Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 43 of 160
Found at i:9736697 original size:29 final size:31
Alignment explanation
Indices: 9736611--9736720 Score: 100
Period size: 34 Copynumber: 3.5 Consensus size: 31
9736601 TTATTAGTAT
* *
9736611 TATTTTATATTA-TATTATATTATTATTTTA
1 TATTTTATATTATTAGTATATTATTATATTA
* *
9736641 TATTTTATAAGTACTATAGTATAATATTATATTA
1 TATTTTAT-ATTA-T-TAGTATATTATTATATTA
9736675 TATTTTATATTATTA-T-TATTATTCCATATTA
1 TATTTTATATTATTAGTATATTATT--ATATTA
*
9736706 TATTTTCTTATTATT
1 TATTTT-ATATTATT
9736721 TTTATTTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
29 6 0.09
30 9 0.14
31 17 0.26
32 8 0.12
33 3 0.05
34 23 0.35
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (31 bp):
TATTTTATATTATTAGTATATTATTATATTA
Found at i:9737596 original size:6 final size:6
Alignment explanation
Indices: 9737581--9737663 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
9737571 TAATTGCAGG
* **
9737581 TTTT-T TTTTAT TTTTAT TTTT-T GATTTTA- TTTTAT TTTTAA GCTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT --TTTTAT TTTTAT TTTTAT TTTTAT
*
9737627 TTTTAT TTTTAT TTTT-T TATTGA- TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TT
9737664 GAGAAATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
5 18 0.29
6 40 0.65
7 4 0.06
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:9737636 original size:23 final size:22
Alignment explanation
Indices: 9737586--9737663 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
9737576 GCAGGTTTTT
9737586 TTTTATTTTTA-TTTT--TTGA
1 TTTTATTTTTATTTTTAATTGA
9737605 TTTTA-TTTTATTTTTAAGCTT-A
1 TTTTATTTTTATTTTTAA--TTGA
*
9737627 TTTTATTTTTATTTTTTTATTGA
1 TTTTATTTTTA-TTTTTAATTGA
9737650 TTTTATTTTTATTT
1 TTTTATTTTTATTT
9737664 GAGAAATTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.10
19 9 0.18
22 11 0.22
23 19 0.38
24 6 0.12
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTATTTTTATTTTTAATTGA
Found at i:9737764 original size:18 final size:17
Alignment explanation
Indices: 9737741--9737782 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
9737731 TTCAAATAAG
9737741 TAAAAAAAAAAGAAAGAA
1 TAAAAAAAAAA-AAAGAA
*
9737759 TAAAAACAAAAAAAGGAA
1 TAAAAA-AAAAAAAAGAA
9737777 -AAAAAA
1 TAAAAAA
9737783 TCTTTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 5 0.23
18 11 0.50
19 5 0.23
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (17 bp):
TAAAAAAAAAAAAAGAA
Found at i:9738555 original size:3 final size:3
Alignment explanation
Indices: 9738547--9738597 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
9738537 ACATTATGAC
9738547 AAT AAT 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
9738595 AAT
1 AAT
9738598 GTTTTGAGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9739781 original size:12 final size:13
Alignment explanation
Indices: 9739764--9739793 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9739754 TATAGCATAA
9739764 TATAAACATAG-T
1 TATAAACATAGTT
9739776 TATAAACATAGTT
1 TATAAACATAGTT
9739789 TATAA
1 TATAA
9739794 GAAACTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
TATAAACATAGTT
Found at i:9745048 original size:10 final size:11
Alignment explanation
Indices: 9745023--9745052 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
9745013 TGTCCTAATC
9745023 TTGCATGAATT
1 TTGCATGAATT
9745034 TTGCATGAA-T
1 TTGCATGAATT
9745044 TTGCATGAA
1 TTGCATGAA
9745053 AATCATGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (11 bp):
TTGCATGAATT
Found at i:9745719 original size:34 final size:34
Alignment explanation
Indices: 9745680--9745792 Score: 145
Period size: 34 Copynumber: 3.3 Consensus size: 34
9745670 TAATTTATTG
* * * *
9745680 AAAATTTATTTTCAAAAGCTTATTCAATGTACTA
1 AAAATTCATTTTCAAAAACTTTTTCAATGTACCA
* *
9745714 GAAATTCATTTTCAAAAACTTTTTCAATATACCA
1 AAAATTCATTTTCAAAAACTTTTTCAATGTACCA
* *
9745748 AAAATTCATTTTCAAAAACTTTTTCATTGTACCG
1 AAAATTCATTTTCAAAAACTTTTTCAATGTACCA
*
9745782 AAAATGCATTT
1 AAAATTCATTT
9745793 ATGGAAAGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (34 bp):
AAAATTCATTTTCAAAAACTTTTTCAATGTACCA
Found at i:9746923 original size:6 final size:6
Alignment explanation
Indices: 9746914--9746949 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
9746904 CTTCATCTTT
*
9746914 TTTTTC TTTTTC TTTTTC TTCTTC TTTATTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT-TTC TTTTT
9746950 TACCTATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:9746925 original size:21 final size:20
Alignment explanation
Indices: 9746869--9746927 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
9746859 AATAGCACCA
9746869 TTTTTTTCTTTTTTCTTCATT
1 TTTTTTTC-TTTTTCTTCATT
* **
9746890 TCTTTCGCTTCTTTCTTCATCT
1 TTTTTTTCTT-TTTCTTCAT-T
9746912 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTTTCTT
9746928 TTTCTTCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 20 0.67
22 8 0.27
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTTTCTTTTTCTTCATT
Found at i:9746926 original size:34 final size:35
Alignment explanation
Indices: 9746877--9746950 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
9746867 CATTTTTTTC
9746877 TTTTTTCTTCATTTCTTTCGCTTCTTTCTTCA-TCTT
1 TTTTTTCTT-ATTTCTTTCGCTTC-TTCTTCATTCTT
** *
9746913 TTTTTTCTT-TTTCTTTTTCTTCTTCTTTATTCTT
1 TTTTTTCTTATTTCTTTCGCTTCTTCTTCATTCTT
9746947 TTTT
1 TTTT
9746951 ACCTATTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 6 0.18
34 19 0.56
36 9 0.26
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (35 bp):
TTTTTTCTTATTTCTTTCGCTTCTTCTTCATTCTT
Found at i:9746936 original size:24 final size:24
Alignment explanation
Indices: 9746871--9746967 Score: 70
Period size: 24 Copynumber: 3.9 Consensus size: 24
9746861 TAGCACCATT
* *
9746871 TTTTTCTTTTTTCTTCATTTCTTTC
1 TTTTTC-TTTTTCTTCTTTTTTTTC
** *
9746896 -GCTTCTTTCTTCATCTTTTTTTTC
1 TTTTTCTTT-TTCTTCTTTTTTTTC
*
9746920 TTTTTCTTTTTCTTCTTCTTTATTC
1 TTTTTCTTTTTCTTCTT-TTTTTTC
* *
9746945 TTTTTTACCTATTCTTCTTTTTT
1 -TTTTT-CTTTTTCTTCTTTTTT
9746968 CAAGATGACA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
23 3 0.05
24 22 0.40
25 12 0.22
26 8 0.15
27 10 0.18
ACGTcount: A:0.05, C:0.21, G:0.01, T:0.73
Consensus pattern (24 bp):
TTTTTCTTTTTCTTCTTTTTTTTC
Found at i:9747009 original size:11 final size:10
Alignment explanation
Indices: 9746995--9747033 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
9746985 TTTCCCCTTT
*
9746995 TTTTTCTTTTA
1 TTTTT-TTTCA
9747006 TTTTTTTTCA
1 TTTTTTTTCA
9747016 TTTTTTTTCA
1 TTTTTTTTCA
9747026 TTTTTTTT
1 TTTTTTTT
9747034 TCTTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 22 0.81
11 5 0.19
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:9747034 original size:11 final size:11
Alignment explanation
Indices: 9747006--9747045 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
9746996 TTTTCTTTTA
9747006 TTTTTTTTCA-
1 TTTTTTTTCAT
9747016 TTTTTTTTCAT
1 TTTTTTTTCAT
9747027 TTTTTTTTC-T
1 TTTTTTTTCAT
9747037 TTCTTTTTT
1 TT-TTTTTT
9747046 TTTTCACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCAT
Found at i:9747178 original size:23 final size:21
Alignment explanation
Indices: 9747142--9747184 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9747132 TTTTTCTCTT
9747142 TTTTTCTTTCTTCTCTTTTTTA
1 TTTTTCTTTCTTCT-TTTTTTA
*
9747164 TTTTTCTTTTTTTCTTTTTTT
1 TTTTTC-TTTCTTCTTTTTTT
9747185 CTTCATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTTTCTTCTTTTTTTA
Found at i:9747184 original size:22 final size:22
Alignment explanation
Indices: 9747142--9747183 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9747132 TTTTTCTCTT
9747142 TTTTTCTTTCTTCTCTTTTTTA
1 TTTTTCTTTCTTCTCTTTTTTA
*
9747164 TTTTTCTTT-TTTTCTTTTTT
1 TTTTTCTTTCTTCTCTTTTTT
9747184 TCTTCATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTCTTCTCTTTTTTA
Found at i:9747187 original size:8 final size:8
Alignment explanation
Indices: 9747131--9747187 Score: 64
Period size: 8 Copynumber: 7.2 Consensus size: 8
9747121 AACCAACACT
9747131 TTTTTTCTC
1 TTTTTT-TC
9747140 TTTTTTTC
1 TTTTTTTC
*
9747148 -TTTCTTC
1 TTTTTTTC
*
9747155 TCTTTTT-
1 TTTTTTTC
*
9747162 TATTTTTC
1 TTTTTTTC
9747170 TTTTTTTC
1 TTTTTTTC
9747178 TTTTTTTC
1 TTTTTTTC
9747186 TT
1 TT
9747188 CATTCTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
7 12 0.29
8 23 0.56
9 6 0.15
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:9749764 original size:11 final size:11
Alignment explanation
Indices: 9749748--9749805 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
9749738 AGATATATAT
9749748 AATAAAATAAA
1 AATAAAATAAA
*
9749759 AATAAAATAGGA
1 AATAAAATA-AA
9749771 AA-AAAATAAA
1 AATAAAATAAA
9749781 AATAAAATCAAA
1 AATAAAAT-AAA
*
9749793 ACAGAAAATAAA
1 A-ATAAAATAAA
9749805 A
1 A
9749806 TGAAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 3 0.08
11 20 0.50
12 11 0.28
13 6 0.15
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:9754286 original size:24 final size:23
Alignment explanation
Indices: 9754257--9754342 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 23
9754247 TAAAATAATG
*
9754257 TTGTAGATATGTAACCTAACTAAC
1 TTGTAGAAATGTAACCTAA-TAAC
*
9754281 TTGTAGAAATGTAA--TAAT--G
1 TTGTAGAAATGTAACCTAATAAC
*
9754300 TTGTAGATATGTAACCTAATAGAC
1 TTGTAGAAATGTAACCTAATA-AC
*
9754324 TTGTAGAAATGTAATCTAA
1 TTGTAGAAATGTAACCTAA
9754343 CAAAATCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 13 0.25
21 5 0.10
22 3 0.06
24 30 0.59
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (23 bp):
TTGTAGAAATGTAACCTAATAAC
Found at i:9754307 original size:43 final size:43
