Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 26
Found at i:5007256 original size:6 final size:6
Alignment explanation
Indices: 5007245--5007478 Score: 84
Period size: 6 Copynumber: 38.7 Consensus size: 6
5007235 CATTATAAAG
5007245 TATATA TATATA TATATA TATATA TATATA TA-ACTA TA-AGTA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATA-TA TATA-TA TATATA
* * *
5007293 AAGTATA AAGTCTA TATATA TATA-A TATA-A TATA-A GTATAT- TATA-A
1 TA-TATA TA-TATA TATATA TATATA TATATA TATATA -TATATA TATATA
* * * * *
5007339 GTATATA TATAAA CTATAAA GTATATA CTTTATA CTA-AAA CTTTATA
1 -TATATA TATATA -TATATA -TATATA -TATATA -TATATA -TATATA
* * * *
5007386 TATAT- TATATA CTTTATA T-TATA TATAAA GT-TTTA GTATAAA GTATATA
1 TATATA TATATA -TATATA TATATA TATATA -TATATA -TATATA -TATATA
* *
5007435 TACATA TATA-A TA-ATA TAAAGTA TA-AGTA TAT-TA TATATA TATA
1 TATATA TATATA TATATA TATA-TA TATA-TA TATATA TATATA TATA
5007479 AAGTATAATT
Statistics
Matches: 184, Mismatches: 24, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
4 1 0.01
5 37 0.20
6 95 0.52
7 51 0.28
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:5007268 original size:18 final size:18
Alignment explanation
Indices: 5005980--5007478 Score: 598
Period size: 18 Copynumber: 83.4 Consensus size: 18
5005970 AATTATAATG
* * *
5005980 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5005998 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006016 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006034 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006052 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006070 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006088 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006106 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006124 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006142 TATATGTATGTATATGTA
1 TATATATATATATATATA
* * *
5006160 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006178 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006196 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006214 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006232 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006250 TATGTA-ATGTATATATG
1 TATATATATATATATATA
* * *
5006267 TATATGTATGTATATGTA
1 TATATATATATATATATA
* * *
5006285 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006303 TATGTATGTATATGTATA
1 TATATATATATATATATA
* * *
5006321 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * * *
5006339 TGTATATGTATGTATATG
1 TATATATATATATATATA
* * *
5006357 TATATGTATATGTATGTA
1 TATATATATATATATATA
* * *
5006375 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006393 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006411 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006429 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006447 TATGTATGTATATGTATA
1 TATATATATATATATATA
* * *
5006465 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * *
5006483 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * *
5006501 GTATATGTATATGTATATG
1 -TATATATATATATATATA
* * *
5006520 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006538 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006556 TATATGTATGTATATGTA
1 TATATATATATATATATA
* * *
5006574 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006592 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006610 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006628 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006646 TATGTATATATGTATATG
1 TATATATATATATATATA
* * *
5006664 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006682 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006700 TATATGTATGTATATGTA
1 TATATATATATATATATA
* * *
5006718 TATGTATATGTATGTATA
1 TATATATATATATATATA
* * *
5006736 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * *
5006754 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * *
5006772 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * * *
5006790 TGTATATGTATATGTATG
1 TATATATATATATATATA
* * *
5006808 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006826 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006844 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5006862 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * * *
5006880 TGTATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006898 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006916 TATATGTATATGTATATG
1 TATATATATATATATATA
* * *
5006934 TATATGTATATGTATGTA
1 TATATATATATATATATA
* * *
5006952 TATGTATATGTATGTATA
1 TATATATATATATATATA
* * *
5006970 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * *
5006988 TGTATATATGTATATGTA
1 TATATATATATATATATA
* * *
5007006 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5007024 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5007042 TATGTATATGTATATGTA
1 TATATATATATATATATA
* * *
5007060 TATGTATGTATATGTATA
1 TATATATATATATATATA
* * * *
5007078 TGTATATGTATGTATATG
1 TATATATATATATATATA
* *
5007096 TATATGTATGTATATATA
1 TATATATATATATATATA
* * *
5007114 TGTATATGTATATGTATA
1 TATATATATATATATATA
* * * *
5007132 TGTATATGTATATGTATG
1 TATATATATATATATATA
* * *
5007150 TATATGTATGTATATGTA
1 TATATATATATATATATA
* *
5007168 -ATATATGTATATGATGTA
1 TATATATATATAT-ATATA
** *
5007186 TATA-ATATGCATGTATA
1 TATATATATATATATATA
* *
5007203 TATA-ATGTACAT-TATA
1 TATATATATATATATATA
**
5007219 CT-TATGCATAT-TA-ATA
1 -TATATATATATATATATA
* *
5007235 CAT-TATAAAGTATATATA
1 TATATATATA-TATATATA
5007253 TATATATATATATATATA
1 TATATATATATATATATA
5007271 TATATA-ACTATA-AGTATA
1 TATATATA-TATATA-TATA
* * *
5007289 TATAAAGTATAAAGTCTATA
1 TATATA-TATATA-TATATA
5007309 TATATATA-ATATA-ATA
1 TATATATATATATATATA
5007325 TA-AGTATAT-TATA-AGTA
1 TATA-TATATATATATA-TA
* *
5007342 TATATATAAACTATAAAGTA
1 TATATATATA-TATATA-TA
* * *
5007362 TATACTTTATACTA-AAACTT
1 TATA-TATATA-TATATA-TA
*
5007382 TATATATAT-TATATACTT
1 TATATATATATATATA-TA
*
5007400 TATAT-TATATATAAAGT-
1 TATATATATATATATA-TA
* *
5007417 TTTAGTATAAAGTATATATA
1 TATA-TATATA-TATATATA
*
5007437 CATATATA-ATA-ATATA
1 TATATATATATATATATA
*
5007453 AAGTATA-AGTATAT-TATA
1 TA-TATATA-TATATATATA
5007471 TATATATA
1 TATATATA
5007479 AAGTATAATT
Statistics
Matches: 1264, Mismatches: 180, Indels: 74
0.83 0.12 0.05
Matches are distributed among these distances:
15 4 0.00
16 33 0.03
17 69 0.05
18 1077 0.85
19 41 0.03
20 33 0.03
21 7 0.01
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (18 bp):
TATATATATATATATATA
Found at i:5007475 original size:142 final size:139
Alignment explanation
Indices: 5007329--5008022 Score: 444
Period size: 142 Copynumber: 5.1 Consensus size: 139
5007319 ATAATATAAG
* *
5007329 TATATTATAAGTATATA-TATAAACTATAAAGTATATACTTTATACTAAAACTTTATATATATTA
1 TATATTATAAGTATATAGTATAAA-TATAAAGTATATA-TATATACT-AAACTATATATATA-TA
***
5007393 TATACTTTATATTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTA
62 TATAAAGTATATTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTA
*
5007458 TAAGTATATTATA
127 TAAGTATAGTATA
* * ** * *
5007471 TATA-TATAAAGTATA-ATTGTAAGGACTAAAGTATATAAATATATAATATAACGTATATA-A-G
1 TATATTAT-AAGTATATAGTATAAATA-TAAAGTATAT--ATATATACTA-AAC-TATATATATA
** *
5007532 TATATAAAGTATATATATATATAAAGTTTTAGTATAAAGTATATATAGGTATATAATAATATAAT
60 TATATAAAGTATAT-TATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAA
5007597 GTAT-A-TA-AGTAT-
124 GTATAAGTATAGTATA
* * * *
5007609 TA-AGTATAAGTATATAAGTATTAAATATAAAATATATA-AGTATAC--AAGTATATATATAAAC
1 TATATTATAAGTATAT-AGTA-TAAATATAAAGTATATATA-TATACTAAACTATATATATATA-
* *
5007670 TATAAAGTATA-TATCTATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAACTA
62 TATAAAGTATATTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTA
5007734 TAAGTATAAGTATAA
127 TAAGTAT-AGTAT-A
* * * *
5007749 GTATATTAT-A-TATATA-TA-AAATAT-AA-T-TATA-A-AGACTAAAGTATACA-A-GTATAT
1 -TATATTATAAGTATATAGTATAAATATAAAGTATATATATATACTAAACTATATATATATATAT
** * * * * *
5007803 AAA-TATAAAATATATAAACGTATATAATAATATAAAGTAGATA-A-GTACATAACAA-A-AAA-
65 AAAGTATATTATATATAAA-GT-T-T--TAGTATAAAGTATATATACATATATAATAATATAAAG
*
5007862 TAT-A-TA-AGCAT-
125 TATAAGTATAGTATA
* * * * * *
5007873 TA-AATATAAATATATAAGTATTAAAGATTAAGTATATAAGTATATATATAAACTATA-A-AGTG
1 TATATTATAAGTATAT-AGTA-TAAATATAAAGTATAT-A-TATATA-CTAAACTATATATA-TA
* * * *
5007935 TGTATATA-CATA-TATATATAAAGTTTTAGTATGAAGTATATATACATATATAATAATATAAAG
60 TATATAAAGTATATTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAG
5007998 TATAAGTATA-TATA
125 TATAAGTATAGTATA
5008012 TATAATTATAA
1 TAT-ATTATAA
5008023 ATAATAAAGT
Statistics
Matches: 435, Mismatches: 58, Indels: 119
0.71 0.09 0.19
Matches are distributed among these distances:
122 4 0.01
123 3 0.01
124 5 0.01
125 1 0.00
126 6 0.01
128 7 0.02
129 7 0.02
130 18 0.04
131 25 0.06
132 5 0.01
133 37 0.09
134 57 0.13
135 27 0.06
136 40 0.09
137 24 0.06
138 16 0.04
139 19 0.04
140 11 0.03
141 26 0.06
142 81 0.19
143 10 0.02
144 6 0.01
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (139 bp):
TATATTATAAGTATATAGTATAAATATAAAGTATATATATATACTAAACTATATATATATATATA
AAGTATATTATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAAG
TATAGTATA
Found at i:5007479 original size:26 final size:28
Alignment explanation
Indices: 5007422--5007601 Score: 90
Period size: 30 Copynumber: 6.4 Consensus size: 28
5007412 AAAGTTTTAG
5007422 TATAAAGTAT-ATATACATATATAATAA
1 TATAAAGTATAATATACATATATAATAA
*
5007449 TATAAAGTATAAGTATA-TTATAT-AT-A
1 TATAAAGTATAA-TATACATATATAATAA
* *
5007475 TATAAAGTATAATTGTA-AGGACTA-AAGT-A
1 TATAAAGTATAA-TATACA-TA-TATAA-TAA
* *
5007504 TATAAATATATAATATAACGTATATAAGT-A
1 TATAAA-GTATAATAT-ACATATATAA-TAA
* * ** *
5007534 TATAAAGTATATATATATATAAAGTTTTAG
1 TATAAAGTATA-ATATACATATA-TAATAA
**
5007564 TATAAAGTAT-ATATAGGTATATAATAA
1 TATAAAGTATAATATACATATATAATAA
*
5007591 TATAATGTATA
1 TATAAAGTATA
5007602 TAAGTATTAA
Statistics
Matches: 116, Mismatches: 23, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
26 16 0.14
27 25 0.22
28 17 0.15
29 25 0.22
30 33 0.28
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (28 bp):
TATAAAGTATAATATACATATATAATAA
Found at i:5007533 original size:30 final size:30
Alignment explanation
Indices: 5007499--5008059 Score: 175
Period size: 30 Copynumber: 18.0 Consensus size: 30
5007489 GTAAGGACTA
*
5007499 AAGTATATAAATATATAATATAACGTATAT
1 AAGTATATAAATATATAATATAAAGTATAT
5007529 AAGTATATAAAGTATATATATATATAAAGT-T-T
1 AAGTATAT-AA--ATATATA-ATATAAAGTATAT
* *
5007561 TAGTATA-AAGTATATATAGGTATATAA-TAATAT
1 AAGTATATAA--ATATATA-ATATA-AAGT-ATAT
*
5007594 AATGTATATAAGTAT-TAAGTAT-AAGTATAT
1 AA-GTATATAAATATATAA-TATAAAGTATAT
* *
5007624 AAGTAT-TAAATATAAAATATATAAGTATAC
1 AAGTATATAAATATATAATATA-AAGTATAT
5007654 AAGTATAT--ATATA-AACTATAAAGTATAT
1 AAGTATATAAATATATAA-TATAAAGTATAT
* * *
5007682 -A-TCTATAAAGT-TTTAGTATAAAGTATAT
1 AAGTATATAAA-TATATAATATAAAGTATAT
*
5007710 ATA-CATATATAATAATATAA-ACTATAAG--TAT
1 A-AGTATATA-AAT-ATATAATA-TA-AAGTATAT
*
5007741 AAGTATAAGTATATTATATATATATAAA--ATAT
1 AAGTAT-A-TA-AATATATA-ATATAAAGTATAT
*
5007773 AA-T-TATAAAGACTA-AAGTATACAAGTATAT
1 AAGTATATAAATA-TATAA-TATA-AAGTATAT
*
5007803 AAATATA-AAATATATAAACGTATATAA-TAATAT
1 AAGTATATAAATATAT-AA--TATA-AAGT-ATAT
* * * * * *
5007836 AAAGTAGATAAGTACATAACAAAAAATATAT
1 -AAGTATATAAATATATAATATAAAGTATAT
5007867 AAGCATTAAATATAAATATATAAGTATTAAAG-AT-T
1 AAG---T--ATATAAATATATAA-TA-TAAAGTATAT
* *
5007902 AAGTATATAAGTATAT-ATATAAACTATA-
1 AAGTATATAAATATATAATATAAAGTATAT
*
5007930 AAGTGTGTATATACATATAT-ATATAAAGTTTTAGTAT
1 AA----GTATATAAATATATAATATAAAG---TA-TAT
5007967 GAAGTATATATACATATATAATAATATAA--AGTAT
1 -AAGTATATA-A-ATATATAAT-ATA-AAGTA-TAT
5008001 AAGTATAT--ATATATAATTATAAA-TA-AT
1 AAGTATATAAATATATAA-TATAAAGTATAT
*
5008028 AAAGTATATAAGTATATAATATAAAGTATAT
1 -AAGTATATAAATATATAATATAAAGTATAT
5008059 A
1 A
5008060 TATACTTTAT
Statistics
Matches: 409, Mismatches: 43, Indels: 158
0.67 0.07 0.26
Matches are distributed among these distances:
26 5 0.01
27 14 0.03
28 54 0.13
29 37 0.09
30 86 0.21
31 29 0.07
32 59 0.14
33 44 0.11
34 33 0.08
35 25 0.06
36 11 0.03
37 5 0.01
38 5 0.01
39 2 0.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (30 bp):
AAGTATATAAATATATAATATAAAGTATAT
Found at i:5007608 original size:8 final size:8
Alignment explanation
Indices: 5007499--5008059 Score: 163
Period size: 8 Copynumber: 75.1 Consensus size: 8
5007489 GTAAGGACTA
5007499 AAGTATAT
1 AAGTATAT
*
5007507 AAATATAT
1 AAGTATAT
5007515 AA-TATA-
1 AAGTATAT
*
5007521 ACGTATAT
1 AAGTATAT
5007529 AAGTATAT
1 AAGTATAT
5007537 AAAGTATAT
1 -AAGTATAT
5007546 ATA-TATAT
1 A-AGTATAT
5007554 AAAGT-T-T
1 -AAGTATAT
*
5007561 TAGTATA-
1 AAGTATAT
5007568 AAGTATAT
1 AAGTATAT
5007576 ATAGGTATAT
1 A-A-GTATAT
5007586 AA-TAATAT
1 AAGT-ATAT
5007594 AATGTATAT
1 AA-GTATAT
5007603 AAGTAT-T
1 AAGTATAT
5007610 AAG--TAT
1 AAGTATAT
5007616 AAGTATAT
1 AAGTATAT
5007624 AAGTAT-T
1 AAGTATAT
*
5007631 AAATATA-
1 AAGTATAT
*
5007638 AAATATAT
1 AAGTATAT
*
5007646 AAGTATAC
1 AAGTATAT
5007654 AAGTATAT
1 AAGTATAT
5007662 -A-TATA-
1 AAGTATAT
*
5007667 AACTATA-
1 AAGTATAT
5007674 AAGTATAT
1 AAGTATAT
**
5007682 ATCTATA-
1 AAGTATAT
5007689 AAGT-T-T
1 AAGTATAT
*
5007695 TAGTATA-
1 AAGTATAT
5007702 AAGTATAT
1 AAGTATAT
*
5007710 ATACATATAT
1 A-A-GTATAT
5007720 AA-TAATAT
1 AAGT-ATAT
5007728 AA--ACTAT
1 AAGTA-TAT
5007735 AAG--TAT
1 AAGTATAT
5007741 AAG--TAT
1 AAGTATAT
5007747 AAGTATAT
1 AAGTATAT
5007755 ---TATAT
1 AAGTATAT
5007760 -A-TATAT
1 AAGTATAT
*
5007766 AA-AATAT
1 AAGTATAT
*
5007773 AATTATA-
1 AAGTATAT
5007780 AAG-ACTA-
1 AAGTA-TAT
*
5007787 AAGTATAC
1 AAGTATAT
5007795 AAGTATAT
1 AAGTATAT
*
5007803 AAATATA-
1 AAGTATAT
*
5007810 AAATATAT
1 AAGTATAT
5007818 AAACGTATAT
1 -AA-GTATAT
5007828 AA-TAATAT
1 AAGT-ATAT
*
5007836 AAAGTAGAT
1 -AAGTATAT
*
5007845 AAGTACAT
1 AAGTATAT
* *
5007853 AA-CA-AA
1 AAGTATAT
*
5007859 AAATATAT
1 AAGTATAT
*
5007867 AAGCAT-T
1 AAGTATAT
5007874 AA--ATAT
1 AAGTATAT
*
5007880 AAATATAT
1 AAGTATAT
5007888 AAGTAT-T
1 AAGTATAT
5007895 AAAG-AT-T
1 -AAGTATAT
5007902 AAGTATAT
1 AAGTATAT
5007910 AAGTATAT
1 AAGTATAT
5007918 -A-TATA-
1 AAGTATAT
*
5007923 AACTATA-
1 AAGTATAT
* *
5007930 AAGTGTGT
1 AAGTATAT
*
5007938 ATA-TACAT
1 A-AGTATAT
5007946 ATA-TATAT
1 A-AGTATAT
5007954 AAAGT-T-T
1 -AAGTATAT
* *
5007961 TAGTAT-G
1 AAGTATAT
5007968 AAGTATAT
1 AAGTATAT
*
5007976 ATACATATAT
1 A-A-GTATAT
5007986 AA-TAATAT
1 AAGT-ATAT
5007994 AA--AGTAT
1 AAGTA-TAT
5008001 AAGTATAT
1 AAGTATAT
5008009 -A-TATAT
1 AAGTATAT
5008015 AA-T-TAT
1 AAGTATAT
*
5008021 AAATA-AT
1 AAGTATAT
5008028 AAAGTATAT
1 -AAGTATAT
5008037 AAGTATAT
1 AAGTATAT
5008045 AA-TATA-
1 AAGTATAT
5008051 AAGTATAT
1 AAGTATAT
5008059 A
1 A
5008060 TATACTTTAT
Statistics
Matches: 434, Mismatches: 45, Indels: 148
0.69 0.07 0.24
Matches are distributed among these distances:
5 8 0.02
6 66 0.15
7 131 0.30
8 165 0.38
9 38 0.09
10 26 0.06
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (8 bp):
AAGTATAT
Found at i:5007652 original size:36 final size:35
Alignment explanation
Indices: 5007609--5007692 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 35
5007599 ATATAAGTAT
5007609 TAAGTAT-AAGTATATAAGTATTAAA-TATAAAATATA
1 TAAGTATAAAGTATAT-A-TA-TAAACTATAAAATATA
*
5007645 TAAGTATACAAGTATATATATAAACTATAAAGTATA
1 TAAGTATA-AAGTATATATATAAACTATAAAATATA
**
5007681 TATCTATAAAGT
1 TAAGTATAAAGT
5007693 TTTAGTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 8 0.19
36 25 0.60
37 1 0.02
38 8 0.19
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (35 bp):
TAAGTATAAAGTATATATATAAACTATAAAATATA
Found at i:5007665 original size:22 final size:21
Alignment explanation
Indices: 5007448--5007818 Score: 63
Period size: 20 Copynumber: 18.0 Consensus size: 21
5007438 ATATATAATA
5007448 ATATA-AAGTAT-AAGTATAT
1 ATATATAAGTATAAAGTATAT
5007467 -TATATATA-TATAAAGTATA-
1 ATATATA-AGTATAAAGTATAT
* *
5007486 AT-TGTAAGGACTAAAGTATAT
1 ATATATAAGTA-TAAAGTATAT
*
5007507 AAATATATAA-TATAACGTATAT
1 --ATATATAAGTATAAAGTATAT
*
5007529 A-A-GT-A-TATAAAGTATAT
1 ATATATAAGTATAAAGTATAT
*
5007546 ATATAT----ATAAAGT-TTT
1 ATATATAAGTATAAAGTATAT
*
5007562 AGTATA-AAGTATATATAG-GTAT
1 A-TATATAAGTATA-A-AGTATAT
*
5007584 ATA-ATAA-TATAATGTATAT
1 ATATATAAGTATAAAGTATAT
5007603 AAGTAT-TAAGTATA-AGTATAT
1 -A-TATATAAGTATAAAGTATAT
* *
5007624 AAGTAT-TAAATATAAAATATAT
1 -A-TATATAAGTATAAAGTATAT
* * *
5007646 AAGTATACAAGTATATA-TATAA
1 -A-TATATAAGTATAAAGTATAT
* *
5007668 ACTATA-AAGTATATA-TCTAT
1 A-TATATAAGTATAAAGTATAT
* * *
5007688 AAAGTTTTAGTATAAAGTATAT
1 ATA-TATAAGTATAAAGTATAT
* *
5007710 ATACATATA-TAATAATA-TAAACT
1 ATATATA-AGT-ATAA-AGTATA-T
5007733 ATAAGTATAAGTAT-AAGTATAT
1 AT-A-TATAAGTATAAAGTATAT
*
5007755 -TATATATA-TATAAAATATA-
1 ATATATA-AGTATAAAGTATAT
*
5007774 AT-TATAAAG-ACTAAAGTATACA
1 ATATAT-AAGTA-TAAAGTATA-T
* *
5007796 AGTATATAAATATAAAATATAT
1 A-TATATAAGTATAAAGTATAT
5007818 A
1 A
5007819 AACGTATATA
Statistics
Matches: 263, Mismatches: 39, Indels: 97
0.66 0.10 0.24
Matches are distributed among these distances:
16 3 0.01
17 24 0.09
18 8 0.03
19 27 0.10
20 60 0.23
21 44 0.17
22 52 0.20
23 29 0.11
24 12 0.05
25 4 0.02
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (21 bp):
ATATATAAGTATAAAGTATAT
Found at i:5007689 original size:15 final size:15
Alignment explanation
Indices: 5007669--5007711 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
5007659 TATATATAAA
5007669 CTATAAAGTATATAT
1 CTATAAAGTATATAT
*
5007684 CTATAAAGT-TTTA-
1 CTATAAAGTATATAT
*
5007697 GTATAAAGTATATAT
1 CTATAAAGTATATAT
5007712 ACATATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (15 bp):
CTATAAAGTATATAT
Found at i:5007728 original size:46 final size:46
Alignment explanation
Indices: 5007643--5007809 Score: 171
Period size: 46 Copynumber: 3.5 Consensus size: 46
5007633 ATATAAAATA
* *
5007643 TATAAGTATACAAGTATATATATAAACTATAAAGTATATATCTATAAAG
1 TATAAGTATA-AAGTATATATATATA-TATAAAATATA-ATCTATAAAG
* * * *
5007692 TTTTAGTATAAAGTATATATACATATATAATAATATAAACTAT-AAG
1 TATAAGTATAAAGTATATATATATATATAA-AATATAATCTATAAAG
5007738 TATAAGTAT-AAGTATATTATATATATATAAAATATAAT-TATAAAG
1 TATAAGTATAAAGTATA-TATATATATATAAAATATAATCTATAAAG
*
5007783 -ACTAAAGTATACAAGTATATAAATATA
1 TA-T-AAGTATA-AAGTATATATATATA
5007810 AAATATATAA
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
44 4 0.04
45 18 0.18
46 28 0.28
47 17 0.17
48 25 0.25
49 8 0.08
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (46 bp):
TATAAGTATAAAGTATATATATATATATAAAATATAATCTATAAAG
Found at i:5007846 original size:27 final size:25
Alignment explanation
Indices: 5007797--5007846 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
5007787 AAGTATACAA
*
5007797 GTATATAAATATAAAATATATAAAC
1 GTATATAAATATAAAATAGATAAAC
*
5007822 GTATATAATAATATAAAGTAGATAA
1 GTATAT-A-AATATAAAATAGATAA
5007847 GTACATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 1 0.05
27 14 0.67
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (25 bp):
GTATATAAATATAAAATAGATAAAC
Found at i:5007884 original size:21 final size:21
Alignment explanation
Indices: 5007723--5007933 Score: 98
Period size: 21 Copynumber: 9.8 Consensus size: 21
5007713 CATATATAAT
*
5007723 AATATAAA-CTATAAGTA-TA
1 AATATAAATATATAAGTATTA
* * *
5007742 AGTATAAGTATATTA-TA-TA
1 AATATAAATATATAAGTATTA
* *
5007761 TATATAAA-ATATAATTA-TA
1 AATATAAATATATAAGTATTA
* *
5007780 AAGACTAAAGTATACAAGTATATA
1 AATA-TAAA-TATATAAGTAT-TA
5007804 AATATAAAATATATAAACGTATATAA
1 AATAT-AAATATAT-AA-GTAT-T-A
* *
5007830 TAATATAAAGTAGATAAGTACATA
1 -AATATAAA-TATATAAGTA-TTA
* *
5007854 ACA-AAAAATATATAAGCATTA
1 A-ATATAAATATATAAGTATTA
5007875 AATATAAATATATAAGTATTA
1 AATATAAATATATAAGTATTA
* *
5007896 AAGATTAAGTATATAAGTA-TA
1 AATA-TAAATATATAAGTATTA
*
5007917 TATATAAACTATA-AAGT
1 AATATAAA-TATATAAGT
5007934 GTGTATATAC
Statistics
Matches: 147, Mismatches: 27, Indels: 35
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.03
19 21 0.14
20 16 0.11
21 30 0.20
22 28 0.19
23 10 0.07
24 12 0.08
25 10 0.07
26 6 0.04
27 9 0.06
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (21 bp):
AATATAAATATATAAGTATTA
Found at i:5007911 original size:22 final size:21
Alignment explanation
Indices: 5007598--5007915 Score: 81
Period size: 22 Copynumber: 14.5 Consensus size: 21
5007588 TAATATAATG
*
5007598 TATATAAGTATT-AAGTATAAG
1 TATATAAGTATTAAAG-ATAAA
*
5007619 TATATAAGTATTAAATATAAAA
1 TATATAAGTATTAAAGAT-AAA
*
5007641 TATATAAGTA-TACAAG-TATA
1 TATATAAGTATTA-AAGATAAA
* *
5007661 TATATAAACTA-TAAAGTATATA
1 TATAT-AAGTATTAAAG-ATAAA
* *
5007683 TCTATAAAGT-TT-TAGTATAAA
1 TATAT-AAGTATTAAAG-ATAAA
*
5007704 GTATATATACATATATAATA-ATATAA
1 -TATATA-A-GTAT-TAA-AGATA-AA
*
5007730 -ACTATAAGTA-T-AAGTATAAG
1 TA-TATAAGTATTAAAG-ATAAA
* * *
5007750 TATATTA-TA-TATATATAAA
1 TATATAAGTATTAAAGATAAA
*
5007769 -ATATAATTA-TAAAGACTAAA
1 TATATAAGTATTAAAGA-TAAA
* *
5007789 GTATACAAGTATATAAATATAAAA
1 -TATATAAGTAT-TAAAGAT-AAA
*
5007813 TATATAAACGTATATAATAATATAAA
1 TATAT-AA-GTAT-T-A-AAGATAAA
* * *
5007839 GTAGATAAGTACATAACA-AAAAA
1 -TATATAAGTA-TTAA-AGATAAA
* *
5007862 TATATAAGCATTAAATATAAA
1 TATATAAGTATTAAAGATAAA
*
5007883 TATATAAGTATTAAAGATTAAG
1 TATATAAGTATTAAAGA-TAAA
5007905 TATATAAGTAT
1 TATATAAGTAT
5007916 ATATATAAAC
Statistics
Matches: 226, Mismatches: 35, Indels: 71
0.68 0.11 0.21
Matches are distributed among these distances:
18 5 0.02
19 14 0.06
20 22 0.10
21 58 0.26
22 63 0.28
23 13 0.06
24 15 0.07
25 18 0.08
26 8 0.04
27 10 0.04
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (21 bp):
TATATAAGTATTAAAGATAAA
Found at i:5007932 original size:34 final size:33
Alignment explanation
Indices: 5007882--5008050 Score: 122
Period size: 34 Copynumber: 5.0 Consensus size: 33
5007872 TTAAATATAA
*
5007882 ATATATAAGTATTAAAGAT-TAAGTATATAAGTAT
1 ATATATAAATA-TAAAGATATAAGTATATAA-TAT
*
5007916 ATATATAAACTATAAAG-TGT--GTATATACATAT
1 ATATATAAA-TATAAAGATATAAGTATATA-ATAT
** *
5007948 ATATATAAAGT-TTTAG-TATGAAGTATAT-ATAC
1 ATATATAAA-TATAAAGATAT-AAGTATATAATAT
5007980 ATATATAATAATATAAAG-TATAAGTATAT-ATAT
1 ATATAT-A-AATATAAAGATATAAGTATATAATAT
5008013 ATAATTATAAATAATAAAGTATATAAGTATATAATAT
1 AT-A-TATAAAT-ATAAAG-ATATAAGTATATAATAT
5008050 A
1 A
5008051 AAGTATATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 27
0.76 0.06 0.18
Matches are distributed among these distances:
31 5 0.05
32 29 0.26
33 20 0.18
34 36 0.32
35 5 0.05
36 11 0.10
37 5 0.05
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (33 bp):
ATATATAAATATAAAGATATAAGTATATAATAT
Found at i:5008004 original size:266 final size:272
Alignment explanation
Indices: 5007405--5008059 Score: 665
Period size: 266 Copynumber: 2.5 Consensus size: 272
5007395 TACTTTATAT
*
5007405 TATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAAGTAT-ATTA
1 TATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAAGTATAAGTA
* * * *
5007469 TATATATATAAAGTATAATTGTAAGGACTAAAGTATATAAATATATAATATAACGTATATAAGTA
66 TATATATATAAAGTATAATTATAA-GAATAAAGTATATAAAGATATAATATAAAGTATATAAG-A
* * * * * * *
5007534 TATAAAGTATATATATATATAAAGTTTTAGTATAAAGTATATATAGGTATATAATAATATAATGT
129 TATAAAATATATAAATATATAAA---TTAATATAAAGTAGATATAGGTACATAACAATATAATAT
* * * * *
5007599 ATATAAGTATTAAGTATAAGTATATAAGTATTAAATATAAAATATATAAGTATACAAGTATATAT
191 ATATAAGCATTAAATATAAATATATAAGTATTAAAGATAAAATATATAAGTATACAAGTATAAAT
*
5007664 ATAAACTATAAAGTATA
256 ATAAACTATAAAGCATA
* *
5007681 TATCTATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAACTATAAGTATAAGTA
1 TATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAAGTATAAGTA
*
5007746 TA-AGTATAT-TA-TAT-ATATATAA-AATATAA-T-TATAAAGACTA-AAGTATACAAGTATAT
66 TATA-TATATAAAGTATAAT-TATAAGAATA-AAGTATATAAAGA-TATAA-TATA-AAGTATAT
5007803 AA-ATATAAAATATATAAACGTATAT-AA-TAATATAAAGTAGATA-A-GTACATAACAA-A-AA
125 AAGATATAAAATATATAAA--TATATAAATTAATATAAAGTAGATATAGGTACATAACAATATAA
* * *
5007861 -ATATATAAGCATTAAATATAAATATATAAGTATTAAAGATTAAGTATATAAGTATA-TA-TATA
188 TATATATAAGCATTAAATATAAATATATAAGTATTAAAGATAAAATATATAAGTATACAAGTATA
* *
5007923 AACTATAAAGTGTGTATATA-CATA
253 AA-TATAAA----CTATAAAGCATA
*
5007947 TATATATAAAGTTTTAGTATGAAGTATATATACATATATAATAATATAAAGTATAAGTAT-A-TA
1 TATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAAGTATAAGTA
5008010 TATATA-AT----TATAA--AT---AATAAAGTATAT-AAGTATATAATATAAAGTATATA
66 TATATATATAAAGTATAATTATAAGAATAAAGTATATAAAG-ATATAATATAAAGTATATA
5008060 TATACTTTAT
Statistics
Matches: 330, Mismatches: 29, Indels: 60
0.79 0.07 0.14
Matches are distributed among these distances:
256 11 0.03
257 14 0.04
258 6 0.02
259 2 0.01
261 3 0.01
262 6 0.02
263 9 0.03
264 55 0.17
265 4 0.01
266 61 0.18
267 14 0.04
268 1 0.00
269 14 0.04
272 23 0.07
273 12 0.04
274 18 0.05
275 7 0.02
276 60 0.18
277 10 0.03
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.37
Consensus pattern (272 bp):
TATATATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAAGTATAAGTA
TATATATATAAAGTATAATTATAAGAATAAAGTATATAAAGATATAATATAAAGTATATAAGATA
TAAAATATATAAATATATAAATTAATATAAAGTAGATATAGGTACATAACAATATAATATATATA
AGCATTAAATATAAATATATAAGTATTAAAGATAAAATATATAAGTATACAAGTATAAATATAAA
CTATAAAGCATA
Found at i:5008082 original size:46 final size:46
Alignment explanation
Indices: 5007980--5008223 Score: 129
Period size: 46 Copynumber: 5.2 Consensus size: 46
5007970 GTATATATAC
5007980 ATATATA-ATAA-TATA-AAGTAT-AAGTATATATATA-TAATTATAAAT
1 ATATATATATAAGTATATAA-TATAAAGTATATATATACT--TTAT-AAT
* *
5008025 AATAAAGTATATAAGTATATAATATAAAGTATATATATACTTTATAGT
1 -ATATA-TATATAAGTATATAATATAAAGTATATATATACTTTATAAT
* ** * * *
5008073 TTATATATATACTTATATACT-T-TA-TAT-TATGTACTTTATAAT
1 ATATATATATAAGTATATAATATAAAGTATATATATACTTTATAAT
* **
5008115 AATATAAAGTATAAGTATATTATATATATAGAGTATA-AT-TA-TAAATAAT
1 -ATATATA-TATAAGTATA-TA-ATATA-A-AGTATATATATACTTTATAAT
5008164 A-A-AGTATATAAGTATATAATATAAAGTGTATATATATATACTTTATAAT
1 ATATA-TATATAAGTATATAATATAAA--G--TATATATATACTTTATAAT
*
5008213 TTATATATATA
1 ATATATATATA
5008224 CTTATATACT
Statistics
Matches: 150, Mismatches: 22, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
42 14 0.09
43 9 0.06
44 15 0.10
45 5 0.03
46 33 0.22
47 10 0.07
48 9 0.06
49 23 0.15
50 25 0.17
51 7 0.05
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (46 bp):
ATATATATATAAGTATATAATATAAAGTATATATATACTTTATAAT
Found at i:5008187 original size:13 final size:14
Alignment explanation
Indices: 5007975--5008201 Score: 68
Period size: 15 Copynumber: 15.9 Consensus size: 14
5007965 ATGAAGTATA
*
5007975 TATACATATATAA-
1 TATATATATATAAG
*
5007988 TAATATAAAGTATAAG
1 T-ATATATA-TATAAG
5008004 TATATATATATAA-
1 TATATATATATAAG
5008017 T-TATA-A-ATAA-
1 TATATATATATAAG
5008027 TA-A-AGTATATAAG
1 TATATA-TATATAAG
5008040 TATATA-ATATAAAG
1 TATATATATAT-AAG
5008054 TATATATATACTTTATAG
1 TATATATATA---TA-AG
* **
5008072 TTTATATATATACT
1 TATATATATATAAG
* *
5008086 TATATACTTTAT-AT
1 TATATA-TATATAAG
* *
5008100 TATGTACTTTATAA-
1 TATATA-TATATAAG
*
5008114 TAATATAAAGTATAAG
1 T-ATATATA-TATAAG
5008130 TATATTATATATATAG
1 TATA-TATATATA-AG
*
5008146 -AGTATA-ATTATAAA
1 TA-TATATA-TATAAG
*
5008160 TAATAAAGTATATAAG
1 T-ATATA-TATATAAG
5008176 TATATA-ATATAAAG
1 TATATATATAT-AAG
*
5008190 TGTATATATATA
1 TATATATATATA
5008202 TACTTTATAA
Statistics
Matches: 164, Mismatches: 19, Indels: 61
0.67 0.08 0.25
Matches are distributed among these distances:
9 1 0.01
10 6 0.04
11 2 0.01
12 8 0.05
13 12 0.07
14 49 0.30
15 56 0.34
16 16 0.10
17 2 0.01
18 12 0.07
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (14 bp):
TATATATATATAAG
Found at i:5008217 original size:22 final size:23
Alignment explanation
Indices: 5008192--5008460 Score: 231
Period size: 22 Copynumber: 11.7 Consensus size: 23
5008182 ATATAAAGTG
*
5008192 TATATATATATACTT-TATA-AT
1 TATATATATATACTTATATACTT
5008213 T-TATATATATACTTATATACTT
1 TATATATATATACTTATATACTT
5008235 TATAT-TATATACTTATATACTT
1 TATATATATATACTTATATACTT
*
5008257 TATAT-TATATACATATATACTT
1 TATATATATATACTTATATACTT
5008279 TATATTATTATATACATATATATACTT
1 TATA-TA-TATATAC-T-TATATACTT
*
5008306 TATATTTA-ATACTTATATACTT
1 TATATATATATACTTATATACTT
**
5008328 TATAT-TATATGTTTATATACTT
1 TATATATATATACTTATATACTT
* * *
5008350 TA-ATCTTTATA-AT-TATACTT
1 TATATATATATACTTATATACTT
5008370 TATATATATATA-TTATATA-TAT
1 TATATATATATACTTATATACT-T
*
5008392 ATATATATATATA-ATACTTATACTT
1 -TATATATATATACTTA--TATACTT
*
5008417 TATATTATTATATATGTATATATACTT
1 TATA-TA-TATATA-CT-TATATACTT
5008444 TATATACTTATATACTT
1 TATATA--TATATACTT
5008461 TTGTAACACC
Statistics
Matches: 210, Mismatches: 15, Indels: 42
0.79 0.06 0.16
Matches are distributed among these distances:
20 22 0.10
21 19 0.09
22 81 0.39
23 19 0.09
24 8 0.04
25 17 0.08
26 11 0.05
27 31 0.15
29 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.54
Consensus pattern (23 bp):
TATATATATATACTTATATACTT
Found at i:5008457 original size:2 final size:2
Alignment explanation
Indices: 5007971--5008440 Score: 114
Period size: 2 Copynumber: 239.0 Consensus size: 2
5007961 TAGTATGAAG
* *
5007971 TA TA TA TA CA TA TA TA -A TA -A TA TA AA GTA TA -A GTA 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
* *
5008012 TA TA -A T- TA TA AA TA -A TA AA GTA TA TA -A GTA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA
* * * *
5008051 AA GTA TA TA TA TA CTT TA TA GTT TA TA TA TA TA CT- TA TA TA CTT
1 TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA
* * *
5008095 TA TA T- TA TG TA CTT TA TA -A TA -A TA TA AA GTA TA -A GTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * *
5008134 T- TA TA TA TA TA GA GTA TA -A T- TA TA AA TA -A TA AA GTA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
5008174 -A GTA TA TA -A TA TA AA GTG TA TA TA TA TA TA CTT TA TA -A TT
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
*
