynumber: 2.5 Consensus size: 84
354285 TATTATATGC
* * * * * *
354295 TTATATACTT-TAGT-CTTTATAATTATACTTTTTATATGTATATAATATACTTATACTTTATAG
1 TTATATACTTATA-TACTTTATAATTAGACTATATATATATATATAATATACTTAAAC-TTATAT
354358 TATTATATATGTATATATACT
64 TATTATATATGTATATATACT
*
354379 TTATATACTTATATACTTTATAATTAGACTATATATATATATATAATATACTTATACTTTATATT
1 TTATATACTTATATACTTTATAATTAGACTATATATATATATATAATATACTTAAAC-TTATATT
*
354444 ATTATATATGTATATATGCT
65 ATTATATATGTATATATACT
* * *
354464 TTATAT-GTATATATAGTTTAT-ATATATA-TATATATATATATAT
1 TTATATACT-TATATACTTTATAAT-TAGACTATATATATATATAT
354507 TTATTTATAT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
84 29 0.25
85 86 0.75
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (84 bp):
TTATATACTTATATACTTTATAATTAGACTATATATATATATATAATATACTTAAACTTATATTA
TTATATATGTATATATACT
Found at i:354532 original size:20 final size:21
Alignment explanation
Indices: 354509--354550 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
354499 ATATATATTT
354509 ATTTATATT-TAAACTATATA
1 ATTTATATTATAAACTATATA
354529 ATTTATATTAATAAACTATATA
1 ATTTATATT-ATAAACTATATA
354551 GTTATGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTATATTATAAACTATATA
Found at i:355348 original size:13 final size:13
Alignment explanation
Indices: 355328--355362 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
355318 AGTTCTAGGG
355328 AGCCTTGTGGTGT
1 AGCCTTGTGGTGT
*
355341 ATCCTTGTGGTGT
1 AGCCTTGTGGTGT
355354 AGCCTTGTG
1 AGCCTTGTG
355363 CATGGGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.17, G:0.34, T:0.40
Consensus pattern (13 bp):
AGCCTTGTGGTGT
Found at i:362948 original size:17 final size:17
Alignment explanation
Indices: 362928--362960 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
362918 GGATCGGGTC
*
362928 GGTTATCGGGTCAGGTT
1 GGTTATCGAGTCAGGTT
362945 GGTTATCGAGTCAGGT
1 GGTTATCGAGTCAGGT
362961 AAATTTTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.39, T:0.33
Consensus pattern (17 bp):
GGTTATCGAGTCAGGTT
Found at i:363107 original size:32 final size:32
Alignment explanation
Indices: 362995--363108 Score: 81
Period size: 32 Copynumber: 3.6 Consensus size: 32
362985 GATCTGTTAT
* * * * *
362995 TTTTCAGTTTAGATCAACATCAGATAGGTTGA
1 TTTTCGGTTTAGGTCAATATCAAATTGGTTGA
* * *
363027 TTTTTGG-GTCGAGTCAATATCAAATCT-GTTAGA
1 TTTTCGGTTTAG-GTCAATATCAAAT-TGGTT-GA
* **
363060 TTTTGGGTCGA-GTCAATATCAAATTGGTTGA
1 TTTTCGGTTTAGGTCAATATCAAATTGGTTGA
363091 TTTTCGGTTTAGGTCAAT
1 TTTTCGGTTTAGGTCAAT
363109 CTTAAGATCA
Statistics
Matches: 61, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
31 13 0.21
32 40 0.66
33 8 0.13
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (32 bp):
TTTTCGGTTTAGGTCAATATCAAATTGGTTGA
Found at i:368615 original size:64 final size:64
Alignment explanation
Indices: 368555--368675 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
368545 TAAAATCGGA
*
368555 TACATGTCA-ACTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
1 TACAGGTCATACTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
* * * ** *
368618 TTCGGGTTATTTTCGGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
1 TACAGGTCATACTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCA
368676 TTTTCAGTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 5 0.10
64 45 0.90
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (64 bp):
TACAGGTCATACTCAGGTTGATTTGACACCAGATCCAGATCGGGTTCAGGTCAGGTCAAATCAG
Found at i:369365 original size:2 final size:2
Alignment explanation
Indices: 369355--369585 Score: 62
Period size: 2 Copynumber: 117.0 Consensus size: 2
369345 ATTGAAAAAA
* *
369355 AT AT A- AT AT AT AT AT AT A- AT AT A- AGT TT AT AT AT AA ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT
* *
369396 AT AT AT AA ACT AT AT -T AT AT -T AT AA ACT AT AT A- AT -T AT -T
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
369435 AT A- AGT -T AT AT AT AA AT -T AT GT TT AT AT GA- ACT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
* * * * * * *
369474 AT AA ACT AT AT AT GT AA ACT AT AT AT GT AT AA ACT AT A- AA AA
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT
* * *
369516 AT AT AT AGT TT AT AA ACT AT A- AT TT AT AT -T A- AT AT AGT AT
1 AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT
* *
369556 TT AT TT 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
369586 TATTCAAATG
Statistics
Matches: 166, Mismatches: 34, Indels: 58
0.64 0.13 0.22
Matches are distributed among these distances:
1 16 0.10
2 138 0.83
3 12 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:369387 original size:15 final size:13
Alignment explanation
Indices: 369355--369584 Score: 76
Period size: 13 Copynumber: 17.4 Consensus size: 13
369345 ATTGAAAAAA
369355 ATATAATATATAT
1 ATATAATATATAT
369368 ATATAATATAAGTTTAT
1 ATATAATAT-A---TAT
369385 ATATAA-ACTATAT
1 ATATAATA-TATAT
369398 ATATAA-ACTATAT
1 ATATAATA-TATAT
* *
369411 -TATATTATAAACT
1 ATATAATATATA-T
369424 ATATAAT-TAT-T
1 ATATAATATATAT
*
369435 ATA-AGT-TATAT
1 ATATAATATATAT
* *
369446 ATA-AATTATGTTT
1 ATATAA-TATATAT
369459 ATATGAACTATATAT
1 ATAT-AA-TATATAT
369474 ATA-AACTATATAT
1 ATATAA-TATATAT
*
369487 GTA-AACTATATAT
1 ATATAA-TATATAT
*
369500 GTATAA-ACTATA-
1 ATATAATA-TATAT
*
369512 A-AAAATATATAGT
1 ATATAATATATA-T
* *
369525 TTATAAACTATAATTT
1 ATAT-AA-TAT-ATAT
369541 ATATTAATATAGTAT
1 ATA-TAATATA-TAT
* *
369556 TTAT-TTATATAT
1 ATATAATATATAT
369568 ATAT-ATATATAT
1 ATATAATATATAT
369580 ATATA
1 ATATA
369585 TTATTCAAAT
Statistics
Matches: 169, Mismatches: 23, Indels: 50
0.70 0.10 0.21
Matches are distributed among these distances:
10 5 0.03
11 16 0.09
12 27 0.16
13 68 0.40
14 11 0.07
15 19 0.11
16 10 0.06
17 13 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:369684 original size:20 final size:20
Alignment explanation
Indices: 369659--369766 Score: 60
Period size: 20 Copynumber: 5.2 Consensus size: 20
369649 ATTTTTTTTG
369659 GAAATTTAGAAGGAAATTGA
1 GAAATTTAGAAGGAAATTGA
*
369679 GAAATTTTGAGAATATAGTAAAATTGA
1 GAAA-TTT-AG---A-AG-GAAATTGA
* *
369706 G-AATTTAGAGGGAAATTGG
1 GAAATTTAGAAGGAAATTGA
* *
369725 GAAATTTAG-AGGGAATAGA
1 GAAATTTAGAAGGAAATTGA
* *
369744 -AAATTTTGGAGGGAAATTGA
1 GAAA-TTTAGAAGGAAATTGA
369764 GAA
1 GAA
369767 TTGAGATTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 21
0.66 0.12 0.21
Matches are distributed among these distances:
18 3 0.05
19 17 0.26
20 19 0.29
21 6 0.09
22 2 0.03
24 2 0.03
25 4 0.06
26 4 0.06
27 8 0.12
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.27
Consensus pattern (20 bp):
GAAATTTAGAAGGAAATTGA
Found at i:369721 original size:19 final size:19
Alignment explanation
Indices: 369699--369768 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
369689 GAATATAGTA
369699 AAATTGAGAATTTAGAGGG
1 AAATTGAGAATTTAGAGGG
*
369718 AAATTGGGAAATTTAGAGGG
1 AAATTGAG-AATTTAGAGGG
* * *
369738 -AATAGAAAATTTTGGAGGG
1 AAATTGAGAA-TTTAGAGGG
369757 AAATTGAGAATT
1 AAATTGAGAATT
369769 GAGATTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.05
19 21 0.51
20 18 0.44
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (19 bp):
AAATTGAGAATTTAGAGGG
Found at i:369978 original size:6 final size:6
Alignment explanation
Indices: 369967--370119 Score: 157
Period size: 6 Copynumber: 24.8 Consensus size: 6
369957 CTCTATATGT
* * * *
369967 GTGTGC GTGTGC GTGCGTGC GTGTGC GCGTGC GTGCGT GCGTGC GTGTGC
1 GTGTGC GTGTGC GT--GTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC
* * *
370017 GTGTGC GCGTGC GTGCGTGC GTGCGC GCGTGC GTGCGTGC GTGTGC GTGTGC
1 GTGTGC GTGTGC GT--GTGC GTGTGC GTGTGC GT--GTGC GTGTGC GTGTGC
* *
370069 GTGTGC GTGT-- GTGTGT GTGCGC GTGTGC GTGTGC GTGTGC GTGTGC
1 GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC GTGTGC
370115 GTGTG
1 GTGTG
370120 TGTTTGTGTG
Statistics
Matches: 122, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
4 4 0.03
6 100 0.82
8 18 0.15
ACGTcount: A:0.00, C:0.20, G:0.50, T:0.29
Consensus pattern (6 bp):
GTGTGC
Found at i:370000 original size:4 final size:4
Alignment explanation
Indices: 369975--370059 Score: 111
Period size: 4 Copynumber: 21.8 Consensus size: 4
369965 GTGTGTGCGT
* * *
369975 GTGC GTGC GTGC GTGT GCGC GTGC GTGC GTGC GTGC GT-- GTGC GTGT
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
* *
370021 GCGC GTGC GTGC GTGC GTGC GCGC GTGC GTGC GTGC GTG
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTG
370060 TGCGTGTGCG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.03
4 67 0.97
ACGTcount: A:0.00, C:0.25, G:0.51, T:0.25
Consensus pattern (4 bp):
GTGC
Found at i:370116 original size:46 final size:46
Alignment explanation
Indices: 369967--370119 Score: 207
Period size: 46 Copynumber: 3.2 Consensus size: 46
369957 CTCTATATGT
369967 GTGTGCGTGTGCGTGCGTGCGTGTGCGCGTGCGTGCGTGCGTGCGTGTGC
1 GTGTGCGTGTGCGTGCGTGCGTGTGCGCGT--GTGCGT--GTGCGTGTGC
* * * * *
370017 GTGTGCGCGTGCGTGCGTGCGTGCGCGCGTGCGTGCGTGCGTGTGC
1 GTGTGCGTGTGCGTGCGTGCGTGTGCGCGTGTGCGTGTGCGTGTGC
