Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 100 of 120
Found at i:13965357 original size:6 final size:6
Alignment explanation
Indices: 13965324--13965408 Score: 61
Period size: 6 Copynumber: 13.7 Consensus size: 6
13965314 TTATTTAAAG
13965324 AAAATA GAATAATA AAAA-A GATAAATA AAAATA AAAATA AATAA-A GAAAAGT-
1 AAAATA -AA-AATA AAAATA -A-AAATA AAAATA AAAATA AA-AATA -AAAA-TA
* *
13965376 AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
13965409 GAATATTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
5 6 0.09
6 41 0.64
7 12 0.19
8 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:13965379 original size:25 final size:25
Alignment explanation
Indices: 13965319--13965391 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
13965309 TATTTTTATT
13965319 TAAAG-AAAATAGAATAATAAAAAAGA
1 TAAAGTAAAATA-AA-AATAAAAAAGA
13965345 TAAA-TAAAAATAAAAATAAATAAAGA
1 TAAAGT-AAAATAAAAATAAA-AAAGA
*
13965371 -AAAGTAAAACAAAAATAAAAA
1 TAAAGTAAAATAAAAATAAAAA
13965392 TAAAATAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
24 2 0.05
25 22 0.52
26 12 0.29
27 6 0.14
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (25 bp):
TAAAGTAAAATAAAAATAAAAAAGA
Found at i:13965398 original size:32 final size:32
Alignment explanation
Indices: 13965324--13965402 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
13965314 TTATTTAAAG
* * *
13965324 AAAATAGAATAATAAAAAAGATAAATAAAAATA
1 AAAATAAAATAA-AGAAAAGATAAACAAAAATA
13965357 AAAAT-AAATAAAGAAAAG-TAAAACAAAAATA
1 AAAATAAAATAAAGAAAAGAT-AAACAAAAATA
13965388 AAAATAAAATAAAGA
1 AAAATAAAATAAAGA
13965403 TAAAAAGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 21 0.51
32 14 0.34
33 5 0.12
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (32 bp):
AAAATAAAATAAAGAAAAGATAAACAAAAATA
Found at i:13965405 original size:11 final size:11
Alignment explanation
Indices: 13965324--13965407 Score: 61
Period size: 11 Copynumber: 7.8 Consensus size: 11
13965314 TTATTTAAAG
*
13965324 AAAATAGAATA
1 AAAATAAAATA
13965335 ATAAA-AAAGATA
1 A-AAATAAA-ATA
*
13965347 AATA-AAAATA
1 AAAATAAAATA
13965357 AAAAT-AAATA
1 AAAATAAAATA
* *
13965367 AAGA-AAAGTA
1 AAAATAAAATA
13965377 AAACA-AAAATA
1 AAA-ATAAAATA
13965388 AAAATAAAATA
1 AAAATAAAATA
*
13965399 AAGATAAAA
1 AAAATAAAA
13965408 AGAATATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
10 21 0.36
11 31 0.53
12 7 0.12
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13965854 original size:10 final size:10
Alignment explanation
Indices: 13965830--13965866 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
13965820 AAAATTTCAT
13965830 CGAAAGTTCGC
1 CGAAAGTT-GC
13965841 CGAAAGTTGC
1 CGAAAGTTGC
*
13965851 CGAAAGTTAC
1 CGAAAGTTGC
13965861 CGAAAG
1 CGAAAG
13965867 ATCATCGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (10 bp):
CGAAAGTTGC
Found at i:13966032 original size:25 final size:26
Alignment explanation
Indices: 13965991--13966039 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13965981 AAAAATTTTT
13965991 CAAAAATTTCTAGAAAATTTTTTCGC
1 CAAAAATTTCTAGAAAATTTTTTCGC
13966017 CAAAAATTTCTA-AAAATTTTTTC
1 CAAAAATTTCTAGAAAATTTTTTC
13966040 TCACTCCCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (26 bp):
CAAAAATTTCTAGAAAATTTTTTCGC
Found at i:13966408 original size:3 final size:3
Alignment explanation
Indices: 13966402--13966550 Score: 98
Period size: 3 Copynumber: 48.7 Consensus size: 3
13966392 TACAGAAAAA
*
13966402 AAT AAT -AT AAT AAT AAT AAT AAT AAT -AT AAAT AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * *
13966446 ATAT AACT ATAT AAAT AAAT ACAT AA- AAT ATT AAC AGA- AA- AAA AAT
1 A-AT AA-T A-AT -AAT -AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT
*
13966492 AAAT AA- AAT AAAT ATAT ATT AAT AA- AAT AAT AAT AAT AAT -AT AAT
1 -AAT AAT AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13966537 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
13966551 ATACATAAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 34
0.74 0.05 0.21
Matches are distributed among these distances:
2 15 0.12
3 77 0.64
4 27 0.22
5 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13966419 original size:14 final size:14
Alignment explanation
Indices: 13966402--13966546 Score: 94
Period size: 14 Copynumber: 10.5 Consensus size: 14
13966392 TACAGAAAAA
13966402 AATAATATAATAAT
1 AATAATATAATAAT
13966416 AAT-A-ATAATAAT
1 AATAATATAATAAT
13966428 -ATAA-ATAATAAT
1 AATAATATAATAAT
*
13966440 AAAAATAT-ATAACT
1 AATAATATAATAA-T
13966454 ATATAA-ATAAATACAT
1 A-ATAATAT-AATA-AT
*
13966470 AA-AATATTAACAGA-
1 AATAATA-TAATA-AT
* *
13966484 AAAAAAATAAATAA-
1 AATAATAT-AATAAT
*
13966498 AATAA-ATATATATT
1 AATAATATA-ATAAT
*
13966512 AATAAAATAATAAT
1 AATAATATAATAAT
13966526 AATAATATAATAAT
1 AATAATATAATAAT
13966540 AATAATA
1 AATAATA
13966547 ATAAATACAT
Statistics
Matches: 106, Mismatches: 10, Indels: 30
0.73 0.07 0.21
Matches are distributed among these distances:
11 2 0.02
12 18 0.17
13 13 0.12
14 48 0.45
15 18 0.17
16 6 0.06
17 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:13966559 original size:87 final size:85
Alignment explanation
Indices: 13966385--13966562 Score: 240
Period size: 87 Copynumber: 2.1 Consensus size: 85
13966375 TAAATCCAAA
13966385 AAAATATTACAGAAAAAAATAATATAATAATAATAATAATAATATAAATAATAATAAAAATATAT
1 AAAATATTACAGAAAAAAATAATATAATAATAATAATAATAATATAAATAATAATAAAAATATAT
13966450 AACTATATAAATAAATACAT
66 AACTATATAAATAAATACAT
* *
13966470 AAAATATTAACAGAAAAAAAATAA-ATAA-AATAAATATATATTAATA-AAATAATAATAATAAT
1 AAAATATT-ACAG-AAAAAAATAATATAATAAT-AATA-ATAATAATATAAATAATAATAAAAAT
13966532 ATAATAA-TA-ATAATAATAAATACAT
62 AT-ATAACTATAT-A-AATAAATACAT
13966557 AAAATA
1 AAAATA
13966563 CATAAATACA
Statistics
Matches: 84, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
85 13 0.15
86 32 0.38
87 39 0.46
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (85 bp):
AAAATATTACAGAAAAAAATAATATAATAATAATAATAATAATATAAATAATAATAAAAATATAT
AACTATATAAATAAATACAT
Found at i:13966561 original size:9 final size:8
Alignment explanation
Indices: 13966400--13966568 Score: 85
Period size: 9 Copynumber: 19.4 Consensus size: 8
13966390 ATTACAGAAA
13966400 AAAATAAT
1 AAAATAAT
*
13966408 ATAATAAT
1 AAAATAAT
13966416 AATAATAAT
1 AA-AATAAT
*
13966425 AATATAA-
1 AAAATAAT
*
13966432 ATAATAAT
1 AAAATAAT
13966440 AAAAATATAT
1 -AAAATA-AT
13966450 AACTATATAA-
1 AA--A-ATAAT
13966460 ATAAATACAT
1 A-AAATA-AT
*
13966470 AAAATATT
1 AAAATAAT
*
13966478 AACAGA-AAA
1 AA-A-ATAAT
13966487 AAAATAAAT
1 AAAAT-AAT
13966496 AAAATAAAT
1 AAAAT-AAT
*
13966505 ATATATTAAT
1 A-A-AATAAT
13966515 AAAATAAT
1 AAAATAAT
13966523 AATAATAAT
1 AA-AATAAT
*
13966532 ATAATAAT
1 AAAATAAT
13966540 AATAATAAT
1 AA-AATAAT
13966549 -AAATACAT
1 AAAATA-AT
13966557 AAAATACAT
1 AAAATA-AT
13966566 AAA
1 AAA
13966569 TACAAAAAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 39
0.71 0.08 0.22
Matches are distributed among these distances:
7 10 0.08
8 36 0.28
9 63 0.50
10 10 0.08
11 5 0.04
12 3 0.02
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (8 bp):
AAAATAAT
Found at i:13966572 original size:17 final size:16
Alignment explanation
Indices: 13966401--13966570 Score: 120
Period size: 17 Copynumber: 10.3 Consensus size: 16
13966391 TTACAGAAAA
13966401 AAATAAT-ATAATAAT
1 AAATAATAATAATAAT
13966416 -AATAATAATAAT-AT
1 AAATAATAATAATAAT
*
13966430 AAATAATAATAAAAAT
1 AAATAATAATAATAAT
*
13966446 ATATAACT-AT-ATAAAT
1 AAATAA-TAATAAT-AAT
*
13966462 AAATACATAA-AATATT
1 AAATA-ATAATAATAAT
* * *
13966478 AACAGAAAAAAAATAAAT
1 AA-ATAATAATAAT-AAT
*
13966496 AAAATAAATATATATTAAT
1 -AAAT-AATA-ATAATAAT
13966515 AAAATAATAATAATAAT
1 -AAATAATAATAATAAT
13966532 ATAATAATAATAATAAT
1 A-AATAATAATAATAAT
13966549 AAATACATAA-AATACAT
1 AAATA-ATAATAATA-AT
13966566 AAATA
1 AAATA
13966571 CAAAAAAAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 32
0.74 0.08 0.19
Matches are distributed among these distances:
14 8 0.06
15 17 0.14
16 33 0.26
17 44 0.35
18 7 0.06
19 13 0.10
20 3 0.02
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:13966577 original size:17 final size:16
Alignment explanation
Indices: 13966459--13966593 Score: 57
Period size: 20 Copynumber: 8.1 Consensus size: 16
13966449 TAACTATATA
*
13966459 AATAAATACATAAAAT
1 AATAAATACAAAAAAT
* * *
13966475 -ATTAACAGAAAAAA-
1 AATAAATACAAAAAAT
13966489 AATAAATA-AAATAAAT
1 AATAAATACAAA-AAAT
*
13966505 ATATATTAATAAAATAATAAT
1 A-ATA--AATACAA-AA-AAT
*
13966526 AATAATATAATAATAATAAT
1 AATAA-AT-ACAA-AA-AAT
*
13966546 AATAAATACATAAAAT
1 AATAAATACAAAAAAT
13966562 ACATAAATACAAAAAA-
1 A-ATAAATACAAAAAAT
*
13966578 AA-AAA-AAAAAAAAT
1 AATAAATACAAAAAAT
13966592 AA
1 AA
13966594 CAAGATAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
13 7 0.07
14 8 0.08
15 19 0.20
16 6 0.06
17 18 0.19
18 3 0.03
19 8 0.08
20 21 0.22
21 5 0.05
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.24
Consensus pattern (16 bp):
AATAAATACAAAAAAT
Found at i:13966758 original size:1 final size:1
Alignment explanation
Indices: 13966752--13966814 Score: 72