Alignment explanation
Indices: 9754250--9754338 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
9754240 TTTGATGTAA
9754250 AATAATGTTGTAGATATGTAACCTAACTA-ACTTGTAGAAATGT
1 AATAATGTTGTAGATATGTAACCTAA-TAGACTTGTAGAAATGT
9754293 AATAATGTTGTAGATATGTAACCTAATAGACTTGTAGAAATGT
1 AATAATGTTGTAGATATGTAACCTAATAGACTTGTAGAAATGT
9754336 AAT
1 AAT
9754339 CTAACAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (43 bp):
AATAATGTTGTAGATATGTAACCTAATAGACTTGTAGAAATGT
Found at i:9754731 original size:24 final size:24
Alignment explanation
Indices: 9754704--9754765 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
9754694 TGTACTTGTG
*
9754704 TTTATTTGATACTTA-AATTTTTTA
1 TTTATTTGATA-TTATAAGTTTTTA
* *
9754728 TTTATTTAATATTATAAGTTTTTG
1 TTTATTTGATATTATAAGTTTTTA
9754752 TTATATTTG-TATTA
1 TT-TATTTGATATTA
9754766 ATTTCTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 24 0.75
25 5 0.16
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTATTTGATATTATAAGTTTTTA
Found at i:9756666 original size:146 final size:146
Alignment explanation
Indices: 9756402--9756696 Score: 590
Period size: 146 Copynumber: 2.0 Consensus size: 146
9756392 AGTTCATTTA
9756402 TAAGTTATAATAATTAAGAAAAATAATTAAAAATTTTGATCCCATAAACTCAATTTCATTGGATT
1 TAAGTTATAATAATTAAGAAAAATAATTAAAAATTTTGATCCCATAAACTCAATTTCATTGGATT
9756467 TATCACAAAATCTTAGTGTGGTTTAATCACGATTATACAATCTTGACTGAATCATATTTATTAAT
66 TATCACAAAATCTTAGTGTGGTTTAATCACGATTATACAATCTTGACTGAATCATATTTATTAAT
9756532 AAAAAATATAATTATC
131 AAAAAATATAATTATC
9756548 TAAGTTATAATAATTAAGAAAAATAATTAAAAATTTTGATCCCATAAACTCAATTTCATTGGATT
1 TAAGTTATAATAATTAAGAAAAATAATTAAAAATTTTGATCCCATAAACTCAATTTCATTGGATT
9756613 TATCACAAAATCTTAGTGTGGTTTAATCACGATTATACAATCTTGACTGAATCATATTTATTAAT
66 TATCACAAAATCTTAGTGTGGTTTAATCACGATTATACAATCTTGACTGAATCATATTTATTAAT
9756678 AAAAAATATAATTATC
131 AAAAAATATAATTATC
9756694 TAA
1 TAA
9756697 TGAAAATATC
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 149 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (146 bp):
TAAGTTATAATAATTAAGAAAAATAATTAAAAATTTTGATCCCATAAACTCAATTTCATTGGATT
TATCACAAAATCTTAGTGTGGTTTAATCACGATTATACAATCTTGACTGAATCATATTTATTAAT
AAAAAATATAATTATC
Found at i:9758428 original size:19 final size:19
Alignment explanation
Indices: 9758404--9758441 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9758394 AATGTACAAA
9758404 ACAAAACACATTATATAAG
1 ACAAAACACATTATATAAG
*
9758423 ACAAAATACATTATATAAG
1 ACAAAACACATTATATAAG
9758442 TAAATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (19 bp):
ACAAAACACATTATATAAG
Found at i:9763456 original size:202 final size:201
Alignment explanation
Indices: 9763070--9763460 Score: 547
Period size: 202 Copynumber: 1.9 Consensus size: 201
9763060 AAAACTAAAT
* * *
9763070 TAGAAAATTTGACTTCACATACAGTTTTTGCATGTACAAATGATAACACCAATTCGGAAAGACTA
1 TAGAAAATTTGACTTCACATACAGTCTTTGCATGTACAAATGATAACACCAATACAGAAAGACTA
* **
9763135 ATGAAGAAGATAAATTCCTCCATCCAGATCAGCAATGAATGCATTGTTTTCGAGTTCCTGCAAAA
66 ATGAAGAAGAGAAATTCCTCCATCCAGATCAGCAATGAATGCATTAATTTCGAGTTCCTGCAAAA
* *
9763200 CTAACATCAAATAAAACATATGAGACTGATTTATGAATCATTCATAAATGAAACAGGGGAATGAT
131 CTAACATCAAATAAAACA-ATGAGACTCATTTATGAACCATTCATAAATGAAACAGGGGAATGAT
9763265 GAGAAAA
195 GAGAAAA
* * * * **
9763272 TAGAAAATTTGACTTGACTTACAGTCTTTGCATGTTCAAATGATAATACCTGTACTAGAAAGACT
1 TAGAAAATTTGACTTCACATACAGTCTTTGCATGTACAAATGATAACACCAATAC-AGAAAGACT
* *
9763337 AATGAATG-AGAGAAATTCCTCCATCCAGGTCAGTAATGAATGCA-TAATTTCGCAGTTCCTGCA
65 AATGAA-GAAGAGAAATTCCTCCATCCAGATCAGCAATGAATGCATTAATTTCG-AGTTCCTGCA
*
9763400 AAACTAACATCAAAATAAAAC-ATGAGAC-CATATTATGTACCATTCATAAATGAAACAGGGG
128 AAACTAACATC-AAATAAAACAATGAGACTCAT-TTATGAACCATTCATAAATGAAACAGGGG
9763461 GTCGAAGAGA
Statistics
Matches: 167, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
201 2 0.01
202 87 0.52
203 68 0.41
204 10 0.06
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (201 bp):
TAGAAAATTTGACTTCACATACAGTCTTTGCATGTACAAATGATAACACCAATACAGAAAGACTA
ATGAAGAAGAGAAATTCCTCCATCCAGATCAGCAATGAATGCATTAATTTCGAGTTCCTGCAAAA
CTAACATCAAATAAAACAATGAGACTCATTTATGAACCATTCATAAATGAAACAGGGGAATGATG
AGAAAA
Found at i:9764199 original size:27 final size:27
Alignment explanation
Indices: 9764166--9764237 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
9764156 TCCAGGATGC
9764166 TGATCACCATGGCTTGATACAGGTTGT
1 TGATCACCATGGCTTGATACAGGTTGT
* *
9764193 TGTTCACCATGGCTTAATACAGGTTGT
1 TGATCACCATGGCTTGATACAGGTTGT
*
9764220 TGATCACCATAGCTTGAT
1 TGATCACCATGGCTTGAT
9764238 CTTATACGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (27 bp):
TGATCACCATGGCTTGATACAGGTTGT
Found at i:9776245 original size:29 final size:30
Alignment explanation
Indices: 9776212--9776296 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 30
9776202 CTTTTCTCTT
9776212 AATTATGA-ATAAATATAATATTTTTATTA
1 AATTATGATATAAATATAATATTTTTATTA
* * *
9776241 AATTAAGATATTAA-ATAATAATTTTATTA
1 AATTATGATATAAATATAATATTTTTATTA
*
9776270 ATATAATAT-ATATAAATATAAAATTTT
1 A-AT--TATGATATAAATATAATATTTT
9776297 AAAAATAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 22 0.50
30 6 0.14
31 6 0.14
32 10 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
AATTATGATATAAATATAATATTTTTATTA
Found at i:9776304 original size:29 final size:30
Alignment explanation
Indices: 9776220--9776316 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 30
9776210 TTAATTATGA
* * *
9776220 ATAAATATAATATTTTTATTAAATTAAGATAT
1 ATAAATATAA-AATTTTA-TAAAATAATATAT
* *
9776252 -TAAATA-ATAATTTTATTAATATAATATAT
1 ATAAATATAAAATTTTA-TAAAATAATATAT
9776281 ATAAATATAAAATTTTA-AAAATAAT-T-T
1 ATAAATATAAAATTTTATAAAATAATATAT
9776308 A-AAATATAA
1 ATAAATATAA
9776317 TGTAATATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
26 8 0.14
27 2 0.04
28 1 0.02
29 24 0.43
30 7 0.12
31 14 0.25
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAATATAAAATTTTATAAAATAATATAT
Found at i:9776613 original size:16 final size:17
Alignment explanation
Indices: 9776586--9776617 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9776576 AATATTTATT
9776586 AAATATAAAAAAGAAAA
1 AAATATAAAAAAGAAAA
9776603 AAATA-AAAAAAGAAA
1 AAATATAAAAAAGAAA
9776618 GGAAGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAATATAAAAAAGAAAA
Found at i:9776928 original size:29 final size:30
Alignment explanation
Indices: 9776887--9776980 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 30
9776877 GATTGATGGA
*
9776887 TTTTATCTTAATTATGA-ATAAATATAATAT
1 TTTTAT-TAAATTATGATATAAATATAATAT
* * *
9776917 TTTTATTAAATTAAGATATTAA-ATAATAA
1 TTTTATTAAATTATGATATAAATATAATAT
*
9776946 TTTTATTAATATAATAT-ATATAAATATAAAAT
1 TTTTATTAA-AT--TATGATATAAATATAATAT
9776978 TTT
1 TTT
9776981 AAAAATAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 23 0.45
30 12 0.24
31 6 0.12
32 10 0.20
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTTATTAAATTATGATATAAATATAATAT
Found at i:9776988 original size:29 final size:30
Alignment explanation
Indices: 9776904--9777000 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 30
9776894 TTAATTATGA
* * *
9776904 ATAAATATAATATTTTTATTAAATTAAGATAT
1 ATAAATATAA-AATTTTA-TAAAATAATATAT
* *
9776936 -TAAATA-ATAATTTTATTAATATAATATAT
1 ATAAATATAAAATTTTA-TAAAATAATATAT
9776965 ATAAATATAAAATTTTA-AAAATAAT-T-T
1 ATAAATATAAAATTTTATAAAATAATATAT
9776992 A-AAATATAA
1 ATAAATATAA
9777001 TGTAATATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
26 8 0.14
27 2 0.04
28 1 0.02
29 24 0.43
30 7 0.12
31 14 0.25
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAATATAAAATTTTATAAAATAATATAT
Found at i:9777586 original size:670 final size:671
Alignment explanation
Indices: 9776161--9778208 Score: 3356
Period size: 670 Copynumber: 3.0 Consensus size: 671
9776151 ACAATAGTTA
** * *
9776161 AAATGAATTAAATTTATATAATAAATTTTTTAGATTGATGGCTTTTCTCTTAATTATGAATAAAT
1 AAATGAATTAAATTTATATAATGGATTTTTTAGATTGATGGATTTTATCTTAATTATGAATAAAT
9776226 ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
66 ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
9776291 AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGTCAAGACAAAAGGGAACATCATAAA
131 AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGT----AC---AGGGAACATCATAAA
9776356 CCCTTTCAACTTGACCTTAATTTTTTTGTGAAAAACCTTGATTTGATTCCAAATAAAAAAGAATG
189 CCCTTTCAACTTGACCTTAATTTTTTTGTGAAAAACCTTGATTTGATTCCAAATAAAAAAGAATG
*
9776421 CACCTATCGGATCCCAAAAAATCGAAACT-AAAAAAAAAAATCAAATCTATATGACATGTTAACA
254 CACCTATCGGATCCCAAAAAATTGAAACTAAAAAAAAAAAATCAAATCTATATGACATGTTAACA
* * * *
9776485 ACTCCATTAATTTCTTTTAACAAAATTATTCAATTAAAAAAAGATACAATAAATATCTGTAATAA
319 ACTCCATTAATTTTTTTTAACAAAATTATTCAATTACAAAAAGATACAAAAAATATTTGTAATAA
* *
9776550 ATAATATATCCATAGCAAAAATAAAAAATATTTATTAAATATAAAAAAGAAAAAAATAAAAAAAG
384 ATAATATATCCATAGAAAAAATTAAAAATATTTATTAAATATAAAAAA-AAAAAAAT---AAAAG
9776615 AAAGGAAGTTGAATTGGCACATAACATCACTAATGATTTTTTTTTTTTAAATTATATCATGGATT
445 AAAGGAAGTTGAATTGGCACATAACATCACTAATGA-TTTTTTTTTTTAAATTATATCATGGATT
** * * **
9776680 TAAAATTTTTCTTTTTTAAAAGGACAAAACCAAATTCAGAATGATGTTGACACCTCTGTTTGTAT
509 TAAAATTTTT-TTTTAAAAAAGGAAAAAACCAAATTCAGAGTGATGTTGACACCTCT-TTAATAT
*
9776745 CAAAATTATCAAATTAAAAATAACTAAAAAATATATTTGTAACAATAATATCAAAAGGTCTAACA
572 CAAAATTATCAAATTAAAAATAACTAAAAAATATATTTGTAATAATAATATCAAAAGGTCTAACA
*
9776810 TTAAAAAAAATTCAAAACATTTCCAAATATTTATT
637 TTAAAAAAAATTCAAAACATTTCAAAATATTTATT
9776845 AAATGAATTAAATTTATATAATGGATTTTTTAGATTGATGGATTTTATCTTAATTATGAATAAAT
1 AAATGAATTAAATTTATATAATGGATTTTTTAGATTGATGGATTTTATCTTAATTATGAATAAAT
9776910 ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