* *
370063 GTGTGCGTGTGCGTGTGTGTGTGTGCGCGTGTGCGTGTGCGTGTGC
1 GTGTGCGTGTGCGTGCGTGCGTGTGCGCGTGTGCGTGTGCGTGTGC
370109 GTGTGCGTGTG
1 GTGTGCGTGTG
370120 TGTTTGTGTG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
46 60 0.66
48 3 0.03
50 28 0.31
ACGTcount: A:0.00, C:0.20, G:0.50, T:0.29
Consensus pattern (46 bp):
GTGTGCGTGTGCGTGCGTGCGTGTGCGCGTGTGCGTGTGCGTGTGC
Found at i:370121 original size:20 final size:20
Alignment explanation
Indices: 369965--370113 Score: 145
Period size: 20 Copynumber: 7.2 Consensus size: 20
369955 CTCTCTATAT
369965 GTGTGTGCGTGTGCGTGCGTGC
1 GTGTGTGCGTGTGCGT--GTGC
* * *
369987 GTGTGCGCGTGCGTGCGTGCGT
1 GTGTGTGCGT--GTGCGTGTGC
* *
370009 GCGTGTGCGTGTGCGCGTGC
1 GTGTGTGCGTGTGCGTGTGC
* * *
370029 GTGCGTGCGTGCGCGCGTGC
1 GTGTGTGCGTGTGCGTGTGC
*
370049 GTGCGTGCGTGTGCGTGTGC
1 GTGTGTGCGTGTGCGTGTGC
* * *
370069 GTGTGCGTGTGTGTGTGTGC
1 GTGTGTGCGTGTGCGTGTGC
*
370089 GCGTGTGCGTGTGCGTGTGC
1 GTGTGTGCGTGTGCGTGTGC
370109 GTGTG
1 GTGTG
370114 CGTGTGTGTT
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
20 78 0.76
22 19 0.18
24 6 0.06
ACGTcount: A:0.00, C:0.20, G:0.50, T:0.30
Consensus pattern (20 bp):
GTGTGTGCGTGTGCGTGTGC
Found at i:370127 original size:6 final size:6
Alignment explanation
Indices: 370057--370134 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
370047 GCGTGCGTGC
* * * * * * *
370057 GTGTGC GTGTGC GTGTGC GTGTGT GTGTGT GCGCGT GTGCGT GTGCGT
1 GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT
* * *
370105 GTGCGT GTGCGT GTGTGT TTGTGT GTGTGT
1 GTGTGT GTGTGT GTGTGT GTGTGT GTGTGT
370135 ATTTATGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.00, C:0.12, G:0.49, T:0.40
Consensus pattern (6 bp):
GTGTGT
Found at i:370427 original size:14 final size:14
Alignment explanation
Indices: 370388--370430 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
370378 ACCTAAACCC
*
370388 TAAACCTTAAACCA
1 TAAACCTTAAATCA
* * *
370402 TGAATCTTAAATCT
1 TAAACCTTAAATCA
370416 TAAACCTTAAATCA
1 TAAACCTTAAATCA
370430 T
1 T
370431 GAACACTAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAACCTTAAATCA
Found at i:370428 original size:21 final size:21
Alignment explanation
Indices: 370388--370428 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
370378 ACCTAAACCC
*
370388 TAAACCTTAAACCATGAATCT
1 TAAACCTTAAACCATAAATCT
* *
370409 TAAATCTTAAACCTTAAATC
1 TAAACCTTAAACCATAAATC
370429 ATGAACACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAACCTTAAACCATAAATCT
Found at i:370447 original size:28 final size:27
Alignment explanation
Indices: 370379--370455 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
370369 TATGATTTGA
*
370379 CCTAAACCCTAAACCTTAAACCATGAAT
1 CCTAAA-CCTAAACCTTAAATCATGAAT
* *
370407 CTTAAATCTTAAACCTTAAATCATGAA-
1 CCTAAA-CCTAAACCTTAAATCATGAAT
*
370434 CACTAAACACTAAACCCTAAAT
1 C-CTAAAC-CTAAACCTTAAAT
370456 GCTAAACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.05
28 38 0.95
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.25
Consensus pattern (27 bp):
CCTAAACCTAAACCTTAAATCATGAAT
Found at i:370978 original size:25 final size:25
Alignment explanation
Indices: 370940--371021 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
370930 CATGTATAGT
370940 ATATATAAAC--TATATATATATAC
1 ATATATAAACTATATATATATATAC
* *
370963 ATATATAACCTATATATATATATAT
1 ATATATAAACTATATATATATATAC
*
370988 ATATATAAACTATATAAAGTATATTAC
1 ATATATAAACTATATATA-TATA-TAC
*
371015 TTATATA
1 ATATATA
371022 GTTTATAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.18
25 28 0.57
26 4 0.08
27 8 0.16
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATATAAACTATATATATATATAC
Found at i:371003 original size:2 final size:2
Alignment explanation
Indices: 370934--370994 Score: 61
Period size: 2 Copynumber: 30.0 Consensus size: 2
370924 ATAAATCATG
* * **
370934 TA TA GTA TA TA TA AA CTA TA TA TA TA TA CA TA TA TA -A CC TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
370977 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
370995 AACTATATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
1 1 0.02
2 45 0.92
3 3 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:371271 original size:569 final size:557
Alignment explanation
Indices: 370466--371608 Score: 1704
Period size: 568 Copynumber: 2.0 Consensus size: 557
370456 GCTAAACTAT
* * * ** *
370466 ATAAATTA-ATAAAGTATATAGTTTATATATACACTAAACCTTAAATCATAAACCTTAAACTTTA
1 ATAAACTATATAAAGTATATAGTTTATAGAAACACTAAACCCCAAATCATAAACCATAAACTTTA
* ** *
370530 AACTATAGTCACTTAACCCTGAACCATAAACCATAATATAAATGGACTAACATTAATGCATATAT
66 AACCATAAACACTTAA--C-G-ACCATAAACCATAATATAAATGGACTAACACTAATGCATATAT
** *
370595 ATTTGTAATAAAAGAGTGAGCTTATGTATTGGGCATATGTAAACTAATGTAAATGGACTAGCCCT
127 ATTTGTAATAAAAGAGTGAGCTTATAAATTGGGCATATGTAAACTAATGTAAATGGACTAGCACT
* *
370660 ATTGCAAATTGACTTATTTTTTGGTTTTATTATTATTTATTCATAACAACAAAATAAATGAACTA
192 ATTGCAAATTGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG-ACTA
* *
370725 TTAATGTGAATTAACTTAACATGCAACTAAAATACTAATTATGTAAATGAAATTAATATGACATG
256 TTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATG
370790 TACTACTATTTATGAACCATATAATATGCAATGTCACATACTAATTATTTAACACCTAATTAATC
321 TACTACTATTTATGAACCATATAATATGCAATGTCACATACTAATTATTTAACACCTAATTAATC
370855 ATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATATTTTTATATAATATGT
386 ATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATATTTTTATATAATATGT
*
370920 ATGTATAAATCATGTATAGTATATATAAACTATATATATATACATATATAACCTATATATATATA
451 ATGTATAAACCATGTATAGTATATATAAAC------TATATA-A-ATAT-A--TA-ATATATATA
* * *
370985 TATATATATAAACTATATAAAGTATATTACTTATATAGTTTATAGAATCACTATGC
504 TATATA-A-AAACTATATAAAATAAATTACTTATATAGTTTATAGAAACACTATGC
* *
371041 TTAAACTATATAAAGTATATAGTTTATAGAAACCCTAAACCCCAAATCATAAACCATAAACTTTA
1 ATAAACTATATAAAGTATATAGTTTATAGAAACACTAAACCCCAAATCATAAACCATAAACTTTA
* * * *
371106 AACCATAAACAC-TAA-G-TCATAAACCCTAATATAAATGGACTAGCACTAATGGATATATATTT
66 AACCATAAACACTTAACGACCATAAACCATAATATAAATGGACTAACACTAATGCATATATATTT
* * * *
371168 GTAATAAAATAGT-AGGTTTATAAATTGGGCCTATGTAAACTAATGTAAATGGACTATCACTATT
131 GTAATAAAAGAGTGA-GCTTATAAATTGGGCATATGTAAACTAATGTAAATGGACTAGCACTATT
*
371232 GCAAA-TGAACTTATTTTTGGGTTTTATTTTTACTTATTCATAACAACAAAATAAATGACTATTA
195 GCAAATTG-ACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGACTATTA
371296 ATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATGTAC
259 ATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATGTAC
* * *
371361 TACTATTTATGAACTATATAATATGCAATGTGACATATTAATTATTTAACACCTAATTAATCATG
324 TACTATTTATGAACCATATAATATGCAATGTCACATACTAATTATTTAACACCTAATTAATCATG
*
371426 TTTTATATAATTTATATTTAAATAATTTTATTAATTTTATTAAATATTTTTATATAATATGTATG
389 TTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATATTTTTATATAATATGTATG
* * *
371491 TATAAACCATGTATAGTATATATAAACTATATAAATGTATAGTGTATATATATATAAAAACTATA
454 TATAAACCATGTATAGTATATATAAACTATATAAATATATAATATATATATATATAAAAACTATA
371556 TAAAATAAATTACTTATATAGTTTATAGAAACACTATGC
519 TAAAATAAATTACTTATATAGTTTATAGAAACACTATGC
371595 ATAAACTATATAAA
1 ATAAACTATATAAA
371609 ATAATAAAAT
Statistics
Matches: 525, Mismatches: 40, Indels: 27
0.89 0.07 0.05
Matches are distributed among these distances:
554 57 0.11
555 1 0.00
556 13 0.02
557 2 0.00
559 1 0.00
560 3 0.01
561 1 0.00
562 6 0.01
568 225 0.43
569 147 0.28
571 1 0.00
575 9 0.02
576 59 0.11
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (557 bp):
ATAAACTATATAAAGTATATAGTTTATAGAAACACTAAACCCCAAATCATAAACCATAAACTTTA
AACCATAAACACTTAACGACCATAAACCATAATATAAATGGACTAACACTAATGCATATATATTT
GTAATAAAAGAGTGAGCTTATAAATTGGGCATATGTAAACTAATGTAAATGGACTAGCACTATTG
CAAATTGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGACTATTAAT
GTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACATGTACTA
CTATTTATGAACCATATAATATGCAATGTCACATACTAATTATTTAACACCTAATTAATCATGTT
TTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATATTTTTATATAATATGTATGTA
TAAACCATGTATAGTATATATAAACTATATAAATATATAATATATATATATATAAAAACTATATA
AAATAAATTACTTATATAGTTTATAGAAACACTATGC
Found at i:371846 original size:14 final size:14
Alignment explanation
Indices: 371827--371873 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
371817 ATTTTTTATT
371827 TATATAAATTAAAC
1 TATATAAATTAAAC
371841 TATAT-AATT----
1 TATATAAATTAAAC
371850 TATATAAATTAAAC
1 TATATAAATTAAAC
*
371864 TATATTAATT
1 TATATAAATT
371874 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:371851 original size:23 final size:24
Alignment explanation
Indices: 371824--371874 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
371814 ATTATTTTTT
371824 ATTTATATAAATTAAACTATA-TA
1 ATTTATATAAATTAAACTATATTA
371847 ATTTATATAAATTAAACTATATTA
1 ATTTATATAAATTAAACTATATTA
371871 ATTT
1 ATTT
371875 TCCTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTATATAAATTAAACTATATTA
Found at i:372190 original size:17 final size:16
Alignment explanation
Indices: 372146--372210 Score: 76
Period size: 16 Copynumber: 4.1 Consensus size: 16
