Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007760.1 Hibiscus syriacus cultivar Beakdansim tig00110029_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: 2010226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:1237235 original size:20 final size:21
Alignment explanation
Indices: 1237200--1237239 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1237190 ATAAACAATA
1237200 TAAACTAAATTATACTATATG
1 TAAACTAAATTATACTATATG
*
1237221 TAAACTATA-TATACTATAT
1 TAAACTAAATTATACTATAT
1237240 AGTTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAACTAAATTATACTATATG
Found at i:1237240 original size:11 final size:11
Alignment explanation
Indices: 1237180--1237233 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
1237170 TAATAGTATT
1237180 TAAACTATATA
1 TAAACTATATA
1237191 TAAAC-A-ATA
1 TAAACTATATA
*
1237200 TAAACTAAAT-
1 TAAACTATATA
* *
1237210 TATACTATATG
1 TAAACTATATA
1237221 TAAACTATATA
1 TAAACTATATA
1237232 TA
1 TA
1237234 CTATATAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.22
10 10 0.28
11 18 0.50
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAACTATATA
Found at i:1237277 original size:13 final size:13
Alignment explanation
Indices: 1237185--1237283 Score: 54
Period size: 13 Copynumber: 7.1 Consensus size: 13
1237175 GTATTTAAAC
*
1237185 TATATATAAACAA
1 TATATATAAACTA
* *
1237198 TATAAACTAAATTA
1 TATATA-TAAACTA
1237212 TACTATATGTAAACTA
1 TA-TATA--TAAACTA
* *
1237228 TATATACTATATAGTT
1 TATATA-TA-A-ACTA
* * *
1237244 TACATATGAACAA
1 TATATATAAACTA
*
1237257 TATGTATAAACTA
1 TATATATAAACTA
1237270 TATATATAAACTA
1 TATATATAAACTA
1237283 T
1 T
1237284 GTAAAGTATA
Statistics
Matches: 62, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
13 28 0.45
14 10 0.16
15 9 0.15
16 15 0.24
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.37
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1237336 original size:24 final size:24
Alignment explanation
Indices: 1237290--1237370 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
1237280 CTATGTAAAG
* *
1237290 TATATAGTTTACATA-TGACCTATA
1 TATATAGTTTA-TTAGTGAACTATA
1237314 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTATTAGTGAACTATA
* *
1237338 TACACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTAT-TAGT-GA-ACTATA
1237365 TATATA
1 TATATA
1237371 AATTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTATTAGTGAACTATA
Found at i:1237352 original size:2 final size:2
Alignment explanation
Indices: 1237347--1237618 Score: 57
Period size: 2 Copynumber: 135.0 Consensus size: 2
1237337 ATACACTATT
* * *
1237347 TA TA TA GTA TA TA CTA TA TA TA TA AA T- TA TA GTT TA TA TT TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
1237389 TA T- TC TA CA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA TA TT
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * *
1237431 TA TA TA CTA TT TA TA TA AA CTA TA AA AA GTA TA TA GTT TA TA -A
1 TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA
* * * * * *
1237474 AA TA TA -A TT TA TA T- TA -A TA TA GTA TA TG TA TG TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
1237514 TA TG TA TA TA AA CTA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
1237557 GTT TA TA AA T- TA TA -A TT TA TA T- TA -A TA T- TG TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1237595 CTA TA GA -A TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA
1237619 ATTTATAGAA
Statistics
Matches: 191, Mismatches: 51, Indels: 56
0.64 0.17 0.19
Matches are distributed among these distances:
1 13 0.07
2 156 0.82
3 22 0.12
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1237359 original size:9 final size:8
Alignment explanation
Indices: 1237347--1237618 Score: 57
Period size: 9 Copynumber: 33.8 Consensus size: 8
1237337 ATACACTATT
1237347 TATATAGTA
1 TATATA-TA
1237356 TATACTATA
1 TATA-TATA
*
1237365 TATATAAA
1 TATATATA
*
1237373 T-TATAGTT
1 TATATA-TA
*
1237381 TATATTTA
1 TATATATA
*
1237389 TAT-TCTA
1 TATATATA
*
1237396 CATACTATA
1 TATA-TATA
* *
1237405 GTTTATATT
1 -TATATATA
1237414 TATATACTA
1 TATATA-TA
*
1237423 TATATATT
1 TATATATA
1237431 TATATACTA
1 TATATA-TA
*
1237440 TTTATATA
1 TATATATA
* *
1237448 AACTATAAA
1 TA-TATATA
*
1237457 AAGTATATA
1 TA-TATATA
*
1237466 GTTTATA-A
1 -TATATATA
*
1237474 AATATA-A
1 TATATATA
*
1237481 TTTATAT-
1 TATATATA
1237488 TA-ATATA
1 TATATATA
*
1237495 GTATATGTA
1 -TATATATA
* *
1237504 TGTATGTA
1 TATATATA
* *
1237512 TGTATGTA
1 TATATATA
*
1237520 TATAAACTA
1 TATATA-TA
*
1237529 TATATGTA
1 TATATATA
*
1237537 TAAACTATA
1 TATA-TATA
*
1237546 TA-AAATA
1 TATATATA
*
1237553 TATAGTTTA
1 TATA-TATA
*
1237562 TAAAT-TA
1 TATATATA
*
1237569 TA-ATTTA
1 TATATATA
1237576 TAT-TA-A
1 TATATATA
*
1237582 TAT-TGTA
1 TATATATA
1237589 TATATACTA
1 TATATA-TA
*
1237598 TAGA-ATA
1 TATATATA
1237605 TATATATA
1 TATATATA
1237613 TATATA
1 TATATA
1237619 ATTTATAGAA
Statistics
Matches: 193, Mismatches: 46, Indels: 49
0.67 0.16 0.17
Matches are distributed among these distances:
6 11 0.06
7 42 0.22
8 63 0.33
9 73 0.38
10 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (8 bp):
TATATATA
Found at i:1237370 original size:20 final size:19
Alignment explanation
Indices: 1237336--1237447 Score: 79
Period size: 20 Copynumber: 5.9 Consensus size: 19
1237326 TAGTGAACTA
* * *
1237336 TATACACTATTTATATA-G
1 TATATACTATATATATATT
*
1237354 TATATACTATATATATAAAT
1 TATATACTATATATAT-ATT
* *
1237374 TATAGT-TTATATTTATATT
1 TATA-TACTATATATATATT
* *
1237393 CTACATACTATAGTTTATATT
1 -TATATACTATA-TATATATT
1237414 TATATAC--TATATATATT
1 TATATACTATATATATATT
*
1237431 TATATACTATTTATATA
1 TATATACTATATATATA
1237448 AACTATAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
17 14 0.19
18 16 0.21
19 11 0.15
20 25 0.33
21 9 0.12
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATACTATATATATATT
Found at i:1237430 original size:17 final size:17
Alignment explanation
Indices: 1237408--1237446 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1237398 TACTATAGTT
1237408 TATATTTATATACTATA
1 TATATTTATATACTATA
*
1237425 TATATTTATATACTATT
1 TATATTTATATACTATA
1237442 TATAT
1 TATAT
1237447 AAACTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTTATATACTATA
Found at i:1237538 original size:75 final size:75
Alignment explanation
Indices: 1237401--1237563 Score: 175
Period size: 75 Copynumber: 2.1 Consensus size: 75
1237391 TTCTACATAC
* * * * *
1237401 TATAGTTTATATTTATATACTATATATATTTATATACTATTTATATAAACTATAAAAAGTATATA
1 TATAATTTATATTAATATACTATATATATGTATATACTATGTATATAAACTATAAAAAGTATAAA
* *
1237466 GTTTATAAAA
66 CTATATAAAA
* * * * * *
1237476 TATAATTTATATTAATATAGTATATGTATGTATGTATGTATGTATATAAACTAT-ATATGTATAA
1 TATAATTTATATTAATATACTATATATATGTATATA-CTATGTATATAAACTATAAAAAGTATAA
1237540 ACTATATAAAA
65 ACTATATAAAA
1237551 TATATAGTTTATA
1 TATA-A-TTTATA
1237564 AATTATAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
75 50 0.69
76 16 0.22
77 6 0.08
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (75 bp):
TATAATTTATATTAATATACTATATATATGTATATACTATGTATATAAACTATAAAAAGTATAAA
CTATATAAAA
Found at i:1237613 original size:91 final size:89
Alignment explanation
Indices: 1237422--1237614 Score: 246
Period size: 91 Copynumber: 2.1 Consensus size: 89
1237412 TTTATATACT
* *
1237422 ATATATATTTATATACTATTTATATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATA
1 ATATATATATATAAACTATTTATATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATA
* * *
1237487 TTAATATAGTATATGTATGTATGT
66 TTAATATAGTATATATATATATGA
* * * *
1237511 ATGTATGTATATAAACTATATATGTATAAACTATATAAAA-TATATAGTTTATAAATTATAATTT
1 ATATATATATATAAACTAT-T-TATATAAACTATA-AAAAGTATATAGTTTATAAAATATAATTT
*
1237575 ATATTAATATTGTATATATACTATA-GA
63 ATATTAATATAGTATATATA-TATATGA
1237602 ATATATATATATA
1 ATATATATATATA
1237615 TATAATTTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
89 15 0.17
90 1 0.01
91 65 0.74
92 7 0.08
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (89 bp):
ATATATATATATAAACTATTTATATAAACTATAAAAAGTATATAGTTTATAAAATATAATTTATA
TTAATATAGTATATATATATATGA
Found at i:1237635 original size:91 final size:88
Alignment explanation
Indices: 1237401--1237649 Score: 227
Period size: 91 Copynumber: 2.7 Consensus size: 88
1237391 TTCTACATAC
* * * * *
1237401 TATAGTTTATATTTATATACTATATATATTTATATACTATTTATA-TAAACTATA-AAAAGTATA
1 TATAGTATATATATATAT-GTATATATATATATATA--ATTTATAGAAAACTATATAAAA-TATA
1237464 TAGTTTATAAAATATAATTTATATTAA
62 TAGTTTATAAAATATAATTTATATTAA
* * * * *
1237491 TATAGTATATGTATGTATGTATGTATGTATATA-AACTATATATGTATAAACTATATAAAATATA
1 TATAGTATATATATATATGTATATATATATATATAA-TTTATA-G-A-AAACTATATAAAATATA
*
1237555 TAGTTTATAAATTATAATTTATATTAA
62 TAGTTTATAAAATATAATTTATATTAA
* *
1237582 TATTGTATATATACTATA-GAATATATATATATATATAATTTATAGAAACACTATGCATAAACTA
1 TATAGTATATATA-TATATG--TATATATATATATATAATTTATAGAAA-ACTAT--ATAAAATA
1237646 TATA
60 TATA
1237650 AAGCAACAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 23
0.76 0.11 0.14
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 1 0.01
89 11 0.09
90 16 0.12
91 56 0.44
92 8 0.06
93 28 0.22
94 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (88 bp):
TATAGTATATATATATATGTATATATATATATATAATTTATAGAAAACTATATAAAATATATAGT
TTATAAAATATAATTTATATTAA
Found at i:1237736 original size:16 final size:16
Alignment explanation
Indices: 1237715--1237775 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
1237705 CAATAGTTAA
1237715 TATATGTAACATATAG
1 TATATGTAACATATAG
1237731 TATATGTATACATGTAAACTA-
1 TATATGTA-ACA--T--A-TAG
*
1237752 TATATGTAACTTATAG
1 TATATGTAACATATAG
1237768 TATATGTA
1 TATATGTA
1237776 TGTATAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
15 2 0.05
16 17 0.46
17 3 0.08
18 1 0.03
19 1 0.03
20 2 0.05
21 9 0.24
22 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (16 bp):
TATATGTAACATATAG
Found at i:1237784 original size:35 final size:36
Alignment explanation
Indices: 1237714--1237787 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
1237704 ACAATAGTTA
*
1237714 ATATATGTAACATATAGTATATGTATACATGTAAACT
1 ATATATGTAACATATAGTATATGTATA-ATATAAACT
* *
1237751 ATATATGTAACTTATAGTATATGTAT-GTATAAACT
1 ATATATGTAACATATAGTATATGTATAATATAAACT
1237786 AT
1 AT
1237788 GTATAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATATGTAACATATAGTATATGTATAATATAAACT
