Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 37 of 93
Found at i:4209189 original size:36 final size:38
Alignment explanation
Indices: 4209128--4209203 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 38
4209118 ATTATGTTAA
*
4209128 TTTTTATAATTTGTAAAAATATTTC-ATA-TTTTAAAT
1 TTTTTATAATTTGTAAAAATATTTCAAAATTTTTAAAT
*
4209164 TTTTTATAAGTTT-TAAAACCT-TTTCAAAATTTTTAAAT
1 TTTTTATAA-TTTGTAAAA-ATATTTCAAAATTTTTAAAT
4209202 TT
1 TT
4209204 AAAAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 18 0.53
37 6 0.18
38 10 0.29
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (38 bp):
TTTTTATAATTTGTAAAAATATTTCAAAATTTTTAAAT
Found at i:4209303 original size:18 final size:19
Alignment explanation
Indices: 4209280--4209315 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4209270 TTTTTAGAAA
4209280 TTTTTA-AATGTTAAAAAT
1 TTTTTATAATGTTAAAAAT
*
4209298 TTTTTATAATTTTAAAAA
1 TTTTTATAATGTTAAAAA
4209316 AATTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTATAATGTTAAAAAT
Found at i:4209312 original size:19 final size:17
Alignment explanation
Indices: 4209271--4209315 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
4209261 TGGTATATTT
*
4209271 TTTTAGAAATTTTTAAA
1 TTTTAAAAATTTTTAAA
*
4209288 TGTTAAAAATTTTTTATAA
1 TTTTAAAAA-TTTTTA-AA
4209307 TTTTAAAAA
1 TTTTAAAAA
4209316 AATTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 6 0.26
19 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTTAAAAATTTTTAAA
Found at i:4209351 original size:22 final size:21
Alignment explanation
Indices: 4209322--4209413 Score: 68
Period size: 22 Copynumber: 4.5 Consensus size: 21
4209312 AAAAAATTTA
* *
4209322 AAAATTTTGTATAA-TTGTTT
1 AAAATTTTTTAAAAGTTGTTT
4209342 CAAAATTTTTTAAAAGTTGTTT
1 -AAAATTTTTTAAAAGTTGTTT
* **
4209364 AGAATTTTTTTTTAAGTTG--T
1 A-AAATTTTTTAAAAGTTGTTT
*
4209384 AAAATTTTTT-GAAGTT-TTT
1 AAAATTTTTTAAAAGTTGTTT
*
4209403 AAATTTTTTTA
1 AAAATTTTTTA
4209414 GAAAATTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
18 5 0.09
19 18 0.31
20 2 0.03
21 13 0.22
22 20 0.34
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.57
Consensus pattern (21 bp):
AAAATTTTTTAAAAGTTGTTT
Found at i:4209356 original size:10 final size:10
Alignment explanation
Indices: 4209293--4209443 Score: 60
Period size: 10 Copynumber: 15.2 Consensus size: 10
4209283 TTAAATGTTA
4209293 AAAATTTTTT
1 AAAATTTTTT
* *
4209303 ATAA-TTTTA
1 AAAATTTTTT
** *
4209312 AAAAAATTTA
1 AAAATTTTTT
*
4209322 AAAATTTTGT
1 AAAATTTTTT
* *
4209332 ATAATTGTTTC
1 AAAATT-TTTT
4209343 AAAATTTTTT
1 AAAATTTTTT
*
4209353 AAAAGTTGTTT
1 AAAA-TTTTTT
*
4209364 AGAATTTTTTT
1 A-AAATTTTTT
** * *
4209375 TTAA-GTTGT
1 AAAATTTTTT
4209384 AAAATTTTTT
1 AAAATTTTTT
* *
4209394 -GAAGTTTTT
1 AAAATTTTTT
*
4209403 AAATTTTTTT
1 AAAATTTTTT
*
4209413 AGAAA-ATTTT
1 A-AAATTTTTT
*
4209423 AAAA-TGTTT
1 AAAATTTTTT
4209432 AAAATTTTTT
1 AAAATTTTTT
4209442 AA
1 AA
4209444 TATGTTTTTT
Statistics
Matches: 98, Mismatches: 35, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
9 29 0.30
10 47 0.48
11 20 0.20
12 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:4209393 original size:18 final size:18
Alignment explanation
Indices: 4209370--4209413 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4209360 GTTTAGAATT
4209370 TTTTTTTAAGTTGTAAAA
1 TTTTTTTAAGTTGTAAAA
* * *
4209388 TTTTTTGAAGTTTTTAAA
1 TTTTTTTAAGTTGTAAAA
4209406 TTTTTTTA
1 TTTTTTTA
4209414 GAAAATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (18 bp):
TTTTTTTAAGTTGTAAAA
Found at i:4211804 original size:18 final size:18
Alignment explanation
Indices: 4211781--4211819 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4211771 CATGATATGA
4211781 ATGACAAGGT-ATAAATGC
1 ATGACAA-GTAATAAATGC
*
4211799 ATGACAATTAATAAATGC
1 ATGACAAGTAATAAATGC
4211817 ATG
1 ATG
4211820 TAATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (18 bp):
ATGACAAGTAATAAATGC
Found at i:4211830 original size:18 final size:19
Alignment explanation
Indices: 4211790--4211831 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4211780 AATGACAAGG
*
4211790 TATAAATGCATGACAATTA
1 TATAAATGCATGACAATAA
*
4211809 -ATAAATGCATG-TAATAA
1 TATAAATGCATGACAATAA
4211826 TATAAA
1 TATAAA
4211832 ATGAAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (19 bp):
TATAAATGCATGACAATAA
Found at i:4211931 original size:20 final size:20
Alignment explanation
Indices: 4211897--4211953 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
4211887 AGGGTTTGAA
*
4211897 AGGTTGTTT-AGGGTTTAGG
1 AGGTGGTTTAAGGGTTTAGG
* *
4211916 ATGTGGTTTAAGGGTTTTGG
1 AGGTGGTTTAAGGGTTTAGG
*
4211936 AGGTGGCTTAA-GGTTTAG
1 AGGTGGTTTAAGGGTTTAG
4211954 AGTTTAGGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.18, C:0.02, G:0.40, T:0.40
Consensus pattern (20 bp):
AGGTGGTTTAAGGGTTTAGG
Found at i:4215140 original size:13 final size:13
Alignment explanation
Indices: 4215122--4215152 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4215112 ACATCATGCA
*
4215122 ACAAATATTTTAG
1 ACAAATATTTAAG
4215135 ACAAATATTTAAG
1 ACAAATATTTAAG
4215148 ACAAA
1 ACAAA
4215153 AAAAAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (13 bp):
ACAAATATTTAAG
Found at i:4215783 original size:2 final size:2
Alignment explanation
Indices: 4215778--4215802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4215768 AATAGTATTG
4215778 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
4215803 ATTAGAATAA
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:4216986 original size:19 final size:19
Alignment explanation
Indices: 4216962--4216999 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4216952 ATCCACGACT
4216962 ATGGACTTCTTAACTGCAA
1 ATGGACTTCTTAACTGCAA
4216981 ATGGACTTCTTAACTGCAA
1 ATGGACTTCTTAACTGCAA
4217000 CAATCCGTTC
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:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (19 bp):
ATGGACTTCTTAACTGCAA
Found at i:4223041 original size:11 final size:11
Alignment explanation
Indices: 4223010--4223051 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
4223000 ATAGTTGTGT
4223010 AATATATATT-
1 AATATATATTA
4223020 AA-A-AT-TTA
1 AATATATATTA
4223028 AATATATATTA
1 AATATATATTA
4223039 AATATATATTA
1 AATATATATTA
4223050 AA
1 AA
4223052 CAATTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
7 2 0.07
8 4 0.14
9 2 0.07
10 4 0.14
11 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AATATATATTA
Found at i:4223089 original size:25 final size:27
Alignment explanation
Indices: 4223059--4223108 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4223049 AAACAATTAT
*
4223059 TAAGTA-TT-TTTATATTTTTAATATG
1 TAAGTACTTCTTTATATTATTAATATG
4223084 TAAGTACTTCTTTATATTATTAATA
1 TAAGTACTTCTTTATATTATTAATA
4223109 CTCCAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 14 0.64
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (27 bp):
TAAGTACTTCTTTATATTATTAATATG
Found at i:4223218 original size:29 final size:29
Alignment explanation
Indices: 4223175--4223240 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
4223165 TCATGGTTTT
* * * * *
4223175 ATATATATTCGTGTTAGTTGTGTTTATTC
1 ATATATATACATGTTAGTTATGTCTACTC
4223204 ATATATATACATGTTAGTTATGTCTACTC
1 ATATATATACATGTTAGTTATGTCTACTC
*
4223233 GTATATAT
1 ATATATAT
4223241 TCGTATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (29 bp):
ATATATATACATGTTAGTTATGTCTACTC
Found at i:4224122 original size:18 final size:18
Alignment explanation
Indices: 4224091--4224136 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
4224081 TAGTAAAAAT
*
4224091 AATATCAACAACAACATCAAC
1 AATATCAACAA-AATA-C-AC
4224112 AATATCAACAAAATACAC
1 AATATCAACAAAATACAC
4224130 AATATCA
1 AATATCA
4224137 TCAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 1 0.04
20 3 0.12
21 11 0.46
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (18 bp):
AATATCAACAAAATACAC
Found at i:4226502 original size:20 final size:20
Alignment explanation
Indices: 4226453--4226500 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4226443 AATGAAATCC
*
4226453 TAGGTGAAACTCAAAAGCTT
1 TAGGTGAAACTCAAAAGCCT
*
4226473 TAGGTGAAACTCAAGA-CCT
1 TAGGTGAAACTCAAAAGCCT
4226492 TAGGTGAAA
1 TAGGTGAAA
4226501 ACCCTAAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
TAGGTGAAACTCAAAAGCCT
Found at i:4227720 original size:21 final size:21
Alignment explanation
Indices: 4227687--4227736 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4227677 AAAGTTTTGG
* * *
4227687 ATTTACTTGAATTTCATTCAT
1 ATTTAATTTAATTCCATTCAT
*
4227708 ATTTAATTTAATTCCCTTCAT
1 ATTTAATTTAATTCCATTCAT
4227729 -TTTAATTT
1 ATTTAATTT
4227737 TTCAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTAATTTAATTCCATTCAT
Found at i:4229939 original size:12 final size:12
Alignment explanation
Indices: 4229922--4229954 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4229912 AAGAGCTTTG
4229922 TCATTTATGCAT
1 TCATTTATGCAT
*
4229934 TCATTTATTCAT
1 TCATTTATGCAT
4229946 TCATTTATG
1 TCATTTATG
4229955 TATCCACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (12 bp):
TCATTTATGCAT
Found at i:4232886 original size:27 final size:25
Alignment explanation
Indices: 4232826--4232916 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 25