372136 GATCATTTAT
*
372146 AGGTCAGGTTAAAAAT
1 AGGTCAGGTTAAAAAC
*
372162 AGGTCAAGTTAAAAAC
1 AGGTCAGGTTAAAAAC
* * *
372178 ATGTCAGGTTTAAATC
1 AGGTCAGGTTAAAAAC
*
372194 AGGTCAGGTTGAAAAC
1 AGGTCAGGTTAAAAAC
372210 A
1 A
372211 AGTCGGGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (16 bp):
AGGTCAGGTTAAAAAC
Found at i:374267 original size:14 final size:15
Alignment explanation
Indices: 374250--374283 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
374240 TGCTGAACCG
374250 TTCAGT-CTGAATGA
1 TTCAGTGCTGAATGA
*
374264 TTCAGTGCTGATTGA
1 TTCAGTGCTGAATGA
374279 TTCAG
1 TTCAG
374284 CAAAGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (15 bp):
TTCAGTGCTGAATGA
Found at i:374411 original size:16 final size:16
Alignment explanation
Indices: 374390--374463 Score: 139
Period size: 16 Copynumber: 4.6 Consensus size: 16
374380 ACAGAGCCTC
*
374390 TGAATCATTCAGCATT
1 TGAATCATTCAACATT
374406 TGAATCATTCAACATT
1 TGAATCATTCAACATT
374422 TGAATCATTCAACATT
1 TGAATCATTCAACATT
374438 TGAATCATTCAACATT
1 TGAATCATTCAACATT
374454 TGAATCATTC
1 TGAATCATTC
374464 TAAAGTAAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (16 bp):
TGAATCATTCAACATT
Found at i:379037 original size:2 final size:2
Alignment explanation
Indices: 379032--379130 Score: 198
Period size: 2 Copynumber: 49.5 Consensus size: 2
379022 ACACACACAA
379032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
379074 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
379116 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
379131 ATTTTCAAAT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:379868 original size:65 final size:65
Alignment explanation
Indices: 379760--380130 Score: 446
Period size: 65 Copynumber: 5.7 Consensus size: 65
379750 TATCATATAG
* * * *
379760 TCACTCCACCTCATGTACCACAAAGGTACAAGAATCATGTGAGTGATCAGTACAATATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCAGTACAATATTCAATTA
* * * * * *
379825 TCACTCCACCTTATACACCACAAAGGTACGTGAGTCATATGAGTGGT-ATGTACATTATTCAAAT
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCA-GTACAATATTCAATT
379889 A
65 A
* * * *
379890 TCA-TTCATCTCATGCACCACAAAGGTACATGAGTCATATG-GATGGTCTA-TATAATATTCAAT
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAG-TGATC-AGTACAATATTCAAT
379952 TA
64 TA
* * * *
379954 TCACTTCACTTCATGCACCACAAAGGTACATGAGTCATATGAGTGGT-ATGTACAGTATTCAATT
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCA-GTACAATATTCAATT
380018 A
65 A
* * * * *
380019 TCACTCCATCTCATGTACCACAAAGGTACATGAGTCATATGAATGATCTGTACAGTATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCAGTACAATATTCAATTA
* *
380084 TGACTCCACCTTATGCACCACAAAGGTACATGAGTCATATGAGTGAT
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGAT
380131 ATGTTTTGTA
Statistics
Matches: 263, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.01
64 52 0.20
65 207 0.79
66 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (65 bp):
TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCAGTACAATATTCAATTA
Found at i:379999 original size:129 final size:130
Alignment explanation
Indices: 379760--380134 Score: 533
Period size: 129 Copynumber: 2.9 Consensus size: 130
379750 TATCATATAG
* * * *
379760 TCACTCCACCTCATGTACCACAAAGGTACAAGAATCATGT-GAGTGATC-AGTACAATATTCAAT
1 TCACTCCATCTCATGTACCACAAAGGTACATGAGTCATATGGA-TGATCTA-TACAATATTCAAT
* * *
379823 TATCACTCCACCTTATACACCACAAAGGTACGTGAGTCATATGAGTGGTATGTACATTATTCAAA
64 TATCACTCCACCTTATGCACCACAAAGGTACATGAGTCATATGAGTGGTATGTACAGTATTCAAA
379888 TA
129 TA
* * * *
379890 TCA-TTCATCTCATGCACCACAAAGGTACATGAGTCATATGGATGGTCTATATAATATTCAATTA
1 TCACTCCATCTCATGTACCACAAAGGTACATGAGTCATATGGATGATCTATACAATATTCAATTA
* *
379954 TCACTTCA-CTTCATGCACCACAAAGGTACATGAGTCATATGAGTGGTATGTACAGTATTCAATT
66 TCACTCCACCTT-ATGCACCACAAAGGTACATGAGTCATATGAGTGGTATGTACAGTATTCAAAT
380018 A
130 A
* * *
380019 TCACTCCATCTCATGTACCACAAAGGTACATGAGTCATATGAATGATCTGTACAGTATTCAATTA
1 TCACTCCATCTCATGTACCACAAAGGTACATGAGTCATATGGATGATCTATACAATATTCAATTA
* *
380084 TGACTCCACCTTATGCACCACAAAGGTACATGAGTCATATGAGTGATATGT
66 TCACTCCACCTTATGCACCACAAAGGTACATGAGTCATATGAGTGGTATGT
380135 TTTGTATCAT
Statistics
Matches: 217, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
128 3 0.01
129 107 0.49
130 104 0.48
131 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (130 bp):
TCACTCCATCTCATGTACCACAAAGGTACATGAGTCATATGGATGATCTATACAATATTCAATTA
TCACTCCACCTTATGCACCACAAAGGTACATGAGTCATATGAGTGGTATGTACAGTATTCAAATA
Found at i:389371 original size:726 final size:726
Alignment explanation
Indices: 387979--389433 Score: 2766
Period size: 726 Copynumber: 2.0 Consensus size: 726
387969 GCTTAACTTC
387979 ATATGCCAAAATCTACACAGGTTCTTTCTCATAAGTCAAGTCAGGCTGGACTTCTATCTCTTTCA
1 ATATGCCAAAATCTACACAGGTTCTTTCTCATAAGTCAAGTCAGGCTGGACTTCTATCTCTTTCA
**
388044 ATGCAATGATGTGAGAAGGATAAGATCGATATTTTCGAAGCATAGAAATATGAAAAACATTATGA
66 ATGCAATGATGTGAGAAGGATAAGATCGATACGTTCGAAGCATAGAAATATGAAAAACATTATGA
388109 ATTTTCTCCATTTCTAGTGGCAATGCTAACTGATATGCCACTGGTCCCACTCTCTTAACAATATC
131 ATTTTCTCCATTTCTAGTGGCAATGCTAACTGATATGCCACTGGTCCCACTCTCTTAACAATATC
*
388174 ATATGGCCCGATAAATCTGGGACTAAGTTTTCCTTTATGTCCAAATCGTAACACCTTTTTCCAAG
196 ATATGGCCCGATAAATCTGGGACTAAGTTTTCCTTTATGTCCAAACCGTAACACCTTTTTCCAAG
388239 GAGATACCTTCAGGAAAACTTTATCTCCAACTTCGAACTCAATCTCTTTTCTCTTAAGATCAACA
261 GAGATACCTTCAGGAAAACTTTATCTCCAACTTCGAACTCAATCTCTTTTCTCTTAAGATCAACA
388304 TATGATTTCTGTCTGTCGAACGCCACTTTGAGATTGTGCTGAATTACTTGAACTTTCTCCTACAC
326 TATGATTTCTGTCTGTCGAACGCCACTTTGAGATTGTGCTGAATTACTTGAACTTTCTCCTACAC
*
388369 TTCCTTGATCTCGTACCAATTCAATGGCGTACGACACTTTCTCCCATATAAAGCCTCATAGGGAG
391 TTCCTTGATCTCGTACCAATTCAATGGCGTACGACACTTCCTCCCATATAAAGCCTCATAGGGAG
388434 CTATCTTAATGCTTGACTGGTAGATATTGTTGTAGGCAAATTCGACAAGTGGTAAGTACTTCTCC
456 CTATCTTAATGCTTGACTGGTAGATATTGTTGTAGGCAAATTCGACAAGTGGTAAGTACTTCTCC
* *
388499 CAAGACCATTTGAACTCGATAACACATGCTCTTAGCATGTCTTCCAGATTTGGATAGTCCGCTTG
521 CAAGACCATTTGAACTCGATAACACATACTCTTAGCATGACTTCCAGATTTGGATAGTCCGCTTG
* *
388564 GACTGTCTATCTGATTGATGGTGAAATGTTGTACTGAAGTTTAATCGAGTCCCTAAGGCTCCGTG
586 GACTGTCTATCTGACTGATGGTGAAAGGTTGTACTGAAGTTTAATCGAGTCCCTAAGGCTCCGTG
388629 TAAAGCTTTCCAAAATCTCGATGTAAATCGAGGATCTAGGCCAGAAACTATTGAAACATGAACAC
651 TAAAGCTTTCCAAAATCTCGATGTAAATCGAGGATCTAGGCCAGAAACTATTGAAACATGAACAC
388694 CATGCAATCGA
716 CATGCAATCGA
388705 ATATGCCAAAATCTACACAGGTTCTTTCTCATAAGTCAAGTCAGGCTGGACTTCTATCTCTTTCA
1 ATATGCCAAAATCTACACAGGTTCTTTCTCATAAGTCAAGTCAGGCTGGACTTCTATCTCTTTCA
388770 ATGCAATGATGTGAGAAGGATAAGATCGATACGTTCGAAGCATAGAAATATGAAAAACATTATGA
66 ATGCAATGATGTGAGAAGGATAAGATCGATACGTTCGAAGCATAGAAATATGAAAAACATTATGA
388835 ATTTTCTCCATTTCTAGTGGCAATGCTAACTGATATGCCACTGGTCCCACTCTCTTAACAATATC
131 ATTTTCTCCATTTCTAGTGGCAATGCTAACTGATATGCCACTGGTCCCACTCTCTTAACAATATC
*
388900 ATATGGCCCGATAAATCTGGGACTAAGTTTTCCTTTTTGTCCAAACCGTAACACCTTTTTCCAAG
196 ATATGGCCCGATAAATCTGGGACTAAGTTTTCCTTTATGTCCAAACCGTAACACCTTTTTCCAAG
*
388965 GAGATACCTTCAGGAAAACTTTATCTCCAACTTCGAACTCAATCTTTTTTCTCTTAAGATCAACA
261 GAGATACCTTCAGGAAAACTTTATCTCCAACTTCGAACTCAATCTCTTTTCTCTTAAGATCAACA
389030 TATGATTTCTGTCTGTCGAACGCCACTTTGAGATTGTGCTGAATTACTTGAACTTTCTCCTACAC
326 TATGATTTCTGTCTGTCGAACGCCACTTTGAGATTGTGCTGAATTACTTGAACTTTCTCCTACAC
* * *
389095 TTCTTTGATCTCGTACCAATTCAATGGCGTATGACACTTCCTCTCATATAAAGCCTCATAGGGAG
391 TTCCTTGATCTCGTACCAATTCAATGGCGTACGACACTTCCTCCCATATAAAGCCTCATAGGGAG
*
389160 CTATCTTAATGCTTGACTGGTAGGTATTGTTGTAGGCAAATTCGACAAGTGGTAAGTACTTCTCC
456 CTATCTTAATGCTTGACTGGTAGATATTGTTGTAGGCAAATTCGACAAGTGGTAAGTACTTCTCC
389225 CAAGACCATTTGAACTCGATAACACATACTCTTAGCATGACTTCCAGATTTGGATAGTCCGCTTG
521 CAAGACCATTTGAACTCGATAACACATACTCTTAGCATGACTTCCAGATTTGGATAGTCCGCTTG
*
389290 GACTGTCTATCTGACTGATGGTGAAAGGTTTTACTGAAGTTTAATCGAGTCCCTAAGGCTCCGTG
586 GACTGTCTATCTGACTGATGGTGAAAGGTTGTACTGAAGTTTAATCGAGTCCCTAAGGCTCCGTG
*
389355 TAAAGCTTTCCAAAATCTCGATGTAAATCGAGGATCTAGGTCAGAAACTATTGAAACATGAACAC
651 TAAAGCTTTCCAAAATCTCGATGTAAATCGAGGATCTAGGCCAGAAACTATTGAAACATGAACAC
389420 CATGCAATCGA
716 CATGCAATCGA
389431 ATA
1 ATA
389434 ATCTCTCTCA
Statistics
Matches: 713, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
726 713 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (726 bp):
ATATGCCAAAATCTACACAGGTTCTTTCTCATAAGTCAAGTCAGGCTGGACTTCTATCTCTTTCA
ATGCAATGATGTGAGAAGGATAAGATCGATACGTTCGAAGCATAGAAATATGAAAAACATTATGA
ATTTTCTCCATTTCTAGTGGCAATGCTAACTGATATGCCACTGGTCCCACTCTCTTAACAATATC
ATATGGCCCGATAAATCTGGGACTAAGTTTTCCTTTATGTCCAAACCGTAACACCTTTTTCCAAG
GAGATACCTTCAGGAAAACTTTATCTCCAACTTCGAACTCAATCTCTTTTCTCTTAAGATCAACA
TATGATTTCTGTCTGTCGAACGCCACTTTGAGATTGTGCTGAATTACTTGAACTTTCTCCTACAC
TTCCTTGATCTCGTACCAATTCAATGGCGTACGACACTTCCTCCCATATAAAGCCTCATAGGGAG
CTATCTTAATGCTTGACTGGTAGATATTGTTGTAGGCAAATTCGACAAGTGGTAAGTACTTCTCC
CAAGACCATTTGAACTCGATAACACATACTCTTAGCATGACTTCCAGATTTGGATAGTCCGCTTG
GACTGTCTATCTGACTGATGGTGAAAGGTTGTACTGAAGTTTAATCGAGTCCCTAAGGCTCCGTG
TAAAGCTTTCCAAAATCTCGATGTAAATCGAGGATCTAGGCCAGAAACTATTGAAACATGAACAC
CATGCAATCGA
