Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 142 of 190
Found at i:23089526 original size:13 final size:13
Alignment explanation
Indices: 23089379--23089653 Score: 87
Period size: 13 Copynumber: 21.2 Consensus size: 13
23089369 ACCACGATAC
23089379 AAACCTTAAACCCT
1 AAACC-TAAACCCT
*
23089393 AAACCCTAAACCTT
1 AAA-CCTAAACCCT
** *
23089407 AAATTTAAACCTT
1 AAACCTAAACCCT
*
23089420 AAATCTTAAACCCT
1 AAA-CCTAAACCCT
23089434 AAAACC-AAATCCC-
1 -AAACCTAAA-CCCT
*
23089447 AAACCTTAACCCT
1 AAACCTAAACCCT
* *
23089460 AAACCCAAACTCTT
1 AAACCTAAAC-CCT
*
23089474 AAA-TTAAACCCT
1 AAACCTAAACCCT
*
23089486 AAAACC-AAA-TC-
1 -AAACCTAAACCCT
* **
23089497 AAACCCCAAACTTT
1 AAA-CCTAAACCCT
23089511 AAACCTAAACCCT
1 AAACCTAAACCCT
**
23089524 AAACCCCAA-CCT
1 AAACCTAAACCCT
23089536 AAAACCTAAACCCT
1 -AAACCTAAACCCT
**
23089550 -AATTTAAACCCT
1 AAACCTAAACCCT
**
23089562 AAA-CTCATTCCCT
1 AAACCT-AAACCCT
* *
23089575 -AACCTCAAACATCA
1 AAACCT-AAAC-CCT
*
23089589 AAACATAAACCCT
1 AAACCTAAACCCT
*
23089602 -AAGCTAAACCCT
1 AAACCTAAACCCT
23089614 AAA-CT-AACTCC-
1 AAACCTAAAC-CCT
23089625 AAATCCTAAA-CC-
1 AAA-CCTAAACCCT
*
23089637 AACCCCTAAACCCT
1 AA-ACCTAAACCCT
23089651 AAA
1 AAA
23089654 ACCACTTGAT
Statistics
Matches: 194, Mismatches: 39, Indels: 57
0.67 0.13 0.20
Matches are distributed among these distances:
10 3 0.02
11 8 0.04
12 54 0.28
13 75 0.39
14 45 0.23
15 9 0.05
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACCTAAACCCT
Found at i:23089536 original size:19 final size:19
Alignment explanation
Indices: 23089512--23089565 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
23089502 CCAAACTTTA
23089512 AACCTAAACCCTAAACCCC
1 AACCTAAACCCTAAACCCC
* *
23089531 AACCTAAAACCTAAACCCT
1 AACCTAAACCCTAAACCCC
**
23089550 AATTTAAACCCTAAAC
1 AACCTAAACCCTAAAC
23089566 TCATTCCCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (19 bp):
AACCTAAACCCTAAACCCC
Found at i:23089565 original size:7 final size:7
Alignment explanation
Indices: 23089379--23089551 Score: 75
Period size: 7 Copynumber: 26.3 Consensus size: 7
23089369 ACCACGATAC
*
23089379 AAACCTT
1 AAACCCT
23089386 AAACCCT
1 AAACCCT
23089393 AAACCCT
1 AAACCCT
*
23089400 AAACCTT
1 AAACCCT
**
23089407 AAA-TTT
1 AAACCCT
*
23089413 AAACCTT
1 AAACCCT
* *
23089420 AAATCTT
1 AAACCCT
23089427 AAACCCT
1 AAACCCT
*
23089434 AAAACC-
1 AAACCCT
23089440 AAATCCC-
1 AAA-CCCT
23089447 AAA-CCT
1 AAACCCT
*
23089453 TAACCCT
1 AAACCCT
23089460 AAACCC-
1 AAACCCT
*
23089466 AAACTCTT
1 AAAC-CCT
*
23089474 AAA--TT
1 AAACCCT
23089479 AAACCCT
1 AAACCCT
*
23089486 AAAACC-
1 AAACCCT
*
23089492 AAA-TC-
1 AAACCCT
*
23089497 AAACCCC
1 AAACCCT
**
23089504 AAACTTT
1 AAACCCT
23089511 AAA-CCT
1 AAACCCT
23089517 AAACCCT
1 AAACCCT
23089524 AAACCC-
1 AAACCCT
*
23089530 CAA-CCT
1 AAACCCT
*
23089536 AAAACCT
1 AAACCCT
23089543 AAACCCT
1 AAACCCT
23089550 AA
1 AA
23089552 TTTAAACCCT
Statistics
Matches: 129, Mismatches: 24, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
5 13 0.10
6 26 0.20
7 87 0.67
8 3 0.02
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:23092429 original size:124 final size:124
Alignment explanation
Indices: 23092206--23092453 Score: 417
Period size: 124 Copynumber: 2.0 Consensus size: 124
23092196 AAATAGCCAT
*
23092206 GATCCAAATCTGGTCTTTTCATCAACACAGTTTTAGCAAATTTGTTTTTCCTAATCTAATTTTAT
1 GATCCAAATCTGGTCTTTTCATCAACACAGTTTTAGCAAATTTGTTATTCCTAATCTAATTTTAT
* * *
23092271 GAATTTCAAGCATCAGACTATAACAAATGTTATCTCGAAGTCATTTTCAATCATTAACA
66 GAATTTCAAGCATCAGACTATAACAAATGATATCTCAAAGGCATTTTCAATCATTAACA
* * *
23092330 GATCCAAATCTGG-CTTTTTCATCAACATAGTTTTAGCAACTTTGTTATTGCTAATCTAATTTTA
1 GATCCAAATCTGGTC-TTTTCATCAACACAGTTTTAGCAAATTTGTTATTCCTAATCTAATTTTA
23092394 TGAATTTCAAGCATCAGACTATAACAAATGATATCTCAAAGGCATTTTCAATCATTAACA
65 TGAATTTCAAGCATCAGACTATAACAAATGATATCTCAAAGGCATTTTCAATCATTAACA
23092454 AAATATAAAA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
123 1 0.01
124 115 0.99
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (124 bp):
GATCCAAATCTGGTCTTTTCATCAACACAGTTTTAGCAAATTTGTTATTCCTAATCTAATTTTAT
GAATTTCAAGCATCAGACTATAACAAATGATATCTCAAAGGCATTTTCAATCATTAACA
Found at i:23094865 original size:37 final size:37
Alignment explanation
Indices: 23094818--23094965 Score: 197
Period size: 37 Copynumber: 4.0 Consensus size: 37
23094808 AATAATAAAT
*
23094818 ATAGTACATGCACTCCATTTCATGCACATATTAATAG
1 ATAGTACATGCATTCCATTTCATGCACATATTAATAG
* * *
23094855 ATAATACATGCATTGCATTTCATGCACATATTAATAT
1 ATAGTACATGCATTCCATTTCATGCACATATTAATAG
** * * *
23094892 ATAGTTTATGCATTCCATTTTATGCACATTTTAATAA
1 ATAGTACATGCATTCCATTTCATGCACATATTAATAG
* *
23094929 ATAGTACATGCATTCCATCTCATGCACATCTTAATAG
1 ATAGTACATGCATTCCATTTCATGCACATATTAATAG
23094966 CAGTGTCAAC
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (37 bp):
ATAGTACATGCATTCCATTTCATGCACATATTAATAG
Found at i:23098112 original size:9 final size:9
Alignment explanation
Indices: 23098100--23098135 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
23098090 AAATGCAAAA
23098100 AAAAAAGAG
1 AAAAAAGAG
*
23098109 AAAAAAAGTG
1 -AAAAAAGAG
23098119 AAAAAAGAG
1 AAAAAAGAG
23098128 AAAAAAGA
1 AAAAAAGA
23098136 ATCTTTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:23098112 original size:10 final size:10
Alignment explanation
Indices: 23098099--23098133 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
23098089 AAAATGCAAA
23098099 AAAAAAAGAG
1 AAAAAAAGAG
*
23098109 AAAAAAAGTG
1 AAAAAAAGAG
23098119 -AAAAAAGAG
1 AAAAAAAGAG
23098128 AAAAAA
1 AAAAAA
23098134 GAATCTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:23099208 original size:37 final size:37
Alignment explanation
Indices: 23099162--23099294 Score: 135
Period size: 37 Copynumber: 3.5 Consensus size: 37
23099152 AAATTATATT
* * *
23099162 AAACTCTAAACTCT-AAACCCTAAACACTAAAACACAA
1 AAACCCTAAACCCTAAAAACCTAAACACTAAAAC-CAA
* * *
23099199 AAACCCTAAACCCTAAAAACTTAAAC-CTTAAATCCTA
1 AAACCCTAAACCCTAAAAACCTAAACAC-TAAAACCAA
*
23099236 AAACCCTAAACCCTAAAAACCTAAACACTAAACCCTAAA
1 AAACCCTAAACCCTAAAAACCTAAACACTAAAACC--AA
23099275 ACATACCCTAAACCCTAAAA
1 A-A-ACCCTAAACCCTAAAA
23099295 CCAACCCTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
37 46 0.57
38 15 0.19
39 2 0.03
40 1 0.01
41 16 0.20
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.17
Consensus pattern (37 bp):
AAACCCTAAACCCTAAAAACCTAAACACTAAAACCAA
Found at i:23099216 original size:15 final size:14
Alignment explanation
Indices: 23099161--23099293 Score: 92
Period size: 15 Copynumber: 9.3 Consensus size: 14
23099151 CAAATTATAT
* *
23099161 TAAACTCTAAACTC
1 TAAACCCTAAACAC
23099175 TAAACCCTAAACAC
1 TAAACCCTAAACAC
** *
23099189 TAAAACACAAAAACCC
1 T-AAAC-CCTAAACAC
*
23099205 TAAACCCTAAAAAC
1 TAAACCCTAAACAC
*
23099219 TTAAACCTTAAATC-C
1 -TAAACCCTAAA-CAC
*
23099234 TAAAACCCTAAACCC
1 T-AAACCCTAAACAC
*
23099249 TAAAAACCTAAACAC
1 T-AAACCCTAAACAC
23099264 TAAACCCTAAA-AC
1 TAAACCCTAAACAC
* *
23099277 -ATACCCTAAACCC
1 TAAACCCTAAACAC
23099290 TAAA
1 TAAA
23099294 ACCAACCCTT
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
12 9 0.10
13 3 0.03
14 31 0.33
15 43 0.46
16 7 0.08
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCCTAAACAC
Found at i:23099230 original size:22 final size:22
Alignment explanation
Indices: 23099169--23099274 Score: 97
Period size: 22 Copynumber: 4.7 Consensus size: 22
23099159 ATTAAACTCT
*
23099169 AAACTCTAAACCCTAAACACTAA
1 AAACT-TAAACCCTAAACCCTAA
**
23099192 AACACAAAAACCCTAAACCCTAA
1 AA-ACTTAAACCCTAAACCCTAA
* *
23099215 AAACTTAAACCTTAAATCCTAA
1 AAACTTAAACCCTAAACCCTAA
* * *
23099237 AACCCTAAACCCTAAAAACCTAA
1 AAACTTAAACCCT-AAACCCTAA
*
23099260 ACAC-TAAACCCTAAA
1 AAACTTAAACCCTAAA
23099275 ACATACCCTA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
21 3 0.04
22 34 0.50
23 29 0.43
24 2 0.03
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACTTAAACCCTAAACCCTAA
Found at i:23099287 original size:19 final size:19
Alignment explanation
Indices: 23099237--23099308 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 19
23099227 TAAATCCTAA
23099237 AACCCTAAACCCTAAAAACC
1 AACCCTAAACCCT-AAAACC
*
23099257 TAAACACTAAACCCTAAAA-C
1 --AACCCTAAACCCTAAAACC
23099277 ATACCCTAAACCCTAAAACC
1 A-ACCCTAAACCCTAAAACC
*
23099297 AACCCTTAACCC
1 AACCCTAAACCC
23099309 CATTCATGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.02
19 25 0.56
20 3 0.07
21 4 0.09
22 12 0.27
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (19 bp):
AACCCTAAACCCTAAAACC
Found at i:23099289 original size:7 final size:7
Alignment explanation
Indices: 23099161--23099293 Score: 90
Period size: 7 Copynumber: 18.6 Consensus size: 7
23099151 CAAATTATAT
*
23099161 TAAACTC
1 TAAACCC
*
23099168 TAAACTC
1 TAAACCC
23099175 TAAACCC
1 TAAACCC
*
23099182 TAAACAC
1 TAAACCC
*
23099189 TAAAACACA
1 T-AAAC-CC
*
23099198 AAAACCC
1 TAAACCC
23099205 TAAACCC
1 TAAACCC
* *
23099212 TAAAAACT
1 T-AAACCC
*
23099220 TAAACCT
1 TAAACCC
*
23099227 TAAATCC
1 TAAACCC
23099234 TAAAACCC
1 T-AAACCC
23099242 TAAACCC
1 TAAACCC
*
23099249 TAAAAACC
1 T-AAACCC
*
23099257 TAAACAC
1 TAAACCC
23099264 TAAACCC
1 TAAACCC
*
23099271 TAAA-AC
1 TAAACCC
*
23099277 -ATACCC
1 TAAACCC
23099283 TAAACCC
1 TAAACCC
23099290 TAAA
1 TAAA
23099294 ACCAACCCTT
Statistics
Matches: 98, Mismatches: 21, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 69 0.70
8 25 0.26
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:23099748 original size:12 final size:12
Alignment explanation
Indices: 23099733--23099772 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
23099723 AATAAAAATA
23099733 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
23099745 AAAAAAAGGAAAA
1 AAAAAAA-GAAAG
23099758 AAAAAAAGAAAG
1 AAAAAAAGAAAG
23099770 AAA
1 AAA
23099773 GAGGAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:23099748 original size:13 final size:13
Alignment explanation
Indices: 23099732--23099772 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
23099722 AAATAAAAAT
23099732 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
23099745 AAAAAAAGGAAA-
1 AAAAAAAAGAAAG
23099757 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
23099770 AAA
1 AAA
23099773 GAGGAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:23099757 original size:21 final size:23
Alignment explanation
Indices: 23099733--23099778 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
23099723 AATAAAAATA
*
23099733 AAAAAAAGAAAGAAA-AAA-AGG
1 AAAAAAAAAAAGAAAGAAAGAGG
23099754 AAAAAAAAAAAGAAAGAAAGAGG
1 AAAAAAAAAAAGAAAGAAAGAGG
23099777 AA
1 AA
23099779 TTAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 3 0.14
23 5 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAGAAAGAAAGAGG
Found at i:23100321 original size:20 final size:22
Alignment explanation
Indices: 23100274--23100327 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
23100264 TCTTGTTTTC
23100274 AAAAAAA--AAAAAAAAAACTT
1 AAAAAAATGAAAAAAAAAACTT
* *
23100294 AAAAAAATTAAAAAAAAGA-TT
1 AAAAAAATGAAAAAAAAAACTT
23100315 -AAAAAATGAAAAA
1 AAAAAAATGAAAAA
23100328 TGTCTTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 19 0.63
21 2 0.07
22 9 0.30