4232816 AAAGGTGAAG
* **
4232826 AGAAAAAAAAAAGAAAAAAGTGAAA
1 AGAAAAAGAAAAGAAAAAAAAGAAA
* *
4232851 GGAATAAGAAAAGAAAAAAAAGAACAA
1 AGAAAAAGAAAAGAAAAAAAAG-A-AA
* **
4232878 AGAAAAAGAAATGAAAATGAAG-AA
1 AGAAAAAGAAAAGAAAAAAAAGAAA
4232902 AGAAAAA-AAAAGAAA
1 AGAAAAAGAAAAGAAA
4232917 TGAATAGGTG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
23 7 0.13
24 9 0.17
25 17 0.32
26 1 0.02
27 19 0.36
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (25 bp):
AGAAAAAGAAAAGAAAAAAAAGAAA
Found at i:4233524 original size:22 final size:22
Alignment explanation
Indices: 4233488--4233568 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 22
4233478 CAATTCCAAA
* * * *
4233488 TTAGCTAGCAAATAAGTCTAGT
1 TTAGCTGGCACATAAATCCAGT
*
4233510 TTAGCTGGCACATAAATCCAGA
1 TTAGCTGGCACATAAATCCAGT
* * *
4233532 TTAGCTGGTACATAAACCCATT
1 TTAGCTGGCACATAAATCCAGT
*
4233554 TTAGTTGGCACATAA
1 TTAGCTGGCACATAA
4233569 GCCCAGTATA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (22 bp):
TTAGCTGGCACATAAATCCAGT
Found at i:4233573 original size:22 final size:22
Alignment explanation
Indices: 4233507--4233604 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
4233497 AAATAAGTCT
* *
4233507 AGTTTAGCTGGCACATAAATCC
1 AGTTTAGTTGGCACATAAACCC
* * *
4233529 AGATTAGCTGGTACATAAACCC
1 AGTTTAGTTGGCACATAAACCC
* *
4233551 ATTTTAGTTGGCACATAAGCCC
1 AGTTTAGTTGGCACATAAACCC
*
4233573 AGTATAGTT-G-ACATAAAAGCCC
1 AGTTTAGTTGGCACAT-AAA-CCC
*
4233595 AATTTAGTTG
1 AGTTTAGTTG
4233605 AAAAAGTATG
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
20 4 0.07
21 3 0.05
22 53 0.88
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (22 bp):
AGTTTAGTTGGCACATAAACCC
Found at i:4233838 original size:33 final size:33
Alignment explanation
Indices: 4233800--4234199 Score: 139
Period size: 32 Copynumber: 12.4 Consensus size: 33
4233790 ACCCTAATGG
*
4233800 AAATTTAAGCCCA-TATTAGCTTGCACCCAATAA
1 AAATTTAAGCCCAGT-TTAGCTGGCACCCAATAA
* * *
4233833 GAATTTAAGCCTAGTTTAGCTGGCACCCCATAA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
* ** * ** *
4233866 AAATTTAAACCCAAATGATTTGGCA-CCAATGA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
**
4233898 AAATTTAAG-CCAGTTTAGCTAACACCCTAATGAA
1 AAATTTAAGCCCAGTTTAGCTGGCACCC-AAT-AA
* * *
4233932 AAGTTTTAAGCCCTGTTTAGCTGGCATCCAAGT--
1 AA-ATTTAAGCCCAGTTTAGCTGGCACCCAA-TAA
* * ** * *
4233965 ---TTTAAGCCTAGATTATTTAGC-CCCAATGA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
* * * * * * *
4233994 ACATTTAAGCCCAATTTAGTTCGTATCCTAATGA
1 AAATTTAAGCCCAGTTTAGCTGGCA-CCCAATAA
** * ** *
4234028 AAATTTAAGCCCAAATTATCTGGCA-TTAATGA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
* * * * **
4234060 ACA-TTAAACCTAATTTAGCTAACACCCAATAA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
* ** * *
4234092 AAATTTAAGCCCAATTTAATTGGCACCCCATGA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
** ** *
4234125 AAA-TTAAGCCCAAATTATTTGGCA--CATATTA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCA-ATAA
* * *
4234156 AAATTTAAGCCCAATTTAGCTGGCA-TCAATGA
1 AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
4234188 AAA-TTAAGCCCA
1 AAATTTAAGCCCA
4234200 ATTAATTTGA
Statistics
Matches: 272, Mismatches: 76, Indels: 40
0.70 0.20 0.10
Matches are distributed among these distances:
27 1 0.00
28 4 0.01
29 15 0.06
30 1 0.00
31 38 0.14
32 87 0.32
33 73 0.27
34 30 0.11
35 8 0.03
36 15 0.06
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (33 bp):
AAATTTAAGCCCAGTTTAGCTGGCACCCAATAA
Found at i:4234137 original size:32 final size:32
Alignment explanation
Indices: 4233987--4234228 Score: 147
Period size: 32 Copynumber: 7.6 Consensus size: 32
4233977 TTATTTAGCC
* * * *
4233987 CCAATGAACATTTAAGCCCAATTTAGTTCGTA
1 CCAATGAAAATTTAAGCCCAATTTAATTGGCA
*
4234019 TCCTAATGAAAATTTAAGCCCAAATT-ATCTGGCA
1 -CC-AATGAAAATTTAAGCCCAATTTAAT-TGGCA
** * * * ** **
4234053 TTAATGAACA-TTAAACCTAATTTAGCTAACA
1 CCAATGAAAATTTAAGCCCAATTTAATTGGCA
*
4234084 CCCAATAAAAATTTAAGCCCAATTTAATTGGCA
1 -CCAATGAAAATTTAAGCCCAATTTAATTGGCA
* * *
4234117 CCCCATGAAAA-TTAAGCCCAAATTATTTGGCA
1 -CCAATGAAAATTTAAGCCCAATTTAATTGGCA
* **
4234149 -CATATTAAAATTTAAGCCCAATTTAGCTGGCA
1 CCA-ATGAAAATTTAAGCCCAATTTAATTGGCA
* *
4234181 TCAATGAAAA-TTAAGCCCAA-TTAATTTGACA
1 CCAATGAAAATTTAAGCCCAATTTAA-TTGGCA
* *
4234212 TCAATGAACA-TTAAGCC
1 CCAATGAAAATTTAAGCC
4234229 TAGTTTAGCT
Statistics
Matches: 161, Mismatches: 39, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
30 4 0.02
31 49 0.30
32 56 0.35
33 29 0.18
34 23 0.14
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (32 bp):
CCAATGAAAATTTAAGCCCAATTTAATTGGCA
Found at i:4234198 original size:31 final size:31
Alignment explanation
Indices: 4233988--4234240 Score: 157
Period size: 31 Copynumber: 7.9 Consensus size: 31
4233978 TATTTAGCCC
* * * *
4233988 CAATGAACATTTAAGCCCAATTTAGTTCGTAT
1 CAATGAA-AATTAAGCCCAATTTAGCTGGCAT
* *
4234020 CCTAATGAAAATTTAAGCCCAAATTATCTGGCAT
1 -C-AATGAAAA-TTAAGCCCAATTTAGCTGGCAT
* * * * ** *
4234054 TAATGAACATTAAACCTAATTTAGCTAACACC
1 CAATGAAAATTAAGCCCAATTTAGCTGGCA-T
* ** *
4234086 CAATAAAAATTTAAGCCCAATTTAATTGGCACC
1 CAATGAAAA-TTAAGCCCAATTTAGCTGGCA-T
* * **
4234119 CCATGAAAATTAAGCCCAAATTATTTGGCA-
1 CAATGAAAATTAAGCCCAATTTAGCTGGCAT
*
4234149 CATATTAAAATTTAAGCCCAATTTAGCTGGCAT
1 CA-ATGAAAA-TTAAGCCCAATTTAGCTGGCAT
* ** *
4234182 CAATGAAAATTAAGCCCAATTAATTTGACAT
1 CAATGAAAATTAAGCCCAATTTAGCTGGCAT
* * *
4234213 CAATGAACATTAAGCCTAGTTTAGCTGG
1 CAATGAAAATTAAGCCCAATTTAGCTGG
4234241 TACCCAAGTT
Statistics
Matches: 168, Mismatches: 45, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
30 1 0.01
31 60 0.36
32 56 0.33
33 28 0.17
34 23 0.14
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (31 bp):
CAATGAAAATTAAGCCCAATTTAGCTGGCAT
Found at i:4234445 original size:32 final size:31
Alignment explanation
Indices: 4234381--4234468 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 31
4234371 CAAGCTCAAA
*
4234381 TTAGCTGGCATCAATGAACA-TTAAGCCCAGT
1 TTAGTTGGCATCAATGAA-ATTTAAGCCCAGT
* *
4234412 TTAGTTGGCATCTAATGAAATTTATGCCTAGT
1 TTAGTTGGCATC-AATGAAATTTAAGCCCAGT
*
4234444 TTAGTTAGCATCAATGAAAATTTAA
1 TTAGTTGGCATCAATG-AAATTTAA
4234469 ACTCAATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
31 16 0.33
32 33 0.67
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (31 bp):
TTAGTTGGCATCAATGAAATTTAAGCCCAGT
Found at i:4238188 original size:21 final size:22
Alignment explanation
Indices: 4238162--4238210 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
4238152 TATTTTGTTC
*
4238162 TAAAAATTT-TCTTTGAAATATT
1 TAAAAATTTGT-TTTAAAATATT
4238184 TAAAAATTTGTTTTAAAATATT
1 TAAAAATTTGTTTTAAAATATT
4238206 TAAAA
1 TAAAA
4238211 TCATTACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAAAATTTGTTTTAAAATATT
Found at i:4238751 original size:20 final size:20
Alignment explanation
Indices: 4238728--4238798 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
4238718 AACCCTAGGC
*
4238728 AAAACCCTAAATCCTAAATT
1 AAAACCCTAAATCCTAAAAT
**
4238748 AAAACTATAAATTCC-AAAAT
1 AAAACCCTAAA-TCCTAAAAT
*
4238768 AAAACACTAAATCCTAAAAT
1 AAAACCCTAAATCCTAAAAT
*
4238788 GAAACCCTAAA
1 AAAACCCTAAA
4238799 CTAAAGCCCT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.21
Consensus pattern (20 bp):
AAAACCCTAAATCCTAAAAT
Found at i:4238798 original size:13 final size:13
Alignment explanation
Indices: 4238780--4238836 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
4238770 AACACTAAAT
4238780 CCTAAAATGAAAC
1 CCTAAAATGAAAC
*
4238793 CCTAAACT-AAAGC
1 CCTAAAATGAAA-C
*
4238806 CCTAGAATGAAAC
1 CCTAAAATGAAAC
*
4238819 CCT-AAGTGAAAC
1 CCTAAAATGAAAC
4238831 CC-AAAA
1 CCTAAAA
4238837 GCCTTAGGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
12 14 0.40
13 18 0.51
14 3 0.09
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.14
Consensus pattern (13 bp):
CCTAAAATGAAAC
Found at i:4238849 original size:20 final size:20
Alignment explanation
Indices: 4238824--4238908 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
4238814 GAAACCCTAA
4238824 GTGAAACCCAAAAGCCTTAG
1 GTGAAACCCAAAAGCCTTAG
* *
4238844 GTGAAACCCAAGA-CCCTAG
1 GTGAAACCCAAAAGCCTTAG
* * *
4238863 GTGAAAACCC-TAAGCCTCAA
1 GTG-AAACCCAAAAGCCTTAG
* *
4238883 GTGAAACCCTAAATCC-TAG
1 GTGAAACCCAAAAGCCTTAG
4238902 GTGAAAC
1 GTGAAAC
4238909 TTAAAACCCT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 23 0.45
20 28 0.55
ACGTcount: A:0.39, C:0.27, G:0.19, T:0.15
Consensus pattern (20 bp):
GTGAAACCCAAAAGCCTTAG
Found at i:4238860 original size:39 final size:38
Alignment explanation
Indices: 4238815--4238952 Score: 109
Period size: 39 Copynumber: 3.6 Consensus size: 38
4238805 CCCTAGAATG
* * *
4238815 AAACCCTAAGTGAAACCCAAAAGCCTTAGGTGAAACCC-
1 AAACCCTAGGTGAAACCC-AAAGCCTCAAGTGAAACCCT
*
4238853 AAGACCCTAGGTGAAAACCCTAAGCCTCAAGTGAAACCCT
1 AA-ACCCTAGGTG-AAACCCAAAGCCTCAAGTGAAACCCT
* ** * * *
4238893 AAATCCTAGGTGAAACTTAAAACC-CTAAATGAAACCTT
1 AAACCCTAGGTGAAACCCAAAGCCTC-AAGTGAAACCCT
* *
4238931 AAACCCTAAGTAAAACCTCAAA
1 AAACCCTAGGTGAAACC-CAAA
4238953 ACCATAGTTC
Statistics
Matches: 79, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 1 0.01
38 33 0.42
39 37 0.47
40 8 0.10
ACGTcount: A:0.43, C:0.27, G:0.13, T:0.17