Found at i:395266 original size:24 final size:24
Alignment explanation
Indices: 395239--395300 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
395229 CACCACAGCT
* *
395239 CGTATAAATTGCACCGAAGTGTCA
1 CGTAGAAATTGCACCAAAGTGTCA
*
395263 CGTAGAAATTGCACCAAAGTGTCG
1 CGTAGAAATTGCACCAAAGTGTCA
*
395287 TGTAGAAATTGCAC
1 CGTAGAAATTGCAC
395301 TGAAATGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (24 bp):
CGTAGAAATTGCACCAAAGTGTCA
Found at i:395337 original size:23 final size:23
Alignment explanation
Indices: 395308--395401 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
395298 CACTGAAATG
395308 CCACATAGAAATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
* * * *
395331 CCACATAGTATTATCCCGAACGA
1 CCACATAGAAATGTCCCGAAGGA
* **
395354 CCACGTAGAAATGTCCCGAATAA
1 CCACATAGAAATGTCCCGAAGGA
* * *
395377 CCACATAGAATTGTCTCAAAGGA
1 CCACATAGAAATGTCCCGAAGGA
395400 CC
1 CC
395402 GCGTAGAACC
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (23 bp):
CCACATAGAAATGTCCCGAAGGA
Found at i:395407 original size:46 final size:46
Alignment explanation
Indices: 395308--395409 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 46
395298 CACTGAAATG
* * * *
395308 CCACATAGAAATGTCCCGAAGGACCACATAGTATTATCCCGAACGA
1 CCACGTAGAAATGTCCCGAAGAACCACATAGAATTATCCCAAACGA
* * * *
395354 CCACGTAGAAATGTCCCGAATAACCACATAGAATTGTCTCAAAGGA
1 CCACGTAGAAATGTCCCGAAGAACCACATAGAATTATCCCAAACGA
*
395400 CCGCGTAGAA
1 CCACGTAGAA
395410 CCCTCGACTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (46 bp):
CCACGTAGAAATGTCCCGAAGAACCACATAGAATTATCCCAAACGA
Found at i:399030 original size:29 final size:29
Alignment explanation
Indices: 398998--399073 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
398988 TTTTTTAAAA
* * ** *
398998 AATTACCAAAATAGCACCCATTTCGAATT
1 AATTCCCAAAATAGCACCAAAATCAAATT
* *
399027 AATTCCCAGAATAGCACTAAAATCAAATT
1 AATTCCCAAAATAGCACCAAAATCAAATT
399056 AATTCCCAAAATAGCACC
1 AATTCCCAAAATAGCACC
399074 GGTCAACGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.24
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCAAAATCAAATT
Found at i:399155 original size:10 final size:10
Alignment explanation
Indices: 399135--399189 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
399125 ACGGGTCGTG
399135 ACCGGTC-AA
1 ACCGGTCAAA
399144 ACCGGTCAAA
1 ACCGGTCAAA
399154 ACCGGTTCAAA
1 ACCGG-TCAAA
* *
399165 ACCTG-CTAA
1 ACCGGTCAAA
399174 ACCGGTCAAA
1 ACCGGTCAAA
399184 ACCGGT
1 ACCGGT
399190 TTCCAGCGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 14 0.36
10 16 0.41
11 9 0.23
ACGTcount: A:0.35, C:0.31, G:0.20, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:401507 original size:13 final size:13
Alignment explanation
Indices: 401491--401522 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
401481 TCAACGGGTT
*
401491 GGGTCGGGTCAAC
1 GGGTCGGGTAAAC
401504 GGGTCGGGTAAAC
1 GGGTCGGGTAAAC
401517 GGGTCG
1 GGGTCG
401523 TGACCGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.50, T:0.16
Consensus pattern (13 bp):
GGGTCGGGTAAAC
Found at i:401545 original size:10 final size:10
Alignment explanation
Indices: 401525--401579 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
401515 ACGGGTCGTG
401525 ACCGGTC-AA
1 ACCGGTCAAA
401534 ACCGGTCAAA
1 ACCGGTCAAA
401544 ACCGGTCCAAA
1 ACCGGT-CAAA
*
401555 ACCGG-CTAA
1 ACCGGTCAAA
401564 ACCGGTCAAA
1 ACCGGTCAAA
401574 ACCGGT
1 ACCGGT
401580 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 17 0.41
11 9 0.22
ACGTcount: A:0.35, C:0.33, G:0.22, T:0.11
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:401565 original size:20 final size:20
Alignment explanation
Indices: 401525--401579 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
401515 ACGGGTCGTG
401525 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGTCAAA
*
401544 ACCGGTCCAAAACCGG-CTAA
1 ACCGGT-CAAAACCGGTCAAA
401564 ACCGGTCAAAACCGGT
1 ACCGGTCAAAACCGGT
401580 TTCCAGCGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.47
20 10 0.31
21 7 0.22
ACGTcount: A:0.35, C:0.33, G:0.22, T:0.11
Consensus pattern (20 bp):
ACCGGTCAAAACCGGTCAAA
Found at i:408947 original size:22 final size:21
Alignment explanation
Indices: 408919--408972 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
408909 TTGTGAAATG
*
408919 TTCTCTGTCTTATGATATATT
1 TTCTCTGTCTTATGACATATT
*
408940 TATCTCTGTCTTTATGACATGTT
1 T-TCTCTGTC-TTATGACATATT
408963 TT-TCTGTCTT
1 TTCTCTGTCTT
408973 TTGGTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 7 0.24
22 9 0.31
23 11 0.38
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (21 bp):
TTCTCTGTCTTATGACATATT
Found at i:412689 original size:26 final size:26
Alignment explanation
Indices: 412658--412710 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
412648 TATAAGCTTA
412658 AATGTTCTCCAATAAAAGAATAAGAT
1 AATGTTCTCCAATAAAAGAATAAGAT
412684 AATGTTCTCCAATAAAAGAATAAGAT
1 AATGTTCTCCAATAAAAGAATAAGAT
412710 A
1 A
412711 GGTATGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (26 bp):
AATGTTCTCCAATAAAAGAATAAGAT
Found at i:415955 original size:18 final size:19
Alignment explanation
Indices: 415920--415956 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
415910 CACGGAATGT
415920 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
415940 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
415957 GGATTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:416124 original size:15 final size:15
Alignment explanation
Indices: 416106--416137 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
416096 AAATTATAAA
416106 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
416121 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
416136 TA
1 TA
416138 CATTTGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:417760 original size:21 final size:22
Alignment explanation
Indices: 417709--417760 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
417699 AAATTTCTGT
417709 TCAAAAACCAAACAAACCCAGCA
1 TCAAAAA-CAAACAAACCCAGCA
**
417732 TCTGAAACAAA-AAACCCAG-A
1 TCAAAAACAAACAAACCCAGCA
417752 TACAAAAAC
1 T-CAAAAAC
417761 CTCATAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 4 0.17
23 5 0.21
ACGTcount: A:0.58, C:0.29, G:0.06, T:0.08
Consensus pattern (22 bp):
TCAAAAACAAACAAACCCAGCA
Found at i:418598 original size:23 final size:23
Alignment explanation
Indices: 418572--418615 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
418562 AAACTTGTAA
418572 GGGGTAAGGATCGAGGGTTTGGC
1 GGGGTAAGGATCGAGGGTTTGGC
418595 GGGGTAAGGATCGAGGGTTTG
1 GGGGTAAGGATCGAGGGTTTG
418616 CCATCCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.07, G:0.52, T:0.23
Consensus pattern (23 bp):
GGGGTAAGGATCGAGGGTTTGGC
Found at i:421043 original size:16 final size:15
Alignment explanation
Indices: 421024--421097 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 15
421014 GAAAAAGCAA
421024 AGAAAGAAAAAAAAAG
1 AGAAA-AAAAAAAAAG
* **
421040 AGAAAAGAAGCAAAG
1 AGAAAAAAAAAAAAG
*
421055 AGAAGAAAAAACAAAG
1 AGAA-AAAAAAAAAAG
**
421071 AGAAAAAAAGCAAAG
1 AGAAAAAAAAAAAAG
421086 A-AAAAAGAAAAA
1 AGAAAAA-AAAAA
421098 GAACTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
14 5 0.10
15 25 0.52
16 18 0.38
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAAAAAG
Found at i:421071 original size:31 final size:29
Alignment explanation
Indices: 421015--421117 Score: 129
Period size: 29 Copynumber: 3.5 Consensus size: 29
421005 AAGCAAATAG
421015 AAAAAGCAAAGAAAGAAAAAAAAAGAGAA
1 AAAAAGCAAAGAAAGAAAAAAAAAGAGAA
*
421044 AAGAAGCAAAGAGAAGAAAAAACAAAGAGAA
1 AAAAAGCAAAGA-AAGAAAAAA-AAAGAGAA
* *
421075 AAAAAGCAAAGAAA-AAAGAAAAAGAACTAA
1 AAAAAGCAAAGAAAGAAAAAAAAAG-A-GAA
421105 AAAAAG-AAAGAAA
1 AAAAAGCAAAGAAA
421118 AGAAGACAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
28 4 0.06
29 24 0.36
30 19 0.29
31 19 0.29
ACGTcount: A:0.77, C:0.05, G:0.17, T:0.01
Consensus pattern (29 bp):
AAAAAGCAAAGAAAGAAAAAAAAAGAGAA
Found at i:421074 original size:13 final size:13
Alignment explanation
Indices: 421008--421091 Score: 55
Period size: 15 Copynumber: 5.9 Consensus size: 13
420998 CAAATTAAAG
* *
421008 CAAATAGAAAAAG
1 CAAAGAGAAAAAA
421021 CAAAGAAAGAAAAAA
1 CAAAG--AGAAAAAA
421036 -AAAGAGAAAAGAA
1 CAAAGAGAAAA-AA
421049 GCAAAGAGAAGAAAAAA
1 -C-AA-AG-AGAAAAAA
421066 CAAAGAGAAAAAAA
1 CAAAGAG-AAAAAA
421080 GCAAAGA-AAAAA
1 -CAAAGAGAAAAA
421092 GAAAAAGAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 20
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.10
13 13 0.22
14 12 0.20
15 15 0.25
16 3 0.05
17 4 0.07
18 6 0.10
ACGTcount: A:0.75, C:0.06, G:0.18, T:0.01
Consensus pattern (13 bp):
CAAAGAGAAAAAA
Found at i:421074 original size:26 final size:25
Alignment explanation
Indices: 421018--421123 Score: 72
Period size: 26 Copynumber: 4.0 Consensus size: 25
421008 CAAATAGAAA
421018 AAGCAAAGAAAGAAAAAAAAAGAGAAAAG
1 AAGCAAAGAAAGAAAAAAAAA-AG---AG
*
421047 AAGCAAAGAGAAGAAAAAACAAAGAG
1 AAGCAAAGA-AAGAAAAAAAAAAGAG