66 ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
*
9776975 AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGT-C-GGGAACATTATAAACCCTTTC
131 AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGTACAGGGAACATCATAAACCCTTTC
9777038 AACTTGACCTTAATTTTTTTTGTGAAAAACCTTGATTTGATTCCAAATAAAAAAGAATGCACCTA
196 AACTTGACCTTAA-TTTTTTTGTGAAAAACCTTGATTTGATTCCAAATAAAAAAGAATGCACCTA
*
9777103 TC-GTTCCCAAAAAATTGAAACTAAAAAAAAAAAATCAAATCTATATGACATGTTAACAACTCCA
260 TCGGATCCCAAAAAATTGAAACTAAAAAAAAAAAATCAAATCTATATGACATGTTAACAACTCCA
9777167 TTAATTTTTTTTAACAAAATTATTCAATTACAAAAAGATACAAAAAATATTTGTAATAAATAATA
325 TTAATTTTTTTTAACAAAATTATTCAATTACAAAAAGATACAAAAAATATTTGTAATAAATAATA
*
9777232 TATCCATAGAAAAAATTTAAAAATATTTATTAAATATAAAAATAAAAAAATAAAA-AAAGGAAGT
390 TATCCATAGAAAAAA-TTAAAAATATTTATTAAATATAAAAAAAAAAAAATAAAAGAAAGGAAGT
* *
9777296 TGAATCGGCACATAACATCACCAATGA-TTTTTTTTTTAAATTATATCATGGATTTAAAATTTTT
454 TGAATTGGCACATAACATCACTAATGATTTTTTTTTTTAAATTATATCATGGATTTAAAATTTTT
*
9777360 TTTTAAAAAAGGAAAAAACCAAATTCAGAGTGATGTTGACACCTCTATTAATATCAAAATTTTCA
519 TTTTAAAAAAGGAAAAAACCAAATTCAGAGTGATGTTGACACCTCT-TTAATATCAAAATTATCA
9777425 AATTAAAAATAACTAAAAAAATATATTTGTAATAATAATATCAAAAGGTCTAACATTAAAAAAAA
583 AATTAAAAATAACT-AAAAAATATATTTGTAATAATAATATCAAAAGGTCTAACATTAAAAAAAA
*
9777490 TTCAAAATATTTCAAAATATTTATT
647 TTCAAAACATTTCAAAATATTTATT
*
9777515 AAATGAATTAAATATATATAATGGATTTTTTAGATTGATGGATTTTATCTTAATTATGAATAAAT
1 AAATGAATTAAATTTATATAATGGATTTTTTAGATTGATGGATTTTATCTTAATTATGAATAAAT
9777580 ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
66 ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
9777645 AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGTCAAGACAAAAGGGAACATCATAAA
131 AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGT----AC---AGGGAACATCATAAA
*
9777710 CCCTTTCAACTTGACCTTAATTTTTTTGTGAAAAACCTTGATTCGATTCCAAATAAAAAAGAATG
189 CCCTTTCAACTTGACCTTAATTTTTTTGTGAAAAACCTTGATTTGATTCCAAATAAAAAAGAATG
*
9777775 C-CCTTATCGGATCCCAAAAAAATTGAAACTAAAAAAAAAAAAAATCAAATCTATAGGACATGTT
254 CACC-TATCGGATCCC-AAAAAATTGAAACT--AAAAAAAAAAAATCAAATCTATATGACATGTT
9777839 AACAACTCCATTAATTTTTTTTAACAAAATTATTCAATTACAAAAAGATAC-AAAAATATTTGTA
315 AACAACTCCATTAATTTTTTTTAACAAAATTATTCAATTACAAAAAGATACAAAAAATATTTGTA
*
9777903 ATAAATAATATATCCATAGCAAAAAATTAAAAATATTTATTAAATATAAAAAGGAAAAAATAAAA
380 ATAAATAATATATCCATAG-AAAAAATTAAAAATATTTATTAAATATAAAAA--AAAAAA-AATA
9777968 AAAGAAAGGAAGTTGAATTGGCACATAACATCACTAATGATTTTTTTTTTTAAAAAAAATTATAT
441 AAAGAAAGGAAGTTGAATTGGCACATAACATCACTAATGATTTTTTTTTTT-----AAATTATAT
* * *
9778033 CATGGATTTAAAAAGTTTTTTTAAAAAAAGGAAAAAACCAAATTCAGAGTGATGTCGACACCTCT
501 CATGGATTT-AAAATTTTTTTTTAAAAAAGGAAAAAACCAAATTCAGAGTGATGTTGACACCTCT
* * *
9778098 TTAATATCAAAATTATGAAATTAAAAATAACTAAAAAATATATTTGTACTAATAATATCCAAAGG
565 TTAATATCAAAATTATCAAATTAAAAATAACTAAAAAATATATTTGTAATAATAATATCAAAAGG
*
9778163 TCTAACATTAAAAAAGATTCAAAACATTTCAAAATATTTATT
630 TCTAACATTAAAAAAAATTCAAAACATTTCAAAATATTTATT
9778205 AAAT
1 AAAT
9778209 AAAAAGGAAA
Statistics
Matches: 1289, Mismatches: 45, Indels: 54
0.93 0.03 0.04
Matches are distributed among these distances:
669 71 0.06
670 279 0.22
672 34 0.03
673 4 0.00
675 52 0.04
676 177 0.14
677 27 0.02
678 49 0.04
679 39 0.03
680 14 0.01
681 58 0.04
682 88 0.07
683 5 0.00
684 173 0.13
685 34 0.03
686 10 0.01
690 75 0.06
691 48 0.04
692 52 0.04
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (671 bp):
AAATGAATTAAATTTATATAATGGATTTTTTAGATTGATGGATTTTATCTTAATTATGAATAAAT
ATAATATTTTTATTAAATTAAGATATTAAATAATAATTTTATTAATATAATATATATAAATATAA
AATTTTAAAAATAATTTAAAATATAATGTAATATCTATAGTACAGGGAACATCATAAACCCTTTC
AACTTGACCTTAATTTTTTTGTGAAAAACCTTGATTTGATTCCAAATAAAAAAGAATGCACCTAT
CGGATCCCAAAAAATTGAAACTAAAAAAAAAAAATCAAATCTATATGACATGTTAACAACTCCAT
TAATTTTTTTTAACAAAATTATTCAATTACAAAAAGATACAAAAAATATTTGTAATAAATAATAT
ATCCATAGAAAAAATTAAAAATATTTATTAAATATAAAAAAAAAAAAATAAAAGAAAGGAAGTTG
AATTGGCACATAACATCACTAATGATTTTTTTTTTTAAATTATATCATGGATTTAAAATTTTTTT
TTAAAAAAGGAAAAAACCAAATTCAGAGTGATGTTGACACCTCTTTAATATCAAAATTATCAAAT
TAAAAATAACTAAAAAATATATTTGTAATAATAATATCAAAAGGTCTAACATTAAAAAAAATTCA
AAACATTTCAAAATATTTATT
Found at i:9777598 original size:29 final size:30
Alignment explanation
Indices: 9777557--9777650 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 30
9777547 GATTGATGGA
*
9777557 TTTTATCTTAATTATGA-ATAAATATAATAT
1 TTTTAT-TAAATTATGATATAAATATAATAT
* * *
9777587 TTTTATTAAATTAAGATATTAA-ATAATAA
1 TTTTATTAAATTATGATATAAATATAATAT
*
9777616 TTTTATTAATATAATAT-ATATAAATATAAAAT
1 TTTTATTAA-AT--TATGATATAAATATAATAT
9777648 TTT
1 TTT
9777651 AAAAATAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 23 0.45
30 12 0.24
31 6 0.12
32 10 0.20
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTTATTAAATTATGATATAAATATAATAT
Found at i:9777658 original size:29 final size:30
Alignment explanation
Indices: 9777574--9777670 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 30
9777564 TTAATTATGA
* * *
9777574 ATAAATATAATATTTTTATTAAATTAAGATAT
1 ATAAATATAA-AATTTTA-TAAAATAATATAT
* *
9777606 -TAAATA-ATAATTTTATTAATATAATATAT
1 ATAAATATAAAATTTTA-TAAAATAATATAT
9777635 ATAAATATAAAATTTTA-AAAATAAT-T-T
1 ATAAATATAAAATTTTATAAAATAATATAT
9777662 A-AAATATAA
1 ATAAATATAA
9777671 TGTAATATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
26 8 0.14
27 2 0.04
28 1 0.02
29 24 0.43
30 7 0.12
31 14 0.25
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAATATAAAATTTTATAAAATAATATAT
Found at i:9778373 original size:16 final size:17
Alignment explanation
Indices: 9778352--9778388 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9778342 TTAAATATAT
9778352 AAAAAT-GAAAAAAATA
1 AAAAATGGAAAAAAATA
*
9778368 AAAAATGGGAAAAAATA
1 AAAAATGGAAAAAAATA
9778385 AAAA
1 AAAA
9778389 TTTAAAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAATGGAAAAAAATA
Found at i:9778389 original size:16 final size:15
Alignment explanation
Indices: 9778350--9778389 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
9778340 TATTAAATAT
9778350 ATAAAAATGAAAAAA
1 ATAAAAATGAAAAAA
*
9778365 ATAAAAAATGGGAAAAA
1 AT-AAAAAT-GAAAAAA
9778382 ATAAAAAT
1 ATAAAAAT
9778390 TTAAAAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 8 0.36
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (15 bp):
ATAAAAATGAAAAAA
Found at i:9778396 original size:16 final size:16
Alignment explanation
Indices: 9778350--9778396 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9778340 TATTAAATAT
9778350 ATAAAAA-TGAAAAAA
1 ATAAAAATTGAAAAAA
* *
9778365 ATAAAAAATGGGAAAAA
1 AT-AAAAATTGAAAAAA
*
9778382 ATAAAAATTTAAAAA
1 ATAAAAATTGAAAAA
9778397 GCACGCAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (16 bp):
ATAAAAATTGAAAAAA
Found at i:9791052 original size:25 final size:24
Alignment explanation
Indices: 9791024--9791076 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
9791014 AAATTTTTAT
* *
9791024 AATAAAATATATTAAAGAGTAAAAA
1 AATAAAA-ATATTAAAAAATAAAAA
9791049 AAT-AAAATATTAAAAAATAAAAA
1 AATAAAAATATTAAAAAATAAAAA
9791072 AATAA
1 AATAA
9791077 CTTGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 18 0.72
24 4 0.16
25 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (24 bp):
AATAAAAATATTAAAAAATAAAAA
Found at i:9796164 original size:2 final size:2
Alignment explanation
Indices: 9796157--9796185 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9796147 GAAAACCCCA
9796157 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 A
9796186 AAGAGTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9796354 original size:119 final size:119
Alignment explanation
Indices: 9796173--9796411 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
9796163 ATATATATAT
9796173 ATATATATATATAAAGAGTGAGAATTTATTATTAACTGAATAAAATAAACTTCAAAAGTGATTAA
1 ATATATATATATAAAGAGTGAGAATTTATTATTAACTGAATAAAATAAACTTCAAAAGTGATTAA
9796238 GGAAGAAAAACTTTCTTGAGCTGAATATCATTGGGTATATCAATGAAAACCCCA
66 GGAAGAAAAACTTTCTTGAGCTGAATATCATTGGGTATATCAATGAAAACCCCA
9796292 ATATATATATATAAAGAGTGAGAATTTATTATTAACTGAATAAAATAAACTTCAAAAGTGATTAA
1 ATATATATATATAAAGAGTGAGAATTTATTATTAACTGAATAAAATAAACTTCAAAAGTGATTAA
9796357 GGAAGAAAAACTTTCTTGAGCTGAATATCATTGGGTATATCAATGAAAACCCCA
66 GGAAGAAAAACTTTCTTGAGCTGAATATCATTGGGTATATCAATGAAAACCCCA
9796411 A
1 A
9796412 CATCACAAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (119 bp):
ATATATATATATAAAGAGTGAGAATTTATTATTAACTGAATAAAATAAACTTCAAAAGTGATTAA
GGAAGAAAAACTTTCTTGAGCTGAATATCATTGGGTATATCAATGAAAACCCCA
Found at i:9797979 original size:22 final size:22
Alignment explanation
Indices: 9797935--9797979 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9797925 GGATTAAAAA
*
9797935 TGATTATTTGTAAGCCACTAGG
1 TGATTATTTGTAAGCCACAAGG
* *
9797957 TGATTATTTGTAGGCTACAAGG
1 TGATTATTTGTAAGCCACAAGG
9797979 T
1 T
9797980 CTATCACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (22 bp):
TGATTATTTGTAAGCCACAAGG
Found at i:9800582 original size:15 final size:15
Alignment explanation
Indices: 9800562--9800616 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
9800552 AGGGTTTCAA
9800562 GATTTTAAGGTTTTG
1 GATTTTAAGGTTTTG
* *
9800577 GATTTT-TGGGTTTG
1 GATTTTAAGGTTTTG
9800591 AGA-TTTAAGGTTTTAG
1 -GATTTTAAGGTTTT-G
*
9800607 GGTTTTAAGG
1 GATTTTAAGG
9800617 GTTTAGGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
14 9 0.29
15 14 0.45
16 8 0.26
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (15 bp):
GATTTTAAGGTTTTG
Found at i:9800610 original size:8 final size:8
Alignment explanation
Indices: 9800594--9800644 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
9800584 GGGTTTGAGA
*
9800594 TTTAAGGT