Period size: 1 Copynumber: 63.0 Consensus size: 1
13966742 TCAACTGTCA
* * * * * *
13966752 TTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13966815 ACCAAAGCTC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:13966774 original size:17 final size:17
Alignment explanation
Indices: 13966752--13966814 Score: 82
Period size: 16 Copynumber: 3.9 Consensus size: 17
13966742 TCAACTGTCA
13966752 TTTTTTTGTTTTTTTTG
1 TTTTTTTGTTTTTTTTG
13966769 -TTTTTTGTTTTTTTT-
1 TTTTTTTGTTTTTTTTG
13966784 TGTTTTTTG--TTTTTTG
1 T-TTTTTTGTTTTTTTTG
13966800 TTTTTTT-TTTTTTTT
1 TTTTTTTGTTTTTTTT
13966815 ACCAAAGCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
15 12 0.29
16 22 0.54
17 7 0.17
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (17 bp):
TTTTTTTGTTTTTTTTG
Found at i:13966789 original size:24 final size:23
Alignment explanation
Indices: 13966752--13966814 Score: 108
Period size: 24 Copynumber: 2.7 Consensus size: 23
13966742 TCAACTGTCA
13966752 TTTTTTTGTTTTTTTTGTTTTTTG
1 TTTTTTT-TTTTTTTTGTTTTTTG
13966776 TTTTTTTTTGTTTTTTGTTTTTTG
1 TTTTTTTTT-TTTTTTGTTTTTTG
13966800 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
13966815 ACCAAAGCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
23 8 0.21
24 30 0.79
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTGTTTTTTG
Found at i:13966948 original size:40 final size:41
Alignment explanation
Indices: 13966821--13967070 Score: 459
Period size: 41 Copynumber: 6.1 Consensus size: 41
13966811 TTTTACCAAA
* * *
13966821 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13966862 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13966903 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13966943 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13966983 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13967024 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
13967065 GCTCCT
1 GCTCCT
13967071 TGACAATCAT
Statistics
Matches: 205, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 80 0.39
41 125 0.61
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:13966966 original size:81 final size:82
Alignment explanation
Indices: 13966821--13967070 Score: 459
Period size: 81 Copynumber: 3.1 Consensus size: 82
13966811 TTTTACCAAA
* * *
13966821 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
13966886 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
13966903 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
13966967 ACTTTG-AAAGTAAATT
66 ACTTTGAAAAGTAAATT
13966983 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
13967048 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
13967065 GCTCCT
1 GCTCCT
13967071 TGACAATCAT
Statistics
Matches: 163, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
80 40 0.25
81 79 0.48
82 44 0.27
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATT
Found at i:13968119 original size:18 final size:17
Alignment explanation
Indices: 13968082--13968193 Score: 94
Period size: 17 Copynumber: 6.8 Consensus size: 17
13968072 TGAGTCTTCC
*
13968082 TTTTTCACTTTTTCT-T
1 TTTTTCATTTTTTCTAT
*
13968098 TTTCT-ATTTTTTCTAT
1 TTTTTCATTTTTTCTAT
*
13968114 TTTTTCTATTTTTTTCTTT
1 TTTTTC-A-TTTTTTCTAT
13968133 TTTTTCATTTTTT-TCAT
1 TTTTTCATTTTTTCT-AT
**
13968150 TTTTTCATTTTTT-TCC
1 TTTTTCATTTTTTCTAT
13968166 TTTTT--TTTTTTC-ATT
1 TTTTTCATTTTTTCTA-T
13968181 TTTTTCATTTTTT
1 TTTTTCATTTTTT
13968194 TTCAAGCATA
Statistics
Matches: 78, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.08
15 13 0.17
16 15 0.19
17 27 0.35
18 2 0.03
19 15 0.19
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCATTTTTTCTAT
Found at i:13968143 original size:36 final size:37
Alignment explanation
Indices: 13968096--13968193 Score: 130
Period size: 37 Copynumber: 2.6 Consensus size: 37
13968086 TCACTTTTTC
13968096 TTTTTCTA-TTTTTTCTATTTTTTCTATTTTTTT-CTTT
1 TTTTTCTATTTTTTTC-ATTTTTTC-ATTTTTTTCCTTT
13968133 TTTTTC-ATTTTTTTCATTTTTTCATTTTTTTCCTTTT
1 TTTTTCTATTTTTTTCATTTTTTCATTTTTTTCC-TTT
*
13968170 TTTTTTTCATTTTTTTCATTTTTT
1 TTTTTCT-ATTTTTTTCATTTTTT
13968194 TTCAAGCATA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 8 0.15
36 10 0.18
37 21 0.38
39 16 0.29
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (37 bp):
TTTTTCTATTTTTTTCATTTTTTCATTTTTTTCCTTT
Found at i:13968163 original size:9 final size:9
Alignment explanation
Indices: 13968104--13968194 Score: 97
Period size: 9 Copynumber: 10.7 Consensus size: 9
13968094 TCTTTTTCTA
13968104 TTTTTTC-T
1 TTTTTTCAT
13968112 ATTTTTTCTAT
1 -TTTTTTC-AT
*
13968123 TTTTTTCTT
1 TTTTTTCAT
13968132 TTTTTTCAT
1 TTTTTTCAT
13968141 TTTTTTCA-
1 TTTTTTCAT
13968149 TTTTTTCAT
1 TTTTTTCAT
13968158 TTTTTTC--
1 TTTTTTCAT
*
13968165 -CTTTT--T
1 TTTTTTCAT
13968171 TTTTTTCAT
1 TTTTTTCAT
13968180 TTTTTTCAT
1 TTTTTTCAT
13968189 TTTTTT
1 TTTTTT
13968195 TCAAGCATAG
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
6 4 0.06
7 4 0.06
8 8 0.11
9 47 0.66
10 7 0.10
11 1 0.01
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:13968169 original size:8 final size:8
Alignment explanation
Indices: 13968082--13968193 Score: 90
Period size: 9 Copynumber: 13.6 Consensus size: 8
13968072 TGAGTCTTCC
*
13968082 TTTTTCAC
1 TTTTTCAT
13968090 TTTTTC--
1 TTTTTCAT
13968096 TTTTTCTAT
1 TTTTTC-AT
13968105 TTTTTCTAT
1 TTTTTC-AT
13968114 TTTTTCTATT
1 TTTTTC-A-T
*
13968124 TTTTTCTTT
1 TTTTTC-AT
13968133 TTTTTCATT
1 TTTTTCA-T
13968142 TTTTTCAT
1 TTTTTCAT
13968150 TTTTTCATT
1 TTTTTCA-T
*
13968159 TTTTTC-C
1 TTTTTCAT
13968166 TTTTT--T
1 TTTTTCAT
13968172 TTTTTCATT
1 TTTTTCA-T
13968181 TTTTTCAT
1 TTTTTCAT
13968189 TTTTT
1 TTTTT
13968194 TTCAAGCATA
Statistics
Matches: 91, Mismatches: 4, Indels: 18
0.81 0.04 0.16
Matches are distributed among these distances:
6 11 0.12
7 5 0.05
8 20 0.22
9 47 0.52
10 8 0.09
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCAT
Found at i:13968175 original size:13 final size:13
Alignment explanation
Indices: 13968090--13968185 Score: 56
Period size: 13 Copynumber: 7.1 Consensus size: 13
13968080 CCTTTTTCAC
*
13968090 TTTTTCTTTTTCTAT
1 TTTTTCATTTT-T-T
13968105 TTTTTCTATTTTTT
1 TTTTTC-ATTTTTT
13968119 CTATTTT--TTTCTTT
1 -T-TTTTCATTT-TTT
13968133 TTTTTCATTTTTT
1 TTTTTCATTTTTT
**
13968146 TCATTTT--TTCATT
1 T--TTTTCATTTTTT
*
13968159 TTTTTCCTTTTTT
1 TTTTTCATTTTTT
13968172 TTTTTCATTTTTT
1 TTTTTCATTTTTT
13968185 T
1 T
13968186 CATTTTTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
11 4 0.06
12 4 0.06
13 30 0.46
14 7 0.11
15 12 0.18
16 8 0.12
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCATTTTTT
Found at i:13978567 original size:6 final size:6
Alignment explanation
Indices: 13978556--13978590 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
13978546 TAATTAAAGA
13978556 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
13978591 AGAAAGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:13978806 original size:57 final size:57
Alignment explanation
Indices: 13978627--13979495 Score: 1031
Period size: 57 Copynumber: 14.7 Consensus size: 57
13978617 TTGTGTAGGA
*
13978627 AAAATTGATAATTTCAACTTTTCC-CAAAAAATATTTTTTTGAAAATTTACTTT-TAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTG-AAATTTA-TTTCTAAGG
*
13978685 AAAATTGATACTTTCAACTTTTCC-CTAAAAATA-TTTTTTGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAATTTATTTCTAAGG
* *
13978741 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTCTAAGG
*
13978798 AAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTTGAAACTTTGA--T-T-AGG
1 AAAATTGATACTTTCAACTTTTCC-TCAAAA-ATA-TTTTTTTGAAA-TTT-ATTTCTAAGG
* * * *
13978856 AAAATTGATACTTCCAACTTTTCCTAAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA----TATTTTTTTG-AAATTTATTTCTAAGG
* *
13978918 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTCTAAGG
13978975 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTAATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTGAAA-TTT-ATTTCTAAGG
* * *
13979036 AAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-----TATTTTTTTG-AAATTTATTTCTAAGG
* *
13979099 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGGAAGTTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAATTTATTTCTAAGG
* *
13979156 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA-TATTTTTTTGAAA-TTT-ATTTCTAAGG
* *
13979217 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-------TATTTTTTTG-AAATTTATTTCTAAGG
*
13979282 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAATTTATTTCTAAGG
*
13979339 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTGAAA-TTT-ATTTCTAAGG
*** * *
13979400 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTGAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTCTAAGG
*
13979456 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
13979496 TTGGAATTTT
Statistics
Matches: 718, Mismatches: 47, Indels: 93
0.84 0.05 0.11
Matches are distributed among these distances:
55 3 0.00
56 87 0.12
57 193 0.27
58 101 0.14
59 45 0.06
60 30 0.04
61 119 0.17
62 32 0.04
63 38 0.05
64 11 0.02
65 35 0.05
66 21 0.03