**
421073 AAAAAAAGCAAAGAAAAAAGAAAA-AG
1 AAGCAAAG-AAAGAAAAAA-AAAAGAG
* *
421099 AA-CTAAAAAAAGAAAGAAAAGAAGA
1 AAGC-AAAGAAAGAAA-AAAAAAAGA
421124 CAAGAAACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
25 10 0.16
26 28 0.44
27 4 0.06
29 11 0.17
30 11 0.17
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.01
Consensus pattern (25 bp):
AAGCAAAGAAAGAAAAAAAAAAGAG
Found at i:421128 original size:13 final size:12
Alignment explanation
Indices: 421022--421130 Score: 55
Period size: 13 Copynumber: 8.9 Consensus size: 12
421012 TAGAAAAAGC
421022 AAAGAAAGAAAA
1 AAAGAAAGAAAA
421034 AAA-AAGAGAAAA
1 AAAGAA-AGAAAA
* *
421046 GAAGCAAAGAGAA
1 AAAG-AAAGAAAA
* *
421059 GAA-AAA-ACAA
1 AAAGAAAGAAAA
*
421069 AGAGAAA-AAAA
1 AAAGAAAGAAAA
*
421080 GCAAAGAAAAAAGAA
1 --AAAGAAAGAA-AA
**
421095 AAAGAACTAAAA
1 AAAGAAAGAAAA
421107 AAAGAAAGAAAA
1 AAAGAAAGAAAA
*
421119 GAAGACAAGAAA
1 AAAGA-AAGAAA
421131 CATATACAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 17
0.72 0.11 0.16
Matches are distributed among these distances:
10 4 0.05
11 11 0.14
12 27 0.36
13 28 0.37
14 4 0.05
15 2 0.03
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.01
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:424087 original size:66 final size:66
Alignment explanation
Indices: 424007--424186 Score: 234
Period size: 67 Copynumber: 2.7 Consensus size: 66
423997 CAAAACTGAT
* * *
424007 AAACTTTAAGATTGTTTCACTCGAAACAAATTTTGTCTCTCTTGAGACAGTTTATCTTTAAACGT
1 AAACTTTGAGATTGTTTCACTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTATCTTTAAACAT
424072 C
66 C
* * *
424073 AAACTTTGAGATTGTTTCTCTTGAAACAACTTTTTGTCTCTCTTAAGACAGTTTATCTTTAAACA
1 AAACTTTGAGATTGTTTCACTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTATCTTTAAACA
*
424138 TT
65 TC
* * * * * *
424140 AAACATTGTGATTATTTCCCTTGAAACATATTTTGTCTCACTTGAGA
1 AAACTTTGAGATTGTTTCACTTGAAACAAATTTTGTCTCTCTTGAGA
424187 TTATTTCTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 41 0.42
67 57 0.58
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (66 bp):
AAACTTTGAGATTGTTTCACTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTATCTTTAAACAT
C
Found at i:424423 original size:138 final size:137
Alignment explanation
Indices: 424206--424750 Score: 589
Period size: 138 Copynumber: 4.0 Consensus size: 137
424196 TTGAAACAAA
* * * * * * * *
424206 TTATCCCTAAAGATGACCAACCATCCTCATCACGTAAGAACCGTGTAATCCATCGACCAGATCTC
1 TTATCCCTAAAGATG-CTAGCCGTCCTCATCACGTAGGAACCGTTTCATCCACCAACCAGATCTC
* * * * *
424271 CTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTTCTCATCACGTAGAAATTGTATT
65 CTCATCACGTAGGAGTCGTGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGAAATCGTGTT
424336 ATCACCAT
130 ATCACCAT
** ** * *
424344 TTATCCCTAAAGATAGCTAGTTGTTTTCATCACGTAGGAACCGTTTCATCTACCAACCAGTTCTC
1 TTATCCCTAAAGAT-GCTAGCCGTCCTCATCACGTAGGAACCGTTTCATCCACCAACCAGATCTC
* *
424409 CTCATCACGTAGGAGTCGTGTCAACCTTAGATAACCAGCCATCCTCATCACGTAGAAATCGTGTT
65 CTCATCACGTAGGAGTCGTGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGAAATCGTGTT
*
424474 ATCACTAT
130 ATCACCAT
* * *
424482 TTATCCCTAAAAATGGTCAGCCGTCCTCATCACGTAGGAACCGTGTT-ATCCACCAACCAGATAT
1 TTATCCCTAAAGATGCT-AGCCGTCCTCATCACGTAGGAACCGT-TTCATCCACCAACCAGATCT
* ** * *
424546 CCTCATCACGTATGAGTCACGTCAACCTTAGATAACCAGTTTGTCCTCATCACGTAGGAATCGTG
64 CCTCATCACGTAGGAGTCGTGTCAACCTTAGATAACCAG-TCGTCCTCATCACGTAGAAATCGTG
424611 TTATCTA-CA-
128 TTATC-ACCAT
* * * *
424620 TTATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTCTCATCTACCGACCAGATC-C
1 TTATCCCTAAAGAT-GCTAGCCGTCCTCATCACGTAGGAACCGTTTCATCCACCAACCAGATCTC
* ** ** * * * *
424684 TCTCATCACGTA-G-GTTGCCTCAACCTTAGATAGTCAGACTTCCTCATCACGTAGGAACCGTGT
65 -CTCATCACGTAGGAGTCGTGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGAAATCGTGT
424747 TATC
129 TATC
424751 TCTAAATTTA
Statistics
Matches: 344, Mismatches: 55, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
135 26 0.08
136 19 0.06
137 5 0.01
138 262 0.76
139 31 0.09
140 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (137 bp):
TTATCCCTAAAGATGCTAGCCGTCCTCATCACGTAGGAACCGTTTCATCCACCAACCAGATCTCC
TCATCACGTAGGAGTCGTGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGAAATCGTGTTA
TCACCAT
Found at i:424943 original size:3 final size:3
Alignment explanation
Indices: 424937--424999 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
424927 TCCGGGTCTT
424937 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
424985 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
425000 CAATTAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:427266 original size:64 final size:64
Alignment explanation
Indices: 427165--427294 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
427155 ACGAATACTA
427165 ACTTTTTCTTAAAAACGATTTTTCCTTAAAATTATTTTAAAATACGCTTTTAGGTATTCGACCT
1 ACTTTTTCTTAAAAACGATTTTTCCTTAAAATTATTTTAAAATACGCTTTTAGGTATTCGACCT
427229 ACTTTTTCTTAAAAACGATTTTTCCTTAAAATTATTTTAAAATACGCTTTTAGGTATTCGACCT
1 ACTTTTTCTTAAAAACGATTTTTCCTTAAAATTATTTTAAAATACGCTTTTAGGTATTCGACCT
427293 AC
1 AC
427295 CTAACTCAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (64 bp):
ACTTTTTCTTAAAAACGATTTTTCCTTAAAATTATTTTAAAATACGCTTTTAGGTATTCGACCT
Found at i:430920 original size:37 final size:37
Alignment explanation
Indices: 430878--430952 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
430868 CTATAGCTTT
*
430878 GACCTTTTACGGTGTTTGTTCAAAAAACGTCGCTATA
1 GACCTTTTACAGTGTTTGTTCAAAAAACGTCGCTATA
* *
430915 GACCTTTTGCAGTGTTTGTTCCAAAAACGTCGCTATA
1 GACCTTTTACAGTGTTTGTTCAAAAAACGTCGCTATA
430952 G
1 G
430953 GTCTAGACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (37 bp):
GACCTTTTACAGTGTTTGTTCAAAAAACGTCGCTATA
Found at i:430974 original size:43 final size:42
Alignment explanation
Indices: 430850--431138 Score: 274
Period size: 42 Copynumber: 7.0 Consensus size: 42
430840 TTTTGCAACA
* * *
430850 TTTGGTCCAAAAACGCCGCTATAGCT-TTGACCTTTTACGGTG
1 TTTGTTCCAAAAACG-CGCTATAGATCTTGACCTTTTGCGGTG
* *
430892 TTTGTTCAAAAAACGTCGCTAT--A----GACCTTTTGCAGTG
1 TTTGTTCCAAAAACG-CGCTATAGATCTTGACCTTTTGCGGTG
* * *
430929 TTTGTTCCAAAAACGTCGCTATAGGTCTAGACCTTTTGTGGTG
1 TTTGTTCCAAAAACG-CGCTATAGATCTTGACCTTTTGCGGTG
* *
430972 TTTGTTCCAAAAACGCAGCTATAGATC-TGAACTTTTGCGATG
1 TTTGTTCCAAAAACGC-GCTATAGATCTTGACCTTTTGCGGTG
* * * *
431014 TTTGTTCCAAAAATGCACTTATAGATCTTGACCTTTTACGGCG
1 TTTGTTCCAAAAACGCGC-TATAGATCTTGACCTTTTGCGGTG
* ** *
431057 TTT-TTCCAAAAATGTCGCTATAGAT-TTCGACCTTTTGAAGCG
1 TTTGTTCCAAAAACG-CGCTATAGATCTT-GACCTTTTGCGGTG
*
431099 TTTGTTCCAAAAACGCGCTATAGATCTTGACCTTTAGCGG
1 TTTGTTCCAAAAACGCGCTATAGATCTTGACCTTTTGCGG
431139 CATTTTTTGT
Statistics
Matches: 205, Mismatches: 29, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
37 33 0.16
41 3 0.01
42 105 0.51
43 64 0.31
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (42 bp):
TTTGTTCCAAAAACGCGCTATAGATCTTGACCTTTTGCGGTG
Found at i:431047 original size:85 final size:84
Alignment explanation
Indices: 430801--431133 Score: 319
Period size: 85 Copynumber: 4.0 Consensus size: 84
430791 AAGGTAATTA
* * * * * *
430801 ACGGCGTTTGTATCCAAAATCGCCACTATAGATCTAACATTTTGCAA-CATTTGGTCCAAAAACG
1 ACGGTGTTTGT-TCCAAAAACGTCGCTATAGATCTAAC-TTTTGCAAGCGTTTGTTCCAAAAACG
*
430865 CCGCTATAGCT-TTGACCTTTT
64 -CGCTATAGATCTTGACCTTTT
* *
430886 ACGGTGTTTGTTCAAAAAACGTCGCTATAGA-C---CTTTTGC-AGTGTTTGTTCCAAAAACGTC
1 ACGGTGTTTGTTCCAAAAACGTCGCTATAGATCTAACTTTTGCAAGCGTTTGTTCCAAAAACG-C
* *
430946 GCTATAGGTCTAGACCTTTT
65 GCTATAGATCTTGACCTTTT
** * * *
430966 GTGGTGTTTGTTCCAAAAACG-CAGCTATAGATCTGAACTTTTGCGA-TGTTTGTTCCAAAAATG
1 ACGGTGTTTGTTCCAAAAACGTC-GCTATAGATCT-AACTTTTGCAAGCGTTTGTTCCAAAAACG
*
431029 CACTTATAGATCTTGACCTTTT
64 CGC-TATAGATCTTGACCTTTT
* * * *
431051 ACGGCGTTT-TTCCAAAAATGTCGCTATAGATTTCGACCTTTTG-AAGCGTTTGTTCCAAAAACG
1 ACGGTGTTTGTTCCAAAAACGTCGCTATAGA--TCTAACTTTTGCAAGCGTTTGTTCCAAAAACG
431114 CGCTATAGATCTTGACCTTT
64 CGCTATAGATCTTGACCTTT
431134 AGCGGCATTT
Statistics
Matches: 206, Mismatches: 28, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
78 1 0.00
79 30 0.15
80 36 0.17
81 1 0.00
83 1 0.00
84 54 0.26
85 80 0.39
86 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (84 bp):
ACGGTGTTTGTTCCAAAAACGTCGCTATAGATCTAACTTTTGCAAGCGTTTGTTCCAAAAACGCG
CTATAGATCTTGACCTTTT
Found at i:434545 original size:2 final size:2
Alignment explanation
Indices: 434538--434573 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
434528 TTTAACGTCG
434538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
434574 AGTATAGCAT
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):
TA
Found at i:437317 original size:3 final size:3
Alignment explanation
Indices: 437311--437343 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
437301 TAAGAACGAC
437311 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
437344 AATAATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:453022 original size:263 final size:260
Alignment explanation
Indices: 452538--453060 Score: 1019
Period size: 263 Copynumber: 2.0 Consensus size: 260