Consensus pattern (38 bp):
AAACCCTAGGTGAAACCCAAAGCCTCAAGTGAAACCCT
Found at i:4238933 original size:20 final size:20
Alignment explanation
Indices: 4238903--4238955 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
4238893 AAATCCTAGG
4238903 TGAAA-CTTAAAACCCTAAA
1 TGAAACCTTAAAACCCTAAA
*
4238922 TGAAACCTT-AAACCCTAAG
1 TGAAACCTTAAAACCCTAAA
* *
4238941 TAAAACCTCAAAACC
1 TGAAACCTTAAAACC
4238956 ATAGTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.49, C:0.26, G:0.06, T:0.19
Consensus pattern (20 bp):
TGAAACCTTAAAACCCTAAA
Found at i:4238946 original size:19 final size:19
Alignment explanation
Indices: 4238815--4238948 Score: 85
Period size: 19 Copynumber: 6.9 Consensus size: 19
4238805 CCCTAGAATG
**
4238815 AAACCCTAAGTGAAACCCA
1 AAACCCTAAGTGAAACCTT
* * *
4238834 AAAGCCTTAGGTGAAACC-C
1 AAA-CCCTAAGTGAAACCTT
* *
4238853 AAGACCCTAGGTGAAAACCCT
1 AA-ACCCTAAGTG-AAACCTT
* *
4238874 -AAGCCTCAAGTGAAACCCT
1 AAACCCT-AAGTGAAACCTT
* *
4238893 AAATCCTAGGTGAAA-CTT
1 AAACCCTAAGTGAAACCTT
*
4238911 AAAACCCTAAATGAAACCTT
1 -AAACCCTAAGTGAAACCTT
*
4238931 AAACCCTAAGTAAAACCT
1 AAACCCTAAGTGAAACCT
4238949 CAAAACCATA
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.02
19 59 0.64
20 31 0.34
ACGTcount: A:0.43, C:0.27, G:0.13, T:0.17
Consensus pattern (19 bp):
AAACCCTAAGTGAAACCTT
Found at i:4241692 original size:22 final size:22
Alignment explanation
Indices: 4241664--4241709 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4241654 AAAATCTTTT
4241664 AAAATATATT-TT-ATAATTTTAA
1 AAAATAT-TTGTTAATAA-TTTAA
4241686 AAAATATTTGTTAATAATTTAA
1 AAAATATTTGTTAATAATTTAA
4241708 AA
1 AA
4241710 GAAAAAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.09
22 16 0.73
23 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAAATATTTGTTAATAATTTAA
Found at i:4242152 original size:23 final size:23
Alignment explanation
Indices: 4242112--4242156 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4242102 AAAATCTTTA
*
4242112 AAAAGATTTATTTTTATAATTTT
1 AAAAGATTTATTTATATAATTTT
4242135 AAAAGTATTTA-TTATATAATTT
1 AAAAG-ATTTATTTATATAATTT
4242157 AATAGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AAAAGATTTATTTATATAATTTT
Found at i:4242382 original size:21 final size:23
Alignment explanation
Indices: 4242352--4242395 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4242342 ACAACCTTTA
4242352 AAAAATATATTT-TTTAATTTTT
1 AAAAATATATTTATTTAATTTTT
*
4242374 AAAAA-ATATTTATTTATTTTTT
1 AAAAATATATTTATTTAATTTTT
4242396 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AAAAATATATTTATTTAATTTTT
Found at i:4242399 original size:23 final size:23
Alignment explanation
Indices: 4242348--4242395 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
4242338 AAATACAACC
*
4242348 TTTAAAAAATATATTTTTTAATT
1 TTTAAAAAATATATTATTTAATT
*
4242371 TTTAAAAAATAT-TTATTTATTT
1 TTTAAAAAATATATTATTTAATT
4242393 TTT
1 TTT
4242396 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAAAAAATATATTATTTAATT
Found at i:4242721 original size:4 final size:4
Alignment explanation
Indices: 4242714--4242738 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4242704 ATAAATTTAT
4242714 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
4242739 TTTTAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:4243160 original size:17 final size:17
Alignment explanation
Indices: 4243140--4243176 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4243130 TTATTCTTCC
4243140 TTTTT-GTTTTTTCAATT
1 TTTTTGGTTTTTT-AATT
4243157 TTTTTGGTTTTTTAATT
1 TTTTTGGTTTTTTAATT
4243174 TTT
1 TTT
4243177 AATTTAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (17 bp):
TTTTTGGTTTTTTAATT
Found at i:4244830 original size:7 final size:7
Alignment explanation
Indices: 4244818--4244874 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
4244808 GAGGTCTAGG
4244818 TTAAGGT
1 TTAAGGT
4244825 TTAAGGT
1 TTAAGGT
4244832 TTAAGGT
1 TTAAGGT
* *
4244839 TTTAGGA
1 TTAAGGT
4244846 TTAAGGT
1 TTAAGGT
4244853 TTAA-GT
1 TTAAGGT
*
4244859 TTAGGGT
1 TTAAGGT
*
4244866 TTTAGGT
1 TTAAGGT
4244873 TT
1 TT
4244875 TATGTTAGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (7 bp):
TTAAGGT
Found at i:4244895 original size:13 final size:13
Alignment explanation
Indices: 4244879--4244950 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 13
4244869 AGGTTTTATG
4244879 TTAGGGTTAGGGT
1 TTAGGGTTAGGGT
*
4244892 TTAGGGTT-GGTT
1 TTAGGGTTAGGGT
** *
4244904 TTATCGTTAGGAT
1 TTAGGGTTAGGGT
* **
4244917 TAAGATTTAGGGT
1 TTAGGGTTAGGGT
**
4244930 TTAGGGTTAGTCT
1 TTAGGGTTAGGGT
4244943 TTAGGGTT
1 TTAGGGTT
4244951 TCAATTTATG
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
12 9 0.20
13 35 0.80
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.44
Consensus pattern (13 bp):
TTAGGGTTAGGGT
Found at i:4245031 original size:24 final size:24
Alignment explanation
Indices: 4245003--4245052 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
4244993 GTTTGAGGAA
* *
4245003 TTAGGGTTTCATGGAATTTAGGGT
1 TTAGGGTTTAATGGAATTTAAGGT
4245027 TTAGGGTTTAATGGAATTTAAGGT
1 TTAGGGTTTAATGGAATTTAAGGT
4245051 TT
1 TT
4245053 CAAATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.44
Consensus pattern (24 bp):
TTAGGGTTTAATGGAATTTAAGGT
Found at i:4246088 original size:12 final size:12
Alignment explanation
Indices: 4246070--4246100 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4246060 CATTTAAAGA
4246070 ATTTTTTTTCAC
1 ATTTTTTTTCAC
*
4246082 CTTTTTTTTCAC
1 ATTTTTTTTCAC
4246094 ATTTTTT
1 ATTTTTT
4246101 CTTTCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTTTTTCAC
Found at i:4248890 original size:40 final size:39
Alignment explanation
Indices: 4248844--4248930 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
4248834 GATAATGGAA
* *
4248844 AAAATTTTAAAATTCTACATGGAGGTCTTAAAAATTGTTC
1 AAAATTTTAAAATTCTACATGAAGCT-TTAAAAATTGTTC
* * * * *
4248884 AAAATTTTGAGATTCTGCTTGAAGCTTTAGAAATTGTTC
1 AAAATTTTAAAATTCTACATGAAGCTTTAAAAATTGTTC
4248923 AAAATTTT
1 AAAATTTT
4248931 GAGATTTTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (39 bp):
AAAATTTTAAAATTCTACATGAAGCTTTAAAAATTGTTC
Found at i:4248979 original size:40 final size:40
Alignment explanation
Indices: 4248935--4249132 Score: 188
Period size: 40 Copynumber: 5.0 Consensus size: 40
4248925 AATTTTGAGA
* * * *
4248935 TTTTGCCTAGAGGCCTTGGAAATTATTTAAAAGTCTAAGG
1 TTTTGCCTAGAAGCCTTGGAAATCATTCAAAAATCTAAGG
* *
4248975 TTTTGCCTA-ACAGCCTTGGAAATCATTCAAAAATTTAAGT
1 TTTTGCCTAGA-AGCCTTGGAAATCATTCAAAAATCTAAGG
* * * *
4249015 TTTTGCCCA-AAGGCCTTAGAAATAATTCAAAAATCTAATG
1 TTTTGCCTAGAA-GCCTTGGAAATCATTCAAAAATCTAAGG
** *
4249055 TTTTGCC-AGAAGCCTTTAAAATCATTAAAAAATCTAAGG
1 TTTTGCCTAGAAGCCTTGGAAATCATTCAAAAATCTAAGG
* * * *
4249094 TTTT-ACTCGAAGATCTTAGAAATCATTCAAAAATCTAAG
1 TTTTGCCTAGAAG-CCTTGGAAATCATTCAAAAATCTAAG
4249133 ATTGTGCTCG
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 34 0.26
40 95 0.73
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (40 bp):
TTTTGCCTAGAAGCCTTGGAAATCATTCAAAAATCTAAGG
Found at i:4249019 original size:80 final size:79
Alignment explanation
Indices: 4248920--4249132 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 79
4248910 TTAGAAATTG
* * * * * * * *
4248920 TTCAAAATTTTGAGATTTTGCCTAGAGGCCTTGGAAATTATTTAAAAGTCTAAGGTTTTGCCTA-
1 TTCAAAAATTTAAGATTTTGCCCAAAGGCCTTAGAAATAATTCAAAAATCTAAGGTTTTGCC-AG
*
4248984 ACAGCCTTGGAAATCA
65 A-AGCCTTGAAAATCA
* *
4249000 TTCAAAAATTTAAGTTTTTGCCCAAAGGCCTTAGAAATAATTCAAAAATCTAATGTTTTGCCAGA
1 TTCAAAAATTTAAGATTTTGCCCAAAGGCCTTAGAAATAATTCAAAAATCTAAGGTTTTGCCAGA
*
4249065 AGCCTTTAAAATCA
66 AGCCTTGAAAATCA
* * * * * * ** *
4249079 TTAAAAAATCTAAGGTTTTACTCGAAGATCTTAGAAATCATTCAAAAATCTAAG
1 TTCAAAAATTTAAGATTTTGCCCAAAGGCCTTAGAAATAATTCAAAAATCTAAG
4249133 ATTGTGCTCG
Statistics
Matches: 110, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
79 57 0.52
80 53 0.48
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (79 bp):
TTCAAAAATTTAAGATTTTGCCCAAAGGCCTTAGAAATAATTCAAAAATCTAAGGTTTTGCCAGA
AGCCTTGAAAATCA
Found at i:4249167 original size:40 final size:40
Alignment explanation
Indices: 4249073--4249156 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
4249063 GAAGCCTTTA
* * *
4249073 AAATCATTAAAAAATCTAAGGTTTTACTCGAAGATCTTAG
1 AAATCATTCAAAAATCTAAGATTGTACTCGAAGATCTTAG
* * *
4249113 AAATCATTCAAAAATCTAAGATTGTGCTCGAAGTTTTTAG
1 AAATCATTCAAAAATCTAAGATTGTACTCGAAGATCTTAG
4249153 AAAT
1 AAAT
4249157 TCTCTCAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (40 bp):
AAATCATTCAAAAATCTAAGATTGTACTCGAAGATCTTAG
Found at i:4249388 original size:40 final size:39
Alignment explanation
Indices: 4249241--4249400 Score: 115
Period size: 40 Copynumber: 4.0 Consensus size: 39
4249231 GAATTGGTTT
* * * *
4249241 AAAAATTTAAAGATTTTGCTTAGAAGTCTTGAAAATCTTTC
1 AAAAATTTAAA-ATTTTACCTAGAGGTC-TAAAAATCTTTC
* * * * * *
4249282 AAAAACTTAAAAATCTACC-CGAAGGTCTCAAAATGTTTC
1 AAAAATTTAAAATTTTACCTAG-AGGTCTAAAAATCTTTC
* * * *
4249321 AAAATTTTTAAAATTTCACCAAAAGGTCATAAAAATCTTTC
1 AAAA-ATTTAAAATTTTACCTAGAGGTC-TAAAAATCTTTC
* *
4249362 AAAATTTTAAAATTTTGCCTAGAGGTCTAAAAATTCTTT
1 AAAAATTTAAAATTTTACCTAGAGGTCTAAAAA-TCTTT
4249401 TACTCATTCT
Statistics
Matches: 92, Mismatches: 22, Indels: 11
0.74 0.18 0.09
