Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 120 of 129
Found at i:21670753 original size:9 final size:9
Alignment explanation
Indices: 21670741--21670827 Score: 101
Period size: 9 Copynumber: 9.7 Consensus size: 9
21670731 TCACTTTTTC
21670741 TTTTTTCA-
1 TTTTTTCAT
21670749 TTTTTTC-T
1 TTTTTTCAT
21670757 ATTTTTTCTAT
1 -TTTTTTC-AT
21670768 TTTTTTC-T
1 TTTTTTCAT
21670776 ATTTTTTCA-
1 -TTTTTTCAT
21670785 TTTTTTCAT
1 TTTTTTCAT
*
21670794 TTTTTCCATT
1 TTTTTTCA-T
21670804 TTTTTTCAT
1 TTTTTTCAT
21670813 TTTTTTCAT
1 TTTTTTCAT
21670822 TTTTTT
1 TTTTTT
21670828 TCAAGCATAG
Statistics
Matches: 69, Mismatches: 2, Indels: 15
0.80 0.02 0.17
Matches are distributed among these distances:
8 16 0.23
9 37 0.54
10 15 0.22
11 1 0.01
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:21670771 original size:19 final size:18
Alignment explanation
Indices: 21670741--21670827 Score: 110
Period size: 19 Copynumber: 4.8 Consensus size: 18
21670731 TCACTTTTTC
21670741 TTTTTTCA-TTTTTTCTA
1 TTTTTTCATTTTTTTCTA
21670758 TTTTTTCTATTTTTTTCTA
1 TTTTTTC-ATTTTTTTCTA
21670777 TTTTTTCA-TTTTTTC-A
1 TTTTTTCATTTTTTTCTA
21670793 TTTTTTCCATTTTTTT-TCA
1 TTTTTT-CATTTTTTTCT-A
21670812 TTTTTTTCATTTTTTT
1 -TTTTTTCATTTTTTT
21670828 TCAAGCATAG
Statistics
Matches: 63, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.11
17 16 0.25
18 8 0.13
19 26 0.41
20 6 0.10
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCATTTTTTTCTA
Found at i:21670787 original size:36 final size:36
Alignment explanation
Indices: 21670741--21670826 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
21670731 TCACTTTTTC
*
21670741 TTTTTTCATTTTTTCTATTTTTTCTA-TTTTTTTC-T
1 TTTTTTCATTTTTTC-ATTTTTTCCATTTTTTTTCAT
21670776 ATTTTTTCATTTTTTCATTTTTTCCATTTTTTTTCAT
1 -TTTTTTCATTTTTTCATTTTTTCCATTTTTTTTCAT
21670813 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
21670827 TTCAAGCATA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 9 0.19
36 37 0.79
37 1 0.02
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTTTCATTTTTTCATTTTTTCCATTTTTTTTCAT
Found at i:21676098 original size:15 final size:15
Alignment explanation
Indices: 21676078--21676124 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
21676068 TTGTAAGTGT
21676078 AATGAATGAGAATGC
1 AATGAATGAGAATGC
*
21676093 AATGAATGAGAATGT
1 AATGAATGAGAATGC
21676108 AATGAATGAGAAATGC
1 AATGAATGAG-AATGC
21676124 A
1 A
21676125 TGTATGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.26, T:0.21
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:21679421 original size:32 final size:31
Alignment explanation
Indices: 21679385--21679479 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 31
21679375 ATTTTTTTGA
21679385 AACTTTGATTTCCAAGGAAAATTGATACTTTC
1 AACTTT-ATTTCCAAGGAAAATTGATACTTTC
*
21679417 AACTTT-TTTCCAA--AAATATT--T--TTTG
1 AACTTTATTTCCAAGGAAA-ATTGATACTTTC
* *
21679442 AATATTTATTTCTAAGGAAAATTGATACTTTC
1 AA-CTTTATTTCCAAGGAAAATTGATACTTTC
21679474 AACTTT
1 AACTTT
21679480 TCCTCAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 19
0.67 0.07 0.26
Matches are distributed among these distances:
25 5 0.10
26 3 0.06
27 7 0.14
28 6 0.12
29 6 0.12
30 8 0.16
31 3 0.06
32 11 0.22
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTTTATTTCCAAGGAAAATTGATACTTTC
Found at i:21679428 original size:30 final size:30
Alignment explanation
Indices: 21679393--21679480 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 30
21679383 GAAACTTTGA
21679393 TTTCCAAGGAAAATTGATACTTTCAACTTT
1 TTTCCAAGGAAAATTGATACTTTCAACTTT
* *
21679423 TTTCCAA--AAATATT--T--TTTGAATATTT
1 TTTCCAAGGAAA-ATTGATACTTTCAA-CTTT
*
21679449 ATTTCTAAGGAAAATTGATACTTTCAACTTT
1 -TTTCCAAGGAAAATTGATACTTTCAACTTT
21679480 T
1 T
21679481 CCTCAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 18
0.66 0.07 0.27
Matches are distributed among these distances:
25 5 0.11
26 3 0.07
27 7 0.16
28 6 0.14
29 6 0.14
30 9 0.20
31 3 0.07
32 5 0.11
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (30 bp):
TTTCCAAGGAAAATTGATACTTTCAACTTT
Found at i:21679491 original size:118 final size:118
Alignment explanation
Indices: 21679282--21679498 Score: 368
Period size: 118 Copynumber: 1.8 Consensus size: 118
21679272 CTTGTGTAGA
21679282 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTCAAAAATTTACTTTTAAGGAAAATT
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTCAAAAATTTACTTTTAAGGAAAATT
21679347 GATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTTCCAAG
66 GATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTGAAACTTTGATTTCCAAG
* *
21679401 GAAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTT-GAATATTTA-TTTCTAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTCAAAAATTTACTTT-TAAGGAAAA
21679463 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
64 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
21679499 GATTTTTATT
Statistics
Matches: 94, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
117 9 0.10
118 47 0.50
119 38 0.40
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (118 bp):
GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTCAAAAATTTACTTTTAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAG
Found at i:21679507 original size:57 final size:58
Alignment explanation
Indices: 21679282--21679509 Score: 304
Period size: 57 Copynumber: 3.9 Consensus size: 58
21679272 CTTGTGTAGA
* ** *
21679282 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTCAAAAATTTACTTT-TAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAATATTTA-TTTCTAAG
*
21679340 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAA-ACTTTGATTTCCAAG
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATATTTTTTTGAATA-TTT-ATTTCTAAG
*
21679401 GAAAATTGATACTTTCAACTTTT-TTCCAAAAATA-TTTTTTGAATATTTATTTCTAAG
1 GAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAATATTTATTTCTAAG
*
21679458 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-ATTTTTATTT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAATATTTATTT
21679510 AAAGAATATA
Statistics
Matches: 153, Mismatches: 8, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
57 48 0.31
58 46 0.30
59 9 0.06
60 22 0.14
61 28 0.18
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAATATTTATTTCTAAG
Found at i:21679562 original size:11 final size:11
Alignment explanation
Indices: 21679514--21679600 Score: 59
Period size: 11 Copynumber: 7.4 Consensus size: 11
21679504 TTATTTAAAG
*
21679514 AATATAAAACAA
1 AATA-AAAAAAA
21679526 AATAAAAGTAAATA
1 AATAAAA--AAA-A
*
21679540 AAGAAGAAAAAA
1 AATAA-AAAAAA
21679552 AAT-AAAAAAA
1 AATAAAAAAAA
* *
21679562 AGTAAAACAAA
1 AATAAAAAAAA
*
21679573 AATAAAAATAA
1 AATAAAAAAAA
21679584 AATAAAGATAAAA
1 AATAAA-A-AAAA
21679597 AATA
1 AATA
21679601 TTAAATAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 12 0.20
14 5 0.08
15 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:21679563 original size:21 final size:21
Alignment explanation
Indices: 21679546--21679600 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
21679536 AATAAAGAAG
21679546 AAAAAAAATAAAAAAAAGTAA
1 AAAAAAAATAAAAAAAAGTAA
* *
21679567 AACAAAAATAAAAATAAAATAA
1 AAAAAAAATAAAAA-AAAGTAA
21679589 AGATAAAAAATA
1 A-A-AAAAAATA
21679601 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.46
22 7 0.25
23 1 0.04
24 7 0.25
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAAAAAATAAAAAAAAGTAA
Found at i:21679568 original size:6 final size:5
Alignment explanation
Indices: 21679517--21679609 Score: 50
Period size: 5 Copynumber: 18.0 Consensus size: 5
21679507 TTTAAAGAAT
* *
21679517 ATAAA ACAAA ATAAA AGT-AA ATAAA GA-AGAA AAAAA ATAAA A-AAA
1 ATAAA ATAAA ATAAA A-TAAA ATAAA -ATA-AA ATAAA ATAAA ATAAA
* * *
21679562 AGTAAA ACAAAA ATAAAA ATAAA ATAAA GATAAA A-AAT ATTAA ATAAA
1 A-TAAA A-TAAA AT-AAA ATAAA ATAAA -ATAAA ATAAA ATAAA ATAAA
21679610 TTTAATCTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
4 8 0.12
5 37 0.54
6 23 0.34
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.15
Consensus pattern (5 bp):
ATAAA
Found at i:21679580 original size:30 final size:33
Alignment explanation
Indices: 21679517--21679596 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 33
21679507 TTTAAAGAAT
* *
21679517 ATAAAACAAAATAAAAGTAAATAAAGAAG-AAA
1 ATAAAATAAAATAAAAGTAAATAAAAAAGAAAA
*