1 TTTAGGGT
9800602 TTTAGGGT
1 TTTAGGGT
9800610 TTTAAGGG-
1 TTT-AGGGT
9800618 TTTAGGGT
1 TTTAGGGT
*
9800626 TTT-GAGT
1 TTTAGGGT
*
9800633 TTTGGGGT
1 TTTAGGGT
9800641 TTTA
1 TTTA
9800645 AAGGTTTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 10 0.28
8 22 0.61
9 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (8 bp):
TTTAGGGT
Found at i:9800615 original size:16 final size:16
Alignment explanation
Indices: 9800594--9800651 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
9800584 GGGTTTGAGA
9800594 TTTAAGGTTTTAGGGT
1 TTTAAGGTTTTAGGGT
*
9800610 TTTAAGGGTTTAGGGT
1 TTTAAGGTTTTAGGGT
* *
9800626 TTTGA-GTTTTGGGGT
1 TTTAAGGTTTTAGGGT
9800641 TTTAAAGGTTT
1 TTT-AAGGTTT
9800652 GAAAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 11 0.31
16 20 0.57
17 4 0.11
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (16 bp):
TTTAAGGTTTTAGGGT
Found at i:9803094 original size:32 final size:33
Alignment explanation
Indices: 9803036--9803209 Score: 115
Period size: 32 Copynumber: 5.3 Consensus size: 33
9803026 TTGGGCTTAT
* * *
9803036 GTGCCAGCTAAACTAGTCTTATAACTTTATT-G
1 GTGCCAGATAAACTAGGCTTAAAACTTTATTAG
** * * *
9803068 GTATCAGATAAACTGGGCTTAAAACTTCATTGG
1 GTGCCAGATAAACTAGGCTTAAAACTTTATTAG
* * * *
9803101 GTGCCAGTTAAATTAGGTTTAAAATTTTATTAG
1 GTGCCAGATAAACTAGGCTTAAAACTTTATTAG
* *
9803134 G-GCCAGATAAACTGGGCTT-AAAGTTTCATT-G
1 GTGCCAGATAAACTAGGCTTAAAACTTT-ATTAG
* * * *
9803165 ATGCTAAATAAACTAGGCTTGAAATCTTT-TTATG
1 GTGCCAGATAAACTAGGCTT-AAAACTTTATTA-G
*
9803199 GTGTCAGATAA
1 GTGCCAGATAA
9803210 TCTGGGATTA
Statistics
Matches: 104, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
31 7 0.07
32 58 0.56
33 26 0.25
34 13 0.12
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (33 bp):
GTGCCAGATAAACTAGGCTTAAAACTTTATTAG
Found at i:9803463 original size:116 final size:116
Alignment explanation
Indices: 9803295--9803523 Score: 314
Period size: 116 Copynumber: 2.0 Consensus size: 116
9803285 CATTCGGGCC
* * * * * *
9803295 AGATTAATTGGCCTTAAAATTAGATACCAGGTACGTTTGGCTTAAGATTAGGTGCCAATTAAGTT
1 AGATTAACTGGCCTTAAAATTAGATACCAGCTAAGTTTGGCTTAAAAATAGGTGCCAATTAAGCT
* *
9803360 AAGCTTGAAATTTCATTGGGGCCAGATAAATTAGGCTTTAATTTCCTTAAT
66 AAGCTTGAAATTTCAATGGGGCCAGATAAATTAGGCTTAAATTTCCTTAAT
* * ** *
9803411 AGATTAACTGGGCTTAAAATTGGATGTCAGCTAAGTTTGGCTTAAAAATAGGTGTCAATTAAGCT
1 AGATTAACTGGCCTTAAAATTAGATACCAGCTAAGTTTGGCTTAAAAATAGGTGCCAATTAAGCT
* * *
9803476 GAGCTTGAAATTTTAATGGGGCTAGATAAATTAGGCTTAAATTTCCTT
66 AAGCTTGAAATTTCAATGGGGCCAGATAAATTAGGCTTAAATTTCCTT
9803524 GATACAACTA
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (116 bp):
AGATTAACTGGCCTTAAAATTAGATACCAGCTAAGTTTGGCTTAAAAATAGGTGCCAATTAAGCT
AAGCTTGAAATTTCAATGGGGCCAGATAAATTAGGCTTAAATTTCCTTAAT
Found at i:9804151 original size:22 final size:22
Alignment explanation
Indices: 9804126--9804207 Score: 92
Period size: 22 Copynumber: 3.7 Consensus size: 22
9804116 CTTTTGTTCT
*
9804126 AACTAAACTGGGCTTATGTGCC
1 AACTAAACTGAGCTTATGTGCC
** *
9804148 AACTAATTTGAGCTTACGTGCC
1 AACTAAACTGAGCTTATGTGCC
*
9804170 AACTAAACTAAGCTTATGTGCC
1 AACTAAACTGAGCTTATGTGCC
* * *
9804192 AGCTAAATTGGGCTTA
1 AACTAAACTGAGCTTA
9804208 AGACTCTATT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (22 bp):
AACTAAACTGAGCTTATGTGCC
Found at i:9804154 original size:44 final size:44
Alignment explanation
Indices: 9804095--9804197 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
9804085 TAATTCTAGT
* ** * * **
9804095 TTATATGCCAGCTAATCTAAGCTTTTGTTCTAACTAAACTGGGC
1 TTATGTGCCAGCTAATCTAAGCTTACGTGCCAACTAAACTAAGC
* * *
9804139 TTATGTGCCAACTAATTTGAGCTTACGTGCCAACTAAACTAAGC
1 TTATGTGCCAGCTAATCTAAGCTTACGTGCCAACTAAACTAAGC
9804183 TTATGTGCCAGCTAA
1 TTATGTGCCAGCTAA
9804198 ATTGGGCTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TTATGTGCCAGCTAATCTAAGCTTACGTGCCAACTAAACTAAGC
Found at i:9804457 original size:31 final size:32
Alignment explanation
Indices: 9804411--9804473 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
9804401 TTGAGCTTGC
* **
9804411 ATGCCAGCTAGACTAGGTTTAAAT-TTCATTG
1 ATGCCAGCTAAACTAGACTTAAATATTCATTG
*
9804442 ATGCCAGTTAAACTAGACTTAAATATTCATTG
1 ATGCCAGCTAAACTAGACTTAAATATTCATTG
9804474 GTACCAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
ATGCCAGCTAAACTAGACTTAAATATTCATTG
Found at i:9804518 original size:85 final size:85
Alignment explanation
Indices: 9804402--9804558 Score: 219
Period size: 85 Copynumber: 1.8 Consensus size: 85
9804392 CCAAAAGATT
* * * *
9804402 TGAGCTTGCATGCCAGCTAGACTAGGTTTAAATTTCATTGATGCCAGTTAAACTAGACTTAAATA
1 TGAGCTGGCATGCCAGCTAGACTAGGCTTAAATTTCATTGATACCAGTGAAACTAGACTTAAA-A
9804467 -TTCATTGGTACCAGATAATC
65 CTTCATTGGTACCAGATAATC
* * *
9804487 TGAGCTGGCATGCCAGTTATACT-GAGCTTAAATTTCATTGATACCAGTGAAACTAGGCTTAAAA
1 TGAGCTGGCATGCCAGCTAGACTAG-GCTTAAATTTCATTGATACCAGTGAAACTAGACTTAAAA
9804551 CTTCATTG
65 CTTCATTG
9804559 ATGCTAGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 2 0.03
85 61 0.97
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (85 bp):
TGAGCTGGCATGCCAGCTAGACTAGGCTTAAATTTCATTGATACCAGTGAAACTAGACTTAAAAC
TTCATTGGTACCAGATAATC
Found at i:9804630 original size:31 final size:31
Alignment explanation
Indices: 9804588--9804647 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9804578 TAAAACTTAT
* *
9804588 GTGCCAGCTACATTGGACTTATATTTCATAG
1 GTGCCAACTACATTGGACTTAAATTTCATAG
*
9804619 GTGCCAACTACATTGGGCTTAAATTTCAT
1 GTGCCAACTACATTGGACTTAAATTTCAT
9804648 TAATGCTAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (31 bp):
GTGCCAACTACATTGGACTTAAATTTCATAG
Found at i:9804868 original size:92 final size:92
Alignment explanation
Indices: 9804704--9804878 Score: 215
Period size: 92 Copynumber: 1.9 Consensus size: 92
9804694 TTAGGCTTGC
** * * * * * *
9804704 ATGCTAGCTACACTAGGCTTAAATTTCATTGATGCCAACTAAACTAGGCTTAAAACTTTATTGGT
1 ATGCTAGCTACACTAGGCTTAAATTTCACAGATGCCAAATAAACTAAGCTTAAAACCTGATTAGC
9804769 GCCAGATAATATGGGCTTAAAACCTGG
66 GCCAGATAATATGGGCTTAAAACCTGG
* * * * *
9804796 ATGCTAGTTACACTGGGCTTAAATTTTACAGGTGCCAAATAATCTAAGCTTAAAACCTGATTAGC
1 ATGCTAGCTACACTAGGCTTAAATTTCACAGATGCCAAATAAACTAAGCTTAAAACCTGATTAGC
* *
9804861 GCTAGATAATTTGGGCTT
66 GCCAGATAATATGGGCTT
9804879 GGGTGGCAGT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
92 68 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (92 bp):
ATGCTAGCTACACTAGGCTTAAATTTCACAGATGCCAAATAAACTAAGCTTAAAACCTGATTAGC
GCCAGATAATATGGGCTTAAAACCTGG
Found at i:9804921 original size:53 final size:53
Alignment explanation
Indices: 9804861--9804968 Score: 130
Period size: 53 Copynumber: 2.0 Consensus size: 53
9804851 CCTGATTAGC
* * * * *
9804861 GCTAGATAATTTGGGCTTGGGTGGC-AGTTACATT-GAGCTTAAATCTCATTTAT
1 GCTAGATAATCTAGGCTTGCGT-GCTAGCTACATTAG-GCTTAAATCTCATTGAT
*
9804914 GCTAGATAATCTAGGCTTGCGTGCTAGCTACATTAGGCTTAAATCTTATTGAT
1 GCTAGATAATCTAGGCTTGCGTGCTAGCTACATTAGGCTTAAATCTCATTGAT
9804967 GC
1 GC
9804969 CAGCTAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.04
53 44 0.94
54 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (53 bp):
GCTAGATAATCTAGGCTTGCGTGCTAGCTACATTAGGCTTAAATCTCATTGAT
Found at i:9805581 original size:20 final size:19
Alignment explanation
Indices: 9805538--9805584 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9805528 TTTTCTATTT
9805538 ATTTTTTT-CTTGTTTTCA
1 ATTTTTTTACTTGTTTTCA
* *
9805556 GTTTTTTTACTTTTTTTCA
1 ATTTTTTTACTTGTTTTCA
9805575 ATCTTTTTTA
1 AT-TTTTTTA
9805585 TTATTATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTTTACTTGTTTTCA
Found at i:9805962 original size:16 final size:15
Alignment explanation
Indices: 9805925--9805975 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
9805915 CCCATTAATT
9805925 TTTTTCCTTCTTTTA
1 TTTTTCCTTCTTTTA
*
9805940 TTCTTTCTTTCTTTTCA
1 TT-TTTCCTTCTTTT-A
*
9805957 TTTTTCC--CTTTTT
1 TTTTTCCTTCTTTTA
9805970 TTTTTC
1 TTTTTC
9805976 ACTGAATGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
15 2 0.06
16 15 0.48
17 3 0.10
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTCCTTCTTTTA
Found at i:9807287 original size:20 final size:21
Alignment explanation
Indices: 9807251--9807294 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
9807241 GACTTAAAAC
*
9807251 TTTCTTTTTTTCTTTTTCT-T
1 TTTCTTTGTTTCTTTTTCTCT
9807271 TTTCTTTGTTTCTTTTTCTCT
1 TTTCTTTGTTTCTTTTTCTCT
9807292 TTT
1 TTT
9807295 GCCATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTCTTTGTTTCTTTTTCTCT
Found at i:9810565 original size:11 final size:11
Alignment explanation
Indices: 9810551--9810585 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
9810541 ACGATAACTC
9810551 TTTTTTTTTCT
1 TTTTTTTTTCT
9810562 TTTTTTTTTCCT
1 TTTTTTTTT-CT
*
9810574 TTTTTGTTTCT
1 TTTTTTTTTCT
9810585 T
1 T
9810586 ATTGATGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:9810568 original size:12 final size:12
Alignment explanation
Indices: 9810551--9810583 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9810541 ACGATAACTC
9810551 TTTTTTTTT-CT
1 TTTTTTTTTCCT
9810562 TTTTTTTTTCCT
1 TTTTTTTTTCCT
*
9810574 TTTTTGTTTC
1 TTTTTTTTTC
9810584 TTATTGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCCT
Found at i:9812447 original size:15 final size:14
Alignment explanation
Indices: 9812426--9812466 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
9812416 AAGGTTTCAA
9812426 GATTTTAGGGTTTT
1 GATTTTAGGGTTTT
9812440 GAATTTTAGGG-TTT
1 G-ATTTTAGGGTTTT
*
9812454 GGTTTTAGGGTTT
1 GATTTTAGGGTTT
9812467 AGGATTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.33
14 7 0.29
15 9 0.38
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (14 bp):