Matches are distributed among these distances:
39 21 0.23
40 47 0.51
41 24 0.26
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (39 bp):
AAAAATTTAAAATTTTACCTAGAGGTCTAAAAATCTTTC
Found at i:4249778 original size:27 final size:27
Alignment explanation
Indices: 4249743--4249794 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4249733 CAAATATACA
4249743 AATGCCTTTTTTCCTAATGCAAATGTG
1 AATGCCTTTTTTCCTAATGCAAATGTG
* * *
4249770 AATGTCTTTTTTCTTGATGCAAATG
1 AATGCCTTTTTTCCTAATGCAAATG
4249795 CTCTATACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (27 bp):
AATGCCTTTTTTCCTAATGCAAATGTG
Found at i:4250618 original size:11 final size:11
Alignment explanation
Indices: 4250602--4250626 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4250592 TACTTTATCA
4250602 TTTTTTTTCTT
1 TTTTTTTTCTT
4250613 TTTTTTTTCTT
1 TTTTTTTTCTT
4250624 TTT
1 TTT
4250627 AGGGACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:4253582 original size:7 final size:7
Alignment explanation
Indices: 4253570--4253689 Score: 64
Period size: 7 Copynumber: 18.6 Consensus size: 7
4253560 AAAGTTTGGT
4253570 TTTAGGG
1 TTTAGGG
4253577 TTTAGGG
1 TTTAGGG
*
4253584 --TA-GT
1 TTTAGGG
4253588 TTTAGGG
1 TTTAGGG
4253595 TTT-GGG
1 TTTAGGG
4253601 -TTAGGG
1 TTTAGGG
* *
4253607 TTTTGAG
1 TTTAGGG
4253614 TTT--GG
1 TTTAGGG
*
4253619 TTTAAGG
1 TTTAGGG
*
4253626 -TTATGG
1 TTTAGGG
4253632 TTT-GGTG
1 TTTAGG-G
4253639 TTTA-GG
1 TTTAGGG
4253645 TTTAGGG
1 TTTAGGG
* *
4253652 TTT-TGA
1 TTTAGGG
*
4253658 TTTTGGG
1 TTTAGGG
*
4253665 TTTAGAG
1 TTTAGGG
*
4253672 TTTAGAG
1 TTTAGGG
4253679 TTTAGGG
1 TTTAGGG
4253686 TTTA
1 TTTA
4253690 AAATGGTGGT
Statistics
Matches: 87, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
4 1 0.01
5 8 0.09
6 23 0.26
7 55 0.63
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:4253591 original size:18 final size:17
Alignment explanation
Indices: 4253568--4253601 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
4253558 TCAAAGTTTG
4253568 GTTTTAGGGTTTAGGGTA
1 GTTTTAGGGTTT-GGGTA
4253586 GTTTTAGGGTTTGGGT
1 GTTTTAGGGTTTGGGT
4253602 TAGGGTTTTG
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:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (17 bp):
GTTTTAGGGTTTGGGTA
Found at i:4253618 original size:19 final size:18
Alignment explanation
Indices: 4253593--4253646 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
4253583 GTAGTTTTAG
* *
4253593 GGTTTGGGTTAGGGTTTT
1 GGTTTGGGTTAAGGTTAT
*
4253611 GAGTTTGGTTTAAGGTTAT
1 G-GTTTGGGTTAAGGTTAT
*
4253630 GGTTTGGTGTTTAGGTT
1 GGTTTGG-GTTAAGGTT
4253647 TAGGGTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (18 bp):
GGTTTGGGTTAAGGTTAT
Found at i:4253654 original size:13 final size:13
Alignment explanation
Indices: 4253570--4253689 Score: 56
Period size: 13 Copynumber: 9.3 Consensus size: 13
4253560 AAAGTTTGGT
4253570 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
* *
4253583 -GTA-GTTTTAGGG
1 TTTAGGGTTTA-GG
4253595 TTT-GGG-TTAGGG
1 TTTAGGGTTTA-GG
* *
4253607 TTTTGAGTTT-GG
1 TTTAGGGTTTAGG
*
4253619 TTTAAGG-TTATGG
1 TTTAGGGTTTA-GG
4253632 TTT-GGTGTTTAGG
1 TTTAGG-GTTTAGG
* *
4253645 TTTAGGGTTTTGA
1 TTTAGGGTTTAGG
*
4253658 TTTTGGGTTTAGAG
1 TTTAGGGTTTAG-G
*
4253672 TTTAGAGTTTAGGG
1 TTTAGGGTTTA-GG
4253686 TTTA
1 TTTA
4253690 AAATGGTGGT
Statistics
Matches: 79, Mismatches: 16, Indels: 23
0.67 0.14 0.19
Matches are distributed among these distances:
11 7 0.09
12 20 0.25
13 30 0.38
14 21 0.27
15 1 0.01
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:4253666 original size:20 final size:21
Alignment explanation
Indices: 4253639--4253689 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4253629 TGGTTTGGTG
* *
4253639 TTTA-GGTTTAGGGTTTTGA-
1 TTTAGGGTTTAGAGTTTAGAG
*
4253658 TTTTGGGTTTAGAGTTTAGAG
1 TTTAGGGTTTAGAGTTTAGAG
4253679 TTTAGGGTTTA
1 TTTAGGGTTTA
4253690 AAATGGTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTAGAGTTTAGAG
Found at i:4253729 original size:26 final size:26
Alignment explanation
Indices: 4253696--4253753 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
4253686 TTTAAAATGG
4253696 TGGTTTAAGACTTAAGGTTTGGATAA
1 TGGTTTAAGACTTAAGGTTTGGATAA
*
4253722 TGGTTTAAGGCTTAAGGTTTGGATAA
1 TGGTTTAAGACTTAAGGTTTGGATAA
4253748 TGGTTT
1 TGGTTT
4253754 GGGGTTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (26 bp):
TGGTTTAAGACTTAAGGTTTGGATAA
Found at i:4253811 original size:26 final size:26
Alignment explanation
Indices: 4253781--4253850 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
4253771 GGCGATTTAA
*
4253781 AGGTTTGGATGGTGGTTTATGATTT-
1 AGGTTTGGATGGTGGTTTAGGATTTC
* *
4253806 AGGGTTTCGG-TGATGGTTTAGGGTTTC
1 A-GGTTT-GGATGGTGGTTTAGGATTTC
*
4253833 AGGTATGGATGGTGGTTT
1 AGGTTTGGATGGTGGTTT
4253851 TGGGTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
25 3 0.08
26 30 0.83
27 3 0.08
ACGTcount: A:0.14, C:0.03, G:0.40, T:0.43
Consensus pattern (26 bp):
AGGTTTGGATGGTGGTTTAGGATTTC
Found at i:4253840 original size:19 final size:18
Alignment explanation
Indices: 4253798--4253840 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
4253788 GATGGTGGTT
*
4253798 TATGATTTAGGGTTTCGG
1 TATGGTTTAGGGTTTCGG
4253816 TGATGGTTTAGGGTTTCAGG
1 T-ATGGTTTAGGGTTTC-GG
4253836 TATGG
1 TATGG
4253841 ATGGTGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.16, C:0.05, G:0.37, T:0.42
Consensus pattern (18 bp):
TATGGTTTAGGGTTTCGG
Found at i:4254727 original size:10 final size:9
Alignment explanation
Indices: 4254703--4254729 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4254693 TGGAGTCCCA
4254703 AATTTTTTC
1 AATTTTTTC
4254712 AATTTTTTC
1 AATTTTTTC
4254721 AATTTTTTC
1 AATTTTTTC
4254730 TCTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (9 bp):
AATTTTTTC
Found at i:4261784 original size:21 final size:21
Alignment explanation
Indices: 4261758--4261803 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4261748 ATAGTTGGTA
* *
4261758 TGGTTGTTAACCATACTGATG
1 TGGTTGTTAACCATACCGACG
*
4261779 TGGTTGTTAATCATACCGACG
1 TGGTTGTTAACCATACCGACG
4261800 TGGT
1 TGGT
4261804 GTTTGCTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (21 bp):
TGGTTGTTAACCATACCGACG
Found at i:4262079 original size:31 final size:32
Alignment explanation
Indices: 4262006--4262081 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
4261996 ATATTAGCTT
*
4262006 TATTAT-ATATAATTAACTATTTATAATATCA
1 TATTATAATATTATTAACTATTTATAATATCA
* *
4262037 TATTAATAATATTATTATC-ATTTATATTACTCA
1 TATT-ATAATATTATTAACTATTTATAATA-TCA
4262070 -ATTATAATATTA
1 TATTATAATATTA
4262082 ATAATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
31 13 0.33
32 14 0.36
33 12 0.31
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (32 bp):
TATTATAATATTATTAACTATTTATAATATCA
Found at i:4262991 original size:31 final size:30
Alignment explanation
Indices: 4262955--4263068 Score: 131
Period size: 31 Copynumber: 3.7 Consensus size: 30
4262945 CGTTAAATAC
* * *
4262955 AAATTTTATGTAATTATAGAGATTAAATTTT
1 AAATTTCATATAAGTATA-AGATTAAATTTT
**
4262986 AAATTTCATACGAGTATAATGATTAAATTTT
1 AAATTTCATATAAGTATAA-GATTAAATTTT
*
4263017 AAATTTCATATAAGCATAAAGATTAAATTTT
1 AAATTTCATATAAGTAT-AAGATTAAATTTT
4263048 AAATTTCATATGAA-TATAAGA
1 AAATTTCATAT-AAGTATAAGA
4263069 ACATTTGTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
30 5 0.07
31 62 0.87
32 4 0.06
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (30 bp):
AAATTTCATATAAGTATAAGATTAAATTTT
Found at i:4267240 original size:3 final size:3
Alignment explanation
Indices: 4267232--4267289 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
4267222 CTTTTTCCTG
4267232 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4267280 ATA ATA ATA A
1 ATA ATA ATA A
4267290 AGTCATACTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4268830 original size:22 final size:22
Alignment explanation
Indices: 4268802--4268845 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4268792 CTAAATCTTC
* *
4268802 CTTAATTCTAGGGATAGAAATA
1 CTTAATTCTAGAGATACAAATA
4268824 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4268846 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:4272526 original size:25 final size:23
Alignment explanation
Indices: 4272492--4272554 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 23
4272482 TTTGAAAGGG
*
4272492 TTCGGCAATGAAGGCCTAAACAGGA
1 TTCGGCAATGAAGGCCTAAA-A-AA
*
4272517 TTCGGCAATGAAAGCCTAAAAAA
1 TTCGGCAATGAAGGCCTAAAAAA
*
4272540 GTCGGCAATGAAGGC
1 TTCGGCAATGAAGGC
4272555 TGAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 14 0.41
24 1 0.03
25 19 0.56
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.16
Consensus pattern (23 bp):
TTCGGCAATGAAGGCCTAAAAAA
Found at i:4272730 original size:22 final size:22
Alignment explanation
Indices: 4272702--4272745 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4272692 CTAAATCTTC
* *
4272702 CTTAATTCTAGGGATAGAAATA
1 CTTAATTCTAGAGATACAAATA
4272724 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4272746 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:4278441 original size:16 final size:16
Alignment explanation
Indices: 4278420--4278457 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4278410 ATGGACTTAT