21679549 A-AAAATAAAA-AAAAGTAAA-ACAAAAATAAAA
1 ATAAAATAAAATAAAAGTAAATA-AAAAAGAAAA
21679580 ATAAAATAAAGATAAAA
1 ATAAAATAAA-ATAAAA
21679597 AATATTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 1 0.03
30 13 0.32
31 12 0.30
32 9 0.22
33 1 0.03
34 4 0.10
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (33 bp):
ATAAAATAAAATAAAAGTAAATAAAAAAGAAAA
Found at i:21679647 original size:14 final size:14
Alignment explanation
Indices: 21679524--21679641 Score: 53
Period size: 14 Copynumber: 8.2 Consensus size: 14
21679514 AATATAAAAC
*
21679524 AAAATAAAAGTAAAT
1 AAAA-AAAAATAAAT
*
21679539 AAAGAAGAAAAAAAAT
1 AAA-AA-AAAATAAAT
*
21679555 AAAAAAAAGTAAA-
1 AAAAAAAAATAAAT
*
21679568 ACAAAAATAA-AAAT
1 A-AAAAAAAATAAAT
*
21679582 AAAATAAAGATAAA-
1 AAAA-AAAAATAAAT
**
21679596 AAATATTAAATAAAT
1 AAA-AAAAAATAAAT
** ***
21679611 TTAATCTAATAAAT
1 AAAAAAAAATAAAT
21679625 AAAAAAAAATAAAT
1 AAAAAAAAATAAAT
21679639 AAA
1 AAA
21679642 TGAAAAAAAA
Statistics
Matches: 75, Mismatches: 20, Indels: 17
0.67 0.18 0.15
Matches are distributed among these distances:
13 7 0.09
14 46 0.61
15 11 0.15
16 11 0.15
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (14 bp):
AAAAAAAAATAAAT
Found at i:21680653 original size:8 final size:8
Alignment explanation
Indices: 21680635--21680766 Score: 50
Period size: 8 Copynumber: 16.5 Consensus size: 8
21680625 AAAAACAAAA
21680635 AATAATAAT
1 AATAAT-AT
21680644 AATAATAT
1 AATAATAT
21680652 AATAATA-
1 AATAATAT
21680659 AAT-ATAT
1 AATAATAT
21680666 AACT-ATAT
1 AA-TAATAT
*
21680674 AAATAAAAT
1 -AATAATAT
21680683 GCATATAA-AT
1 --A-ATAATAT
* *
21680693 -CTAATCT
1 AATAATAT
21680700 AATAA-AT
1 AATAATAT
21680707 AAATAA-AT
1 -AATAATAT
21680715 ATATACATAT
1 A-ATA-ATAT
*
21680725 ATTAATA-
1 AATAATAT
*
21680732 CATAATAAT
1 AATAAT-AT
21680741 AATAATA-
1 AATAATAT
21680748 AATAATA-
1 AATAATAT
*
21680755 AATAATAA
1 AATAATAT
21680763 AATA
1 AATA
21680767 CATAAAATAC
Statistics
Matches: 98, Mismatches: 10, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.06
7 26 0.27
8 37 0.38
9 19 0.19
10 6 0.06
11 4 0.04
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:21680753 original size:23 final size:23
Alignment explanation
Indices: 21680704--21680772 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
21680694 TAATCTAATA
* *
21680704 AATAAATAA-ATATATACATATATT
1 AATAAATAATA-AAATACATA-AAT
*
21680728 AATACATAATAATAATA-ATAAAT
1 AATAAATAATAA-AATACATAAAT
21680751 AATAAATAATAAAATACATAAA
1 AATAAATAATAAAATACATAAA
21680773 ATACAAAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.11
23 18 0.47
24 12 0.32
25 4 0.11
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAATAATAAAATACATAAAT
Found at i:21686448 original size:20 final size:20
Alignment explanation
Indices: 21686412--21686449 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21686402 TTAATTAGGT
21686412 ATATTGCTTATATATTTTAC
1 ATATTGCTTATATATTTTAC
*
21686432 ATATT-CTTGTATGATTTT
1 ATATTGCTTATAT-ATTTT
21686450 GATTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (20 bp):
ATATTGCTTATATATTTTAC
Found at i:21695801 original size:50 final size:50
Alignment explanation
Indices: 21695703--21695809 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 50
21695693 TAATATAAAC
* *
21695703 AAATTTAGCTTTTCCATTATTTCATTTTATACATTATGTTAATGTTGCAAT
1 AAATTTAGCTTTTCCATTACTTCATATTATACATTATGTTAATGTTGC-AT
* * *
21695754 GAATTTAGCTTTTCCATTACTTCA-ATTATACATTATGTTCATTTTGCAT
1 AAATTTAGCTTTTCCATTACTTCATATTATACATTATGTTAATGTTGCAT
21695803 AAATTTA
1 AAATTTA
21695810 ATAATAGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
49 8 0.16
50 20 0.40
51 22 0.44
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (50 bp):
AAATTTAGCTTTTCCATTACTTCATATTATACATTATGTTAATGTTGCAT
Found at i:21699964 original size:13 final size:13
Alignment explanation
Indices: 21699946--21699970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21699936 AGTTGTACCT
21699946 AAAACTTTTATAC
1 AAAACTTTTATAC
21699959 AAAACTTTTATA
1 AAAACTTTTATA
21699971 AGTTTTAAAT
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAACTTTTATAC
Found at i:21703659 original size:18 final size:18
Alignment explanation
Indices: 21703633--21703669 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21703623 CTCAACCAGT
21703633 CTTGATGTTGATTTCTGA
1 CTTGATGTTGATTTCTGA
*
21703651 CTTGGTGTTGATTTCTGA
1 CTTGATGTTGATTTCTGA
21703669 C
1 C
21703670 AAAACAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.49
Consensus pattern (18 bp):
CTTGATGTTGATTTCTGA
Found at i:21712284 original size:194 final size:193
Alignment explanation
Indices: 21712065--21712420 Score: 481
Period size: 192 Copynumber: 1.8 Consensus size: 193
21712055 CAATTACTTT
*
21712065 TATTGAAACTTTCATCTAAATTATTCTACCATTTAGGATAAATTTAGA-AGAAATTTCTAACCTA
1 TATTGAAACTTTCATCTAAATTATTCCACCATTTAGGATAAATTTAGACA-AAATTTCTAACCTA
* * **
21712129 GAGAATTCT-TAAAAAATTTACCATTTGAAATTTCTAAAAATCTT-ATCTTTGGATAATTTGTAT
65 GA-AATT-TAT-AAAAATTTACCATTTAAAATTTCTAAAAAT-TTCATCATTGGATAATTAATAT
*
21712192 TTAATTTC-AAATTTTTATATTTTTTTCATTTT-TTATTCTTTTATTTGAAGATAAATATTAATT
126 TTAATTTCAAAATTTTTAT-TTTTATT-ATTTTATTATTCTTTTATTTGAAGATAAATATTAATT
21712255 ATTGG
189 ATTGG
* * **
21712260 TATTGAAACTTT-ATCTAAATTATTCCACCATTTAGGATAAATTTAGACAAATTTTTTTCCCTAG
1 TATTGAAACTTTCATCTAAATTATTCCACCATTTAGGATAAATTTAGACAAAATTTCTAACCTAG
* * * *
21712324 AAATTTATAAAAATTTACTATTTAAAATTTTTATAAATTTCATCATTGGATAATTAATATTTATT
66 AAATTTATAAAAATTTACCATTTAAAATTTCTAAAAATTTCATCATTGGATAATTAATATTTAAT
21712389 TTCAAAATTTTTATTTTTATTATTTTATTATT
131 TTCAAAATTTTTATTTTTATTATTTTATTATT
21712421 TATTAAATTA
Statistics
Matches: 142, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
191 7 0.05
192 61 0.43
193 15 0.11
194 46 0.32
195 13 0.09
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (193 bp):
TATTGAAACTTTCATCTAAATTATTCCACCATTTAGGATAAATTTAGACAAAATTTCTAACCTAG
AAATTTATAAAAATTTACCATTTAAAATTTCTAAAAATTTCATCATTGGATAATTAATATTTAAT
TTCAAAATTTTTATTTTTATTATTTTATTATTCTTTTATTTGAAGATAAATATTAATTATTGG
Found at i:21712413 original size:15 final size:15
Alignment explanation
Indices: 21712397--21712425 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21712387 TTTTCAAAAT
21712397 TTTTATT-TTTATTA
1 TTTTATTATTTATTA
21712411 TTTTATTATTTATTA
1 TTTTATTATTTATTA
21712426 AATTAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTATTTATTA
Found at i:21713003 original size:21 final size:22
Alignment explanation
Indices: 21712979--21713020 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21712969 CCTTTGAGTT
21712979 TTTTCTT-TTTTTTTTCTTTTG
1 TTTTCTTCTTTTTTTTCTTTTG
*
21713000 TTTTCTTCTTTTTTTTTTTTT
1 TTTTCTTCTTTTTTTTCTTTT
21713021 TTGTGTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (22 bp):
TTTTCTTCTTTTTTTTCTTTTG
Found at i:21713008 original size:24 final size:23
Alignment explanation
Indices: 21712976--21713024 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
21712966 ACACCTTTGA
21712976 GTTTTTTCTTTTTTTTTTCTTTT
1 GTTTTTTCTTTTTTTTTTCTTTT
*
21712999 GTTTTCTTCTTTTTTTTTTTTTTT
1 GTTTT-TTCTTTTTTTTTTCTTTT
21713023 GT
1 GT
21713025 GTTCCTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (23 bp):
GTTTTTTCTTTTTTTTTTCTTTT
Found at i:21713032 original size:25 final size:24
Alignment explanation
Indices: 21712981--21713032 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
21712971 TTTGAGTTTT
*
21712981 TTCTTTTTTTTTTCTTTTGTTTTC
1 TTCTTTTTTTTTTCTTTTGTTTCC
*
21713005 TTCTTTTTTTTTTTTTTTGTGTTCC
1 TTCTTTTTTTTTTCTTTTGT-TTCC
21713030 TTC
1 TTC
21713033 CTGCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (24 bp):
TTCTTTTTTTTTTCTTTTGTTTCC
Found at i:21713237 original size:15 final size:15
Alignment explanation
Indices: 21713217--21713333 Score: 51
Period size: 15 Copynumber: 8.1 Consensus size: 15
21713207 TCTCCTAATT
21713217 AATCAA-AAAAAGATA
1 AATCAATAAAAA-ATA
21713232 AATCAATAAAAAAT-
1 AATCAATAAAAAATA
*
21713246 AAT-AAT--AATATA
1 AATCAATAAAAAATA
* *
21713258 AAT-AATATAATAGTA
1 AATCAATA-AAAAATA
21713273 AAT-AAT-AAAAATA
1 AATCAATAAAAAATA
*
21713286 AAT-AATAAATGAA-A
1 AATCAATAAA-AAATA
21713300 AAT-AATAATAAAATAA
1 AATCAATAA-AAAAT-A
21713316 TAAT-AATAATAAAATA
1 -AATCAATAA-AAAATA
21713332 AA
1 AA
21713334 ATAAAAAATG
Statistics
Matches: 83, Mismatches: 8, Indels: 22
0.73 0.07 0.19
Matches are distributed among these distances:
11 4 0.05
12 6 0.07
13 14 0.17
14 16 0.19
15 22 0.27
16 7 0.08
17 14 0.17
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (15 bp):
AATCAATAAAAAATA
Found at i:21713251 original size:3 final size:3
Alignment explanation
Indices: 21713243--21713337 Score: 83
Period size: 3 Copynumber: 31.7 Consensus size: 3
21713233 ATCAATAAAA
* *
21713243 AAT AAT AAT AAT -AT AAAT AAT -AT AAT AGT AAAT AAT AAA AAT AAAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT
*
21713289 AAT AAAT GAAA AAT AAT AAT AA- AAT AAT AAT AAT AAT AA- AAT AA-
1 AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21713333 AAT AA
1 AAT AA
21713338 AAAATGAGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
2 10 0.13
3 54 0.71
4 12 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:21713269 original size:17 final size:16
Alignment explanation
Indices: 21713236--21713337 Score: 78
Period size: 17 Copynumber: 6.6 Consensus size: 16
21713226 AAGATAAATC
21713236 AATAAAA-AATAATAAT
1 AATAAAATAAT-ATAAT
21713252 AATATAAATAATATAAT
1 AATA-AAATAATATAAT
*
21713269 AGT-AAATAATA-AA-
1 AATAAAATAATATAAT
21713282 AAT-AAATAATA-AAT
1 AATAAAATAATATAAT
*
21713296 GA-AAAATAATAATAA-
1 AATAAAATAAT-ATAAT
21713311 AATAATAATAATAATAA-
1 AATAA-AATAAT-ATAAT
21713328 AATAAAATAA
1 AATAAAATAA
21713338 AAAATGAGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
13 12 0.16
14 10 0.14
15 10 0.14
16 13 0.18
17 26 0.35
18 3 0.04
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
AATAAAATAATATAAT
Found at i:21713340 original size:57 final size:54
Alignment explanation
Indices: 21713224--21713328 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
21713214 ATTAATCAAA
*
21713224 AAAAGATAAATCAATAAAAAATAATAATAATATAAATAATATAATAGTAAATAAT
1 AAAA-ATAAATCAATAAAAAATAATAATAATATAAATAATATAATAATAAATAAT
21713279 AAAAATAAAT-AATAAATGAAA-AATAATAATA-AAATAATAATAATAATAAA
1 AAAAATAAATCAATAAA--AAATAATAATAATATAAATAAT-ATAATAATAAA
21713329 ATAAAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
53 13 0.28
54 26 0.57
55 7 0.15
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (54 bp):
AAAAATAAATCAATAAAAAATAATAATAATATAAATAATATAATAATAAATAAT
Found at i:21719519 original size:30 final size:30
Alignment explanation
Indices: 21719487--21719613 Score: 191
Period size: 30 Copynumber: 4.2 Consensus size: 30
21719477 CCGAAAATTG
* * *
21719487 GGAGACCTACTCCTGCTTCTTCGATTTCTG
1 GGAGACCTGCTCCTGCTTCTCCGATTTCTA
*
21719517 GGAGACCTGCTCCTGCTTCTCCAATTTCTA
1 GGAGACCTGCTCCTGCTTCTCCGATTTCTA
*
21719547 GGAGACCTGCTCCTGCTTCTCCGATTTTTA
1 GGAGACCTGCTCCTGCTTCTCCGATTTCTA
* *
21719577 GGAGACCTGCTCCTGCTTCTCCGGTTTCTT
1 GGAGACCTGCTCCTGCTTCTCCGATTTCTA
21719607 GGAGACC
1 GGAGACC
21719614 AGCTAAAACA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 88 1.00
ACGTcount: A:0.13, C:0.31, G:0.21, T:0.34
Consensus pattern (30 bp):
GGAGACCTGCTCCTGCTTCTCCGATTTCTA
Found at i:21719708 original size:15 final size:15
Alignment explanation
Indices: 21719683--21719716 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21719673 TGTAAGGAAG
21719683 ATAAA-AAAAAAACA
1 ATAAACAAAAAAACA
21719697 ATAAACAAAAAAACA
1 ATAAACAAAAAAACA
21719712 A-AAAC
1 ATAAAC
21719717 CCCAAGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (15 bp):
ATAAACAAAAAAACA
Found at i:21734455 original size:11 final size:11
Alignment explanation
Indices: 21734421--21734474 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
21734411 TAAAATTTTA
21734421 AAATATAATAT
1 AAATATAATAT
21734432 AATGATATAATAT
1 AA--ATATAATAT
*
21734445 AAATATGATAT
1 AAATATAATAT
21734456 -AA-A-AATAT
1 AAATATAATAT
*
21734464 AAAAATAATAT
1 AAATATAATAT
21734475 GATTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 3 0.08
11 15 0.42
13 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
AAATATAATAT
Found at i:21734463 original size:24 final size:23
Alignment explanation
Indices: 21734420--21734483 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
21734410 TTAAAATTTT
* **
21734420 AAAATATAATATAATGATATAATA
1 AAAATATGATATAAAAATATAA-A
*
21734444 TAAATATGATATAAAAATATAAA
1 AAAATATGATATAAAAATATAAA
*
21734467 AATAATATGATTTAAAA
1 AA-AATATGATATAAAA
21734484 TTTAAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
AAAATATGATATAAAAATATAAA
Found at i:21734494 original size:24 final size:24
Alignment explanation
Indices: 21734446--21734496 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
21734436 ATATAATATA
21734446 AATATGATATAAAAATATAAAAAT
1 AATATGATATAAAAATATAAAAAT
* *
21734470 AATATGAT-TTAAAATTTAAATAAT
1 AATATGATATAAAAATATAAA-AAT
21734494 AAT
1 AAT
21734497 TTTATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AATATGATATAAAAATATAAAAAT
Found at i:21734808 original size:28 final size:29
Alignment explanation
Indices: 21734777--21734840 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
21734767 TTTGTTAAGA
21734777 TTATTTTAAA-TATATAAAT-TACA-ATAAT
1 TTATTTTAAATTAT-TAAATATA-ATATAAT
*
21734805 TTATTTTAAATTATTAAATATAATATATT
1 TTATTTTAAATTATTAAATATAATATAAT
21734834 TTATTTT
1 TTATTTT
21734841 GATTTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
TTATTTTAAATTATTAAATATAATATAAT
Found at i:21735384 original size:26 final size:26
Alignment explanation
Indices: 21735355--21735405 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21735345 AATTTTAAGC
*
21735355 TTCAATCAAATCAAATTAAAAAAATT
1 TTCAATCAAATAAAATTAAAAAAATT
* **
21735381 TTCATTCATTTAAAATTAAAAAAAT
1 TTCAATCAAATAAAATTAAAAAAAT
21735406 ATAAAATCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (26 bp):
TTCAATCAAATAAAATTAAAAAAATT
Found at i:21735551 original size:23 final size:24
Alignment explanation
Indices: 21735502--21735552 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
21735492 AATACAATTC
* * *
21735502 AAAATTTTTTATAATAAATTTTTA
1 AAAATTTTTTAAAATAAATTGTCA
21735526 AAAATTTTTTAAAATAAA-TGTCA
1 AAAATTTTTTAAAATAAATTGTCA
21735549 AAAA
1 AAAA
21735553 CCTTTAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATTTTTTAAAATAAATTGTCA
Found at i:21735911 original size:16 final size:16
Alignment explanation
Indices: 21735851--21735913 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
21735841 AATTAATTTG
21735851 ATAATTT-TAATTTAAT
1 ATAATTTAT-ATTTAAT
*
21735867 ATAA--TAT-TTATAAA
1 ATAATTTATATT-TAAT
*
21735881 ATAATATTATTTTTAAT
1 ATAAT-TTATATTTAAT
21735898 ATAATTTATATTTAAT
1 ATAATTTATATTTAAT
21735914 TATGTATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
13 2 0.05
14 8 0.21
15 1 0.03
16 14 0.37
17 11 0.29
18 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATAATTTATATTTAAT
Found at i:21735933 original size:41 final size:41
Alignment explanation
Indices: 21735858--21735935 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
21735848 TTGATAATTT
* *
21735858 TAATTTAATATAATATTTATAAAATAATATTATTTTTAATA
1 TAATTTAATATAATATGTATAAAATAATAATATTTTTAATA
*
21735899 TAATTTATATTTAATTATGTAT-AAAT-ATAATATTTTT
1 TAATTTA-ATATAA-TATGTATAAAATAATAATATTTTT
21735936 GTTAAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 17 0.53
42 9 0.28
43 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (41 bp):
TAATTTAATATAATATGTATAAAATAATAATATTTTTAATA
Found at i:21736806 original size:20 final size:20
Alignment explanation
Indices: 21736781--21736830 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
21736771 TTCAAAATTA
21736781 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
21736801 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
21736821 ATAAATATAT
1 ATAAA-ATAT
21736831 AATTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:21738038 original size:44 final size:43
Alignment explanation
Indices: 21737985--21738080 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
21737975 TTCAAACCCA
* *
21737985 AAAAATTTTCAAAAAAGAATAAAACCTAGAAAAAGCCCTT-GTTG
1 AAAATTTTTC-AAAAAGAATAAAACCTA-AAAAAACCCTTAGTTG
* * *
21738029 AAAATTTTTCAAAATGAATCAAACCTAAAAAAACCTTTAGTTG
1 AAAATTTTTCAAAAAGAATAAAACCTAAAAAAACCCTTAGTTG
21738072 ATAAATTTT
1 A-AAATTTT
21738081 AGAATCTTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 9 0.20
43 20 0.44
44 16 0.36
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (43 bp):
AAAATTTTTCAAAAAGAATAAAACCTAAAAAAACCCTTAGTTG
Found at i:21739291 original size:21 final size:22
Alignment explanation