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAAAAATGAAAAAAAAAACTT
Found at i:23100327 original size:21 final size:22
Alignment explanation
Indices: 23100274--23100320 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
23100264 TCTTGTTTTC
23100274 AAAAAA-AAAAAAAAAAACTTA
1 AAAAAATAAAAAAAAAAACTTA
* *
23100295 AAAAAATTAAAAAAAAGA-TTA
1 AAAAAATAAAAAAAAAAACTTA
23100316 AAAAA
1 AAAAA
23100321 TGAAAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAAAATAAAAAAAAAAACTTA
Found at i:23101367 original size:37 final size:37
Alignment explanation
Indices: 23101291--23101383 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
23101281 AATAAGATAG
** *
23101291 TACATGCATTCCATCTT-ATGCACTCTTTGACAAATAA
1 TACATGCATTCCAT-TTCATGCACTCTTCAACAAACAA
*
23101328 TACATGCATTCCATTTCATGCACAT-TTCAACAGACAA
1 TACATGCATTCCATTTCATGCAC-TCTTCAACAAACAA
* *
23101365 TACATACATTCCTTTTCAT
1 TACATGCATTCCATTTCAT
23101384 ACCCATCACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
36 2 0.04
37 45 0.94
38 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (37 bp):
TACATGCATTCCATTTCATGCACTCTTCAACAAACAA
Found at i:23104123 original size:19 final size:19
Alignment explanation
Indices: 23104082--23104124 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23104072 CTCTTTTGAC
*
23104082 TAAAAAATAAAAATTAAAC
1 TAAAAAATAAAAATTAAAA
*
23104101 TAAAAAATTAAAA-TACAAA
1 TAAAAAATAAAAATTA-AAA
23104120 TAAAA
1 TAAAA
23104125 TTTATGGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAATAAAAATTAAAA
Found at i:23104487 original size:42 final size:43
Alignment explanation
Indices: 23104387--23104733 Score: 369
Period size: 43 Copynumber: 8.1 Consensus size: 43
23104377 TTTTTTGAAA
* * * * *
23104387 AAAATGCTCCCCCACAACTGAGACTCTAAAACTTTTGAAAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
* * *
23104430 AAAATTCTCCCCCATAATTGAGGCTTTGGAACTTTTGAGAAA-
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
**
23104472 AAAATGCTCTTCCATAATTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
* * ** * * * * *
23104514 AAAATGATCTCTTACAATTGAGACTTAGGAGCTTTTGAAAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
*** *
23104557 AAAATGCTCATTCATAATTGAGGCATTGAAACTTTT-AAGAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAA-AAAT
* * **
23104600 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTAAAAAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
* *
23104643 AAAAAGCTCCCCCATAATTGAGGCTTTGGAACTTTTGAAAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
** *
23104686 AAAATGCT-CCCCATAGCTGAGGCTTTGAAACTTTTAAAAAAT
1 AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
23104728 AAAATG
1 AAAATG
23104734 AGATCATTCT
Statistics
Matches: 250, Mismatches: 50, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
41 8 0.03
42 89 0.36
43 151 0.60
44 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCCATAATTGAGGCTTTGAAACTTTTGAAAAAT
Found at i:23106212 original size:18 final size:18
Alignment explanation
Indices: 23106191--23106225 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23106181 CTTTTTCCTC
*
23106191 TTTTTCTTTTTTTTTTGT
1 TTTTTCATTTTTTTTTGT
*
23106209 TTTTTGATTTTTTTTTG
1 TTTTTCATTTTTTTTTG
23106226 CACATCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.86
Consensus pattern (18 bp):
TTTTTCATTTTTTTTTGT
Found at i:23106538 original size:13 final size:14
Alignment explanation
Indices: 23106520--23106551 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
23106510 TCAATTCTCC
23106520 TTTTTTTTTT-C-T
1 TTTTTTTTTTACAT
23106532 TTTTTTTTTTACAT
1 TTTTTTTTTTACAT
23106546 TTTTTT
1 TTTTTT
23106552 GATTTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 1 0.06
14 7 0.39
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTACAT
Found at i:23108664 original size:13 final size:14
Alignment explanation
Indices: 23108646--23108674 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23108636 TCATTTTGTA
23108646 TCACCACTTT-TTT
1 TCACCACTTTCTTT
23108659 TCACCACTTTCTTT
1 TCACCACTTTCTTT
23108673 TC
1 TC
23108675 TTTGCTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (14 bp):
TCACCACTTTCTTT
Found at i:23112427 original size:33 final size:32
Alignment explanation
Indices: 23112380--23112541 Score: 104
Period size: 31 Copynumber: 5.1 Consensus size: 32
23112370 TAAATAAATT
* * *
23112380 AATAATCATGCAATTAATAATGTAAATCATGCA
1 AATAAACATACAATTAA-AATATAAATCATGCA
*
23112413 AATAAACATACAATT-AAATATATATCATGCA
1 AATAAACATACAATTAAAATATAAATCATGCA
* ** *
23112444 AACAAGTATACAATT-AAATATATAATGATGCA
1 AATAAACATACAATTAAAATATA-AATCATGCA
*
23112476 ATCATACAA-ATA-AA-TAAATTA-ATAATCATGCA
1 A--ATA-AACATACAATTAAAATATA-AATCATGCA
* * *
23112508 ATTAAACATGCAATT-AAATAAATAATCATGCA
1 AATAAACATACAATTAAAATATA-AATCATGCA
23112540 AA
1 AA
23112542 GAAATATATT
Statistics
Matches: 103, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
29 2 0.02
30 4 0.04
31 38 0.37
32 34 0.33
33 19 0.18
34 5 0.05
35 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (32 bp):
AATAAACATACAATTAAAATATAAATCATGCA
Found at i:23112502 original size:24 final size:24
Alignment explanation
Indices: 23112475--23112684 Score: 121
Period size: 24 Copynumber: 8.5 Consensus size: 24
23112465 ATAATGATGC
*
23112475 AATCATACAAATAAATAAATTAAT
1 AATCATACAAATAAATATATTAAT
* * *
23112499 AATCATGCAATTAAACATGCAATTAAATAAAT
1 AATCATACAAAT-AA-AT---A-T-ATTAA-T
* *
23112531 AATCATGCAAAGAAATATATTAAT
1 AATCATACAAATAAATATATTAAT
*
23112555 AATCA-AGCAATTAAATATATTAAT
1 AATCATA-CAAATAAATATATTAAT
** *
23112579 AATCAT-GTAATCAAAT-TA-AATAT
1 AATCATACAAAT-AAATATATTA-AT
23112602 AATCATACAAATAAATATATTAAT
1 AATCATACAAATAAATATATTAAT
*
23112626 AATCATGC----AAATATATTAATT
1 AATCATACAAATAAATATATTAA-T
*
23112647 AATCACACAAATAAATATATTAAT
1 AATCATACAAATAAATATATTAAT
* *
23112671 CATGCAAACAAATA
1 AAT-CATACAAATA
23112685 TATTAGGCAA
Statistics
Matches: 143, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
20 11 0.08
21 7 0.05
22 1 0.01
23 16 0.11
24 57 0.40
25 27 0.19
26 3 0.02
27 1 0.01
29 1 0.01
30 2 0.01
31 6 0.04
32 11 0.08
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.30
Consensus pattern (24 bp):
AATCATACAAATAAATATATTAAT
Found at i:23112526 original size:32 final size:31
Alignment explanation
Indices: 23112404--23112541 Score: 125
Period size: 32 Copynumber: 4.4 Consensus size: 31
23112394 TAATAATGTA
*
23112404 AATCATGCAAATAAACATACAATTAAAT-AT
1 AATCATGCAAACAAACATACAATTAAATAAT
**
23112434 ATATCATGCAAACAAGTATACAATTAAATATAT
1 A-ATCATGCAAACAAACATACAATTAAATA-AT
* * * * * *
23112467 AATGATGCAATCATACAAATAAATAAATTAAT
1 AATCATGCAAACAAACATACAATTAAA-TAAT
** *
23112499 AATCATGCAATTAAACATGCAATTAAATAAAT
1 AATCATGCAAACAAACATACAATTAAAT-AAT
23112531 AATCATGCAAA
1 AATCATGCAAA
23112542 GAAATATATT
Statistics
Matches: 84, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
30 1 0.01
31 25 0.30
32 53 0.63
33 5 0.06
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (31 bp):
AATCATGCAAACAAACATACAATTAAATAAT
Found at i:23112590 original size:56 final size:57
Alignment explanation
Indices: 23112465--23112591 Score: 129
Period size: 56 Copynumber: 2.2 Consensus size: 57
23112455 AATTAAATAT
* * *
23112465 ATAATGATGCAATCATACAAATAAATAAATTAATAATCATGCAATTAAACATGCAATTAA
1 ATAAT-ATGTAATCATACAAAGAAATAAATTAATAATCAAGCAATTAAACAT--AATTAA
* * *
23112525 ATAA-A--TAATCATGCAAAGAAATATATTAATAATCAAGCAATTAAATAT-ATT-A
1 ATAATATGTAATCATACAAAGAAATAAATTAATAATCAAGCAATTAAACATAATTAA
23112577 ATAATCATGTAATCA
1 ATAAT-ATGTAATCA
23112592 AATTAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
52 5 0.09
53 3 0.05
54 1 0.02
56 43 0.75
58 1 0.02
60 4 0.07
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (57 bp):
ATAATATGTAATCATACAAAGAAATAAATTAATAATCAAGCAATTAAACATAATTAA
Found at i:23112617 original size:47 final size:45
Alignment explanation
Indices: 23112528--23112670 Score: 164
Period size: 47 Copynumber: 3.1 Consensus size: 45
23112518 CAATTAAATA
* * *
23112528 AATAATCATGCAAAGAAATATATTAATAATCAAGCAATTAAATATATT
1 AATAATCATGCAAATAAAT-TAAT-ATAATCAA-CAAATAAATATATT
*
23112576 AATAATCATG-TAATCAAATTAAATATAATCATACAAATAAATATATT
1 AATAATCATGCAAAT-AAATT-AATATAATCA-ACAAATAAATATATT
*
23112623 AATAATCATGCAAATATATTAAT-TAATCACACAAATAAATATATT
1 AATAATCATGCAAATAAATTAATATAATCA-ACAAATAAATATATT
23112668 AAT
1 AAT
23112671 CATGCAAACA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
45 24 0.29
46 3 0.04
47 37 0.44
48 20 0.24
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (45 bp):
AATAATCATGCAAATAAATTAATATAATCAACAAATAAATATATT
Found at i:23112651 original size:21 final size:21
Alignment explanation
Indices: 23112614--23112678 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
23112604 TCATACAAAT
23112614 AAATATATTAA-TAATCATGC
1 AAATATATTAATTAATCATGC
**
23112634 AAATATATTAATTAATCACAC
1 AAATATATTAATTAATCATGC
*
23112655 AAATA-AATATATTAATCATGC
1 AAATATATTA-ATTAATCATGC
23112676 AAA
1 AAA
23112679 CAAATATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (21 bp):
AAATATATTAATTAATCATGC
Found at i:23119001 original size:20 final size:22
Alignment explanation
Indices: 23118966--23119012 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
23118956 ATTACATTAA
* *
23118966 AATTTAATATATATA-TATA-T
1 AATTTAATAAAGATATTATAGT
23118986 AATTTAATAAAGATATTATAGT
1 AATTTAATAAAGATATTATAGT
23119008 AATTT
1 AATTT
23119013 TGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 4 0.17
22 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
AATTTAATAAAGATATTATAGT
Found at i:23119747 original size:16 final size:16
Alignment explanation
Indices: 23119726--23119760 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23119716 ATGAATGGTC
23119726 AAGATTGTATTTCAAG
1 AAGATTGTATTTCAAG
23119742 AAGATTGTATTTCAAG
1 AAGATTGTATTTCAAG
23119758 AAG
1 AAG
23119761 CATGTTCGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (16 bp):
AAGATTGTATTTCAAG
Found at i:23123157 original size:18 final size:19
Alignment explanation
Indices: 23123123--23123162 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23123113 AAAATACCAA
* *
23123123 AATAATTATGCATATT-AT
1 AATAATTATACAAATTAAT
23123141 AATAATTATACAAATTAAT
1 AATAATTATACAAATTAAT
23123160 AAT
1 AAT
23123163 TTTAAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (19 bp):
AATAATTATACAAATTAAT
Found at i:23123420 original size:15 final size:15
Alignment explanation
Indices: 23123400--23123428 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23123390 ACTCAAATTA
23123400 CTTTTAAATTTATTT
1 CTTTTAAATTTATTT
23123415 CTTTTAAATTTATT
1 CTTTTAAATTTATT
23123429 AGAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (15 bp):
CTTTTAAATTTATTT
Found at i:23126952 original size:29 final size:29
Alignment explanation
Indices: 23126893--23127055 Score: 123
Period size: 29 Copynumber: 5.5 Consensus size: 29
23126883 ACAAAAACAA
*
23126893 AAATTTTATAAATTTTATTATTTTATTTAAAT
1 AAATTTT-TAAA-TTT-TTATTATATTTAAAT
*
23126925 AAATTTTTATATTTTTATTATATTTAAAT
1 AAATTTTTAAATTTTTATTATATTTAAAT
* * *
23126954 AAATTTTTAAATTTTATTTTGTATCTAAAT
1 AAATTTTTAAATTTT-TATTATATTTAAAT
* * * * ** * *
23126984 AACTCTTTCACTTTAAATTTGTATGT--AT
1 AAATTTTTAAATTTTTA-TTATATTTAAAT
* * *
23127012 AAATTTATATATTTTTATTATATTCAAAT