4278420 CTGAGACATTTAATCC
1 CTGAGACATTTAATCC
4278436 CTGAGACATTTAATCC
1 CTGAGACATTTAATCC
*
4278452 ATGAGA
1 CTGAGA
4278458 ATTAGAGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (16 bp):
CTGAGACATTTAATCC
Found at i:4282014 original size:132 final size:132
Alignment explanation
Indices: 4281747--4281985 Score: 367
Period size: 132 Copynumber: 1.8 Consensus size: 132
4281737 TACAACTTTC
* *
4281747 TTCTCTGCTCTAAATTTAGCTTTTTATTTTTTATTTTTTATTTTGAAAGTATCAGTGACTGATGT
1 TTCTCTGCTCTAAATTCAGCTTTTTATTTTTTACTTTTTATTTTGAAAGTATCAGTGACTGATGT
* * * * *
4281812 ATTTGACATTCTTTTCAATTCATATTCTAACGAACTTATTTTGAAAGTATCAGTGACAGATGTAT
66 ATTTGACATTCTTTTCAATTCATATTCTAACGAACTTATCTGGAAAGTATCACTCACACATGTAT
4281877 TT
131 TT
*
4281879 TTCTCTGCTCTAAATTCAGCTTTTT-TTTATTTACTTTTTCTTTTGAAAGTATCAGTGACAT-AT
1 TTCTCTGCTCTAAATTCAGCTTTTTATTT-TTTACTTTTTATTTTGAAAGTATCAGTGAC-TGAT
4281942 GTATTTGACATTCTTTTCAATTCATATTCTAACGAACTTA-CTGG
64 GTATTTGACATTCTTTTCAATTCATATTCTAACGAACTTATCTGG
4281986 CTCTGCTTCC
Statistics
Matches: 100, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
131 5 0.05
132 94 0.94
133 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (132 bp):
TTCTCTGCTCTAAATTCAGCTTTTTATTTTTTACTTTTTATTTTGAAAGTATCAGTGACTGATGT
ATTTGACATTCTTTTCAATTCATATTCTAACGAACTTATCTGGAAAGTATCACTCACACATGTAT
TT
Found at i:4300976 original size:16 final size:16
Alignment explanation
Indices: 4300951--4301009 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
4300941 ATTATTGAAA
4300951 TAAA-ATTTTTAATATT
1 TAAATATTTTT-ATATT
*
4300967 TAAATATTTTTATAAT
1 TAAATATTTTTATATT
*
4300983 TAAATTTTTTTATATT
1 TAAATATTTTTATATT
*
4300999 TACATATTTTT
1 TAAATATTTTT
4301010 TAGAATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 31 0.84
17 6 0.16
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TAAATATTTTTATATT
Found at i:4300992 original size:32 final size:33
Alignment explanation
Indices: 4300951--4301021 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
4300941 ATTATTGAAA
*
4300951 TAAAATTTTTAATATTTAAATA-TTTTTATAAT
1 TAAAATTTTTAATATTTAAATATTTTTTAGAAT
* * *
4300983 TAAATTTTTTTATATTTACATATTTTTTAGAAT
1 TAAAATTTTTAATATTTAAATATTTTTTAGAAT
4301016 TAAAAT
1 TAAAAT
4301022 GTTCAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (33 bp):
TAAAATTTTTAATATTTAAATATTTTTTAGAAT
Found at i:4306638 original size:20 final size:20
Alignment explanation
Indices: 4306613--4306656 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4306603 TTTTAGGTTT
4306613 ATTTTTAGTA-TTGTTGAGGA
1 ATTTTT-GTATTTGTTGAGGA
* *
4306633 ATTTTTTTATTTGTTGAGTA
1 ATTTTTGTATTTGTTGAGGA
4306653 ATTT
1 ATTT
4306657 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (20 bp):
ATTTTTGTATTTGTTGAGGA
Found at i:4308092 original size:18 final size:18
Alignment explanation
Indices: 4308069--4308103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4308059 TTATAGCATA
4308069 TGGGTCAACTTTACCATG
1 TGGGTCAACTTTACCATG
*
4308087 TGGGTCAGCTTTACCAT
1 TGGGTCAACTTTACCAT
4308104 AGATATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (18 bp):
TGGGTCAACTTTACCATG
Found at i:4311305 original size:2 final size:2
Alignment explanation
Indices: 4311298--4311329 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4311288 AACCCCACTC
4311298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4311330 GTCATGGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4314674 original size:25 final size:23
Alignment explanation
Indices: 4314624--4314681 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
4314614 TTATTCTTTT
*
4314624 TTTTTTTTTTTCATTTACTTAGC
1 TTTTTTTTTTACATTTACTTAGC
*
4314647 TTTAATTTTTTTACACTTTATTTA-C
1 TTT--TTTTTTTACA-TTTACTTAGC
4314672 TTTTTTTTTT
1 TTTTTTTTTT
4314682 GTAATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.33
25 13 0.43
26 7 0.23
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTTTTTTACATTTACTTAGC
Found at i:4315615 original size:21 final size:24
Alignment explanation
Indices: 4315591--4315635 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4315581 CACCATTTTG
4315591 TATTTT-TT-TTCTT-TTTTCTTT
1 TATTTTCTTCTTCTTCTTTTCTTT
4315612 TATTTTCCTTCTTCTTCTTTTCTT
1 TATTTT-CTTCTTCTTCTTTTCTT
4315636 ATTTGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
23 2 0.10
24 5 0.25
25 7 0.35
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (24 bp):
TATTTTCTTCTTCTTCTTTTCTTT
Found at i:4315617 original size:17 final size:19
Alignment explanation
Indices: 4315593--4315632 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4315583 CCATTTTGTA
4315593 TTTTTTTT-CTT-TT-TTC
1 TTTTTTTTCCTTCTTCTTC
4315609 TTTTATTTTCCTTCTTCTTC
1 TTTT-TTTTCCTTCTTCTTC
4315629 TTTT
1 TTTT
4315633 CTTATTTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.20
17 4 0.20
18 3 0.15
19 2 0.10
20 7 0.35
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTTCCTTCTTCTTC
Found at i:4317962 original size:10 final size:11
Alignment explanation
Indices: 4317938--4317963 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4317928 ATTTTTTAAT
4317938 AAAACAAATCA
1 AAAACAAATCA
4317949 AAAACAAATCA
1 AAAACAAATCA
4317960 AAAA
1 AAAA
4317964 TGAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAACAAATCA
Found at i:4329111 original size:47 final size:47
Alignment explanation
Indices: 4328987--4329316 Score: 310
Period size: 47 Copynumber: 7.0 Consensus size: 47
4328977 ACTCGGTTTC
* * *
4328987 GTTAAAGTTGTTGAA-CCTTTATTTAGATGAGCTTTTTCAAGATAAAAAT
1 GTTAAAGTTGTT-AAGCCTTTGTTTAGAGGAGCTTTTTCAAGAT--GAAT
* * * *
4329036 TTTAAAATTGTTAAGCCTCTATTTAGAGGAGCTTTTTCGAAGATGAAT
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTC-AAGATGAAT
4329084 GTTAAAGTT-TTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAAT
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAAT
* * * * * *
4329130 TTTAAAGTTATTAAGCCTCTGCTTAGAGGAGCTTTTTTAAGAT-AAA
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAAT
* *
4329176 GTTTAAAGTTGTTAAGCCTTTGATTA-AGAAGCTTTTTCAAGATGAATT
1 G-TTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAA-T
* * ** * * *
4329224 TTTTAAGTCATTGAGCCTTTGCTTAGAGGAGCTTTTCCAAGATGAAAT
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATG-AAT
* * * * * *
4329272 -TTAAAGTCGTTGAGTCTCTGTTTATAAGAGCTTTTTCAAGATGAA
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAA
4329317 GTACTTAGAG
Statistics
Matches: 236, Mismatches: 37, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
46 36 0.15
47 133 0.56
48 29 0.12
49 33 0.14
50 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (47 bp):
GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAAT
Found at i:4329158 original size:94 final size:95
Alignment explanation
Indices: 4328987--4329316 Score: 359
Period size: 94 Copynumber: 3.5 Consensus size: 95
4328977 ACTCGGTTTC
* * * * *
4328987 GTTAAAGTTGTTGAA-CCTTTATTTAGATGAGCTTTTTCAAGATAAAAATTTTAAAATTGTTAAG
1 GTTAAAGTTGTT-AAGCCTTTGTTTAGAGGAGCTTTTTCAAGAT--GAATTTTAAAGTTATTAAG
** *
4329051 CCTCTATTTAGAGGAGCTTTTTCGAAGATGAAT
63 CCTCTGCTTAGAGGAGCTTTTTCCAAGATGAAT
4329084 GTTAAAGTT-TTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAATTTTAAAGTTATTAAGCCT
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAATTTTAAAGTTATTAAGCCT
* *
4329148 CTGCTTAGAGGAGCTTTTT-TAAGAT-AAA
66 CTGCTTAGAGGAGCTTTTTCCAAGATGAAT
* * * * *
4329176 GTTTAAAGTTGTTAAGCCTTTGATTA-AGAAGCTTTTTCAAGATGAATTTTTTAAGTCATTGAGC
1 G-TTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAA-TTTTAAAGTTATTAAGC
*
4329240 CTTTGCTTAGAGGAGC-TTTTCCAAGATGAAAT
64 CTCTGCTTAGAGGAGCTTTTTCCAAGATG-AAT
* * * * * *
4329272 -TTAAAGTCGTTGAGTCTCTGTTTATAAGAGCTTTTTCAAGATGAA
1 GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAA
4329317 GTACTTAGAG
Statistics
Matches: 201, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
92 3 0.01
93 36 0.18
94 103 0.51
95 20 0.10
96 30 0.15
97 9 0.04
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (95 bp):
GTTAAAGTTGTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAATTTTAAAGTTATTAAGCCT
CTGCTTAGAGGAGCTTTTTCCAAGATGAAT
Found at i:4329250 original size:141 final size:142
Alignment explanation
Indices: 4329009--4329313 Score: 366
Period size: 141 Copynumber: 2.1 Consensus size: 142
4328999 GAACCTTTAT
* * *
4329009 TTAGATGAGCTTTTTCAAGATAAAAATTTTAAAATTGTTAAGCCTCTATTTAGAGGAGCTTTTTC
1 TTAGAGGAGCTTTTTCAAGAT-AAAAGTTTAAAATTGTTAAGCCTCTATTTAGAGAAGCTTTTTC
* * * *
4329074 GAAGATGAATGTTAAAGTTTTAAGCCTTTGTTTAGAGGAGCTTTTTCAAGATGAATTTTAAAGTT
65 GAAGATGAATGTTAAAGTATTAAGCCTTTGCTTAGAGGAGCTTTTCCAAGATGAAATTTAAAGTT
4329139 ATTAAGCCTCTGC
130 ATTAAGCCTCTGC
* * *
4329152 TTAGAGGAGCTTTTTTAAGAT-AAAGTTTAAAGTTGTTAAGCCTTTGA-TTA-AGAAGCTTTTTC
1 TTAGAGGAGCTTTTTCAAGATAAAAGTTTAAAATTGTTAAGCCTCT-ATTTAGAGAAGCTTTTTC
* * *
4329214 -AAGATGAATTTTTTAAGTCATTGAGCCTTTGCTTAGAGGAGCTTTTCCAAGATGAAATTTAAAG
65 GAAGATGAA-TGTTAAAGT-ATTAAGCCTTTGCTTAGAGGAGCTTTTCCAAGATGAAATTTAAAG
** * * *
4329278 TCGTTGAGTCTCTGT
128 TTATTAAGCCTCTGC
* *
4329293 TTATAAGAGCTTTTTCAAGAT
1 TTAGAGGAGCTTTTTCAAGAT
4329314 GAAGTACTTA
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
139 8 0.06
140 18 0.13
141 92 0.67
142 1 0.01
143 19 0.14
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (142 bp):