Indices: 21739267--21739314 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
21739257 TTTTTAAACA
*
21739267 TTTATATTT-AAAAATTAATAT
1 TTTATATTTAAAAAAATAATAT
21739288 TTTATATTTAAAAAAATAATAT
1 TTTATATTTAAAAAAATAATAT
21739310 TTTAT
1 TTTAT
21739315 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTATATTTAAAAAAATAATAT
Found at i:21739315 original size:20 final size:20
Alignment explanation
Indices: 21739266--21739315 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
21739256 ATTTTTAAAC
*
21739266 ATTTATATTTAAAAATTAAT
1 ATTTATATTTAAAAAATAAT
21739286 ATTTTATATTTAAAAAAATAAT
1 A-TTTATATTT-AAAAAATAAT
21739308 ATTT-TATT
1 ATTTATATT
21739316 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 12 0.44
22 10 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTATATTTAAAAAATAAT
Found at i:21740127 original size:20 final size:20
Alignment explanation
Indices: 21740102--21740149 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
21740092 ATTTTAAATC
*
21740102 GTATTATATTTATATTTTTT
1 GTATTATATTTATATTTTAT
21740122 GTATTATATTTATATTTTAT
1 GTATTATATTTATATTTTAT
21740142 -TATTATAT
1 GTATTATAT
21740150 CGTATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
GTATTATATTTATATTTTAT
Found at i:21740161 original size:20 final size:19
Alignment explanation
Indices: 21740103--21740164 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
21740093 TTTTAAATCG
*
21740103 TATTATATTTATATTTTT-T
1 TATTATATGTAT-TTTTTAT
* *
21740122 GTATTATATTTATATTTTAT
1 -TATTATATGTATTTTTTAT
21740142 TATTATATCGTATTTTTTAT
1 TATTATAT-GTATTTTTTAT
21740162 TAT
1 TAT
21740165 CAGATATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 12 0.32
20 25 0.68
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTATATGTATTTTTTAT
Found at i:21742820 original size:14 final size:15
Alignment explanation
Indices: 21742760--21742821 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 15
21742750 GTAATATTAA
*
21742760 ATTTAAATTTAAATTA
1 ATTT-AATTTAAATTT
21742776 ATTT--TTT-AATTT
1 ATTTAATTTAAATTT
21742788 GAGTTTAATTTAAATTT
1 -A-TTTAATTTAAATTT
*
21742805 ATTTAA-TTATATTT
1 ATTTAATTTAAATTT
21742819 ATT
1 ATT
21742822 AAATATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
12 4 0.10
13 4 0.10
14 13 0.33
15 5 0.13
16 8 0.21
17 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
ATTTAATTTAAATTT
Found at i:21742995 original size:17 final size:18
Alignment explanation
Indices: 21742964--21742998 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21742954 ATAAAAATAT
*
21742964 TTAAATTTAATTTAATTA
1 TTAAATTTAAATTAATTA
21742982 TTAAA-TTAAATTAATTA
1 TTAAATTTAAATTAATTA
21742999 AATTTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTAAATTAATTA
Found at i:21743003 original size:32 final size:36
Alignment explanation
Indices: 21742963--21743053 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 36
21742953 TATAAAAATA
*
21742963 TTTAAATTTAATTTAATTATTAA-A-TTAAATT-AA
1 TTTAAATTTAATTTAATTAATAATATTTAAATTAAA
*
21742996 -TTAAATTTATATTTGATTCAATAATATTTAAATTAAA
1 TTTAAATTTA-ATTTAATT-AATAATATTTAAATTAAA
*
21743033 TTTAAATTTTATTTGAATTAA
1 TTTAAATTTAATTT-AATTAA
21743054 ATTTAAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
32 9 0.19
33 7 0.15
34 4 0.09
35 1 0.02
36 7 0.15
37 8 0.17
38 11 0.23
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (36 bp):
TTTAAATTTAATTTAATTAATAATATTTAAATTAAA
Found at i:21743051 original size:22 final size:22
Alignment explanation
Indices: 21743020--21743061 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21743010 GATTCAATAA
21743020 TATTTAAATTAAATTTAAATTT
1 TATTTAAATTAAATTTAAATTT
*
21743042 TATTTGAATTAAATTTAAAT
1 TATTTAAATTAAATTTAAAT
21743062 AATTTATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTAAATTAAATTTAAATTT
Found at i:21760065 original size:18 final size:18
Alignment explanation
Indices: 21760038--21760088 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
21760028 GTCTCCTTGA
21760038 TATATGTATGTATGCATG
1 TATATGTATGTATGCATG
* *
21760056 TATATTTATGTATGTATG
1 TATATGTATGTATGCATG
*
21760074 TGGGTATGTATGTAT
1 T--ATATGTATGTAT
21760089 ATATACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 17 0.63
20 10 0.37
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (18 bp):
TATATGTATGTATGCATG
Found at i:21760948 original size:18 final size:20
Alignment explanation
Indices: 21760927--21760966 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
21760917 AAAATTTGAG
21760927 AAAATTA-AA-AATTGATTT
1 AAAATTACAATAATTGATTT
*
21760945 AAAATTACAATATTTGATTT
1 AAAATTACAATAATTGATTT
21760965 AA
1 AA
21760967 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (20 bp):
AAAATTACAATAATTGATTT
Found at i:21761104 original size:19 final size:19
Alignment explanation
Indices: 21761065--21761107 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
21761055 TCAAATCAAA
**
21761065 TTATATATTTTTATTACTT
1 TTATATATTTTTAAAACTT
*
21761084 TTATATATTTTTAAAATTT
1 TTATATATTTTTAAAACTT
21761103 TTATA
1 TTATA
21761108 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATATATTTTTAAAACTT
Found at i:21761496 original size:31 final size:33
Alignment explanation
Indices: 21761461--21761521 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
21761451 TTATATTTAA
21761461 TGTTTGAATTTAA--T-TTATAATTTAATTACAT
1 TGTTTGAATTTAACTTGTTA-AATTTAATTACAT
21761492 TGTTTGAATTTAACTTGTTAAATTTAATTA
1 TGTTTGAATTTAACTTGTTAAATTTAATTA
21761522 AATTCGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 13 0.48
33 11 0.41
34 3 0.11
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (33 bp):
TGTTTGAATTTAACTTGTTAAATTTAATTACAT
Found at i:21762565 original size:18 final size:18
Alignment explanation
Indices: 21762532--21762566 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21762522 TATGATATTT
* *
21762532 AAAAAAATTAATTTTATC
1 AAAAAAATAAAGTTTATC
21762550 AAAAAAATAAAGTTTAT
1 AAAAAAATAAAGTTTAT
21762567 AAGAAAGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAAAATAAAGTTTATC
Found at i:21768363 original size:381 final size:381
Alignment explanation
Indices: 21767660--21768425 Score: 1532
Period size: 381 Copynumber: 2.0 Consensus size: 381
21767650 AAAATTCATG
21767660 AACTAGTGCATAAATGTGTACTAGCATTATCAACACTGAGACTAGCAAAAATGATAAAAAAAAAA
1 AACTAGTGCATAAATGTGTACTAGCATTATCAACACTGAGACTAGCAAAAATGATAAAAAAAAAA
21767725 AATCTTTCTGAGATACATGATAATCACTAAATTGATGTGGGGGCATGCGTCTTATCTGGATTTAG
66 AATCTTTCTGAGATACATGATAATCACTAAATTGATGTGGGGGCATGCGTCTTATCTGGATTTAG
21767790 CATGACAAAAATGAAAAATCTATTCAATTAGAGATGAAGCTGATGTACTACCATACATGCTCCTA
131 CATGACAAAAATGAAAAATCTATTCAATTAGAGATGAAGCTGATGTACTACCATACATGCTCCTA
21767855 ATTATCAATCTTTTCATAGAAGGAAAAAGGAGGGTGGCTGTGGTGGAGATCAAGGGGAATGAGAT
196 ATTATCAATCTTTTCATAGAAGGAAAAAGGAGGGTGGCTGTGGTGGAGATCAAGGGGAATGAGAT
21767920 GAATTTTTCATTCATTATTGGTTTGAGAACTTCTACAATAAAAAGTGAAGCTTAAAGATTAAAAT
261 GAATTTTTCATTCATTATTGGTTTGAGAACTTCTACAATAAAAAGTGAAGCTTAAAGATTAAAAT
21767985 CAATGATTAATCAACATATTGCAGAGAAATCCAATTTTGTCAGCACTTGGTATAAA
326 CAATGATTAATCAACATATTGCAGAGAAATCCAATTTTGTCAGCACTTGGTATAAA
21768041 AACTAGTGCATAAATGTGTACTAGCATTATCAACACTGAGACTAGCAAAAATGATAAAAAAAAAA
1 AACTAGTGCATAAATGTGTACTAGCATTATCAACACTGAGACTAGCAAAAATGATAAAAAAAAAA
21768106 AATCTTTCTGAGATACATGATAATCACTAAATTGATGTGGGGGCATGCGTCTTATCTGGATTTAG
66 AATCTTTCTGAGATACATGATAATCACTAAATTGATGTGGGGGCATGCGTCTTATCTGGATTTAG
21768171 CATGACAAAAATGAAAAATCTATTCAATTAGAGATGAAGCTGATGTACTACCATACATGCTCCTA
131 CATGACAAAAATGAAAAATCTATTCAATTAGAGATGAAGCTGATGTACTACCATACATGCTCCTA
21768236 ATTATCAATCTTTTCATAGAAGGAAAAAGGAGGGTGGCTGTGGTGGAGATCAAGGGGAATGAGAT
196 ATTATCAATCTTTTCATAGAAGGAAAAAGGAGGGTGGCTGTGGTGGAGATCAAGGGGAATGAGAT
21768301 GAATTTTTCATTCATTATTGGTTTGAGAACTTCTACAATAAAAAGTGAAGCTTAAAGATTAAAAT
261 GAATTTTTCATTCATTATTGGTTTGAGAACTTCTACAATAAAAAGTGAAGCTTAAAGATTAAAAT
21768366 CAATGATTAATCAACATATTGCAGAGAAATCCAATTTTGTCAGCACTTGGTATAAA
326 CAATGATTAATCAACATATTGCAGAGAAATCCAATTTTGTCAGCACTTGGTATAAA
21768422 AACT
1 AACT
21768426 GTTGTCCAAT
Statistics
Matches: 385, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
381 385 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (381 bp):
AACTAGTGCATAAATGTGTACTAGCATTATCAACACTGAGACTAGCAAAAATGATAAAAAAAAAA
AATCTTTCTGAGATACATGATAATCACTAAATTGATGTGGGGGCATGCGTCTTATCTGGATTTAG
CATGACAAAAATGAAAAATCTATTCAATTAGAGATGAAGCTGATGTACTACCATACATGCTCCTA