Found at i:1237810 original size:57 final size:57
Alignment explanation
Indices: 1237745--1237882 Score: 174
Period size: 57 Copynumber: 2.4 Consensus size: 57
1237735 TGTATACATG
* *
1237745 TAAACTATATATGTAACTTATAGTATATGTATGTATA-AA-CTATGTATAAT-ATATA
1 TAAACTATATATGTAACCTATAGTATATGTATATATACAATCTATGTAT-ATGATATA
* * *
1237800 TAAACTCTATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGTTATA
1 TAAA--CTATATATGTAACCTATAGTATATGTATATATACAATCTATGTATATGATATA
*
1237859 TAAACTATATATGCAACCTATAGT
1 TAAACTATATATGTAACCTATAGT
1237883 TTATAAACAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
55 4 0.06
57 48 0.68
58 4 0.06
59 15 0.21
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.41
Consensus pattern (57 bp):
TAAACTATATATGTAACCTATAGTATATGTATATATACAATCTATGTATATGATATA
Found at i:1237812 original size:20 final size:19
Alignment explanation
Indices: 1237768--1237870 Score: 64
Period size: 20 Copynumber: 5.3 Consensus size: 19
1237758 TAACTTATAG
* *
1237768 TATATGTATGTATAAACTA
1 TATATATATATATAAACTA
* *
1237787 TGTATAATATATATAAACTC
1 TATAT-ATATATATAAACTA
* *
1237807 TATATATATA-ACCTATAGTA
1 TATATATATATA--TAAACTA
* * *
1237827 TATGTATATATACAATCTA
1 TATATATATATATAAACTA
* *
1237846 TTTATATGTTATATAAACTA
1 TATATAT-ATATATAAACTA
1237866 TATAT
1 TATAT
1237871 GCAACCTATA
Statistics
Matches: 60, Mismatches: 19, Indels: 9
0.68 0.22 0.10
Matches are distributed among these distances:
18 1 0.02
19 17 0.28
20 41 0.68
21 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.44
Consensus pattern (19 bp):
TATATATATATATAAACTA
Found at i:1237817 original size:35 final size:37
Alignment explanation
Indices: 1237778--1237852 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
1237768 TATATGTATG
1237778 TATAAACTAT-GTATA-ATATATATA-AACTCTATATA
1 TATAAACTATAGTATATATATATATACAA-TCTATATA
* * *
1237813 TATAACCTATAGTATATGTATATATACAATCTATTTA
1 TATAAACTATAGTATATATATATATACAATCTATATA
1237850 TAT
1 TAT
1237853 GTTATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 9 0.26
36 5 0.15
37 18 0.53
38 2 0.06
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (37 bp):
TATAAACTATAGTATATATATATATACAATCTATATA
Found at i:1237834 original size:24 final size:22
Alignment explanation
Indices: 1237809--1237867 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
1237799 ATAAACTCTA
*
1237809 TATATATAACCTATAGTATATG
1 TATATATAAACTATAGTATATG
*
1237831 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAGTATATG
1237854 T-TATATAAACTATA
1 TATATATAAACTATA
1237868 TATGCAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAGTATATG
Found at i:1237938 original size:21 final size:21
Alignment explanation
Indices: 1237913--1238094 Score: 90
Period size: 21 Copynumber: 8.5 Consensus size: 21
1237903 TAGTGTACTA
* *
1237913 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
1237934 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
* *
1237955 TATAGTTTAT-ATTAATGATAAT
1 TATAGTTTATAATTTAT-A-AAC
*
1237977 TAT-CTTAACTATAATTTATATTAA-
1 TATAGTT---TATAATTTATA--AAC
* *
1238001 TATAGTATATAGTTTATAAAC
1 TATAGTTTATAATTTATAAAC
* * * *
1238022 TATACTATATTAA--TATTAAT
1 TATAGTTTA-TAATTTATAAAC
*
1238042 TATA-TATTATAGTTTATAAAC
1 TATAGT-TTATAATTTATAAAC
* *
1238063 TATAATATATAATTTAT-AAC
1 TATAGTTTATAATTTATAAAC
1238083 ATATAGTTTATA
1 -TATAGTTTATA
1238095 TTAATATTAA
Statistics
Matches: 123, Mismatches: 23, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.02
20 21 0.17
21 65 0.53
22 18 0.15
24 7 0.06
25 9 0.07
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:1238052 original size:34 final size:34
Alignment explanation
Indices: 1237983--1238245 Score: 132
Period size: 34 Copynumber: 7.8 Consensus size: 34
1237973 TAATTATCTT
*
1237983 AACTATAATTTATATTAATA-T-AGTATATAGTTTATA
1 AACTAT-A-TTATATTAATATTAATTATATA--TTATA
*
1238019 AACTATACTATATTAATATTAATTATATATTATA
1 AACTATATTATATTAATATTAATTATATATTATA
*** *
1238053 GTTTATA-AACTA-TAATA-T-A-TA-AT-TTAT-
1 AACTATATTA-TATTAATATTAATTATATATTATA
1238080 AACATATAGTTTATATTAATATTAA-T-T-TA--ATA
1 AAC-TATA--TTATATTAATATTAATTATATATTATA
* * * *
1238112 GACTATATTTTATATTTATATTAATTACAAATTATA
1 AACTATA--TTATATTAATATTAATTATATATTATA
1238148 AACTATATTATATTAATA-TAAGTTA-ATATTAATA
1 AACTATATTATATTAATATTAA-TTATATATT-ATA
*
1238182 TTAATTATATTAATATTAATATTAATTATA-ATTATA
1 --AACTATATT-ATATTAATATTAATTATATATTATA
*
1238218 ATA-TATAATTATTTTAATATTAATTATA
1 A-ACTAT-ATTATATTAATATTAATTATA
1238246 AATAGTTTAT
Statistics
Matches: 180, Mismatches: 20, Indels: 56
0.70 0.08 0.22
Matches are distributed among these distances:
28 8 0.04
29 2 0.01
30 4 0.02
31 28 0.16
32 6 0.03
33 15 0.08
34 59 0.33
35 6 0.03
36 33 0.18
37 15 0.08
38 4 0.02
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (34 bp):
AACTATATTATATTAATATTAATTATATATTATA
Found at i:1238053 original size:41 final size:40
Alignment explanation
Indices: 1237984--1238094 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 40
1237974 AATTATCTTA
*
1237984 ACTATAATTTATATTAATATAGTATATAGTTTATAAACTAT
1 ACTAT-ATTAATATTAATATAGTATATAGTTTATAAACTAT
1238025 ACTATATTAATATTAATTATA-TATTATAGTTTATAAACTAT
1 ACTATATTAATATTAA-TATAGTA-TATAGTTTATAAACTAT
* *
1238066 AATATA-TAAT-TT-ATA-A-CATATAGTTTATA
1 ACTATATTAATATTAATATAGTATATAGTTTATA
1238095 TTAATATTAA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
35 11 0.17
36 2 0.03
37 2 0.03
38 1 0.02
39 2 0.03
40 16 0.25
41 31 0.48
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.47
Consensus pattern (40 bp):
ACTATATTAATATTAATATAGTATATAGTTTATAAACTAT
Found at i:1238106 original size:129 final size:128
Alignment explanation
Indices: 1237919--1238178 Score: 323
Period size: 129 Copynumber: 2.0 Consensus size: 128
1237909 ACTATATAGT
* * **
1237919 TTATACTTTATAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGATAATTATCTTA
1 TTATACTTTATAAACTATAATATATAATTTATAAACTATAGTTTATATTAATGATAATT-TAATA
* * **
1237984 -ACTATAATTTATATTAATA-TAGTATATAGTTTATAAACTATACTATATTAATATTAA-TTATA
65 GACTATAATTTATATTAATATTAAT-TACAAATTATAAACTATACTATATTAATA-TAAGTTA-A
1238046 TA
127 TA
*
1238048 TTATAGTTTATAAACTATAATATATAATTTAT-AACATATAGTTTATATTAAT-ATTAATTTAAT
1 TTATACTTTATAAACTATAATATATAATTTATAAAC-TATAGTTTATATTAATGA-TAATTTAAT
* * *
1238111 AGACTATATTTTATATTTATATTAATTACAAATTATAAACTATATTATATTAATATAAGTTAATA
64 AGACTATAATTTATATTAATATTAATTACAAATTATAAACTATACTATATTAATATAAGTTAATA
1238176 TTA
1 TTA
1238179 ATATTAATTA
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
128 16 0.14
129 95 0.83
130 3 0.03
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (128 bp):
TTATACTTTATAAACTATAATATATAATTTATAAACTATAGTTTATATTAATGATAATTTAATAG
ACTATAATTTATATTAATATTAATTACAAATTATAAACTATACTATATTAATATAAGTTAATA
Found at i:1238124 original size:31 final size:30
Alignment explanation
Indices: 1238027--1238137 Score: 102
Period size: 31 Copynumber: 3.5 Consensus size: 30
1238017 TAAACTATAC
*
1238027 TATATTAATATTAA-TTATATA-TTATAGTT
1 TATATTAATATTAATTTATA-ACATATAGTT
1238056 TATAAACTATAATATATAATTTATAACATATAGTT
1 TAT--A-T-TAATAT-TAATTTATAACATATAGTT
*
1238091 TATATTAATATTAATTTAATAGAC-TATATTT
1 TATATTAATATTAATTT-ATA-ACATATAGTT
*
1238122 TATATTTATATTAATT
1 TATATTAATATTAATT
1238138 ACAAATTATA
Statistics
Matches: 70, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
29 3 0.04
30 6 0.09
31 31 0.44
32 4 0.06
33 7 0.10
34 4 0.06
35 15 0.21
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATTAATATTAATTTATAACATATAGTT
Found at i:1238178 original size:16 final size:14
Alignment explanation
Indices: 1238154--1238245 Score: 91
Period size: 15 Copynumber: 6.4 Consensus size: 14
1238144 TATAAACTAT
1238154 ATTATATTAATATA
1 ATTATATTAATATA
1238168 AGTTAATATTAATATTA
1 A-TT-ATATTAATA-TA
1238185 ATTATATTAATAT-
1 ATTATATTAATATA
*
1238198 -TAATATTAATTATA
1 ATTATATTAA-TATA
*
1238212 ATTATAAT-ATATA
1 ATTATATTAATATA
*
1238225 ATTATTTTAATATTA
1 ATTATATTAATA-TA
1238240 ATTATA
1 ATTATA
1238246 AATAGTTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
12 8 0.12
13 13 0.20
14 6 0.09
15 23 0.36
16 11 0.17
17 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTATATTAATATA
Found at i:1238178 original size:21 final size:19
Alignment explanation
Indices: 1238152--1238243 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 19
1238142 ATTATAAACT
1238152 ATATTATATTAATATAAGTTA
1 ATATTATATTAAT-TAA-TTA
1238173 ATATTAATATTAATTATATTA
1 ATATT-ATATTAATTA-ATTA
1238194 ATATTAATATTAATT-A-TA
1 ATATT-ATATTAATTAATTA
* *
1238212 ATTATAATATATAATTATTTTA
1 A-TATTATAT-TAATTA-ATTA
1238234 ATATTA-ATTA
1 ATATTATATTA
1238244 TAAATAGTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
18 7 0.11
19 11 0.18
20 2 0.03
21 29 0.48
22 12 0.20
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (19 bp):
ATATTATATTAATTAATTA
Found at i:1238179 original size:6 final size:6
Alignment explanation
Indices: 1238152--1238207 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
1238142 ATTATAAACT
*
1238152 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
1238194 ATATTA ATATTA AT
1 ATATTA ATATTA AT
1238208 TATAATTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
4 4 0.09
5 15 0.34
6 25 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:1238260 original size:40 final size:40
Alignment explanation
Indices: 1238151--1238262 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 40
1238141 AATTATAAAC
1238151 TATATT-ATATTAATA-TAAGT-TAA-TATTAATAT-TAAT
1 TATATTAATATTAATATTAA-TATAATTATTAATATATAAT
1238187 TATATTAATATTAATATTAATTATAATTA-TAATATATAAT
1 TATATTAATATTAATATTAA-TATAATTATTAATATATAAT
* *
1238227 TATTTTAATATTAAT-TATAA-ATAGTTTATTAATATA
1 TATATTAATATTAATAT-TAATATA-ATTATTAATATA
1238263 AGTTTTATAG
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
36 6 0.09
37 9 0.14
38 7 0.11
39 13 0.20
40 30 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (40 bp):
TATATTAATATTAATATTAATATAATTATTAATATATAAT
Found at i:1239610 original size:3 final size:3
Alignment explanation
Indices: 1239602--1239696 Score: 110
Period size: 3 Copynumber: 32.7 Consensus size: 3
1239592 CCATTTGTTT
1239602 TTA TTA TTA TTA -TA TTA TT- TGTA TTA TTA TT- TTA TTCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA
* * *
1239646 TTA TTA TT- TTA TAA TTA -TA TTA TTA TTA TTA ATA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1239692 TTA TT