67 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTCTAAGG
Found at i:13979135 original size:181 final size:180
Alignment explanation
Indices: 13978627--13979494 Score: 1321
Period size: 183 Copynumber: 4.9 Consensus size: 180
13978617 TTGTGTAGGA
* * *
13978627 AAAATTGATAATTTCAACTTTTCC-CAAAAA-ATATTTTTTTGAAAATTT-ACTTT-TAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGA-TTTCTAAGGAAA
*
13978688 ATTGATACTTTCAACTTTTCCCT-AAAAA-----TATTTTTTG-AAATTTATTTTTAAGGAAAAT
65 ATTGATACTTTCAACTTTT-CCTAAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
*
13978746 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAATTTATTTCTAAGG
129 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
13978798 AAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTTGAAACTTTGA--T-T-AGGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTTGAAACTTTGATTTCTAAGGAAA
*
13978859 ATTGATACTTCCAACTTTTCCTAAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATT
65 ATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATT
13978924 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
130 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
13978975 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTAATTTCTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCTAAGGAAAA
13979040 TTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATT
66 TTGATACTTTCAACTTTTCCTAAAAAATC-TTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATT
* *
13979105 GATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAGTTTATTTCTAAGG
130 GATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
13979156 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTTTTGAAACTTTGATTTCCAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAACTTTGATTTCTAAGGAAA
* *
13979220 ATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTTTTTTGAAAATTTATTTTTAAGGAAA
65 ATTGATACTTTCAACTTTTCCT-AAAAA--ATCTTTTTTTTTTTGAAAATTTATTTTTAAGGAAA
*
13979285 ATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
127 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
*
13979339 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCTAAGGAAAA
* ** *
13979404 TTGATACTTTCAACTTTTCCTCAAAAA-C----CCTTTTTG-AAATTTATTTTTAAAGAAAATTG
66 TTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
**
13979463 ATACTTTCAACTTTTCCTTAAAAATATTTTTT
131 ATACTTTCAACTTTTCCCCAAAAATATTTTTT
13979495 TTTGGAATTT
Statistics
Matches: 648, Mismatches: 28, Indels: 39
0.91 0.04 0.05
Matches are distributed among these distances:
170 3 0.00
171 52 0.08
172 7 0.01
173 2 0.00
174 65 0.10
175 7 0.01
176 25 0.04
177 105 0.16
178 1 0.00
179 1 0.00
180 36 0.06
181 166 0.26
182 9 0.01
183 167 0.26
184 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (180 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCTAAGGAAAA
TTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGG
Found at i:13979187 original size:28 final size:28
Alignment explanation
Indices: 13979156--13979247 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
13979146 ATTTCTAAGG
13979156 AAAATTGATACTTTCAACTTTTCCTCAA
1 AAAATTGATACTTTCAACTTTTCCTCAA
** ** * *
13979184 AAAATTTTTTTTTTGAAACTTTGAT-TTCCAA
1 AAAATTGATACTTT-CAACTTT--TCCT-CAA
13979215 GGAAAATTGATACTTTCAACTTTTCCTCAA
1 --AAAATTGATACTTTCAACTTTTCCTCAA
13979245 AAA
1 AAA
13979248 CCTTTTTTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
28 13 0.29
29 6 0.13
30 5 0.11
31 5 0.11
32 6 0.13
33 10 0.22
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (28 bp):
AAAATTGATACTTTCAACTTTTCCTCAA
Found at i:13979561 original size:16 final size:16
Alignment explanation
Indices: 13979522--13979612 Score: 82
Period size: 15 Copynumber: 5.6 Consensus size: 16
13979512 TTATTTAAAG
13979522 AAAATAGAATAATAAA-A
1 AAAATA-AATAA-AAATA
*
13979539 AAGATAAATAAAAATA
1 AAAATAAATAAAAATA
13979555 AAAATAAATAAAAA-A
1 AAAATAAATAAAAATA
*
13979570 AAAGTAAA-ACAAAATTA
1 AAAATAAATA-AAAA-TA
*
13979587 AAAATAAAATAAAGATA
1 AAAAT-AAATAAAAATA
13979604 AAAA-AAATA
1 AAAATAAATA
13979613 TTAAATAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
14 1 0.02
15 20 0.32
16 19 0.30
17 16 0.25
18 6 0.10
19 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:13979571 original size:32 final size:32
Alignment explanation
Indices: 13979522--13979599 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 32
13979512 TTATTTAAAG
*
13979522 AAAATAGAATAATAAAAAAGATAAATA-AAAA-TA
1 AAAATA-AATAAAAAAAAAG-TAAA-ACAAAATTA
13979555 AAAATAAATAAAAAAAAAGTAAAACAAAATTA
1 AAAATAAATAAAAAAAAAGTAAAACAAAATTA
13979587 AAAATAAAATAAA
1 AAAAT-AAATAAA
13979600 GATAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
30 1 0.02
31 8 0.20
32 19 0.46
33 13 0.32
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (32 bp):
AAAATAAATAAAAAAAAAGTAAAACAAAATTA
Found at i:13979590 original size:7 final size:6
Alignment explanation
Indices: 13979522--13979607 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
13979512 TTATTTAAAG
13979522 AAAATA GAATAATA AAAA-A GATAAATA AAAATA AAAAT- -AAATA AAAA-A
1 AAAATA -AA-AATA AAAATA -A-AAATA AAAATA AAAATA AAAATA AAAATA
* * * *
13979570 AAAGT- AAAACA AAATTA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
13979608 AAATATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
4 4 0.06
5 13 0.21
6 32 0.52
7 8 0.13
8 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:13979754 original size:13 final size:13
Alignment explanation
Indices: 13979733--13979766 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
13979723 CAAGGGGTGC
*
13979733 GGCTTGGCAGCTT
1 GGCTCGGCAGCTT
13979746 GGCTCGGCAGCTT
1 GGCTCGGCAGCTT
13979759 GGCTCGGC
1 GGCTCGGC
13979767 TCGAAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.29, G:0.41, T:0.24
Consensus pattern (13 bp):
GGCTCGGCAGCTT
Found at i:13980743 original size:16 final size:17
Alignment explanation
Indices: 13980710--13980765 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
13980700 AACAAAAAAA
13980710 ATAAATATATATATTAATAC
1 ATAAATA-ATA-A-TAATAC
*
13980730 A-CAATAATAATAATA-
1 ATAAATAATAATAATAC
13980745 ATAAATAATAA-AATAC
1 ATAAATAATAATAATAC
13980761 ATAAA
1 ATAAA
13980766 ATACAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 18 0.56
17 1 0.03
18 3 0.09
19 4 0.12
20 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATAATAATAATAC
Found at i:13980746 original size:9 final size:8
Alignment explanation
Indices: 13980732--13980801 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 8
13980722 ATTAATACAC
13980732 AATAATAA
1 AATAATAA
13980740 TAATAAT-A
1 -AATAATAA
13980748 AATAATAA
1 AATAATAA
13980756 AATACATAA
1 AATA-ATAA
13980765 AATACA-AA
1 AATA-ATAA
13980773 AA-AA-AGA
1 AATAATA-A
13980780 AA-AA-AA
1 AATAATAA
13980786 AATAATAAA
1 AATAAT-AA
13980795 AATAATA
1 AATAATA
13980802 TCAGATAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
6 5 0.09
7 15 0.27
8 11 0.20
9 24 0.44
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (8 bp):
AATAATAA
Found at i:13980755 original size:42 final size:42
Alignment explanation
Indices: 13980648--13980794 Score: 103
Period size: 42 Copynumber: 3.6 Consensus size: 42
13980638 AATAATAATG
* *
13980648 ATAACATAATAATAACAAAT-ATAACTATATAAATAAAATACAT
1 ATAA-ATAATAATAA-AAATAATAAATATATAAATAAAATACAA
* * * * *
13980691 ATAAATATTAACAAAAAAAATAAATATATATAT-TAATACACA
1 ATAAATAATAATAAAAATAATAAATATATAAATAAAATACA-A
*
13980733 AT-AATAATAATAATAAATAAT-AA-A-ATACATAAAATACAA
1 ATAAATAATAATAA-AAATAATAAATATATAAATAAAATACAA
* *
13980772 A-AAA-AAGAAAAAAAAATAATAAA
1 ATAAATAA-TAATAAAAATAATAAA
13980795 AATAATATCA
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
38 9 0.11
39 15 0.18
40 7 0.08
41 20 0.24
42 28 0.34
43 4 0.05
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (42 bp):
ATAAATAATAATAAAAATAATAAATATATAAATAAAATACAA
Found at i:13981306 original size:20 final size:20
Alignment explanation
Indices: 13981281--13981329 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
13981271 ATTTTTTATT
* *
13981281 ATATTTTGATTATCTGATTA
1 ATATTTTAATTATCTAATTA
*
13981301 ATATTTTAATTATTTAATTA
1 ATATTTTAATTATCTAATTA
13981321 ATATTTTAA
1 ATATTTTAA
13981330 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
ATATTTTAATTATCTAATTA
Found at i:13981615 original size:22 final size:23
Alignment explanation
Indices: 13981587--13981638 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
13981577 ACTTCAACAC
13981587 TTAATCATATC-AAATAAATCAA
1 TTAATCATATCAAAATAAATCAA
*
13981609 TTAATCATATCAAAATAAATTAA
1 TTAATCATATCAAAATAAATCAA
*
13981632 CTAATCA
1 TTAATCA
13981639 CAATAGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAATCATATCAAAATAAATCAA
Found at i:13981629 original size:19 final size:21
Alignment explanation
Indices: 13981587--13981631 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
13981577 ACTTCAACAC
*
13981587 TTAATCATATCAAATAAATCAA
1 TTAATCATATC-AATAAATAAA
13981609 TTAATCATATC-A-AAATAAA
1 TTAATCATATCAATAAATAAA
13981628 TTAA
1 TTAA
13981632 CTAATCACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
22 11 0.50