5008214 TA TA TA TA TA CT- TA TA TA CTT TA TA T- TA TA TA CT- TA TA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * * *
5008254 CTT TA TA T- TA TA TA CA TA TA TA CTT TA TA T- TA T- TA TA TA CA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
5008295 TA TA TA TA CTT TA TA TT TA -A TA CT- TA TA TA CTT TA TA T- TA
1 TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
* * * * * *
5008335 TA TG TT TA TA TA CTT TA -A TC TT TA TA -A T- TA TA CTT TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
5008376 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA -A TA CT- TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
*
5008417 TA TA T- TA T- TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5008441 CTTTATATAC
Statistics
Matches: 336, Mismatches: 66, Indels: 132
0.63 0.12 0.25
Matches are distributed among these distances:
1 37 0.11
2 271 0.81
3 28 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5009446 original size:28 final size:30
Alignment explanation
Indices: 5009406--5009462 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
5009396 AGAGGTCATA
*
5009406 AAGAACCTCGGT-AACTGTCCATA-GTTCG
1 AAGAACCTAGGTAAACTGTCCATATGTTCG
5009434 AAGAACCTAGGTAAACTGTCCATATGTTC
1 AAGAACCTAGGTAAACTGTCCATATGTTC
5009463 CTTAGAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 11 0.42
29 11 0.42
30 4 0.15
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (30 bp):
AAGAACCTAGGTAAACTGTCCATATGTTCG
Found at i:5009488 original size:31 final size:31
Alignment explanation
Indices: 5009450--5009522 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
5009440 CTAGGTAAAC
* * *
5009450 TGTCCATATGTTCCTTAGAATATATGTATAT
1 TGTCCATATGTTCCTGAGAACATATGTATAA
*
5009481 TGTCCATATGTTTCTGAGAACATATGTATAA
1 TGTCCATATGTTCCTGAGAACATATGTATAA
5009512 TGTCCATATGT
1 TGTCCATATGT
5009523 CTCAAAAGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (31 bp):
TGTCCATATGTTCCTGAGAACATATGTATAA
Found at i:5009535 original size:31 final size:32
Alignment explanation
Indices: 5009477--5009618 Score: 123
Period size: 32 Copynumber: 4.5 Consensus size: 32
5009467 GAATATATGT
* ** *
5009477 ATATTGTCCATATGTTTC-TGAGAACATATGT-
1 ATATTGTCCATATGTCTCAAAAG-ACATAGGTA
*
5009508 ATAATGTCCATATGTCTCAAAAGACATAGGTA
1 ATATTGTCCATATGTCTCAAAAGACATAGGTA
* * *
5009540 ATTTTATCCATATGTC-CTGAAAGACATAGGTA
1 ATATTGTCCATATGTCTC-AAAAGACATAGGTA
*
5009572 AT-TCTGTCCATATGTCCCAAAAGACATAGGTA
1 ATAT-TGTCCATATGTCTCAAAAGACATAGGTA
*
5009604 AT-TCTGTACATATGT
1 ATAT-TGTCCATATGT
5009619 TCCGTAAAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
31 25 0.27
32 68 0.72
33 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
ATATTGTCCATATGTCTCAAAAGACATAGGTA
Found at i:5009553 original size:32 final size:31
Alignment explanation
Indices: 5009514--5009636 Score: 140
Period size: 32 Copynumber: 3.8 Consensus size: 31
5009504 ATGTATAATG
*
5009514 TCCATATGTCTCAAAAGACATAGGTAATTTTA
1 TCCATATGTC-CAAAAGACATAGGTAATTCTA
* *
5009546 TCCATATGTCCTGAAAGACATAGGTAATTCTG
1 TCCATATGTCC-AAAAGACATAGGTAATTCTA
*
5009578 TCCATATGTCCCAAAAGACATAGGTAATTCTG
1 TCCATATGT-CCAAAAGACATAGGTAATTCTA
* *
5009610 TACATATGTTCCGTAAA-ACATAGGTAA
1 TCCATATG-TCC-AAAAGACATAGGTAA
5009637 ACTGTTGAGT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
31 1 0.01
32 74 0.91
33 6 0.07
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (31 bp):
TCCATATGTCCAAAAGACATAGGTAATTCTA
Found at i:5009593 original size:64 final size:64
Alignment explanation
Indices: 5009512--5009636 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
5009502 ATATGTATAA
* * *
5009512 TGTCCATATGTCTCAAAAGACATAGGTAATTTTATCCATATG-TCC-TGAAAGACATAGGTAATT
1 TGTCCATATGTCCCAAAAGACATAGGTAATTCTATACATATGTTCCGT-AAA-ACATAGGTAATT
5009575 C
64 C
*
5009576 TGTCCATATGTCCCAAAAGACATAGGTAATTCTGTACATATGTTCCGTAAAACATAGGTAA
1 TGTCCATATGTCCCAAAAGACATAGGTAATTCTATACATATGTTCCGTAAAACATAGGTAA
5009637 ACTGTTGAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
64 48 0.87
65 6 0.11
66 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (64 bp):
TGTCCATATGTCCCAAAAGACATAGGTAATTCTATACATATGTTCCGTAAAACATAGGTAATTC
Found at i:5010483 original size:65 final size:65
Alignment explanation
Indices: 5010359--5010509 Score: 200
Period size: 65 Copynumber: 2.3 Consensus size: 65
5010349 GCACTAAGAG
* *
5010359 TGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTGCATCGA
1 TGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGGTGCATCGA
* * * *
5010423 TGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-TATGTGCATC
1 TGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT-GGTGCATC
5010486 GA
64 GA
*
5010488 TGCATGAAATGCATTCGATGTT
1 TGCATCAAATGCATTCGATGTT
5010510 CAATTTAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
64 20 0.26
65 54 0.70
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
TGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGGTGCATCGA
Found at i:5011611 original size:21 final size:21
Alignment explanation
Indices: 5011587--5011630 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5011577 CCGAAGGTGG
5011587 AGGAGGAGCACGA-GAAGAGCT
1 AGGAGGAGCAC-ATGAAGAGCT
* *
5011608 AGGAGTAGCTCATGAAGAGCT
1 AGGAGGAGCACATGAAGAGCT
5011629 AG
1 AG
5011631 CTTATAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.36, C:0.14, G:0.39, T:0.11
Consensus pattern (21 bp):
AGGAGGAGCACATGAAGAGCT
Found at i:5015036 original size:149 final size:149
Alignment explanation
Indices: 5014758--5015055 Score: 524
Period size: 149 Copynumber: 2.0 Consensus size: 149
5014748 CCATTTGATA
* **
5014758 TAATTTAAATTCATGAAAACATGCAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACGG
1 TAATTTAAATTCATGAAAACATACAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACAA
* * *
5014823 GAGTGTATGTTTCATCATAATCTATGCCTTCTTCTTGAGTATAGCCTTTAGCAACATGTATAGCC
66 GAGCGTATGTTTCATCATAATCTATGCCTTCTTCTTGAGTATAGCCTTGAGCAACAAGTATAGCC
5014888 TTGTTTCTCACTATATTAC
131 TTGTTTCTCACTATATTAC
*
5014907 TAATTTAAATTCATGAAAACATACAAATGCTAATAACATTCTAATTGCTTTCATCCTAGCTACAA
1 TAATTTAAATTCATGAAAACATACAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACAA
*
5014972 GAGCGTATGTTTCATCATAATCTATGCCTTCTTCTTGAGTATAGCCTTGAGCAACAAGTCTAGCC
66 GAGCGTATGTTTCATCATAATCTATGCCTTCTTCTTGAGTATAGCCTTGAGCAACAAGTATAGCC
5015037 TTGTTTCTCACTATATTAC
131 TTGTTTCTCACTATATTAC
5015056 CACTTTCATC
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 141 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (149 bp):
TAATTTAAATTCATGAAAACATACAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACAA
GAGCGTATGTTTCATCATAATCTATGCCTTCTTCTTGAGTATAGCCTTGAGCAACAAGTATAGCC
TTGTTTCTCACTATATTAC
Found at i:5019339 original size:66 final size:65
Alignment explanation
Indices: 5019183--5019343 Score: 186
Period size: 66 Copynumber: 2.5 Consensus size: 65
5019173 TGCACTAAGA
* * * *
5019183 GTGCATTGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATTCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* *
5019247 GTGCATCGATGCATCAAATGT-ATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATAGG
1 GTGCATCGATGCATCAAAT-TCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCAT-GG
*
5019310 -TAT
63 CT-G
*
5019313 GTGCATCGATGCATGAAATTCATTCGATGTT
1 GTGCATCGATGCATCAAATTCATTCGATGTT
5019344 CAATTTAATT
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
64 25 0.30
65 25 0.30
66 33 0.40
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATTCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:5019802 original size:2 final size:2
Alignment explanation
Indices: 5019795--5019820 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5019785 TCTCATATTC
5019795 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5019821 GGTTCACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5021074 original size:14 final size:17
Alignment explanation
Indices: 5021047--5021089 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
5021037 TTTCACGTGG
*
5021047 AGAAGAGAAAAAGATGA
1 AGAAGAGAAGAAGATGA
5021064 AGAAGAGAAGAAGATGA
1 AGAAGAGAAGAAGATGA
5021081 AGAAGAGAA
1 AGAAGAGAA
5021090 TTGCTTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.05
Consensus pattern (17 bp):
AGAAGAGAAGAAGATGA
Found at i:5021364 original size:22 final size:22
Alignment explanation
Indices: 5021337--5021554 Score: 140
Period size: 21 Copynumber: 10.3 Consensus size: 22
5021327 CAACTTTAGT
5021337 CTTTATAAT-TATACTTTATATA
1 CTTTATAATATATAC-TTATATA
*
5021359 CTTTAT-ATTTAATACTTATATA
1 CTTTATAATAT-ATACTTATATA
*
5021381 TTTTAT-ATATATACTTATATA
1 CTTTATAATATATACTTATATA
*
5021402 CTTTATATTATATACTTATATA
1 CTTTATAATATATACTTATATA
* ** * *
5021424 CTTTTTTCTTTATA-AT-TATA
1 CTTTATAATATATACTTATATA
*
5021444 CTTTATATATATATA-TAATATA
1 CTTTATA-ATATATACTTATATA
* *
5021466 C-TTATATTTTATA-TTAT-TA
1 CTTTATAATATATACTTATATA
* *
5021485 -TATATGTATATATACTT-TATA
1 CTTTAT-AATATATACTTATATA
** *
5021506 -TAAATATATATATAATT-TATA
1 CTTTATA-ATATATACTTATATA
*
5021527 GTTTAT-ATATATACTTATATA
1 CTTTATAATATATACTTATATA
5021548 CTTTATA
1 CTTTATA
5021555 TTTAAACTAT
Statistics
Matches: 154, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.03
20 32 0.21
21 59 0.38
22 54 0.35
23 4 0.03
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (22 bp):
CTTTATAATATATACTTATATA
Found at i:5021409 original size:28 final size:27
Alignment explanation
Indices: 5021362--5021583 Score: 123
Period size: 28 Copynumber: 7.7 Consensus size: 27
5021352 TTATATACTT
5021362 TATAT-TTA-ATACTTATATATTTTATA
1 TATATATTATATACTT-TATATTTTATA
*
5021388 TATATACTTATATACTTTATATTATATA
1 TATATA-TTATATACTTTATATTTTATA
* *
5021416 CTTATATACTT-TTTTCTTTATAATTATACTTTATA
1 --TATATA-TTATATAC-TT-T-A-TAT--TTTATA
5021451 TATATATATAATATAC-TTATATTTTATA
1 TATATAT-T-ATATACTTTATATTTTATA
* * *
5021479 T-TATTATATATGTA-TATATACTTTATA
1 TATA-TAT-TATATACTTTATATTTTATA
* * *
5021506 TAAATATATATATAATTTATAGTTTATA
1 TATATAT-TATATACTTTATATTTTATA
*
5021534 TATATACTTATATACTTTATATTTAAACTA
1 TATATA-TTATATACTTTATATTT-TA-TA
* *
5021564 TATAAATTATATAATTTATA
1 TATATATTATATACTTTATA
5021584 CATAGTATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 39
0.73 0.09 0.18
Matches are distributed among these distances:
26 5 0.03
27 26 0.17
28 56 0.36
29 24 0.15
30 21 0.13
31 2 0.01
32 3 0.02
33 11 0.07
35 8 0.05
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (27 bp):
TATATATTATATACTTTATATTTTATA
Found at i:5021595 original size:49 final size:51
Alignment explanation
Indices: 5021440--5021628 Score: 153
Period size: 49 Copynumber: 3.7 Consensus size: 51
5021430 TCTTTATAAT
* * * *
5021440 TATACTTTATATATATATATA-ATATACTTATATTTTATATTATTATATATGTATA
1 TATACTTTATATTTAAATATATATATAATTATA--TAAT-TTA-TATATA-GTATA
*
5021495 TATACTTTATA--TAAATATATATATAATT-TATAGTTTATATATA-TACTTA
1 TATACTTTATATTTAAATATATATATAATTATATAATTTATATATAGTA--TA
* *
5021544 TATACTTTATATTTAAA-CTATATA-AATTATATAATTTATACATAGTATA
1 TATACTTTATATTTAAATATATATATAATTATATAATTTATATATAGTATA
* *
5021593 TATAATTTATAATTTATAAT-TATACATAA-TATATAA
1 TATACTTTAT-ATTTA-AATATATATATAATTATATAA
5021629 ATATAAGTTT
Statistics
Matches: 114, Mismatches: 9, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
47 2 0.02
49 34 0.30
50 27 0.24
51 22 0.19
52 2 0.02
53 9 0.08
54 7 0.06
55 11 0.10
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (51 bp):
TATACTTTATATTTAAATATATATATAATTATATAATTTATATATAGTATA
Found at i:5021663 original size:21 final size:22
Alignment explanation
Indices: 5021617--5021670 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
5021607 TATAATTATA
*
5021617 CATA-ATATATAAATATAAGTT
1 CATATATATTTAAATATAAGTT
*
5021638 -TTATATATTTAAATATAA-TT
1 CATATATATTTAAATATAAGTT
5021658 CATATATAATTTA
1 CATATAT-ATTTA
5021671 GTTTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (22 bp):
CATATATATTTAAATATAAGTT
Found at i:5021797 original size:22 final size:20
Alignment explanation
Indices: 5021722--5021859 Score: 85
Period size: 21 Copynumber: 6.8 Consensus size: 20
5021712 TTATACATGG
*
5021722 TATATATA-ATTTATACATAA
1 TATATATATATATATA-ATAA
5021742 TATATATATATATAT-AT-A
1 TATATATATATATATAATAA
5021760 TATATATATAGTATATAATAA
1 TATATATATA-TATATAATAA
5021781 TAT-T-T-TATATATAAT-A
1 TATATATATATATATAATAA
* *
5021797 TACTTATACTTTATATTATTATATA
1 TA--TATA-TATATA-TATAATA-A
* *
5021822 TGTATATAATTTATACTAA-AA
1 TATATAT-ATATATA-TAATAA
5021843 CTATATATATATATATA
1 -TATATATATATATATA
5021860 TTATATACTT
Statistics
Matches: 94, Mismatches: 8, Indels: 32
0.70 0.06 0.24
Matches are distributed among these distances:
16 3 0.03
17 8 0.09
18 14 0.15
19 9 0.10
20 13 0.14
21 17 0.18
22 14 0.15
23 14 0.15
25 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (20 bp):
TATATATATATATATAATAA
Found at i:5021955 original size:68 final size:67
Alignment explanation
Indices: 5021786--5021958 Score: 166
Period size: 66 Copynumber: 2.6 Consensus size: 67
5021776 AATAATATTT
* *
5021786 TATATATA-ATATACTTATACTTTATATTATTATATA-TGTATATAATTTATACTAAAACTATAT
1 TATATATATATATACTTATATTTTATATTA-TATATACTTTATATAATTTATACTAAAACTATAT
5021849 ATA
65 ATA
**
5021852 TATATATATTATATACTT-TAGTCTTTATA--AT-TATACTTTATATATACTTT-TACT-TTA-T
1 TATATATA-TATATACTTATA-T-TTTATATTATATATACTTTATATA-A-TTTATACTAAAACT
*
5021910 AGTTTATA
61 A-TATATA
5021918 TATATATATATATACTTATATTTTATATGTATATATACTTT
1 TATATATATATATACTTATATTTTATAT-TATATATACTTT
5021959 GTATTCTTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 24
0.75 0.04 0.20
Matches are distributed among these distances:
64 6 0.07
65 16 0.18
66 32 0.36
67 10 0.11
68 19 0.21
69 6 0.07
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (67 bp):
TATATATATATATACTTATATTTTATATTATATATACTTTATATAATTTATACTAAAACTATATA
TA
Found at i:5022091 original size:2 final size:2
Alignment explanation
Indices: 5021447--5022079 Score: 129
Period size: 2 Copynumber: 322.5 Consensus size: 2
5021437 AATTATACTT
*
5021447 TA TA TA TA TA TA TA -A TA TA CT- TA TA T- TT TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
5021485 TA TA TG TA TA TA TA CTT TA TA TA AA TA TA TA TA TA -A TT TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
5021527 GTT TA TA TA TA TA CT- TA TA TA CTT TA TA TT TA AA CTA TA TA AA
1 -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* * * *
5021570 T- TA TA TA -A TT TA TA CA TA GTA TA TA TA -A TT TA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
5021609 TA -A T- TA TA CA TA -A TA TA TA AA TA TA -A GT- TT 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 TA
* * *
5021647 TA AA TA TA -A T- TCA TA TA TA -A TT TA GTT TA TA TA TA GT- TCA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA -TA T-A
* * * *
5021687 -A TA GT- TCA TA TA TA TA T- TC TA TA GTT TA TA CA TGG TA TA TA
1 TA TA -TA T-A TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA TA TA
* *
5021728 TA -A TT TA TA CA TA -A 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
* *