1 TTA TT
1239697 TACATTATAG
Statistics
Matches: 79, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
2 9 0.11
3 66 0.84
4 4 0.05
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1240849 original size:44 final size:45
Alignment explanation
Indices: 1240729--1240854 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
1240719 TATAAAATCC
1240729 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1240774 CTTACCATTTAAATTCCATACGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
1240821 CTTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1240855 GTATGCTTAC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 38 0.52
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1241055 original size:59 final size:59
Alignment explanation
Indices: 1240963--1241091 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
1240953 CGTAGTGCTA
* * * **
1240963 TCCCGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
1241022 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
1241081 TCCCGAATATG
1 TCCCGAATATG
1241092 CAGCATGTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:1244116 original size:22 final size:22
Alignment explanation
Indices: 1244083--1244139 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
1244073 TTATTTTCAG
* *
1244083 TATAT-TTAATTTAGTAATCTTAT
1 TATATATT-ATTTA-TAATATTAA
*
1244106 TAT-TATTATTTATCATATTAA
1 TATATATTATTTATAATATTAA
1244127 TATATATTATTTA
1 TATATATTATTTA
1244140 ATTAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 9 0.31
22 15 0.52
23 5 0.17
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATATTATTTATAATATTAA
Found at i:1249783 original size:32 final size:32
Alignment explanation
Indices: 1249743--1249804 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1249733 TTTGGAAACA
* * *
1249743 AGAAGTATCTCTACGAGATGAGCATAACAACG
1 AGAAGTATCTCTACCAAATAAGCATAACAACG
1249775 AGAAGTATCTCTACCAAATAAGCATAACAA
1 AGAAGTATCTCTACCAAATAAGCATAACAA
1249805 TAATTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACCAAATAAGCATAACAACG
Found at i:1253982 original size:22 final size:22
Alignment explanation
Indices: 1253957--1254013 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
1253947 ATATCTACCT
*
1253957 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1253979 TCTTCAAAGACGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1254001 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1254014 AAGTTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1255084 original size:84 final size:84
Alignment explanation
Indices: 1254981--1255168 Score: 288
Period size: 84 Copynumber: 2.2 Consensus size: 84
1254971 CTGAAGAGGA
* *
1254981 AGAACAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCATGACTCTATCACAGAAGGAGATA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGAATGACTCTATCACAGAAGGAGATA
* **
1255046 GATCAACATCAAGTTTTCC
66 GATAAACATCAACATTTCC
*
1255065 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGAATGACTCTATCACAGAAGGAGATA
1 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGAATGACTCTATCACAGAAGGAGATA
* *
1255130 TATAAACATTAACATTTCC
66 GATAAACATCAACATTTCC
*
1255149 AGAAG-TGTTCATAATGAGAA
1 AGAAGAAGTTCATAATGAGAA
1255169 TAACTCATCT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
83 14 0.15
84 81 0.85
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (84 bp):
AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGAATGACTCTATCACAGAAGGAGATA
GATAAACATCAACATTTCC
Found at i:1255579 original size:3 final size:3
Alignment explanation
Indices: 1255567--1255640 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
1255557 CCATTTGTTT
*
1255567 TTA TTA -TA TTA TTA TTA TTA TTA TT- TTA TTTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
1255611 TT- TTA TAA TTA -TA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1255641 TACATTACAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 8 0.13
3 51 0.82
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1256459 original size:11 final size:11
Alignment explanation
Indices: 1256443--1256467 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1256433 TCCGGTGAGG
1256443 GAAGCTAGAGA
1 GAAGCTAGAGA
1256454 GAAGCTAGAGA
1 GAAGCTAGAGA
1256465 GAA
1 GAA
1256468 CTTTCTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.36, T:0.08
Consensus pattern (11 bp):
GAAGCTAGAGA
Found at i:1257104 original size:18 final size:18
Alignment explanation
Indices: 1257083--1257117 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1257073 TTTTAGAGAA
1257083 ATTT-TTTTATTAATATTT
1 ATTTATTTT-TTAATATTT
1257101 ATTTATTTTTTAATATT
1 ATTTATTTTTTAATATT
1257118 AAGAAATGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTTTTAATATTT
Found at i:1257205 original size:131 final size:129
Alignment explanation
Indices: 1256964--1257206 Score: 296
Period size: 131 Copynumber: 1.9 Consensus size: 129
1256954 TATAAATTAA
* * *
1256964 TAATATTTGTTTATTTTTAAATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATTTTCTGA
1 TAATATTTATTTATTTTTAAATTAAGAAAGGGCAGTCTTAAAGCAACTAGAAGTCCATTTTCTGA
* * * ***
1257029 TATTTTTTAATAAATAAATATTTTTTATATATATATTTTTTTATTTTTAGAGAAATTTTTTTAT
66 TATTTTCTAATAAATAAATATTTTTTATATATAAATATAAATATTTTTAGAGAAATTTTTTTAT
* * *
1257093 TAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTATAAGT-CATTTTC
1 TAATATTTATTTA-TTTTTAA-ATTAAGAAA-GGGCAGTCTTAAAGCAACTAGAAGTCCATTTTC
1257157 TGATA-TTTCTAAGTAAATAAATATCTTATTTATA-A-AAATATAAATATTTT
63 TGATATTTTCTAA-TAAATAAATAT-TT-TTTATATATAAATATAAATATTTT
1257207 CTTAAAATTA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
129 12 0.12
130 13 0.14
131 42 0.44
132 23 0.24
133 6 0.06
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.49
Consensus pattern (129 bp):
TAATATTTATTTATTTTTAAATTAAGAAAGGGCAGTCTTAAAGCAACTAGAAGTCCATTTTCTGA
TATTTTCTAATAAATAAATATTTTTTATATATAAATATAAATATTTTTAGAGAAATTTTTTTAT
Found at i:1259637 original size:20 final size:20
Alignment explanation
Indices: 1259597--1259655 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
1259587 CAATACTTGG
*
1259597 TGTTTGATTATT-CTTGATTC
1 TGTTTGA-TATTGCTTGCTTC
* * *
1259617 TGTTTTATGTTGTTTGCTTC
1 TGTTTGATATTGCTTGCTTC
1259637 TGTTTGATATTGCTTGCTT
1 TGTTTGATATTGCTTGCTT
1259656 TTACTTGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.61
Consensus pattern (20 bp):
TGTTTGATATTGCTTGCTTC
Found at i:1259795 original size:23 final size:23
Alignment explanation
Indices: 1259762--1259813 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1259752 TAATGCAGGT
*
1259762 TGCTTGTTGAATCGATGCAACGA
1 TGCTTGCTGAATCGATGCAACGA
1259785 TGCTTGCTGAATCGATGCAACGA
1 TGCTTGCTGAATCGATGCAACGA
1259808 TGCTTG
1 TGCTTG
1259814 TCGGTTGCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (23 bp):
TGCTTGCTGAATCGATGCAACGA
Found at i:1261533 original size:20 final size:20
Alignment explanation
Indices: 1261510--1261547 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1261500 ATTTTAAAAA
1261510 TATTACATT-TTCATTTTATT
1 TATT-CATTATTCATTTTATT
*
1261530 TATTGATTATTCATTTTA
1 TATTCATTATTCATTTTA
1261548 ATAAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TATTCATTATTCATTTTATT
Found at i:1261924 original size:33 final size:33
Alignment explanation
Indices: 1261876--1261988 Score: 148
Period size: 33 Copynumber: 3.6 Consensus size: 33
1261866 TTTTCACCCT
1261876 AAACCCGAACCCGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCGAATATCACACTTAAAA
*
1261910 AAACCCGACCCGACCCGAATACCACACTT--AA
1 AAACCCGACCCGACCCGAATATCACACTTAAAA
*
1261941 AAA----ACCCGACCCGAATATCAAACTTAAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAAA
*
1261970 AAACCCAACCCGACCCGAA
1 AAACCCGACCCGACCCGAA
1261989 CCTGAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
27 20 0.29
29 5 0.07
31 5 0.07
33 33 0.47
34 7 0.10
ACGTcount: A:0.44, C:0.37, G:0.09, T:0.10
Consensus pattern (33 bp):
AAACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:1262016 original size:30 final size:30
Alignment explanation
Indices: 1261979--1262049 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 30
1261969 AAAACCCAAC
* *
1261979 CCGACCCGAACCTGAATTTTTTTTAAAAAAA
1 CCGACCCGAACC-CAAATTTTTTTAAAAAAA
*
1262010 -CGACCCGATCCCAAATTTTTTTAAAAAAA
1 CCGACCCGAACCCAAATTTTTTTAAAAAAA
1262039 TCCGACCCGAA
1 -CCGACCCGAA
1262050 TACCTAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 16 0.47
30 10 0.29
31 8 0.24
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (30 bp):
CCGACCCGAACCCAAATTTTTTTAAAAAAA
Found at i:1262533 original size:21 final size:21
Alignment explanation
Indices: 1262509--1262548 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1262499 TTTTCAAAGG
1262509 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1262530 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1262549 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1262598 original size:19 final size:19
Alignment explanation
Indices: 1262574--1262612 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1262564 TCGAATGCAT
1262574 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1262593 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1262612 T
1 T
1262613 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1262637 original size:64 final size:64
Alignment explanation
Indices: 1262509--1262738 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
1262499 TTTTCAAAGG
* * *
1262509 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
1262572 ATT
62 ATT
1262575 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
1262639 T
64 T
* * ** * *
1262640 GATGCATCGATGCACAATCCATGCATCGATGCAC-CAGGCTATTT--TTTAAACATCGAATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-
1262702 TT
63 TT
* * *
1262704 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
1262739 AGGAGTCCAA
Statistics
Matches: 140, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
63 2 0.01
64 98 0.70
65 17 0.12
66 7 0.05
67 14 0.10
68 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:1262718 original size:17 final size:19
Alignment explanation
Indices: 1262690--1262738 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1262680 ATTTTTTAAA
1262690 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1262708 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1262727 CACCGATGCACT