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAATCATATCAATAAATAAA
Found at i:13982168 original size:21 final size:21
Alignment explanation
Indices: 13982135--13982206 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
13982125 AAATAACGAT
*
13982135 ATAATAAAATTAATTATTATA
1 ATAATAAATTTAATTATTATA
* *
13982156 ATGATAAATTTAAATATTATA
1 ATAATAAATTTAATTATTATA
13982177 ATAATAATATTTAAATTATTAATA
1 ATAATAA-ATTT-AATTATT-ATA
*
13982201 AAAATA
1 ATAATA
13982207 TATATTTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.57
22 4 0.10
23 6 0.14
24 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATAAATTTAATTATTATA
Found at i:13990024 original size:133 final size:128
Alignment explanation
Indices: 13989855--13990225 Score: 346
Period size: 133 Copynumber: 2.9 Consensus size: 128
13989845 TAACGACTTT
* * *
13989855 GATAATCCATATAAAAAATTTATTGAA-AGAATTATTGAAGACAGTTTTGATCAAAAATACCTTT
1 GATAATCCATACAAAAAATTTATT-AAGGGGATTATTGAAGACAGTTTTGATCAAAAATACCTTT
* * *
13989919 AATAATCTATTCT-AAAATTTTTTGTATAGATTATTTAAAATGTTTTTGAATAAAAATGCAAATG
65 AATAATCTATTCTCAAAATTTTTTGTATAGATTATTGAAAATGTTTTTAAACAAAAA--C--A--
13989983 ACATC
124 ACATC
*
13989988 GATAATCCATACAAAAAATTTATTAAGGGGATTATTGAA-AGC-GTTTTTCG-TAAAAAATACCT
1 GATAATCCATACAAAAAATTTATTAAGGGGATTATTGAAGA-CAG-TTTT-GATCAAAAATACCT
* * * ** * *
13990050 TCAATAATCT-CTCTCAATATTTTTTGTATAGATTATTGAATGTGTTTTTAAACAAAAACACCTT
63 TTAATAATCTATTCTCAAAATTTTTTGTATAGATTATTGAAAATGTTTTTAAACAAAAACAACAT
13990114 C
128 C
* * * ** *
13990115 AATAATTCATACAAAAATTTTATCGAGGGGATTATTGAAGACATTTTTGA-CAAAAAATA-CTTT
1 GATAATCCATACAAAAAATTTATTAAGGGGATTATTGAAGACAGTTTTGATC-AAAAATACCTTT
* * * * *
13990178 CAATAATC-ATTTTCAAAATTTTATGTATGGATTATTGAATATATTTTT
65 -AATAATCTATTCTCAAAATTTTTTGTATAGATTATTGAAAATGTTTTT
13990226 GGTAAAAAAA
Statistics
Matches: 198, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
126 4 0.02
127 88 0.44
128 1 0.01
129 1 0.01
131 1 0.01
132 7 0.04
133 95 0.48
134 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (128 bp):
GATAATCCATACAAAAAATTTATTAAGGGGATTATTGAAGACAGTTTTGATCAAAAATACCTTTA
ATAATCTATTCTCAAAATTTTTTGTATAGATTATTGAAAATGTTTTTAAACAAAAACAACATC
Found at i:13990180 original size:127 final size:128
Alignment explanation
Indices: 13989856--13990225 Score: 342
Period size: 127 Copynumber: 2.8 Consensus size: 128
13989846 AACGACTTTG
* * * * *
13989856 ATAATCCATATAAAAAATTTATTGAA-AGAATTATTGAAGACAGTTTTGATC-AAAAATACCTTT
1 ATAATCCATACAAAAAATTTA-TCAAGGGGATTATTGAAGACATTTTTGA-CAAAAAATA-CTTT
* * * *
13989919 -AATAATCTATTCTAAAATTTTTTGTATAGATTATTTAAAATGTTTTTGAATAAAAATGCAAATG
63 CAATAATCT-TTC-AAAATTTTTTGTATAGATTATTGAATATGTTTTTAAACAAAAA-GC-AA-G
*
13989983 ACATCG
123 ACATCA
* * * *
13989989 ATAATCCATACAAAAAATTTATTAAGGGGATTATTGAA-AGCGTTTTTCG-TAAAAAATACCTTC
1 ATAATCCATACAAAAAATTTATCAAGGGGATTATTGAAGA-CATTTTT-GACAAAAAATACTTTC
* * * *
13990052 AATAATCTCTCTCAATATTTTTTGTATAGATTATTGAATGTGTTTTTAAACAAAAA-C-A-CCTT
64 AATAATCT-T-TCAAAATTTTTTGTATAGATTATTGAATATGTTTTTAAACAAAAAGCAAGACAT
13990114 CA
127 CA
* * *
13990116 ATAATTCATACAAAAATTTTATCGAGGGGATTATTGAAGACATTTTTGACAAAAAATACTTTCAA
1 ATAATCCATACAAAAAATTTATCAAGGGGATTATTGAAGACATTTTTGACAAAAAATACTTTCAA
* * *
13990181 TAATCATTTTCAAAATTTTATGTATGGATTATTGAATATATTTTT
66 TAATC--TTTCAAAATTTTTTGTATAGATTATTGAATATGTTTTT
13990226 GGTAAAAAAA
Statistics
Matches: 197, Mismatches: 30, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
126 1 0.01
127 93 0.47
128 2 0.01
129 2 0.01
131 1 0.01
132 7 0.04
133 88 0.45
134 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (128 bp):
ATAATCCATACAAAAAATTTATCAAGGGGATTATTGAAGACATTTTTGACAAAAAATACTTTCAA
TAATCTTTCAAAATTTTTTGTATAGATTATTGAATATGTTTTTAAACAAAAAGCAAGACATCA
Found at i:13990224 original size:63 final size:66
Alignment explanation
Indices: 13990039--13990298 Score: 204
Period size: 64 Copynumber: 4.1 Consensus size: 66
13990029 CGTTTTTCGT
* * * * * * **
13990039 AAAAAATACCTTCAATAATC-TCTCTC-AATATTTTTTGTATAGATTATTGAATGTGTTTTTAAA
1 AAAAAATACCTTCAATAATCATCTTTCAAAAATTTTATGTATGGATTATTGAATATATTTTTGGA
13990102 C
66 C
* * * * * *
13990103 -AAAAACACCTTCAATAAT--TCATACAAAAATTTTATCG-AGGGGATTATTGAAGACATTTTT-
1 AAAAAATACCTTCAATAATCATCTTTCAAAAATTTTAT-GTA-TGGATTATTGAATATATTTTTG
13990163 GAC
64 GAC
*
13990166 AAAAAATACTTTCAATAATCAT-TTTC-AAAATTTTATGTATGGATTATTGAATATATTTTTGGT
1 AAAAAATACCTTCAATAATCATCTTTCAAAAATTTTATGTATGGATTATTGAATATATTTTTGG-
13990229 A-
65 AC
* * * * * *
13990230 AAAAAATGCTTTTAATAAT-TTCTTTCAAAAATTTT-TATATGAATTATTGAA-AGTATTTTTGG
1 AAAAAATACCTTCAATAATCATCTTTCAAAAATTTTATGTATGGATTATTGAATA-TATTTTTGG
13990292 AC
65 AC
13990294 AAAAA
1 AAAAA
13990299 CAAACCGAAT
Statistics
Matches: 158, Mismatches: 25, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
62 3 0.02
63 50 0.32
64 93 0.59
65 11 0.07
66 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (66 bp):
AAAAAATACCTTCAATAATCATCTTTCAAAAATTTTATGTATGGATTATTGAATATATTTTTGGA
C
Found at i:13995000 original size:56 final size:55
Alignment explanation
Indices: 13994887--13995004 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 55
13994877 TGCTAATTAT
* * * *
13994887 ATTGTATTAATTCCTGCTGTTTAAGCTCCTTATCTTTTTTCTGTCTTTTCCATTCA
1 ATTGT-TTAATTCCTGCTGCTTAAGCTCCTTATCTTTTTTCTGCCTTATCCAGTCA
* * *
13994943 ATTGTTTAAATTTCTGCTGCTTATGCTCCTTATC-TTTTTCTTGCCTTATCTAGTCA
1 ATTGTTT-AATTCCTGCTGCTTAAGCTCCTTATCTTTTTTC-TGCCTTATCCAGTCA
13994999 ATTGTT
1 ATTGTT
13995005 AAGGAGCACT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 8 0.15
56 45 0.85
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.53
Consensus pattern (55 bp):
ATTGTTTAATTCCTGCTGCTTAAGCTCCTTATCTTTTTTCTGCCTTATCCAGTCA
Found at i:14009174 original size:30 final size:30
Alignment explanation
Indices: 14009119--14009179 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
14009109 TGTCATTAAA
* * *
14009119 TTTTTTTTCAATTATAACTATAATAACTTT
1 TTTTTTTTCAATTACAACTACAATAAATTT
*
14009149 TTTTTTTTCAATTACAATTACAATAAATTT
1 TTTTTTTTCAATTACAACTACAATAAATTT
14009179 T
1 T
14009180 ATTATTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTTTTTCAATTACAACTACAATAAATTT
Found at i:14014940 original size:3 final size:3
Alignment explanation
Indices: 14014926--14014974 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
14014916 TTCAACTTAA
*
14014926 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14014974 A
1 A
14014975 TGTAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14015038 original size:18 final size:19
Alignment explanation
Indices: 14014994--14015039 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
14014984 AAAGAAATCT
*
14014994 AAAAATAAATAAAAATGAA
1 AAAAAAAAATAAAAATGAA
**
14015013 AACGAAAAAT-AAAATGAA
1 AAAAAAAAATAAAAATGAA
14015031 AAAAAAAAA
1 AAAAAAAAA
14015040 AGAAAACTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAAATAAAAATGAA
Found at i:14015312 original size:19 final size:19
Alignment explanation
Indices: 14015285--14015321 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14015275 CTCACTAGAA
14015285 TTTGACCAAAAACTTCAAC
1 TTTGACCAAAAACTTCAAC
*
14015304 TTTGGCCAAAAACTTCAA
1 TTTGACCAAAAACTTCAA
14015322 TCGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (19 bp):
TTTGACCAAAAACTTCAAC
Found at i:14016206 original size:42 final size:42
Alignment explanation
Indices: 14016142--14016222 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
14016132 AAAATTTTAA
* * * *
14016142 TTCCTCTAAACAGAGGCTAAACAATTTTAAAACGAGAATATG
1 TTCCTCTAAACAAAAGCCAAACAAATTTAAAACGAGAATATG
* *
14016184 TTCCTTTAAACAAAAGCCAAACAAATTTAAAATGAGAAT
1 TTCCTCTAAACAAAAGCCAAACAAATTTAAAACGAGAAT
14016223 GGGCTCCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (42 bp):
TTCCTCTAAACAAAAGCCAAACAAATTTAAAACGAGAATATG
Found at i:14016332 original size:43 final size:41
Alignment explanation
Indices: 14016277--14016433 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 41
14016267 AGGCTTATTT
* *
14016277 ATTCAGAA-GCTAAATAACTTTAAAATAGGGAACAGACTTCTCTG
1 ATTCA-AAGGCTAAACAACTTTAAAATAGGGAA-AGAC-TCT-TC
* * * *
14016321 A-GCAAAGGCTAAACAACTTTAAAATAAGAAATAGACTCATTT
1 ATTCAAAGGCTAAACAACTTTAAAATAGGGAA-AGACTC-TTC
* *
14016363 ATTTAAAGGCTAAATAACTTTAAAATA-GGAAATGAGCTCTTTC
1 ATTCAAAGGCTAAACAACTTTAAAATAGGGAAA-GA-CTC-TTC
14016406 ATTCAAAGGCTAAACAACTTTAAAATAG
1 ATTCAAAGGCTAAACAACTTTAAAATAG
14016434 CCTTTTAACC
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 11 0.12
43 80 0.86
44 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.27
Consensus pattern (41 bp):
ATTCAAAGGCTAAACAACTTTAAAATAGGGAAAGACTCTTC
Found at i:14016354 original size:86 final size:86
Alignment explanation
Indices: 14016243--14016432 Score: 244
Period size: 86 Copynumber: 2.2 Consensus size: 86
14016233 ATTCAGAGGT
* * *
14016243 TAAACAATTTTAAAAATAAGAAATAGGCTTATTTATTCAGAA-GCTAAATAACTTTAAAATAGGG
1 TAAACAACTTT-AAAATAAGAAATAGACTCATTTATTCA-AAGGCTAAATAACTTTAAAATA-GG
*
14016307 AACA-GA-CTTCTCTGA-GCAAAGGC
63 AA-ATGAGC-TCTCTCATGCAAAGGC
*
14016330 TAAACAACTTTAAAATAAGAAATAGACTCATTTATTTAAAGGCTAAATAACTTTAAAATAGGAAA
1 TAAACAACTTTAAAATAAGAAATAGACTCATTTATTCAAAGGCTAAATAACTTTAAAATAGGAAA