GATTTTAGGGTTTT
Found at i:9812479 original size:14 final size:13
Alignment explanation
Indices: 9812429--9812480 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
9812419 GTTTCAAGAT
*
9812429 TTTAGGGTTTTGAA
1 TTTAGGG-TTTGGA
*
9812443 TTTTAGGGTTTGGT
1 -TTTAGGGTTTGGA
9812457 TTTAGGGTTTAGGA
1 TTTAGGGTTT-GGA
*
9812471 TTTAAGGTTT
1 TTTAGGGTTT
9812481 TAAGGTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 10 0.31
14 15 0.47
15 7 0.22
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTGGA
Found at i:9812482 original size:8 final size:8
Alignment explanation
Indices: 9812413--9812667 Score: 82
Period size: 8 Copynumber: 33.6 Consensus size: 8
9812403 AGGGTTTTAG
9812413 TTTAAGGT
1 TTTAAGGT
* *
9812421 TTCAAGAT
1 TTTAAGGT
*
9812429 TTTAGGGT
1 TTTAAGGT
9812437 TTTGAA--T
1 TTT-AAGGT
*
9812444 TTT-AGGG
1 TTTAAGGT
9812451 TTT--GGT
1 TTTAAGGT
*
9812457 TTT-AGGG
1 TTTAAGGT
*
9812464 TTT-AGGA
1 TTTAAGGT
9812471 TTTAAGGT
1 TTTAAGGT
9812479 TTTAAGGT
1 TTTAAGGT
*
9812487 TTGGAA--T
1 TT-TAAGGT
*
9812494 TTTAGGGT
1 TTTAAGGT
9812502 TTTAAGGT
1 TTTAAGGT
* *
9812510 TTGAAGGA
1 TTTAAGGT
*
9812518 TTTACGGT
1 TTTAAGGT
** *
9812526 TTGGAGAT
1 TTTAAGGT
9812534 TTT-AGGAT
1 TTTAAGG-T
*
9812542 TTTAAGGG
1 TTTAAGGT
*
9812550 TTT-AGGG
1 TTTAAGGT
*
9812557 TTTAGGGT
1 TTTAAGGT
*
9812565 TTTGA-GT
1 TTTAAGGT
9812572 TTTAAGGT
1 TTTAAGGT
*
9812580 TTTAAAAGT
1 TTT-AAGGT
* **
9812589 TTAAAAAT
1 TTTAAGGT
*
9812597 TTT-AGGG
1 TTTAAGGT
9812604 TTTAGAGG-
1 TTTA-AGGT
9812612 TTT-AGAGT
1 TTTAAG-GT
9812620 TTTAA--T
1 TTTAAGGT
9812626 TTTAAGG-
1 TTTAAGGT
*
9812633 TTTAAGAT
1 TTTAAGGT
*
9812641 TTCAAGGT
1 TTTAAGGT
9812649 TTT--GGT
1 TTTAAGGT
*
9812655 TTTAGGGT
1 TTTAAGGT
9812663 TTTAA
1 TTTAA
9812668 AATTTAGGGT
Statistics
Matches: 180, Mismatches: 44, Indels: 46
0.67 0.16 0.17
Matches are distributed among these distances:
5 1 0.01
6 20 0.11
7 47 0.26
8 96 0.53
9 16 0.09
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.47
Consensus pattern (8 bp):
TTTAAGGT
Found at i:9812560 original size:23 final size:22
Alignment explanation
Indices: 9812457--9812567 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 22
9812447 AGGGTTTGGT
* *
9812457 TTTAGGGTTTAGGATTTAAGGT
1 TTTAGGGTTTAGGATTTTAGGG
*
9812479 TTTAAGGTTT-GGAATTTTAGGG
1 TTTAGGGTTTAGG-ATTTTAGGG
* *
9812501 TTTTAAGGTTTGAAGGA-TTTACGG
1 -TTTAGGGTTT--AGGATTTTAGGG
9812525 TTT-GGAGATTTTAGGATTTTAAGGG
1 TTTAGG-G--TTTAGGATTTT-AGGG
*
9812550 TTTAGGGTTTAGGGTTTT
1 TTTAGGGTTTAGGATTTT
9812568 GAGTTTTAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.03
22 17 0.24
23 28 0.39
24 9 0.13
25 11 0.15
26 4 0.06
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.46
Consensus pattern (22 bp):
TTTAGGGTTTAGGATTTTAGGG
Found at i:9812566 original size:39 final size:38
Alignment explanation
Indices: 9812456--9812584 Score: 122
Period size: 39 Copynumber: 3.3 Consensus size: 38
9812446 TAGGGTTTGG
* *
9812456 TTTTAGGGTTT-AGGATTTAAGGTTTTAAGGTTTGGA-A
1 TTTTAGGTTTTAAGG-TTTAAGGATTTAAGGTTTGGAGA
*
9812493 TTTTAGGGTTTTAAGGTTTGAAGGATTTACGGTTTGGAGA
1 TTTTA-GGTTTTAAGGTTT-AAGGATTTAAGGTTTGGAGA
* * *
9812533 TTTTAGGATTTTAAGGGTTT-AGGGTTTAGGGTTTTGAG-
1 TTTTAGG-TTTTAA-GGTTTAAGGATTTAAGGTTTGGAGA
9812571 TTTTAAGGTTTTAA
1 TTTT-AGGTTTTAA
9812585 AAGTTTAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
37 5 0.06
38 18 0.23
39 39 0.49
40 12 0.15
41 5 0.06
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (38 bp):
TTTTAGGTTTTAAGGTTTAAGGATTTAAGGTTTGGAGA
Found at i:9812710 original size:22 final size:22
Alignment explanation
Indices: 9812668--9812710 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9812658 AGGGTTTTAA
* **
9812668 AATTTAGGGTTTCGATTTTTTG
1 AATTTAGGGTTTCAAGGTTTTG
9812690 AATTTAGGGTTTCAAGGTTTT
1 AATTTAGGGTTTCAAGGTTTT
9812711 TAGGTTTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (22 bp):
AATTTAGGGTTTCAAGGTTTTG
Found at i:9812738 original size:22 final size:23
Alignment explanation
Indices: 9812708--9812762 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
9812698 GTTTCAAGGT
*
9812708 TTTTA-GGTTTTGAAA-TTTGGA
1 TTTTAGGGTTTTGAAACTTAGGA
*
9812729 TTTTAGGGTTTTGAAACTTAGGG
1 TTTTAGGGTTTTGAAACTTAGGA
*
9812752 TTTAAGGGTTT
1 TTTTAGGGTTT
9812763 AGGGTTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.17
22 10 0.34
23 14 0.48
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (23 bp):
TTTTAGGGTTTTGAAACTTAGGA
Found at i:9813236 original size:22 final size:23
Alignment explanation
Indices: 9813205--9813247 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9813195 TTATTACTCA
*
9813205 TTATTTATTTTTATTT-ATTTAT
1 TTATTCATTTTTATTTCATTTAT
*
9813227 TTATTCATTTTTCTTTCATTT
1 TTATTCATTTTTATTTCATTT
9813248 TTATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (23 bp):
TTATTCATTTTTATTTCATTTAT
Found at i:9814813 original size:21 final size:21
Alignment explanation
Indices: 9814784--9814824 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9814774 TTGAGTTTGG
9814784 TTTAAGATTTA-GGATTTAGTA
1 TTTAAGATTTATGG-TTTAGTA
*
9814805 TTTATGATTTATGGTTTAGT
1 TTTAAGATTTATGGTTTAGT
9814825 TTAAAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTAAGATTTATGGTTTAGTA
Found at i:9814906 original size:7 final size:7
Alignment explanation
Indices: 9814888--9814941 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
9814878 TTAGGGATTT
9814888 GGTTTAAG
1 GGTTT-AG
9814896 GGTTTAG
1 GGTTTAG
*
9814903 GGTTTAT
1 GGTTTAG
9814910 GGTTT--
1 GGTTTAG
9814915 GGTTTAAG
1 GGTTT-AG
*
9814923 AGTTTAG
1 GGTTTAG
9814930 GGTTTAG
1 GGTTTAG
9814937 GGTTT
1 GGTTT
9814942 GGTTTTGGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
5 5 0.12
7 26 0.65
8 9 0.22
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:9814917 original size:27 final size:27
Alignment explanation
Indices: 9814877--9814946 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
9814867 TAAGGTTTGA
*
9814877 TTTAGGGATTTGGTTTAAGGGTTTAGGG
1 TTTAGGG-TTTGGTTTAAGAGTTTAGGG
*
9814905 TTTATGGTTTGGTTTAAGAGTTTAGGG
1 TTTAGGGTTTGGTTTAAGAGTTTAGGG
9814932 TTTAGGGTTTGGTTT
1 TTTAGGGTTTGGTTT
9814947 TGGAGTTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 33 0.85
28 6 0.15
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.49
Consensus pattern (27 bp):
TTTAGGGTTTGGTTTAAGAGTTTAGGG
Found at i:9814952 original size:27 final size:27
Alignment explanation
Indices: 9814877--9814954 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
9814867 TAAGGTTTGA
9814877 TTTAGGGATTTGGTTTAAGG-GTTTAGGG
1 TTTAGGG-TTTGGTTT-AGGAGTTTAGGG
* *
9814905 TTTATGGTTTGGTTTAAGAGTTTAGGG
1 TTTAGGGTTTGGTTTAGGAGTTTAGGG
*
9814932 TTTAGGGTTTGGTTTTGGAGTTT
1 TTTAGGGTTTGGTTTAGGAGTTT
9814955 CCATGATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 2 0.05
27 36 0.82
28 6 0.14
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (27 bp):
TTTAGGGTTTGGTTTAGGAGTTTAGGG
Found at i:9816244 original size:12 final size:11
Alignment explanation
Indices: 9816207--9816274 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 11
9816197 AATCTAATTA
9816207 AAAAAAAGAAAG
1 AAAAAAA-AAAG
9816219 AAAGAAACTAAAAG
1 AAA-AAA--AAAAG
9816233 AAAAAATAAAAG
1 AAAAAA-AAAAG
* **
9816245 ATAAAAAATGG
1 AAAAAAAAAAG
9816256 AGAAAAAAAAAG
1 A-AAAAAAAAAG
9816268 AAAAAAA
1 AAAAAAA
9816275 TTAAGTTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
11 10 0.22
12 22 0.48
13 6 0.13
14 7 0.15
15 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:9816724 original size:19 final size:18
Alignment explanation
Indices: 9816677--9816725 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
9816667 TATCAAAATG
9816677 ATACAACAAAAAATTTAAA
1 ATACAA-AAAAAATTTAAA
* *
9816696 ATATAAAAAAAATTATTAA
1 ATACAAAAAAAATT-TAAA
*
9816715 ATACATAAAAA
1 ATACAAAAAAA
9816726 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
ATACAAAAAAAATTTAAA
Found at i:9816771 original size:99 final size:104
Alignment explanation
Indices: 9816648--9816845 Score: 248
Period size: 99 Copynumber: 2.0 Consensus size: 104
9816638 AAATGGTTTG
*
9816648 ACATATGATATACTTTTAGTATCAA-AATGATACA-ACAAAAAA-TTTAAAATATAAAAAAA-A-
1 ACATATGATATACTTTGAGTATCAATAA-GATACACACAAAAAATTTTAAAATATAAAAAAATAT
*
9816708 TTATTAAATACATAAAAA-TAAAAAAAAAAGAAAATGCAA
65 TTATTAAATACATAAAAAGTAAAAAAAAAAAAAAATGCAA
* * * *
9816747 ACATATGGTATATCTTTGA-TATCAATGAGATCCACACAAAAAATTTTAAAATCTAAAAAAATAT
1 ACATATGATATA-CTTTGAGTATCAATAAGATACACACAAAAAATTTTAAAATATAAAAAAATAT
* **
9816811 TTATTAATTATTTAAAAAGTAAAAAAAAAAAAAAA
65 TTATTAAATACATAAAAAGTAAAAAAAAAAAAAAA
9816846 AAAGGTTTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
99 22 0.27
100 14 0.17
101 16 0.19
102 1 0.01
103 15 0.18
104 15 0.18
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (104 bp):
ACATATGATATACTTTGAGTATCAATAAGATACACACAAAAAATTTTAAAATATAAAAAAATATT
TATTAAATACATAAAAAGTAAAAAAAAAAAAAAATGCAA
Found at i:9816934 original size:14 final size:14
Alignment explanation
Indices: 9816909--9816950 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9816899 AATATTTATT
*
9816909 AAATATAAAAGTTAA
1 AAATA-AAAAGTAAA
9816924 AAATAAAAAGTAAA
1 AAATAAAAAGTAAA
*
9816938 AAAAAAAAAGTAA
1 AAATAAAAAGTAA
9816951 GTGACGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
AAATAAAAAGTAAA
Found at i:9819668 original size:118 final size:116
Alignment explanation
Indices: 9819512--9819796 Score: 437
Period size: 118 Copynumber: 2.4 Consensus size: 116
9819502 CTGTGCAGAA
*
9819512 AAAATTGATACTTTCAACTTTTCCTCAAAAATCGTTTTTTGAAAATTTA-TTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
9819576 ATACTTTCAACTTTTCCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
66 ATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTGAAA-TTT-ATTTCCAAGG
*
9819630 AAAATTGATACTTTCAACTTTTTCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
* **
9819695 ATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAATTTATTTTTAAGG
66 ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTCCAAGG
* * *
9819746 AAAATTGATACTTTTAACTTTTCCCTAAAAATATTTTTTTTTTGAAAATTT
1 AAAATTGATACTTTCAACTTTT-CCTCAAAA-A-TCTTTTTTTGAAAATTT
9819797 TGATTTTCAT
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
116 29 0.19
117 9 0.06
118 70 0.45
119 46 0.30
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTCCAAGG
Found at i:9819695 original size:58 final size:58
Alignment explanation
Indices: 9819512--9819796 Score: 412
Period size: 58 Copynumber: 4.8 Consensus size: 58
9819502 CTGTGCAGAA
*
9819512 AAAATTGATACTTTCAACTTTTCCTCAAAAATCGTTTTTTGAAAATTTA-TTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGG
* * **
9819569 AAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTT-CCTCAAAAAT-CTTTTTTTGAAAATTT-ATTTTTAAGG
*
9819630 AAAATTGATACTTTCAACTTTTTCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGG
9819688 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTG-AAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATC-TTTTTTTGAAAATTTATTTTTAAGG
* * *
9819746 AAAATTGATACTTTTAACTTTTCCCTAAAAATATTTTTTTTTTGAAAATTT
1 AAAATTGATACTTTCAACTTTT-CCTCAAAA-A-TCTTTTTTTGAAAATTT
9819797 TGATTTTCAT
Statistics
Matches: 205, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
57 22 0.11
58 87 0.42
59 42 0.20
60 19 0.09
61 35 0.17
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGG
Found at i:9819846 original size:18 final size:18
Alignment explanation
Indices: 9819823--9819948 Score: 71
Period size: 18 Copynumber: 6.8 Consensus size: 18
9819813 AAAATAGAAT
9819823 AATAAATAAATAAATAAA
1 AATAAATAAATAAATAAA
* *
9819841 AATAAAAAAATAAAGAAA
1 AATAAATAAATAAATAAA
*
9819859 AGTAAA-ACAA-AAATAAA
1 AATAAATA-AATAAATAAA
*
9819876 AATAAAATAAAGATAAA-AAG
1 AAT-AAAT-AA-ATAAATAAA
* *
9819896 AAT-ATTAAATAAACCTAATCT
1 AATAAATAAATAAA--TAA--A
*
9819917 AATAAATAAAAAAATAAA
1 AATAAATAAATAAATAAA
* *
9819935 AAAAAACAAATAAA
1 AATAAATAAATAAA
9819949 CAAAGAAATG
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
16 5 0.06
17 11 0.13
18 39 0.48
19 3 0.04
20 10 0.12
21 6 0.07
22 8 0.10
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.17
Consensus pattern (18 bp):
AATAAATAAATAAATAAA
Found at i:9819854 original size:22 final size:22
Alignment explanation
Indices: 9819826--9819948 Score: 65
Period size: 22 Copynumber: 5.5 Consensus size: 22
9819816 ATAGAATAAT
9819826 AAATAAATAAATAAAAATAAAA
1 AAATAAATAAATAAAAATAAAA
*
9819848 AAATAAAGAAAAGTAAAACA-AAAA
1 AAATAAA-TAAA-TAAAA-ATAAAA
* *
9819872 TAA-AAATAAAATAAAGATAAAA
1 AAATAAAT-AAATAAAAATAAAA
* ** **
9819894 AGAAT-ATTAAATAAACCTAATC
1 A-AATAAATAAATAAAAATAAAA
* *
9819916 TAATAAATAAA-AAAATAAAAAA
1 AAATAAATAAATAAAA-ATAAAA
*
9819938 AAACAAATAAA
1 AAATAAATAAA
9819949 CAAAGAAATG
Statistics
Matches: 73, Mismatches: 19, Indels: 18
0.66 0.17 0.16
Matches are distributed among these distances:
21 7 0.10
22 41 0.56
23 13 0.18
24 11 0.15
25 1 0.01
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (22 bp):
AAATAAATAAATAAAAATAAAA
Found at i:9819876 original size:17 final size:17
Alignment explanation
Indices: 9819813--9819992 Score: 80
Period size: 17 Copynumber: 10.2 Consensus size: 17
9819803 TCATTTAAAG
9819813 AAAATAGAATAATAAATAAA
1 AAAATA-AA-AATAAA-AAA
*
9819833 TAAATAAAAATAAAAAA
1 AAAATAAAAATAAAAAA
* * *
9819850 ATAAAGAAAAGTAAAACA
1 A-AAATAAAAATAAAAAA
*
9819868 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAAAA
* * * *
9819885 AAGATAAAAA-GAATAT
1 AAAATAAAAATAAAAAA
* ** **
9819901 TAAATAAACCTAATCTAA
1 AAAATAAAAATAA-AAAA
*
9819919 TAAATAAAAA-AATAAAA
1 AAAATAAAAATAA-AAAA
*
9819936 AAAA-ACAAATAAACAAA
1 AAAATAAAAATAAA-AAA
* *
9819953 GAAATGAAAATAAAAAA
1 AAAATAAAAATAAAAAA
9819970 AAAATTCAAAAA-AAGAAAA
1 AAAA-T-AAAAATAA-AAAA
9819989 AAAA
1 AAAA
9819993 ACCTGGAGCG
Statistics
Matches: 120, Mismatches: 31, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
16 13 0.11
17 48 0.40
18 40 0.33
19 14 0.12
20 5 0.04
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAAAA
Found at i:9819946 original size:26 final size:26
Alignment explanation
Indices: 9819917--9819994 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
9819907 AACCTAATCT
9819917 AATAAATAAAAAAATAAAAAAAAACA
1 AATAAATAAAAAAATAAAAAAAAACA
* *
9819943 AATAAACAAAGAAATGAAAATAAAAA-A
1 AATAAATAAAAAAAT-AAAA-AAAAACA
* *
9819970 AA-AATTCAAAAAAAGAAAAAAAAAC
1 AATAAAT-AAAAAAATAAAAAAAAAC
9819995 CTGGAGCGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.12
26 19 0.45
27 13 0.31
28 5 0.12
ACGTcount: A:0.81, C:0.05, G:0.04, T:0.10
Consensus pattern (26 bp):
AATAAATAAAAAAATAAAAAAAAACA
Found at i:9819980 original size:18 final size:18
Alignment explanation
Indices: 9819933--9819991 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
9819923 TAAAAAAATA
*
9819933 AAAAAAAAC-AAATAAAC
1 AAAAAAATCAAAATAAAC
* *
9819950 AAAGAAATGAAAATAAA-
1 AAAAAAATCAAAATAAAC
*
9819967 AAAAAAATTCAAAA-AAAG
1 AAAAAAA-TCAAAATAAAC
9819985 AAAAAAA
1 AAAAAAA
9819992 AACCTGGAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 15 0.44
18 19 0.56
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAAATCAAAATAAAC
Found at i:9821029 original size:4 final size:4
Alignment explanation
Indices: 9821020--9821050 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
9821010 ATGAAAATAA
*
9821020 AAAT AAAT AAAT AAAT AAAT AGAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9821051 GATATACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9821321 original size:16 final size:16
Alignment explanation
Indices: 9821299--9821336 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9821289 AACATTGTCA
9821299 TTTTTTGTT-TTTTTT
1 TTTTTTGTTATTTTTT
9821314 TGTTTTTGTTATTTTTT
1 T-TTTTTGTTATTTTTT
9821331 TTTTTT
1 TTTTTT
9821337 TTACCAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (16 bp):
TTTTTTGTTATTTTTT
Found at i:9821438 original size:41 final size:41
Alignment explanation
Indices: 9821345--9821597 Score: 341
Period size: 41 Copynumber: 6.1 Consensus size: 41
9821335 TTTTACCAAA
* * * *
9821345 GCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-TGAAA-ATAAATT
9821388 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATT
**
9821429 GCTTATCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAA-TAAATT
*
9821470 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATT
*
9821511 GCTCCTCTAAACAGAGGCACCATGAC-TTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAATAAATT
* *
9821552 GCTCCTCTAAACCA-AGGCACCACGACTTTAGAAAGTAAATT
1 GCTCCTCTAAA-CAGAGGCACCACGACTTTTGAAAATAAATT
*
9821593 ACTCC
1 GCTCC
9821598 CTGACAATCA
Statistics
Matches: 190, Mismatches: 15, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
40 11 0.06
41 137 0.72
42 16 0.08
43 26 0.14
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAATAAATT
Found at i:9821570 original size:123 final size:125
Alignment explanation
Indices: 9821345--9821597 Score: 381
Period size: 123 Copynumber: 2.0 Consensus size: 125
9821335 TTTTACCAAA
* *
9821345 GCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
*
9821410 CGACTTTTGAAAATAAATTGCTTATCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
66 CGACTTTTGAAAATAAATTGCTCATCTAAACAGAGGCACCACGACTTTAG-AAAGTAAATT
*
9821470 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-ATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
* *
9821533 TGAC-TTTGAAAAATAAATTGCTCCTCTAAACCA-AGGCACCACGACTTTAGAAAGTAAATT
66 CGACTTTTG-AAAATAAATTGCTCATCTAAA-CAGAGGCACCACGACTTTAGAAAGTAAATT
*
9821593 ACTCC
1 GCTCC
9821598 CTGACAATCA
Statistics
Matches: 118, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
122 4 0.03
123 80 0.68
124 7 0.06
125 27 0.23
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (125 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
CGACTTTTGAAAATAAATTGCTCATCTAAACAGAGGCACCACGACTTTAGAAAGTAAATT
Found at i:9826652 original size:59 final size:59
Alignment explanation
Indices: 9826589--9826927 Score: 429
Period size: 59 Copynumber: 5.7 Consensus size: 59
9826579 TCCTGTGCAG
* *
9826589 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTAAAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTTATTTTCAA
*
9826648 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAA--TTTATTTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-AAAACTTTTATTTTCAA
* * * * *
9826705 GAAAAATTGATACTTTCAACCTTTTTCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAA-CTTTTCCTCAAAAATA-TTTTTTTAAAACTTTTATTTTCAA
* *
9826766 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAA--TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-AAAACTTTTATTTTCAA
* * * * *
9826824 GGAAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCC-TCAAAA-ATA-TTTTTTTAAAACTTTTATTTTCAA
9826886 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTT
9826928 TTTGAAAATT
Statistics
Matches: 242, Mismatches: 25, Indels: 26
0.83 0.09 0.09
Matches are distributed among these distances:
57 20 0.08
58 58 0.24
59 65 0.27
60 35 0.14
61 31 0.13
62 33 0.14
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTTATTTTCAA
Found at i:9826768 original size:118 final size:118
Alignment explanation
Indices: 9826591--9826938 Score: 529
Period size: 118 Copynumber: 2.9 Consensus size: 118
9826581 CTGTGCAGGG