5021768 TA GTA TA TA -A TA -A TA T- TT TA TA TA TA -A TA TA CT- TA TA CTT
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
5021808 TA TA T- TA T- TA TA TA TG TA TA TA -A TT TA TA CTA -A AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * *
5021848 TA TA TA TA TA TA T- TA TA TA CTT TA GTC TT TA TA -A T- TA TA CTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA
* * *
5021890 TA TA TA TA CT- TT TA CTT TA TA GTT 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
* * * * *
5021932 CT- TA TA T- TT TA TA TG TA TA TA TA CTT TG TA T- TC T- TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
5021972 CTT TA GTC TT TA T- TA T- TA TA CTT TA TA TA TA TA TA TA -A TA
1 -TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
5022012 TA CT- TA TA CTT TA TA T- TA T- TA TA TA TG TA TA TA TA CTT TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
**
5022052 TA TA TA TA TA TA CC TA TA TA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA T
5022080 TTAAACTATA
Statistics
Matches: 453, Mismatches: 94, Indels: 168
0.63 0.13 0.23
Matches are distributed among these distances:
1 48 0.11
2 367 0.81
3 38 0.08
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5022091 original size:55 final size:54
Alignment explanation
Indices: 5021721--5022063 Score: 160
Period size: 53 Copynumber: 6.5 Consensus size: 54
5021711 TTTATACATG
* * *
5021721 GTATATATAATTTATACATA-ATAT-ATATA--TATA-TATATATA-TATATAT
1 GTATATATACTTTATATATATATATAATATACTTATACTTTATATACTATATAT
* * *
5021769 AGTATATA-A--TAATATTTTATATATAATATACTTATACTTTATATTATTATATAT
1 -GTATATATACTTTATA-TATATATATAATATACTTATACTTTATA-TACTATATAT
*
5021823 GTATATA-A-TTTATACTA-AAACTAT-ATATA-TATATA-TATTATATACT-T-TA-
1 GTATATATACTTTATA-TATATA-TATAATATACT-TATACT-TTATATACTATATAT
* * * * *
5021872 GTCTTTATA-ATTATA-CT-T-TAT-ATATACTTTTACTTTATAGTTTA-TATATAT
1 GTATATATACTTTATATATATATATAATATACTTATACTTTATA---TACTATATAT
* * * * * * *
5021923 ATATATATAC-TTATATTTTATATGTATATATACTTTGTATTCTTATATACTTTAGTCT
1 GTATATATACTTTATA-TATATATATA-ATATAC-TTATACT-TTATATACTATA-TAT
* *
5021981 TTATTATTATACTTTATATATATATATAATATACTTATACTTTATATTATTATATAT
1 GTA-TA-TATACTTTATATATATATATAATATACTTATACTTTATA-TACTATATAT
5022038 GTATATATACTTTATATATATATATA
1 GTATATATACTTTATATATATATATA
5022064 CCTATATACT
Statistics
Matches: 224, Mismatches: 33, Indels: 68
0.69 0.10 0.21
Matches are distributed among these distances:
46 20 0.09
47 4 0.02
48 6 0.03
49 20 0.09
50 10 0.04
51 16 0.07
52 10 0.04
53 27 0.12
54 16 0.07
55 23 0.10
56 4 0.02
57 18 0.08
58 19 0.08
59 13 0.06
60 13 0.06
61 5 0.02
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (54 bp):
GTATATATACTTTATATATATATATAATATACTTATACTTTATATACTATATAT
Found at i:5022099 original size:92 final size:87
Alignment explanation
Indices: 5021913--5022102 Score: 190
Period size: 92 Copynumber: 2.1 Consensus size: 87
5021903 ACTTTATAGT
* * *
5021913 TTATATATATATATATATACTTATATTTTATATGTATATATACTTTGTATTCTTATATACTTTAG
1 TTATATA-ATATATATATACTTATATTTTATATGTATATATACTTTATATTCATATATACTATAG
* * * *
5021978 TCTTTATTATTATACTTTATATA
65 TCTATATTATTAAACTATATAAA
5022001 TATATATAATATACT-TATACTTTATATTATTATATATGTATATATACTTTATATAT-ATATATA
1 T-TATATAATATA-TATATAC-TTATA-T-TT-TATATGTATATATACTTTATAT-TCATATATA
5022064 CCTATA-TACTATA-TATTTAAACTATATAAA
59 -CTATAGT-CTATATTA-TTAAACTATATAAA
5022094 TTATATAAT
1 TTATATAAT
5022103 GGATGAAATC
Statistics
Matches: 85, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
88 11 0.13
89 12 0.14
90 1 0.01
91 2 0.02
92 38 0.45
93 21 0.25
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (87 bp):
TTATATAATATATATATACTTATATTTTATATGTATATATACTTTATATTCATATATACTATAGT
CTATATTATTAAACTATATAAA
Found at i:5022273 original size:2 final size:2
Alignment explanation
Indices: 5022266--5022313 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
5022256 CATTATACTT
5022266 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
5022308 TA TA TA
1 TA TA TA
5022314 CTTATACTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5022955 original size:58 final size:61
Alignment explanation
Indices: 5022880--5023036 Score: 173
Period size: 58 Copynumber: 2.6 Consensus size: 61
5022870 ATTATAAGTA
* * *
5022880 AATATATATAAATATATAAAAGTATAAGTATATATATAAAGTGTAAACTATAAAG-CATATCT
1 AATATATATATATATAT-AAAGTATAAGTATATATATAAACTGTAAACTATAAAGTC-TATAT
* * * *
5022942 AATATATATATATATATAAAATATAAG-GTATATAT--ACTTTAAAGTATAAAGTCTATAT
1 AATATATATATATATATAAAGTATAAGTATATATATAAACTGTAAACTATAAAGTCTATAT
*
5023000 -ATATATATATAAACTATAAAGTATAAGTATAT-TATAA
1 AATATATATATATA-TATAAAGTATAAGTATATATATAA
5023037 GTATATATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
57 12 0.15
58 32 0.40
59 4 0.05
60 7 0.09
61 9 0.11
62 16 0.20
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (61 bp):
AATATATATATATATATAAAGTATAAGTATATATATAAACTGTAAACTATAAAGTCTATAT
Found at i:5022989 original size:23 final size:22
Alignment explanation
Indices: 5022948--5023065 Score: 75
Period size: 23 Copynumber: 5.4 Consensus size: 22
5022938 ATCTAATATA
*
5022948 TATATATATATAAAATATAAGG
1 TATATATATATAAAATATAAAG
* *
5022970 TATATATACTTTAAAGTATAAAG
1 TATATATA-TATAAAATATAAAG
* * *
5022993 TCTATATATAT-ATATATAAAC
1 TATATATATATAAAATATAAAG
*
5023014 TATA-A-AGTATAAGTATATTATAAG
1 TATATATA-TATAA-AATA-TA-AAG
* *
5023038 --TATATATATAAACTACAAAG
1 TATATATATATAAAATATAAAG
5023058 TATATATA
1 TATATATA
5023066 CTTTATACTA
Statistics
Matches: 73, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.01
20 7 0.10
21 12 0.16
22 24 0.33
23 26 0.36
24 3 0.04
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (22 bp):
TATATATATATAAAATATAAAG
Found at i:5023017 original size:86 final size:87
Alignment explanation
Indices: 5022908--5023096 Score: 215
Period size: 88 Copynumber: 2.2 Consensus size: 87
5022898 AAAGTATAAG
* * * * *
5022908 TATATATATAAAGTGTAAACTATAAAGCATATCTA-A-TATATA-TATATATATAAAATATAAGG
1 TATATATATATA-TATAAACTATAAAGCATAACTATATTATA-AGTATATATATAAAATACAAAG
* *
5022970 TATATATACTTTAAAGTATAAAGTC
64 TATATATACTTTAAACTA-AAACTC
* * *
5022995 TATATATATATATATAAACTATAAAGTATAAGTATATTATAAGTATATATATAAACTACAAAGTA
1 TATATATATATATATAAACTATAAAGCATAACTATATTATAAGTATATATATAAAATACAAAGTA
* *
5023060 TATATACTTTATACTAAAACTT
66 TATATACTTTAAACTAAAACTC
5023082 TATATATAT-TATATA
1 TATATATATATATATA
5023097 CTTTATATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
86 24 0.28
87 26 0.30
88 37 0.43
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (87 bp):
TATATATATATATATAAACTATAAAGCATAACTATATTATAAGTATATATATAAAATACAAAGTA
TATATACTTTAAACTAAAACTC
Found at i:5023020 original size:35 final size:38
Alignment explanation
Indices: 5022970--5023061 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 38
5022960 AAATATAAGG
* * *
5022970 TATATATACTTTAAAGTATAAAGTCTA-TAT-A-TATA
1 TATATAAACTATAAAGTATAAAGTATATTATAAGTATA
5023005 TATATAAACTATAAAGTAT-AAGTATATTATAAGTATA
1 TATATAAACTATAAAGTATAAAGTATATTATAAGTATA
*
5023042 TATATAAACTACAAAGTATA
1 TATATAAACTATAAAGTATA
5023062 TATACTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 6 0.12
35 20 0.41
36 1 0.02
37 22 0.45
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (38 bp):
TATATAAACTATAAAGTATAAAGTATATTATAAGTATA
Found at i:5023035 original size:11 final size:12
Alignment explanation
Indices: 5022986--5023048 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 12
5022976 TACTTTAAAG
*
5022986 TATA-AAGTCTA
1 TATATAAGTATA
5022997 TATAT-A-TATA
1 TATATAAGTATA
*
5023007 TATA-AACTATA
1 TATATAAGTATA
*
5023018 AAGTATAAGTATA
1 TA-TATAAGTATA
5023031 T-TATAAGTATA
1 TATATAAGTATA
5023042 TATATAA
1 TATATAA
5023049 ACTACAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 8 0.19
11 21 0.50
12 7 0.17
13 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (12 bp):
TATATAAGTATA
Found at i:5023051 original size:37 final size:34
Alignment explanation
Indices: 5022970--5023762 Score: 149
Period size: 35 Copynumber: 22.4 Consensus size: 34
5022960 AAATATAAGG
* * *
5022970 TATATATACTTTAAAGTATAAAGTCTATATATATA
1 TATATAAACTATAAAGTAT-AAGTATATATATATA
5023005 TATATAAACTATAAAGTATAAGTATATTATAAGTATA
1 TATATAAACTATAAAGTATAAGTATA-TAT-A-TATA
*
5023042 TATATAAACTACAAAGTAT-A-TATACT-T-TATA
1 TATATAAACTATAAAGTATAAGTATA-TATATATA
* * * *
5023073 -CTA-AAACTTTATATA-TATTA-TATACTTTATATTA
1 TATATAAAC--TATAAAGTATAAGTATA-TATATA-TA
* * ** *
5023107 TACATAAAGT-TTTAGTATAAAGTATATATACATA
1 TATATAAACTATAAAGTAT-AAGTATATATATATA
*
5023141 TATA-AAAATATAAAGTATAAGTATAT-TATATA
1 TATATAAACTATAAAGTATAAGTATATATATATA
* *
5023173 TATAT--A-TATAAAGTATATAAATATATAATATAATG
1 TATATAAACTATAAAG--TATAAGTATAT-ATAT-ATA
5023208 TATATAATTA-TATAAAGTATATA-TATATATATATA
1 TATATAA--ACTATAAAGTATA-AGTATATATATATA
* * *
5023243 TATATATATA-TATATA-TATAAAGTTTTAGTATAAAGTA
1 TATATA-A-ACTATAAAGTAT-AAG-TATA-TATATA-TA
* * *
5023281 TAAATAGGTA-TATAATAATATAATGTATATA-AGTAT-
1 TATATA--AACTATAA-AGTATAA-GTATATATA-TATA
* * *
5023317 TA-AGTATAAGTATATAAGTATTAAATATA-AAATATA
1 TATA-TA-AACTATA-AAGTA-TAAGTATATATATATA
* * * *
5023353 TAAGTATACAAGTATATA-TATAAACTATAAAGTATATA
1 T-A-TATA-AACTATAAAGTAT-AAGTATATA-TATATA
* * **
5023391 TCTATAAAGT-TTTAGTATAAAGTATATATACATATATAA
1 TATATAAACTATAAAGTAT-AAG--TATAT--ATATAT-A
5023430 TAATATAAACTAT-AAGTATAAGTATATTATATATA
1 T-ATATAAACTATAAAGTATAAGTATA-TATATATA
*
5023465 TATAATATAATTATAAAG-ACTAAAGTATATAAGTATATA
1 TAT-ATA-AACTATAAAGTA-T-AAGTATAT-A-TATATA
* * * *
5023504 AATATAAATTATATATACGTAT-AGAATA-ATATAAA
1 TATATAAACTATA-A-A-GTATAAGTATATATATATA
* * *
5023539 GTATATAAGTACATAATAAAAAATATATAAGCA-ATAAATATA
1 -TATATAA--AC-T-AT---AAA-GTATAAGTATATATATATA
* *
5023581 AATATATAAGTATTAAA-TATTAAGTATATA-AGTATA
1 TATATA-AACTA-TAAAGTA-TAAGTATATATA-TATA
*
5023617 TATATAAACTATAAAGTGT-A-TATATATATATA
1 TATATAAACTATAAAGTATAAGTATATATATATA
* ** * * *
5023649 AAGT-TTTAGTATGAAGTAT-A-TATACATATATAA
1 TA-TATAAACTATAAAGTATAAGTATATATATAT-A
*
5023682 TAATATAAAGTAT-AAGTAT-A-TATATATATATA
1 T-ATATAAACTATAAAGTATAAGTATATATATATA
*
5023714 TATATATAATTATAAA-TAATAAAGTATATA-AGTATA
1 TATATA-AACTATAAAGT-AT-AAGTATATATA-TATA
*
5023750 TATATAAAGTATA
1 TATATAAACTATA
5023763 TATATACTTT
Statistics
Matches: 584, Mismatches: 77, Indels: 194
0.68 0.09 0.23
Matches are distributed among these distances:
29 4 0.01
30 12 0.02
31 21 0.04
32 60 0.10
33 43 0.07
34 50 0.09
35 100 0.17
36 96 0.16
37 65 0.11
38 56 0.10
39 33 0.06
40 21 0.04
41 12 0.02
42 10 0.02
43 1 0.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (34 bp):
TATATAAACTATAAAGTATAAGTATATATATATA
Found at i:5023062 original size:20 final size:19
Alignment explanation
Indices: 5023001--5023065 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
5022991 AGTCTATATA
5023001 TATATATATAAACTATAAAG
1 TATATATATAAACTA-AAAG
* *
5023021 TATA-AGTAT--ATTATAAG
1 TATATA-TATAAACTAAAAG
5023038 TATATATATAAACTACAAAG
1 TATATATATAAACTA-AAAG
5023058 TATATATA
1 TATATATA
5023066 CTTTATACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 10 0.28
18 4 0.11
19 4 0.11
20 18 0.50
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (19 bp):
TATATATATAAACTAAAAG
Found at i:5023136 original size:2 final size:2
Alignment explanation
Indices: 5023129--5024211 Score: 142
Period size: 2 Copynumber: 549.0 Consensus size: 2
5023119 TAGTATAAAG
* * * *
5023129 TA TA TA TA CA TA TA TA AA AA TA TA AA GTA TA -A GTA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * *
5023171 TA TA TA TA TA TA AA GTA TA TA AA TA TA TA -A TA TA -A TG TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5023212 TA -A T- TA TA TA AA GTA 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
* * * * **
5023253 TA TA TA TA TA AA GT- TT TA GTA TA AA GTA TA AA TA GG TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
*
5023295 -A TA -A TA TA -A TG TA TA TA -A GTA T- TA -A GTA TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
* * *
5023331 TA -A GTA T- TA AA TA TA -A AA TA TA TA -A GTA TA CA -A GTA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* * * * * *
5023369 TA TA TA AA CTA TA AA GTA TA TA TC TA TA AA GT- TT TA GTA TA AA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* *
5023412 GTA TA TA TA CA TA TA TA -A TA -A TA TA AA CTA TA -A GTA TA -A
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
5023451 GTA TA T- TA TA TA TA TA TA -A TA TA -A T- TA TA AA GA CTA AA GTA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA
* * ** *
5023492 TA TA -A GTA TA TA AA TA TA AA T- TA TA TA TA CG TA TA GA -A TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
5023532 -A TA TA AA GTA TA TA -A GTA CA TA -A TA -A AA AA TA TA TA -A GCA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
5023572 -A TA AA TA TA AA TA TA TA -A GTA T- TA AA TA T- TA -A GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * * *
5023611 -A GTA TA TA TA TA AA CTA TA AA GTG TA TA TA TA TA TA TA AA GT-
1 TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA
* * *
5023653 TT TA GTA TGA -A GTA TA TA TA CA TA TA TA -A TA -A TA TA AA GTA
1 TA TA -TA T-A TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
5023694 TA -A GTA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA AA TA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5023733 TA AA GTA TA TA -A GTA TA TA TA TA AA GTA TA TA TA TA CTT TA TA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * * *
5023776 GTT TA TA TA TA TA CT- TA TA TA CTT TA TA T- TA TG TA CTT TA TA
1 -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA
5023818 -A TA TA -A GTA TA -A GTA TA TA TA TA TA TA TA TA TA GTA TA -A
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
5023857 T- TA TA AA TA -A TA AA GTA TA TA -A GTA TA TA -A TA TA AA GTG
1 TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA
* * * *
5023896 TG TA TA TA TA CTT TA TA -A TT TA TA TA TA CT- TA TA TA CTT TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* * *
5023937 TA TT TA -A TA CT- TA CTA TA TA CTT TA TA T- TA TA TA CA TA TA
1 TA TA TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
5023977 TA CT- TA TA T- TA T- TA TA CA TA TA TA TA CTT TA TA TT TA -A TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* **
5024017 CT- TA TA TA T- TT TA TA T- TA TA TA CT- TA TA TA CC T- TA TA T-
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * * *
5024055 TA TA TG TT TA TA CTT TA -A TC TT TA TA -A T- TA TA CTT TA TA T-
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
5024095 TA TA TA TA TA TA TA TA TA TA T- TA TA TA CT- TA TA CTT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
5024136 TA T- TA TA TA TG TA TA TA TA CT- TT TA TA CTA -A AA CTT TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA
* *
5024176 TA TA TA TA TA TA TA TA CTT TA TA GTT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
5024212 CTTTTACTTT
Statistics
Matches: 772, Mismatches: 152, Indels: 314
0.62 0.12 0.25
Matches are distributed among these distances:
1 86 0.11
2 615 0.80
3 71 0.09
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:5023197 original size:150 final size:143
Alignment explanation
Indices: 5023027--5023505 Score: 389
Period size: 150 Copynumber: 3.3 Consensus size: 143
5023017 AAAGTATAAG
*
5023027 TATAT-TATAAGTATAT--ATATAAACTACAAAGTATATATACTTTATACTAAAACTTTATATAT
1 TATATATATAAGTATATAAATATAAA-TATAAAGTATATA-A-TTTATA-TAAAACTTTATATAT
*
5023089 ATTATATACTTTATATTATACATAAAGTTTTAGTATAAAGTATATATACATATATAAAAATATAA
62 ATTATATA--TTATATTATA-ATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAA
5023154 AGTATAAGTATATTATA-TA
124 AGTATAAGTATATTATAGTA
*
5023173 TATATATATAAAGTATATAAATATATAATATAATGTATATAA-TTATATAAAGTA-TATATATAT
1 TATATATAT-AAGTATATAAATATA-AATATAAAGTATATAATTTATATAAA--ACT-T-TATAT
* **
5023236 ATATATATATATATATATATATATATAAAGTTTTAGTATAAAGTATAAATAGGTATATAATAATA
60 ATAT-TATATAT-TATAT-TATA-ATAAAGTTTTAGTATAAAGTATATATACATATATAATAATA
*
5023301 TAATGTAT-A-TAAGTATTA-AGTA
121 TAAAGTATAAGT-A-TATTATAGTA
* *
5023323 TA-AGTATATAAGTAT-TAAATATAAAATATATAAGTATACAAGTATATATATAAAC----TATA
1 TATA-TATATAAGTATATAAATAT-AAATATA-AAGTATATAA-TTTATATA-AAACTTTATATA
* * *
5023382 -A--A-GTA-TATA-TCT-ATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAC
61 TATTATATATTATATTATAATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAG
* *
5023440 TATAAGTATAAGTATATTA
126 TATAAGTAT-ATTATAGTA
* * *
5023459 TATATATAT-A--ATATAATTATAAAGACTAAAGTATATAA-GTATATAAA
1 TATATATATAAGTATATAAATATAAATA-TAAAGTATATAATTTATATAAA
5023506 TATAAATTAT
Statistics
Matches: 280, Mismatches: 24, Indels: 74
0.74 0.06 0.20
Matches are distributed among these distances:
130 2 0.01
131 6 0.02
133 15 0.05
134 53 0.19
135 6 0.02
136 13 0.05
137 1 0.00
138 4 0.01
140 2 0.01
141 1 0.00
144 1 0.00
145 4 0.01
146 9 0.03
147 9 0.03
148 25 0.09
149 34 0.12
150 85 0.30
151 8 0.03
152 2 0.01
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (143 bp):
TATATATATAAGTATATAAATATAAATATAAAGTATATAATTTATATAAAACTTTATATATATTA
TATATTATATTATAATAAAGTTTTAGTATAAAGTATATATACATATATAATAATATAAAGTATAA
GTATATTATAGTA
Found at i:5023373 original size:22 final size:21
Alignment explanation
Indices: 5023120--5023768 Score: 169
Period size: 21 Copynumber: 31.9 Consensus size: 21
5023110 ATAAAGTTTT
*
5023120 AGTATAAAGTATATATACAT-
1 AGTATAAAGTATATATATATA
* *
5023140 A-TATAAA-AATATAAAGTATA
1 AGTATAAAGTATATATA-TATA
*
5023160 AGTAT--ATTATATATATAT-
1 AGTATAAAGTATATATATATA
5023178 A-TATAAAGTATATAAATATATA
1 AGTATAAAGTATAT--ATATATA
*
5023200 A-TATAATGTATATA-AT-T-
1 AGTATAAAGTATATATATATA
5023217 A-TATAAAGTATATATATATA
1 AGTATAAAGTATATATATATA
*
5023237 TA-TATATA-TATATATATATA
1 -AGTATAAAGTATATATATATA
*
5023257 TA-TATAAAGT-TTTAGTATA-A
1 -AGTATAAAGTATATA-TATATA
**
5023277 AGTAT-AA--ATAGGTATATA
1 AGTATAAAGTATATATATATA
* *
5023295 A-TA-ATA-TA-ATGTATATA
1 AGTATAAAGTATATATATATA
* **
5023312 AGTATTAAGTATAAGTATATA
1 AGTATAAAGTATATATATATA
*
5023333 AGTATTAAA-TATAAAATATATA
1 AGTA-TAAAGTAT-ATATATATA
5023355 AGTATACAAGTATATATATA-A
1 AGTATA-AAGTATATATATATA
* *
5023376 ACTATAAAGTATATATCTATAA
1 AGTATAAAGTATATATATAT-A
**
5023398 AGT-TTTAGTATAAAGTATATATA
1 AGTATAAAGTAT--A-TATATATA
*
5023421 CA-TATATAA-TAATATAAACTATA
1 -AGTATA-AAGT-ATATATA-TATA
5023444 AGTAT-AAGTATAT-TATAT-
1 AGTATAAAGTATATATATATA
5023462 A-TATATAA-TATA-AT-TATAA
1 AGTATA-AAGTATATATATAT-A
5023481 AG-ACTAAAGTATATAAGTATATA
1 AGTA-TAAAGTATAT-A-TATATA
* *
5023504 AATATAAATTATATATACGTAT-
1 AGTATAAAGTATATATA--TATA
* *
5023526 AGAAT-AA-TATAAAGTATATA
1 AGTATAAAGTATATA-TATATA
* * *
5023546 AGTACATAA-TAAAAAATATATA
1 AGTATA-AAGT-ATATATATATA
* *
5023568 AGCAATAAA-TATAAATATATA
1 AG-TATAAAGTATATATATATA
5023589 AGTATTAAA-TAT-TAAGTATATA
1 AGTA-TAAAGTATAT-A-TATATA
* *
5023611 AGTATATA-TATAAACTATA-A
1 AGTATAAAGTATATA-TATATA
* *
5023631 AGTGTATA-TATATATATA-A
1 AGTATAAAGTATATATATATA
**
5023650 AGT-TTTAGTATGAAGTATATATA
1 AGTATAAAGTAT--A-TATATATA
*
5023673 CA-TATATA--ATA-ATATA-A
1 -AGTATAAAGTATATATATATA
5023690 AGTAT-AAGTATATATATAT-
1 AGTATAAAGTATATATATATA
*
5023709 A-TATATA-TATATA-ATTATA
1 AGTATAAAGTATATATA-TATA
*
5023728 AATAATAAAGTATATA-AGTATA
1 AGT-ATAAAGTATATATA-TATA
5023750 TA-TATAAAGTATATATATA
1 -AGTATAAAGTATATATATA
5023769 CTTTATAGTT
Statistics
Matches: 488, Mismatches: 56, Indels: 169
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.00
17 43 0.09
18 45 0.09
19 56 0.11
20 80 0.16
21 111 0.23
22 93 0.19
23 38 0.08
24 17 0.03
25 3 0.01
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (21 bp):
AGTATAAAGTATATATATATA
Found at i:5023397 original size:15 final size:15
Alignment explanation
Indices: 5023377--5023419 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
5023367 TATATATAAA
5023377 CTATAAAGTATATAT
1 CTATAAAGTATATAT
*
5023392 CTATAAAGT-TTTA-
1 CTATAAAGTATATAT
*
5023405 GTATAAAGTATATAT
1 CTATAAAGTATATAT
5023420 ACATATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 8 0.35
14 6 0.26
15 9 0.39
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (15 bp):
CTATAAAGTATATAT
Found at i:5023462 original size:13 final size:12
Alignment explanation
Indices: 5023414--5023480 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 12
5023404 AGTATAAAGT
5023414 ATATATACATAT-
1 ATATATA-ATATA
5023426 ATA-ATAATATA
1 ATATATAATATA
5023437 A-ACTATAAGTATA
1 ATA-TATAA-TATA
*
5023450 AGTATATTATAT-
1 A-TATATAATATA
5023462 ATATATAATATA
1 ATATATAATATA
5023474 AT-TATAA
1 ATATATAA
5023481 AGACTAAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
10 5 0.11
11 18 0.39
12 10 0.22
13 8 0.17
14 4 0.09
15 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (12 bp):
ATATATAATATA
Found at i:5023462 original size:19 final size:19
Alignment explanation
Indices: 5023422--5023479 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
5023412 GTATATATAC
5023422 ATATATA-ATAATATAA--
1 ATATATATATAATATAATT
5023438 ACTATA-AGTATAAGTAT-ATT
1 A-TATATA-TATAA-TATAATT
5023458 ATATATATATAATATAATT
1 ATATATATATAATATAATT
5023477 ATA
1 ATA
5023480 AAGACTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 2 0.06
17 4 0.12
18 8 0.24
19 18 0.53
20 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
ATATATATATAATATAATT
Found at i:5023923 original size:22 final size:21
Alignment explanation
Indices: 5023898--5024623 Score: 300
Period size: 22 Copynumber: 33.0 Consensus size: 21
5023888 ATAAAGTGTG
5023898 TATATATACTTTATAATTTATATA
1 TATATATACTTTAT-A-TT-TATA
5023922 TACTTATATACTTTATATTTAATA
1 TA--TATATACTTTATATTT-ATA
5023946 CTTACTATATACTTTATATTATATA
1 --TA-TATATACTTTATATT-TATA
* *
5023971 CATATATACTTATATTATTATACA
1 TATATATACTT-TA-TATT-TATA
5023995 TATATATACTTTATATTTA-A
1 TATATATACTTTATATTTATA
*
5024015 TACTTATATATTTTATA-TTATA
1 TA--TATATACTTTATATTTATA
*
5024037 TACTTATATACCTTATA-TTATA
1 TA--TATATACTTTATATTTATA
* * *
5024059 TGTTTATACTTTAATCTTTATA
1 TATATATACTTT-ATATTTATA
5024081 -AT-TATACTTTATA-TTATA
1 TATATATACTTTATATTTATA
*
5024099 TATATATA-TATATATATTATA
1 TATATATACTTTATAT-TTATA
5024120 TACT-TATACTTTATA-TTATTA
1 TA-TATATACTTTATATTTA-TA
* *
5024141 TATATGTA-TATATACTTT-TA
1 TATATATACTTTATA-TTTATA
*
5024161 TACTA-AAACTTTATATATATATA
1 TA-TATATACTTTATAT-T-TATA
5024184 TATATATACTTTATAGTTTATA
1 TATATATACTTTATA-TTTATA
5024206 TATATACTTTTACTTTATAGTTTATA
1 TATATA----TACTTTATA-TTTATA
5024232 TATATACTTTTACTTTATAGTTTATA
1 TATATA----TACTTTATA-TTTATA
*
5024258 TATATATACTTATATACTTTAGTC
1 TATATATACTT-TATA-TTTA-TA
*
5024282 T-T-TATA-ATTATACTTTATA
1 TATATATACTTTATA-TTTATA
*
5024301 TTTA-ATACTTATATATTTTATA
1 TATATATACTT-TATA-TTTATA
5024323 TATATA--CTTATATACTTTATA
1 TATATATACTT-TATA-TTTATA
*
5024344 T-TATATGCTTCTATATTT-TA
1 TATATATACTT-TATATTTATA
* * *
5024364 GTCTTTATA-ATTATACTTTATA
1 -TATATATACTTTATA-TTTATA
5024386 TAT-T-TACTTT-TACTTTATA
1 TATATATACTTTATA-TTTATA
* * **
5024405 GTTTATATA-TATATATACATA
1 -TATATATACTTTATATTTATA
* *
5024426 CATACATACT-TATATTTTATA
1 TATATATACTTTATA-TTTATA
* *
5024447 TGTATATATACTTTGTA--T-TC
1 --TATATATACTTTATATTTATA
5024467 T-TATATACTTTATA-TTATA
1 TATATATACTTTATATTTATA
*
5024486 TACTTATATACTTTATTCTTTATA
1 TA--TATATACTTTA-TATTTATA
*
5024510 -AT-TATACTTTATTTATATATA
1 TATATATACTTTA--TATTTATA
5024531 TATAATATAC-TTATATTTTATA
1 TAT-ATATACTTTATA-TTTATA
*
5024553 TTATTATATATGTATATATAGTTTATA
1 -TA-TATATA-CT-T-TATA-TTTATA
* * *
5024580 TATATATA-TATATA-TAATT
1 TATATATACTTTATATTTATA
5024599 TATAGTATACTTATATACTTTATA
1 TATA-TATACTT-TATA-TTTATA
5024623 T
1 T
5024624 GTAAACTATA
Statistics
Matches: 560, Mismatches: 62, Indels: 160
0.72 0.08 0.20
Matches are distributed among these distances:
17 12 0.02
18 7 0.01
19 31 0.06
20 89 0.16
21 89 0.16
22 134 0.24
23 51 0.09
24 46 0.08
25 25 0.04
26 66 0.12
27 10 0.02
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATATACTTTATATTTATA
Found at i:5023933 original size:135 final size:134
Alignment explanation
Indices: 5023681--5023940 Score: 445
Period size: 134 Copynumber: 1.9 Consensus size: 134
5023671 TACATATATA
5023681 ATAATATAAAGTATAAGTATATATATATATATATATATATAATTATAAATAATAAAGTATATAAG
1 ATAATATAAAGTATAAGTATATATATATATATATATATATAATTATAAATAATAAAGTATATAAG
*
5023746 TATATATATAAAGTATATATATACTTTATAGTTTATATATATACTTATATACTTTATATTATGTA
66 TATATATATAAAGTATATATATACTTTATAGATTATATATATACTTATATACTTTATATTATGTA
5023811 CTTT
131 CTTT
5023815 ATAATAT-AAGTATAAGTATATATATATATATATATAGTATAATTATAAATAATAAAGTATATAA
1 ATAATATAAAGTATAAGTATATATATATATATATATA-TATAATTATAAATAATAAAGTATATAA
*
5023879 GTATATAATATAAAGTGTGTATATATACTTTATA-ATT-TATATATACTTATATACTTTATATT
65 GTATAT-ATATAAA--GTATATATATACTTTATAGATTATATATATACTTATATACTTTATATT
5023941 TAATACTTAC
Statistics
Matches: 120, Mismatches: 2, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
133 29 0.24
134 40 0.33
135 32 0.27
136 2 0.02
137 17 0.14
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (134 bp):
ATAATATAAAGTATAAGTATATATATATATATATATATATAATTATAAATAATAAAGTATATAAG
TATATATATAAAGTATATATATACTTTATAGATTATATATATACTTATATACTTTATATTATGTA
CTTT
Found at i:5024248 original size:52 final size:49
Alignment explanation
Indices: 5024168--5024619 Score: 153
Period size: 50 Copynumber: 9.0 Consensus size: 49
5024158 TTATACTAAA
5024168 ACTTTATATATATATATATATATACTTTATAGTTTATATATATACTTTT
1 ACTTTATATATATATATATATATACTTTATAGTTTATATATATACTTTT
* *
5024217 ACTTTATAGTTTATATATATACTTTTACTTTATAGTTTATATATATATACTTATAT
1 ACTTTATA-TATATATATATA--TATACTTTATAG-TT-TATATATATACTT-T-T
* *
5024273 ACTTTAGTCT-T-TATA-AT-TATACTTTATA-TTTA-ATACT-TA--TAT
1 ACTTTA-TATATATATATATATATACTTTATAGTTTATATA-TATACTTTT
* *
5024315 A-TTT-TATATATATACT-TATATACTTTATA-TTATATGCTTCTATA-TTTT
1 ACTTTATATATATATA-TATATATACTTTATAGTT-TAT--ATATATACTTTT
* * * * *
5024363 AGTCTTTATAATTATACTTTATATATTTACTTT-TACTTTATAGTTTATA--TAT
1 A--CTTTAT-A-TATA-TATATATATATACTTTATAGTTTATA-TATATACTTTT
* * * * * * *
5024415 A-TATATACATACATACATACTTATATTTTATATGTATATATACTTTGTATTCTTATAT
1 ACTTTATATATATATATATA--TATACTTTATA-GT-T-TATA---TATATACTT-T-T
**
5024473 ACTTTATAT-TATATACT-TATATACTTTATTCTTTATA-ATTATAC-TTT
1 ACTTTATATATATATA-TATATATACTTTATAGTTTATATA-TATACTTTT
* * * *
5024520 A-TTTATATATATATAATATACTTATATTTTATATTATTATATATGTA-TATAT
1 ACTTTATATATATAT-ATATA--TATACTTTATAGT-TTATATATATACT-TTT
* * *
5024572 AGTTTATATATATATATATATATAATTTATAGTATACT-TATATACTTT
1 ACTTTATATATATATATATATATACTTTATAGTTTA-TATATATACTTT
5024620 ATATGTAAAC
Statistics
Matches: 301, Mismatches: 45, Indels: 114
0.65 0.10 0.25
Matches are distributed among these distances:
39 2 0.01
40 1 0.00
41 7 0.02
42 3 0.01
43 13 0.04
44 3 0.01
46 18 0.06
47 17 0.06
48 16 0.05
49 23 0.08
50 49 0.16
51 12 0.04
52 28 0.09
53 27 0.09
54 32 0.11
55 17 0.06
56 18 0.06
57 1 0.00
58 9 0.03
59 5 0.02
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (49 bp):
ACTTTATATATATATATATATATACTTTATAGTTTATATATATACTTTT
Found at i:5024304 original size:6 final size:6
Alignment explanation
Indices: 5023994--5024418 Score: 103
Period size: 7 Copynumber: 63.7 Consensus size: 6
5023984 ATTATTATAC
*
5023994 ATATAT ATACTTT ATATTT AATACTTAT ATATTTT ATATTAT ATACTTAT
1 ATATTT ATA-TTT ATATTT -ATA-TT-T ATA-TTT ATATT-T ATA-TT-T
* * * *
5024044 ATACCTT ATATTAT ATGTTT ATACTTT AATCTTT ATAATT ATACTTT ATATTAT
1 ATA-TTT ATATT-T ATATTT ATA-TTT -ATATTT ATATTT ATA-TTT ATATT-T
* * * *
5024098 ATATATAT ATATAT ATATTAT ATACTT ATACTTT ATA-TT AT-TAT ATATGT
1 ATAT-T-T ATATTT ATATT-T ATATTT ATA-TTT ATATTT ATATTT ATATTT
* * * * * *
5024148 ATATAT ACT-TTT ATACTA AAACTTT ATA--T ATATAT ATATAT ATACTTT
1 ATATTT A-TATTT ATATTT ATA-TTT ATATTT ATATTT ATATTT ATA-TTT
* *
5024196 ATAGTTT ATATAT ATACTTT -TACTTT ATAGTTT ATATAT ATACTTT -TACTTT
1 ATA-TTT ATATTT ATA-TTT ATA-TTT ATA-TTT ATATTT ATA-TTT ATA-TTT
* *
5024248 ATAGTTT ATATATAT ATACTTAT ATACTTT AGTCTTT ATAATT ATACTTT
1 ATA-TTT ATAT-T-T ATA-TT-T ATA-TTT A-TATTT ATATTT ATA-TTT
*
5024298 ATATTT AATACTTAT ATATTTT ATATAT ATACTTAT ATACTTT ATATTAT
1 ATATTT -ATA-TT-T ATA-TTT ATATTT ATA-TT-T ATA-TTT ATATT-T
* * *
5024348 ATGCTTCT ATATTTT AGTCTTT ATAATT ATACTTT ATATATT -TACTTT
1 AT-ATT-T ATA-TTT A-TATTT ATATTT ATA-TTT ATAT-TT ATA-TTT
*
5024396 -TACTTT ATAGTTT ATATAT ATAT
1 ATA-TTT ATA-TTT ATATTT ATAT
5024419 ATACATACAT
Statistics
Matches: 327, Mismatches: 48, Indels: 88
0.71 0.10 0.19
Matches are distributed among these distances:
4 4 0.01
5 8 0.02
6 116 0.35
7 135 0.41
8 61 0.19
9 3 0.01
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (6 bp):
ATATTT
Found at i:5024337 original size:43 final size:44
Alignment explanation
Indices: 5024242--5024386 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 44
5024232 TATATACTTT
* * * * *
5024242 TACTTTATAGTTTATATATATATACTTATATACTTTAGTCTTTA
1 TACTTTATACTTTATATTTATATACTTATATATTTTAGTATATA
*
5024286 TA-ATTATACTTTATATTTA-ATACTTATATATTTTA-TATATA
1 TACTTTATACTTTATATTTATATACTTATATATTTTAGTATATA
* * * *
5024327 TACTTATATACTTTATA-TTATATGCTTCTATATTTTAGTCTTTA
1 TACTT-TATACTTTATATTTATATACTTATATATTTTAGTATATA
*
5024371 TA-ATTATACTTTATAT
1 TACTTTATACTTTATAT
5024387 ATTTACTTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 6 0.07
42 30 0.36
43 40 0.48
44 8 0.10
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (44 bp):
TACTTTATACTTTATATTTATATACTTATATATTTTAGTATATA
Found at i:5024412 original size:85 final size:85
Alignment explanation
Indices: 5024242--5024501 Score: 237
Period size: 85 Copynumber: 3.2 Consensus size: 85
5024232 TATATACTTT
*
5024242 TACTT-TATAGTTTATATATATATACTTATATACTTTAGTCTTTATAATTATACTTTATATTTAA
1 TACTTATATACTTTATATATATATACTTATATACTTTAGTCTTTATAATTATACTTTATATTT-A
5024306 TACTTATATATTTTATATATA
65 TACTTATATATTTTATATATA
* * *
5024327 TACTTATATACTTTATAT-TATATGCTTCTATATTTTAGTCTTTATAATTATACTTTATATATT-
1 TACTTATATACTTTATATATATATACTTATATACTTTAGTCTTTATAATTATACTTTATAT-TTA
* *
5024390 TACTT-T-TACTTTATAGTTTA
65 TACTTATATATTTTATA-TATA
** * * * * *
5024410 TA-TATATATA-TACATACATACATACTTATAT--TTTA-TATGTAT-A-TATACTTTGTA--T-