1 AAATTTTTAAATTTTTATTATATTTAAAT
23127041 AAATTTTTAAATTTT
1 AAATTTTTAAATTTT
23127056 AATTTTCACT
Statistics
Matches: 100, Mismatches: 27, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
27 5 0.05
28 11 0.11
29 43 0.43
30 31 0.31
31 3 0.03
32 7 0.07
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (29 bp):
AAATTTTTAAATTTTTATTATATTTAAAT
Found at i:23126985 original size:30 final size:30
Alignment explanation
Indices: 23126893--23127120 Score: 139
Period size: 30 Copynumber: 7.7 Consensus size: 30
23126883 ACAAAAACAA
* *
23126893 AAATTTTATAAATTTTATTATTTTATTTAAAT
1 AAATTTT-TAAATTTTATT-TTGTATCTAAAT
* * * *
23126925 AAATTTTTATATTTT-TATTATATTTAAAT
1 AAATTTTTAAATTTTATTTTGTATCTAAAT
23126954 AAATTTTTAAATTTTATTTTGTATCTAAAT
1 AAATTTTTAAATTTTATTTTGTATCTAAAT
* * * * * * *
23126984 AACTCTTTCACTTTAAATTTGTATGT--AT
1 AAATTTTTAAATTTTATTTTGTATCTAAAT
* * * *
23127012 AAATTTATATATTTT-TATTATAT-TCAAAT
1 AAATTTTTAAATTTTATTTTGTATCT-AAAT
*
23127041 AAATTTTTAAATTTTAATTTT-CA-CTCAAA-
1 AAATTTTTAAATTTT-ATTTTGTATCT-AAAT
* *
23127070 AAATTTATTAACTTTTAATTTGTATCTAAAT
1 AAATTT-TTAAATTTTATTTTGTATCTAAAT
* * *
23127101 AAGTTCTTAACTTTTATTTT
1 AAATTTTTAAATTTTATTTT
23127121 ACACTTAAAT
Statistics
Matches: 151, Mismatches: 34, Indels: 24
0.72 0.16 0.11
Matches are distributed among these distances:
26 1 0.01
27 5 0.03
28 10 0.07
29 50 0.33
30 62 0.41
31 16 0.11
32 7 0.05
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (30 bp):
AAATTTTTAAATTTTATTTTGTATCTAAAT
Found at i:23127204 original size:30 final size:29
Alignment explanation
Indices: 23127168--23127245 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
23127158 TTAAAATCAG
*
23127168 AATTTATTTGTATATAAAATAAAGA-ATAAA
1 AATTTATTTG-A-ATAAAATAAAAACATAAA
*
23127198 AGTTTATTTGAATAAAATAAAAACATAAA
1 AATTTATTTGAATAAAATAAAAACATAAA
* *
23127227 AATTTATTTAAAAAAAATA
1 AATTTATTTGAATAAAATA
23127246 GATCAGAGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.26
29 22 0.52
30 9 0.21
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (29 bp):
AATTTATTTGAATAAAATAAAAACATAAA
Found at i:23128661 original size:2 final size:2
Alignment explanation
Indices: 23128654--23128682 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23128644 TGTATGCACC
23128654 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 T
23128683 GAAGTCTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23132284 original size:157 final size:156
Alignment explanation
Indices: 23131983--23132284 Score: 410
Period size: 157 Copynumber: 1.9 Consensus size: 156
23131973 CAATATTTAC
*
23131983 CTATTATGTTGTCGTGCTTGTTAGCTTAAGCTCTACTATTAAGCTTGCATAATTTATACCATGTA
1 CTATTATGTTGTCGTGCTTATTAGCTTAAGCTCTACTATTAAGCTTGCATAATTTATACCATGTA
* * * *
23132048 TTCCCTTACAAATGTCATAAACATCACTGGATCACTTCATTGTTCACCATGAATCTCTTTGTTCT
66 TTCCCTCACAAATGTCACAAACATCACTGGATCACTTCATTGTTCACCATGAATCTCTCTATTCT
23132113 GATCATTCTAGATTGTCAATTTCCAT
131 GATCATTCTAGATTGTCAATTTCCAT
* * *
23132139 CTATTATGTTGTCGTGCTTATTAGCTTAAGCTCTACTATTAAGCTTGCATAAATTTTTGCCATTT
1 CTATTATGTTGTCGTGCTTATTAGCTTAAGCTCTACTATTAAGCTTGCAT-AATTTATACCATGT
* ** ** ** *
23132204 ATTGCCTCGTAAATGTTGCAAACATCACT-GAGTC-CTTTTGTTGTTCCCCATGAATCTCTCTAT
65 ATTCCCTCACAAATGTCACAAACATCACTGGA-TCAC-TTCATTGTTCACCATGAATCTCTCTAT
*
23132267 TTTGATCATTCTAGATTG
128 TCTGATCATTCTAGATTG
23132285 CTTATATCCC
Statistics
Matches: 126, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
156 52 0.41
157 74 0.59
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (156 bp):
CTATTATGTTGTCGTGCTTATTAGCTTAAGCTCTACTATTAAGCTTGCATAATTTATACCATGTA
TTCCCTCACAAATGTCACAAACATCACTGGATCACTTCATTGTTCACCATGAATCTCTCTATTCT
GATCATTCTAGATTGTCAATTTCCAT
Found at i:23136103 original size:17 final size:18
Alignment explanation
Indices: 23136066--23136103 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23136056 GTTTAGTTCA
* *
23136066 ATTTATATTAGTTTGTTT
1 ATTTATATTAGTATGTAT
23136084 ATTT-TATTAGTATGTAT
1 ATTTATATTAGTATGTAT
23136101 ATT
1 ATT
23136104 AATTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (18 bp):
ATTTATATTAGTATGTAT
Found at i:23149076 original size:22 final size:22
Alignment explanation
Indices: 23149050--23149091 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23149040 TTTAGAGGAT
*
23149050 AAAAATTATTTTTGTTTATTTG
1 AAAAATTATTTTTATTTATTTG
*
23149072 AAAAATTTTTTTTATTTATT
1 AAAAATTATTTTTATTTATT
23149092 ATTTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
AAAAATTATTTTTATTTATTTG
Found at i:23149153 original size:15 final size:15
Alignment explanation
Indices: 23149133--23149170 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
23149123 TTCATTTTTC
23149133 ATTTTTTTACAAAATT
1 ATTTTTTTA-AAAATT
23149149 ATTTTTTTAAAAATT
1 ATTTTTTTAAAAATT
23149164 ATTTTTT
1 ATTTTTT
23149171 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTTTTAAAAATT
Found at i:23149279 original size:21 final size:21
Alignment explanation
Indices: 23149263--23149328 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 21
23149253 AAAAATAGGT
23149263 TAAAAATAAAATCAAATAAAA
1 TAAAAATAAAATCAAATAAAA
23149284 TAAAAATAAAA--AAATAAAA
1 TAAAAATAAAATCAAATAAAA
* * *
23149303 AAATAAAAAAAAT-GAA-AAAA
1 TAA-AAATAAAATCAAATAAAA
23149323 TAAAAA
1 TAAAAA
23149329 CTTGTGATCG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 13 0.33
20 13 0.33
21 13 0.33
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAAAATAAAATCAAATAAAA
Found at i:23149282 original size:16 final size:14
Alignment explanation
Indices: 23149264--23149328 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
23149254 AAAATAGGTT
23149264 AAAAAT-AAAATCAA
1 AAAAATAAAAAT-AA
23149278 ATAAAATAAAAATAA
1 A-AAAATAAAAATAA
23149293 AAAAAT-AAAA-AA
1 AAAAATAAAAATAA
* *
23149305 ATAAA-AAAAATGA
1 AAAAATAAAAATAA
23149318 AAAAATAAAAA
1 AAAAATAAAAA
23149329 CTTGTGATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 10 0.23
13 9 0.21
14 11 0.26
15 8 0.19
16 5 0.12
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.14
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:23149298 original size:8 final size:8
Alignment explanation
Indices: 23149285--23149328 Score: 70
Period size: 8 Copynumber: 5.4 Consensus size: 8
23149275 CAAATAAAAT
23149285 AAAAATAA
1 AAAAATAA
23149293 AAAAATAA
1 AAAAATAA
23149301 AAAAATAAA
1 AAAAAT-AA
*
23149310 AAAAATGA
1 AAAAATAA
23149318 AAAAATAA
1 AAAAATAA
23149326 AAA
1 AAA
23149329 CTTGTGATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:23149311 original size:17 final size:17
Alignment explanation
Indices: 23149264--23149328 Score: 76
Period size: 17 Copynumber: 3.6 Consensus size: 17
23149254 AAAATAGGTT
*
23149264 AAAAATAAAATCAAATAA
1 AAAAATAAAA-AAAATAA
*
23149282 AATAAAAATAAAAAAATAA
1 AA-AAATA-AAAAAAATAA
*
23149301 AAAAATAAAAAAAATGA
1 AAAAATAAAAAAAATAA
23149318 AAAAATAAAAA
1 AAAAATAAAAA
23149329 CTTGTGATCG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 20 0.49
18 6 0.15
19 12 0.29
20 3 0.07
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAAATAAAAAAAATAA
Found at i:23149327 original size:5 final size:5
Alignment explanation
Indices: 23149265--23149320 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
23149255 AAATAGGTTA
* * *
23149265 AAAAT AAAAT CAAAT AAAAT AAAAAT AAAAA AATAAA AAAAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT
23149316 GAAAA
1 -AAAA
23149321 AATAAAAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.09
5 25 0.58
6 14 0.33
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:23150209 original size:3 final size:3
Alignment explanation
Indices: 23150196--23150260 Score: 64
Period size: 3 Copynumber: 21.7 Consensus size: 3
23150186 AAAAAGTATA
*
23150196 AAT ATAT AAT AAT -AT AAT -AT AAT -AT AAT AAT AAGT AAT AAT ATT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
23150240 AAT AAT AAT ATAT TAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AA
23150261 CAAATTATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 6 0.12
3 38 0.73
4 8 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:23150209 original size:10 final size:10
Alignment explanation
Indices: 23150196--23150259 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
23150186 AAAAAGTATA
23150196 AATATATAAT
1 AATATATAAT
23150206 AATATA-ATAT
1 AATATATA-AT
23150216 AATATAATAAT
1 AATAT-ATAAT
23150227 AAGTA-ATAAT
1 AA-TATATAAT
*
23150237 ATTA-ATAAT
1 AATATATAAT
*
23150246 AATATATTAT
1 AATATATAAT
23150256 AATA
1 AATA
23150260 ACAAATTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
9 11 0.24
10 27 0.59
11 5 0.11
12 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
AATATATAAT
Found at i:23150214 original size:5 final size:5
Alignment explanation
Indices: 23150204--23150259 Score: 58
Period size: 5 Copynumber: 10.2 Consensus size: 5
23150194 TAAATATATA
*
23150204 ATAAT ATAAT ATAAT ATAAT AATAAGT AATAAT ATTAAT AATAAT ATATT
1 ATAAT ATAAT ATAAT ATAAT -ATAA-T -ATAAT A-TAAT -ATAAT ATAAT
23150254 ATAAT A
1 ATAAT A
23150260 ACAAATTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
5 25 0.56
6 13 0.29
7 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:23150217 original size:13 final size:13
Alignment explanation
Indices: 23150199--23150260 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 13
23150189 AAGTATAAAT
23150199 ATATAATAATATA
1 ATATAATAATATA
23150212 ATATAAT-ATAATA
1 ATATAATAAT-ATA
*
23150225 ATAAGTAATAATATT
1 AT-A-TAATAATATA
23150240 A-ATAATAATATA
1 ATATAATAATATA
*
23150252 TTATAATAA
1 ATATAATAA
23150261 CAAATTATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
12 11 0.27
13 20 0.49
14 1 0.02
15 7 0.17
16 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:23150600 original size:89 final size:89
Alignment explanation
Indices: 23150475--23151598 Score: 948
Period size: 89 Copynumber: 12.7 Consensus size: 89
23150465 GAGTGATTGG
* * * * *
23150475 GATGAAACCATGAGTTAAAATAAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAATGATCGGG
1 GATGAAACTACGAGTCAAAAT-AAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGG
*
23150540 ATGAAACCATAAATCATGTGATCGA
65 ATGAAACCATGAATCATGTGATCGA
* * * *
23150565 GACGAAACTACGAGTCAAAATAAAGTGAGTAGGACCTAGTCGAA-GTCGAAAATAAATGATCGAG
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTC-AAGGTCGAAAATAAATGATCGGG
23150629 ATGAAACCATGAATCATGTGATCGA
65 ATGAAACCATGAATCATGTGATCGA
** * * * *
23150654 GACAAAACTATGAGTCAAAATAAAATGA-TCAGGATCGAGTCGAGGTCGAAAATAAATGATCGGG
1 GATGAAACTACGAGTCAAAATAAAGTGACT-AGGACCGAGTCAAGGTCGAAAATAAATGATCGGG
*
23150718 ATGAAACCAT-AGATCATGTGACCGA
65 ATGAAACCATGA-ATCATGTGATCGA
* * * * * *
23150743 GATGAAACCACAAGTCAAAATAAAAATGACTAGGACCGTGTCAAGGTCAAAAATAAATGATCAGG
1 GATGAAACTACGAGTCAAAAT-AAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGG
*
23150808 ATGAAACCATGAATCATGTAATCGA
65 ATGAAACCATGAATCATGTGATCGA
* * * * * * *
23150833 GAT-AAAATCACGAGTCAAAATAAGGCGACTAAGACTGAGTCAAGGTGGAAAATAAATGATCAGG
1 GATGAAACT-ACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGG
* * ** *
23150897 ATGAAATCACGAATCATACGA-CCA
65 ATGAAACCATGAATCATGTGATCGA
* * *** * ** *
23150921 GGATGAAACAATGAGTCAAAATAAAACAACCAGGATTGAGTCAAGGT--AAAAAAAATGATCGGG
1 -GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGG
* ** * *
23150984 ATGAGACCACAAATCATGTGATTGG
65 ATGAAACCATGAATCATGTGATCGA
* * * * * * * * * * *
23151009 GACGAAAC--C-A--CAAAATAAGGCGACCAGGATCGAGTCGAGATCAAAAATAAATAATTGAGA
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGGA
23151069 TGAAACCATGAATCATGTGA-CTGA
66 TGAAACCATGAATCATGTGATC-GA
* * * * * * * *
23151093 GATGAAACCATGAGTCAAAATAAGGTGACCATGATCGAGTCAAGGTTGAAAATAAATGATCGAGA
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGGA
** *
23151158 CAAAACCATGAATCATGTGATCGG
66 TGAAACCATGAATCATGTGATCGA
* * * * * * * *
23151182 GACGAAACCACGAGTCAAAATAAGGTGACCAAGACTGAGTCAAGGTCAAAAATAAATGATCGAGA
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGGA
* * *
23151247 TGAAACCACGAATCACGTGACCGA
66 TGAAACCATGAATCATGTGATCGA
* * * * * ** * **
23151271 GATGAAACCACGAGTCAAAATAAGGAGACCAAGACTAAGTCAAGGTCAAAAATAAATGATCAAGA
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGGA
* * *
23151336 TGAAACCATGAATAATGTGACCGG
66 TGAAACCATGAATCATGTGATCGA
* * * ** * *
23151360 GAT-AAAATCACAAGTCAAAATAAAGTGA-TCAGGACCGTGTTGAGGTCGAAAATAAATAATCAG
1 GATGAAACT-ACGAGTCAAAATAAAGTGACT-AGGACCGAGTCAAGGTCGAAAATAAATGATCGG
* * *
23151423 GATGAAATCACT-AATCATGTGATTGG
64 GATGAAACCA-TGAATCATGTGATCGA
* * * * * *
23151449 GATAAAATTACGAGTCAAAATAAGGTGACTAAGACCAAGTCAAGGTCGAAAATAAATTATCGGGA
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGGA
* * *
23151514 CGAAACCATGAATCATGTGATTGG
66 TGAAACCATGAATCATGTGATCGA
* * * ** *
23151538 GATAAAACTATGAGTCAAAATAAAGTGACTAGGATCGAGTTGAGATCGAAAATAAATGATC
1 GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATC
23151599 AGGACTAAAT
Statistics
Matches: 850, Mismatches: 158, Indels: 53
0.80 0.15 0.05
Matches are distributed among these distances:
82 25 0.03
84 39 0.05
87 38 0.04
88 9 0.01
89 638 0.75
90 99 0.12
91 2 0.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (89 bp):
GATGAAACTACGAGTCAAAATAAAGTGACTAGGACCGAGTCAAGGTCGAAAATAAATGATCGGGA
TGAAACCATGAATCATGTGATCGA
Found at i:23151592 original size:267 final size:267
Alignment explanation
Indices: 23150467--23151599 Score: 1045
Period size: 267 Copynumber: 4.3 Consensus size: 267
23150457 CCAAGATCGA
* * *
23150467 GTGATTGGGATGAAACCATGAGTTAAAATAAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAA
1 GTGATTGGGATGAAACCACGAGTCAAAAT-AAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAA
** * * **
23150532 TGATCGGGATGAAACCATAAATCATGTGATCGAGACGAAA-CTACGAGTCAAAATAAAGTGAGT-
65 TGATCAAGATGAAACCATGAATCATGTGACCGAGATAAAATC-ACGAGTCAAAATAAAGTGA-TC
* *
23150595 AGGACCTAGTCGAA-GTCGAAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGAGACAA
128 AGGACCGAGTC-AAGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGACAA
* * * * *
23150659 AACTATGAGTCAAAATAAAATGATCAGGATCGAGTCGAGGTCGAAAATAAATGATCGGGATGAAA
192 AACTACGAGTCAAAATAAAATGACCAAGACCGAGTCAAGGTCGAAAATAAATGATCGGGATGAAA
*
23150724 CCA-TAGATCAT
257 CCACGA-ATCAT
** * * ** * *
23150735 GTGACCGAGATGAAACCACAAGTCAAAATAAAAATGACTAGGACCGTGTCAAGGTCAAAAATAAA
1 GTGATTGGGATGAAACCACGAGTCAAAAT-AAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAA
* * * * *
23150800 TGATCAGGATGAAACCATGAATCATGTAATCGAGATAAAATCACGAGTCAAAATAAGGCGA-CTA
65 TGATCAAGATGAAACCATGAATCATGTGACCGAGATAAAATCACGAGTCAAAATAAAGTGATC-A
* * * * * ** * * **
23150864 AGACTGAGTCAAGGTGGAAAATAAATGATC-AGGATGAAATCACGAATCATACGACCAGGATGAA
129 GGACCGAGTCAAGGTCGAAAATAAATGATCGA-GATGAAACCATGAATCATGTGATCGGGACAAA
* * ** * ** * *
23150928 ACAATGAGTCAAAATAAAACAACCAGGATTGAGTCAAGGT--AAAAAAAATGATCGGGATGAGAC
193 ACTACGAGTCAAAATAAAATGACCAAGACCGAGTCAAGGTCGAAAATAAATGATCGGGATGAAAC
*
23150991 CACAAATCAT
258 CACGAATCAT
* * * * *
23151001 GTGATTGGGACGAAA-C-C-A--CAAAATAAGGCGACCAGGATCGAGTCGAGATCAAAAATAAAT
1 GTGATTGGGATGAAACCACGAGTCAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAAT
* ** * * * * * * *
23151061 AATTGAGATGAAACCATGAATCATGTGACTGAGATGAAACCATGAGTCAAAATAAGGTGACCATG
66 GATCAAGATGAAACCATGAATCATGTGACCGAGATAAAATCACGAGTCAAAATAAAGTGATCAGG
* * ** * *
23151126 ATCGAGTCAAGGTTGAAAATAAATGATCGAGACAAAACCATGAATCATGTGATCGGGACGAAACC
131 ACCGAGTCAAGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGACAAAACT
** * * *
23151191 ACGAGTCAAAATAAGGTGACCAAGACTGAGTCAAGGTCAAAAATAAATGATCGAGATGAAACCAC
196 ACGAGTCAAAATAAAATGACCAAGACCGAGTCAAGGTCGAAAATAAATGATCGGGATGAAACCAC
*
23151256 GAATCAC
261 GAATCAT
** * * * * * ** *
23151263 GTGACCGAGATGAAACCACGAGTCAAAATAAGGAGACCAAGACTAAGTCAAGGTCAAAAATAAAT
1 GTGATTGGGATGAAACCACGAGTCAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAAT
* * *
23151328 GATCAAGATGAAACCATGAATAATGTGACCGGGATAAAATCACAAGTCAAAATAAAGTGATCAGG
66 GATCAAGATGAAACCATGAATCATGTGACCGAGATAAAATCACGAGTCAAAATAAAGTGATCAGG
* ** * * * *
23151393 ACCGTGTTGAGGTCGAAAATAAATAATC-AGGATGAAATCACT-AATCATGTGATTGGGATAAAA
131 ACCGAGTCAAGGTCGAAAATAAATGATCGA-GATGAAACCA-TGAATCATGTGATCGGGACAAAA
* ** * * * *
23151456 TTACGAGTCAAAATAAGGTGACTAAGACCAAGTCAAGGTCGAAAATAAATTATCGGGACGAAACC
194 CTACGAGTCAAAATAAAATGACCAAGACCGAGTCAAGGTCGAAAATAAATGATCGGGATGAAACC
*
23151521 ATGAATCAT
259 ACGAATCAT
* * * * * * * *
23151530 GTGATTGGGATAAAACTATGAGTCAAAATAAAGTGACTAGGATCGAGTTGAGATCGAAAATAAAT
1 GTGATTGGGATGAAACCACGAGTCAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAAT
23151595 GATCA
66 GATCA
23151600 GGACTAAATC
Statistics
Matches: 695, Mismatches: 153, Indels: 35
0.79 0.17 0.04
Matches are distributed among these distances:
260 159 0.23
261 8 0.01
262 39 0.06
263 2 0.00
264 2 0.00
265 2 0.00
266 40 0.06
267 254 0.37
268 188 0.27
269 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (267 bp):
GTGATTGGGATGAAACCACGAGTCAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAAT
GATCAAGATGAAACCATGAATCATGTGACCGAGATAAAATCACGAGTCAAAATAAAGTGATCAGG
ACCGAGTCAAGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATGTGATCGGGACAAAACT
ACGAGTCAAAATAAAATGACCAAGACCGAGTCAAGGTCGAAAATAAATGATCGGGATGAAACCAC
GAATCAT
Found at i:23152482 original size:51 final size:51
Alignment explanation
Indices: 23152413--23152511 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
23152403 TTCATTTGGA
* *
23152413 TTCAAGTCACCCTTTCGGGTTTTCAACTTAAACCCTCTATTTTTTTTTGAC
1 TTCAAGCCACCCTCTCGGGTTTTCAACTTAAACCCTCTATTTTTTTTTGAC
* ** *
23152464 TTCAAGCCACTCTCTCGGGTTTTCAACTTAAACTTTCTTTTTTTTTTT
1 TTCAAGCCACCCTCTCGGGTTTTCAACTTAAACCCTCTATTTTTTTTT
23152512 TTTAAGATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.48
Consensus pattern (51 bp):
TTCAAGCCACCCTCTCGGGTTTTCAACTTAAACCCTCTATTTTTTTTTGAC
Found at i:23153145 original size:16 final size:16
Alignment explanation
Indices: 23153124--23153155 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23153114 GATTTTGAAC
23153124 TAAGCACATACTTCTT
1 TAAGCACATACTTCTT
23153140 TAAGCACATACTTCTT
1 TAAGCACATACTTCTT
23153156 ACATCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
TAAGCACATACTTCTT
Found at i:23163917 original size:3 final size:3
Alignment explanation
Indices: 23163906--23163971 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
23163896 AAAAAATATA
*
23163906 AAT ATAT AAT AAC AAT AAT AAT -AT AAT -AT AAT -AT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
23163949 AAT AAGT AAT GAT ATT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT AAT A
23163972 TATTAGAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 6 0.12
3 40 0.77
4 6 0.12
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:23163949 original size:27 final size:25
Alignment explanation
Indices: 23163900--23163953 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
23163890 AAAAGAAAAA
23163900 AATATAAATATATAATAACAATAAT
1 AATATAAATATATAATAACAATAAT
*
23163925 AATATAATATAATATAATAATAATAAT
1 AATATAA-AT-ATATAATAACAATAAT
23163952 AA
1 AA
23163954 GTAATGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 7 0.27
26 2 0.08
27 17 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AATATAAATATATAATAACAATAAT
Found at i:23176611 original size:2 final size:2
Alignment explanation
Indices: 23176600--23176633 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
23176590 CCAAAATGGC
*
23176600 TA TA TA -A TA TA TA TC 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 T
23176634 CCAAATATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23182145 original size:7 final size:7
Alignment explanation
Indices: 23182133--23182440 Score: 162
Period size: 7 Copynumber: 46.7 Consensus size: 7
23182123 GGGATTGGTT
23182133 GGTTTAG
1 GGTTTAG
23182140 GGTTTAG
1 GGTTTAG
23182147 GGTTT--
1 GGTTTAG
*
23182152 TGTTTA-
1 GGTTTAG
*
23182158 GGTTTTG
1 GGTTTAG
**
23182165 AATTT-G
1 GGTTTAG
*
23182171 GCTTTAG
1 GGTTTAG
23182178 GGTTTA-
1 GGTTTAG
*
23182184 GGATTAG
1 GGTTTAG
23182191 GGTTTAG
1 GGTTTAG
*
23182198 GTTTTA-
1 GGTTTAG
23182204 GGTTTAG
1 GGTTTAG
23182211 GG-TTA-
1 GGTTTAG
23182216 GGTTTAG
1 GGTTTAG
23182223 GGTTT--
1 GGTTTAG
*
23182228 GGTTTAT
1 GGTTTAG
23182235 GGTTTA-
1 GGTTTAG
*
23182241 GGTTTGG
1 GGTTTAG
23182248 GGTTTAG
1 GGTTTAG
*
23182255 GATTTA-
1 GGTTTAG
23182261 GGTTT-G
1 GGTTTAG
23182267 GTGTTTA-
1 G-GTTTAG
23182274 GGTTTAG
1 GGTTTAG
23182281 GGTTTA-
1 GGTTTAG
*
23182287 AGTTT-G
1 GGTTTAG
23182293 GGCTTTA-
1 GG-TTTAG
23182300 GGTTT-G
1 GGTTTAG
*
23182306 GAGTTTTG
1 G-GTTTAG
** *
23182314 CATTT-T
1 GGTTTAG
23182320 GGTTTAAGG
1 GGTTT-A-G
23182329 TGGTTTAG
1 -GGTTTAG
***
23182337 AACTT-G
1 GGTTTAG
*
23182343 GGTTTTG
1 GGTTTAG
* *
23182350 GGTTAAA
1 GGTTTAG
23182357 GGTTT--
1 GGTTTAG
23182362 GGTTTAG
1 GGTTTAG
*
23182369 GGTTTAA
1 GGTTTAG
23182376 GGTTTAG
1 GGTTTAG
*
23182383 GATTTA-
1 GGTTTAG
*
23182389 GGTTTGG
1 GGTTTAG
23182396 GGTTTAG
1 GGTTTAG
23182403 GGTTTAG
1 GGTTTAG
23182410 GGTTTA-
1 GGTTTAG
23182416 GGTTTA-
1 GGTTTAG
*
23182422 GGTTTAA
1 GGTTTAG
23182429 GGTTTAG
1 GGTTTAG
23182436 GGTTT
1 GGTTT
23182441 GTAAGGGGAA
Statistics
Matches: 231, Mismatches: 41, Indels: 58
0.70 0.12 0.18
Matches are distributed among these distances:
5 16 0.07
6 70 0.30
7 137 0.59
8 2 0.01
9 1 0.00
10 5 0.02
ACGTcount: A:0.15, C:0.01, G:0.36, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:23182192 original size:13 final size:13
Alignment explanation
Indices: 23182133--23182440 Score: 168
Period size: 13 Copynumber: 23.9 Consensus size: 13
23182123 GGGATTGGTT
23182133 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
*
23182146 GGGTTT--TGTTTA
1 -GGTTTAGGGTTTA
* **
23182158 GGTTTTGAATTT-
1 GGTTTAGGGTTTA
23182170 GGCTTTAGGGTTTA
1 GG-TTTAGGGTTTA
*
23182184 GGATTAGGGTTTA
1 GGTTTAGGGTTTA
23182197 GGTTTTA-GGTTTA
1 GG-TTTAGGGTTTA
*
23182210 GGGTTA-GGTTTA
1 GGTTTAGGGTTTA
23182222 GGGTTT--GGTTTA
1 -GGTTTAGGGTTTA
*
23182234 TGGTTTA-GGTTTGG
1 -GGTTTAGGGTTT-A
*
23182248 GGTTTAGGATTTA
1 GGTTTAGGGTTTA
23182261 GGTTT-GGTGTTTA
1 GGTTTAGG-GTTTA
23182274 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
*
23182287 AGTTT-GGGCTTTA
1 GGTTTAGGG-TTTA
*
23182300 GGTTT-GGAGTTTT
1 GGTTTAGG-GTTTA
* *
23182313 GCATTT-TGGTTTAA
1 G-GTTTAGGGTTT-A
23182327 GG--T--GGTTTA
1 GGTTTAGGGTTTA
** *
23182336 GAACTT-GGGTTTTG
1 G-GTTTAGGG-TTTA
* *
23182350 GGTTAAAGGTTT-
1 GGTTTAGGGTTTA
23182362 GGTTTAGGGTTTAA
1 GGTTTAGGGTTT-A
*
23182376 GGTTTAGGATTTA
1 GGTTTAGGGTTTA
*
23182389 GGTTTGGGGTTTA
1 GGTTTAGGGTTTA
23182402 GGGTTTAGGGTTTA