* *
14016395 TGAGCTCTTTCATTCAAAGGC
66 TGAGCTCTCTCATGCAAAGGC
14016416 TAAACAACTTTAAAATA
1 TAAACAACTTTAAAATA
14016433 GCCTTTTAAC
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
84 1 0.01
85 13 0.14
86 68 0.74
87 10 0.11
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (86 bp):
TAAACAACTTTAAAATAAGAAATAGACTCATTTATTCAAAGGCTAAATAACTTTAAAATAGGAAA
TGAGCTCTCTCATGCAAAGGC
Found at i:14039011 original size:3 final size:3
Alignment explanation
Indices: 14039003--14039035 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14038993 TTGTAAAGGT
14039003 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14039036 GATTGTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14039894 original size:19 final size:19
Alignment explanation
Indices: 14039870--14039909 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
14039860 TAAAACAGAC
*
14039870 AAAATAGACAAATAAAAAT
1 AAAATAAACAAATAAAAAT
*
14039889 AAAATAAATAAATAAAAAT
1 AAAATAAACAAATAAAAAT
14039908 AA
1 AA
14039910 TTACTGGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAACAAATAAAAAT
Found at i:14045364 original size:19 final size:19
Alignment explanation
Indices: 14045323--14045365 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14045313 TATCATATTA
* * *
14045323 AAATATATTTTTAAAAGAT
1 AAATAAATTTTTAAAACAG
*
14045342 AAATAAATTTTTAAAACCG
1 AAATAAATTTTTAAAACAG
14045361 AAATA
1 AAATA
14045366 GAGCTATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
AAATAAATTTTTAAAACAG
Found at i:14047956 original size:30 final size:29
Alignment explanation
Indices: 14047900--14047989 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
14047890 ATTTTATTAT
* *
14047900 AATCAATTAAATTTAAAATTTATATTTCA
1 AATCAATTAAATTTTAAATATATATTTCA
* **
14047929 AATCAATTAAATTTTTAAACATATATTTTT
1 AATCAATTAAA-TTTTAAATATATATTTCA
* * *
14047959 ATTCAATTAAAATCTTAAATATCTATTTCA
1 AATCAATT-AAATTTTAAATATATATTTCA
14047989 A
1 A
14047990 TATTAATTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 11 0.23
30 34 0.71
31 3 0.06
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (29 bp):
AATCAATTAAATTTTAAATATATATTTCA
Found at i:14050960 original size:23 final size:23
Alignment explanation
Indices: 14050922--14051004 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
14050912 ATTTAATTAA
* * **
14050922 ATTAAACAAGTTTATTCGTGAAT
1 ATTAAACAAATATATTTATGAAT
14050945 ATTAAACAAATATATTTATGAACAT
1 ATTAAACAAATATATTTATG-A-AT
*
14050970 ATATAAATAAATATATTTATGAAT
1 AT-TAAACAAATATATTTATGAAT
*
14050994 AATAAACAAAT
1 ATTAAACAAAT
14051005 CATAATCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
23 24 0.48
24 4 0.08
25 5 0.10
26 17 0.34
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (23 bp):
ATTAAACAAATATATTTATGAAT
Found at i:14050982 original size:26 final size:25
Alignment explanation
Indices: 14050943--14051004 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
14050933 TTATTCGTGA
14050943 ATATTAAACAAATATATTTATGAAC
1 ATATTAAACAAATATATTTATGAAC
*
14050968 ATATATAAATAAATATATTTATG-A-
1 ATAT-TAAACAAATATATTTATGAAC
*
14050992 ATAATAAACAAAT
1 ATATTAAACAAAT
14051005 CATAATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 8 0.24
24 3 0.09
25 5 0.15
26 17 0.52
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.35
Consensus pattern (25 bp):
ATATTAAACAAATATATTTATGAAC
Found at i:14051180 original size:22 final size:23
Alignment explanation
Indices: 14051155--14051205 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
14051145 AATATTAAAC
*
14051155 AAATAAAATTTAAAT-TAATTAT
1 AAATAAAATTTAAATATAAATAT
**
14051177 AAAT-AAATTTATTTATAAATAT
1 AAATAAAATTTAAATATAAATAT
14051199 AAATAAA
1 AAATAAA
14051206 CAAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.33
22 14 0.58
23 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATAAAATTTAAATATAAATAT
Found at i:14053348 original size:2 final size:2
Alignment explanation
Indices: 14053335--14053364 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14053325 TAATGATAAG
*
14053335 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14053365 TATGTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14054151 original size:24 final size:24
Alignment explanation
Indices: 14054124--14054183 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
14054114 TAAGAGCTTG
*
14054124 AACCTAGCTTGGCCAAA-AAGCTCC
1 AACCTAGCTTGACCAAAGAA-CTCC
* * *
14054148 AACCCAACTTGACCAAAGAACTCG
1 AACCTAGCTTGACCAAAGAACTCC
*
14054172 AACTTAGCTTGA
1 AACCTAGCTTGA
14054184 TAAAAAAAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.18
Consensus pattern (24 bp):
AACCTAGCTTGACCAAAGAACTCC
Found at i:14054601 original size:85 final size:85
Alignment explanation
Indices: 14054422--14054615 Score: 205
Period size: 85 Copynumber: 2.3 Consensus size: 85
14054412 ATTCAAAGAA
* * * * * * *
14054422 CTCGAACTCAGCTCA-ACAAAAAAAGTTCAAATTTATAAAATGCCTTTATAAAGGCTCAACTCAA
1 CTCGAACTCAACTCAGTCAAAATAA-CTCAAATTTACAAAATGCCTTTATAAAGACCCAACTCAA
* *
14054486 CAAAACAGCTTGATCGAAAAG
65 CAAAACAACTCGATCGAAAAG
* *
14054507 CTCGAACTCAACTTAGTCAAAATAACTCAAATTTACAAAATG-CTTTCATAAAGACCCAATTCAA
1 CTCGAACTCAACTCAGTCAAAATAACTCAAATTTACAAAATGCCTTT-ATAAAGACCCAACTCAA
*
14054571 CAAAATAACTCGATC-AAATAG
65 CAAAACAACTCGATCGAAA-AG
* * *
14054592 CTTGGACTCAACTCGGTCAAAATA
1 CTCGAACTCAACTCAGTCAAAATA
14054616 GTTCGGATCT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
84 7 0.08
85 76 0.84
86 7 0.08
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (85 bp):
CTCGAACTCAACTCAGTCAAAATAACTCAAATTTACAAAATGCCTTTATAAAGACCCAACTCAAC
AAAACAACTCGATCGAAAAG
Found at i:14054632 original size:85 final size:85
Alignment explanation
Indices: 14054422--14054649 Score: 201
Period size: 85 Copynumber: 2.7 Consensus size: 85
14054412 ATTCAAAGAA
* * * * * * *
14054422 CTCGAACTCAGCTCA-ACAAAAAAAGTTCAAATTTATAAAATGCCTTT-ATAAAGGCTCAACTCA
1 CTCGAACTCAACTCAGTCAAAATAA-CTCAAATCTATAAAATG-CTTTCATAAAGACCCAACTCA
* *
14054485 ACAAAACAGCTTGATCGAAAAG
64 ACAAAACAACTCGATCGAAAAG
* * * *
14054507 CTCGAACTCAACTTAGTCAAAATAACTCAAATTTACAAAATGCTTTCATAAAGACCCAATTCAAC
1 CTCGAACTCAACTCAGTCAAAATAACTCAAATCTATAAAATGCTTTCATAAAGACCCAACTCAAC
*
14054572 AAAATAACTCGATC-AAATAG
66 AAAACAACTCGATCGAAA-AG
* * * ** ** * *
14054592 CTTGGACTCAACTCGGTCAAAATAGTTCGGATCTATAAAATACCTTCATAAAGACCCA
1 CTCGAACTCAACTCAGTCAAAATAACTCAAATCTATAAAATGCTTTCATAAAGACCCA
14054650 TTTGACAAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
84 7 0.06
85 102 0.88
86 7 0.06
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (85 bp):
CTCGAACTCAACTCAGTCAAAATAACTCAAATCTATAAAATGCTTTCATAAAGACCCAACTCAAC
AAAACAACTCGATCGAAAAG
Found at i:14055122 original size:22 final size:23
Alignment explanation
Indices: 14055097--14055151 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
14055087 GTTAGCTCAG
14055097 CTAAAAGAGCTTCTT-AACTTGA
1 CTAAAAGAGCTTCTTCAACTTGA
* * *
14055119 CTAAAAAAGC-TCTTCAATTTGG
1 CTAAAAGAGCTTCTTCAACTTGA
*
14055141 CCAAAAGAGCT
1 CTAAAAGAGCT
14055152 CATATCAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (23 bp):
CTAAAAGAGCTTCTTCAACTTGA
Found at i:14055181 original size:19 final size:19
Alignment explanation
Indices: 14055141--14055248 Score: 69
Period size: 19 Copynumber: 5.7 Consensus size: 19
14055131 TTCAATTTGG
* **
14055141 CCAAAAGAGCTCATATCAA
1 CCAAAAGAGCTCACATTGA
14055160 CCAAAAGAGCTCACATTGA
1 CCAAAAGAGCTCACATTGA
***
14055179 CC-AAAGTTATCACATTGA
1 CCAAAAGAGCTCACATTGA
**
14055197 TTGAAAA-AGCTCAGC-TTGA
1 -CCAAAAGAGCTCA-CATTGA
** *
14055216 CCAAAAGAATTCACCTTGA
1 CCAAAAGAGCTCACATTGA
*
14055235 ACAAAAGAGCTCAC
1 CCAAAAGAGCTCAC
14055249 CTCTACAAAA
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
18 18 0.27
19 44 0.67
20 4 0.06
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (19 bp):
CCAAAAGAGCTCACATTGA
Found at i:14055576 original size:27 final size:27
Alignment explanation
Indices: 14055546--14055612 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
14055536 ACCTTAATCA
14055546 AAAGAGCTCATCTTGATCACCTCGA-C
1 AAAGAGCTCATCTTGATCACCTCGATC
* *
14055572 TAAAGAGCTCATTTTGATCACTTCGATC
1 -AAAGAGCTCATCTTGATCACCTCGATC
14055600 AAAGAGCTCATCT
1 AAAGAGCTCATCT
14055613 CGATAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (27 bp):
AAAGAGCTCATCTTGATCACCTCGATC
Found at i:14055687 original size:19 final size:19
Alignment explanation
Indices: 14055665--14055706 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14055655 TAAAATGATT
*
14055665 AGCTTGGCTAAAAAAGCTC
1 AGCTTGGCCAAAAAAGCTC
*
14055684 AGCTTGGCCAAAAAAGCTT
1 AGCTTGGCCAAAAAAGCTC
14055703 AGCT
1 AGCT
14055707 AAATCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
AGCTTGGCCAAAAAAGCTC
Found at i:14057555 original size:13 final size:13
Alignment explanation
Indices: 14057537--14057561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14057527 AAGGTTAAAA
14057537 AATAAAAAATTTG
1 AATAAAAAATTTG
14057550 AATAAAAAATTT
1 AATAAAAAATTT
14057562 ATTGGACACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATAAAAAATTTG
Found at i:14057949 original size:13 final size:13
Alignment explanation