* * * * *
9826591 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TATTTTTAAAACTTTTATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAAAT
9826655 TGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTA-TTTTAAGA
66 TGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGA
*
9826707 AAAATTGATACTTTCAACCTTTTTCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAAA
1 AAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAAA
*
9826772 TTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGG
65 TTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGA
* *
9826826 AAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTTTGAAACTTTGATTTCCAAGGAAA
1 AAAATTGATACTTTCAACTTTTCC-TCAAAA-ATATTTTTTTTGAAACTTTGATTTCCAAGGAAA
* *
9826891 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAAATTT
64 ATTGATACTTTCAACTTTT-CCTCAAAA-A-TCTTTTTTTGAAAATTT
9826939 TGATTTTCAT
Statistics
Matches: 212, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
116 17 0.08
117 14 0.07
118 77 0.36
119 28 0.13
120 52 0.25
121 7 0.03
122 1 0.00
123 16 0.08
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTGAAAATTTATTTTTAAGA
Found at i:9826981 original size:11 final size:11
Alignment explanation
Indices: 9826965--9827112 Score: 55
Period size: 10 Copynumber: 13.7 Consensus size: 11
9826955 AAAATAGAAT
9826965 AATAAAAAATA
1 AATAAAAAATA
9826976 AAT-AAAAAT-
1 AATAAAAAATA
9826985 AA-AAAAAATA
1 AATAAAAAATA
* *
9826995 AA-GAAAAGTA
1 AATAAAAAATA
9827005 AA-ACAAAAATA
1 AATA-AAAAATA
9827016 AA-AATAAAATA
1 AATAA-AAAATA
* *
9827027 AAGATAAAAA-G
1 AATA-AAAAATA
**
9827038 AATATTAAATA
1 AATAAAAAATA
**
9827049 AACCTAATCTAATA
1 AA--TAA-AAAATA
9827063 AATAAAAAATA
1 AATAAAAAATA
* *
9827074 AA-AATAAACA
1 AATAAAAAATA
*
9827084 AATAAACAAAGA
1 AATAAA-AAATA
*
9827096 AAT-GAAAATA
1 AATAAAAAATA
9827106 AA-AAAAA
1 AATAAAAA
9827113 TTCAAAAAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
9 8 0.08
10 37 0.36
11 34 0.33
12 15 0.15
13 3 0.03
14 6 0.06
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:9826986 original size:6 final size:6
Alignment explanation
Indices: 9826955--9827036 Score: 62
Period size: 6 Copynumber: 13.7 Consensus size: 6
9826945 TCATTTAAAG
* * * *
9826955 AAAATA GAATAATA AAAA-A TAAATA AAAATA AAAAAA ATAAAGA AAAGT-
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA
* *
9827004 AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
9827037 GAATATTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
5 12 0.20
6 34 0.58
7 9 0.15
8 4 0.07
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:9827103 original size:26 final size:25
Alignment explanation
Indices: 9827059--9827107 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
9827049 AACCTAATCT
*
9827059 AATAAATAAAAAATAAAAATAAACA
1 AATAAACAAAAAATAAAAATAAACA
*
9827084 AATAAACAAAGAAATGAAAATAAA
1 AATAAACAAA-AAATAAAAATAAA
9827108 AAAAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (25 bp):
AATAAACAAAAAATAAAAATAAACA
Found at i:9827532 original size:139 final size:138
Alignment explanation
Indices: 9827300--9827575 Score: 466
Period size: 139 Copynumber: 2.0 Consensus size: 138
9827290 GCTGATCCTC
*
9827300 CGGGTTACTTAAGGCCAAAACGACGTAGTTTTGAGAGGGTATAAAAGGCACTTTCCTCTGTTTTT
1 CGGGTTACTTAAGGCCAAAACGACGTAGTTTTGAGAGGGTATAAAAGGCACTTTCCTCTATTTTT
9827365 CGACAGAACGCTCCTCCCTTCTATCTCTCTTCTTCTTTTTTCCTCT-TCCTTCTCTCTAAAAGGC
66 CGACAGAACGCTCCTCCCTTCTATCTCTCTT-TTCTTTTTTCCTCTCT-CTTCTCTCTAAAAGGC
9827429 AGAAAAACTT
129 AGAAAAACTT
*
9827439 CGGGTTACTTAAGGCTAAAACGACGTAGTTTTGAGAGGGTATAAAAGGCAC-TTCTCTCTATTTT
1 CGGGTTACTTAAGGCCAAAACGACGTAGTTTTGAGAGGGTATAAAAGGCACTTTC-CTCTATTTT
* *
9827503 TCGACAGAACGCTCCTCCCTTCTATCTCTCTTTTCTTTTTTCCTCTCTTTTCTCTCTAAAAGGCT
65 TCGACAGAACGCTCCTCCCTTCTATCTCTCTTTTCTTTTTTCCTCTCTCTTCTCTCTAAAAGGCA
*
9827568 GAAGAACT
130 GAAAAACT
9827576 CCGGTTGAAA
Statistics
Matches: 130, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
138 39 0.30
139 91 0.70
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (138 bp):
CGGGTTACTTAAGGCCAAAACGACGTAGTTTTGAGAGGGTATAAAAGGCACTTTCCTCTATTTTT
CGACAGAACGCTCCTCCCTTCTATCTCTCTTTTCTTTTTTCCTCTCTCTTCTCTCTAAAAGGCAG
AAAAACTT
Found at i:9828150 original size:34 final size:33
Alignment explanation
Indices: 9828075--9828160 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 33
9828065 ATAAAAAAAA
*
9828075 GAAAACAAAAAATAATAATACTAATCAGATAATC
1 GAAAA-AAAAAATAATAAAACTAATCAGATAATC
* *
9828109 GAGAAAAAAAATCAGATAAAACTAA-CAGATAATT
1 GAAAAAAAAAAT-A-ATAAAACTAATCAGATAATC
* *
9828143 TAAAAAAATAATAA-AAAA
1 GAAAAAAAAAATAATAAAA
9828161 TAAAATAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
31 4 0.09
32 1 0.02
33 8 0.18
34 22 0.50
35 9 0.20
ACGTcount: A:0.66, C:0.08, G:0.07, T:0.19
Consensus pattern (33 bp):
GAAAAAAAAAATAATAAAACTAATCAGATAATC
Found at i:9828201 original size:3 final size:3
Alignment explanation
Indices: 9828189--9828241 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
9828179 AAAATATATT
9828189 ATA A-A ATA ATA ATA ATA ATA AT- ATA ATA ATAA ATA TATA ACT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA A-TA ATA
9828234 ATA A-A ATA
1 ATA ATA ATA
9828242 CCTATAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
2 7 0.16
3 29 0.67
4 7 0.16
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9828214 original size:14 final size:14
Alignment explanation
Indices: 9828197--9828237 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
9828187 TTATAAAATA
9828197 ATAATAATAATAAT
1 ATAATAATAATAAT
9828211 ATAATAATAA-ATAT
1 ATAATAATAATA-AT
9828225 ATAACT-ATAATAA
1 ATAA-TAATAATAA
9828238 AATACCTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.04
14 21 0.88
15 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:9828214 original size:17 final size:18
Alignment explanation
Indices: 9828188--9828241 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 18
9828178 AAAAATATAT
*
9828188 TATAAAATAATAATAATA
1 TATAATATAATAATAATA
9828206 -ATAATATAATAATAAATA
1 TATAATATAATAAT-AATA
9828224 TATAACTATAATAA-AATA
1 TATAA-TATAATAATAATA
9828242 CCTATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
19 4 0.12
20 8 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TATAATATAATAATAATA
Found at i:9831934 original size:17 final size:17
Alignment explanation
Indices: 9831914--9831947 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9831904 GTCTTTTTTA
* *
9831914 ATTATTTGATTTTATAT
1 ATTATTTAAATTTATAT
9831931 ATTATTTAAATTTATAT
1 ATTATTTAAATTTATAT
9831948 TATAACTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTATTTAAATTTATAT
Found at i:9833261 original size:20 final size:20
Alignment explanation
Indices: 9833231--9833312 Score: 76
Period size: 20 Copynumber: 4.1 Consensus size: 20
9833221 CTCTAATATA
9833231 AAAAATATTTTACTTTTTTT
1 AAAAATATTTTACTTTTTTT
* * *
9833251 ATAAATTTTTTAGTTTTTTT
1 AAAAATATTTTACTTTTTTT
*
9833271 AAAAATATTATA-TTTATTTT
1 AAAAATATTTTACTTT-TTTT
*** *
9833291 TTCAATATTTTAGTTTTTTT
1 AAAAATATTTTACTTTTTTT
9833311 AA
1 AA
9833313 TTTCATTTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 42 0.88
21 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
AAAAATATTTTACTTTTTTT
Found at i:9833276 original size:40 final size:40
Alignment explanation
Indices: 9833231--9833312 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
9833221 CTCTAATATA
* *
9833231 AAAAATATTTTACTTT-TTTTATAAATTTTTTAGTTTTTTT
1 AAAAATATTATA-TTTATTTTATAAATATTTTAGTTTTTTT
* *
9833271 AAAAATATTATATTTATTTTTTCAATATTTTAGTTTTTTT
1 AAAAATATTATATTTATTTTATAAATATTTTAGTTTTTTT
9833311 AA
1 AA
9833313 TTTCATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.08
40 34 0.92
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (40 bp):
AAAAATATTATATTTATTTTATAAATATTTTAGTTTTTTT
Found at i:9833727 original size:14 final size:15
Alignment explanation
Indices: 9833703--9833731 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9833693 AATATTTTTA
9833703 AAAAAATTAAAAAAT
1 AAAAAATTAAAAAAT
9833718 AAAAAA-TAAAAAAT
1 AAAAAATTAAAAAAT
9833732 TTTAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAATTAAAAAAT
Found at i:9833857 original size:10 final size:10
Alignment explanation
Indices: 9833808--9833863 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
9833798 TTTGAAATCA
*
9833808 AAAAAAATTC
1 AAAAAATTTC
9833818 AAAAAATTATC
1 AAAAAATT-TC
*
9833829 -TAAAATTT-
1 AAAAAATTTC
* *
9833837 TAAATATTTC
1 AAAAAATTTC
9833847 AAAAAATTTC
1 AAAAAATTTC
9833857 AAAAAAT
1 AAAAAAT
9833864 GAAATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.19
10 28 0.76
11 2 0.05
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:9833990 original size:31 final size:31
Alignment explanation
Indices: 9833955--9834013 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
9833945 TATTAAAGAG
*
9833955 ACTAAATTTAAAATTTTATATAAGTATATGA
1 ACTAAATTTAAAATTTTATATAAATATATGA
9833986 ACTAAATTTAAAATTTTATATAAATATA
1 ACTAAATTTAAAATTTTATATAAATATA
9834014 AAAATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
ACTAAATTTAAAATTTTATATAAATATATGA
Found at i:9834114 original size:19 final size:19
Alignment explanation
Indices: 9834063--9834117 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9834053 CAAATTTTTT
* *
9834063 CATCAATAAATTAATATTA
1 CATCAATAAATCAATATCA
* *
9834082 TATCAGTAAAATCAATATCA
1 CATCAAT-AAATCAATATCA
9834102 CATCAATAAATCAATA
1 CATCAATAAATCAATA
9834118 ACTAAATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.31
Consensus pattern (19 bp):
CATCAATAAATCAATATCA
Found at i:9855497 original size:2 final size:2