ATTATCAATCTTTTCATAGAAGGAAAAAGGAGGGTGGCTGTGGTGGAGATCAAGGGGAATGAGAT
GAATTTTTCATTCATTATTGGTTTGAGAACTTCTACAATAAAAAGTGAAGCTTAAAGATTAAAAT
CAATGATTAATCAACATATTGCAGAGAAATCCAATTTTGTCAGCACTTGGTATAAA
Found at i:21771543 original size:19 final size:18
Alignment explanation
Indices: 21771503--21771544 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
21771493 TTTTTTTTTT
*
21771503 AAAAGAGTTTAAATAAAG
1 AAAAAAGTTTAAATAAAG
21771521 AAAAAAGTTTAAATAAAG
1 AAAAAAGTTTAAATAAAG
21771539 AAAAAA
1 AAAAAA
21771545 TAGGCCTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (18 bp):
AAAAAAGTTTAAATAAAG
Found at i:21773225 original size:2 final size:2
Alignment explanation
Indices: 21773220--21773257 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21773210 AAGAAATAAA
21773220 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21773258 GTGTACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21773311 original size:2 final size:2
Alignment explanation
Indices: 21773304--21773334 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21773294 ATGAAATGGG
21773304 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
21773335 AGAGAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:21773339 original size:2 final size:2
Alignment explanation
Indices: 21773334--21773364 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21773324 GTGTGTGTGT
21773334 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21773365 GCAGACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21775761 original size:18 final size:19
Alignment explanation
Indices: 21775740--21775781 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
21775730 GAAAATCATA
21775740 ATAAAAACA-AAAAAAAAT
1 ATAAAAACATAAAAAAAAT
*
21775758 AT-AAAACATTAAAAAAAT
1 ATAAAAACATAAAAAAAAT
21775776 ATAAAA
1 ATAAAA
21775782 GGCACACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (19 bp):
ATAAAAACATAAAAAAAAT
Found at i:21778785 original size:24 final size:23
Alignment explanation
Indices: 21778751--21778803 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
21778741 TAAAAAAATA
21778751 TAAAATATATTTTTT-TGATTTTAT
1 TAAAATATATTTTTTAT--TTTTAT
*
21778775 TAAAATCTATTTTTTATTTTTAT
1 TAAAATATATTTTTTATTTTTAT
21778798 TAAAAT
1 TAAAAT
21778804 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 12 0.44
24 14 0.52
25 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TAAAATATATTTTTTATTTTTAT
Found at i:21778795 original size:23 final size:23
Alignment explanation
Indices: 21778751--21778803 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
21778741 TAAAAAAATA
21778751 TAAAATATATTTTTTTGATTTTAT
1 TAAAATATATTTTTTT-ATTTTAT
*
21778775 TAAAATCTA-TTTTTTATTTTTAT
1 TAAAATATATTTTTTTA-TTTTAT
21778798 TAAAAT
1 TAAAAT
21778804 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.67
24 8 0.30
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TAAAATATATTTTTTTATTTTAT
Found at i:21778846 original size:15 final size:16
Alignment explanation
Indices: 21778826--21778855 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21778816 AATTTTTATT
21778826 TTTTTAT-TCGTATCG
1 TTTTTATATCGTATCG
21778841 TTTTTATATCGTATC
1 TTTTTATATCGTATC
21778856 ATTATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (16 bp):
TTTTTATATCGTATCG
Found at i:21786179 original size:8 final size:8
Alignment explanation
Indices: 21786159--21786203 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
21786149 TATTATTTTT
21786159 TAAA-ATA
1 TAAATATA
*
21786166 TAAATATT
1 TAAATATA
21786174 TAAATATA
1 TAAATATA
*
21786182 TAATTATA
1 TAAATATA
21786190 TAAATATA
1 TAAATATA
21786198 TAAATA
1 TAAATA
21786204 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:21786210 original size:24 final size:24
Alignment explanation
Indices: 21786163--21786211 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
21786153 ATTTTTTAAA
* * *
21786163 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAAAAATT
21786187 ATATAAATATATAAATAAAAAATT
1 ATATAAATATATAAATAAAAAATT
21786211 A
1 A
21786212 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATATAAATAAAAAATT
Found at i:21790822 original size:40 final size:39
Alignment explanation
Indices: 21790754--21790834 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 39
21790744 AATGAAAGGT
*
21790754 TTGGGACTATAATACACTTTACCCTGCAAAATATACAAG
1 TTGGGACTATAAGACACTTTACCCTGCAAAATATACAAG
* * *
21790793 TTGGGACTATAAAGACACTTTATCTTGCAAAATATGCAAG
1 TTGGGACTAT-AAGACACTTTACCCTGCAAAATATACAAG
21790833 TT
1 TT
21790835 TTAATGTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (39 bp):
TTGGGACTATAAGACACTTTACCCTGCAAAATATACAAG
Found at i:21793712 original size:57 final size:57
Alignment explanation
Indices: 21793649--21793764 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
21793639 ATCACAAATT
21793649 TAAGTGTTATATGATATTTGATTTGTTTAATCATAATTAATATGGGAAAAATTAAAC
1 TAAGTGTTATATGATATTTGATTTGTTTAATCATAATTAATATGGGAAAAATTAAAC
21793706 TAAGTGTTATATGATATTTGATTTGTTTAATCATAATTAATATGGGAAAAATTAAAC
1 TAAGTGTTATATGATATTTGATTTGTTTAATCATAATTAATATGGGAAAAATTAAAC
21793763 TA
1 TA
21793765 TGTACAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (57 bp):
TAAGTGTTATATGATATTTGATTTGTTTAATCATAATTAATATGGGAAAAATTAAAC
Found at i:21793938 original size:22 final size:23
Alignment explanation
Indices: 21793899--21793943 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
21793889 AAGCATTTCA
*
21793899 CCTATAATTTTTTTTATTATAAT
1 CCTATAATTTATTTTATTATAAT
21793922 CCTATAA-TTATTTTATTATAAT
1 CCTATAATTTATTTTATTATAAT
21793944 AAAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (23 bp):
CCTATAATTTATTTTATTATAAT
Found at i:21802832 original size:92 final size:92
Alignment explanation
Indices: 21802675--21802852 Score: 295
Period size: 92 Copynumber: 1.9 Consensus size: 92
21802665 AGAGCAGACA
* * *
21802675 ACAACGATTGTAGCAGGAGTTTGAACCAATGAGAGTTCGACAACGCTTTTAACGAAACCATCCTT
1 ACAACGACTGTAGAAGGAGTTTGAACCAATGAGACTTCGACAACGCTTTTAACGAAACCATCCTT
21802740 GTTTTCTAATACCACCCATCTCTTCAG
66 GTTTTCTAATACCACCCATCTCTTCAG
* *
21802767 ACAACGACTGTAGAAGGAGTTTGAACGAATGAG-CTCTCGACAACGCTTTTATCGAAACCATCCT
1 ACAACGACTGTAGAAGGAGTTTGAACCAATGAGACT-TCGACAACGCTTTTAACGAAACCATCCT
21802831 TGTTTTCTAATACCACCCATCT
65 TGTTTTCTAATACCACCCATCT
21802853 TTCCATCTAG
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 1 0.01
92 79 0.99
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (92 bp):
ACAACGACTGTAGAAGGAGTTTGAACCAATGAGACTTCGACAACGCTTTTAACGAAACCATCCTT
GTTTTCTAATACCACCCATCTCTTCAG
Found at i:21804546 original size:3 final size:3
Alignment explanation
Indices: 21804538--21804678 Score: 80
Period size: 3 Copynumber: 47.7 Consensus size: 3
21804528 GAGTCAATTT
* * * * *
21804538 TTA TTA TTA TTTG TTA TTA TTA TTG TTA TTA TTA CTA GTG TTA -TA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
21804583 GTA TAA TATA TTA -TA TTA CTA TTA TTA TTA TTT TGTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* *
21804629 TTA -TA TTA TGA -TA TGGTA -TA TTA -TA TTA TTA TT- GTA TTA TTA
1 TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
21804671 TTT TTA TT
1 TTA TTA TT
21804679 TTCTTTCCTT
Statistics
Matches: 104, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
2 12 0.12
3 84 0.81
4 6 0.06
5 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:21804598 original size:5 final size:5
Alignment explanation
Indices: 21804578--21804668 Score: 53
Period size: 5 Copynumber: 17.8 Consensus size: 5
21804568 ATTACTAGTG
* * * *
21804578 TTATA GTATA ATATA TTATA TTACTA TTATTA TTATT TTGTA -T-TA TTATTA
1 TTATA TTATA TTATA TTATA TTA-TA TTA-TA TTATA TTATA TTATA TTA-TA
* * *
21804629 TTATA TTATGA -TATG GTATA TTATA TTATTA TTGTA TTAT
1 TTATA TTAT-A TTATA TTATA TTATA TTA-TA TTATA TTAT
21804669 TATTTTTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 43 0.64
6 20 0.30
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:21805201 original size:7 final size:7
Alignment explanation
Indices: 21805189--21805215 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21805179 GTCTCAGCCA
21805189 TTTCTTC
1 TTTCTTC
21805196 TTTCTTC
1 TTTCTTC
21805203 TTTCTTC
1 TTTCTTC
21805210 TTTCTT
1 TTTCTT
21805216 AAACCAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTCTTC
Found at i:21807552 original size:31 final size:30
Alignment explanation