Indices: 14057926--14057960 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
14057916 TATCAAAAAG
14057926 TAAAA-AAAATCA
1 TAAAATAAAATCA
*
14057938 TAAAATAAAATCT
1 TAAAATAAAATCA
14057951 TAAAATAAAA
1 TAAAATAAAA
14057961 AAGTAAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAATAAAATCA
Found at i:14058926 original size:16 final size:15
Alignment explanation
Indices: 14058902--14058956 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
14058892 AATTAATTAT
*
14058902 ATATATTTATATAATA
1 ATAT-TTTAAATAATA
* *
14058918 ATATTTTTAAATATTT
1 ATA-TTTTAAATAATA
*
14058934 ATATTTTAAAAAATA
1 ATATTTTAAATAATA
14058949 ATATTTTA
1 ATATTTTA
14058957 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 17 0.53
16 14 0.44
17 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTAAATAATA
Found at i:14058939 original size:30 final size:31
Alignment explanation
Indices: 14058894--14058955 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
14058884 TTTTAATTAA
* * *
14058894 TTAATTATATATA-TTTATATAATAATATTT
1 TTAAATATATATATTTTAAAAAATAATATTT
*
14058924 TTAAATATTTATATTTTAAAAAATAATATTT
1 TTAAATATATATATTTTAAAAAATAATATTT
14058955 T
1 T
14058956 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTAAATATATATATTTTAAAAAATAATATTT
Found at i:14058956 original size:22 final size:22
Alignment explanation
Indices: 14058927--14058979 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
14058917 AATATTTTTA
14058927 AATA-TTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
14058948 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
14058970 AATATTTTAT
1 AATATTTTAT
14058980 TAATTTCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:14059116 original size:27 final size:27
Alignment explanation
Indices: 14059062--14059116 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
14059052 ATTCGGATCG
*
14059062 AATCGAGGTCGGGTTTGATGAGCAAAA
1 AATCGAGGTCGGGTTTGACGAGCAAAA
14059089 AATCG-GGTCGGGTTTGGGACGAGCAAAA
1 AATCGAGGTCGGGTTT--GACGAGCAAAA
14059117 CCCAACCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 5 0.20
28 10 0.40
ACGTcount: A:0.31, C:0.13, G:0.36, T:0.20
Consensus pattern (27 bp):
AATCGAGGTCGGGTTTGACGAGCAAAA
Found at i:14060513 original size:16 final size:14
Alignment explanation
Indices: 14060486--14060517 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14060476 TTGAATCCTA
14060486 AATTTTTTAAATAT
1 AATTTTTTAAATAT
*
14060500 AATTTTTTAAAAAT
1 AATTTTTTAAATAT
14060514 AATT
1 AATT
14060518 ACATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTTTAAATAT
Found at i:14072092 original size:69 final size:69
Alignment explanation
Indices: 14072018--14072160 Score: 286
Period size: 69 Copynumber: 2.1 Consensus size: 69
14072008 TGAAGAGGTG
14072018 TTTCTACCATCAATTACTTTCATTAATGTTAATTTCAACGCAACTTTATAAATGATTTATCAAAA
1 TTTCTACCATCAATTACTTTCATTAATGTTAATTTCAACGCAACTTTATAAATGATTTATCAAAA
14072083 ATTA
66 ATTA
14072087 TTTCTACCATCAATTACTTTCATTAATGTTAATTTCAACGCAACTTTATAAATGATTTATCAAAA
1 TTTCTACCATCAATTACTTTCATTAATGTTAATTTCAACGCAACTTTATAAATGATTTATCAAAA
14072152 ATTA
66 ATTA
14072156 TTTCT
1 TTTCT
14072161 TTCTCTCTCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.43
Consensus pattern (69 bp):
TTTCTACCATCAATTACTTTCATTAATGTTAATTTCAACGCAACTTTATAAATGATTTATCAAAA
ATTA
Found at i:14081472 original size:4 final size:4
Alignment explanation
Indices: 14081463--14081489 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14081453 AATTCAATGT
14081463 GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA
14081490 CATCCAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14082084 original size:31 final size:31
Alignment explanation
Indices: 14082049--14082110 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
14082039 TATTTTTATT
*
14082049 ATATAA-ATATTATATCAATAATATATCATTA
1 ATATAATATATTAT-TCAATAATATAACATTA
* *
14082080 ATATAATATATTATTTATTAATATAACATTA
1 ATATAATATATTATTCAATAATATAACATTA
14082111 TTTTATTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATAATATATTATTCAATAATATAACATTA
Found at i:14082147 original size:8 final size:8
Alignment explanation
Indices: 14082136--14082186 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
14082126 AAATAATATT
14082136 TATTAATA
1 TATTAATA
14082144 TATTAATAAA
1 TATTAAT--A
*
14082154 TATTATTA
1 TATTAATA
14082162 TATTAATA
1 TATTAATA
14082170 TTATT-ATA
1 -TATTAATA
14082178 TTATTAATA
1 -TATTAATA
14082187 ACAAAGGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 23 0.62
9 7 0.19
10 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTAATA
Found at i:14084456 original size:21 final size:22
Alignment explanation
Indices: 14084432--14084473 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
14084422 TTAAATAATT
14084432 TTTA-AAA-ATAATATTTATATG
1 TTTAGAAATATAAT-TTTATATG
14084453 TTTAGTAAATATAATTTTATA
1 TTTAG-AAATATAATTTTATA
14084474 ATTCTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.22
23 9 0.50
24 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TTTAGAAATATAATTTTATATG
Found at i:14085015 original size:73 final size:74
Alignment explanation
Indices: 14084902--14085043 Score: 207
Period size: 73 Copynumber: 1.9 Consensus size: 74
14084892 AAATTCCTAT
* * *
14084902 TTTCAACAAAATTTATATTTTTCATTTTAGAAACGTCATTTTTAATAAAGTTTGAAAAATATATT
1 TTTCAACAAAAATTACATTTTTCATTTTAAAAACGTCATTTTTAATAAAGTTTG-AAAATATATT
14084967 -TTTTCATAA
65 CTTTTCATAA
* * *
14084976 TTTCAACAAAAATTACATTTTT-ATTTTAAAAACGTCATTTTTATTGAATTTTGAAAATATATTC
1 TTTCAACAAAAATTACATTTTTCATTTTAAAAACGTCATTTTTAATAAAGTTTGAAAATATATTC
14085040 TTTT
66 TTTT
14085044 ATGTTTTCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 10 0.16
73 31 0.51
74 20 0.33
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (74 bp):
TTTCAACAAAAATTACATTTTTCATTTTAAAAACGTCATTTTTAATAAAGTTTGAAAATATATTC
TTTTCATAA
Found at i:14085442 original size:18 final size:19
Alignment explanation
Indices: 14085418--14085471 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
14085408 ATATTTGTTC
14085418 CATATTTTCAACAAAAATT
1 CATATTTTCAACAAAAATT
* *
14085437 -ATATTTTTATCTTAAAAATT
1 CATATTTTCAAC--AAAAATT
*
14085457 CATCTTTTCAACAAA
1 CATATTTTCAACAAA
14085472 GCTATATCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 7 0.26
21 8 0.30
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (19 bp):
CATATTTTCAACAAAAATT
Found at i:14085616 original size:183 final size:184
Alignment explanation
Indices: 14085184--14085628 Score: 499
Period size: 183 Copynumber: 2.4 Consensus size: 184
14085174 CTATGTTTTT
* ** * * * *
14085184 TTTTTTATTTTAGAAACGTCATTTTATTAAATTTTAAAAA-ATATTTTTTCATGTTTTCAGCAAA
1 TTTTTTATTTTAGAAACATTGTTTTATTAAATTCTAAAAATATTTTTTTTCATATTTTCAACAAA
* * * * * *
14085248 AAATACATTTTTATCTTAAAAATATCATCTTTTCAATAAAAATTATGTTTTCTATTTTAAAAATA
66 AATTATATTTTTATCTTAAAAATATCATCTTTTCAATAAAAACTATATCTTCTATTTTAAAAACA
* * * * *
14085313 TTGTTTTTGTTGAATTCAAAAAAATATTTTTTCATATTTTTAATAAAAGCTACG
131 TTATCTTTATTGAATTCAAAAAAATATTTTTTCATATTTTTAATAAAAACTACA
* * * * *
14085367 TTTTCTATATTAGAAGCATTGTTTTTATTAAATTCTGAAAAATA-TTTGTTCCATATTTTCAACA
1 TTTTTTATTTTAGAAACATTG-TTTTATTAAATTCT-AAAAATATTTTTTTTCATATTTTCAACA
* * *
14085431 AAAATTATATTTTTATCTTAAAAAT-TCATCTTTTCAA-CAAAGCTATATCTTCTATTTTAGAAA
64 AAAATTATATTTTTATCTTAAAAATATCATCTTTTCAATAAAAACTATATCTTCTATTTTAAAAA
* **
14085494 CATTATCTTTATTGAATTC-TAAAAAT-TTTTTTTTTATTTTTAAATAAAAACTACA
129 CATTATCTTTATTGAATTCAAAAAAATATTTTTTCATATTTTT-AATAAAAACTACA
* *
14085549 TTTTTTATTTTAAAAACATTGTCTTTATTGAATTCTAAAAATTATTTTTTTTCATAATTTT-AAC
1 TTTTTTATTTTAGAAACATTGT-TTTATTAAATTCTAAAAA-TATTTTTTTTCAT-ATTTTCAAC
*
14085613 AAAAATTATTTTTTTA
63 AAAAATTATATTTTTA
14085629 AAATATTATA
Statistics
Matches: 217, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
181 19 0.09
182 48 0.22
183 76 0.35
184 30 0.14
185 43 0.20
186 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (184 bp):
TTTTTTATTTTAGAAACATTGTTTTATTAAATTCTAAAAATATTTTTTTTCATATTTTCAACAAA
AATTATATTTTTATCTTAAAAATATCATCTTTTCAATAAAAACTATATCTTCTATTTTAAAAACA
TTATCTTTATTGAATTCAAAAAAATATTTTTTCATATTTTTAATAAAAACTACA
Found at i:14085625 original size:71 final size:71
Alignment explanation
Indices: 14085483--14085617 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 71
14085473 CTATATCTTC
* *
14085483 TATTTTAGAAACATTATCTTTATTGAATTCTAAAAATTTTTTTTTTATTTTTAAATAAAAACTAC
1 TATTTTAAAAACATTATCTTTATTGAATTCTAAAAATTTTTTTTTTATTTTTAAACAAAAACTAC
14085548 ATTTTT
66 ATTTTT
*
14085554 TATTTTAAAAACATTGTCTTTATTGAATTCTAAAAATTATTTTTTTTCATAATTTT-AACAAAAA
1 TATTTTAAAAACATTATCTTTATTGAATTCTAAAAATT-TTTTTTTT-AT--TTTTAAACAAAAA
14085618 TTATTTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
71 36 0.63
72 8 0.14
73 2 0.04
74 7 0.12
75 4 0.07
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (71 bp):
TATTTTAAAAACATTATCTTTATTGAATTCTAAAAATTTTTTTTTTATTTTTAAACAAAAACTAC
ATTTTT
Found at i:14086255 original size:23 final size:23
Alignment explanation
Indices: 14086211--14086256 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
14086201 TAGATAAATA
*
14086211 ATTTTTTAAATATTATATTAATT