1 TACT-TATATACTTTATATATATATACTTATATACTTTAGTCTTTATAATTATACTTTATATTTA
*
5024465 T-CTTATATACTTTATATTATA
65 TACTTATATATTTTATA-TATA
5024486 TACTTATATACTTTAT
1 TACTTATATACTTTAT
5024502 TCTTTATAAT
Statistics
Matches: 147, Mismatches: 19, Indels: 26
0.77 0.10 0.14
Matches are distributed among these distances:
74 3 0.02
75 3 0.02
76 20 0.14
77 4 0.03
78 10 0.07
79 1 0.01
80 5 0.03
81 4 0.03
82 13 0.09
83 22 0.15
84 5 0.03
85 44 0.30
86 13 0.09
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (85 bp):
TACTTATATACTTTATATATATATACTTATATACTTTAGTCTTTATAATTATACTTTATATTTAT
ACTTATATATTTTATATATA
Found at i:5024494 original size:13 final size:13
Alignment explanation
Indices: 5024467--5024556 Score: 55
Period size: 13 Copynumber: 6.9 Consensus size: 13
5024457 CTTTGTATTC
5024467 TTATATACTTTATA
1 TTATATAC-TTATA
5024481 TTATATACTTATA
1 TTATATACTTATA
* *
5024494 TACTTTATTCTT-TA
1 T--TATATACTTATA
*
5024508 TAATTATACTT-TA
1 TTA-TATACTTATA
5024521 TT-TATA-TATATA
1 TTATATACT-TATA
*
5024533 TAATATACTTATA
1 TTATATACTTATA
*
5024546 TTTTATA-TTAT
1 TTATATACTTAT
5024557 TATATATGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
10 1 0.02
11 5 0.08
12 7 0.12
13 28 0.47
14 12 0.20
15 7 0.12
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATATACTTATA
Found at i:5024530 original size:2 final size:2
Alignment explanation
Indices: 5024523--5024888 Score: 99
Period size: 2 Copynumber: 188.0 Consensus size: 2
5024513 ATACTTTATT
*
5024523 TA TA TA TA TA TA -A TA TA CT- TA TA T- TT TA TA T- TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5024561 TA TG TA TA TA TA GTT TA TA TA TA TA TA TA TA TA TA -A TT TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
5024603 GTA TA CT- TA TA TA CTT TA TA TG TA AA CTA TA TA AA T- TA TA TA
1 -TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
5024645 -A TT TA TA CA TA GTA TA TA TA -A TT TA TA -A T- TA TA CA TA -A
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
5024683 TA TA TA AA TA TA -A GT- TG TA TA TA TT TA AA TA TA -A T- TCA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* *
5024723 TA TA -A TT TA GTT TA TA TA TA GT- TCA -A TA GT- TCA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA T-A TA TA -TA T-A TA TA TA TA
* * * * * *
5024764 CTC TA TA GTT TA TA CA TGG TA TA TA TA -A TT TA TA CA TA -A TA
1 -TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
*
5024805 TA TA TA TA TA TA TA T- TA TA GTA TA TA -A TA -A TA TT 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
* *
5024845 TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA TG TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
5024885 TA TA
1 TA TA
5024889 CTTTATACTA
Statistics
Matches: 262, Mismatches: 52, Indels: 100
0.63 0.13 0.24
Matches are distributed among these distances:
1 30 0.11
2 211 0.81
3 21 0.08
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5024547 original size:25 final size:26
Alignment explanation
Indices: 5023698--5024688 Score: 192
Period size: 26 Copynumber: 37.6 Consensus size: 26
5023688 AAAGTATAAG
*
5023698 TATATATATATATATATA-TATATAAT
1 TATATATATATATATATACT-TATATT
* * * *
5023724 TATAAATA-ATAAAGTATA-TAAGTATA
1 TATATATATATATA-TATACTTA-TATT
*
5023750 TATATAAAGTATATATATACTTTATAGTT
1 TATATATA-TATATATATAC-TTATA-TT
5023779 TATATATATACT-TATATACTT-TATAT
1 TATATATATA-TATATATACTTATAT-T
* * ** *
5023805 TATGTACTTTATA-ATATAAGTATAAGTA
1 TATATA-TATATATATATACTTAT-A-TT
* *
5023833 TATATATATATATATATA-GTATAAT
1 TATATATATATATATATACTTATATT
* * ** *
5023858 TATAAATAATAAAGTATATAAGTATATAA
1 TATATAT-ATATA-TATATACTTATAT-T
* * *
5023887 TATAAAGTGTGTATATATACTTTATAATT
1 TATATA-TATATATATATAC-TTAT-ATT
*
5023916 TATATATA-CT-TATATACTTTATATT
1 TATATATATATATATATAC-TTATATT
*
5023941 TA-ATACT-TA-CTATATACTT-TA--
1 TATATA-TATATATATATACTTATATT
*
5023962 TAT-TATATACATATATACTTATA-T
1 TATATATATATATATATACTTATATT
*
5023986 TAT-TATACATATATATACTTTATATT
1 TATATATATATATATATAC-TTATATT
5024012 TA-ATACT-TATATAT-T--TTATA-T
1 TATATA-TATATATATATACTTATATT
5024033 TATATACT-TATATACCTTATA-TTATATGT
1 TATATA-TATATATA---TATACTTATAT-T
* * * * *
5024062 T-TATACTTTAATCTTTATAATTATACT
1 TATATA-TAT-ATATATATACTTATATT
*
5024089 T-TATAT-TATATATATA--TATATA
1 TATATATATATATATATACTTATATT
5024111 TATAT-TATATACT-TATACTT-TATAT
1 TATATATATATA-TATATACTTATAT-T
* *
5024136 TATTATATATGTATATATACTTTTATACTAA
1 TA-TATATATATATATATAC--TTATA-T-T
* *
5024167 AACTTTATATATATATATA-TATATACTT
1 TA-TATATATATATATATACT-TATA-TT
*
5024195 TATAGT-T-TATATATATACTTTTACTT
1 TATA-TATATATATATATACTTATA-TT
*
5024221 TATAGT-T-TATATATATACTTTTACTT
1 TATA-TATATATATATATACTTATA-TT
*
5024247 TATAGTTTATATATATATACTTATATACT
1 TATA-TATATATATATATACTTATAT--T
* *
5024276 T-TAGTCTTTATA-ATTATACTTTATATT
1 TATA-TATATATATA-TATAC-TTATATT
*
5024303 TA-ATACT-TATATAT-T--TTATATA
1 TATATA-TATATATATATACTTATATT
*
5024325 TATACT-TATATACTTTATA-TTATATGCT
1 TATA-TATATATA-TATATACTTATAT--T
* * * * *
5024353 TCTATATTTTAGTCTTTATAATTATACTT
1 TATATA-TATA-TATATATACTTATA-TT
*
5024382 TATATAT-T-TACT-TTTACTTTATAGTT
1 TATATATATATA-TATATAC-TTATA-TT
* *
5024408 TATATATATATATACATACATACATACTT
1 TATATATATATATATATAC-T-TATA-TT
* * *
5024437 ATATTTTATATGTATATATACTTTGTATTCT
1 -TA-TATATATATATATATAC-TTATA-T-T
*
5024468 TATATACTTTATATTATATACTTATATACT
1 TATATA-TATATA-TATATACTTATAT--T
* *
5024498 T-TAT-TCTTTATAATTATACTT-TATT
1 TATATATATATAT-A-TATACTTATATT
5024523 TATATATATATA-ATATACTTATATT
1 TATATATATATATATATACTTATATT
*
5024548 T-TATATTATTATATATGTA-TATATAGTT
1 TATATA-TA-TATATATATACT-TATA-TT
5024576 TATATATATATATATATA--TA-ATT
1 TATATATATATATATATACTTATATT
* *
5024599 TATAGTATA-CT-TATATACTTTATATG
1 TATA-TATATATATATATAC-TTATATT
* *
5024625 TAAACTATATAAAT-TATA--TA-ATT
1 TATA-TATATATATATATACTTATATT
* * *
5024648 TATACATAGTATATATA-ATTTATAAT
1 TATATATA-TATATATATACTTATATT
*
5024674 TATACATA-ATATATA
1 TATATATATATATATA
5024689 AATATAAGTT
Statistics
Matches: 743, Mismatches: 104, Indels: 238
0.68 0.10 0.22
Matches are distributed among these distances:
20 1 0.00
21 9 0.01
22 49 0.07
23 37 0.05
24 62 0.08
25 58 0.08
26 172 0.23
27 100 0.13
28 104 0.14
29 78 0.10
30 32 0.04
31 41 0.06
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (26 bp):
TATATATATATATATATACTTATATT
Found at i:5024590 original size:137 final size:137
Alignment explanation
Indices: 5024329--5024623 Score: 330
Period size: 137 Copynumber: 2.1 Consensus size: 137
5024319 TATATATATA
* * *
5024329 CTTATATACTTTATATTATATGCTTCTATATTTTAGTCTTTATAATTATACTTTATATATTTACT
1 CTTATATACTTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATTTACT
* * *
5024394 TTTACTTTATAGTTTATATATATATATACATACATACATACTTATATTTTATATGTATATATACT
66 TATACTTTATAGTTTATATATATATATACATACATACATACTTATATTATATATATATATATACT
5024459 TTGTATT
131 TTGTATT
*
5024466 CTTATATACTTTATATTATATACTTATATACTTTATTCTTTATAATTATACTTTATTTATATATA
1 CTTATATACTTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTA--TATAT-T-
* * ** * *
5024531 TA-TAATATAC-TTATATTTTATAT-TAT-TATATATGTATATATAGTT-TATATATATATATAT
62 TACT--TATACTTTATAGTTTATATATATATATACATACATACATACTTATAT-TATATATATAT
* *
5024591 ATATAATTTATAGTATA
124 ATAT-ACTT-T-GTATT
5024608 CTTATATACTTTATAT
1 CTTATATACTTTATAT
5024624 GTAAACTATA
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
137 51 0.38
138 3 0.02
139 32 0.24
140 8 0.06
141 15 0.11
142 24 0.18
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (137 bp):
CTTATATACTTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATTTACT
TATACTTTATAGTTTATATATATATATACATACATACATACTTATATTATATATATATATATACT
TTGTATT
Found at i:5024602 original size:15 final size:15
Alignment explanation
Indices: 5024523--5024888 Score: 70
Period size: 15 Copynumber: 23.8 Consensus size: 15
5024513 ATACTTTATT
5024523 TATATATATATAATA
1 TATATATATATAATA
* *
5024538 TACT-TATATTTTATA
1 TA-TATATATATAATA
*
5024553 T-TAT-TATATATGTA
1 TATATATATATA-ATA
*
5024567 TATATAGTTTATATATA
1 TATATA-TATATA-ATA
5024584 TATATATATATAAT-
1 TATATATATATAATA
*
5024598 T-TATAGTATACTTATA
1 TATATA-TATA-TAATA
* *
5024614 TACTTTATATGTAAACTA
1 TA-TATATATAT-AA-TA
*
5024632 TATAAATTATATAATTTA
1 TATATA-TATATAA--TA
*
5024650 TACATAGTATATATAATT
1 T--ATA-TATATATAATA
5024668 TATA-AT-TATACATAA
1 TATATATATATA-AT-A
*
5024683 TATATAAATATAAGT-
1 TATATATATATAA-TA
* *
5024698 TGTATATATTTAA-A
1 TATATATATATAATA
*
5024712 TATAATTCATATATAATT
1 TAT-A-T-ATATATAATA
* *
5024730 TAGTTTATATATAGT-
1 TA-TATATATATAATA
* *
5024745 TCA-ATA-GT-TCATA
1 T-ATATATATATAATA
* * *
5024758 TATATACTCTATAGTT
1 TATATA-TATATAATA
* *
5024774 TATACATGGTAT-ATA
1 TATATAT-ATATAATA
* *
5024789 TAATTTATACATAATA
1 T-ATATATATATAATA
5024805 TATATATATAT-ATA
1 TATATATATATAATA
5024819 T-TATAGTATATAATA
1 TATATA-TATATAATA
*
5024834 -ATATTTATAT-ATA
1 TATATATATATAATA
*
5024847 TATA-ATATACTTATA
1 TATATATATA-TAATA
* *
5024862 CTTTATAT-TATTATA
1 -TATATATATATAATA
*
5024877 TATGTATATATA
1 TATATATATATA
5024889 CTTTATACTA
Statistics
Matches: 252, Mismatches: 52, Indels: 94
0.63 0.13 0.24
Matches are distributed among these distances:
12 3 0.01
13 29 0.12
14 40 0.16
15 67 0.27
16 46 0.18
17 37 0.15
18 18 0.07
19 1 0.00
20 10 0.04
21 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (15 bp):
TATATATATATAATA
Found at i:5024682 original size:17 final size:17
Alignment explanation
Indices: 5024642--5024694 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
5024632 TATAAATTAT
*
5024642 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
5024662 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
5024679 ATAATATATAAATATA
1 ATAATTTATAATTATA
5024695 AGTTGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:5024723 original size:19 final size:21
Alignment explanation
Indices: 5024682--5024726 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5024672 ATTATACATA
*
5024682 ATATATAAATATAAGTTGTAT
1 ATATATAAATATAAGTTGCAT
*
5024703 ATATTTAAATATAA-TT-CAT
1 ATATATAAATATAAGTTGCAT
5024722 ATATA
1 ATATA
5024727 ATTTAGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATATAAATATAAGTTGCAT
Found at i:5024797 original size:11 final size:11
Alignment explanation
Indices: 5024783--5024855 Score: 71
Period size: 11 Copynumber: 6.7 Consensus size: 11
5024773 TTATACATGG
*
5024783 TATATATAATT
1 TATATATAATA
*
5024794 TATACATAATA
1 TATATATAATA
5024805 TATATAT-ATA
1 TATATATAATA
*
5024815 TATATTATAGTA
1 TATA-TATAATA
5024827 TATA-ATAATA
1 TATATATAATA
*
5024837 TTTATAT-ATA
1 TATATATAATA
5024847 TATAATATA
1 TAT-ATATA
5024856 CTTATACTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
10 20 0.40
11 24 0.48
12 6 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (11 bp):
TATATATAATA
Found at i:5027285 original size:2 final size:2
Alignment explanation
Indices: 5027278--5027943 Score: 264
Period size: 2 Copynumber: 334.5 Consensus size: 2
5027268 TTACAAAAAC
5027278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA CT- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
5027319 TA CTT TA GTC TT TA TA -A T- TA TA CTA TA TA TA TA TA CT- TT TA
1 TA -TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* *
5027360 CTT TA TA GTT TA TA TA TA TA TA TA TA TA TA TA TA CT- TA TA T-
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * * *
5027401 TT TA TA TG TA TA TA TA CTT TA GTC TT TA T- TA T- TA TA CTT TA
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA TA
* *
5027442 TA TA TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA TG
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
5027482 TA TA TA TA CTT TA TA TA TA TA TA TA TA TA TA TA TA TA GT- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
5027525 TA CTA TA TA TT TA AA CTA TA TA AA T- TA TA TA -A TT TA TA CA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5027567 GTA TA TA TA -A TT TA TA -A T- TA TA CA TA -A TA TA TA AA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5027606 -A GT- TG TA TA TA TT TA AA TA TA -A T- TCA TA TA TA -A T- TGA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T-A
* * *
5027643 GTT TA TA TA TA GT- TCA -A TA GT- TCA TA TA TA CTC TA TA GTT TA
1 -TA TA TA TA TA -TA T-A TA TA -TA T-A TA TA TA -TA TA TA -TA TA
* * *
5027685 TA CA TA T- TA TA TA TA -A TT TA TA CA TA -A TA TA TA TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5027722 TT TA TA TA TA GTA TA TA -A TA -A TA -A AA TA TA -A AA TA TA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
5027760 AA TA TA GTT TA TA TA TA GTT TA TA TA TA TA TA TA TA CTT TA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
5027803 TA TA CA CTA TA TA CTT TA TA TA TA CA CTA TA TA GTT TA TA TA -A
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * * *
5027846 TA AA CTA TA TA GTT TA TA CA TA -A TA TA TA TA GTT TA TA -A TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
5027887 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
5027929 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
5027944 TGTTTCAAAT
Statistics
Matches: 498, Mismatches: 85, Indels: 162
0.67 0.11 0.22
Matches are distributed among these distances:
1 42 0.08
2 416 0.84
3 39 0.08
4 1 0.00
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5027406 original size:96 final size:95
Alignment explanation
Indices: 5027344--5027534 Score: 79
Period size: 103 Copynumber: 2.0 Consensus size: 95
5027334 AATTATACTA
* *
5027344 TATATATATACTTT--TACTTTATAGTTTATA-TATATATATATATATATATACTTATATTTTAT
1 TATATATATACTTTAGT-CTTTATA-ATTATACT-TATATATATATA-ATATACTTATACTTTAT
* * *
5027406 ATGTATATATACTTTAGTCTTTATTA-TTATACTTTATATA
62 A--TATATATA-TATA-TATATA-TACTTATA-TTT-TATA
*
5027446 TATATAATATAC-TTA-TACTTTAT-A-T-TA-TTATATATGTAT-ATATACTT-TA---TATAT
1 TATAT-ATATACTTTAGT-CTTTATAATTATACTTATATATATATAATATACTTATACTTTATAT
* **
5027500 ATATATATATATATATATAGTTATATACTATA
64 ATATATATATATATATATACTTATATTTTATA
5027532 TAT
1 TAT
5027535 TTAAACTATA
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
86 7 0.09
87 3 0.04
88 9 0.11
89 3 0.04
90 8 0.10
92 4 0.05
95 2 0.03
96 8 0.10
98 10 0.13
99 3 0.04
100 1 0.01
102 7 0.09
103 14 0.18
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (95 bp):
TATATATATACTTTAGTCTTTATAATTATACTTATATATATATAATATACTTATACTTTATATAT
ATATATATATATATATACTTATATTTTATA
Found at i:5028895 original size:2 final size:2
Alignment explanation
Indices: 5028890--5028932 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5028880 TTTTTTAGAT
5028890 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
5028932 T
1 T
5028933 TTTTTTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5029062 original size:17 final size:16
Alignment explanation
Indices: 5028982--5029067 Score: 61
Period size: 16 Copynumber: 5.4 Consensus size: 16
5028972 ATTACTATTT
5028982 TTTTTTTA-TTATATA
1 TTTTTTTATTTATATA
* * * *
5028997 TATATATATATATATA
1 TTTTTTTATTTATATA
*
5029013 TTTTTTTACTTT-TTTA
1 TTTTTTTA-TTTATATA
* * *
5029029 TTATTAT-TTTATTTA