1 -GGTTTAGGGTTTA
23182416 GGTTTA-GGTTTAA
1 GGTTTAGGGTTT-A
23182429 GGTTTAGGGTTT
1 GGTTTAGGGTTT
23182441 GTAAGGGGAA
Statistics
Matches: 234, Mismatches: 34, Indels: 52
0.73 0.11 0.16
Matches are distributed among these distances:
9 2 0.01
10 5 0.02
11 6 0.03
12 48 0.21
13 117 0.50
14 56 0.24
ACGTcount: A:0.15, C:0.01, G:0.36, T:0.47
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:23182196 original size:20 final size:20
Alignment explanation
Indices: 23182173--23182440 Score: 182
Period size: 20 Copynumber: 13.5 Consensus size: 20
23182163 TGAATTTGGC
*
23182173 TTTAGGGTTTAGGATTAGGG
1 TTTAGGGTTTAGGTTTAGGG
*
23182193 TTTAGGTTTTAGGTTTAGGG
1 TTTAGGGTTTAGGTTTAGGG
23182213 -TTA-GGTTTAGGGTTT--GG
1 TTTAGGGTTTA-GGTTTAGGG
* *
23182230 TTTATGGTTTAGGTTTGGGG
1 TTTAGGGTTTAGGTTTAGGG
*
23182250 TTTAGGATTTAGGTTT-GGTG
1 TTTAGGGTTTAGGTTTAGG-G
*
23182270 TTTA-GGTTTAGGGTTTA-AG
1 TTTAGGGTTTA-GGTTTAGGG
23182289 TTT-GGGCTTTAGGTTT-GGAG
1 TTTAGGG-TTTAGGTTTAGG-G
* ** *
23182309 TTTTGCATTTTGGTTTAAGGTGG
1 TTTAGGGTTTAGGTTT-A-G-GG
*** * *
23182332 TTTAGAACTTGGGTTTTGGG
1 TTTAGGGTTTAGGTTTAGGG
* *
23182352 TTAAAGGTTT-GGTTTAGGG
1 TTTAGGGTTTAGGTTTAGGG
*
23182371 TTTAAGGTTTAGGATTTA-GG
1 TTTAGGGTTTAGG-TTTAGGG
*
23182391 TTTGGGGTTTAGGGTTTAGGG
1 TTTAGGGTTTA-GGTTTAGGG
*
23182412 TTTA-GGTTTAGGTTTAAGG
1 TTTAGGGTTTAGGTTTAGGG
23182431 TTTAGGGTTT
1 TTTAGGGTTT
23182441 GTAAGGGGAA
Statistics
Matches: 199, Mismatches: 27, Indels: 44
0.74 0.10 0.16
Matches are distributed among these distances:
17 2 0.01
18 13 0.07
19 61 0.31
20 95 0.48
21 13 0.07
23 14 0.07
24 1 0.01
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTAGGTTTAGGG
Found at i:23182209 original size:64 final size:63
Alignment explanation
Indices: 23182135--23182301 Score: 161
Period size: 57 Copynumber: 2.7 Consensus size: 63
23182125 GATTGGTTGG
* *
23182135 TTTAGGGTTTAGGGTTTTGTTTAGGTTTTGAATTTGGCTTTAGGGTTTAGGATTAGGGTTTAGGT
1 TTTA-GGTTTAGGGTTTGGTTTAGG-TTTGAATTTGGCTTTAGGGTTTAGGATTAGGGTTTAGGA
* * * *
23182200 TTTAGGTTTAGGGTTAGGTTTAGG---G--TTTGG-TTTATGGTTTAGGTTTGGGGTTTAGGA
1 TTTAGGTTTAGGGTTTGGTTTAGGTTTGAATTTGGCTTTAGGGTTTAGGATTAGGGTTTAGGA
23182257 TTTAGGTTT-GGTGTTTAGGTTTAGGGTTT-AAGTTTGGGCTTTAGG
1 TTTAGGTTTAGG-GTTT-GGTTTA-GGTTTGAA-TTT-GGCTTTAGG
23182302 TTTGGAGTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
56 2 0.02
57 35 0.42
58 11 0.13
59 2 0.02
60 1 0.01
64 21 0.25
65 6 0.07
66 5 0.06
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.49
Consensus pattern (63 bp):
TTTAGGTTTAGGGTTTGGTTTAGGTTTGAATTTGGCTTTAGGGTTTAGGATTAGGGTTTAGGA
Found at i:23184957 original size:53 final size:48
Alignment explanation
Indices: 23184877--23185037 Score: 162
Period size: 48 Copynumber: 3.2 Consensus size: 48
23184867 AAAGTTTTAA
* * *
23184877 AAACTTTAAAGATATGAAATTTGAAAAACTCCTTTAAACAGA-GCTCTTG
1 AAACTTTAAA-ATCTTAAATTTGAAAAACTCCTCTAAACAGAGGCT-TTG
* *
23184926 AAACTTTAAGAACAATCTTAACTTTTGAAAAACTCCTCTAAATAGAGGCTTTG
1 AAACTTT---AA-AATCTTAA-ATTTGAAAAACTCCTCTAAACAGAGGCTTTG
* * * * *
23184979 AAACTTTAAAATCTTAAATTTGAAAAACTCCTCTATAGAAAGACTATG
1 AAACTTTAAAATCTTAAATTTGAAAAACTCCTCTAAACAGAGGCTTTG
23185027 AAACTTTAAAA
1 AAACTTTAAAA
23185038 AGCTTATTTA
Statistics
Matches: 95, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
48 36 0.38
49 15 0.16
50 2 0.02
52 7 0.07
53 32 0.34
54 3 0.03
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (48 bp):
AAACTTTAAAATCTTAAATTTGAAAAACTCCTCTAAACAGAGGCTTTG
Found at i:23185218 original size:99 final size:97
Alignment explanation
Indices: 23185035--23185365 Score: 337
Period size: 97 Copynumber: 3.4 Consensus size: 97
23185025 TGAAACTTTA
* * * * *
23185035 AAAAGCT-TATTTAAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTATTTAAAG
1 AAAAGCTCT-TTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTTTAAAG
23185099 AAAGGATAGGAAACTTTAAAAATCTCAATTTTG
65 AAAGGATAGGAAACTTTAAAAATCTCAATTTTG
** * * *
23185132 AAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCATTTTTGAAAAGCTCTTTTAA-
1 AAAAGCTCTTTTAAAGAAAGGCTAGGAAAC-TTTAAAAATCTCAATTTTGAAAAGCTCTTTAAAG
23185196 AAAGAGATTAGGAAACTTTAAAAATCTCAATTTTG
65 AAAG-GA-TAGGAAACTTTAAAAATCTCAATTTTG
* * * *
23185231 AAAAACTCCTTTAAAGAAAGGCTAGGAAAGTTTAAAAATC-CTAATTTTGAAAAGCTCTCATAAA
1 AAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTC-AATTTTGAAAAGCTCT-TTAAA
* * * * * *
23185295 GGAAGGCTAGAAAAC-TTATAATTCTTAATTTTG
64 GAAAGGATAGGAAACTTTAAAAATCTCAATTTTG
** * * * * *
23185328 AAAAAATCCTCTAATGAGAGGCTAGGAAGCTTTAAAAA
1 AAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAA
23185366 AAAAACGTCA
Statistics
Matches: 196, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
97 77 0.39
98 60 0.31
99 56 0.29
100 3 0.02
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (97 bp):
AAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTTTAAAGA
AAGGATAGGAAACTTTAAAAATCTCAATTTTG
Found at i:23185295 original size:49 final size:49
Alignment explanation
Indices: 23185045--23185365 Score: 312
Period size: 49 Copynumber: 6.6 Consensus size: 49
23185035 AAAAGCTTAT
* * * * *
23185045 TTAAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTAT-
1 TTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTC
* *
23185093 TTAAAGAAAGGATAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTT
1 TTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTC
** * * *
23185142 TTAAAGAAAGGCTATAAAACTTTTAAAAAACTCATTTTTGAAAAGCTCTT
1 TTAAAGAAAGGCTAGGAAAC-TTTAAAAATCTCAATTTTGAAAAGCTCTC
** *
23185192 TTAAA-AAGAGATTAGGAAACTTTAAAAATCTCAATTTTGAAAAACTC-C
1 TTAAAGAA-AGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTC
*
23185240 TTTAAAGAAAGGCTAGGAAAGTTTAAAAATC-CTAATTTTGAAAAGCTCTC
1 -TTAAAGAAAGGCTAGGAAACTTTAAAAATCTC-AATTTTGAAAAGCTCTC
* * * * * * **
23185290 ATAAAGGAAGGCTAGAAAAC-TTATAATTCTTAATTTTGAAAAAATC-C
1 TTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTC
* * *
23185337 TCTAATGAGAGGCTAGGAAGCTTTAAAAA
1 T-TAAAGAAAGGCTAGGAAACTTTAAAAA
23185366 AAAAACGTCA
Statistics
Matches: 225, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.00
48 79 0.35
49 102 0.45
50 43 0.19
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (49 bp):
TTAAAGAAAGGCTAGGAAACTTTAAAAATCTCAATTTTGAAAAGCTCTC
Found at i:23185367 original size:148 final size:147
Alignment explanation
Indices: 23185057--23185365 Score: 356
Period size: 148 Copynumber: 2.1 Consensus size: 147
23185047 AAAGAAAGGA
* * *
23185057 TAGGAAACTTTAAAAATTTCAATTCT-AAAAAGCT-ATTTAAAGAAAGGATAGGAAACTTTAAAA
1 TAGGAAACTTTAAAAATCTCAATTTTGAAAAA-CTCCTTTAAAGAAAGGATAGGAAACTTTAAAA
** * *
23185120 ATCTCAATTTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCATTTTTGAAA
65 ATCTCAATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAAAAC-TTTAAAAAACTCAATTTTGAAA
** * * *
23185185 AGCTCTTTTAAAAAGAGAT
129 AAATCCTCTAAAAAGAGAC
* *
23185204 TAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTTTAAAGAAAGGCTAGGAAAGTTTAAAAA
1 TAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTTTAAAGAAAGGATAGGAAACTTTAAAAA
* * ** *
23185269 TC-CTAATTTTGAAAAGCTCTCATAAAGGAAGGCTAGAAAAC-TTATAATTCTTAATTTTGAAAA
66 TCTC-AATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAAAACTTTAAAAAACTCAATTTTGAAAA
** *
23185332 AATCCTCTAATGAGAGGC
130 AATCCTCTAAAAAGAGAC
*
23185350 TAGGAAGCTTTAAAAA
1 TAGGAAACTTTAAAAA
23185366 AAAAACGTCA
Statistics
Matches: 136, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
146 42 0.31
147 27 0.20
148 67 0.49
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (147 bp):
TAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTTTAAAGAAAGGATAGGAAACTTTAAAAA
TCTCAATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAAAACTTTAAAAAACTCAATTTTGAAAAA
ATCCTCTAAAAAGAGAC
Found at i:23185797 original size:49 final size:48
Alignment explanation
Indices: 23185738--23186038 Score: 288
Period size: 49 Copynumber: 6.2 Consensus size: 48
23185728 ACTATGAAAC
*
23185738 TTTAAAAAGCTTATTTAAAGAAAGGATAGGAAACTTTAAAAATTTCAAT
1 TTTAAAAAGCTT-TTTAAAGAAAGGATAGGAAACTTTAAAAATCTCAAT
* *
23185787 TCTAAAAAGCTATTTAAAGAAAGGATAGG-AACTTTAAAAATCTCAAT
1 TTTAAAAAGCTTTTTAAAGAAAGGATAGGAAACTTTAAAAATCTCAAT
* * ** * *
23185834 TTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCATT
1 TTTAAAAAGCT-TTTTAAAGAAAGGATAGGAAAC-TTTAAAAATCTCAAT
* *
23185884 TTTGAAAAGCTTTTTTAA-AAAGAGATTAGGAAACTTTAAAAATCTCAAT
1 TTTAAAAAGCTTTTTAAAGAAAG-GA-TAGGAAACTTTAAAAATCTCAAT
* * *
23185933 TTTGAAAAA-CTCCTTTAAAGAAAGGCTAGGAAATTTTAAAAATC-CTAAT
1 TTT-AAAAAGCT-TTTTAAAGAAAGGATAGGAAACTTTAAAAATCTC-AAT
* ** * * * *
23185982 TTTGAAAAGCTCTCATAAAGAAAGGCTAGAAAAC-TTATAATTCTCAAT
1 TTTAAAAAGCT-TTTTAAAGAAAGGATAGGAAACTTTAAAAATCTCAAT
23186030 TTTGAAAAA
1 TTT-AAAAA
23186039 ATCCTCTAAG
Statistics
Matches: 209, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
47 26 0.12
48 53 0.25
49 86 0.41
50 40 0.19
51 4 0.02
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (48 bp):
TTTAAAAAGCTTTTTAAAGAAAGGATAGGAAACTTTAAAAATCTCAAT
Found at i:23185940 original size:99 final size:97
Alignment explanation
Indices: 23185742--23186037 Score: 325
Period size: 99 Copynumber: 3.0 Consensus size: 97
23185732 TGAAACTTTA
* * * *
23185742 AAAAGCT-TATTTAAAGAAAGGATAGGAAAC-TTTAAAAATTTCAATTCTAAAAAGCTATTTAAA
1 AAAAGCTCT-TTTAAAGAAAGGCTAGGAAACTTTTAAAAATCTCAATTTTGAAAAGCTATTTAAA
23185805 GAAAGGATAGGAACTTTAAAAATCTCAATTTTG
65 GAAAGGATAGGAACTTTAAAAATCTCAATTTTG
** * * * *
23185838 AAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCATTTTTGAAAAGCTTTTTTAA-
1 AAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTTAAAAATCTCAATTTTGAAAAGCTATTTAAAG
23185902 AAAGAGATTAGGAAACTTTAAAAATCTCAATTTTG
66 AAAG-GA-TAGG-AACTTTAAAAATCTCAATTTTG
* * * *
23185937 AAAAACTCCTTTAAAGAAAGGCTAGGAAA-TTTTAAAAATC-CTAATTTTGAAAAGCTCTCATAA
1 AAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTTAAAAATCTC-AATTTTGAAAAGCTAT-TTAA
* * * *
23186000 AGAAAGGCTAGAAAAC-TTATAATTCTCAATTTTG
64 AGAAAGGATAG-GAACTTTAAAAATCTCAATTTTG
23186034 AAAA
1 AAAA
23186038 AATCCTCTAA
Statistics
Matches: 168, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
96 29 0.17
97 50 0.30
98 34 0.20
99 51 0.30
100 4 0.02
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (97 bp):
AAAAGCTCTTTTAAAGAAAGGCTAGGAAACTTTTAAAAATCTCAATTTTGAAAAGCTATTTAAAG
AAAGGATAGGAACTTTAAAAATCTCAATTTTG
Found at i:23186333 original size:705 final size:707
Alignment explanation
Indices: 23184982--23186397 Score: 2683
Period size: 705 Copynumber: 2.0 Consensus size: 707
23184972 GGCTTTGAAA
23184982 CTTTAAAATCTTAAATTTGAAAAACTCCTCTATAGAAAGACTATGAAACTTTAAAAAGCTTATTT
1 CTTTAAAATCTTAAATTTGAAAAACTCCTCTATAGAAAGACTATGAAACTTTAAAAAGCTTATTT
23185047 AAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTATTTAAAGAAAGGATAGGAAA
66 AAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTATTTAAAGAAAGGATAGGAAA
23185112 CTTTAAAAATCTCAATTTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCAT
131 CTTTAAAAATCTCAATTTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCAT
23185177 TTTTGAAAAGCTCTTTTAAAAAGAGATTAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTT
196 TTTTGAAAAGCTCTTTTAAAAAGAGATTAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTT
*
23185242 TAAAGAAAGGCTAGGAAAGTTTAAAAATCCTAATTTTGAAAAGCTCTCATAAAGGAAGGCTAGAA