1 ATTTTTTAAATATTAAATTAATT
14086234 ATTTTTTAAAT-TTAAATATAATT
1 ATTTTTTAAATATTAAAT-TAATT
14086257 CATAACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTTAAATATTAAATTAATT
Found at i:14086267 original size:21 final size:21
Alignment explanation
Indices: 14086242--14086284 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14086232 TTATTTTTTA
*
14086242 AATTTAAATATAATTCATAAC
1 AATTTAAAAATAATTCATAAC
14086263 AATTTAAAAATAATTCATAAC
1 AATTTAAAAATAATTCATAAC
14086284 A
1 A
14086285 TTAACGTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTTAAAAATAATTCATAAC
Found at i:14089396 original size:2 final size:2
Alignment explanation
Indices: 14089389--14089446 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
14089379 AGTGAACAGG
14089389 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14089431 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
14089447 GTACGCACAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14091399 original size:2 final size:2
Alignment explanation
Indices: 14091392--14091430 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14091382 GCTTTTGCAC
14091392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14091431 TCTTCTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14092202 original size:15 final size:15
Alignment explanation
Indices: 14092182--14092230 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14092172 CATAAAAAAT
14092182 AAATAAATTATAATC
1 AAATAAATTATAATC
*
14092197 AAATAAATTTAAAATC
1 AAATAAA-TTATAATC
* * *
14092213 AAACAAACTATAAAC
1 AAATAAATTATAATC
14092228 AAA
1 AAA
14092231 AGGGATTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATTATAATC
Found at i:14092214 original size:16 final size:15
Alignment explanation
Indices: 14092177--14092215 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
14092167 ATGTTCATAA
14092177 AAAAT-AAATAAATT
1 AAAATCAAATAAATT
*
14092191 ATAATCAAATAAATTT
1 AAAATCAAATAAA-TT
14092207 AAAATCAAA
1 AAAATCAAA
14092216 CAAACTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.19
15 7 0.33
16 10 0.48
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATCAAATAAATT
Found at i:14092356 original size:73 final size:73
Alignment explanation
Indices: 14092266--14092406 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 73
14092256 GGATATTCAC
* *
14092266 AAACAACCTGCAAATTTT-AAAATATAAGAAAATTTGAAGAAAAAATTTTCATTGAACACACCAA
1 AAACAACCTGCAAATTTTGAAAA-ACAAGAAAATTTGAAG-AAAAATTTTCACTGAACACACCAA
14092330 AATTTCTTAT
64 AATTTCTTAT
* * * * *
14092340 AAAC-ACCTTCAAATTTTGAACAACAAGAAAATTTGAAGAAAATTTTTCACTGAATACTCCAAAA
1 AAACAACCTGCAAATTTTGAAAAACAAGAAAATTTGAAGAAAAATTTTCACTGAACACACCAAAA
14092404 TTT
66 TTT
14092407 TTTCATGGAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 25 0.42
73 27 0.46
74 7 0.12
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (73 bp):
AAACAACCTGCAAATTTTGAAAAACAAGAAAATTTGAAGAAAAATTTTCACTGAACACACCAAAA
TTTCTTAT
Found at i:14093565 original size:10 final size:10
Alignment explanation
Indices: 14093550--14093574 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14093540 GTCATAAACC
14093550 AGAGCAGGGT
1 AGAGCAGGGT
14093560 AGAGCAGGGT
1 AGAGCAGGGT
14093570 AGAGC
1 AGAGC
14093575 TCCTTACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.48, T:0.08
Consensus pattern (10 bp):
AGAGCAGGGT
Found at i:14095444 original size:3 final size:3
Alignment explanation
Indices: 14095436--14095466 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
14095426 ATATTTAATC
14095436 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14095467 ATGATGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14095502 original size:21 final size:21
Alignment explanation
Indices: 14095473--14095524 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14095463 TTATATGATG
14095473 AAAT-TTTAATCTCATTATTA
1 AAATATTTAATCTCATTATTA
* * *
14095493 TAATATTTAATTTTATTATTA
1 AAATATTTAATCTCATTATTA
*
14095514 AAATAATTAAT
1 AAATATTTAAT
14095525 ATCACCATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATATTTAATCTCATTATTA
Found at i:14095660 original size:21 final size:21
Alignment explanation
Indices: 14095615--14095660 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14095605 TAATGAGATT
* *
14095615 TTAATTTTATTATTATTATAT
1 TTAATTTTATTATTATAATAA
14095636 TTAATTTTA-TATTAATAATAA
1 TTAATTTTATTATT-ATAATAA
14095657 TTAA
1 TTAA
14095661 CTATATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAATTTTATTATTATAATAA
Found at i:14096971 original size:36 final size:33
Alignment explanation
Indices: 14096885--14096972 Score: 81
Period size: 36 Copynumber: 2.5 Consensus size: 33
14096875 ATTAATCTCA
14096885 TTTTATTAATGAAAA-AAAATATACTTTTAAATT
1 TTTTATTAAT-AAAATAAAATATACTTTTAAATT
* *
14096918 TTTTAAATTAA-ATAAATAAAATTTTAATTTTTAAAATT
1 TTTT--ATTAATA-AAATAAAA-TAT-ACTTTT-AAATT
14096956 TTTTATTAATAAAATAA
1 TTTTATTAATAAAATAA
14096973 CATCATATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
33 5 0.11
34 3 0.07
35 9 0.20
36 13 0.29
37 6 0.13
38 9 0.20
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
TTTTATTAATAAAATAAAATATACTTTTAAATT
Found at i:14098800 original size:21 final size:21
Alignment explanation
Indices: 14098775--14098832 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
14098765 TAAATGTAAT
*
14098775 TTTATTTATTTTTATAGTATTA
1 TTTATTTATTTTTATAAT-TTA
14098797 -TTATTGT-TATTTTATAATTTA
1 TTTATT-TAT-TTTTATAATTTA
14098818 TTTATTTATTTTTAT
1 TTTATTTATTTTTAT
14098833 CTCTTTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (21 bp):
TTTATTTATTTTTATAATTTA
Found at i:14099714 original size:21 final size:21
Alignment explanation
Indices: 14099689--14099750 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
14099679 ACCAACCATT
*
14099689 TTTATTTTTTTATGTTTTTCA
1 TTTATTTTTTTATGTTTTGCA
*
14099710 TTTATTTTTTTAAT-TTTTGCT
1 TTTATTTTTTT-ATGTTTTGCA
14099731 TTTACTTTTATTTATGTTTT
1 TTTA-TTTT-TTTATGTTTT
14099751 ATATATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 20 0.57
22 8 0.23
23 7 0.20
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTTTTTATGTTTTGCA
Found at i:14100237 original size:18 final size:18
Alignment explanation
Indices: 14100198--14100266 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
14100188 AATGACAATT
*
14100198 AAAA-AAAACAAAAATAA
1 AAAATAAAACAAAAACAA
*
14100215 AAAATAAAATAAAAACAA
1 AAAATAAAACAAAAACAA
* **
14100233 CAAATATCACAAAAA-AA
1 AAAATAAAACAAAAACAA
14100250 GTAATAATAAAACAAAA
1 --AA-AATAAAACAAAA
14100267 TTTAAATTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 6 0.15
18 22 0.56
19 1 0.03
20 10 0.26
ACGTcount: A:0.78, C:0.09, G:0.01, T:0.12
Consensus pattern (18 bp):
AAAATAAAACAAAAACAA
Found at i:14103816 original size:6 final size:6
Alignment explanation
Indices: 14103798--14103846 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
14103788 TTCATAAATT
14103798 ATTTAA A-TTAA ATTTAA A-TTAA ATTTAA ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
14103844 ATT
1 ATT
14103847 AATTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:14107612 original size:2 final size:2
Alignment explanation
Indices: 14107605--14107652 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
14107595 CACAAATAGT
*
14107605 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14107647 TA TA TA
1 TA TA TA
14107653 AAAGTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14107998 original size:28 final size:27
Alignment explanation
Indices: 14107965--14108019 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
14107955 TTGATATATA
14107965 AAATTAAGA-TAAATTAAAATAATATTAT
1 AAATTAA-ATTAAATT-AAATAATATTAT
*
14107993 AAATTAAATTAAATTAAATATTATTAT
1 AAATTAAATTAAATTAAATAATATTAT
14108020 TTTGTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATTAAATTAAATTAAATAATATTAT
Found at i:14108072 original size:22 final size:20
Alignment explanation
Indices: 14108047--14108089 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
14108037 ATATTTCAAA
14108047 ATTAAGATAAAATAATTTATTT
1 ATTAA-ATAAAATAATTT-TTT
* *
14108069 ATTAATTAAAATTATTTTTT
1 ATTAAATAAAATAATTTTTT
14108089 A
1 A
14108090 AAAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTAAATAAAATAATTTTTT
Found at i:14108334 original size:21 final size:21
Alignment explanation
Indices: 14108306--14108349 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14108296 AACATAACTT
14108306 AAATATATAAAATTAT-AATA
1 AAATATATAAAATTATGAATA
*
14108326 AAATGATATAATATTATGAATA
1 AAAT-ATATAAAATTATGAATA
14108348 AA
1 AA
14108350 TTTAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATATATAAAATTATGAATA
Found at i:14108834 original size:8 final size:8
Alignment explanation
Indices: 14108816--14108856 Score: 73
Period size: 8 Copynumber: 5.0 Consensus size: 8
14108806 TGTGGGACAC
14108816 CAAACTAAA
1 CAAA-TAAA
14108825 CAAATAAA
1 CAAATAAA
14108833 CAAATAAA
1 CAAATAAA
14108841 CAAATAAA
1 CAAATAAA
14108849 CAAATAAA
1 CAAATAAA
14108857 GAAGGTAGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 28 0.88
9 4 0.12
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (8 bp):