1 CATCGATGCACT
1262739 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1264683 original size:20 final size:21
Alignment explanation
Indices: 1264655--1264701 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1264645 GGATTATGAG
*
1264655 AAATTATTTTT-AAAATAT-AA
1 AAATGATTTTTCAAAAT-TGAA
1264675 AAATGATTTTTCAAAATTGAA
1 AAATGATTTTTCAAAATTGAA
1264696 AAATGA
1 AAATGA
1264702 AAACAAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (21 bp):
AAATGATTTTTCAAAATTGAA
Found at i:1268557 original size:24 final size:22
Alignment explanation
Indices: 1268529--1268608 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 22
1268519 CACTTAACAA
1268529 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
* *
1268553 TGCATCGATACATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
1268573 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
1268597 TGCATCGATGCA
1 TGCATCGATGCA
1268609 CAAGACCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
22 2 0.04
23 13 0.28
24 16 0.35
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:1271183 original size:21 final size:21
Alignment explanation
Indices: 1271159--1271198 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1271149 TTTTCAAAGG
1271159 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1271180 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1271199 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1271248 original size:19 final size:19
Alignment explanation
Indices: 1271224--1271262 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1271214 TCGAATGCAT
1271224 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1271243 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1271262 T
1 T
1271263 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1271288 original size:64 final size:65
Alignment explanation
Indices: 1271159--1271323 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 65
1271149 TTTTCAAAGG
* *
1271159 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCAAATGC
1271222 ATTC
62 ATTC
* * *
1271226 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCAAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCAAATGCATTC
* * * **
1271290 GATGCATCGATGTACAATCCATGCATCGATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCAC
1271324 CAGGCTATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 52 0.60
65 15 0.17
66 3 0.03
67 14 0.16
68 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCAAATGCATTC
Found at i:1271368 original size:17 final size:19
Alignment explanation
Indices: 1271340--1271388 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1271330 ATTTTTCAAA
1271340 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1271358 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1271377 CACCGATGCACT
1 CATCGATGCACT
1271389 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1271384 original size:64 final size:62
Alignment explanation
Indices: 1271209--1271387 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 62
1271199 GAATAAATTG
* *
1271209 AAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCA-CTCTGATTTAATTA
1 AAACATCGAATGCATT-CATGCATCGATGCACTCT-CATGCATCGATGCACCGCTGATTT-ATTA
* * *
1271273 AAACATCAAATGCATTTGATGCATCGATGTACAATC-CATGCATCGATGCACCAGGCT-ATTT-T
1 AAACATCGAATGCA-TTCATGCATCGATG--CACTCTCATGCATCGATGCACC--GCTGATTTAT
*
1271335 TC
61 TA
* *
1271337 AAACATCGAATGCACTTCATGCATCGATGCACTCTTAGTGCACCGATGCAC
1 AAACATCGAATGCA-TTCATGCATCGATGCACTCTCA-TGCATCGATGCAC
1271388 TAGGAGTCCA
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
62 4 0.04
63 1 0.01
64 77 0.81
65 3 0.03
66 8 0.08
67 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (62 bp):
AAACATCGAATGCATTCATGCATCGATGCACTCTCATGCATCGATGCACCGCTGATTTATTA
Found at i:1274659 original size:13 final size:13
Alignment explanation
Indices: 1274616--1274663 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1274606 TTTATGAATA
*
1274616 GTGAACAGTACCC
1 GTGAACAGTACAC
*
1274629 GTGAATAGTA-AC
1 GTGAACAGTACAC
*
1274641 ATTGAACAGTACAC
1 -GTGAACAGTACAC
1274655 GTGAACAGT
1 GTGAACAGT
1274664 GGGGGAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 25 0.89
14 2 0.07
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (13 bp):
GTGAACAGTACAC
Found at i:1275348 original size:33 final size:33
Alignment explanation
Indices: 1275306--1275372 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1275296 ACCGTAGTGC
*
1275306 TAATCCGTATGATACATAAGGCCGTGTCCACCA
1 TAATCCGTATGACACATAAGGCCGTGTCCACCA
* * *
1275339 TAATTCGTATGACATATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGCCGTGTCCACCA
1275372 T
1 T
1275373 CTGTACTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGCCGTGTCCACCA
Found at i:1283330 original size:3 final size:3
Alignment explanation
Indices: 1283322--1283346 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1283312 CTAATCTGTT
1283322 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
1283347 GCATCACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1286098 original size:30 final size:30
Alignment explanation
Indices: 1286058--1286130 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
1286048 GTATAAGATG
**
1286058 AATATAAATAAAATTTTAAATGAACATTATC
1 AATA-AAATAAAATTTTAAATGAACACCATC
*
1286089 AATAAAATAAAATTTTAAATGGACACCATC
1 AATAAAATAAAATTTTAAATGAACACCATC
1286119 AATAAAATAAAA
1 AATAAAATAAAA
1286131 AAGTAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 35 0.90
31 4 0.10
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (30 bp):
AATAAAATAAAATTTTAAATGAACACCATC
Found at i:1298094 original size:59 final size:58
Alignment explanation
Indices: 1298031--1298236 Score: 247
Period size: 58 Copynumber: 3.5 Consensus size: 58
1298021 ATGGCACCTT
* *
1298031 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT-AAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGA
* *** * * * *
1298090 GTGTGCTAAATGATAAGGAAATTATATTGAAAATATGGATTTCTAGATAT-G-GCATTTTA
1 GTGTGCTAAATGATAAGGAAATCATATTGAGTGTATAGATTTC--CATATGGAGCA-CTGA
*
1298149 -TGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT-AAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGA
1298207 GTGTGCTAAATGATAAGGAAATCATATTGA
1 GTGTGCTAAATGATAAGGAAATCATATTGA
1298237 AAATATGGAT
Statistics
Matches: 120, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
57 4 0.03
58 63 0.52
59 49 0.41
60 4 0.03
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (58 bp):
GTGTGCTAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGA
Found at i:1298255 original size:117 final size:117
Alignment explanation
Indices: 1298032--1298248 Score: 416
Period size: 117 Copynumber: 1.9 Consensus size: 117
1298022 TGGCACCTTG
1298032 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
*
1298097 AAATGATAAGGAAATTATATTGAAAATATGGATTTCTAGATATGGCATTTTA
66 AAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATATGGCATTTTA
*
1298149 TGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1298214 AAATGATAAGGAAATCATATTGAAAATATGGATTT
66 AAATGATAAGGAAATCATATTGAAAATATGGATTT
1298249 TCAGATAAAG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 98 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
AAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATATGGCATTTTA
Found at i:1298271 original size:58 final size:58
Alignment explanation
Indices: 1298031--1298291 Score: 193
Period size: 58 Copynumber: 4.4 Consensus size: 58
1298021 ATGGCACCTT
* * *** * * * ** *
1298031 GTGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTTCAGATAAAGCACTAA
* ** * *
1298090 GTGTGCTAAATGATAAGGAAATTATATTGAAAATATGGA-TTTCTAGATATGGCATTTTA
1 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTTC-AGATAAAGCA-CTAA
* *** * * * ** *
1298149 -TGTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGA
1 GTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTTCAGATAAAGCACTAA
*
1298207 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTTCAGATAAAGTACTAA
1 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTTCAGATAAAGCACTAA
* * *
1298265 GGGTGCTACAAAGATAAAGAAATCATA
1 GTGTGCTA-AATGATAAGGAAATCATA
1298292 CTAATGGTAT
Statistics
Matches: 155, Mismatches: 41, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
57 3 0.02
58 86 0.55
59 63 0.41
60 3 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (58 bp):
GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTTCAGATAAAGCACTAA
Found at i:1298271 original size:117 final size:117
Alignment explanation
Indices: 1298033--1298293 Score: 384
Period size: 117 Copynumber: 2.2 Consensus size: 117
1298023 GGCACCTTGT
1298033 GTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTA
1 GTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTA
* ** * * *
1298098 AATGATAAGGAAATTATATTGAAAATATGGATTTCTAGATATGGCATTTTAT
66 AATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAAAGCATCTAAG
*
1298150 GTGCTAAAATGGTAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTA
1 GTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTA
*
1298215 AATGATAAGGAAATCATATTGAAAATATGGATTT-TCAGATAAAGTA-CTAAGG
66 AATGATAAGGAAATCATATTGAAAATATGGATTTCT-AGATAAAGCATCTAA-G
* *
1298267 GTGCTACAAA-GATAAAGAAATCATACT
1 GTGCTA-AAATGGTAAGGAAATCATACT
1298294 AATGGTATGG
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
116 3 0.02
117 124 0.95
118 3 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (117 bp):
GTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCTA
AATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAAAGCATCTAAG
Found at i:1298330 original size:59 final size:59
Alignment explanation
Indices: 1298267--1298396 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
1298257 AGTACTAAGG
* *
1298267 GTGCTACAAA-GATAA-AGAAATCATACTAATGGTATGGA-TTTTCACATAGGGCATTTCAA
1 GTGCTA-AAATGATAACA-AAATCATACTAATGGTATGAATTTTTCA-ATAGGGCACTTCAA
* * * *
1298326 GTGCTAAAATGGTAACAAAATTATACTAATGGTATGAATTTTTGAATAGGGCACTTCAT
1 GTGCTAAAATGATAACAAAATCATACTAATGGTATGAATTTTTCAATAGGGCACTTCAA
1298385 GTGCTAAAATGA
1 GTGCTAAAATGA
1298397 AAGGGGAAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
58 3 0.05
59 52 0.85
60 6 0.10
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (59 bp):
GTGCTAAAATGATAACAAAATCATACTAATGGTATGAATTTTTCAATAGGGCACTTCAA
Found at i:1298592 original size:44 final size:45