Indices: 21807486--21807572 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 30
21807476 GACGATGGAC
* *
21807486 TAAAATAAAATTTTTTTAAAGTTTAGAGAT
1 TAAAATAAAATTTTTTAAAATTTTAGAGAT
21807516 TAAAATAAAATTTTTTAAAATTTTA-ATGAT
1 TAAAATAAAATTTTTTAAAATTTTAGA-GAT
*
21807546 TAAAAATGAAATTATTTTAAAATTTTA
1 T-AAAATAAAATT-TTTTAAAATTTTA
21807573 TATATTTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 1 0.02
30 27 0.53
31 10 0.20
32 13 0.25
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (30 bp):
TAAAATAAAATTTTTTAAAATTTTAGAGAT
Found at i:21809621 original size:25 final size:24
Alignment explanation
Indices: 21809593--21809639 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
21809583 TTAATAATTA
21809593 AAAAATAAAAATTTAAACAAAAAAT
1 AAAAATAAAAATTTAAA-AAAAAAT
*
21809618 AAAAATAAAAATTTTAAAAAAA
1 AAAAATAAAAATTTAAAAAAAA
21809640 TATTTTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAAATAAAAATTTAAAAAAAAAT
Found at i:21809704 original size:57 final size:54
Alignment explanation
Indices: 21809619--21809789 Score: 173
Period size: 57 Copynumber: 3.0 Consensus size: 54
21809609 ACAAAAAATA
21809619 AAAATAAAAATTTTAAAAAAATATTTTAAGGAAAAATTGAAAGTATTAATTTTTTTTT
1 AAAATAAAAA-TTT-AAAAAATATTTTAA-GAAAAATTGAAAGTATTAA-TTTTTTTT
** * * *
21809677 AAAATAAAAATTTCAAAAACCATTTTAAAGAAGAGTTGAAAATATTAATTTTTTTT
1 AAAATAAAAATTT-AAAAAATATTTT-AAGAAAAATTGAAAGTATTAATTTTTTTT
* * *
21809733 AAAGATAAAATTTTTAAAATATATTTTTGAA-AAAAATTGAAAGTATTAAATTTTTTT
1 AAA-ATAAAA-ATTTAAAAAATA-TTTT-AAGAAAAATTGAAAGTATTAATTTTTTTT
21809790 GAATAAATGT
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
56 11 0.12
57 62 0.66
58 21 0.22
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (54 bp):
AAAATAAAAATTTAAAAAATATTTTAAGAAAAATTGAAAGTATTAATTTTTTTT
Found at i:21810718 original size:32 final size:31
Alignment explanation
Indices: 21810671--21810781 Score: 98
Period size: 32 Copynumber: 3.5 Consensus size: 31
21810661 TAAAATTATG
*
21810671 TATCATTTTAAAAAATTGAGTAAAAATTTTTA
1 TATCAGTTTAAAAAATT-AGTAAAAATTTTTA
* * * *
21810703 TGTCGGTTTAAAAAATTAAATAAAAA-TTCTA
1 TATCAGTTTAAAAAATT-AGTAAAAATTTTTA
* *
21810734 TATCATTTTAAAATATTATGTAAAAATTTTTA
1 TATCAGTTTAAAAAATTA-GTAAAAATTTTTA
* * *
21810766 GATCATTTTCAAAAAT
1 TATCAGTTTAAAAAAT
21810782 AGATTTATTA
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
30 1 0.02
31 23 0.37
32 38 0.61
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (31 bp):
TATCAGTTTAAAAAATTAGTAAAAATTTTTA
Found at i:21813503 original size:19 final size:19
Alignment explanation
Indices: 21813479--21813516 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21813469 AGCAACAGAA
21813479 AGTATCACTTCTGGTGTTT
1 AGTATCACTTCTGGTGTTT
21813498 AGTATCACTTCTGGTGTTT
1 AGTATCACTTCTGGTGTTT
21813517 GGACAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (19 bp):
AGTATCACTTCTGGTGTTT
Found at i:21814179 original size:21 final size:23
Alignment explanation
Indices: 21814125--21814177 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
21814115 AAATAATAAT
* *
21814125 AAAAATTATTGTAATTACAATTA
1 AAAAAATATTATAATTACAATTA
*
21814148 AAAAAATATTATAATTATAATTA
1 AAAAAATATTATAATTACAATTA
21814171 AAAAAAT
1 AAAAAAT
21814178 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAAATATTATAATTACAATTA
Found at i:21816367 original size:52 final size:52
Alignment explanation
Indices: 21816289--21816449 Score: 322
Period size: 52 Copynumber: 3.1 Consensus size: 52
21816279 CCCATTCAAT
21816289 TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
1 TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
21816341 TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
1 TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
21816393 TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
1 TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
21816445 TAATT
1 TAATT
21816450 ATCTAGGATT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 109 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (52 bp):
TAATTGAATGGGGTTATTTAAATTACCATCATATATGCTAAACAGATTATTG
Found at i:21818063 original size:40 final size:40
Alignment explanation
Indices: 21818019--21818094 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
21818009 GTTTGCCCTC
*
21818019 AGAATTTTACAGAATGTACAATACAAGGATGGGTTCGCCA
1 AGAATTTTACAGAATGTACAATACAAGGATAGGTTCGCCA
* * *
21818059 AGAATTTTATAGATTGTACATTACAAGGATAGGTTC
1 AGAATTTTACAGAATGTACAATACAAGGATAGGTTC
21818095 TCATCAATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (40 bp):
AGAATTTTACAGAATGTACAATACAAGGATAGGTTCGCCA
Found at i:21819589 original size:12 final size:13
Alignment explanation
Indices: 21819567--21819600 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
21819557 ATCTAAATGA
21819567 ATTATATTTTTTT
1 ATTATATTTTTTT
21819580 ATTA-ATTTTTTT
1 ATTATATTTTTTT
21819592 A-TATATTTT
1 ATTATATTTT
21819601 AAATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 14 0.70
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTATATTTTTTT
Found at i:21819651 original size:62 final size:63
Alignment explanation
Indices: 21819578--21819707 Score: 201
Period size: 63 Copynumber: 2.1 Consensus size: 63
21819568 TTATATTTTT
21819578 TTATTAATTTTTT-TATATATTTTAAATTTTTATAAAATAAAAATAATTATATTATATTT-AAA
1 TTATTAATTTTTTATATATATTTTAAATTTTTATAAAAT-AAAATAATTATATTATATTTAAAA
* * * *
21819640 TTATTACTTTTTTATATATTTTTTAAATTTTTATAAAATAAAATAATTATATTTTGTTTAAAA
1 TTATTAATTTTTTATATATATTTTAAATTTTTATAAAATAAAATAATTATATTATATTTAAAA
21819703 TTATT
1 TTATT
21819708 TAAATATAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
62 30 0.48
63 32 0.52
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (63 bp):
TTATTAATTTTTTATATATATTTTAAATTTTTATAAAATAAAATAATTATATTATATTTAAAA
Found at i:21820495 original size:12 final size:12
Alignment explanation
Indices: 21820480--21820504 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21820470 ATTTTAATTA
21820480 AAATATTATATT
1 AAATATTATATT
21820492 AAATATTATATT
1 AAATATTATATT
21820504 A
1 A
21820505 TATTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATATTATATT
Found at i:21821006 original size:80 final size:82
Alignment explanation
Indices: 21820884--21821038 Score: 251
Period size: 80 Copynumber: 1.9 Consensus size: 82
21820874 TTGAACTTTG
*
21820884 AAAACTATTATTGTAATTGAAGTTGACAAAGTTAACCGAAATTTGAAAAACTTATTTAATATGCT
1 AAAACTACTATTGTAATTGAAGTTGACAAAGTTAACCGAAATTTGAAAAACTTATTTAATATGCT
*
21820949 CAAATACGAAAAAAAAA
66 CAAAAACGAAAAAAAAA
* * *
21820966 AAAACTACTATTTTAATT-AAGTTG-CAAAGTTAACCTAAATTTGAAAAACTTATTTAATATGTT
1 AAAACTACTATTGTAATTGAAGTTGACAAAGTTAACCGAAATTTGAAAAACTTATTTAATATGCT
21821029 CAAAAACGAA
66 CAAAAACGAA
21821039 TTCCACCTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
80 46 0.68
81 6 0.09
82 16 0.24
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (82 bp):
AAAACTACTATTGTAATTGAAGTTGACAAAGTTAACCGAAATTTGAAAAACTTATTTAATATGCT
CAAAAACGAAAAAAAAA
Found at i:21823386 original size:1 final size:1
Alignment explanation
Indices: 21823380--21823405 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21823370 TGTCTTTGTG
21823380 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
21823406 GTTTCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21828656 original size:16 final size:16
Alignment explanation
Indices: 21828637--21828669 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21828627 CTTGATTTGT
21828637 ATTTAAAATAATTTAA
1 ATTTAAAATAATTTAA
*
21828653 ATTTAAATTAATTTAA
1 ATTTAAAATAATTTAA
21828669 A
1 A
21828670 CTCAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAAAATAATTTAA
Found at i:21840714 original size:20 final size:20
Alignment explanation
Indices: 21840689--21840733 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
21840679 TTATAGAATA
21840689 AGATCTGTCAAAACTTGGAC
1 AGATCTGTCAAAACTTGGAC
21840709 AGATCTGTCAAAACTTGGAC
1 AGATCTGTCAAAACTTGGAC
21840729 AGATC
1 AGATC
21840734 AAAGGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
AGATCTGTCAAAACTTGGAC
Found at i:21854830 original size:14 final size:12
Alignment explanation
Indices: 21854797--21854821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21854787 GGAGCATTTA
21854797 ATTTGAAAAATT
1 ATTTGAAAAATT
21854809 ATTTGAAAAATT
1 ATTTGAAAAATT
21854821 A
1 A
21854822 GCTTTGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTGAAAAATT
Found at i:21865538 original size:39 final size:36
Alignment explanation
Indices: 21865482--21865559 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 36
21865472 ATAATTTTTA
*
21865482 TATTTATGTTATGTAAAATATTA-ATAATTCATATATTTG
1 TATTTATGTTATATAAAA-ATTATAT-ATT-ATA-ATTTG
*
21865521 TATTTATTTTATATAAAAATTATATATTATAATTTG
1 TATTTATGTTATATAAAAATTATATATTATAATTTG
21865557 TAT
1 TAT
21865560 CGATATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
36 8 0.22
37 3 0.08
38 7 0.19
39 18 0.50
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (36 bp):
TATTTATGTTATATAAAAATTATATATTATAATTTG
Found at i:21866959 original size:18 final size:18
Alignment explanation
Indices: 21866936--21866970 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21866926 TCAAATCAAA
21866936 TTATATAT-TTTTATTAAT
1 TTATATATATTTT-TTAAT
21866954 TTATATATATTTTTTAA
1 TTATATATATTTTTTAA
21866971 ATTTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATATATTTTTTAAT
Found at i:21874031 original size:19 final size:20
Alignment explanation
Indices: 21873968--21874037 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
21873958 TTTTTCTCAC
*
21873968 AATTTTTT--AAAGTTTTAT
1 AATTTTTTAAAAAGTTATAT
* *
21873986 AACTTTTTGAAAAGTTATAT
1 AATTTTTTAAAAAGTTATAT
21874006 AA-TTTTTAAAAAGTTATA-
1 AATTTTTTAAAAAGTTATAT
21874024 AATTTTTTCAAAAA
1 AATTTTTT-AAAAA
21874038 ATCTTTTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.20
19 20 0.44
20 16 0.36
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (20 bp):
AATTTTTTAAAAAGTTATAT
Found at i:21874082 original size:31 final size:33
Alignment explanation
Indices: 21874028--21874088 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
21874018 GTTATAAATT
* *
21874028 TTTTCAAAAAATCTTTTTGT-AAAATTTATAAC
1 TTTTCAAAAAATCTATTTCTAAAAATTTATAAC
*
21874060 TTTTCAAAAATTC-ATTTCTAAAAATTTAT
1 TTTTCAAAAAATCTATTTCTAAAAATTTAT
21874089 GTAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.48
Consensus pattern (33 bp):
TTTTCAAAAAATCTATTTCTAAAAATTTATAAC
Found at i:21880968 original size:18 final size:19
Alignment explanation
Indices: 21880942--21880977 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21880932 TCAATCGATC
21880942 AATCGAATTAAATCAATTT
1 AATCGAATTAAATCAATTT
*
21880961 AATC-AATTAATTCAATT
1 AATCGAATTAAATCAATT
21880978 AAAATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (19 bp):
AATCGAATTAAATCAATTT
Found at i:21882863 original size:18 final size:17
Alignment explanation
Indices: 21882836--21882869 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
21882826 TTATTTTTAA
21882836 AAATTTAAAATATATAT
1 AAATTTAAAATATATAT
21882853 AAATATTAAAATATATA
1 AAAT-TTAAAATATATA
21882870 CAATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTAAAATATATAT
Found at i:21883653 original size:2 final size:2
Alignment explanation
Indices: 21883646--21883670 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21883636 ATATAACCAA
21883646 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 A
21883671 ACCCCCTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21888703 original size:16 final size:18
Alignment explanation
Indices: 21888667--21888704 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
21888657 TATTAATGGC
21888667 ATATTAATTCCTTTGTAT
1 ATATTAATTCCTTTGTAT
*
21888685 ATATTAATTCTTTTGTAT
1 ATATTAATTCCTTTGTAT
21888703 AT
1 AT
21888705 CAATAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (18 bp):
ATATTAATTCCTTTGTAT
Found at i:21888927 original size:2 final size:2
Alignment explanation
Indices: 21888920--21888954 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21888910 TACACAACAC
21888920 AT AT 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 A
21888955 AAAGATACCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21890302 original size:17 final size:18
Alignment explanation
Indices: 21890271--21890306 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21890261 AATTCAAATA
21890271 TATTTATTTTCTTTATTT
1 TATTTATTTTCTTTATTT
*
21890289 TATTT-TTTTGTTTATTT
1 TATTTATTTTCTTTATTT
21890306 T
1 T
21890307 TTAATGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (18 bp):
TATTTATTTTCTTTATTT
Found at i:21891123 original size:22 final size:23
Alignment explanation
Indices: 21891098--21891143 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21891088 TCCGTTTCAA
21891098 AATTAAA-ATATATGAT-AAATTT
1 AATTAAATATATAT-ATAAAATTT
*
21891120 AATTAAATATTTATATAAAATTT
1 AATTAAATATATATATAAAATTT
21891143 A
1 A
21891144 CAAATCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTAAATATATATATAAAATTT
Found at i:21894598 original size:13 final size:13
Alignment explanation
Indices: 21894578--21894619 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
21894568 AAAAATGATT
21894578 AAAT-AAAAATTA
1 AAATCAAAAATTA
*
21894590 AAATCAAAAATCA
1 AAATCAAAAATTA
*
21894603 AAATCGATAAATTA
1 AAATC-AAAAATTA
21894617 AAA
1 AAA
21894620 AATCTCATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 12 0.48
14 9 0.36
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATCAAAAATTA
Found at i:21895656 original size:2 final size:2
Alignment explanation
Indices: 21895649--21895675 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21895639 CGATTTGATC
21895649 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 T
21895676 GTAAATCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21895747 original size:25 final size:24
Alignment explanation
Indices: 21895702--21895748 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
21895692 TTTAATTTGA
*
21895702 TTTAAAATTAATAAAATATTAATT
1 TTTAAAATAAATAAAATATTAATT
21895726 TTTAAATATAAATATAAA-ATTAA
1 TTTAAA-ATAAATA-AAATATTAA
21895749 ATATAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 11 0.55
26 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAAATAAATAAAATATTAATT
Found at i:21895749 original size:12 final size:12
Alignment explanation
Indices: 21895729--21895763 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
21895719 ATTAATTTTT
21895729 AAATATAAATATA
1 AAAT-TAAATATA
21895742 AAATTAAATATA
1 AAATTAAATATA
*
21895754 ACATTAAATA
1 AAATTAAATA
21895764 AGTAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:21901635 original size:14 final size:13
Alignment explanation
Indices: 21901595--21901637 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
21901585 TAATATAATT
21901595 TAAAATTT-T-AA
1 TAAAATTTATAAA
21901606 TAAAATTTATAAA
1 TAAAATTTATAAA
*
21901619 TAAATTTTATAAAA
1 TAAAATTTAT-AAA
21901633 TAAAA
1 TAAAA
21901638 AATATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 8 0.30
12 1 0.04
13 11 0.41
14 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATTTATAAA
Found at i:21901998 original size:17 final size:17
Alignment explanation
Indices: 21901978--21902020 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
21901968 AAATTTTGAT
21901978 TAATTTTTAATTTTTAA
1 TAATTTTTAATTTTTAA
*
21901995 TAATATTTTTTATTTTTTAA
1 T-A-A-TTTTTAATTTTTAA
21902015 TAATTT
1 TAATTT
21902021 GATCCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 4 0.18
18 2 0.09
19 2 0.09
20 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTTAATTTTTAA
Found at i:21902006 original size:20 final size:20
Alignment explanation
Indices: 21901981--21902018 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21901971 TTTTGATTAA
21901981 TTTTTAATTTTTAATAATAT
1 TTTTTAATTTTTAATAATAT
*
21902001 TTTTTATTTTTTAATAAT
1 TTTTTAATTTTTAATAAT
21902019 TTGATCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAATTTTTAATAATAT
Found at i:21905426 original size:31 final size:30
Alignment explanation
Indices: 21905391--21905470 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
21905381 TACAAATAAA
*
21905391 ATCAAATGAAATCCATGTGTATTAATATTTT
1 ATCAAATGAAAT-CATGTGCATTAATATTTT
* *
21905422 ATCAAATGGAATTAAATGTGCATTAATATTTT
1 ATCAAAT-GAAAT-CATGTGCATTAATATTTT
*
21905454 ACCAAATGAAATCATGT
1 ATCAAATGAAATCATGT
21905471 TTAATAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 4 0.10
31 11 0.27
32 26 0.63
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (30 bp):
ATCAAATGAAATCATGTGCATTAATATTTT
Found at i:21908014 original size:49 final size:49
Alignment explanation
Indices: 21907960--21908060 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
21907950 TAATAAAGAC
*