CAAATAAA
Found at i:14111460 original size:33 final size:33
Alignment explanation
Indices: 14111420--14111497 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
14111410 AAAGCAAATG
*
14111420 ATGAAAAGCTTAATTTAGATTTTTAAGGCCAAA
1 ATGAAAAGCTGAATTTAGATTTTTAAGGCCAAA
* ** *
14111453 ATGAAAAGCAGAATTTATTTTTTTAAGGCCACA
1 ATGAAAAGCTGAATTTAGATTTTTAAGGCCAAA
14111486 ATGAAAAGCTGA
1 ATGAAAAGCTGA
14111498 TATAATTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGAAAAGCTGAATTTAGATTTTTAAGGCCAAA
Found at i:14116758 original size:16 final size:16
Alignment explanation
Indices: 14116716--14116760 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14116706 CATTCACAAT
* *
14116716 TAATTATATTCATAAA
1 TAATTAAATTTATAAA
14116732 TAATTAAATTTATAAA
1 TAATTAAATTTATAAA
* *
14116748 TAGTTAGATTTAT
1 TAATTAAATTTAT
14116761 TTAATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (16 bp):
TAATTAAATTTATAAA
Found at i:14116806 original size:27 final size:22
Alignment explanation
Indices: 14116751--14116802 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14116741 TTATAAATAG
14116751 TTAGATTTATTTAATTTAAATT
1 TTAGATTTATTTAATTTAAATT
14116773 TTAGATTTATTTAATTTAAA-T
1 TTAGATTTATTTAATTTAAATT
14116794 TT-GATTTAT
1 TTAGATTTAT
14116803 GATTAGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 20 0.67
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (22 bp):
TTAGATTTATTTAATTTAAATT
Found at i:14122137 original size:20 final size:20
Alignment explanation
Indices: 14122112--14122149 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14122102 ATATTAAAAG
14122112 AAAATTTCTAAAAAAATTTA
1 AAAATTTCTAAAAAAATTTA
* *
14122132 AAAATTTTTTAAAAAATT
1 AAAATTTCTAAAAAAATT
14122150 CTGAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTCTAAAAAAATTTA
Found at i:14122196 original size:24 final size:24
Alignment explanation
Indices: 14122164--14122210 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14122154 AATATTTTTA
14122164 AAAATTTATAAAAAATTA-AAAAT
1 AAAATTTATAAAAAATTATAAAAT
* *
14122187 AAAATATTATTAGAAATTATAAAA
1 AAAAT-TTATAAAAAATTATAAAA
14122211 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAATTTATAAAAAATTATAAAAT
Found at i:14122204 original size:35 final size:35
Alignment explanation
Indices: 14122153--14122220 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
14122143 AAAAATTCTG
*
14122153 AAATATTTTTAAAAATTTATAAAAA-ATTAAAAATA
1 AAATATTATTAAAAA-TTATAAAAATATTAAAAATA
* *
14122188 AAATATTATTAGAAATTATAAAAATTTTAAAAA
1 AAATATTATTAAAAATTATAAAAATATTAAAAA
14122221 ATATGACAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (35 bp):
AAATATTATTAAAAATTATAAAAATATTAAAAATA
Found at i:14122402 original size:26 final size:25
Alignment explanation
Indices: 14122373--14122436 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 25
14122363 AAAGAAATTC
*
14122373 TTAAAAATTTTCAAAAATTCTGAAAA
1 TTAAAAAATTTCAAAAA-TCTGAAAA
14122399 TTAAAAAATTTCAAAAATCTGAAATA
1 TTAAAAAATTTCAAAAATCTGAAA-A
14122425 TTCTAAAAAATT
1 -T-TAAAAAATT
14122437 AAAAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.21
26 17 0.50
27 1 0.03
28 9 0.26
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (25 bp):
TTAAAAAATTTCAAAAATCTGAAAA
Found at i:14122443 original size:20 final size:19
Alignment explanation
Indices: 14122420--14122461 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
14122410 CAAAAATCTG
14122420 AAATATTCTA-AAAAATTAAA
1 AAATATTC-AGAAAAA-TAAA
*
14122440 AAATTTTCAGAAAAATAAA
1 AAATATTCAGAAAAATAAA
14122459 AAA
1 AAA
14122462 CTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
AAATATTCAGAAAAATAAA
Found at i:14122453 original size:19 final size:19
Alignment explanation
Indices: 14122394--14122461 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
14122384 CAAAAATTCT
14122394 GAAAATTAAAAAA-TTTCA
1 GAAAATTAAAAAATTTTCA
* * *
14122412 -AAAATCTGAAATATTCT-A
1 GAAAAT-TAAAAAATTTTCA
*
14122430 AAAAATTAAAAAATTTTCA
1 GAAAATTAAAAAATTTTCA
*
14122449 GAAAAATAAAAAA
1 GAAAATTAAAAAA
14122462 CTTAAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 5 0.13
18 14 0.37
19 19 0.50
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.26
Consensus pattern (19 bp):
GAAAATTAAAAAATTTTCA
Found at i:14122757 original size:37 final size:36
Alignment explanation
Indices: 14122700--14122795 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 36
14122690 TTTTGGGACT
* * *
14122700 TTTTATTAAAATTTTC-AAAATTTTTGAATTTTTAAA
1 TTTT-TTAAATTTTTCAAAAATTTTTAAATATTTAAA
*
14122736 TTTTTGTAAATTTTTCAAAAATTTTTAAATATTTCAA
1 TTTTT-TAAATTTTTCAAAAATTTTTAAATATTTAAA
*
14122773 TTTTTTATATATTTTTTAAAAAT
1 TTTTTTA-A-ATTTTTCAAAAAT
14122796 ATTTCTGATT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.02
36 15 0.29
37 23 0.45
38 12 0.24
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (36 bp):
TTTTTTAAATTTTTCAAAAATTTTTAAATATTTAAA
Found at i:14125606 original size:8 final size:8
Alignment explanation
Indices: 14125593--14125626 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
14125583 ATCTACTTGA
14125593 AATAATTT
1 AATAATTT
14125601 AATAATTT
1 AATAATTT
14125609 AATAATTT
1 AATAATTT
14125617 --TAATTT
1 AATAATTT
14125623 AATA
1 AATA
14125627 TAATATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATAATTT
Found at i:14125817 original size:12 final size:12
Alignment explanation
Indices: 14125784--14125826 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
14125774 GGGTAGGTTT
*
14125784 ATTTAAAATTTA
1 ATTTAAAATTTG
**
14125796 ATTT-TGATTTG
1 ATTTAAAATTTG
14125807 ATTTAAAATTTG
1 ATTTAAAATTTG
14125819 ATTTAAAA
1 ATTTAAAA
14125827 AAAATCGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
ATTTAAAATTTG
Found at i:14130228 original size:4 final size:4
Alignment explanation
Indices: 14130219--14130257 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
14130209 TGTATTATCA
* * *
14130219 ATAC ATAC ATAC ATAC ATAC ATAT ATAT ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
14130258 TCAAGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:14132479 original size:2 final size:2
Alignment explanation
Indices: 14132472--14132504 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14132462 CAACAAGAAG
14132472 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14132505 CTCCTCAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:14134761 original size:21 final size:21
Alignment explanation
Indices: 14134737--14134795 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 21
14134727 AGATTAATTT
14134737 TAATAAGATTAAAAATAATAA
1 TAATAAGATTAAAAATAATAA
** *
14134758 TAATGATGAGATTAATTATTATAA
1 TAAT-A--AGATTAAAAATAATAA
14134782 TAATAAGATTAAAA
1 TAATAAGATTAAAA
14134796 TAAAGATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 11 0.37
22 1 0.03
23 1 0.03
24 17 0.57
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (21 bp):
TAATAAGATTAAAAATAATAA
Found at i:14135490 original size:3 final size:3
Alignment explanation
Indices: 14135482--14135508 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14135472 GAGAAAAGTA
14135482 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
14135509 GCGTATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14141256 original size:25 final size:24
Alignment explanation
Indices: 14141211--14141257 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
14141201 TAAATCAAAA
*
14141211 TAAAAATTTTAAATTTAATAATTT
1 TAAAAATTGTAAATTTAATAATTT
14141235 TAAAAATATGTAATATTT-ATAAT
1 TAAAAAT-TGTAA-ATTTAATAAT
14141258 AATGTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 9 0.45
26 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAAAATTGTAAATTTAATAATTT
Found at i:14142071 original size:29 final size:30
Alignment explanation
Indices: 14142011--14142087 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
14142001 AAGTAATATA
* *
14142011 TTAATAATTTATATATTATATTAAAAAATT
1 TTAATAATTTAAATAATATATTAAAAAATT
**
14142041 TTAA-AATTTAAATAATATATTAAATATTTT
1 TTAATAATTTAAATAATATATTAAA-AAATT
*
14142071 TTCATAATTTAAA-AATA
1 TTAATAATTTAAATAATA
14142088 ATTTATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 18 0.45
30 14 0.35
31 8 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
TTAATAATTTAAATAATATATTAAAAAATT
Found at i:14143868 original size:23 final size:24
Alignment explanation
Indices: 14143833--14143879 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14143823 ACAAATTTAT
*
14143833 ATAATTAAAAAAATCAAAGAAATA
1 ATAATTAAAAAAATAAAAGAAATA
* *
14143857 ATAA-TAATAAAATAAAATAAATA
1 ATAATTAAAAAAATAAAAGAAATA
14143880 GAGGAGCTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
ATAATTAAAAAAATAAAAGAAATA
Found at i:14143974 original size:25 final size:24
Alignment explanation
Indices: 14143940--14143987 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
14143930 ATCATTTGTT
* *
14143940 AAATATAAAAGTAGACAAATGAAAG
1 AAATATAAAAATA-AAAAATGAAAG
14143965 AAATATAAAAATAAAAAATGAAA
1 AAATATAAAAATAAAAAATGAAA
14143988 AATGAAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (24 bp):
AAATATAAAAATAAAAAATGAAAG
Done.