Alignment explanation
Indices: 1298531--1299025 Score: 758
Period size: 44 Copynumber: 11.2 Consensus size: 45
1298521 AAATGAGGTT
* **
1298531 AATGG-AAGTATATTGGTAAAATAAGCTTATTAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
*
1298574 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
* *
1298618 AATGGTAAGTGTGTTGGTAAAATAGGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1298662 AATGGTAAGTATATTGGTAAAATAGGCTTA-GAAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACG-AGCTTATGGAATA
*
1298707 AATGGTAAGTATATTGGTAAAATAGGTTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1298751 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
*
1298796 AATGGTAAGTATGA-TGGTAAAATAGGTTTACGAGCTTATGGAAT-
1 AATGGTAAGTAT-ATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1298840 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1298885 AAT-GTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
* * *
1298929 AATGGTAAGTATGTTGGTAAAATAGGCTTGCGAGCTTATGAAATA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
* * * * *
1298974 AATTG-AAGTATGTTGGTAAAATAAGTTTACGAGCTTATGGGATA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
1299018 AATGGTAA
1 AATGGTAA
1299026 ATTTATTGAT
Statistics
Matches: 421, Mismatches: 21, Indels: 18
0.92 0.05 0.04
Matches are distributed among these distances:
43 7 0.02
44 283 0.67
45 129 0.31
46 2 0.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATA
Found at i:1298765 original size:89 final size:89
Alignment explanation
Indices: 1298531--1299025 Score: 768
Period size: 89 Copynumber: 5.6 Consensus size: 89
1298521 AAATGAGGTT
* **
1298531 AATGG-AAGTATATTGGTAAAATAAGCTTATTAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
*
1298595 ATAAGCTTACGAGCTTATGGAAT-
66 ATAGGCTTACGAGCTTATGGAATA
* *
1298618 AATGGTAAGTGTGTTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1298683 ATAGGCTTA-GAAGCTTATGGAATA
66 ATAGGCTTACG-AGCTTATGGAATA
*
1298707 AATGGTAAGTATATTGGTAAAATAGGTTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1298772 ATAGGCTTACGAGCTTATGGAATA
66 ATAGGCTTACGAGCTTATGGAATA
*
1298796 AATGGTAAGTATGA-TGGTAAAATAGGTTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAA
1 AATGGTAAGTAT-ATTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAA
1298860 AATAGGCTTACGAGCTTATGGAATA
65 AATAGGCTTACGAGCTTATGGAATA
*
1298885 AAT-GTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAAATGGTAAGTATGTTGGTAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTAA
* *
1298949 AATAGGCTTGCGAGCTTATGAAATA
65 AATAGGCTTACGAGCTTATGGAATA
* * * * *
1298974 AATTG-AAGTATGTTGGTAAAATAAGTTTACGAGCTTATGGGATAAATGGTAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAAT-AATGGTAA
1299026 ATTTATTGAT
Statistics
Matches: 383, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
87 7 0.02
88 111 0.29
89 262 0.68
90 3 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (89 bp):
AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
ATAGGCTTACGAGCTTATGGAATA
Found at i:1298773 original size:133 final size:133
Alignment explanation
Indices: 1298531--1299025 Score: 743
Period size: 133 Copynumber: 3.7 Consensus size: 133
1298521 AAATGAGGTT
* *
1298531 AATGG-AAGTATATTGGTAAAATAAGCTTATTAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTA-GAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* *
1298595 ATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTGTGTTGGTAAAATAGGCTTACGAGCTTATGG
65 ATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGG
1298659 AAT-
130 AATA
1298662 AATGGTAAGTATATTGGTAAAATAGGCTTAGAAGCTTATGGAATAAATGGTAAGTATATTGGTAA
1 AATGGTAAGTATATTGGTAAAATAGGCTTAG-AGCTTATGGAAT-AATGGTAAGTATATTGGTAA
* *
1298727 AATAGGTTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATG
64 AATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATG
1298791 GAATA
129 GAATA
*
1298796 AATGGTAAGTATGA-TGGTAAAATAGGTTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAA
1 AATGGTAAGTAT-ATTGGTAAAATAGGCTTA-GAGCTTATGGAATAATGGTAAGTATATTGGTAA
*
1298860 AATAGGCTTACGAGCTTATGGAATAAAT-GTAAGTATATTGGTAAAATAGGCTTACGAGCTTATG
64 AATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATG
1298924 GAATA
129 GAATA
* * * * *
1298929 AATGGTAAGTATGTTGGTAAAATAGGCTTGCGAGCTTATGAAATAAATTG-AAGTATGTTGGTAA
1 AATGGTAAGTATATTGGTAAAATAGGCTT-AGAGCTTATGGAAT-AATGGTAAGTATATTGGTAA
* *
1298993 AATAAGTTTACGAGCTTATGGGATAAATGGTAA
64 AATAAGCTTACGAGCTTATGGAATAAATGGTAA
1299026 ATTTATTGAT
Statistics
Matches: 336, Mismatches: 17, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
131 5 0.01
132 35 0.10
133 244 0.73
134 50 0.15
135 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (133 bp):
AATGGTAAGTATATTGGTAAAATAGGCTTAGAGCTTATGGAATAATGGTAAGTATATTGGTAAAA
TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTAAAATAGGCTTACGAGCTTATGGA
ATA
Found at i:1300288 original size:37 final size:37
Alignment explanation
Indices: 1300195--1300302 Score: 144
Period size: 37 Copynumber: 2.9 Consensus size: 37
1300185 ACACCTTTTC
1300195 GTCCTACTAGGATTCAAACTCCTAAAAATAGGATAGA
1 GTCCTACTAGGATTCAAACTCCTAAAAATAGGATAGA
* ** *
1300232 ATTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 GTCCTACTAGGATTCAAACTCCTAAAAATAGGATAGA
** * *
1300269 GTCCTACTATTATTTAAACTCCTAAAGATAGGAT
1 GTCCTACTAGGATTCAAACTCCTAAAAATAGGAT
1300303 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (37 bp):
GTCCTACTAGGATTCAAACTCCTAAAAATAGGATAGA
Found at i:1302258 original size:18 final size:18
Alignment explanation
Indices: 1302237--1302274 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1302227 CCTTACACAC
1302237 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
* *
1302255 TTTGCCACGACAACGCCA
1 TTTGCCACAACAACACCA
1302273 TT
1 TT
1302275 CATACTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:1302396 original size:10 final size:10
Alignment explanation
Indices: 1302366--1302405 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
1302356 TTTTCATTCC
1302366 ATCATTTCAATT
1 ATCATTTC-A-T
*
1302378 ATTATTTCAT
1 ATCATTTCAT
1302388 ATCATTTCAT
1 ATCATTTCAT
1302398 ATCATTTC
1 ATCATTTC
1302406 CTTCATATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 18 0.69
11 1 0.04
12 7 0.27
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (10 bp):
ATCATTTCAT
Found at i:1312209 original size:23 final size:24
Alignment explanation
Indices: 1312181--1312228 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
1312171 TATATGTATA
1312181 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTTATTTCATT
*
1312204 TATTTATTATAATTTTTTTTCATT
1 TATTTATTATAATTTTATTTCATT
1312228 T
1 T
1312229 TTCTTTACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTATTATAATTTTATTTCATT
Found at i:1312319 original size:17 final size:17
Alignment explanation
Indices: 1312292--1312326 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1312282 TTATTATTTT
1312292 TTTATCTATGTTTAATTA
1 TTTATCTATGTTT-ATTA
1312310 TTTA-CTATGTTTATTA
1 TTTATCTATGTTTATTA
1312326 T
1 T
1312327 AATTTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 8 0.47
18 4 0.24
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTATCTATGTTTATTA
Found at i:1312495 original size:21 final size:21
Alignment explanation
Indices: 1312460--1312526 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
1312450 TATACATACA
*
1312460 TTTTTATT-TTATATTTATAT
1 TTTTTATTATTTTATTTATAT
*
1312480 TTTTTATTATTTTATTTATAC
1 TTTTTATTATTTTATTTATAT
*
1312501 TATTTATTTATTTTCA-TTATAT
1 TTTTTA-TTATTTT-ATTTATAT
1312523 TTTT
1 TTTT
1312527 AGTTTCTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 8 0.21
21 15 0.38
22 15 0.38
23 1 0.03
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTATTATTTTATTTATAT
Found at i:1312527 original size:21 final size:21
Alignment explanation
Indices: 1312386--1312527 Score: 59
Period size: 22 Copynumber: 6.6 Consensus size: 21
1312376 TTTAGTTAAT
* *
1312386 ATTATATGTATATTTATTTTTC
1 ATTATATTTTTATTTA-TTTTC
1312408 ATT-TATTTATTA-TTATTATTAC
1 ATTATATTT-TTATTTATT-TT-C
*
1312430 TATT-TAGTATTTTATTATATTATAC
1 -ATTATA-T-TTTTATT-TATT-TTC
*
1312455 A-TACATTTTTATTTTATATTT-
1 ATTATATTTTTA-TTTAT-TTTC
1312476 A-TAT-TTTTTA-TTATTTT-
1 ATTATATTTTTATTTATTTTC
*
1312493 ATTTATACTATTTATTTATTTTC
1 A-TTATA-TTTTTATTTATTTTC
1312516 ATTATATTTTTA
1 ATTATATTTTTA
1312528 GTTTCTTTGC
Statistics
Matches: 95, Mismatches: 8, Indels: 35
0.69 0.06 0.25
Matches are distributed among these distances:
17 4 0.04
18 4 0.04
19 3 0.03
20 8 0.08
21 22 0.23
22 27 0.28
23 11 0.12
24 6 0.06
25 4 0.04
26 6 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTATATTTTTATTTATTTTC
Found at i:1312527 original size:34 final size:28
Alignment explanation
Indices: 1312459--1312527 Score: 68
Period size: 34 Copynumber: 2.2 Consensus size: 28
1312449 TTATACATAC
1312459 ATTTTTATTTTATATTTATATTTTTTAT
1 ATTTTTATTTTATATTTATATTTTTTAT
1312487 -TATTTTATTTATACTATTTATTTATTTTCATTAT
1 AT-TTTTATTT-TA-TATTTA--TATTTT--TTAT
1312521 ATTTTTA
1 ATTTTTA
1312528 GTTTCTTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
27 1 0.03
28 8 0.24
29 2 0.06
30 6 0.18
32 6 0.18
34 9 0.27
35 1 0.03
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (28 bp):
ATTTTTATTTTATATTTATATTTTTTAT
Found at i:1312638 original size:20 final size:19
Alignment explanation
Indices: 1312611--1312666 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
1312601 TTTTAACTTC
1312611 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
1312630 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
1312650 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
1312667 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:1316968 original size:16 final size:16
Alignment explanation
Indices: 1316947--1317016 Score: 70
Period size: 16 Copynumber: 4.2 Consensus size: 16
1316937 CAATCAGAAC
1316947 AAAAAGAAAAAAAACA
1 AAAAAGAAAAAAAACA
* *
1316963 AAAAAGAAAAGAAGCA
1 AAAAAGAAAAAAAACA
*
1316979 AAAAAG-AAGAAAACA
1 AAAAAGAAAAAAAACA
*
1316994 AAAGAAAAAAGAAAGAACA
1 AAA-AAGAAA-AAA-AACA
1317013 AAAA
1 AAAA
1317017 TCAAAAAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 9 0.21
16 22 0.51
17 2 0.05
18 3 0.07
19 7 0.16
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAACA
Found at i:1316983 original size:11 final size:10
Alignment explanation