452528 CCAACATGGG
452538 AGAAGGAAAAAACAAAGCAAGAAAAAGTTGGTACATAGAAAAATGTTGTTTCAATTTTGGACAAC
1 AGAAGGAAAAAACAAAGCAAGAAAAAGTTGGTACATAGAAAAATGTTGTTTCAATTTTGGACAAC
452603 ATATGATTGATATAATGAGAGCTAGCAACAGCACTCTCCACGTTCTCTTCCATCAGTGCCTCCAA
66 ATATGATTGATATAATGAGAGCTAGCAACAGCACTCTCCACGTTCTCTTCCATCAGTGCCTCCAA
452668 ATCCATTACCAGTGTGCAAGGCTGTATACCAGCACACTTTGCCATCCAAATACCTTTAGTGGTTT
131 ATCCATTACCAGTGTGCAAGGCTGTATACCAGCACACTTTGCCATCCAAATACCTTTAGTGGTTT
452733 GAGACCTGACAGAAAATGCATTCCATTAGTTGTTTTGAGCCAATTGAGACAAATGTAATGTGTTA
196 GAGACCTGACAGAAAATGCATTCCATTAGTTG-TTTGAGCCAATTGAGACAAATGTAATGTGTTA
452798 T
260 T
452799 AGAAGGAAAAAACAAAGCAAGAAAAAGTTGGTACATAGAAAAATGTTGTTTCAATTTTGGACAAC
1 AGAAGGAAAAAACAAAGCAAGAAAAAGTTGGTACATAGAAAAATGTTGTTTCAATTTTGGACAAC
452864 ATATGATTGATATAATGAGAGCTAGCAACAGCACCTCTCCACGTTCTCTTCCATCAGTGCCCTCC
66 ATATGATTGATATAATGAGAGCTAGCAACAGCA-CTCTCCACGTTCTCTTCCATCAGTG-CCTCC
452929 AAATCCATTACCAGTGTGCAAGGCTGTATACCAGCACACTTTGCCATCCAAATACCTTTAGTGGT
129 AAATCCATTACCAGTGTGCAAGGCTGTATACCAGCACACTTTGCCATCCAAATACCTTTAGTGGT
452994 TTGAGACCTGACAGAAAATGCATTCCATTAGTTGTTTGAGCCAATTGAGACAAATGTAATGTGTT
194 TTGAGACCTGACAGAAAATGCATTCCATTAGTTGTTTGAGCCAATTGAGACAAATGTAATGTGTT
453059 AT
259 AT
453061 GAGAGAAACA
Statistics
Matches: 260, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
261 98 0.38
262 58 0.22
263 104 0.40
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (260 bp):
AGAAGGAAAAAACAAAGCAAGAAAAAGTTGGTACATAGAAAAATGTTGTTTCAATTTTGGACAAC
ATATGATTGATATAATGAGAGCTAGCAACAGCACTCTCCACGTTCTCTTCCATCAGTGCCTCCAA
ATCCATTACCAGTGTGCAAGGCTGTATACCAGCACACTTTGCCATCCAAATACCTTTAGTGGTTT
GAGACCTGACAGAAAATGCATTCCATTAGTTGTTTGAGCCAATTGAGACAAATGTAATGTGTTAT
Found at i:457665 original size:15 final size:15
Alignment explanation
Indices: 457645--457688 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
457635 GGGTACGGTA
457645 AGAAGAAAGAAAGGG
1 AGAAGAAAGAAAGGG
457660 AGAAGAAAGAAAGGG
1 AGAAGAAAGAAAGGG
457675 AGAAGAAAGAAAGG
1 AGAAGAAAGAAAGG
457689 AAATGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAGGG
Found at i:457671 original size:19 final size:17
Alignment explanation
Indices: 457644--457717 Score: 77
Period size: 15 Copynumber: 4.4 Consensus size: 17
457634 TGGGTACGGT
457644 AAGAAGAAAGAAAGG-G
1 AAGAAGAAAGAAAGGAG
457660 -AGAAGAAAGAAAGG-G
1 AAGAAGAAAGAAAGGAG
457675 -AGAAGAAAGAAAGGA-
1 AAGAAGAAAGAAAGGAG
457690 AATGAAGAAGAAGAAAAGGAG
1 AA-GAAG-A-AAG-AAAGGAG
457711 AAGAAGA
1 AAGAAGA
457718 GATCGGGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
15 29 0.57
16 1 0.02
17 4 0.08
18 1 0.02
19 4 0.08
20 10 0.20
21 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (17 bp):
AAGAAGAAAGAAAGGAG
Found at i:457704 original size:34 final size:30
Alignment explanation
Indices: 457645--457715 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 30
457635 GGGTACGGTA
* *
457645 AGAAGAAAGAAAGGGAGAAGAAAGAAAGGG
1 AGAAGAAAGAAAGGAAGAAGAAAGAAAAGG
457675 AGAAGAAAGAAAGGAAATGAAGAAGAAGAAAAGG
1 AGAAGAAAGAAAGG-AA-GAAG-A-AAGAAAAGG
457709 AGAAGAA
1 AGAAGAA
457716 GAGATCGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 14 0.40
31 1 0.03
32 4 0.11
33 1 0.03
34 15 0.43
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.01
Consensus pattern (30 bp):
AGAAGAAAGAAAGGAAGAAGAAAGAAAAGG
Found at i:457717 original size:20 final size:20
Alignment explanation
Indices: 457662--457705 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
457652 AGAAAGGGAG
* *
457662 AAGAAA-GAAAGGGAGAAGA
1 AAGAAAGGAAATGAAGAAGA
457681 AAGAAAGGAAATGAAGAAG-
1 AAGAAAGGAAATGAAGAAGA
457700 AAGAAA
1 AAGAAA
457706 AGGAGAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (20 bp):
AAGAAAGGAAATGAAGAAGA
Found at i:458306 original size:17 final size:17
Alignment explanation
Indices: 458256--458310 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
458246 TTAGTTAGTT
458256 AAAAAATATTTTGTTTA
1 AAAAAATATTTTGTTTA
*
458273 AAAATATTTATTGTTGTTTA
1 AAAA-A-ATATT-TTGTTTA
458293 AAAAAATATTTTGTTTA
1 AAAAAATATTTTGTTTA
458310 A
1 A
458311 TTTATATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 12 0.36
18 5 0.15
19 5 0.15
20 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
AAAAAATATTTTGTTTA
Found at i:458306 original size:20 final size:20
Alignment explanation
Indices: 458262--458310 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
458252 AGTTAAAAAA
*
458262 TATT-TTGTTTAAAAATATT
1 TATTGTTGTTTAAAAAAATT
458281 TATTGTTGTTTAAAAAAA--
1 TATTGTTGTTTAAAAAAATT
458299 TATT-TTGTTTAA
1 TATTGTTGTTTAA
458311 TTTATATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 4 0.14
19 4 0.14
20 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TATTGTTGTTTAAAAAAATT
Found at i:458537 original size:16 final size:16
Alignment explanation
Indices: 458516--458547 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
458506 AATTTTAATA
458516 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
*
458532 ATCATTGCTAAATCAT
1 ATCATTACTAAATCAT
458548 TAAATATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (16 bp):
ATCATTACTAAATCAT
Found at i:458602 original size:20 final size:20
Alignment explanation
Indices: 458570--458638 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
458560 CATTAGATAA
*
458570 TAATAATTATTAAATTATTAT
1 TAATAA-TATTAAATAATTAT
*
458591 TAATAATATT-AATAATCAAT
1 TAATAATATTAAATAAT-TAT
* *
458611 TAATCATTTTAAATAATTAT
1 TAATAATATTAAATAATTAT
*
458631 TAGTAATA
1 TAATAATA
458639 ATATTAAAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
19 5 0.13
20 21 0.55
21 12 0.32
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (20 bp):
TAATAATATTAAATAATTAT
Found at i:461903 original size:20 final size:20
Alignment explanation
Indices: 461868--461905 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
461858 TTATAAATAG
**
461868 TCGAATTTATTCAATTTAAA
1 TCGAATTTATAAAATTTAAA
461888 TCGAATTTATAAAATTTA
1 TCGAATTTATAAAATTTA
461906 TGTATGAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TCGAATTTATAAAATTTAAA
Found at i:462111 original size:65 final size:65
Alignment explanation
Indices: 462010--462155 Score: 149
Period size: 65 Copynumber: 2.3 Consensus size: 65
462000 GGTTGATTAA
* * * * *
462010 TAATG-TTACTAATAATGATTTAATAATTATTATTAAT-CTAAT-GATTTGATATTTAATGATTT
1 TAATGATTACTAATAATGATTTAATAAATATTATTAATGAT-ATGGATTTGACA-CTAATAATTT
462072 AG
64 AG
* * *
462074 TAATGATTACTAATAATTATTTATTATAAATA-T-TTAATGATTTGGATTTGGCACTAATAATTT
1 TAATGATTACTAATAATGATTTA--ATAAATATTATTAATGATATGGATTTGACACTAATAATTT
462137 AG
64 AG
462139 TAATGATTACTAATAAT
1 TAATGATTACTAATAAT
462156 AAAATTATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
64 5 0.07
65 49 0.71
66 9 0.13
67 6 0.09
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.47
Consensus pattern (65 bp):
TAATGATTACTAATAATGATTTAATAAATATTATTAATGATATGGATTTGACACTAATAATTTAG
Found at i:462469 original size:15 final size:15
Alignment explanation
Indices: 462449--462477 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
462439 TTTATTATTA
462449 ATATTTAATGATTTG
1 ATATTTAATGATTTG
462464 ATATTTAATGATTT
1 ATATTTAATGATTT
462478 AGTAATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTTAATGATTTG
Found at i:462533 original size:24 final size:22
Alignment explanation
Indices: 462506--462582 Score: 59
Period size: 24 Copynumber: 3.4 Consensus size: 22
462496 TAATGTTTAC
462506 TAATAATGTTTTATTATTAATATT
1 TAATAATG-TTTA-TATTAATATT
* * *
462530 TAATGA--TTGATACTAATGATT
1 TAATAATGTTTATATTAAT-ATT
*
462551 TAATAATGATTACTATTAATTATT
1 TAATAATGTTTA-TATTAA-TATT
462575 TAATAATG
1 TAATAATG
462583 ATTAAATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
20 6 0.15
21 11 0.27
23 2 0.05
24 21 0.51
25 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (22 bp):
TAATAATGTTTATATTAATATT
Found at i:462559 original size:11 final size:11
Alignment explanation
Indices: 462543--462590 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
462533 TGATTGATAC
462543 TAATGATTTAA
1 TAATGATTTAA
*
462554 TAATGATTACTAT
1 TAATGATT--TAA
*
462567 TAATTATTTAA
1 TAATGATTTAA
*
462578 TAATGATTAAA
1 TAATGATTTAA
462589 TA
1 TA
462591 TTTAAATAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 21 0.70
13 9 0.30
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:462564 original size:21 final size:20
Alignment explanation
Indices: 462518--462595 Score: 63
Period size: 24 Copynumber: 3.8 Consensus size: 20
462508 ATAATGTTTT
* *
462518 ATTATTAATATTTAATGATTG
1 ATTACTAATATTTAAT-AATG
462539 A-TACTAATGATTTAATAATG
1 ATTACTAAT-ATTTAATAATG
462559 ATTACTATTAATTATTTAATAATG
1 ATTAC---TAA-TATTTAATAATG
462583 ATTA--AATATTTAA
1 ATTACTAATATTTAA
462596 ATAGAATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
18 7 0.14
19 2 0.04
20 10 0.20
21 11 0.22
24 18 0.37
25 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (20 bp):
ATTACTAATATTTAATAATG
Found at i:462583 original size:24 final size:23
Alignment explanation