TTAGAGGAGCTTTTTCAAGATAAAAGTTTAAAATTGTTAAGCCTCTATTTAGAGAAGCTTTTTCG
AAGATGAATGTTAAAGTATTAAGCCTTTGCTTAGAGGAGCTTTTCCAAGATGAAATTTAAAGTTA
TTAAGCCTCTGC
Found at i:4329405 original size:48 final size:47
Alignment explanation
Indices: 4329320--4329470 Score: 187
Period size: 48 Copynumber: 3.2 Consensus size: 47
4329310 AGATGAAGTA
* *
4329320 CTTAGAGAAGATTTTTTCAA-ATGAAGTTTAAAGTTGTTGAGCCTTTG
1 CTTAGAGGAGA-TTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTTTG
* * * * *
4329367 TTTATAGGAGCTTTTTCAAGATAGATTTTTAAAATTGTTGAGCCTTTG
1 CTTAGAGGAGATTTTTCAAGAT-GAATTTTAAAGTTGTTGAGCCTTTG
* * *
4329415 CTCAGAGCAGATTTTTCAAGATGAATTTTAAAGTTGTTGAGCTTTTG
1 CTTAGAGGAGATTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTTTG
4329462 CTTAGAGGA
1 CTTAGAGGA
4329471 ACCTTTTTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
46 8 0.09
47 38 0.45
48 39 0.46
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (47 bp):
CTTAGAGGAGATTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTTTG
Found at i:4329606 original size:87 final size:88
Alignment explanation
Indices: 4329450--4329665 Score: 249
Period size: 87 Copynumber: 2.5 Consensus size: 88
4329440 TTTTAAAGTT
* * * * * *
4329450 GTTGAGCTTTTGCTTAGAGGAACCTTTTTAAATTTTCAAAATGTTGTTGAGCCTCTGCCTAGATG
1 GTTGAGCTTCTGCTTAGAGGAACC-TTTTAAATTTTTAAAATGTCGTTAAGCCTCTGCCTAAAAG
*
4329515 AGCCTCTTTAAATTTTCAAAAATC
65 AGCCTCTTTAAAATTTCAAAAATC
* *
4329539 GTTGAG-TCTCTGTTTAGAGGAACCTTTTAAATTTTTAAAA-GTCGTTAAGCCTCTGCTTAAAAG
1 GTTGAGCT-TCTGCTTAGAGGAACCTTTTAAATTTTTAAAATGTCGTTAAGCCTCTGCCTAAAAG
* * *
4329602 AGCCTTTTTAAAATTTCAAAAGTT
65 AGCCTCTTTAAAATTTCAAAAATC
** *
4329626 GTTGAGCTTCTGCTTA-AATAAGCTTTTTAAATTTTTAAAA
1 GTTGAGCTTCTGCTTAGAGGAA-CCTTTTAAATTTTTAAAA
4329666 AAGTTATTGA
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
86 3 0.03
87 68 0.63
88 17 0.16
89 20 0.19
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (88 bp):
GTTGAGCTTCTGCTTAGAGGAACCTTTTAAATTTTTAAAATGTCGTTAAGCCTCTGCCTAAAAGA
GCCTCTTTAAAATTTCAAAAATC
Found at i:4329638 original size:44 final size:44
Alignment explanation
Indices: 4329444--4329665 Score: 209
Period size: 44 Copynumber: 5.1 Consensus size: 44
4329434 GATGAATTTT
* * *
4329444 AAAGTTGTTGAGCTTTTGCTTAGAGGAACCTTTTTAAATTTTCA
1 AAAGTTGTTGAGCTTCTGCTTAGAAGAGCCTTTTTAAATTTTCA
* * * *
4329488 AAATGTTGTTGAGCCTCTGCCTAGATGAGCCTCTTTAAATTTTCA
1 AAA-GTTGTTGAGCTTCTGCTTAGAAGAGCCTTTTTAAATTTTCA
* * * * * *
4329533 AAAATCGTTGAG-TCTCTGTTTAGAGGAACC-TTTTAAATTTTTA
1 AAAGTTGTTGAGCT-TCTGCTTAGAAGAGCCTTTTTAAATTTTCA
* * * * *
4329576 AAAGTCGTTAAGCCTCTGCTTAAAAGAGCCTTTTTAAAATTTCA
1 AAAGTTGTTGAGCTTCTGCTTAGAAGAGCCTTTTTAAATTTTCA
* *
4329620 AAAGTTGTTGAGCTTCTGCTTA-AATAAG-CTTTTTAAATTTTTA
1 AAAGTTGTTGAGCTTCTGCTTAGAA-GAGCCTTTTTAAATTTTCA
4329663 AAA
1 AAA
4329666 AAGTTATTGA
Statistics
Matches: 143, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
43 51 0.36
44 54 0.38
45 38 0.27
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (44 bp):
AAAGTTGTTGAGCTTCTGCTTAGAAGAGCCTTTTTAAATTTTCA
Found at i:4329835 original size:3 final size:3
Alignment explanation
Indices: 4329823--4329897 Score: 88
Period size: 3 Copynumber: 26.3 Consensus size: 3
4329813 TACCATTTTG
*
4329823 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TTT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4329868 TTT TAT TAT T-T TAT TATT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
4329898 TTTTATTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
2 10 0.16
3 50 0.79
4 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:4329844 original size:12 final size:11
Alignment explanation
Indices: 4329823--4329904 Score: 96
Period size: 11 Copynumber: 7.4 Consensus size: 11
4329813 TACCATTTTG
4329823 TATT-TTATTAT
1 TATTATTATT-T
4329834 TATTATTATTAT
1 TATTATTATT-T
*
4329846 TATTATTATTA
1 TATTATTATTT
*
4329857 TATTTTTATTT
1 TATTATTATTT
*
4329868 TTTTATTATTT
1 TATTATTATTT
4329879 TATTATTTATTT
1 TATTA-TTATTT
4329891 TATTATT-TTT
1 TATTATTATTT
4329901 TATT
1 TATT
4329905 TTTTTATCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
10 7 0.11
11 28 0.44
12 28 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTATTATTT
Found at i:4329902 original size:15 final size:15
Alignment explanation
Indices: 4329817--4329911 Score: 79
Period size: 15 Copynumber: 6.1 Consensus size: 15
4329807 TATAAATACC
*
4329817 ATTTTGTATTTTATT
1 ATTTTTTATTTTATT
4329832 ATTATTATTATTATTATT
1 ATT-TT-TTATT-TTATT
*
4329850 A-TTATTATATTT-TT
1 ATTTTTTAT-TTTATT
4329864 ATTTTTTTATTATT-TT
1 A-TTTTTTATT-TTATT
*
4329880 ATTATTTATTTTATT
1 ATTTTTTATTTTATT
*
4329895 ATTTTTTATTTTTTT
1 ATTTTTTATTTTATT
4329910 AT
1 AT
4329912 CTTTCTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.08
15 35 0.53
16 15 0.23
17 5 0.08
18 6 0.09
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (15 bp):
ATTTTTTATTTTATT
Found at i:4336077 original size:2 final size:2
Alignment explanation
Indices: 4336070--4336108 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4336060 TTCTATATTC
4336070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4336109 CTGGAAAGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4336424 original size:2 final size:2
Alignment explanation
Indices: 4336417--4336453 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4336407 CAAATGAGGA
4336417 AT 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 AT A
4336454 ATAGTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4338485 original size:120 final size:122
Alignment explanation
Indices: 4338350--4338654 Score: 344
Period size: 129 Copynumber: 2.5 Consensus size: 122
4338340 AAAGATTACT
* *
4338350 AAATCACCACCTTCTCCAAATCCAGCACCATCAAAACATCACGGAACAATTGAACAACCTATAAA
1 AAATCACCACCTTCTCCAAATCCAGCACCATCAAAACATCAAGGAACAATTGAACAACCGATAAA
* *
4338415 ACAAA-G-TCCAGAGTTTCAGTTCAAATCCATATTTCCTAATTTCGGAAAGACCCCA
66 ACAAAGGCTCCAGAGTTTCAGTTCAAATCCATATCTACTAATTTCGGAAAGACCCCA
* * * * * * *
4338470 AAATCACCACCTTCTCCAGATCCAGCGCCATCAAAACATCAAGGAACGATCGAGCAGCCGATACA
1 AAATCACCACCTTCTCCAAATCCAGCACCATCAAAACATCAAGGAACAATTGAACAACCGATAAA
* * * * * *
4338535 ACAAAGGTCATCACCTCCAGATTTTCAGTTTAAATCCATGTCTACTCATTTTGGGAAGACCCCA
66 ACAAAGG-------CTCCAGAGTTTCAGTTCAAATCCATATCTACTAATTTCGGAAAGACCCCA
* * * *
4338599 AAATCACCACCATCTCCTAACCCAGCACCATCAAAACATCAAGGAATAATTGAACA
1 AAATCACCACCTTCTCCAAATCCAGCACCATCAAAACATCAAGGAACAATTGAACA
4338655 TCCAACACAA
Statistics
Matches: 150, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
120 61 0.41
121 1 0.01
129 88 0.59
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.21
Consensus pattern (122 bp):
AAATCACCACCTTCTCCAAATCCAGCACCATCAAAACATCAAGGAACAATTGAACAACCGATAAA
ACAAAGGCTCCAGAGTTTCAGTTCAAATCCATATCTACTAATTTCGGAAAGACCCCA
Found at i:4338665 original size:129 final size:126
Alignment explanation
Indices: 4338421--4338687 Score: 320
Period size: 129 Copynumber: 2.1 Consensus size: 126
4338411 TAAAACAAAG
* * * *
4338421 TCCAGAGTTTCAGTTCAAATCCATATTTCCTAATTTCGGAAAGACCCCAAAATCACCACCTTCTC
1 TCCAGATTTTCAGTTCAAATCCATATCTACTAATTTCGGAAAGACCCCAAAATCACCACCATCTC
* * * * * * *
4338486 CAGATCCAGCGCCATCAAAACATCAAGGAACGATCGAGCAGCCGATACAACAAAGGTCATCACC
66 CAGACCCAGCACCATCAAAACATCAAGGAACAATCGAACAGCCAACACAACAAA---AATCACC
* * * * *
4338550 TCCAGATTTTCAGTTTAAATCCATGTCTACTCATTTTGGGAAGACCCCAAAATCACCACCATCTC
1 TCCAGATTTTCAGTTCAAATCCATATCTACTAATTTCGGAAAGACCCCAAAATCACCACCATCTC
* * *
4338615 CTA-ACCCAGCACCATCAAAACATCAAGGAATAATTGAACATCCAACACAACAAAAATCACC
66 C-AGACCCAGCACCATCAAAACATCAAGGAACAATCGAACAGCCAACACAACAAAAATCACC
4338676 TCCAGATTTTCA
1 TCCAGATTTTCA
4338688 AATTGCTTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
126 18 0.15
129 99 0.84
130 1 0.01
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.22
Consensus pattern (126 bp):
TCCAGATTTTCAGTTCAAATCCATATCTACTAATTTCGGAAAGACCCCAAAATCACCACCATCTC
CAGACCCAGCACCATCAAAACATCAAGGAACAATCGAACAGCCAACACAACAAAAATCACC
Found at i:4344654 original size:7 final size:7
Alignment explanation
Indices: 4344637--4344666 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
4344627 CTAATAATTT
4344637 AAATATAA
1 AAAT-TAA
4344645 AAATTAA
1 AAATTAA
4344652 AAATTAA
1 AAATTAA
4344659 AAATTAA
1 AAATTAA
4344666 A
1 A
4344667 CTAGGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTAA
Found at i:4361150 original size:72 final size:73
Alignment explanation
Indices: 4361009--4361185 Score: 176
Period size: 72 Copynumber: 2.4 Consensus size: 73
4360999 TATTTTCATC
* * * ** * * *
4361009 CATGATTCTATTAGCAAACTTATTATTTCTAGGATTGTCACTATTCGTGTTGCATTTGTTTTGGA
1 CATGAATCTATTAGAAAACTTATTATTTCTAGAATTGTCACTATTAATGCTGCACTTGTTTTAGA
4361074 AAATTGAT
66 AAATTGAT
* * * *
4361082 CATGAATCTATTAGAAAACTTA-TATTTTTATAATTGTTACTATTAATGCTGCACTTGTTTTAGC
1 CATGAATCTATTAGAAAACTTATTATTTCTAGAATTGTCACTATTAATGCTGCACTTGTTTTAGA
*
4361146 AAATTAAT
66 AAATTGAT
** * * **
4361154 TTTGATTCTATTAGGAAGTTTATTATTTCTAG
1 CATGAATCTATTAGAAAACTTATTATTTCTAG
4361186 TTTTTTATAT
Statistics
Matches: 82, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
72 55 0.67
73 27 0.33
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (73 bp):
CATGAATCTATTAGAAAACTTATTATTTCTAGAATTGTCACTATTAATGCTGCACTTGTTTTAGA
AAATTGAT