Indices: 1316947--1317006 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 10
1316937 CAATCAGAAC
1316947 AAAAAGAA-A
1 AAAAAGAAGA
* *
1316956 AAAAACAAAAA
1 AAAAA-GAAGA
1316967 AGAAAAGAAGCA
1 A-AAAAGAAG-A
1316979 AAAAAGAAGA
1 AAAAAGAAGA
1316989 AAACAA-AAGA
1 AAA-AAGAAGA
1316999 AAAAAGAA
1 AAAAAGAA
1317007 AGAACAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
9 7 0.17
10 15 0.36
11 14 0.33
12 6 0.14
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAGA
Found at i:1316991 original size:24 final size:21
Alignment explanation
Indices: 1316948--1317003 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 21
1316938 AATCAGAACA
*
1316948 AAAAGAAAAAAAACAAAAAAG
1 AAAAGAAAAAAAACAAAAAAC
*
1316969 AAAAGAAGCAAAAAAGAAGAAAAC
1 AAAAGAA--AAAAAACAA-AAAAC
1316993 AAAAGAAAAAA
1 AAAAGAAAAAA
1317004 GAAAGAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 7 0.23
22 4 0.13
23 8 0.27
24 11 0.37
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAAACAAAAAAC
Found at i:1316992 original size:31 final size:32
Alignment explanation
Indices: 1316947--1317006 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
1316937 CAATCAGAAC
1316947 AAAAAGAAAAAAAACAAAA-AAGAAAAGAAGCA
1 AAAAAGAAAAAAAACAAAAGAA-AAAAGAAGCA
*
1316979 AAAAAG-AAGAAAACAAAAGAAAAAAGAA
1 AAAAAGAAAAAAAACAAAAGAAAAAAGAA
1317007 AGAACAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (32 bp):
AAAAAGAAAAAAAACAAAAGAAAAAAGAAGCA
Found at i:1317002 original size:35 final size:31
Alignment explanation
Indices: 1316942--1317016 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 31
1316932 AGATTCAATC
*
1316942 AGAAC-AAAAAG-AAAAAAAACAAAAAAGAAA
1 AGAACAAAAAAGAAAAAAAAAAAAAAAAG-AA
1316972 AGAAGCAAAAAAGAAGAAAACAAAAGAAAAAAGAA
1 AGAA-CAAAAAAGAA-AAAA-AAAA-AAAAAAGAA
1317007 AGAACAAAAA
1 AGAACAAAAA
1317017 TCAAAAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 4 0.11
31 1 0.03
32 6 0.16
33 1 0.03
34 10 0.26
35 9 0.24
36 7 0.18
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (31 bp):
AGAACAAAAAAGAAAAAAAAAAAAAAAAGAA
Found at i:1317003 original size:20 final size:19
Alignment explanation
Indices: 1316978--1317029 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
1316968 GAAAAGAAGC
1316978 AAAAAAGAAGAAAACAAAAG
1 AAAAAAGAA-AAAACAAAAG
*
1316998 AAAAAAGAAAGAACAAAA-
1 AAAAAAGAAAAAACAAAAG
1317016 ATCAAAAAGAAAAA
1 A--AAAAAGAAAAA
1317030 GGGACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 8 0.29
20 19 0.68
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAAACAAAAG
Found at i:1317009 original size:21 final size:20
Alignment explanation
Indices: 1316953--1317027 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
1316943 GAACAAAAAG
*
1316953 AAAAAA-AACAAA-AAAG-A
1 AAAAAAGAAAAAAGAAAGAA
*
1316970 AAAGAAGCAAAAAAG-AAGAA
1 AAAAAAG-AAAAAAGAAAGAA
1316990 AACAAAAGAAAAAAGAAAGAA
1 AA-AAAAGAAAAAAGAAAGAA
* **
1317011 CAAAAATCAAAAAGAAA
1 AAAAAAGAAAAAAGAAA
1317028 AAGGGACAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 5 0.11
19 8 0.17
20 23 0.50
21 10 0.22
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAGAA
Found at i:1317028 original size:13 final size:13
Alignment explanation
Indices: 1316944--1317029 Score: 66
Period size: 16 Copynumber: 6.1 Consensus size: 13
1316934 ATTCAATCAG
1316944 AACAAAAAGAAAAAA
1 AACAAAAAG--AAAA
1316959 AACAAAAAAGAAAA
1 AAC-AAAAAGAAAA
1316973 GAAGCAAAAAAGAAGAA
1 -AA-C-AAAAAGAA-AA
1316990 AAC-AAAAGAAAA
1 AACAAAAAGAAAA
* *
1317002 AAGAAAGAACAAAA
1 AACAAA-AAGAAAA
*
1317016 ATCAAAAAGAAAA
1 AACAAAAAGAAAA
1317029 A
1 A
1317030 GGGACAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
12 4 0.07
13 16 0.27
14 14 0.23
15 6 0.10
16 18 0.30
17 2 0.03
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (13 bp):
AACAAAAAGAAAA
Found at i:1317029 original size:7 final size:7
Alignment explanation
Indices: 1316955--1317029 Score: 55
Period size: 7 Copynumber: 10.7 Consensus size: 7
1316945 ACAAAAAGAA
*
1316955 AAAAAAC
1 AAAAAAG
1316962 AAAAAAG
1 AAAAAAG
1316969 AAAAGAAG
1 AAAA-AAG
1316977 CAAAAAAG
1 -AAAAAAG
*
1316985 AAGAAA-
1 AAAAAAG
*
1316991 ACAAAAG
1 AAAAAAG
1316998 AAAAAAG
1 AAAAAAG
*
1317005 AAAGAA-
1 AAAAAAG
* *
1317011 CAAAAAT
1 AAAAAAG
*
1317018 CAAAAAG
1 AAAAAAG
1317025 AAAAA
1 AAAAA
1317030 GGGACAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
6 8 0.15
7 36 0.67
8 6 0.11
9 4 0.07
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:1317713 original size:22 final size:22
Alignment explanation
Indices: 1317641--1317716 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
1317631 CTACCCCATT
*
1317641 AAACCATTGAGCATCAAATGCC
1 AAACCTTTGAGCATCAAATGCC
*
1317663 AAACCTATGAGCATCAAATGCC
1 AAACCTTTGAGCATCAAATGCC
*
1317685 AAACCTTTGAGCATCCAATGCC
1 AAACCTTTGAGCATCAAATGCC
1317707 AAACCTTTGA
1 AAACCTTTGA
1317717 TCAAACATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (22 bp):
AAACCTTTGAGCATCAAATGCC
Found at i:1317937 original size:24 final size:24
Alignment explanation
Indices: 1317908--1317968 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
1317898 GGGACAATAT
1317908 TTTCAAAACTTTTAATTAAACATC
1 TTTCAAAACTTTTAATTAAACATC
* *
1317932 TTTCAAAACTCTTGATTAAACATC
1 TTTCAAAACTTTTAATTAAACATC
*
1317956 TTTCGAAACTTTT
1 TTTCAAAACTTTT
1317969 TATTGATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (24 bp):
TTTCAAAACTTTTAATTAAACATC
Found at i:1320031 original size:106 final size:106
Alignment explanation
Indices: 1318543--1320030 Score: 2285
Period size: 106 Copynumber: 14.0 Consensus size: 106
1318533 ATATCATGCC
* * * * *
1318543 ACTCAAGACAACACAAGTT-ACAGTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 ACTCCAGACAACGCAAGTTCA-ACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
*
1318607 CAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1318649 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1318714 AATTTCAGAGCCAATTTTAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1318755 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAAGAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1318820 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1318861 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGGTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1318926 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1318967 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGATTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
1319032 AATTTCAGAGCCAATTTCAACTTCACGGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1319073 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTAGTTATCAACATACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
1319138 AATTTCATAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
**
1319179 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1319244 AATTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1319285 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1319350 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1319391 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
1319456 ACTTTCGGAGCCAATTTCAACTCCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1319497 ACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1319562 AATTTCGGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1319603 ACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGTACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1319668 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1319709 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1319774 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1319815 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1319880 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1319921 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * * *
1319986 GATTCCAGAGCTAATTTCAACTTCGCGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1320027 ACTC
1 ACTC
1320031 GGAACAATGC
Statistics
Matches: 1270, Mismatches: 111, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
106 1269 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1320829 original size:37 final size:37
Alignment explanation
Indices: 1320788--1320882 Score: 127
Period size: 37 Copynumber: 2.6 Consensus size: 37
1320778 CTAATACGAT
*
1320788 TCAAACTCCTAAAAATAGGATAGAATTTTGCTAGGAG
1 TCAAACTCCTAAAAATAGGATAGAATTTTACTAGGAG
* ** *
1320825 TCAAACTCCTAAAAATAGGATAGAGTTTTACTATTAT
1 TCAAACTCCTAAAAATAGGATAGAATTTTACTAGGAG
* *
1320862 TTAAACTCCTAAAGATAGGAT
1 TCAAACTCCTAAAAATAGGAT
1320883 CCACAAGCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (37 bp):
TCAAACTCCTAAAAATAGGATAGAATTTTACTAGGAG
Found at i:1321328 original size:23 final size:23
Alignment explanation
Indices: 1321300--1321346 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
1321290 TATATGTATA
1321300 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
1321323 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
1321346 T
1 T
1321347 TTCTTTACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:1324634 original size:21 final size:21
Alignment explanation
Indices: 1324594--1324639 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1324584 TAGTGATTTG
*
1324594 GAAAGTACATAATTTTTAA-T
1 GAAAGTACATAATCTTTAATT
1324614 GAAAGTACATAATGCTTTAATT
1 GAAAGTACATAAT-CTTTAATT
1324636 GAAA
1 GAAA
1324640 TAATGAGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (21 bp):
GAAAGTACATAATCTTTAATT
Found at i:1328776 original size:30 final size:31
Alignment explanation
Indices: 1328715--1328782 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
1328705 GAACTGAATA
1328715 TGATGATGTTGATGATCTTCAACGAAAGATGG
1 TGATGATGTTGA-GATCTTCAACGAAAGATGG
* * *
1328747 TTGATGGTGTTGA-ATCTT-AACGGATGATGG
1 -TGATGATGTTGAGATCTTCAACGAAAGATGG
1328777 TGATGA
1 TGATGA
1328783 AAGTGTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 5 0.16
30 10 0.32
31 5 0.16
33 11 0.35
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (31 bp):
TGATGATGTTGAGATCTTCAACGAAAGATGG
Found at i:1329132 original size:20 final size:22
Alignment explanation
Indices: 1329107--1329151 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
1329097 GTGATTTGGC
*
1329107 AAGTACATAAT-TTTTAA-TGA
1 AAGTACATAATGCTTTAATTGA
1329127 AAGTACATAATGCTTTAATTGA
1 AAGTACATAATGCTTTAATTGA
1329149 AAG
1 AAG