Indices: 462530--462586 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
462520 TATTAATATT
462530 TAATGATTGATACTAATGATTTAA
1 TAATGATT-ATACTAATGATTTAA
* *
462554 TAATGATTACTATTAATTATTTAA
1 TAATGATTA-TACTAATGATTTAA
462578 TAATGATTA
1 TAATGATTA
462587 AATATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.46
Consensus pattern (23 bp):
TAATGATTATACTAATGATTTAA
Found at i:462641 original size:16 final size:16
Alignment explanation
Indices: 462620--462659 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
462610 ATTTAAATCG
*
462620 AATTTATAAATAGTTA
1 AATTTATAAATAGTCA
*
462636 AATTTATAAATAGTCG
1 AATTTATAAATAGTCA
462652 AATTTATA
1 AATTTATA
462660 TTTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
AATTTATAAATAGTCA
Found at i:462665 original size:22 final size:22
Alignment explanation
Indices: 462637--462680 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
462627 AAATAGTTAA
*
462637 ATTTATAAATAGTCGAATTTAT
1 ATTTATAAATAGCCGAATTTAT
*
462659 ATTTATAAATAGCCGGATTTAT
1 ATTTATAAATAGCCGAATTTAT
462681 TCTTTTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
ATTTATAAATAGCCGAATTTAT
Found at i:462743 original size:17 final size:15
Alignment explanation
Indices: 462709--462748 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
462699 GGAGGCATGC
462709 ATATTTAATATTATA
1 ATATTTAATATTATA
*
462724 ATATTTAAGTTTTAATA
1 ATATTTAA-TATT-ATA
462741 ATATTTAA
1 ATATTTAA
462749 CATATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATATTATA
Found at i:465646 original size:112 final size:112
Alignment explanation
Indices: 465389--465701 Score: 376
Period size: 112 Copynumber: 2.8 Consensus size: 112
465379 GAATCGATGC
* * * * **
465389 AGACTTGTTCCATTGTCACTCATGGAATATCAAATCTTGAAAGAGAGAGATTTGTTCCTCTACTT
1 AGACTTGTTCCGTTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCCACTTTTT
* * * *
465454 CTAAGGGAATATCATAT-ATGGGAAAGTTGATACACTAAATTAGGGT
66 CTAAGGGAATATCAAATCTTGGAAAAGTTGATACACTAAATCAGGGT
* * * * *
465500 AGACTTGTTGCGTTGTCACTCAAGAAATATCAAATCATGGAAGAGAGGGATTTGTTCCGCTTTTT
1 AGACTTGTTCCGTTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCCACTTTTT
* * * *
465565 CTAAGGGAATATCAGATCTTGGAAAAGTTTATCCATTAAATCAGGGT
66 CTAAGGGAATATCAAATCTTGGAAAAGTTGATACACTAAATCAGGGT
* * *
465612 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGCTCCACTTCTT
1 AGACTTGTTCCGTTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCCACTT-TT
** * *
465677 TGAAAAGGAATATTAAATCTTGGAA
65 TCTAAGGGAATATCAAATCTTGGAA
465702 GAGAGTGAAA
Statistics
Matches: 170, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
111 71 0.42
112 77 0.45
113 22 0.13
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (112 bp):
AGACTTGTTCCGTTGTCACTCAAGGAATATCAAATCTTGAAAGAGAGGGATTTGTTCCACTTTTT
CTAAGGGAATATCAAATCTTGGAAAAGTTGATACACTAAATCAGGGT
Found at i:465706 original size:48 final size:48
Alignment explanation
Indices: 465633--465739 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
465623 GCTGTCACTC
**
465633 AGGGAATATCAAATCTTGAAAGAGAGGGATTTGCTCCACTTCTTTGAAA
1 AGGGAATATCAAATCTTGAAAGAGAGGGAAATGCTCCACTTCTTT-AAA
* * * *
465682 A-GGAATATTAAATCTTGGAAGAGAGTGAAATGTTCCACTTCTTTAAA
1 AGGGAATATCAAATCTTGAAAGAGAGGGAAATGCTCCACTTCTTTAAA
465729 AGGGAATATCA
1 AGGGAATATCA
465740 TATATGGGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.08
48 45 0.90
49 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (48 bp):
AGGGAATATCAAATCTTGAAAGAGAGGGAAATGCTCCACTTCTTTAAA
Found at i:471138 original size:22 final size:22
Alignment explanation
Indices: 471094--471146 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
471084 TGCATACCTT
* * *
471094 ATAGATCCCTAAATATAGGGTA
1 ATAGAACCCTAAATACAGAGTA
*
471116 ATAGAACCCTAAATACCGAGTA
1 ATAGAACCCTAAATACAGAGTA
*
471138 ATATAACCC
1 ATAGAACCC
471147 AATCTCTGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (22 bp):
ATAGAACCCTAAATACAGAGTA
Found at i:475800 original size:4 final size:4
Alignment explanation
Indices: 475791--475834 Score: 70
Period size: 4 Copynumber: 11.0 Consensus size: 4
475781 AAACTATGCC
* *
475791 CTAA CTAA CTAA CTAA CTAA TTAA CTAA CTAA CTAA CAAA CTAA
1 CTAA CTAA CTAA CTAA CTAA CTAA CTAA CTAA CTAA CTAA CTAA
475835 TAATTTAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (4 bp):
CTAA
Found at i:475907 original size:20 final size:19
Alignment explanation
Indices: 475882--475921 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
475872 CGGGCCCTTC
*
475882 TTCTTCTTTCTTTCCTTTCT
1 TTCTTCTCTCTTT-CTTTCT
475902 TTCTTCTCTCTTTCTTTCT
1 TTCTTCTCTCTTTCTTTCT
475921 T
1 T
475922 CTCCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTCTTCTCTCTTTCTTTCT
Found at i:475916 original size:15 final size:14
Alignment explanation
Indices: 475885--475933 Score: 73
Period size: 15 Copynumber: 3.5 Consensus size: 14
475875 GCCCTTCTTC
475885 TTCTTTCTT-TCCT
1 TTCTTTCTTCTCCT
475898 TTCTTTCTTCTCTCT
1 TTCTTTCTTCTC-CT
475913 TTCTTTCTTCTCCT
1 TTCTTTCTTCTCCT
*
475927 TTTTTTC
1 TTCTTTC
475934 ATCTTACAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 9 0.27
14 10 0.30
15 14 0.42
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTCTTCTCCT
Found at i:477932 original size:26 final size:22
Alignment explanation
Indices: 477884--477929 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
477874 TCCTATAAGT
477884 TAGTTTAATTTGTTGTAACAAC
1 TAGTTTAATTTGTTGTAACAAC
477906 TAGTTTAATTTGTTGTAACAAC
1 TAGTTTAATTTGTTGTAACAAC
477928 TA
1 TA
477930 ACTTATAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (22 bp):
TAGTTTAATTTGTTGTAACAAC
Found at i:480550 original size:21 final size:21
Alignment explanation
Indices: 480499--480715 Score: 95
Period size: 21 Copynumber: 10.5 Consensus size: 21
480489 ATTATGACAA
*
480499 TCGCAATGCGATTTTC-CAATT
1 TCGCAATGCGATTTTCGTAA-T
** *
480520 TCGCGTTGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCGTAAT
* ** *
480541 TCGCAATGCGA-ATAAGTAAA
1 TCGCAATGCGATTTTCGTAAT
* * * *
480561 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGATTTTCGTAAT
* * ** *
480582 TCGCAATGTGA-ATAAGTAAA
1 TCGCAATGCGATTTTCGTAAT
* * * *
480602 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGATTTTCGTAAT
** *
480623 TCGCAATGCGATACT-G-ACT
1 TCGCAATGCGATTTTCGTAAT
* *
480642 ATCGCAATGCAATTTTCCTAAT
1 -TCGCAATGCGATTTTCGTAAT
* *
480664 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCGTAAT
** *
480684 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCGTAAT
480705 TCGCAATGCGA
1 TCGCAATGCGA
480716 ATACGTAAAT
Statistics
Matches: 146, Mismatches: 43, Indels: 14
0.72 0.21 0.07
Matches are distributed among these distances:
19 1 0.01
20 60 0.41
21 81 0.55
22 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (21 bp):
TCGCAATGCGATTTTCGTAAT
Found at i:480571 original size:41 final size:41
Alignment explanation
Indices: 480526--480798 Score: 187
Period size: 41 Copynumber: 6.7 Consensus size: 41
480516 AATTTCGCGT
* *
480526 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATAAGTAAATCGCAA
* * * *
480567 TGCGAATTTGGAAAATCGCAATGTGAATAAGTAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATAAGTAAATCGCAA
* * * * *
480608 TGCGAATTTGGAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * * * **
480649 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCGTAAATCGCAATGCGA-ATAAGTAAATCGCAA
* * *
480690 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAATAAGTAAATCGCAA
** ** * *
480731 CACGA-TTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCGTAAATCGCAATGCGAA-TAAGTAAATCGCAA
* * *
480772 TGCGA-ATACGTAAATCGCAATACGAAT
1 TGCGATTTTCGTAAATCGCAATGCGAAT
480799 CTTACTATCG
Statistics
Matches: 182, Mismatches: 43, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.01
40 26 0.14
41 152 0.84
43 1 0.01
44 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (41 bp):
TGCGATTTTCGTAAATCGCAATGCGAATAAGTAAATCGCAA
Found at i:480614 original size:61 final size:60
Alignment explanation
Indices: 480541--480798 Score: 198
Period size: 61 Copynumber: 4.2 Consensus size: 60
480531 TTTTCCTAAT
* *
480541 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAATCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCG-ATTTGGAAAATCGCAATGCGAATACGTAAA
** * * ** * * *
480602 TCGCAATGCGAATTTGGAAAATCGCAATGCGATACT-GACTATCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAA-TAAGTAAATCGCAATGCGAT-TTGGAAAATCGCAATGCGAA--TACGTAAA
* * * * ** ** *
480664 TCGCATTGCGATTTACGT-ATTCGCGTTGCGATTTTCATAATTCGCAATGCGAATACGTAAA
1 TCGCAATGCGA-ATAAGTAAATCGCAATGCGATTTGGA-AAATCGCAATGCGAATACGTAAA
** * *
480725 TCGCAACACGATTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCG-ATTTGGAAAATCGCAATGCGAATACGTAAA
*
480786 TCGCAATACGAAT
1 TCGCAATGCGAAT
480799 CTTACTATCG
Statistics
Matches: 147, Mismatches: 40, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
60 8 0.05
61 92 0.63
62 45 0.31
63 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (60 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGATTTGGAAAATCGCAATGCGAATACGTAAA