Alignment explanation
Indices: 9855490--9855520 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9855480 ATAAGAAGTT
9855490 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9855521 ATAGATGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9858944 original size:19 final size:19
Alignment explanation
Indices: 9858920--9858960 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9858910 GGGTGAAAAT
9858920 AAAATAAAATA-AAAATCAA
1 AAAATAAAA-AGAAAATCAA
*
9858939 AAAATAAAAAGAAAATGAA
1 AAAATAAAAAGAAAATCAA
9858958 AAA
1 AAA
9858961 GGAAAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAATAAAAAGAAAATCAA
Found at i:9859250 original size:19 final size:19
Alignment explanation
Indices: 9859226--9859270 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
9859216 CACCCAGAAA
*
9859226 TTGGAAAACCCACTGGTTT
1 TTGGAAAACCCACTGGATT
*
9859245 TTGGAAAACCTACTGGATT
1 TTGGAAAACCCACTGGATT
9859264 TTGGAAA
1 TTGGAAA
9859271 TCTTGCCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (19 bp):
TTGGAAAACCCACTGGATT
Found at i:9859938 original size:26 final size:26
Alignment explanation
Indices: 9859886--9859939 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
9859876 CCAGACTAAG
*
9859886 ATAGACCCAATTAGGCCCAAACCAAA
1 ATAGACCCAATTAGGCCCAAACAAAA
* * * *
9859912 ATAGGCCCAATTGGGCTCGAACAAAA
1 ATAGACCCAATTAGGCCCAAACAAAA
9859938 AT
1 AT
9859940 GGGTGTTTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.15
Consensus pattern (26 bp):
ATAGACCCAATTAGGCCCAAACAAAA
Found at i:9860008 original size:17 final size:16
Alignment explanation
Indices: 9859959--9860012 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 16
9859949 CAATATCAAT
9859959 TAAAATAA--ATAAAA
1 TAAAATAATTATAAAA
** *
9859973 TAAAA-AATTACCAAT
1 TAAAATAATTATAAAA
9859988 TAAAATCAATTATAAAA
1 TAAAAT-AATTATAAAA
9860005 TAAAATAA
1 TAAAATAA
9860013 AATAAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 8 0.27
16 2 0.07
17 13 0.43
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATAATTATAAAA
Found at i:9860446 original size:19 final size:19
Alignment explanation
Indices: 9860424--9860465 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9860414 AATTGACCCA
9860424 AAAATTTAAAAAAAAATCT
1 AAAATTTAAAAAAAAATCT
** *
9860443 AAAATTTCCAAAAAAATGT
1 AAAATTTAAAAAAAAATCT
9860462 AAAA
1 AAAA
9860466 AAAAAGCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATTTAAAAAAAAATCT
Found at i:9861013 original size:4 final size:4
Alignment explanation
Indices: 9860954--9861102 Score: 74
Period size: 4 Copynumber: 35.2 Consensus size: 4
9860944 TGAAGATAAC
* * * *
9860954 AAAT AAAAT TAAT AAAT -AAT -AAT AAAAT AAAA ATAAT CAAT -AAT AAAG
1 AAAT -AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT AAAT AAAT AAAT
* *
9861002 ATAAT AAAT AAAAT AAAT -AAT AAGA- AAAT ATACT AAAAT AGAT AAAGT
1 A-AAT AAAT -AAAT AAAT AAAT AA-AT AAAT A-AAT -AAAT AAAT AAA-T
* *
9861050 AAAG AAACT GAAAAT AAAT AAAT AAAT AGAT AAAT AAAT AAAT AAGAT
1 AAAT AAA-T --AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT
9861098 AAAT A
1 AAAT A
9861103 TATATGATAT
Statistics
Matches: 113, Mismatches: 15, Indels: 33
0.70 0.09 0.20
Matches are distributed among these distances:
3 13 0.12
4 66 0.58
5 29 0.26
6 2 0.02
7 3 0.03
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9861038 original size:25 final size:23
Alignment explanation
Indices: 9860964--9861046 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 23
9860954 AAATAAAATT
* *
9860964 AATAAATAATAATAAAATAAAAA
1 AATAAATAATAAGAAAATAATAA
* *
9860987 TAATCAATAATAAAGATAATAAATAA
1 -AATAAATAAT-AAGAAAAT-AATAA
9861013 AATAAATAATAAGAAAATATACTAA
1 AATAAATAATAAGAAAATA-A-TAA
*
9861038 AATAGATAA
1 AATAAATAA
9861047 AGTAAAGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 17 0.35
25 26 0.54
26 4 0.08
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AATAAATAATAAGAAAATAATAA
Found at i:9861111 original size:13 final size:13
Alignment explanation
Indices: 9861061--9861128 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 13
9861051 AAGAAACTGA
*
9861061 AAATAAATAA-AT
1 AAATATATAAGAT
*
9861073 AAATAGATAA-AT
1 AAATATATAAGAT
*
9861085 AAATAAATAAGAT
1 AAATATATAAGAT
*
9861098 AAATATATATGAT
1 AAATATATAAGAT
* *
9861111 ATATATACACAGAT
1 AAATATATA-AGAT
9861125 AAAT
1 AAAT
9861129 GTAATAAAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
12 20 0.43
13 20 0.43
14 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (13 bp):
AAATATATAAGAT
Found at i:9861450 original size:39 final size:40
Alignment explanation
Indices: 9861402--9861511 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 40
9861392 CCAAGGCCTT
**
9861402 TTTCAACATGAAGGCACACAACTTTAAAAATAAA-GGCTG
1 TTTCAACATGAAGGCACACAACTTTAAAAATAAAGGGCCC
*
9861441 TTTCAACATGAAAGCACACAACTTTAAAAATAAAGGGCCC
1 TTTCAACATGAAGGCACACAACTTTAAAAATAAAGGGCCC
* * *
9861481 TTTCAATACGAAGGCACACAATTTTAAAAAT
1 TTTCAACATGAAGGCACACAACTTTAAAAAT
9861512 TAAAAAAGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.52
40 30 0.48
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.24
Consensus pattern (40 bp):
TTTCAACATGAAGGCACACAACTTTAAAAATAAAGGGCCC
Found at i:9874456 original size:26 final size:29
Alignment explanation
Indices: 9874384--9874456 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 29
9874374 AGTTAAGAAT
**
9874384 AATCAACGCTAAAGATAACAACTAAAATA
1 AATCAACAATAAAGATAACAACTAAAATA
*
9874413 AAT-AACTAATAATA-ATAA-AAC-AAAA-G
1 AATCAAC-AATAA-AGATAACAACTAAAATA
9874439 AATCAACAATAAAGATAA
1 AATCAACAATAAAGATAA
9874457 TAAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
25 1 0.03
26 12 0.32
27 7 0.19
28 6 0.16
29 10 0.27
30 1 0.03
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.18
Consensus pattern (29 bp):
AATCAACAATAAAGATAACAACTAAAATA
Found at i:9874489 original size:4 final size:4
Alignment explanation
Indices: 9874480--9874536 Score: 55
Period size: 4 Copynumber: 14.2 Consensus size: 4
9874470 AAATATAGTA
* * *
9874480 AAAT AAAT AAAGT AAA- AAA- AAAG AAAA AAAT AAAT AGAT AAAT AAAT
1 AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
9874527 AAGAT AAAT A
1 AA-AT AAAT A
9874537 TACATAAACG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
3 6 0.13
4 32 0.70
5 8 0.17
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:9875815 original size:16 final size:16
Alignment explanation
Indices: 9875794--9875832 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9875784 CTTTGAATCA
*
9875794 ATGAATGGTTAAATTC
1 ATGAATAGTTAAATTC
9875810 ATGAATAGTTAAATTC
1 ATGAATAGTTAAATTC
*
9875826 ATAAATA
1 ATGAATA
9875833 ATTAGATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (16 bp):
ATGAATAGTTAAATTC
Found at i:9880771 original size:31 final size:31
Alignment explanation
Indices: 9880701--9880811 Score: 134
Period size: 31 Copynumber: 3.5 Consensus size: 31
9880691 TAATAAATCT
*
9880701 ATTTTTTAAAATGATATGAAATTTTTTACTTA
1 ATTTTTTAAAATGATAT-AAATTTTTTATTTA
* * * *
9880733 ATATTTTAAAATGATATAGAGTTTTCATTTA
1 ATTTTTTAAAATGATATAAATTTTTTATTTA
* *
9880764 ATTTTTTAAATTGATATAAATTTTTTTGTTTA
1 ATTTTTTAAAATGATATAAA-TTTTTTATTTA
9880796 A-TTTTTAAAATGATAT
1 ATTTTTTAAAATGATAT
9880812 TTAATAATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 41 0.62
32 25 0.38
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (31 bp):
ATTTTTTAAAATGATATAAATTTTTTATTTA
Found at i:9880819 original size:22 final size:22
Alignment explanation
Indices: 9880794--9880835 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9880784 TTTTTTTGTT
*
9880794 TAATTT-TTAAAATGATATTTAA
1 TAATTTATAAAAAT-ATATTTAA
9880816 TAATTTATAAAAATATATTT
1 TAATTTATAAAAATATATTT
9880836 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATTTATAAAAATATATTTAA
Found at i:9883141 original size:14 final size:16
Alignment explanation
Indices: 9883107--9883146 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
9883097 ATTTTTTAAA
9883107 TTTATTATATTATATTC
1 TTTATT-TATTATATTC
9883124 TTTATTTATT-TATT-
1 TTTATTTATTATATTC
9883138 TTTATTTAT
1 TTTATTTAT
9883147 GTTTTGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
16 4 0.17
17 6 0.26
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTATTATATTC
Found at i:9883816 original size:4 final size:4
Alignment explanation
Indices: 9883807--9883854 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
9883797 AGTTTTTTTC
* *
9883807 TTAT TTAT TTAT CTCTAT TTAT TTAT TTAT TCA- TTGT TTAT TTAT TTA
1 TTAT TTAT TTAT -T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
9883855 GGTTTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 1 0.03
4 31 0.84
5 2 0.05
6 3 0.08
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:9883848 original size:19 final size:18
Alignment explanation
Indices: 9883807--9883854 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
9883797 AGTTTTTTTC
9883807 TTATTTATTTATCTCTAT
1 TTATTTATTTATCTCTAT
*
9883825 TTATTTATTTAT-TCATTGT
1 TTATTTATTTATCTC--TAT
9883844 TTATTTATTTA
1 TTATTTATTTA
9883855 GGTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 2 0.07
18 12 0.44
19 13 0.48
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTATTTATCTCTAT
Found at i:9889204 original size:20 final size:19
Alignment explanation
Indices: 9889166--9889211 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
9889156 AAAAATTCAC
9889166 ATCTAAAATTCAAAGATTA
1 ATCTAAAATTCAAAGATTA
* *
9889185 ATCTAAATATTTAGAGATTA
1 ATCTAAA-ATTCAAAGATTA
9889205 ATCTAAA
1 ATCTAAA
9889212 GGTTATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (19 bp):
ATCTAAAATTCAAAGATTA
Done.