1329152 AATGATTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 5 0.23
22 6 0.27
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (22 bp):
AAGTACATAATGCTTTAATTGA
Found at i:1334009 original size:21 final size:21
Alignment explanation
Indices: 1333983--1334029 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1333973 ATCCTTGCCC
*
1333983 AAGGGGGTCATTCTTTGGTCA
1 AAGGGGATCATTCTTTGGTCA
1334004 AAGGGGATCATTCTTTGGTCA
1 AAGGGGATCATTCTTTGGTCA
1334025 AAGGG
1 AAGGG
1334030 ATAGATCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (21 bp):
AAGGGGATCATTCTTTGGTCA
Found at i:1334751 original size:20 final size:22
Alignment explanation
Indices: 1334706--1334752 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1334696 ATGAAAATAA
*
1334706 TTTTAAATATTAAAATTATTAT
1 TTTTAAATATTAAAATTATGAT
1334728 TTTTAAATATT-AAA-TATGAT
1 TTTTAAATATTAAAATTATGAT
1334748 TTTTA
1 TTTTA
1334753 GGTTTAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 3 0.12
22 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAAATATTAAAATTATGAT
Found at i:1338324 original size:16 final size:15
Alignment explanation
Indices: 1338294--1338343 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1338284 TTAGAATAAA
*
1338294 TAAAAATTAAGAAAT
1 TAAAAATTAAAAAAT
1338309 TAAAATATTAAAAAA-
1 TAAAA-ATTAAAAAAT
* *
1338324 TAAACA-TAAAATAT
1 TAAAAATTAAAAAAT
1338338 TAAAAA
1 TAAAAA
1338344 CACTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 9 0.31
16 8 0.28
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (15 bp):
TAAAAATTAAAAAAT
Found at i:1339456 original size:37 final size:37
Alignment explanation
Indices: 1339406--1339508 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
1339396 CAAAATTTTG
* *
1339406 TCTCGTTTGAGACAGTTTCTCTCGAAACAAAGTTTCA
1 TCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTCA
**
1339443 TCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTTG
1 TCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTCA
* *
1339480 TCTCTCTTGAGACGGTTTCTCTTGAAACA
1 TCTCGCTTGAGACAGTTTCTCTTGAAACA
1339509 TAAATAATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (37 bp):
TCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTTTCA
Found at i:1339639 original size:40 final size:41
Alignment explanation
Indices: 1339594--1339695 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 41
1339584 ATGGCTAGAA
* *
1339594 TTCCTCATCACGTAGGAACAATGTCGTCCACTG-ACCAGA-
1 TTCCTCATCACGTAGGAACAACGTCATCCACTGTACCAGAC
* * * *
1339633 TCTCCTCATCATGTAGGAGCAGCGTCATCCTCTGTTAACCAGAC
1 T-TCCTCATCACGTAGGAACAACGTCATCCACTG-T-ACCAGAC
1339677 TTCCTCATCACGTAGGAAC
1 TTCCTCATCACGTAGGAAC
1339696 CGTGTTATCC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 26 0.52
43 22 0.44
44 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (41 bp):
TTCCTCATCACGTAGGAACAACGTCATCCACTGTACCAGAC
Found at i:1339929 original size:140 final size:140
Alignment explanation
Indices: 1339568--1339991 Score: 564
Period size: 140 Copynumber: 3.0 Consensus size: 140
1339558 CAACTTGAAA
* * *
1339568 CAAATTATCTCTAAAGATGGCTAGAA-TTCCTCATCACGTAGGAACAATGTCGTCCACTGACCAG
1 CAAATTATCCCTAAAGATGGCTA-AACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAG
* * *
1339632 ATCTCCTCATCATGTAGGAGCAGCGTCATCCTCTGTTAACCAGACTTCCTCATCACGTAGGAACC
65 ATCTCCTCATCATGTAGGAGCAGTGTCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACC
*
1339697 GTGTTATC-CC
130 GTGTTGTCTCC
* * * * * **
1339707 CAATTTATCCCTAAAGATAGCTAGACGTCCTCATCATGTAGGAACAATGTCATCCACCGATAAGA
1 CAAATTATCCCTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGA
** * *
1339772 TCTCCTCATCACATAGGAGTAGTTTCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCG
66 TCTCCTCATCATGTAGGAGCAGTGTCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCG
1339837 TGTTGTCTCC
131 TGTTGTCTCC
* * * *
1339847 CAAATTATCCCTATAGACGGCTAAACGTCCTCATCACGTAGGAACAATGTTGTCCACCAACCAGA
1 CAAATTATCCCTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGA
* * * * * *
1339912 TCTCCTAATCGTGTAGGAGCAGTGTCATCCTTAGACAATCAGACTTCCTCATCATGTAGGAACCG
66 TCTCCTCATCATGTAGGAGCAGTGTCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCG
1339977 TGTTGTCTCC
131 TGTTGTCTCC
*
1339987 AAAAT
1 CAAAT
1339992 CATCTCCAAA
Statistics
Matches: 243, Mismatches: 40, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
138 1 0.00
139 117 0.48
140 125 0.51
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (140 bp):
CAAATTATCCCTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACCAGA
TCTCCTCATCATGTAGGAGCAGTGTCATCCTCAGATAACCAGACTTCCTCATCACGTAGGAACCG
TGTTGTCTCC
Found at i:1340240 original size:3 final size:3
Alignment explanation
Indices: 1340232--1340281 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
1340222 TTTAATTGTC
1340232 TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1340278 TAT T
1 TAT T
1340282 TCATGTTACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1340847 original size:16 final size:15
Alignment explanation
Indices: 1340815--1340848 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1340805 TCGAACCAAA
*
1340815 AAAAAAACTAAAGTG
1 AAAAAAACTAAAATG
1340830 AAAAAAACTAAAAATG
1 AAAAAAACT-AAAATG
1340846 AAA
1 AAA
1340849 CGGGAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAAAACTAAAATG
Found at i:1341778 original size:2 final size:2
Alignment explanation
Indices: 1341771--1341844 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
1341761 TTCATGTATG
1341771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1341813 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
1341845 AACCATTGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1342195 original size:21 final size:22
Alignment explanation
Indices: 1342171--1342214 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1342161 TAAATAATTT
1342171 AATATT-TTTTAAAAAAGAGAA
1 AATATTCTTTTAAAAAAGAGAA
* *
1342192 AATATTCTTTTACAAATGAGAA
1 AATATTCTTTTAAAAAAGAGAA
1342214 A
1 A
1342215 TAGTGAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (22 bp):
AATATTCTTTTAAAAAAGAGAA
Found at i:1342691 original size:8 final size:8
Alignment explanation
Indices: 1342678--1342717 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
1342668 AGGTTGGATG
1342678 TTTTGAAA
1 TTTTGAAA
*
1342686 TTTTGAAG
1 TTTTGAAA
1342694 TTTTGAAA
1 TTTTGAAA
*
1342702 TTTTGAAG
1 TTTTGAAA
1342710 TTTTGAAA
1 TTTTGAAA
1342718 GTCCAAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (8 bp):
TTTTGAAA
Found at i:1342691 original size:24 final size:24
Alignment explanation
Indices: 1342663--1342716 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1342653 TATTAAATTG
**
1342663 TTTGAAGGTTGGATGTTTTGAAAT
1 TTTGAAGGTTGGAAATTTTGAAAT
* * *
1342687 TTTGAAGTTTTGAAATTTTGAAGT
1 TTTGAAGGTTGGAAATTTTGAAAT
1342711 TTTGAA
1 TTTGAA
1342717 AGTCCAAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (24 bp):
TTTGAAGGTTGGAAATTTTGAAAT
Found at i:1342696 original size:16 final size:16
Alignment explanation
Indices: 1342677--1342717 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
1342667 AAGGTTGGAT
1342677 GTTTTGAAATTTTGAA
1 GTTTTGAAATTTTGAA
1342693 GTTTTGAAATTTTGAA
1 GTTTTGAAATTTTGAA
1342709 GTTTTGAAA
1 GTTTTGAAA
1342718 GTCCAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (16 bp):
GTTTTGAAATTTTGAA
Found at i:1343377 original size:10 final size:10
Alignment explanation
Indices: 1343345--1343389 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
1343335 TAAACAAAAG
1343345 AATAATAAAT
1 AATAATAAAT
* *
1343355 ACTATTAAAT
1 AATAATAAAT
*
1343365 AATAATAATT
1 AATAATAAAT
*
1343375 AATAATAAAA
1 AATAATAAAT
1343385 AATAA
1 AATAA
1343390 ATATTCTAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAATAAAT
Found at i:1343383 original size:20 final size:20
Alignment explanation
Indices: 1343329--1343389 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1343319 GTAGTAACTA
*
1343329 AAATAATAAACAAAAGAATAAT
1 AAATAAT-AATAAAA-AATAAT
* * *
1343351 AAATACTATTAAATAATAAT
1 AAATAATAATAAAAAATAAT
*
1343371 AATTAATAATAAAAAATAA
1 AAATAATAATAAAAAATAA
1343390 ATATTCTAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 21 0.68
21 4 0.13
22 6 0.19
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAATAATAAAAAATAAT
Found at i:1343989 original size:12 final size:12
Alignment explanation
Indices: 1343972--1343996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1343962 TTCTCTGATA
1343972 TGCAGTAAGATG
1 TGCAGTAAGATG
1343984 TGCAGTAAGATG
1 TGCAGTAAGATG
1343996 T
1 T
1343997 TCCACGTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TGCAGTAAGATG
Found at i:1344263 original size:13 final size:13
Alignment explanation
Indices: 1344247--1344287 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1344237 TATTTTATAG
1344247 TATATATTATAAT
1 TATATATTATAAT
*
1344260 TATAT-TTAATTAT
1 TATATATT-ATAAT
1344273 TATATATTATAAT
1 TATATATTATAAT
1344286 TA
1 TA
1344288 ACTTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATTATAAT
Found at i:1344954 original size:24 final size:23
Alignment explanation
Indices: 1344910--1344954 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1344900 TTTTTCGAAG
* * *
1344910 ATTTAAAATCAAAATAGGAATTC
1 ATTTAAAAACAAAAAAAGAATTC
1344933 ATTTAAAAACTAAAAAAAGAAT
1 ATTTAAAAAC-AAAAAAAGAAT
1344955 AGTTTGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (23 bp):
ATTTAAAAACAAAAAAAGAATTC
Found at i:1353470 original size:29 final size:31
Alignment explanation
Indices: 1353433--1353497 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
1353423 AAATTTAAAA
* *
1353433 TTTTAAAAAATTTA-CAGGTTTAAATTA-TT
1 TTTTTAAAAATTTAGAAGGTTTAAATTACTT
* *
1353462 TTTTTAAAATTTTAGAAGGTTTATATTACTT
1 TTTTTAAAAATTTAGAAGGTTTAAATTACTT
1353493 TTTTT
1 TTTTT
1353498 TTAAGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.40
30 11 0.37
31 7 0.23
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
TTTTTAAAAATTTAGAAGGTTTAAATTACTT
Found at i:1356428 original size:34 final size:34
Alignment explanation
Indices: 1356385--1356453 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
1356375 CCTCTACCAT
1356385 TAACAACTATTACTGGAATAATAGAATGCTAATG
1 TAACAACTATTACTGGAATAATAGAATGCTAATG
1356419 TAACAACTATTACTGGAATAATAGAATGCTAATG
1 TAACAACTATTACTGGAATAATAGAATGCTAATG
1356453 T
1 T
1356454 GGCACGTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (34 bp):