21907960 TAGTATTGTTCAATAACTTTATCTTATTTAATTAAGTTACACAAAGATT
1 TAGTATTGTTCAATAACTTTACCTTATTTAATTAAGTTACACAAAGATT
*
21908009 TAGTATTGTTCAATAACTTTACCTTATTTAATTAAGTTACGCAAAGATT
1 TAGTATTGTTCAATAACTTTACCTTATTTAATTAAGTTACACAAAGATT
21908058 TAG
1 TAG
21908061 AAAACAACGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.44
Consensus pattern (49 bp):
TAGTATTGTTCAATAACTTTACCTTATTTAATTAAGTTACACAAAGATT
Found at i:21912035 original size:31 final size:32
Alignment explanation
Indices: 21911973--21912042 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
21911963 TATATTTTAT
*
21911973 ATTTTTATAACAATATAAATTATAATATAT-A
1 ATTTTTATAAAAATATAAATTATAATATATAA
*
21912004 ATTTTTATATAAAATAT-AA-TATGAATGTATAA
1 ATTTTTATA-AAAATATAAATTAT-AATATATAA
21912036 ATTTTTA
1 ATTTTTA
21912043 ATATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 3 0.09
31 17 0.50
32 14 0.41
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTTTTATAAAAATATAAATTATAATATATAA
Found at i:21912518 original size:194 final size:192
Alignment explanation
Indices: 21912176--21912568 Score: 599
Period size: 194 Copynumber: 2.0 Consensus size: 192
21912166 GAAATAAAAT
* * *
21912176 CAAACAATAAATCAAACACATAAGATACAACAATTTAACGTGATTCGATCAAATCCACCTACGTT
1 CAAACAATAAATCAAACACACAAGAGACAACAATTTAACGTGATTCGATCAAATCCACCTACGTC
* *
21912241 CACGGATGAAAAATAAGTTCACTAGTTGTAGAAATTACAAACATATATCAAATCATCAACTTCAC
66 CACGGATGAAAAACAAGTTCACTAGTTGTAAAAATTACAAACATATATCAAATCATCAACTTCAC
* *
21912306 TCAACAATCAATACTCATAAGACACTCTTAATCTCTTCTAGTCCTATGGAGTATTCTCAACC
131 TCAACAATCAATACTCATAAGACACTCTTAATCTCCTCTAATCCTATGGAGTATTCTCAACC
* * * * *
21912368 CAAACAATAAATCAAACACACAAGAGATAACAATTTAACGTGGTTTGATCTAATCCACTTACGTC
1 CAAACAATAAATCAAACACACAAGAGACAACAATTTAACGTGATTCGATCAAATCCACCTACGTC
* *
21912433 CACGGATGAGAAACAA-TATCCATTAGTTGTAAAAAATTACAAACATATATCAAATCATCAACTT
66 CACGGATGAAAAACAAGT-T-CACTAGTTGT-AAAAATTACAAACATATATCAAATCATCAACTT
* * *
21912497 CACTCGATAATCAATACTCATAAGACACTCTTAATCTCCTCTAATCTTATGGAGTATTCTCAACC
128 CACTCAACAATCAATACTCATAAGACACTCTTAATCTCCTCTAATCCTATGGAGTATTCTCAACC
21912562 CAAACAA
1 CAAACAA
21912569 ACATAAACCC
Statistics
Matches: 181, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
191 1 0.01
192 72 0.40
193 9 0.05
194 99 0.55
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (192 bp):
CAAACAATAAATCAAACACACAAGAGACAACAATTTAACGTGATTCGATCAAATCCACCTACGTC
CACGGATGAAAAACAAGTTCACTAGTTGTAAAAATTACAAACATATATCAAATCATCAACTTCAC
TCAACAATCAATACTCATAAGACACTCTTAATCTCCTCTAATCCTATGGAGTATTCTCAACC
Found at i:21912734 original size:47 final size:47
Alignment explanation
Indices: 21912665--21912755 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
21912655 TTAATCTCTT
* *
21912665 CTAGTCCACTCATAAACAAACATACACACTTATAAGATGTAGAGCCC
1 CTAGTCCACTCACAAACAAACATACACACTCATAAGATGTAGAGCCC
21912712 CTAGTCCACTCACAAACAAACATACACACTCATAAGATGTAGAG
1 CTAGTCCACTCACAAACAAACATACACACTCATAAGATGTAGAG
21912756 TCTTAATACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.20
Consensus pattern (47 bp):
CTAGTCCACTCACAAACAAACATACACACTCATAAGATGTAGAGCCC
Found at i:21912925 original size:52 final size:50
Alignment explanation
Indices: 21912859--21913014 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 50
21912849 TATAACCATA
* *
21912859 CAAACTTGCTTATTAAAAATCTTTATTCTCTTAGAATTCTTTTCTTGTAAGT
1 CAAACTTGCATATTAAGAATC-TTATTCTCTTAGAATT-TTTTCTTGTAAGT
* * *
21912911 CAAACTTGCCTATTAAGAATCCATT-TTCTTTTAAAATTTTTCTCTTGTAAGT
1 CAAACTTGCATATTAAGAAT-C-TTATTCTCTTAGAATTTTT-TCTTGTAAGT
* *
21912963 CAAACTTACATATTAAGAATCTTATTTCTCTTAGAATTATTTTTTTGTAAGT
1 CAAACTTGCATATTAAGAATCTTA-TTCTCTTAGAATT-TTTTCTTGTAAGT
21913015 TTTATTGTCC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 77 0.87
53 6 0.07
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (50 bp):
CAAACTTGCATATTAAGAATCTTATTCTCTTAGAATTTTTTCTTGTAAGT
Found at i:21913064 original size:11 final size:11
Alignment explanation
Indices: 21913050--21913092 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21913040 ACAAATCTTA
21913050 AATAAATTTCT
1 AATAAATTTCT
*
21913061 AATAAATTTCA
1 AATAAATTTCT
*
21913072 AATAAATCTCT
1 AATAAATTTCT
*
21913083 TATGAAATTT
1 AAT-AAATTT
21913093 GAGTCAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (11 bp):
AATAAATTTCT
Found at i:21913067 original size:22 final size:22
Alignment explanation
Indices: 21913026--21913078 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
21913016 TTATTGTCCA
21913026 TCAAAT-AATATCTAACAAATCT
1 TCAAATAAATATCTAACAAAT-T
* *
21913048 T-AAATAAATTTCTAATAAATT
1 TCAAATAAATATCTAACAAATT
21913069 TCAAATAAAT
1 TCAAATAAAT
21913079 CTCTTATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TCAAATAAATATCTAACAAATT
Found at i:21913684 original size:131 final size:132
Alignment explanation
Indices: 21913544--21913809 Score: 525
Period size: 131 Copynumber: 2.0 Consensus size: 132
21913534 AATATTATGT
21913544 AATATAATAATTTTAACAAAAGCTTTTAGAACATTGAATCCAAAACTCAAATCACAAATCAAATT
1 AATATAATAATTTTAACAAAAGCTTTTAGAACATTGAATCCAAAACTCAAATCACAAATCAAATT
21913609 TTC-TTTTTGTTAAACCAAAAGGATAAAATTTTAATACAAATAAAAAAAAATTTGATTCAAAATT
66 TTCTTTTTTGTTAAACCAAAAGGATAAAATTTTAATACAAATAAAAAAAAATTTGATTCAAAATT
21913673 AA
131 AA
21913675 AATATAATAATTTTAACAAAAGCTTTTAGAACATTGAATCCAAAACTCAAATCACAAATCAAATT
1 AATATAATAATTTTAACAAAAGCTTTTAGAACATTGAATCCAAAACTCAAATCACAAATCAAATT
21913740 TTCTTTTTTGTTAAACCAAAAGGATAAAATTTTAATACAAATAAAAAAAAATTTGATTCAAAATT
66 TTCTTTTTTGTTAAACCAAAAGGATAAAATTTTAATACAAATAAAAAAAAATTTGATTCAAAATT
21913805 AA
131 AA
21913807 AAT
1 AAT
21913810 TTTGATATTT
Statistics
Matches: 134, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
131 68 0.51
132 66 0.49
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (132 bp):
AATATAATAATTTTAACAAAAGCTTTTAGAACATTGAATCCAAAACTCAAATCACAAATCAAATT
TTCTTTTTTGTTAAACCAAAAGGATAAAATTTTAATACAAATAAAAAAAAATTTGATTCAAAATT
AA
Found at i:21914282 original size:13 final size:13
Alignment explanation
Indices: 21914266--21914301 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21914256 TATTTAATTT
*
21914266 ATATTAAATTTAG
1 ATATTAAATTTAA
*
21914279 ATATTAAATATAA
1 ATATTAAATTTAA
21914292 ATATTAAATT
1 ATATTAAATT
21914302 CAAGTTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATATTAAATTTAA
Found at i:21914436 original size:12 final size:11
Alignment explanation
Indices: 21914415--21914453 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
21914405 TAAATCTATT
21914415 AAATATATTAA
1 AAATATATTAA
21914426 AAATAATATTAA
1 AAAT-ATATTAA
*
21914438 ATAATATATAAA
1 A-AATATATTAA
21914450 AAAT
1 AAAT
21914454 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 7 0.28
12 15 0.60
13 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATTAA
Found at i:21920273 original size:15 final size:17
Alignment explanation
Indices: 21920240--21920278 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21920230 ATAAATTTTG
*
21920240 ATATATTTAATAAATAA
1 ATATTTTTAATAAATAA
21920257 ATATTTTTAAT-AA-AA
1 ATATTTTTAATAAATAA
21920272 ATATTTT
1 ATATTTT
21920279 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 2 0.10
17 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTTTTAATAAATAA
Found at i:21920346 original size:26 final size:26
Alignment explanation
Indices: 21920317--21920373 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21920307 TAATTTTAAA
*
21920317 TTATAAATAATATTTTTAATAAT-TTT
1 TTATAAATAAT-TTTTTAACAATGTTT
* *
21920343 TTATATATTATTTTTTAACAATGTTT
1 TTATAAATAATTTTTTAACAATGTTT
21920369 TTATA
1 TTATA
21920374 TATTATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
TTATAAATAATTTTTTAACAATGTTT
Found at i:21920374 original size:26 final size:25
Alignment explanation
Indices: 21920329--21920380 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
21920319 ATAAATAATA
*
21920329 TTTTTAATAATTTTTTATATATTAT
1 TTTTTAACAATTTTTTATATATTAT
21920354 TTTTTAACAATGTTTTTATATATTAT
1 TTTTTAACAAT-TTTTTATATATTAT
21920380 T
1 T
21920381 GATTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTAACAATTTTTTATATATTAT
Found at i:21921282 original size:3 final size:3
Alignment explanation
Indices: 21921274--21921311 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21921264 AACAAATAAA
21921274 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
21921312 AAGACAAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.