1 TTTTTTTATTTATATA
5029044 TTTGTTTTATTTATATA
1 TTT-TTTTATTTATATA
5029061 TTTTTTT
1 TTTTTTT
5029068 CCTTCTTTTT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
14 3 0.06
15 11 0.21
16 26 0.50
17 12 0.23
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (16 bp):
TTTTTTTATTTATATA
Found at i:5029077 original size:26 final size:24
Alignment explanation
Indices: 5029007--5029083 Score: 70
Period size: 26 Copynumber: 3.1 Consensus size: 24
5028997 TATATATATA
5029007 TATATATTTTTTTAC-TTTTTTA-T
1 TATATATTTTTTT-CTTTTTTTATT
*
5029030 TAT-TATTTTATTTATTTGTTTTATT
1 TATATATTTT-TTTCTTT-TTTTATT
*
5029055 TATATATTTTTTTCCTTCTTTTTCTT
1 TATATATTTTTTT-CTT-TTTTTATT
5029081 TAT
1 TAT
5029084 TTCTTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
22 6 0.14
23 8 0.18
24 5 0.11
25 7 0.16
26 17 0.39
27 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.74
Consensus pattern (24 bp):
TATATATTTTTTTCTTTTTTTATT
Found at i:5029084 original size:48 final size:48
Alignment explanation
Indices: 5029001--5029105 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
5028991 TATATATATA
*
5029001 TATATATATATATTTTTTTACTTTTTTATTATTATTTTATTTATTTGTT
1 TATATTTATATATTTTTTTACTTTTTTATTATTA-TTTATTTATTTGTT
* * *
5029050 T-TATTTATATATTTTTTTCCTTCTTTT-TCT-TTATTTCTTTATTTTTT
1 TATATTTATATATTTTTTTACTT-TTTTAT-TATTATTTATTTATTTGTT
5029097 TATATTTAT
1 TATATTTAT
5029106 TTTACTTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
47 13 0.27
48 30 0.61
49 6 0.12
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (48 bp):
TATATTTATATATTTTTTTACTTTTTTATTATTATTTATTTATTTGTT
Found at i:5032142 original size:13 final size:12
Alignment explanation
Indices: 5032097--5032165 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 12
5032087 GAATAAAAAG
5032097 AAAAAAGAGAAA
1 AAAAAAGAGAAA
*
5032109 AAAAACAAAGAAA
1 AAAAA-AGAGAAA
*
5032122 AAGTAAAGAGAAA
1 AA-AAAAGAGAAA
5032135 ATAAAAAGGAGAAA
1 A-AAAAA-GAGAAA
5032149 CAAAAATAGAGGAAA
1 -AAAAA-AGA-GAAA
5032164 AA
1 AA
5032166 GTAAAGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
12 5 0.11
13 18 0.39
14 17 0.37
15 6 0.13
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:5032147 original size:40 final size:41
Alignment explanation
Indices: 5032091--5032179 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
5032081 CAATCAGAAT
5032091 AAAAAGAAAAAAGAGAAA-AAAAACA-AAGAAAAAGTAAAG
1 AAAAAGAAAAAAGAGAAACAAAAACAGAAGAAAAAGTAAAG
* * * *
5032130 AGAAAATAAAAAGGAGAAACAAAAATAGAGGAAAAAGTAAAG
1 A-AAAAGAAAAAAGAGAAACAAAAACAGAAGAAAAAGTAAAG
5032172 AAAAAGAA
1 AAAAAGAA
5032180 GACAAGACGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 15 0.36
41 12 0.29
42 14 0.33
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.04
Consensus pattern (41 bp):
AAAAAGAAAAAAGAGAAACAAAAACAGAAGAAAAAGTAAAG
Found at i:5033301 original size:30 final size:31
Alignment explanation
Indices: 5033241--5033344 Score: 111
Period size: 32 Copynumber: 3.3 Consensus size: 31
5033231 ATCTTTGAAG
* * *
5033241 ATTCAACATCAAATGTT-GGGTATTTTTTTT
1 ATTCAACATCAAATATTGGGGCATTTTTTTA
*
5033271 ATTTAACATCAAATATTGGGGCATTTTTTTA
1 ATTCAACATCAAATATTGGGGCATTTTTTTA
* ***
5033302 GATTCAACATCGAATATTGGGGCATCTTTGGGA
1 -ATTCAACATCAAATATTGGGGCAT-TTTTTTA
5033335 ATTCAACATC
1 ATTCAACATC
5033345 CTGATGCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
30 15 0.24
31 11 0.18
32 32 0.52
33 4 0.06
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (31 bp):
ATTCAACATCAAATATTGGGGCATTTTTTTA
Found at i:5033311 original size:32 final size:32
Alignment explanation
Indices: 5033239--5033326 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
5033229 GCATCTTTGA
* *
5033239 AGATTCAACATCAAATGTT-GGGTATTTTTTT
1 AGATTCAACATCAAATATTGGGGCATTTTTTT
* *
5033270 -TATTTAACATCAAATATTGGGGCATTTTTTT
1 AGATTCAACATCAAATATTGGGGCATTTTTTT
*
5033301 AGATTCAACATCGAATATTGGGGCAT
1 AGATTCAACATCAAATATTGGGGCAT
5033327 CTTTGGGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 15 0.31
31 11 0.23
32 22 0.46
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATTTTTTT
Found at i:5033877 original size:106 final size:105
Alignment explanation
Indices: 5033710--5034043 Score: 443
Period size: 106 Copynumber: 3.2 Consensus size: 105
5033700 ATGTCGTGCC
* * * * * *
5033710 ACTCGAGACAACACAAGTTCAACTCCACAATGAAGGGACGACTGGTTATCAATAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
5033775 AATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCA-AGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
5033816 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
5033881 AATTTCGAAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTC-AAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * **
5033922 ACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGGGTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * * * *
5033987 AGTTCCAGAGCCAATTTTAACTTCACATCGGAGGATATTGG
66 AATTTCA-AGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
5034028 ACTCGAAACAATACAA
1 ACTCGAGACAACACAA
5034044 CTTACTTGGA
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
105 1 0.00
106 199 0.99
107 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (105 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:5034432 original size:86 final size:88
Alignment explanation
Indices: 5034285--5034463 Score: 299
Period size: 86 Copynumber: 2.1 Consensus size: 88
5034275 TTGAGACTCT
*
5034285 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTT-C
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
5034349 CTTGAAA-CGAAATTTTGTCTCC
66 CTTGAAATCAAAATTTTGTCTCC
* * *
5034371 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
5034436 CTTGAAATCAAAATTTTGTCTCC
66 CTTGAAATCAAAATTTTGTCTCC
5034459 CTTGA
1 CTTGA
5034464 GACAGTTTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
86 59 0.69
87 8 0.09
88 19 0.22
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (88 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAATCAAAATTTTGTCTCC
Found at i:5034442 original size:36 final size:36
Alignment explanation
Indices: 5034395--5034582 Score: 115
Period size: 37 Copynumber: 5.3 Consensus size: 36
5034385 ATTGAAAACA
* * **
5034395 TTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAATAAATTTTATCTCCCTTGAGACAG
*
5034431 TTTCCCTTGAAATCAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAAT--AAATTTTATCTCCCTTGAGACAG
* * *
5034469 TTTCTCTTGAAATATAA----A----CATTGAAAACA-
1 TTTCCCTTGAAATA-AATTTTATCTCCCTTG-AGACAG
* * * * *
5034498 TTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTATCTCCCTTGAGACAG
* * *
5034534 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAA-TAAATTTTATCTCCCTTGAGACAG
*
5034571 TTTCTCTTGAAA
1 TTTCCCTTGAAA
5034583 CATAAACCTT
Statistics
Matches: 116, Mismatches: 22, Indels: 27
0.70 0.13 0.16
Matches are distributed among these distances:
28 2 0.02
29 15 0.13
30 4 0.03
35 3 0.03
36 28 0.24
37 34 0.29
38 30 0.26
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTATCTCCCTTGAGACAG
Found at i:5034559 original size:37 final size:37
Alignment explanation
Indices: 5034512--5034584 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
5034502 CTTTGAAATT
*
5034512 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
*
5034549 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
5034585 TAAACCTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:5034597 original size:102 final size:103
Alignment explanation
Indices: 5034371--5034611 Score: 376
Period size: 103 Copynumber: 2.3 Consensus size: 103
5034361 TTTTGTCTCC
* *
5034371 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
5034436 CTTGAAATCAAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAATCAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * * *
5034474 CTTGAAATATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
5034539 CTTGAAA-CAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAATCAAAATTTTGTCTCCCTTGAGACAGTTTCT
* **
5034576 CTTGAAACATAAACCTTGAAAATGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
5034612 CATAAAATAT
Statistics
Matches: 125, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 60 0.48
103 65 0.52
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (103 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAATCAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:5034699 original size:37 final size:37
Alignment explanation
Indices: 5034649--5034750 Score: 161
Period size: 36 Copynumber: 2.8 Consensus size: 37
5034639 AAAATGAGTT
5034649 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
* * *
5034686 TTGAGACAGTTTCCATTAAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
*
5034722 TTGAGATAGTTTCCCTTGAAACAAAATCT
1 TTGAGACAGTTTCCCTTGAAACAAAATCT
5034751 CTGAATATCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
36 32 0.56
37 25 0.44
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:5034827 original size:37 final size:36
Alignment explanation
Indices: 5034766--5034880 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 36
5034756 TATCTTTTCC
* * *
5034766 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAATAAATTTGGTCTCTCTTGAGACAGTTTCTT
* *
5034802 TTAGAACTAAGTTTGGTCTCTCTTGAGACAGTTTCTT
1 TT-GAAATAAATTTGGTCTCTCTTGAGACAGTTTCTT
* * *
5034839 TTGAAATAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAATAAATTTGGTCTCTCTTGAGACAGTTTCTT
5034875 TTGAAA
1 TTGAAA
5034881 CACAAAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 37 0.54
37 31 0.46
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (36 bp):
TTGAAATAAATTTGGTCTCTCTTGAGACAGTTTCTT
Found at i:5034909 original size:35 final size:37
Alignment explanation
Indices: 5034868--5034957 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 37
5034858 TCTTGAGACA
*
5034868 GTTTCTCTTGAAACACA-A-AAAAAACCCTCGAAATT
1 GTTTCTCTTGAAACACACACAAAAAACCCTCGAAAAT
* *
5034903 GTTTCTCTTGAAACACACACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTG-AA-ACACACACAAAAAACCCTCGAAAAT
*
5034942 ATTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
5034958 TAAACCCTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 10 0.21
36 2 0.04
37 9 0.19
38 3 0.06
39 23 0.49
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (37 bp):
GTTTCTCTTGAAACACACACAAAAAACCCTCGAAAAT
Found at i:5036092 original size:2 final size:2
Alignment explanation
Indices: 5036087--5036138 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
5036077 TTTACTTTAG
* * *
5036087 TA TA TA TA TA TA TA TA TA TT TT TA GA T- 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
5036128 TA TA TA TA TA T
1 TA TA TA TA TA T
5036139 TATTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:5036222 original size:2 final size:2
Alignment explanation
Indices: 5036217--5036241 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5036207 TTTTTTATTT
5036217 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5036242 TATTTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5036271 original size:25 final size:25
Alignment explanation
Indices: 5036241--5036320 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
5036231 TATATATATA
5036241 TTATTT-TTACTTTTTTATTATTATT
1 TTATTTATT-CTTTTTTATTATTATT
*
5036266 TTATTTATT-TGTTTTATTTATATATT
1 TTATTTATTCTTTTTTA-TTAT-TATT
*
5036292 TT-TTTCTTCTTTTTCT-TTATT-TT
1 TTATTTATTCTTTTT-TATTATTATT
5036315 TTATTT
1 TTATTT
5036321 TTTTATATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.09
24 10 0.22
25 19 0.41
26 12 0.26
27 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (25 bp):
TTATTTATTCTTTTTTATTATTATT
Found at i:5036274 original size:4 final size:4
Alignment explanation
Indices: 5036158--5036433 Score: 80
Period size: 4 Copynumber: 69.8 Consensus size: 4
5036148 TATTATCAGT
* * * * * *
5036158 TTTA TTAA TTTA TATA TATA TATA TATA TTTA -CTA TTT- TTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
5036203 TTTA TTT- TTTA TTTTA TATA TATA TATA TATA TATA TATTA -TT- TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * *
5036250 CTTT- TTTA -TTA -TTA TTTTA TTTA TTTGT TTTA TTTA TATA TTTT TTTC
1 -TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA
* * * * *
5036298 TTCTT TTTC TTTA TTT- TTTA TTT- TTT- TATA TTTA TTTTA CTTA -CTA
1 TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
* ** * * *
5036344 TTTTA TCT- TTGC TTTC TTTA TCTTA TCT- TTTA TTTAA TTTA TTT- TTTC
1 -TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTT-A TTTA TTTA TTTA
*
5036392 TTCA TTTTAA TTTAA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTT-A TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTT
5036434 CTTACCTTTT
Statistics
Matches: 214, Mismatches: 32, Indels: 52
0.72 0.11 0.17
Matches are distributed among these distances:
3 40 0.19
4 131 0.61
5 42 0.20
6 1 0.00
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:5036291 original size:17 final size:16
Alignment explanation
Indices: 5036099--5036296 Score: 55
Period size: 17 Copynumber: 11.8 Consensus size: 16
5036089 TATATATATA
**
5036099 TATATATTTTTAGATT
1 TATATATTTTTTTATT
* * * *
5036115 ATATATATATATATATA
1 -TATATATTTTTTTATT
5036132 TATATATTATTTTT-TT
1 TATATATT-TTTTTATT
*
5036148 TATTATCAGTTTTATTAATT
1 TA-TAT-A-TTTT-TTTATT
* * * *
5036168 TATATATATATATATA
1 TATATATTTTTTTATT
*
5036184 TATTTACTATTTTTTATT
1 TATATA-T-TTTTTTATT
*
5036202 T-TTTA-TTTTTTATTT
1 TATATATTTTTTTA-TT
* * *
5036217 TATATATATATATATATA
1 TATATAT-T-TTTTTATT
5036235 TATATATTATTTTTACTT
1 TATATATT-TTTTTA-TT
* * *
5036253 T-TTTATTATTAT-TT
1 TATATATTTTTTTATT
*
5036267 TATTTATTTGTTTTATT
1 TATATATTT-TTTTATT
5036284 TATATATTTTTTT
1 TATATATTTTTTT
5036297 CTTCTTTTTC
Statistics
Matches: 132, Mismatches: 32, Indels: 35
0.66 0.16 0.18
Matches are distributed among these distances:
14 10 0.08
15 9 0.07
16 31 0.23
17 46 0.35
18 21 0.16
19 11 0.08
20 4 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TATATATTTTTTTATT
Found at i:5036304 original size:24 final size:23
Alignment explanation
Indices: 5036235--5036349 Score: 78
Period size: 23 Copynumber: 5.0 Consensus size: 23
5036225 TATATATATA
5036235 TATATATTATTTTTACTTTTTTAT
1 TATATATT-TTTTTACTTTTTTAT
*
5036259 TAT-TATTTTATTTATTTGTTTTATT
1 TATATATTTT-TTTACTT-TTTTA-T
*
5036284 TATATATTTTTTT-CTTCTTT-T
1 TATATATTTTTTTACTTTTTTAT
* * *
5036305 TCTTTA-TTTTTTATTTTTTTA-
1 TATATATTTTTTTACTTTTTTAT
* * *
5036326 TATTTATTTTACTTACTATTTTAT
1 TATATATTTT-TTTACTTTTTTAT
5036350 CTTTGCTTTC
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
20 6 0.08
21 15 0.21
22 5 0.07
23 22 0.31
24 10 0.14
25 7 0.10
26 6 0.08
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (23 bp):
TATATATTTTTTTACTTTTTTAT
Found at i:5036320 original size:49 final size:50
Alignment explanation
Indices: 5036113--5036227 Score: 59
Period size: 45 Copynumber: 2.4 Consensus size: 50
5036103 TATTTTTAGA
* * * * *
5036113 TTATATATATATATATATATATATATTATT--TTTTTTATTATCAGTTTTAT