TAACAACTATTACTGGAATAATAGAATGCTAATG
Found at i:1363606 original size:16 final size:16
Alignment explanation
Indices: 1363585--1363629 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
1363575 GATATCACTC
* *
1363585 CACTCAATTCTTTTAT
1 CACTCAAATCTCTTAT
1363601 CACTCAAATCTCTTAT
1 CACTCAAATCTCTTAT
1363617 CACTCAAATCTCT
1 CACTCAAATCTCT
1363630 CTTGTAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (16 bp):
CACTCAAATCTCTTAT
Found at i:1364727 original size:20 final size:19
Alignment explanation
Indices: 1364694--1364737 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1364684 CCTTGAAATG
*
1364694 CATGCTTTTAATGAAGTTT
1 CATGCTTTTAATGAAGATT
*
1364713 CATGACTTTTGATGAAGATT
1 CATG-CTTTTAATGAAGATT
1364733 CATGC
1 CATGC
1364738 CTTAGGCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (19 bp):
CATGCTTTTAATGAAGATT
Found at i:1382003 original size:46 final size:45
Alignment explanation
Indices: 1381953--1382440 Score: 445
Period size: 46 Copynumber: 10.7 Consensus size: 45
1381943 TTAGTAATTC
* * * *
1381953 TTCATTACTTTCAGTTATGACCTCTTTTCATGCCTTAATACATCCG
1 TTCA-TACTTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* * * *
1381999 TTCATACATTTTAGTTATGGCATCCTTTCTTGCCTTAATGAATCCA
1 TTCATAC-TTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* * * *
1382045 TTCAT-GTATTCTAGTTATGTCATCCTTTCATGCCTTAATGCATTCA
1 TTCATACT-TTC-AGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* *
1382091 TGC--AGTTT-AGTTATGGCATCCTTTCATGCCTTAATGCA-CCTG
1 TTCATACTTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCC-G
* *
1382133 TTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
1 TTCATACTTTC-AGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* * * * *
1382179 TTCATGCATTTTAGTTATGGCATCTTTTCATACCTTAATGAAT-C-
1 TTCATAC-TTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* *
1382223 TATCGAT-GTATTCTATTTATGGCATCCTTTCATGCCTTAATGCATCCG
1 T-TC-ATACT-TTC-AGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* * *
1382271 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCAACCG
1 TTCATAC-TTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* *
1382317 TTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
1 TTCATACTTTC-AGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* * * * *
1382363 TTCATGCATTTTAGTTATGGCATCCTTCCATGACTTAATGCATCTG
1 TTCATAC-TTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
* * *
1382409 TTCATTCATTAT-AGTTATGGCATTCGTTCATG
1 TTCATAC-TT-TCAGTTATGGCATCCTTTCATG
1382441 TATTATAGTT
Statistics
Matches: 371, Mismatches: 49, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.00
42 31 0.08
44 7 0.02
45 14 0.04
46 304 0.82
47 12 0.03
48 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (45 bp):
TTCATACTTTCAGTTATGGCATCCTTTCATGCCTTAATGCATCCG
Found at i:1382208 original size:26 final size:25
Alignment explanation
Indices: 1382087--1382465 Score: 177
Period size: 26 Copynumber: 16.2 Consensus size: 25
1382077 CCTTAATGCA
1382087 TTCATGCAGTTTAGTTATGGCATCCT
1 TTCATGCA-TTTAGTTATGGCATCCT
*
1382113 TTCATGC-CTTA---AT-GCA-CCT
1 TTCATGCATTTAGTTATGGCATCCT
1382132 GTTCATGCATTCTAGTTATGGCATCCT
1 -TTCATGCATT-TAGTTATGGCATCCT
* *
1382159 TTCATGC-CTTA---AT-GCATCCG
1 TTCATGCATTTAGTTATGGCATCCT
*
1382179 TTCATGCATTTTAGTTATGGCATCTT
1 TTCATGCA-TTTAGTTATGGCATCCT
* * *
1382205 TTCATAC-CTTA---AT-GAAT-CT
1 TTCATGCATTTAGTTATGGCATCCT
* * *
1382224 ATCGATGTATTCTATTTATGGCATCCT
1 TTC-ATGCATT-TAGTTATGGCATCCT
* *
1382251 TTCATGC-CTTA---AT-GCATCCG
1 TTCATGCATTTAGTTATGGCATCCT
1382271 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGCA-TTTAGTTATGGCATCCT
* * *
1382297 TTCATGC-CTTA---AT-GCAACCG
1 TTCATGCATTTAGTTATGGCATCCT
1382317 TTCATGCATTCTAGTTATGGCATCCT
1 TTCATGCATT-TAGTTATGGCATCCT
* *
1382343 TTCATGC-CTTA---AT-GCATCCG
1 TTCATGCATTTAGTTATGGCATCCT
1382363 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGCA-TTTAGTTATGGCATCCT
* *
1382389 TCCATG-ACTTA---AT-GCAT-CT
1 TTCATGCATTTAGTTATGGCATCCT
* * *
1382408 GTTCATTCATTATAGTTATGGCATTCG
1 -TTCATGCATT-TAGTTATGGCATCCT
*
1382435 TTCATGTATTATAGTTATGGCATCCT
1 TTCATGCATT-TAGTTATGGCATCCT
1382461 TTCAT
1 TTCAT
1382466 ACCTTAATGC
Statistics
Matches: 263, Mismatches: 42, Indels: 96
0.66 0.10 0.24
Matches are distributed among these distances:
19 8 0.03
20 74 0.28
21 19 0.07
22 17 0.06
24 18 0.07
25 18 0.07
26 101 0.38
27 8 0.03
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (25 bp):
TTCATGCATTTAGTTATGGCATCCT
Found at i:1382236 original size:92 final size:91
Alignment explanation
Indices: 1381978--1382440 Score: 623
Period size: 92 Copynumber: 5.1 Consensus size: 91
1381968 TATGACCTCT
* * *
1381978 TTTCATGCCTTAATACATCCGTTCATACATTTTAGTTATGGCATCCTTTCTTGCCTTAATGAATC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAA-C
* *
1382043 C-ATTCATGTATTCTAGTTATGTCATCC
65 CTA-TCATGCATTCTAGTTATGGCATCC
* *
1382070 TTTCATGCCTTAATGCA----TTCATGCAGTTTAGTTATGGCATCCTTTCATGCCTTAATGCACC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAACC
*
1382131 TGTTCATGCATTCTAGTTATGGCATCC
66 T-ATCATGCATTCTAGTTATGGCATCC
* * *
1382158 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCTTTTCATACCTTAATGAATC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAACC
* *
1382223 TATCGATGTATTCTATTTATGGCATCC
66 TATC-ATGCATTCTAGTTATGGCATCC
1382250 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCAAC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATG-AAC
1382315 CGT-TCATGCATTCTAGTTATGGCATCC
65 C-TATCATGCATTCTAGTTATGGCATCC
* * * *
1382342 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTCCATGACTTAATGCATC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAACC
* * * *
1382407 TGTTCATTCATTATAGTTATGGCATTC
66 T-ATCATGCATTCTAGTTATGGCATCC
*
1382434 GTTCATG
1 TTTCATG
1382441 TATTATAGTT
Statistics
Matches: 331, Mismatches: 29, Indels: 22
0.87 0.08 0.06
Matches are distributed among these distances:
87 2 0.01
88 77 0.23
90 1 0.00
91 4 0.01
92 241 0.73
93 5 0.02
94 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (91 bp):
TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGAACC
TATCATGCATTCTAGTTATGGCATCC
Found at i:1382295 original size:138 final size:135
Alignment explanation
Indices: 1381978--1382440 Score: 635
Period size: 138 Copynumber: 3.4 Consensus size: 135
1381968 TATGACCTCT
* * * *
1381978 TTTCATGCCTTAATACATCCGTTCATACATTTTAGTTATGGCATCCTTTCTTGCCTTAATGAATC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
1382043 CATTCATGTATTCTAGTTATGTCATCCTTTCATGCCTTAATGCA--TTCATGCAGTTTAGTTATG
66 CGTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTCATGCA-TTTAGTTATG
1382106 GCATCC
130 GCATCC
*
1382112 TTTCATGCCTTAATGCA-CCTGTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCAT
1 TTTCATGCCTTAATGCATCC-GTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCAT
* * * * * *
1382176 CCGTTCATGCATTTTAGTTATGGCATCTTTTCATACCTTAATGAATCTATCGATGTATTCTATTT
65 CCGTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCT-TC-ATGCATT-TAGTT
1382241 ATGGCATCC
127 ATGGCATCC
*
1382250 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCAAC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
1382315 CGTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
66 CGTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCAT-C-TTCATGCA-TTTAGTTA
1382380 TGGCATCC
128 TGGCATCC
* * * * * * *
1382388 TTCCATGACTTAATGCATCTGTTCATTCATTATAGTTATGGCATTCGTTCATG
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATG
1382441 TATTATAGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
133 2 0.01
134 94 0.32
136 1 0.00
137 4 0.01
138 181 0.62
139 7 0.02
140 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (135 bp):
TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
CGTTCATGCATTCTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTCATGCATTTAGTTATGG
CATCC
Found at i:1382450 original size:72 final size:72
Alignment explanation
Indices: 1382356--1382499 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
1382346 ATGCCTTAAT
* *
1382356 GCATCCGTTCATGCATTTTAGTTATGGCATCCTTCCATGA-CTTAATGCATCTGTTCATTCATTA
1 GCATCCGTTCATGCATTATAGTTATGGCATCCTTCCAT-ACCTTAATGCATCTGTTCATGCATTA
1382420 TAGTTATG
65 TAGTTATG
* * * * *
1382428 GCATTCGTTCATGTATTATAGTTATGGCATCCTTTCATACCTTAATGCATTTGTTCATGCATTTT
1 GCATCCGTTCATGCATTATAGTTATGGCATCCTTCCATACCTTAATGCATCTGTTCATGCATTAT
1382493 AGTTATG
66 AGTTATG
1382500 AATTCGATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (72 bp):
GCATCCGTTCATGCATTATAGTTATGGCATCCTTCCATACCTTAATGCATCTGTTCATGCATTAT
AGTTATG
Found at i:1385076 original size:164 final size:165
Alignment explanation
Indices: 1384805--1385133 Score: 651
Period size: 164 Copynumber: 2.0 Consensus size: 165
1384795 TATCAAAATG
1384805 CAAAGTCTTCCCCGATAATATAGACATCCATCCAGTCTTATTTTGAAGTCTTTGGTCTCATTCTT
1 CAAAGTCTTCCCCGATAATATAGACATCCATCCAGTCTTATTTTGAAGTCTTTGGTCTCATTCTT
1384870 TTTGACTTGTGCCATTCTCGCCAAGCATTTCTCATCTTGACTTTGTAGCACTTTTGTTCGATCT-
66 TTTGACTTGTGCCATTCTCGCCAAGCATTTCTCATCTTGACTTTGTAGCACTTTTGTTCGATCTA
1384934 AAAACATCGACTTTAACTTAAGCTTAGCAATCAAA
131 AAAACATCGACTTTAACTTAAGCTTAGCAATCAAA
1384969 CAAAGTCTTCCCCGATAATATAGACATCCATCCAGTCTTATTTTGAAGTCTTTGGTCTCATTCTT
1 CAAAGTCTTCCCCGATAATATAGACATCCATCCAGTCTTATTTTGAAGTCTTTGGTCTCATTCTT
1385034 TTTGACTTGTGCCATTCTCGCCAAGCATTTCTCATCTTGACTTTGTAGCACTTTTGTTCGATCTA
66 TTTGACTTGTGCCATTCTCGCCAAGCATTTCTCATCTTGACTTTGTAGCACTTTTGTTCGATCTA
1385099 AAAACATCGACTTTAACTTAAGCTTAGCAATCAAA
131 AAAACATCGACTTTAACTTAAGCTTAGCAATCAAA
1385134 ACTCAATCTT
Statistics
Matches: 164, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 129 0.79
165 35 0.21
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.38
Consensus pattern (165 bp):
CAAAGTCTTCCCCGATAATATAGACATCCATCCAGTCTTATTTTGAAGTCTTTGGTCTCATTCTT
TTTGACTTGTGCCATTCTCGCCAAGCATTTCTCATCTTGACTTTGTAGCACTTTTGTTCGATCTA
AAAACATCGACTTTAACTTAAGCTTAGCAATCAAA
Found at i:1387101 original size:21 final size:21
Alignment explanation
Indices: 1387075--1387124 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1387065 CATGATTCTC
* *
1387075 TTGTCTCTGCATCGAATCTGA
1 TTGTCTCCGCATCGAATCTAA
1387096 TTGTCTCCGCATCGAATCTAA
1 TTGTCTCCGCATCGAATCTAA
1387117 TTGTCTCC
1 TTGTCTCC
1387125 TGGATCTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (21 bp):
TTGTCTCCGCATCGAATCTAA
Done.