261 TAAAGAAAGGCTAGGAAAGTTTAAAAATCCTAATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAA
* *
23185307 AACTTATAATTCTTAATTTTGAAAAAATCCTCTAATGAGAGGCTAGGAAGCTTTAAAAAAAAAAC
326 AACTTATAATTCTCAATTTTGAAAAAATCCTCTAAGGAGAGGCTAGGAAGCTTTAAAAAAAAAAC
* * *
23185372 GTCATTTTTGGAAAGTTTGGTTGTATTTGAGACCTTTAAAAAGGTTTCTTTCCCTAAAATTTGTT
391 CTCATTTTTGGAAAGTTTGGTTGTATTTGAAACCTTTAAAAAGGTTTCTTTCCCTAAAAATTGTT
*
23185437 TCTTCTATTTGGTTTTTTCTTGAAAAATTTTGATCTTCCAAATGACATATTTACTTTTCTAAATT
456 TCTTCTATTTGGTTTTTTCTTGAAAAATGTTGATCTTCCAAATGACATATTTACTTTTCTAAATT
* *
23185502 CAAGTTCATTCTTCATGTAATGTATATAATGAATGCAAGGAACACGGTGCATGTGATTTAAGTAA
521 CAAGTTCATTCTTCATGCAATGTATATAATGAATGCAAGGAACACAGTGCATGTGATTTAAGTAA
*
23185567 CTTTGTTTATATCATGTGCTCACACTTATGGTAACAAGACTTTTATAACCACAATTGATTTTCAA
586 CTTTGTTTATATCATGTGCTCACACTTATGGTAACAAAACTTTTATAACCACAATTGATTTTCAA
*
23185632 GTTCTTGGTTCTAAGTAAGTTCTTGATAATCAAACAATATTCTCATATGATTAAAAC
651 GTTCCTGGTTCTAAGTAAGTTCTTGATAATCAAACAATATTCTCATATGATTAAAAC
23185689 CTTTAAAATCTTAAATTTGAAAAACTCCTCTATAGAAAGACTATGAAACTTTAAAAAGCTTATTT
1 CTTTAAAATCTTAAATTTGAAAAACTCCTCTATAGAAAGACTATGAAACTTTAAAAAGCTTATTT
23185754 AAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTATTTAAAGAAAGGATAGG-AA
66 AAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTATTTAAAGAAAGGATAGGAAA
23185818 CTTTAAAAATCTCAATTTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCAT
131 CTTTAAAAATCTCAATTTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCAT
*
23185883 TTTTGAAAAGCTTTTTTAAAAAGAGATTAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTT
196 TTTTGAAAAGCTCTTTTAAAAAGAGATTAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTT
*
23185948 TAAAGAAAGGCTAGGAAATTTTAAAAATCCTAATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAA
261 TAAAGAAAGGCTAGGAAAGTTTAAAAATCCTAATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAA
23186013 AACTTATAATTCTCAATTTTGAAAAAATCCTCTAAGGAGAGGCTAGGAAGCTTT-AAAAAAAAAC
326 AACTTATAATTCTCAATTTTGAAAAAATCCTCTAAGGAGAGGCTAGGAAGCTTTAAAAAAAAAAC
23186077 CTCATTTTTGGAAAGTTTGGTTGTATTTGAAACCTTTAAAAAGGTTTCTTTCCCTAAAAATTGTT
391 CTCATTTTTGGAAAGTTTGGTTGTATTTGAAACCTTTAAAAAGGTTTCTTTCCCTAAAAATTGTT
* *
23186142 TCTTCTCTTTGGTTTTTTCTTGAAAAATGTTGATCTTCCAAATGACATATTTACTTTTCTGAATT
456 TCTTCTATTTGGTTTTTTCTTGAAAAATGTTGATCTTCCAAATGACATATTTACTTTTCTAAATT
23186207 CAAGTTCATTCTTCATGCAATGTATATAATGAATGCAAGGAACACAGTGCATGTGATTTAAGTAA
521 CAAGTTCATTCTTCATGCAATGTATATAATGAATGCAAGGAACACAGTGCATGTGATTTAAGTAA
23186272 CTTTGTTTATATCATGTGCTCACACTTATGGTAACAAAACTTTTATAACCACAATTGATTTTCAA
586 CTTTGTTTATATCATGTGCTCACACTTATGGTAACAAAACTTTTATAACCACAATTGATTTTCAA
23186337 GTTCCTGGTTCTAAGTAAGTTCTTGATAATCAAACAATATTCTCATATGATTAAAAC
651 GTTCCTGGTTCTAAGTAAGTTCTTGATAATCAAACAATATTCTCATATGATTAAAAC
23186394 CTTT
1 CTTT
23186398 TCTTGATTGG
Statistics
Matches: 694, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
705 321 0.46
706 246 0.35
707 127 0.18
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (707 bp):
CTTTAAAATCTTAAATTTGAAAAACTCCTCTATAGAAAGACTATGAAACTTTAAAAAGCTTATTT
AAAGAAAGGATAGGAAACTTTAAAAATTTCAATTCTAAAAAGCTATTTAAAGAAAGGATAGGAAA
CTTTAAAAATCTCAATTTTGAAAAGCTCTTTTAAAGAAAGGCTATAAAACTTTTAAAAAACTCAT
TTTTGAAAAGCTCTTTTAAAAAGAGATTAGGAAACTTTAAAAATCTCAATTTTGAAAAACTCCTT
TAAAGAAAGGCTAGGAAAGTTTAAAAATCCTAATTTTGAAAAGCTCTCATAAAGAAAGGCTAGAA
AACTTATAATTCTCAATTTTGAAAAAATCCTCTAAGGAGAGGCTAGGAAGCTTTAAAAAAAAAAC
CTCATTTTTGGAAAGTTTGGTTGTATTTGAAACCTTTAAAAAGGTTTCTTTCCCTAAAAATTGTT
TCTTCTATTTGGTTTTTTCTTGAAAAATGTTGATCTTCCAAATGACATATTTACTTTTCTAAATT
CAAGTTCATTCTTCATGCAATGTATATAATGAATGCAAGGAACACAGTGCATGTGATTTAAGTAA
CTTTGTTTATATCATGTGCTCACACTTATGGTAACAAAACTTTTATAACCACAATTGATTTTCAA
GTTCCTGGTTCTAAGTAAGTTCTTGATAATCAAACAATATTCTCATATGATTAAAAC
Found at i:23186911 original size:22 final size:21
Alignment explanation
Indices: 23186885--23186926 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23186875 TTGTTGATTC
* *
23186885 TTAGATTTTTTTGTCATTTTTT
1 TTAGATTATTTTCTC-TTTTTT
23186907 TTAGATTATTTTCTCTTTTT
1 TTAGATTATTTTCTCTTTTT
23186927 CTTATTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (21 bp):
TTAGATTATTTTCTCTTTTTT
Found at i:23186933 original size:16 final size:17
Alignment explanation
Indices: 23186912--23186944 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23186902 TTTTTTTAGA
23186912 TTATTTT-CTCTTTTTC
1 TTATTTTACTCTTTTTC
*
23186928 TTATTTTACTTTTTTTC
1 TTATTTTACTCTTTTTC
23186945 CATGATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTACTCTTTTTC
Found at i:23191192 original size:14 final size:14
Alignment explanation
Indices: 23191173--23191220 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
23191163 GGCAATTATT
23191173 AAATAATAAAAATA
1 AAATAATAAAAATA
23191187 AAATAATAAAAGAT-
1 AAATAATAAAA-ATA
23191201 AAATAAATAATAAATA
1 AAAT-AATAA-AAATA
23191217 AAAT
1 AAAT
23191221 TTTTTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 15 0.50
15 9 0.30
16 6 0.20
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AAATAATAAAAATA
Found at i:23191209 original size:15 final size:14
Alignment explanation
Indices: 23191172--23191218 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
23191162 GGGCAATTAT
23191172 TAAAT-AATAAAAA
1 TAAATAAATAAAAA
23191185 TAAA-ATAATAAAAGA
1 TAAATA-AATAAAA-A
23191200 TAAATAAATAATAAA
1 TAAATAAATAA-AAA
23191215 TAAA
1 TAAA
23191219 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 15 0.52
16 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAATAAATAAAAA
Found at i:23204071 original size:35 final size:36
Alignment explanation
Indices: 23204022--23204094 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
23204012 CCTGATTTGT
* * *
23204022 AGTTTAATCTCAATCA-TCTTTATTTCCTAACTTGC
1 AGTTTAACCCCAATCATTCTTTATATCCTAACTTGC
* *
23204057 AGTTTAACCCCAATCATTCTTTGTATCCTGACTTGC
1 AGTTTAACCCCAATCATTCTTTATATCCTAACTTGC
23204093 AG
1 AG
23204095 CTTAGTCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 14 0.44
36 18 0.56
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (36 bp):
AGTTTAACCCCAATCATTCTTTATATCCTAACTTGC
Found at i:23204091 original size:36 final size:35
Alignment explanation
Indices: 23204012--23204094 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
23204002 GTCTCAGTCA
* * * * *
23204012 CCTGATTTGTAGTTTAATCTCAATCATCTTTATTT
1 CCTGACTTGCAGTTTAACCCCAATCATCTTTATAT
* *
23204047 CCTAACTTGCAGTTTAACCCCAATCATTCTTTGTAT
1 CCTGACTTGCAGTTTAACCCCAATCA-TCTTTATAT
23204083 CCTGACTTGCAG
1 CCTGACTTGCAG
23204095 CTTAGTCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 21 0.54
36 18 0.46
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (35 bp):
CCTGACTTGCAGTTTAACCCCAATCATCTTTATAT
Found at i:23204318 original size:35 final size:35
Alignment explanation
Indices: 23204277--23204352 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
23204267 CAATTATTCT
* * *
23204277 TTATTTCTTGACTTGTGATTCAGTCCCGGTCATCA
1 TTATTTCTCGACTTATGATTCAGTCCCAGTCATCA
* * * *
23204312 TTATTTCTCGACTTATGGTTTAGTCCTAGTCATCT
1 TTATTTCTCGACTTATGATTCAGTCCCAGTCATCA
23204347 TTATTT
1 TTATTT
23204353 TTTGTTTGCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.49
Consensus pattern (35 bp):
TTATTTCTCGACTTATGATTCAGTCCCAGTCATCA
Found at i:23204730 original size:26 final size:25
Alignment explanation
Indices: 23204701--23204763 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
23204691 GTAAAAACTA
23204701 AAAAAAAAAAAAAAAAAAACAACAAC
1 AAAAAAAAAAAAAAAAAAACAAC-AC
**
23204727 AAAACTAAAAAAAAAAAAACAACAC
1 AAAAAAAAAAAAAAAAAAACAACAC
* *
23204752 TAACAAAAAAAA
1 AAAAAAAAAAAA
23204764 TTTTACCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAAAAACAACAC
Found at i:23204750 original size:29 final size:29
Alignment explanation
Indices: 23204704--23204759 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
23204694 AAAACTAAAA
23204704 AAAAAAAAAAAAAAAACAAC-AACAAAACT
1 AAAAAAAAAAAAAAAAC-ACTAACAAAACT
*
23204733 AAAAAAAAAAAAACAACACTAACAAAA
1 AAAAAAAAAAAAAAAACACTAACAAAA
23204760 AAAATTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.04
Consensus pattern (29 bp):
AAAAAAAAAAAAAAAACACTAACAAAACT
Found at i:23206261 original size:11 final size:11
Alignment explanation
Indices: 23206245--23206283 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
23206235 CCCATAAGAT
23206245 ATTTGTTTGAG
1 ATTTGTTTGAG
*
23206256 ATTTGTTAGAG
1 ATTTGTTTGAG
*
23206267 ATTTGTTTAAG
1 ATTTGTTTGAG
23206278 ATTTGT
1 ATTTGT
23206284 CAGATATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (11 bp):
ATTTGTTTGAG
Found at i:23206374 original size:52 final size:52
Alignment explanation
Indices: 23206308--23206464 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
23206298 TGGACAAGAA
* * *
23206308 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAGTAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
23206360 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
** * * * * *
23206412 GACTTATAGGAAAAGAATTCTAAGATGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
23206464 G
1 G
23206465 TATGGTTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 87 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:23213796 original size:16 final size:16
Alignment explanation
Indices: 23213777--23213810 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23213767 GAAAAAGCAT
23213777 AAAACTAAAAAACCAA
1 AAAACTAAAAAACCAA
* *
23213793 AAAACTTAAGAACCAA
1 AAAACTAAAAAACCAA
23213809 AA
1 AA
23213811 GTTTAAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.09
Consensus pattern (16 bp):
AAAACTAAAAAACCAA
Found at i:23214608 original size:15 final size:15
Alignment explanation
Indices: 23214588--23214616 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23214578 TTTTTTCTTC
23214588 TTTTTTTATCTTTTT
1 TTTTTTTATCTTTTT
23214603 TTTTTTTATCTTTT
1 TTTTTTTATCTTTT
23214617 CTCTCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTATCTTTTT
Found at i:23214637 original size:34 final size:34
Alignment explanation
Indices: 23214580--23214644 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
23214570 TTAACTAGTT
23214580 TTTTCTTCTTTTTTTATCTTTTTTT-TTTTTATC
1 TTTTCTTCTTTTTTTATCTTTTTTTGTTTTTATC
*
23214613 TTTTCTCTCTTTTTTTGT-TGTTTTTTGTTTTT
1 TTTTCT-TCTTTTTTTATCT-TTTTTTGTTTTT
23214645 TTAATACCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 16 0.57
35 5 0.18
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (34 bp):
TTTTCTTCTTTTTTTATCTTTTTTTGTTTTTATC
Found at i:23214638 original size:22 final size:22
Alignment explanation
Indices: 23214589--23214638 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
23214579 TTTTTCTTCT
* *
23214589 TTTTTTATCTTTTTTTTTTTTA
1 TTTTTTATCTCTTTTTTTGTTA
* * *
23214611 TCTTTTCTCTCTTTTTTTGTTG
1 TTTTTTATCTCTTTTTTTGTTA
23214633 TTTTTT
1 TTTTTT
23214639 GTTTTTTTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (22 bp):
TTTTTTATCTCTTTTTTTGTTA
Found at i:23214868 original size:66 final size:65
Alignment explanation
Indices: 23214784--23215299 Score: 217
Period size: 66 Copynumber: 7.8 Consensus size: 65
23214774 ATTGAGGCTA
** * *
23214784 AGCTAAAGTTGACGAGTGACATGACCTAGACTAAATTGAAGTCGATAAATGACATGACCTAGATT