Found at i:4362331 original size:19 final size:20
Alignment explanation
Indices: 4362294--4362331 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4362284 TTAGGATTTC
* *
4362294 AAAAATTTTTGAACTTCTTT
1 AAAAATTTCTGAACATCTTT
4362314 AAAAATTTCT-AACATCTT
1 AAAAATTTCTGAACATCTT
4362332 GATAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAAATTTCTGAACATCTTT
Found at i:4366292 original size:24 final size:25
Alignment explanation
Indices: 4366260--4366354 Score: 72
Period size: 29 Copynumber: 3.7 Consensus size: 25
4366250 ATTAATTGAC
*
4366260 ATGTGAATGCAATCAAAACAAATA-
1 ATGTAAATGCAATCAAAACAAATAT
4366284 ATGTAAATGCCAAT--AAA-AAATAT
1 ATGTAAATG-CAATCAAAACAAATAT
**
4366307 ATGTAAATGTGATACAAAACAAATTGAGT
1 ATGTAAATGCAAT-CAAAACAAA-T-A-T
*
4366336 GTGTAAATGCAAGTCAAAA
1 ATGTAAATGCAA-TCAAAA
4366355 TGTATAGGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
22 7 0.13
23 12 0.22
24 8 0.15
25 7 0.13
26 3 0.05
27 1 0.02
28 1 0.02
29 15 0.27
30 1 0.02
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (25 bp):
ATGTAAATGCAATCAAAACAAATAT
Found at i:4366419 original size:24 final size:23
Alignment explanation
Indices: 4366392--4366437 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
4366382 TTAGGTTTAA
4366392 GGTTTAGATAAAGATTTAGATTTC
1 GGTTTAGATAAAGATTT-GATTTC
*
4366416 GGTTTAGATAAGGATTTGATTT
1 GGTTTAGATAAAGATTTGATTT
4366438 TGAGATTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (23 bp):
GGTTTAGATAAAGATTTGATTTC
Found at i:4368515 original size:304 final size:304
Alignment explanation
Indices: 4367960--4368522 Score: 788
Period size: 304 Copynumber: 1.9 Consensus size: 304
4367950 TCAAATTCAA
* * *
4367960 TCAATAAAAGAGACTTTTACTAATGGATTTTTAATATCGTTAGAATATACCATACTTATACCAAC
1 TCAATAAAAGAGACTTTTACTAATGGATTTTTAATACCATCAGAATATACCATACTTATACCAAC
*
4368025 ACTTTATTTAACTGTCAATATAAATAAACTTTTTTTATGGTATATGACTATCCGTCAGTATAAAT
66 ACTTTATTTAACTGTCAATATAAATAAACTTTTTTGATGGTATATGACTATCCGTCAGTATAAAT
* *
4368090 ATGTTATATACTGATGGTTATTAACGTAACCATCAGTATAAGCTCAAAACAAAAAAACTATTGCC
131 ATGTTATATAATGATGGTTATTAACGTAACCATCAGTATAAGATCAAAACAAAAAAACTATTGCC
* * * **
4368155 TTACAAAAAATTTGAAAGGGATTATTGCAGGCATTTTTTGTCAAAAATGCCTTCAATAAACCATA
196 TTACAAAAAATTTGAAAGGGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAATAAACCATA
4368220 CAAAGAATTTTTTGTATGGATTCTTTATTGACGATTAAATTTAG
261 CAAAGAATTTTTTGTATGGATTCTTTATTGACGATTAAATTTAG
* * * * *
4368264 TCAATAAAATAGACTTTTATTGATGGATTTTTAATACCATCAGAATATACCATACTTATACTAAT
1 TCAATAAAAGAGACTTTTACTAATGGATTTTTAATACCATCAGAATATACCATACTTATACCAAC
* * * *
4368329 ACTTTATTTGACTTTCAATATAAATAAACTTTTTCTGATGGTATATGATTATCTGTCAGTATAAA
66 ACTTTATTTAACTGTCAATATAAATAAACTTTTT-TGATGGTATATGACTATCCGTCAGTATAAA
* *** * * *
4368394 TA-GATTATATAATGATGGTTATTAATGTAATGGTTAGTATACGATGAAAACAAAAAAACTATTG
130 TATG-TTATATAATGATGGTTATTAACGTAACCATCAGTATAAGATCAAAACAAAAAAACTATTG
* * * ** * *
4368458 GCTTACAAAAAA-TTGAATGTGATTATTGAAGGTGTTTTTGGCCAAAAACATCTTCAATAATCCA
194 CCTTACAAAAAATTTGAAAGGGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAATAAACCA
4368522 T
259 T
4368523 TTAAAAAATT
Statistics
Matches: 223, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
304 132 0.59
305 91 0.41
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (304 bp):
TCAATAAAAGAGACTTTTACTAATGGATTTTTAATACCATCAGAATATACCATACTTATACCAAC
ACTTTATTTAACTGTCAATATAAATAAACTTTTTTGATGGTATATGACTATCCGTCAGTATAAAT
ATGTTATATAATGATGGTTATTAACGTAACCATCAGTATAAGATCAAAACAAAAAAACTATTGCC
TTACAAAAAATTTGAAAGGGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAATAAACCATA
CAAAGAATTTTTTGTATGGATTCTTTATTGACGATTAAATTTAG
Found at i:4368680 original size:61 final size:60
Alignment explanation
Indices: 4368602--4368768 Score: 176
Period size: 61 Copynumber: 2.7 Consensus size: 60
4368592 AAATTTTAAG
* *
4368602 AGGATTATTGAAAGTGTTTTTGGATAAAAACGCCTTCAATAATCCCCTCAACAAAATTTGGA
1 AGGATTATTGAAGGTGTTTTTGGA-AAAAACGCCTTCAATAATCCCCT-AAAAAAATTTGGA
* * * *
4368664 A-GATTATTGAAGGTGTTTTTGGCAAAAAATGCTTTCAATAATCCTCTAAAAAAATTTGTA
1 AGGATTATTGAAGGTGTTTTTGG-AAAAAACGCCTTCAATAATCCCCTAAAAAAATTTGGA
** **
4368724 AGTGATTAGCGAAGGCATTTTT-GACCAAAAACGCCTTCAATAATC
1 AG-GATTATTGAAGGTGTTTTTGGA--AAAAACGCCTTCAATAATC
4368769 ACTCATAAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
60 13 0.15
61 41 0.47
62 34 0.39
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (60 bp):
AGGATTATTGAAGGTGTTTTTGGAAAAAACGCCTTCAATAATCCCCTAAAAAAATTTGGA
Found at i:4368746 original size:62 final size:60
Alignment explanation
Indices: 4368618--4368779 Score: 164
Period size: 62 Copynumber: 2.6 Consensus size: 60
4368608 ATTGAAAGTG
* * ** **
4368618 TTTTTGG-ATAAAAACGCCTTCAATAATCCCCTCAACAAAATTTGGAAGATTATTGAAGGTG
1 TTTTTGGCA-AAAAACGCCTTCAATAATCCTCT-AAAAAAATTTGGAAGATTAGCGAAGGCA
* * *
4368679 TTTTTGGCAAAAAATGCTTTCAATAATCCTCTAAAAAAATTTGTAAGTGATTAGCGAAGGCA
1 TTTTTGGCAAAAAACGCCTTCAATAATCCTCTAAAAAAATTTGGAA--GATTAGCGAAGGCA
* *
4368741 TTTTTGACCAAAAACGCCTTCAATAATCACTCATAAAAA
1 TTTTTGGCAAAAAACGCCTTCAATAATC-CTC-TAAAAA
4368780 TTTATTGAAG
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
60 12 0.14
61 27 0.33
62 35 0.42
63 3 0.04
64 6 0.07
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (60 bp):
TTTTTGGCAAAAAACGCCTTCAATAATCCTCTAAAAAAATTTGGAAGATTAGCGAAGGCA
Found at i:4368995 original size:63 final size:64
Alignment explanation
Indices: 4368895--4369041 Score: 156
Period size: 64 Copynumber: 2.3 Consensus size: 64
4368885 AATAATCCAT
* * * ** * *
4368895 GAATTATTCAAGGC--GTTTTTAACTAAAAACACCTTCAAT-AACCCATTCAATATTTTGTAAG
1 GAATTATTCAAGGCATTTTTTTAACTAAAAACACCTTCAATCAACCCATTAAAAAAATGGAAAG
** ** *
4368956 GAATTATTCAAGGCATTTTTTTGGCTAAAAATGCCTTCAATCATCCCATTAAAAAAATGGAAAG
1 GAATTATTCAAGGCATTTTTTTAACTAAAAACACCTTCAATCAACCCATTAAAAAAATGGAAAG
*
4369020 GGATTATTCAAGGCATTTTTTT
1 GAATTATTCAAGGCATTTTTTT
4369042 TGTTTTTGCC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
61 14 0.20
63 20 0.29
64 36 0.51
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (64 bp):
GAATTATTCAAGGCATTTTTTTAACTAAAAACACCTTCAATCAACCCATTAAAAAAATGGAAAG
Found at i:4370080 original size:21 final size:21
Alignment explanation
Indices: 4370056--4370096 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4370046 TACTTAATAC
4370056 AAAAATA-AAAATAATTATAAA
1 AAAAATAGAAAATAA-TATAAA
*
4370077 AAAAATAGAATATAATATAA
1 AAAAATAGAAAATAATATAA
4370097 TAACATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAATAGAAAATAATATAAA
Found at i:4373810 original size:62 final size:61
Alignment explanation
Indices: 4373675--4373810 Score: 154
Period size: 62 Copynumber: 2.2 Consensus size: 61
4373665 TTTTGTAAAA
* *
4373675 GATTATTCAAGACTTTTTTGACAAAAAATGCCTTCAATAATCCATATAAAAAAAATATAGGG
1 GATTATTCAAGGCTTTTTTGACAAAAAA-GCCTTCAATAATCCATATAAAAAAAATATAAGG
* **
4373737 GATTATT-AAGGCGTTTTTTTG-CCAAAAA-CCTTCAATAATCCACTCATAAAAAATCTA-AAGG
1 GATTATTCAAGGC--TTTTTTGACAAAAAAGCCTTCAATAATCCA-T-ATAAAAAAAATATAAGG
4373798 GATTATTCAAGGC
1 GATTATTCAAGGC
4373811 ATTTACCTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
60 14 0.22
61 15 0.23
62 28 0.44
63 7 0.11
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (61 bp):
GATTATTCAAGGCTTTTTTGACAAAAAAGCCTTCAATAATCCATATAAAAAAAATATAAGG
Found at i:4376239 original size:30 final size:30
Alignment explanation
Indices: 4376203--4376261 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4376193 ATTATGGCTC
*
4376203 AAGATTTTGGAGTATGGAATGTGATGGAAA
1 AAGATTTTGGAGTATGGAATGTAATGGAAA
4376233 AAGATTTTGGAGTATGGAATGTAATGGAA
1 AAGATTTTGGAGTATGGAATGTAATGGAA
4376262 TGAAGCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (30 bp):
AAGATTTTGGAGTATGGAATGTAATGGAAA
Found at i:4386963 original size:20 final size:20
Alignment explanation
Indices: 4386897--4386964 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
4386887 ACCATTGGAT
4386897 GAATTTACTCCAAGATCTAAA
1 GAATTTACTCCAAGATCT-AA
* * *
4386918 GAATTTACTCTAAGGTCTAC
1 GAATTTACTCCAAGATCTAA
4386938 GAATTTACTCCAAGATCTAA
1 GAATTTACTCCAAGATCTAA
*
4386958 GGATTTA
1 GAATTTA
4386965 TATCATTTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
GAATTTACTCCAAGATCTAA
Found at i:4391816 original size:19 final size:20
Alignment explanation
Indices: 4391787--4391833 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
4391777 ATTAACTGGC
4391787 AAATAATTATTTTTT-AATAT
1 AAAT-ATTATTTTTTAAATAT
4391807 AAATATTATTTTTTAAATAT
1 AAATATTATTTTTTAAATAT
4391827 AAATATT
1 AAATATT
4391834 TAAAATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATATTATTTTTTAAATAT
Found at i:4391867 original size:4 final size:4
Alignment explanation
Indices: 4391858--4391885 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4391848 ATAAATATAT
4391858 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
4391886 AAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:4392569 original size:16 final size:16
Alignment explanation
Indices: 4392543--4392584 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4392533 TTTTTAATTC
* *
4392543 ATAAGAAATAATTTTA
1 ATAATAAATAATATTA
4392559 A-ATATAAATAATATTA
1 ATA-ATAAATAATATTA
4392575 ATAATAAATA
1 ATAATAAATA
4392585 TAAAAGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAATAAATAATATTA
Found at i:4396470 original size:19 final size:18