1 TTATTTATATTTATTTATATAT-TATTTTTACTTTTTTATTATTA-TTTTAT
* * * *
5036163 TAATTTATA--TATATATATA-TATATTTACTATTTT-TTATT-TTTTAT
1 TTATTTATATTTATTTATATATTATTTTTACTTTTTTATTATTATTTTAT
*
5036208 TT-TTTAT-TTTATATATATAT
1 TTATTTATATTTATTTATATAT
5036228 ATATATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
44 5 0.09
45 17 0.32
46 5 0.09
47 4 0.08
48 15 0.28
50 7 0.13
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (50 bp):
TTATTTATATTTATTTATATATTATTTTTACTTTTTTATTATTATTTTAT
Found at i:5036390 original size:16 final size:15
Alignment explanation
Indices: 5036191--5036433 Score: 87
Period size: 14 Copynumber: 15.9 Consensus size: 15
5036181 ATATATTTAC
5036191 TATTT-TTTATTTTT
1 TATTTATTTATTTTT
*
5036205 TATTT-TTTATTTTA
1 TATTTATTTATTTTT
* * * *
5036219 TATATATATA-TATA
1 TATTTATTTATTTTT
*
5036233 TATATATATTA-TTTT
1 TATTTAT-TTATTTTT
*
5036248 TACTTT-TTTA-TTAT
1 TA-TTTATTTATTTTT
5036262 TATTTTATTTATTTGTTT
1 TA-TTTATTTA-TT-TTT
*
5036280 TATTTATATATTTTT
1 TATTTATTTATTTTT
* *
5036295 T-TCTTCTTT-TTCTT
1 TAT-TTATTTATTTTT
5036309 TATTT-TTTATTTTT
1 TATTTATTTATTTTT
*
5036323 T-TATATTTATTTTACT
1 TATTTATTTATTTT--T
*
5036339 TACTATT-TTATCTTTGCTT
1 TA-T-TTATT-TATTT--TT
* *
5036358 TCTTTATCTTATCTTT
1 TATTTAT-TTATTTTT
5036374 TATTTAATTTATTTTT
1 TATTT-ATTTATTTTT
* * *
5036390 TCTTCATTT-TAATTT
1 TATTTATTTAT-TTTT
*
5036405 AATTTATTTATTTATT
1 TATTTATTTATTT-TT
5036421 TATTTATTTATTT
1 TATTTATTTATTT
5036434 CTTACCTTTT
Statistics
Matches: 172, Mismatches: 32, Indels: 48
0.68 0.13 0.19
Matches are distributed among these distances:
13 5 0.03
14 60 0.35
15 37 0.22
16 37 0.22
17 12 0.07
18 12 0.07
19 8 0.05
21 1 0.01
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (15 bp):
TATTTATTTATTTTT
Found at i:5036426 original size:26 final size:25
Alignment explanation
Indices: 5036371--5036430 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
5036361 TTATCTTATC
*
5036371 TTTTATTTAATTTATTTTTTCTTCA
1 TTTTATTTAATTTATTTTTTATTCA
*
5036396 TTTTAATTTAATTTATTTATTTATTTA
1 TTTT-ATTTAATTTATTT-TTTATTCA
5036423 -TTTATTTA
1 TTTTATTTA
5036431 TTTCTTACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 16 0.52
27 6 0.19
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTATTTAATTTATTTTTTATTCA
Found at i:5039073 original size:3 final size:3
Alignment explanation
Indices: 5039067--5039103 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
5039057 GGTAATAATA
5039067 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5039104 AAACGTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5046640 original size:20 final size:20
Alignment explanation
Indices: 5046612--5046656 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5046602 CTCTTTTAAT
* *
5046612 ATTTTATTTTAAAAATAAAA
1 ATTTAATTTCAAAAATAAAA
* *
5046632 ATTTAATTTCATAGATAAAA
1 ATTTAATTTCAAAAATAAAA
5046652 ATTTA
1 ATTTA
5046657 TTAAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTAATTTCAAAAATAAAA
Found at i:5046995 original size:3 final size:3
Alignment explanation
Indices: 5046987--5047017 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
5046977 GGTCAAAAAA
5046987 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5047018 AATATTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5048124 original size:19 final size:18
Alignment explanation
Indices: 5048090--5048139 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
5048080 CAGTCACCAG
5048090 TTTATT-TATT-ATACAT
1 TTTATTATATTCATACAT
5048106 TTTATTATATTCATGACAT
1 TTTATTATATTCAT-ACAT
5048125 TTGTAATTAT-TTCAT
1 TT-T-ATTATATTCAT
5048140 TTAAGTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 2 0.07
19 6 0.21
20 6 0.21
21 5 0.17
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (18 bp):
TTTATTATATTCATACAT
Found at i:5049910 original size:30 final size:30
Alignment explanation
Indices: 5049874--5049935 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
5049864 ATCTTGTTTG
5049874 TACTAACTCATTTTTCTCTTTTGTTTGTGT
1 TACTAACTCATTTTTCTCTTTTGTTTGTGT
**
5049904 TACTAACTTGTTTTTCTCTTTTGTTTGTGT
1 TACTAACTCATTTTTCTCTTTTGTTTGTGT
5049934 TA
1 TA
5049936 TTTTTCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.61
Consensus pattern (30 bp):
TACTAACTCATTTTTCTCTTTTGTTTGTGT
Found at i:5052581 original size:2 final size:2
Alignment explanation
Indices: 5052568--5052604 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5052558 TATACCCAGA
*
5052568 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5052605 ATAAAGTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5053627 original size:14 final size:14
Alignment explanation
Indices: 5053608--5053634 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5053598 CACCAAGAAA
5053608 ACATACATCAACAT
1 ACATACATCAACAT
5053622 ACATACATCAACA
1 ACATACATCAACA
5053635 AATATATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (14 bp):
ACATACATCAACAT
Found at i:5054028 original size:39 final size:37
Alignment explanation
Indices: 5053985--5054077 Score: 89
Period size: 37 Copynumber: 2.5 Consensus size: 37
5053975 AAATGTCATC
* * *
5053985 TCGCTAGAGATATTTTTTTTCTTAAAAACAAATGTTGTT
1 TCGCTAGAGACA-ATTTTCTCTT-AAAACAAATGTTGTT
* * *
5054024 TCGCTTGAGACAATTTTCTCTTAAAACAAATTTTGTC
1 TCGCTAGAGACAATTTTCTCTTAAAACAAATGTTGTT
* *
5054061 TCACTTGAGAC-ATTTTC
1 TCGCTAGAGACAATTTTC
5054078 CCCTCGGAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
36 6 0.13
37 23 0.49
38 8 0.17
39 10 0.21
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (37 bp):
TCGCTAGAGACAATTTTCTCTTAAAACAAATGTTGTT
Found at i:5054076 original size:36 final size:38
Alignment explanation
Indices: 5053999--5054077 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
5053989 TAGAGATATT
* * *
5053999 TTTTTTCTTAAAAACAAATGTTGTTTCGCTTGAGACAA
1 TTTTCTCTTAAAAACAAATGTTGTCTCACTTGAGACAA
*
5054037 TTTTCTCTT-AAAACAAATTTTGTCTCACTTGAGAC-A
1 TTTTCTCTTAAAAACAAATGTTGTCTCACTTGAGACAA
5054073 TTTTC
1 TTTTC
5054078 CCCTCGGAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 6 0.16
37 23 0.62
38 8 0.22
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (38 bp):
TTTTCTCTTAAAAACAAATGTTGTCTCACTTGAGACAA
Found at i:5054269 original size:21 final size:21
Alignment explanation
Indices: 5054243--5054342 Score: 175
Period size: 21 Copynumber: 4.8 Consensus size: 21
5054233 TGAGTATGTT
*
5054243 TCCCTTGAAACAAGTTTTGTC
1 TCCCTTGAGACAAGTTTTGTC
5054264 TCCCTTGAGACAAGTTTTGTC
1 TCCCTTGAGACAAGTTTTGTC
5054285 TCCCTTGAGACAAGTTTTGTC
1 TCCCTTGAGACAAGTTTTGTC
*
5054306 TTCCTTGAGACAAGTTTTGTC
1 TCCCTTGAGACAAGTTTTGTC
5054327 TCCCTTGAGAC-AGTTT
1 TCCCTTGAGACAAGTTT
5054343 CTCTTAAAAC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
20 5 0.07
21 71 0.93
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (21 bp):
TCCCTTGAGACAAGTTTTGTC
Found at i:5054443 original size:65 final size:68
Alignment explanation
Indices: 5054320--5054465 Score: 163
Period size: 66 Copynumber: 2.2 Consensus size: 68
5054310 TTGAGACAAG
* * * *
5054320 TTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACAACTCATCTTTGAGATCGTTTCCCTTGAAA-C
1 TTTTGTCTCTCTTAAGACAGTGTCTCTTAAAACAACTCATCTTTGAGATCGTTTCCCTTGAAATA
*
5054384 GAA
66 AAA
* * * * * *
5054387 TTTTGTCTCTCTTAAGACGGTGTC-CTTGAAACACCT-ATCTTTTAGTTTGTTTCCCTTGAAATA
1 TTTTGTCTCTCTTAAGACAGTGTCTCTTAAAACAACTCATCTTTGAGATCGTTTCCCTTGAAATA
5054450 AAA
66 AAA
*
5054453 CTTTGTCTCTCTT
1 TTTTGTCTCTCTT
5054466 GATACATTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
65 22 0.33
66 24 0.36
67 20 0.30
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (68 bp):
TTTTGTCTCTCTTAAGACAGTGTCTCTTAAAACAACTCATCTTTGAGATCGTTTCCCTTGAAATA
AAA
Found at i:5054584 original size:42 final size:39
Alignment explanation
Indices: 5054491--5054598 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 39
5054481 AAGATGGTCT
*
5054491 GCCATCCTCATCGCGTAGGAACCGTGTCATCCCCAACCA
1 GCCATCCTCATCACGTAGGAACCGTGTCATCCCCAACCA
* *
5054530 GACC-TCCTCATCACGTAGGAGCCGTGTCA-CCCAAGATAACCA
1 G-CCATCCTCATCACGTAGGAACCGTGTCATCCC----CAACCA
* *
5054572 GCCATCCTCATCACGTAGAAATCGTGT
1 GCCATCCTCATCACGTAGGAACCGTGT
5054599 TATCATCCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
38 3 0.05
39 24 0.42
40 2 0.04
41 2 0.04
42 26 0.46
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (39 bp):
GCCATCCTCATCACGTAGGAACCGTGTCATCCCCAACCA
Found at i:5054848 original size:43 final size:40
Alignment explanation
Indices: 5054756--5054852 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
5054746 ATGACTAGAA
* * *
5054756 CTCTTCATCACGTATGAGTCGTATCATCCACCGACCAGAT
1 CTCTTCATCACGTAGGAGTCGTATCACCCACCGACCAAAT
*
5054796 CTCCTCATCACGTAGGAGTCGTATCACCCTTACACGACCATAAT
1 CTCTTCATCACGTAGGAGTCGTATCACCC--AC-CGACCA-AAT
5054840 -TCTTCATCACGTA
1 CTCTTCATCACGTA
5054853 TGAGCAATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
40 26 0.54
42 2 0.04
43 18 0.38
44 2 0.04
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (40 bp):
CTCTTCATCACGTAGGAGTCGTATCACCCACCGACCAAAT
Found at i:5055023 original size:3 final size:3
Alignment explanation
Indices: 5055015--5055074 Score: 77
Period size: 3 Copynumber: 19.3 Consensus size: 3
5055005 GGTCGAAAAA
*
5055015 TAT TAT TAT T-T TAAT TAT TAT TAT TAT TAT TAT TAT TATT TGT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
5055061 TAT TAT TAAT TAT T
1 TAT TAT T-AT TAT T
5055075 TTACAAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 2 0.04
3 42 0.82
4 7 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5058045 original size:15 final size:15
Alignment explanation
Indices: 5058025--5058056 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5058015 ACGTCAAGTT
*
5058025 ATGATGATAATGATG
1 ATGATGACAATGATG
5058040 ATGATGACAATGATG
1 ATGATGACAATGATG
5058055 AT
1 AT
5058057 AATGGTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (15 bp):
ATGATGACAATGATG
Found at i:5058918 original size:16 final size:17
Alignment explanation
Indices: 5058891--5058926 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
5058881 TATATGAGAA
5058891 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
5058908 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
5058924 AAA
1 AAA
5058927 ATAACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:5059536 original size:15 final size:15
Alignment explanation
Indices: 5059516--5059545 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5059506 GCGGATGTGA
5059516 GCTGATAGTAGTACT
1 GCTGATAGTAGTACT
5059531 GCTGATAGTAGTACT
1 GCTGATAGTAGTACT
5059546 ACTGTTAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
GCTGATAGTAGTACT
Found at i:5059554 original size:15 final size:15
Alignment explanation
Indices: 5059517--5059554 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
5059507 CGGATGTGAG
*
5059517 CTGATAGTAGTACTG
1 CTGATAGTAGTACTA
5059532 CTGATAGTAGTACTA
1 CTGATAGTAGTACTA
*
5059547 CTGTTAGT
1 CTGATAGT
5059555 CGTCTTACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (15 bp):
CTGATAGTAGTACTA
Found at i:5061563 original size:25 final size:25
Alignment explanation
Indices: 5061506--5061573 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
5061496 ATTTTATGTT
*
5061506 AGAAGAATTTATAAAATTTTAAGAG
1 AGAAAAATTTATAAAATTTTAAGAG
* *
5061531 AGATAAATTTATAGAATTTTAAGAAG
1 AGAAAAATTTATAAAATTTTAAG-AG
*
5061557 TAAAAATAATTTATAAA
1 -AGAAA-AATTTATAAA
5061574 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 20 0.59
26 2 0.06
27 3 0.09
28 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (25 bp):
AGAAAAATTTATAAAATTTTAAGAG
Found at i:5062158 original size:20 final size:20
Alignment explanation
Indices: 5062121--5062159 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5062111 TAACATTTTA
*
5062121 AAAATAATAATTAGATAATC
1 AAAATAATAATTAAATAATC
5062141 AAAATAA-AATTAAAATAAT
1 AAAATAATAATT-AAATAAT
5062160 AGTTGAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAATAATAATTAAATAATC
Found at i:5065287 original size:23 final size:23
Alignment explanation
Indices: 5065261--5065304 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5065251 GGTAAAAAAA
*
5065261 TGGTTATCTTGATTGTAATTTCT
1 TGGTTATCTTCATTGTAATTTCT
*
5065284 TGGTTATTTTCATTGTAATTT
1 TGGTTATCTTCATTGTAATTT
5065305 GAATATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.59
Consensus pattern (23 bp):
TGGTTATCTTCATTGTAATTTCT
Found at i:5067809 original size:22 final size:22
Alignment explanation
Indices: 5067784--5067837 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
5067774 ATTATCATTT
*
5067784 TTCTTCTTCTCATTGTTCTGTG
1 TTCTTCTTCTCATTGTTCTCTG
*
5067806 TTCTTCTTTTCATTGTTCTCTG
1 TTCTTCTTCTCATTGTTCTCTG
5067828 TTCTTCTTCT
1 TTCTTCTTCT
5067838 TTAAACAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.04, C:0.24, G:0.09, T:0.63
Consensus pattern (22 bp):
TTCTTCTTCTCATTGTTCTCTG
Found at i:5075347 original size:21 final size:22
Alignment explanation
Indices: 5075323--5075381 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 22
5075313 TTAATTTCTA
5075323 ATTTTATTTTTTTAGTA-ATTT
1 ATTTTATTTTTTTAGTATATTT
* *
5075344 ATTTT-TAATTTTTAGTATTTTT
1 ATTTTAT-TTTTTTAGTATATTT
5075366 ATATTTAATTTTTTTA
1 AT-TTT-ATTTTTTTA
5075382 ATATTTGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.03
21 14 0.47
22 5 0.17
23 3 0.10
24 6 0.20
25 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (22 bp):
ATTTTATTTTTTTAGTATATTT
Found at i:5075355 original size:22 final size:23
Alignment explanation
Indices: 5075324--5075379 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
5075314 TAATTTCTAA
*
5075324 TTTTATTTTTTTAGTA-ATTTAT
1 TTTTAATTTTTTAGTATATTTAT
*
5075346 TTTTAA-TTTTTAGTATTTTTAT
1 TTTTAATTTTTTAGTATATTTAT
*
5075368 ATTTAATTTTTT
1 TTTTAATTTTTT
5075380 TAATATTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.31
22 15 0.52
23 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTAATTTTTTAGTATATTTAT
Found at i:5075362 original size:16 final size:16
Alignment explanation
Indices: 5075343--5075399 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
5075333 TTTAGTAATT
5075343 TATTTTTAATTTTTAG
1 TATTTTTAATTTTTAG
* *
5075359 TATTTTT-ATATTTAA
1 TATTTTTAATTTTTAG
* *
5075374 TTTTTTTAATATTTGAG
1 TATTTTTAAT-TTTTAG
5075391 TATTTTTAA
1 TATTTTTAA
5075400 AAAAAATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 12 0.38
16 9 0.28
17 11 0.34
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TATTTTTAATTTTTAG
Found at i:5075412 original size:32 final size:31
Alignment explanation
Indices: 5075343--5075414 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
5075333 TTTAGTAATT
* * ***
5075343 TATTTTTAATTTTTAGTATTTTTATATTTAA
1 TATTTTTAATTTTGAGTATTTTTAAAAAAAA
*
5075374 TTTTTTTAATATTTGAGTATTTTTAAAAAAAA
1 TATTTTTAAT-TTTGAGTATTTTTAAAAAAAA
5075406 TATTTTTAA
1 TATTTTTAA
5075415 AAAATTAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (31 bp):
TATTTTTAATTTTGAGTATTTTTAAAAAAAA
Done.