1 AGCTAAAGTTGAAAAGTGACATGACCTAGACTAAATT-AAGTCAACAAATGACATGACCTAGATT
23214849 G
65 G
* * ** * *
23214850 AGCTGAAATTTG-AAAGTGACATGACTTAGACTAAGCTAAATCCAACAAATGACATGACCTATAT
1 AGCT-AAAGTTGAAAAGTGACATGACCTAGACTAAATTAAGT-CAACAAATGACATGACCTAGAT
23214914 TG
64 TG
* * * * ** *
23214916 AACTAAAGTTGAAAAATGAGATGACCTACACTGAGCTTAAGTCAACAAATGACATGAACTAGATT
1 AGCTAAAGTTGAAAAGTGACATGACCTAGACT-AAATTAAGTCAACAAATGACATGACCTAGATT
*
23214981 A
65 G
* * * * * * * * *
23214982 AGCT-AA-TTTATAAACATGGCATGATCTAGACTAAGCTGAAGTTGAA-AACATGATATAACCTA
1 AGCTAAAGTTGA-AAA-GTGACATGACCTAGACTAA-ATTAAG-TCAACAA-ATGACATGACCTA
* *
23215044 GACTA
61 GATTG
* * * * ** *
23215049 AGCTCAAA-TCT-AAAAATGACATGACCTTA-ACCAAGTTCAGGTTTTA-AAATGACATGATCTA
1 AGCT-AAAGT-TGAAAAGTGACATGACC-TAGACTAAATT-AAG-TCAACAAATGACATGACCTA
*
23215110 GGTTG
61 GATTG
* ** * * * * *
23215115 AGTTAAAGTCCAAAAATGATATGACTTAGGCT-AATTCAAGTCTACAAATGACATGACCTAGATT
1 AGCTAAAGTTGAAAAGTGACATGACCTAGACTAAATT-AAGTCAACAAATGACATGACCTAGATT
23215179 G
65 G
* * * * * * ** * * * *
23215180 AGTTAAGGTAT-AAAAATGACATGACATAAATTGAGCTGAGGTCTAA-AAATGACTTGATCTAGA
1 AGCTAAAGT-TGAAAAGTGACATGACCTAGACT-AAATTAAGTC-AACAAATGACATGACCTAGA
23215243 TTG
63 TTG
* * * **
23215246 AGCTAAAGTTGGAAAAATGATATGACCTAGACTAAGTTGAAGTTTACAAATGAC
1 AGCTAAAGTT-GAAAAGTGACATGACCTAGACTAAATT-AAGTCAACAAATGAC
23215300 CTAGAATAAC
Statistics
Matches: 337, Mismatches: 87, Indels: 51
0.71 0.18 0.11
Matches are distributed among these distances:
64 6 0.02
65 69 0.20
66 171 0.51
67 81 0.24
68 5 0.01
69 4 0.01
70 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (65 bp):
AGCTAAAGTTGAAAAGTGACATGACCTAGACTAAATTAAGTCAACAAATGACATGACCTAGATTG
Found at i:23214922 original size:33 final size:32
Alignment explanation
Indices: 23214866--23214972 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 32
23214856 AATTTGAAAG
* *
23214866 TGACATGACTTAGACT-AAGCTAAATCCAACAAA
1 TGACATGACCTACACTGAA-CTAAAT-CAACAAA
* * *
23214899 TGACATGACCTATATTGAACTAAAGTTGAA-AAA
1 TGACATGACCTACACTGAACTAAA--TCAACAAA
* * *
23214932 TGAGATGACCTACACTGAGCTTAAGTCAACAAA
1 TGACATGACCTACACTGAAC-TAAATCAACAAA
23214965 TGACATGA
1 TGACATGA
23214973 ACTAGATTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
32 3 0.05
33 47 0.81
34 7 0.12
35 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (32 bp):
TGACATGACCTACACTGAACTAAATCAACAAA
Found at i:23215131 original size:33 final size:32
Alignment explanation
Indices: 23215094--23215426 Score: 131
Period size: 33 Copynumber: 10.2 Consensus size: 32
23215084 TTCAGGTTTT
* *
23215094 AAAATGACATGATCTAGGTTGAGTTAAAGTCCA
1 AAAATGACATGA-CTAGATTGAGTTAAAGTCTA
* ** * *
23215127 AAAATGATATGACTTAGGCT-AATTCAAGTCTA
1 AAAATGACATGAC-TAGATTGAGTTAAAGTCTA
* * *
23215159 CAAATGACATGACCTAGATTGAGTTAAGGTATA
1 AAAATGACATGA-CTAGATTGAGTTAAAGTCTA
* * * *
23215192 AAAATGACATGACATAAATTGAGCTGAGGTCTA
1 AAAATGACATGAC-TAGATTGAGTTAAAGTCTA
* *
23215225 AAAATGACTTGATCTAGATTGAGCTAAAGT-TGGA
1 AAAATGACATGA-CTAGATTGAGTTAAAGTCT--A
* * * * *
23215259 AAAATGATATGACCTAGACTAAGTTGAAGTTTA
1 AAAATGACATGA-CTAGATTGAGTTAAAGTCTA
* * * * * *
23215292 CAAATGAC----CTAGAATAACTTGAAGTGTA
1 AAAATGACATGACTAGATTGAGTTAAAGTCTA
* *** * *
23215320 AAAATGATATGACTTAGACAAAGCTAAAATC-A
1 AAAATGACATGAC-TAGATTGAGTTAAAGTCTA
* * * *
23215352 ACAAATGACATGACCTAAATTAAGTTGAAGTCGA
1 A-AAATGACATGA-CTAGATTGAGTTAAAGTCTA
* * * *
23215386 CAAATGACATGACCTAGACTAAGCTAAAGTCTA
1 AAAATGACATGA-CTAGATTGAGTTAAAGTCTA
*
23215419 AAAGTGAC
1 AAAATGAC
23215427 TTGTGAATTT
Statistics
Matches: 226, Mismatches: 58, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
28 23 0.10
32 29 0.13
33 146 0.65
34 27 0.12
35 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (32 bp):
AAAATGACATGACTAGATTGAGTTAAAGTCTA
Found at i:23215298 original size:28 final size:28
Alignment explanation
Indices: 23215267--23215326 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
23215257 GAAAAATGAT
* * * *
23215267 ATGACCTAGACTAAGTTGAAGTTTACAA
1 ATGACCTAGAATAACTTGAAGTGTAAAA
23215295 ATGACCTAGAATAACTTGAAGTGTAAAA
1 ATGACCTAGAATAACTTGAAGTGTAAAA
23215323 ATGA
1 ATGA
23215327 TATGACTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (28 bp):
ATGACCTAGAATAACTTGAAGTGTAAAA
Found at i:23216018 original size:16 final size:17
Alignment explanation
Indices: 23215999--23216035 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
23215989 TATGTTTTGA
*
23215999 ATTTTTTGGA-TTTTTT
1 ATTTTTTGAACTTTTTT
23216015 A-TTTTTGAACTTTTTT
1 ATTTTTTGAACTTTTTT
23216031 ATTTT
1 ATTTT
23216036 AAGATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 8 0.44
17 3 0.17
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (17 bp):
ATTTTTTGAACTTTTTT
Found at i:23216707 original size:117 final size:117
Alignment explanation
Indices: 23216462--23216691 Score: 261
Period size: 117 Copynumber: 2.0 Consensus size: 117
23216452 GATATCATTG
* * * *
23216462 TCAAGAAAATTTTAATAAAATTCAAACTTGAATACTTAGTTATCACCACTAAGTAAATTTGACTA
1 TCAAGAAAATTTTAACAAAATTCAAACTTAAATACTTAGATAGCACCACTAAGTAAATTTGACTA
* * * *
23216527 AAGCTTAGATATCACTACCGAGTGAGTTTTAATAAAAGCTTGGATTTTTCCA
66 AAGCTCAGATATCACCACCGAGTGAGCTTTAATAAAAGCTTAGATTTTTCCA
* * *
23216579 TCAAAAAAATTTTAACAAAATTCAGAA-TTAAATA-TTCGGATAGCACCA-TCAAGTGAATTTGA
1 TCAAGAAAATTTTAACAAAATTCA-AACTTAAATACTT-AGATAGCACCACT-AAGTAAATTTGA
* * * *
23216641 TTAAAGCTCAGATATCTCCATCGA-TAGAGCTTTAATGAAAGCTTAGATTTT
63 CTAAAGCTCAGATATCACCACCGAGT-GAGCTTTAATAAAAGCTTAGATTTT
23216692 CCAATTGAGA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
116 4 0.04
117 88 0.94
118 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (117 bp):
TCAAGAAAATTTTAACAAAATTCAAACTTAAATACTTAGATAGCACCACTAAGTAAATTTGACTA
AAGCTCAGATATCACCACCGAGTGAGCTTTAATAAAAGCTTAGATTTTTCCA
Found at i:23218287 original size:25 final size:27
Alignment explanation
Indices: 23218252--23218307 Score: 89
Period size: 25 Copynumber: 2.1 Consensus size: 27
23218242 GCTCACCTAG
*
23218252 GGTTTTAATTTAGAGTCTCGA-TTTAA
1 GGTTTTAATTTAGAGTCTCGACCTTAA
23218278 GGTTTT-ATTTAGAGTCTCGACCTTAA
1 GGTTTTAATTTAGAGTCTCGACCTTAA
23218304 GGTT
1 GGTT
23218308 CAAATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (27 bp):
GGTTTTAATTTAGAGTCTCGACCTTAA
Found at i:23218712 original size:3 final size:3
Alignment explanation
Indices: 23218704--23218767 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
23218694 CTTCAATATC
23218704 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23218752 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
23218768 GTTAGCTCCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23220322 original size:21 final size:21
Alignment explanation
Indices: 23220284--23220323 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23220274 TGGTTTTTAT
* * *
23220284 TTTTTAGTTTTTAGTTTTAAA
1 TTTTTAATTTTAAATTTTAAA
23220305 TTTTTAATTTTAAATTTTA
1 TTTTTAATTTTAAATTTTA
23220324 CATATTTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTAATTTTAAATTTTAAA
Found at i:23220713 original size:36 final size:35
Alignment explanation
Indices: 23220673--23220850 Score: 167
Period size: 36 Copynumber: 4.9 Consensus size: 35
23220663 ATAAAACTGC
** *
23220673 AAGTTAAAAAATAAAGATTGACTAGGATAACACCCT
1 AAGTTAAAAAATAAAGAACGA-TAGGATAACACCAT
* *
23220709 AAGTTGAAAAATAAAGAACGATCGAGATAACACCAT
1 AAGTTAAAAAATAAAGAACGATAG-GATAACACCAT
* * * *
23220745 AGGTTACAAAATAAAGAACGATCAAGATAACACTAT
1 AAGTTAAAAAATAAAGAACGAT-AGGATAACACCAT
* * * * * * *
23220781 AGGTCAAAAATTAAAAAATGATTAGGATAATACCGT
1 AAGTTAAAAAATAAAGAACGA-TAGGATAACACCAT
23220817 AAGTTAAAAAATAAAGAACGACTAGGATAACACC
1 AAGTTAAAAAATAAAGAACGA-TAGGATAACACC
23220851 GCAAGCCATA
Statistics
Matches: 112, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
35 2 0.02
36 109 0.97
37 1 0.01
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (35 bp):
AAGTTAAAAAATAAAGAACGATAGGATAACACCAT
Found at i:23220846 original size:72 final size:70
Alignment explanation
Indices: 23220645--23220849 Score: 180
Period size: 72 Copynumber: 2.9 Consensus size: 70
23220635 TTTTATTAAG
* * * * **
23220645 AATTAAAAAATGACCAAGATAAAACTGCAAGTTAAAAAATAAAGATTGACTAGGATAACACCCTA
1 AATTAAAAAATGA-TAGGATAAAACCGTAAGTTAAAAAATAAAGAACGACTAGGATAACA--CTA
* *
23220710 AGTTGAAA
63 AGGTCAAA
* * * * * * * *
23220718 AA-TAAAGAACGATCGAGATAACACCATAGGTTACAAAATAAAGAACGA-TCAAGATAACACTAT
1 AATTAAAAAATGATAG-GATAAAACCGTAAGTTAAAAAATAAAGAACGACT-AGGATAACACTA-
23220781 AGGTCAAA
63 AGGTCAAA
*
23220789 AATTAAAAAATGATTAGGATAATACCGTAAGTTAAAAAATAAAGAACGACTAGGATAACAC
1 AATTAAAAAATGA-TAGGATAAAACCGTAAGTTAAAAAATAAAGAACGACTAGGATAACAC
23220850 CGCAAGCCAT
Statistics
Matches: 102, Mismatches: 24, Indels: 13
0.73 0.17 0.09
Matches are distributed among these distances:
70 3 0.03
71 9 0.09
72 85 0.83
73 5 0.05
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.20
Consensus pattern (70 bp):
AATTAAAAAATGATAGGATAAAACCGTAAGTTAAAAAATAAAGAACGACTAGGATAACACTAAGG
TCAAA
Found at i:23221071 original size:3 final size:3
Alignment explanation
Indices: 23221043--23221157 Score: 70
Period size: 3 Copynumber: 40.3 Consensus size: 3
23221033 CCCATATTTT
**
23221043 TTA TT- TTA TT- TTA TT- TATA TTTA TTA TTA TTA TTA GCA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
23221087 TTA TT- TT- TTA TTT TTC GT- TTA TTA TTTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA
*
23221131 TT- TTA TTA TTG TTA TT- TT- TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23221158 CTTTTTTTTC
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
2 18 0.20
3 63 0.70
4 8 0.09
5 1 0.01
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:23221135 original size:21 final size:21
Alignment explanation
Indices: 23221041--23221157 Score: 85
Period size: 21 Copynumber: 5.3 Consensus size: 21
23221031 GACCCATATT
23221041 TTTTATT-TTATT-TTATTTA
1 TTTTATTATTATTATTATTTA
*
23221060 TATTTATTATTATTATTAGCATTA
1 T-TTTATTATTATTATTA--TTTA
* * *
23221084 TTATTATTTTTTATTTTTCGTTTA
1 TT-TTA-TTATTATTATT-ATTTA
*
23221108 TTATTTATTATTATTATTATTTA
1 TTT--TATTATTATTATTATTTA
* *
23221131 TTTTATTATTGTTATTTTTTA
1 TTTTATTATTATTATTATTTA
23221152 TTTTAT
1 TTTTAT
23221158 CTTTTTTTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.01
20 6 0.08
21 27 0.36
22 3 0.04
23 7 0.09
24 21 0.28
25 11 0.14
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTATTATTATTATTTA
Found at i:23221150 original size:49 final size:47
Alignment explanation
Indices: 23221056--23221149 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 47
23221046 TTTTATTTTA
23221056 TTTATATTTATTATTATTATTAGCATTATTATTATTTTTTATTTTTCG
1 TTTATATTTATTATTATTATTA-CATTATTATTATTTTTTATTTTTCG
*
23221104 TTTATTATTTATTATTATTATTA-TTTATT-TTATTATTGTTATTTTT
1 TTTA-TATTTATTATTATTATTACATTATTATTATT-TT-TTATTTTT
23221150 TATTTTATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 5 0.12
47 7 0.17
48 12 0.29
49 18 0.43
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (47 bp):
TTTATATTTATTATTATTATTACATTATTATTATTTTTTATTTTTCG
Found at i:23228711 original size:23 final size:24
Alignment explanation
Indices: 23228677--23228737 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
23228667 TAATAGATAG
* *
23228677 AAAAAATGAAGAAAAA-AAAGAAT
1 AAAAAATTAAGAAAAATAAAAAAT
*