Found at i:480730 original size:20 final size:20
Alignment explanation
Indices: 480705--480816 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
480695 TTTTCATAAT
480705 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** * *
480725 TCGCAACACGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
480745 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
480766 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
480786 TCGCAATACGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
480806 TCGCAATGCGA
1 TCGCAATGCGA
480817 TTTACATAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.04
20 54 0.72
21 18 0.24
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:481083 original size:27 final size:27
Alignment explanation
Indices: 481026--481078 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
481016 CATCGCCGGC
* *
481026 GAAATCCCTCACAACCATTCACAGTCA
1 GAAATCCCTCACAACCATTCAAAATCA
*
481053 GAAATCCCTCACAATCATTCAGAAAT
1 GAAATCCCTCACAACCATTCA-AAAT
481079 GGAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.21
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCAAAATCA
Found at i:481395 original size:19 final size:19
Alignment explanation
Indices: 481331--481415 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
481321 TAGTTTCGAG
*
481331 AATGAAAATCGCAGCGCGGA
1 AATGAAAATCGCAACGC-GA
481351 AAT-AACAATCGCAA--CG-
1 AATGAA-AATCGCAACGCGA
*
481367 -A-GATAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
481384 AATGAAAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
**
481403 AACCAAAATCGCA
1 AATGAAAATCGCA
481416 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
14 8 0.15
15 2 0.04
16 2 0.04
17 1 0.02
18 2 0.04
19 28 0.53
20 10 0.19
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:481458 original size:33 final size:33
Alignment explanation
Indices: 481416--481578 Score: 272
Period size: 33 Copynumber: 4.9 Consensus size: 33
481406 CAAAATCGCA
481416 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
481449 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
481482 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
481515 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
481548 TTGCGATAGTCATTTCCGCATTGCGATTCTC
1 TTGCGATTTTCATTT-CGCGTTGCGATTCTC
481579 ATTATCTCGT
Statistics
Matches: 126, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
33 112 0.89
34 14 0.11
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:481580 original size:20 final size:19
Alignment explanation
Indices: 481416--481603 Score: 94
Period size: 14 Copynumber: 10.8 Consensus size: 19
481406 CAAAATCGCA
* *
481416 TTGCGATTTTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
481435 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
* *
481449 TTGCGATTTTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
481468 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
* *
481482 TTGCGATTTTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
481501 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
** *
481515 TTGCGATAGTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
481534 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
**
481548 TTGCGATAGTCATTTC-CG
1 TTGCGATTCTCATTTCTCG
481566 CATTGCGATTCTCATTATCTCG
1 --TTGCGATTCTCATT-TCTCG
*
481588 TTGCGATTTTCATTTC
1 TTGCGATTCTCATTTC
481604 AACCAAAAGA
Statistics
Matches: 132, Mismatches: 13, Indels: 48
0.68 0.07 0.25
Matches are distributed among these distances:
14 40 0.30
15 2 0.02
16 8 0.06
17 8 0.06
18 5 0.04
19 40 0.30
20 25 0.19
21 2 0.02
22 2 0.02
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TTGCGATTCTCATTTCTCG
Found at i:483778 original size:21 final size:21
Alignment explanation
Indices: 483754--483820 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
483744 TCATTCCTCG
483754 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
483775 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
483796 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
483817 AGAG
1 AGAG
483821 CCCAATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:483778 original size:42 final size:42
Alignment explanation
Indices: 483702--483820 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
483692 GACTCGCCTG
* * * * * * *
483702 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
483744 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
483786 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
483821 CCCAATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:485192 original size:14 final size:14
Alignment explanation
Indices: 485173--485208 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
485163 ATTGTTTAAA
485173 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
485187 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
485201 TGATTTGT
1 TGATTTGT
485209 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:485337 original size:19 final size:19
Alignment explanation
Indices: 485315--485406 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
485305 AAAAATTACT
485315 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
485334 ATCGCAA--CG--AT-ATA
1 ATCGCAATGCGAAATGAAA
**
485348 ATCGCAATGTAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
485367 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
485381 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
485400 ATCGCAA
1 ATCGCAA
485407 CGATCTTTGC
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 19 0.35
15 3 0.05
16 2 0.04
17 2 0.04
18 3 0.05
19 26 0.47
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:485363 original size:33 final size:33
Alignment explanation
Indices: 485315--485410 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
485305 AAAAATTACT
*
485315 ATCGCAATGCGAAATGAAAATCGCAACGATATA
1 ATCGCAATGCGAAATGAAAATCGCAACGATAGA
** *
485348 ATCGCAATGTAAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGATAGA
485381 ATCGCAATGCGAAATGAAAATCGCAACGAT
1 ATCGCAATGCGAAATGAAAATCGCAACGAT
485411 CTTTGCTTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGATAGA
Found at i:485866 original size:24 final size:24
Alignment explanation
Indices: 485832--485885 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
485822 CTGAAACATC
*
485832 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
485856 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
485880 ATCAAA
1 ATCAAA
485886 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:486717 original size:19 final size:19
Alignment explanation
Indices: 486688--486753 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
486678 ATTGAAAAAC
486688 CGAAAAA-CCGAACCGAAT
1 CGAAAAACCCGAACCGAAT
486706 CGAAAAACCCGAACCG--T
1 CGAAAAACCCGAACCGAAT
** * *
486723 TAAAAAACCTGAACCGAAC
1 CGAAAAACCCGAACCGAAT
*
486742 CGAAAAAACCGA
1 CGAAAAACCCGA
486754 TTTCGGTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 14 0.38
18 7 0.19
19 16 0.43
ACGTcount: A:0.50, C:0.29, G:0.15, T:0.06
Consensus pattern (19 bp):
CGAAAAACCCGAACCGAAT
Found at i:487127 original size:20 final size:21
Alignment explanation
Indices: 487102--487153 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
487092 TTTTCCTAAT
*
487102 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
487122 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
487143 TCGCAATGCGA
1 TCGCAATGCGA
487154 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:487175 original size:20 final size:20
Alignment explanation
Indices: 487142--487212 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
487132 AATTTGGAAA
* *
487142 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
487162 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
487183 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
*
487203 TTCGCAACGA
1 ATCGCAACGA
487213 AATTCTGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 2 0.05
20 22 0.55
21 14 0.35
22 2 0.05
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:487227 original size:20 final size:20
Alignment explanation
Indices: 487180--487229 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
487170 GAGATAATAC
*
487180 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAAATTCTG
***
487200 ACTTTCGCAACGAAATTCTG
1 AAAATCGCAACGAAATTCTG
487220 AAAATCGCAA
1 AAAATCGCAA
487230 TCATCTCAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAAATTCTG
Found at i:487464 original size:20 final size:20
Alignment explanation
Indices: 487439--487505 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
487429 CAACGGGGAA
487439 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* ***
487459 ATCGCAATGCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
487479 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
487499 ATCGCAA
1 ATCGCAA
487506 ATAAAAAATC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 5 0.14
20 27 0.73
21 5 0.14
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Done.