Alignment explanation
Indices: 4396445--4396498 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
4396435 GTAGTTTTAG
* *
4396445 GGTTTGGGTTAGGGTTTT
1 GGTTTGGGTTAAGGTTAT
*
4396463 GAGTTTGGTTTAAGGTTAT
1 G-GTTTGGGTTAAGGTTAT
*
4396482 GGTTTGGTGTTTAGGTT
1 GGTTTGG-GTTAAGGTT
4396499 TAGGGTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (18 bp):
GGTTTGGGTTAAGGTTAT
Found at i:4396588 original size:26 final size:25
Alignment explanation
Indices: 4396530--4396785 Score: 213
Period size: 26 Copynumber: 10.2 Consensus size: 25
4396520 AGAGTTTAAA
* *
4396530 GTTTAGCGTTTAGAATGGTGGTTTAAAG
1 GTTTAG-GTTT-GGATGGTGGTTT-AGG
* * **
4396558 CTTAAGGTTTGGATAATGGTTTAGG
1 GTTTAGGTTTGGATGGTGGTTTAGG
* *
4396583 GTTTAAGATTTGGATGGTGGTTTGGG
1 GTTT-AGGTTTGGATGGTGGTTTAGG
* * *
4396609 GTTTTGGTTTGGATGGTAGTTAAGG
1 GTTTAGGTTTGGATGGTGGTTTAGG
** *
4396634 GTTTGAGGTTTGGATGGTAATTAAGG
1 GTTT-AGGTTTGGATGGTGGTTTAGG
* *
4396660 GTCTA------AATGGTGGTTTAGG
1 GTTTAGGTTTGGATGGTGGTTTAGG
4396679 GTTTAGAGTTTGGATGGTGGTTT-GG
1 GTTTAG-GTTTGGATGGTGGTTTAGG
4396704 GTTTTAGAGTTTGGATGGTGGTTTA-G
1 G-TTTAG-GTTTGGATGGTGGTTTAGG
4396730 GTTTAGAGTTTGGATGGTGGTTTAGG
1 GTTTAG-GTTTGGATGGTGGTTTAGG
*
4396756 GTTTCAGGTTTGGATGGTGGTTTTGG
1 GTTT-AGGTTTGGATGGTGGTTTAGG
4396782 GTTT
1 GTTT
4396786 TATGGGAAAT
Statistics
Matches: 188, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
19 14 0.07
25 51 0.27
26 113 0.60
27 6 0.03
28 4 0.02
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.43
Consensus pattern (25 bp):
GTTTAGGTTTGGATGGTGGTTTAGG
Found at i:4396635 original size:51 final size:49
Alignment explanation
Indices: 4396573--4396774 Score: 179
Period size: 51 Copynumber: 4.1 Consensus size: 49
4396563 GGTTTGGATA
*
4396573 ATGGT-TTAGGGTTTA-AGATTTGGATGGTGGTTTGGGGTTTTGGTTTGG
1 ATGGTGTTAGGGTTTAGAG-TTTGGATGGTGGTTTAGGGTTTTGGTTTGG
** * * ***
4396621 ATGGTAGTTAAGGGTTT-GAGGTTTGGATGGTAATTAAGGG-TCT-AAATGG
1 ATGGT-GTT-AGGGTTTAGA-GTTTGGATGGTGGTTTAGGGTTTTGGTTTGG
4396670 -TGGT-TTAGGGTTTAGAGTTTGGATGGTGGTTT-GGGTTTTAGAGTTTGG
1 ATGGTGTTAGGGTTTAGAGTTTGGATGGTGGTTTAGGGTTTT-G-GTTTGG
*
4396718 ATGGTGGTTTA-GGTTTAGAGTTTGGATGGTGGTTTAGGGTTTCAGGTTTGG
1 ATGGT-G-TTAGGGTTTAGAGTTTGGATGGTGGTTTAGGGTTT-TGGTTTGG
4396769 ATGGTG
1 ATGGTG
4396775 GTTTTGGGTT
Statistics
Matches: 122, Mismatches: 16, Indels: 30
0.73 0.10 0.18
Matches are distributed among these distances:
44 3 0.02
45 22 0.18
46 4 0.03
48 12 0.10
49 7 0.06
50 5 0.04
51 58 0.48
52 11 0.09
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.42
Consensus pattern (49 bp):
ATGGTGTTAGGGTTTAGAGTTTGGATGGTGGTTTAGGGTTTTGGTTTGG
Found at i:4396757 original size:96 final size:96
Alignment explanation
Indices: 4396574--4396747 Score: 266
Period size: 96 Copynumber: 1.8 Consensus size: 96
4396564 GTTTGGATAA
4396574 TGGTTTAGGGTTTAAGATTTGGATGGTGGTTTGGGGTTTTGGTTTGGATGGTAGTTAAGGGTTTG
1 TGGTTTAGGGTTTAAGATTTGGATGGTGGTTTGGGGTTTTGGTTTGGATGGTAGTTAAGGGTTTG
4396639 AGGTTTGGATGGTAATTAAGGGTCTAAATGG
66 AGGTTTGGATGGTAATTAAGGGTCTAAATGG
* *
4396670 TGGTTTAGGGTTT-AGAGTTTGGATGGTGGTTT-GGGTTTTAGAGTTTGGATGGTGGTTTA-GGT
1 TGGTTTAGGGTTTAAGA-TTTGGATGGTGGTTTGGGGTTTT-G-GTTTGGATGGTAGTTAAGGGT
4396732 TT-AGAGTTTGGATGGT
63 TTGAG-GTTTGGATGGT
4396748 GGTTTAGGGT
Statistics
Matches: 72, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
95 12 0.17
96 45 0.62
97 15 0.21
ACGTcount: A:0.17, C:0.01, G:0.40, T:0.43
Consensus pattern (96 bp):
TGGTTTAGGGTTTAAGATTTGGATGGTGGTTTGGGGTTTTGGTTTGGATGGTAGTTAAGGGTTTG
AGGTTTGGATGGTAATTAAGGGTCTAAATGG
Found at i:4396775 original size:51 final size:52
Alignment explanation
Indices: 4396666--4396785 Score: 199
Period size: 51 Copynumber: 2.3 Consensus size: 52
4396656 AAGGGTCTAA
*
4396666 ATGGTGGTTTAGGGTTTAGAGTTTGGATGGTGGTTTGGGTTTTAGAGTTTGG
1 ATGGTGGTTTAGGGTTTAGAGTTTGGATGGTGGTTTGGGTTTCAGAGTTTGG
4396718 ATGGTGGTTTA-GGTTTAGAGTTTGGATGGTGGTTTAGGGTTTCAG-GTTTGG
1 ATGGTGGTTTAGGGTTTAGAGTTTGGATGGTGGTTT-GGGTTTCAGAGTTTGG
*
4396769 ATGGTGGTTTTGGGTTT
1 ATGGTGGTTTAGGGTTT
4396786 TATGGGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
51 40 0.62
52 24 0.38
ACGTcount: A:0.12, C:0.01, G:0.42, T:0.45
Consensus pattern (52 bp):
ATGGTGGTTTAGGGTTTAGAGTTTGGATGGTGGTTTGGGTTTCAGAGTTTGG
Found at i:4397650 original size:10 final size:9
Alignment explanation
Indices: 4397626--4397652 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4397616 TGGAGTCCCA
4397626 AATTTTTTC
1 AATTTTTTC
4397635 AATTTTTTC
1 AATTTTTTC
4397644 AATTTTTTC
1 AATTTTTTC
4397653 TCTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (9 bp):
AATTTTTTC
Found at i:4398236 original size:142 final size:142
Alignment explanation
Indices: 4398090--4398365 Score: 312
Period size: 142 Copynumber: 1.9 Consensus size: 142
4398080 ACCTTCAAAG
* * *
4398090 GTATTTTAG-TAATTTCACACACTCTAAAGG-GCGATCAAAGTTTTTAATACA-TAAAAAATCA-
1 GTATTTTAGTTAATTTCACAC-CTCCAAAGGTGCAACCAAAG-TTTTAATACACT-AAAAATCAT
* * *
4398151 GCAAAAAATATGAAAA-CATGA-TGTGGAGTGTTTCATAAAAAACCAACAGTGGGAATATCAAAT
63 G-AAAAAATAT-AAAACCATGAGT-TAGAGTGTTTCATAAAAAACCAACACTGGGAAGATCAAAT
4398214 TACGAAAATAATCTTAAA
125 TACGAAAATAATCTTAAA
* * * * *
4398232 GTATTTTGGTTAATTTTACACTTCCCAAGGTGCAACCAAAGTTTTAATGCACTAAAAATCATGAA
1 GTATTTTAGTTAATTTCACACCTCCAAAGGTGCAACCAAAGTTTTAATACACTAAAAATCATGAA
* * * * *
4398297 ATAATATAAAACCATGAGTTAGAGTGTTTTATGAAAAGCCAACCCTGGGAAGATCAAATTACGAA
66 AAAATATAAAACCATGAGTTAGAGTGTTTCATAAAAAACCAACACTGGGAAGATCAAATTACGAA
4398362 AATA
131 AATA
4398366 TGTCTAAGGA
Statistics
Matches: 112, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
141 4 0.04
142 87 0.78
143 21 0.19
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (142 bp):
GTATTTTAGTTAATTTCACACCTCCAAAGGTGCAACCAAAGTTTTAATACACTAAAAATCATGAA
AAAATATAAAACCATGAGTTAGAGTGTTTCATAAAAAACCAACACTGGGAAGATCAAATTACGAA
AATAATCTTAAA
Found at i:4404728 original size:21 final size:21
Alignment explanation
Indices: 4404683--4404729 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4404673 AATAGTTGAT
* * *
4404683 GTGGTTGTTAACCATGCTAAT
1 GTGGTTGTTAACCATACCAAC
*
4404704 GTGGTTGTTAATCATACCAAC
1 GTGGTTGTTAACCATACCAAC
4404725 GTGGT
1 GTGGT
4404730 GTTTACTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (21 bp):
GTGGTTGTTAACCATACCAAC
Found at i:4404849 original size:31 final size:31
Alignment explanation
Indices: 4404814--4404906 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
4404804 AAATAATTCC
4404814 TATACTCATACAAAATTTAAAATTTAATCCT
1 TATACTCATACAAAATTTAAAATTTAATCCT
** * *
4404845 TATACTCGA-ATGAAATTTGAAATTTAGT-CT
1 TATACTC-ATACAAAATTTAAAATTTAATCCT
** *
4404875 CTAT-CTTGTACAAAATTTTAAATTTAATCCT
1 -TATACTCATACAAAATTTAAAATTTAATCCT
4404906 T
1 T
4404907 CTAATATAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
30 20 0.42
31 27 0.56
32 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (31 bp):
TATACTCATACAAAATTTAAAATTTAATCCT
Found at i:4404987 original size:35 final size:34
Alignment explanation
Indices: 4404921--4404988 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
4404911 TATAAAAAAT
* *
4404921 ATTTTAAACATTTTTAGTTTTTTCAAAATATTAA
1 ATTTTAAAAATTTTTAGTTCTTTCAAAATATTAA
*
4404955 ATTTTAAAAATATTTTAGTTCCTTT-AATATATTA
1 ATTTTAAAAAT-TTTTAGTT-CTTTCAAAATATTA
4404989 GCTTTATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 10 0.34
35 16 0.55
36 3 0.10
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (34 bp):
ATTTTAAAAATTTTTAGTTCTTTCAAAATATTAA
Found at i:4405021 original size:21 final size:21
Alignment explanation
Indices: 4404991--4405030 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4404981 ATATATTAGC
*
4404991 TTTATTATAT-ATAATTAATTA
1 TTTATAATATCAT-ATTAATTA
4405012 TTTATAATATCATATTAAT
1 TTTATAATATCATATTAAT
4405031 AATATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATAATATCATATTAATTA
Found at i:4405499 original size:20 final size:19
Alignment explanation
Indices: 4405448--4405499 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
4405438 ATAACATGAA
*
4405448 ATTAATATAGTAAAAATAT
1 ATTAAAATAGTAAAAATAT
4405467 ATTAAAATAAGTAAAAAT-T
1 ATTAAAAT-AGTAAAAATAT
4405486 CATTCAAAATAGTA
1 -ATT-AAAATAGTA
4405500 TAATTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (19 bp):
ATTAAAATAGTAAAAATAT
Found at i:4410184 original size:3 final size:3
Alignment explanation
Indices: 4410176--4410212 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4410166 CTTTTTCCTG
4410176 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4410213 AGTCATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4415492 original size:63 final size:63
Alignment explanation
Indices: 4415393--4415517 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
4415383 TTTATTTTTT
4415393 ATTTTGAAAGTATCAGTGACTGATGTATTTGACATTCTTTTCAATTCATATTCTAACGAACTA
1 ATTTTGAAAGTATCAGTGACTGATGTATTTGACATTCTTTTCAATTCATATTCTAACGAACTA
4415456 ATTTTGAAAGTATCAGTGACAT-ATGTATTTGACATTCTTTTCAATTCATATTCTAACGAACT
1 ATTTTGAAAGTATCAGTGAC-TGATGTATTTGACATTCTTTTCAATTCATATTCTAACGAACT
4415518 TACTGGCTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 60 0.98
64 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (63 bp):
ATTTTGAAAGTATCAGTGACTGATGTATTTGACATTCTTTTCAATTCATATTCTAACGAACTA
Done.