23228700 GAAAAATTAAGAAAAATAAAAAAT
1 AAAAAATTAAGAAAAATAAAAAAT
*
23228724 AAAAAAATAA-AAAA
1 AAAAAATTAAGAAAA
23228738 GATGGAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.11
Consensus pattern (24 bp):
AAAAAATTAAGAAAAATAAAAAAT
Found at i:23228737 original size:16 final size:16
Alignment explanation
Indices: 23228677--23228737 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
23228667 TAATAGATAG
*
23228677 AAAAAATGAAGAAAA-A
1 AAAAAAT-AAAAAAATA
* * *
23228693 AAAGAATGAAAAATTA
1 AAAAAATAAAAAAATA
23228709 AGAAAAAT-AAAAAATA
1 A-AAAAATAAAAAAATA
23228725 AAAAAATAAAAAA
1 AAAAAATAAAAAA
23228738 GATGGAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 10 0.28
16 21 0.58
17 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAAATA
Found at i:23228961 original size:15 final size:15
Alignment explanation
Indices: 23228941--23228970 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23228931 AATGTTTAGA
23228941 ATTGTTTGGATATAC
1 ATTGTTTGGATATAC
23228956 ATTGTTTGGATATAC
1 ATTGTTTGGATATAC
23228971 CATTCATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
ATTGTTTGGATATAC
Found at i:23230249 original size:44 final size:44
Alignment explanation
Indices: 23230180--23230368 Score: 254
Period size: 44 Copynumber: 4.2 Consensus size: 44
23230170 TGTCAATGAA
* *
23230180 CAATTTATTTTTTTAAAAGTCGTGGTTGCCTCTGTTTAGAGGAG
1 CAATTTATTTTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAG
*
23230224 CAATTT-TTTTTTTCAAAGTCAGTGGTTACCTCTATTTAGAGGAG
1 CAATTTATTTTTTTCAAAGTC-GTGGTTGCCTCTATTTAGAGGAG
* * *
23230268 CAATTTATTTTTTTCAAAGTCGTAGTTGCCTTTATTTAGATGAG
1 CAATTTATTTTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAG
* * * *
23230312 CAATTTATTTTTTTCCAAAAGTCATGGTTGTCTCTGTTTAAAGGAG
1 CAATTTATTTTTTT-C-AAAGTCGTGGTTGCCTCTATTTAGAGGAG
23230358 CAATTTATTTT
1 CAATTTATTTT
23230369 CAAAAATTGT
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
43 13 0.10
44 66 0.52
45 15 0.12
46 33 0.26
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (44 bp):
CAATTTATTTTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAG
Found at i:23230388 original size:41 final size:40
Alignment explanation
Indices: 23230343--23230439 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
23230333 TCATGGTTGT
*
23230343 CTCTGTTTAAAGGAGCAATTTATTTTCAAAAATTGTGGTGC
1 CTCTGTTTAAAGGAGCAATTTAATTTC-AAAATTGTGGTGC
*
23230384 CTCTGTTTAGAA-AAGCAATTTAATTTCAAAATTGTGGTGC
1 CTCTGTTTA-AAGGAGCAATTTAATTTCAAAATTGTGGTGC
**
23230424 CTCTACTTAAAGGAGC
1 CTCTGTTTAAAGGAGC
23230440 TTTGTTTATC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
39 2 0.04
40 23 0.47
41 22 0.45
42 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (40 bp):
CTCTGTTTAAAGGAGCAATTTAATTTCAAAATTGTGGTGC
Found at i:23230426 original size:40 final size:41
Alignment explanation
Indices: 23230343--23230427 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
23230333 TCATGGTTGT
* *
23230343 CTCTGTTTAAAGGAGCAATTTATTTTCAAAAATTGTGGTGC
1 CTCTGTTTAAAGAAGCAATTTAATTTCAAAAATTGTGGTGC
23230384 CTCTGTTTAGAA-AAGCAATTTAATTTC-AAAATTGTGGTGC
1 CTCTGTTTA-AAGAAGCAATTTAATTTCAAAAATTGTGGTGC
23230424 CTCT
1 CTCT
23230428 ACTTAAAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 17 0.41
41 22 0.54
42 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (41 bp):
CTCTGTTTAAAGAAGCAATTTAATTTCAAAAATTGTGGTGC
Found at i:23230513 original size:87 final size:89
Alignment explanation
Indices: 23230422--23230617 Score: 238
Period size: 87 Copynumber: 2.2 Consensus size: 89
23230412 AAATTGTGGT
* * *
23230422 GCCTCTACTTAAAGGAGCTTTGTTTATCTT-TCCAAAGTTGTTGAGCCTCTATTTAGAGGAGCTT
1 GCCTCTACTTAAAGGAGCTTTGTTTAT-TTGTCCAAAGTTATTAAGCCTCTACTTAGAGGAGCTT
* *
23230486 TGT-T-TATTTTTCAAAGTTATTGA
65 TGTCTATATTTTTAAAAGTCATTGA
* * * *
23230509 GCCTCTGCTTAGAGGAGCCTTGTTTATTTGTCCGAAGTTATTAAGCCTCTACTTAGAGGAGCTTT
1 GCCTCTACTTAAAGGAGCTTTGTTTATTTGTCCAAAGTTATTAAGCCTCTACTTAGAGGAGCTTT
* *
23230574 GTCTATCTTTTTAAAAGTCGTTGA
66 GTCTATATTTTTAAAAGTCATTGA
*
23230598 GCCTCTAATTAGAA-GAGCTT
1 GCCTCTACTTA-AAGGAGCTT
23230618 CGATCAAGTT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
86 2 0.02
87 57 0.63
88 1 0.01
89 29 0.32
90 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (89 bp):
GCCTCTACTTAAAGGAGCTTTGTTTATTTGTCCAAAGTTATTAAGCCTCTACTTAGAGGAGCTTT
GTCTATATTTTTAAAAGTCATTGA
Found at i:23230521 original size:43 final size:43
Alignment explanation
Indices: 23230422--23230617 Score: 221
Period size: 44 Copynumber: 4.5 Consensus size: 43
23230412 AAATTGTGGT
* *
23230422 GCCTCTACTTAAAGGAGCTTTGTTTATCTTTCCAAAGTTGTTGA
1 GCCTCTACTTAGAGGAGCTTTGTTTAT-TTTCCAAAGTTATTGA
* *
23230466 GCCTCTATTTAGAGGAGCTTTGTTTATTTTTCAAAGTTATTGA
1 GCCTCTACTTAGAGGAGCTTTGTTTATTTTCCAAAGTTATTGA
* * * *
23230509 GCCTCTGCTTAGAGGAGCCTTGTTTATTTGTCCGAAGTTATTAA
1 GCCTCTACTTAGAGGAGCTTTGTTTATTT-TCCAAAGTTATTGA
* ** **
23230553 GCCTCTACTTAGAGGAGCTTTGTCTATCTTTTTAAAAGTCGTTGA
1 GCCTCTACTTAGAGGAGCTTTGT-T-TATTTTCCAAAGTTATTGA
* *
23230598 GCCTCTAATTAGAAGAGCTT
1 GCCTCTACTTAGAGGAGCTT
23230618 CGATCAAGTT
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
43 40 0.31
44 57 0.45
45 27 0.21
46 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (43 bp):
GCCTCTACTTAGAGGAGCTTTGTTTATTTTCCAAAGTTATTGA
Found at i:23230829 original size:3 final size:3
Alignment explanation
Indices: 23230809--23230928 Score: 74
Period size: 3 Copynumber: 40.3 Consensus size: 3
23230799 CCCATATTTT
** *
23230809 TTA TT- TTA TT- TT- TTA TTA TTA TTA GCA TTA TTA TTA TT- TTC TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * *
23230853 TTT TTGT TTA TTA TTTA TTT TTA TTA TTTA TTA TTA TTA TCA TTA TTCA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A
23230902 TT- TTA TTA TTA TTTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
23230929 CTTTTCTTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
2 13 0.14
3 67 0.70
4 16 0.17
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:23230869 original size:7 final size:7
Alignment explanation
Indices: 23230859--23230921 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
23230849 CTCTTTTTTG
23230859 TTTATTA
1 TTTATTA
23230866 TTTATT-
1 TTTATTA
23230872 TTTATTA
1 TTTATTA
23230879 TTTATTA
1 TTTATTA
23230886 -TTATTA
1 TTTATTA
*
23230892 -TCATTA
1 TTTATTA
* *
23230898 TTCATTT
1 TTTATTA
23230905 TATTATTA
1 T-TTATTA
23230913 TTTATTA
1 TTTATTA
23230920 TT
1 TT
23230922 ATTTTATCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 17 0.35
7 27 0.55
8 5 0.10
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:23230909 original size:21 final size:21
Alignment explanation
Indices: 23230859--23230928 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
23230849 CTCTTTTTTG
*
23230859 TTTATTATTTATT-TTTATTA-
1 TTTATTA-TTATTCATTATTAT
23230879 TTTATTATTATTATCATTATTCAT
1 TTTATTATTA-T-TCATTATT-AT
*
23230903 TTTATTATTATTTATTATTAT
1 TTTATTATTATTCATTATTAT
23230924 TTTAT
1 TTTAT
23230929 CTTTTCTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
19 3 0.07
20 8 0.19
21 8 0.19
22 12 0.28
23 2 0.05
24 10 0.23
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTATTATTCATTATTAT
Found at i:23231415 original size:14 final size:14
Alignment explanation
Indices: 23231391--23231427 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23231381 TTTTGCTTAG
23231391 AAAGAAAGAGAAGAA
1 AAAG-AAGAGAAGAA
23231406 AAAGAAGAGAAGAA
1 AAAGAAGAGAAGAA
*
23231420 AGAGAAGA
1 AAAGAAGA
23231428 AGAAAGATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAAGAAGAGAAGAA
Found at i:23231428 original size:12 final size:12
Alignment explanation
Indices: 23231392--23231434 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
23231382 TTTGCTTAGA
23231392 AAGAAAGAGAAG
1 AAGAAAGAGAAG
23231404 AA-AAAGA-AGAG
1 AAGAAAGAGA-AG
23231415 AAGAAAGAGAAG
1 AAGAAAGAGAAG
23231427 AAGAAAGA
1 AAGAAAGA
23231435 TGCATCTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.04
11 9 0.32
12 17 0.61
13 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
AAGAAAGAGAAG
Found at i:23232894 original size:36 final size:36
Alignment explanation
Indices: 23232842--23233010 Score: 137
Period size: 36 Copynumber: 4.7 Consensus size: 36
23232832 ATATGTTATG
* *
23232842 ACAGTAAGTCAAAAAATAAAAAATAATTGAGG-CAAC
1 ACAGCAAGTCAAAAAATAAAAAATAATCG-GGACAAC
* *
23232878 ACCGCAAGTCAAAAAATAAAGAATAATCGGGACAAC
1 ACAGCAAGTCAAAAAATAAAAAATAATCGGGACAAC
* ** *
23232914 ACAGCAAGTCAAAAAATAAAGAATGGTTGGGACAAC
1 ACAGCAAGTCAAAAAATAAAAAATAATCGGGACAAC
* * * * * * *
23232950 ACCA-CGAGT-TAGAAATAAAAGACAATTGGGAAAAC
1 A-CAGCAAGTCAAAAAATAAAAAATAATCGGGACAAC
** *
23232985 ACAGCAAGTTGAAAAATAAAGAATAA
1 ACAGCAAGTCAAAAAATAAAAAATAA
23233011 AGTTTCTTCT
Statistics
Matches: 106, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.02
35 25 0.24
36 77 0.73
37 2 0.02
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (36 bp):
ACAGCAAGTCAAAAAATAAAAAATAATCGGGACAAC
Found at i:23232971 original size:72 final size:71
Alignment explanation
Indices: 23232842--23233010 Score: 180
Period size: 71 Copynumber: 2.4 Consensus size: 71
23232832 ATATGTTATG
* * * *
23232842 ACAGTAAGTCAAAAAATAAAAAATAATTGAGGCAACACCGCAAGTCAAAAAATAAAGAATAATCG
1 ACAGCAAGTCAAAAAATAAAGAATAATTGAGGCAACACCACAAGTCAAAAAATAAAG-ACAATCG
*
23232907 GGACAAC
65 GGAAAAC
** * * * *
23232914 ACAGCAAGTCAAAAAATAAAGAATGGTTG-GGACAACACCACGAGT-TAGAAATAAAAGACAATT
1 ACAGCAAGTCAAAAAATAAAGAATAATTGAGG-CAACACCACAAGTCAAAAAAT-AAAGACAATC
23232977 GGGAAAAC
64 GGGAAAAC
**
23232985 ACAGCAAGTTGAAAAATAAAGAATAA
1 ACAGCAAGTCAAAAAATAAAGAATAA
23233011 AGTTTCTTCT
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
71 40 0.50
72 40 0.50
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (71 bp):
ACAGCAAGTCAAAAAATAAAGAATAATTGAGGCAACACCACAAGTCAAAAAATAAAGACAATCGG
GAAAAC
Found at i:23242035 original size:20 final size:20
Alignment explanation
Indices: 23242006--23242052 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23241996 TCAAGCTCTA
*
23242006 CTTTTCTAATAC-TCTATCAT
1 CTTTTTTAATACTTCTAT-AT
*
23242026 CTTTTTTAATTCTTCTATAT
1 CTTTTTTAATACTTCTATAT
23242046 CTTTTTT
1 CTTTTTT
23242053 GGATACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTTTTAATACTTCTATAT
Found at i:23242241 original size:14 final size:14
Alignment explanation
Indices: 23242222--23242249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23242212 TGCCATTTTC
23242222 TTTTTTTTCATCTT
1 TTTTTTTTCATCTT
23242236 TTTTTTTTCATCTT
1 TTTTTTTTCATCTT
23242250 GAACTTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTCATCTT
Found at i:23245438 original size:19 final size:19
Alignment explanation
Indices: 23245416--23245475 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
23245406 GGATTTGGTT
23245416 TAGAGTTTAAGATTTTACC
1 TAGAGTTTAAGATTTTACC
* * *
23245435 TAGAGTTTAAGGTCTCACC
1 TAGAGTTTAAGATTTTACC
* * *
23245454 TAGGGTTTAGGACTTTACC
1 TAGAGTTTAAGATTTTACC
23245473 TAG
1 TAG
23245476 GATTTTGATT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (19 bp):
TAGAGTTTAAGATTTTACC
Found at i:23245494 original size:13 final size:13
Alignment explanation
Indices: 23245473--23245585 Score: 57
Period size: 13 Copynumber: 8.5 Consensus size: 13
23245463 GGACTTTACC
*
23245473 TAGGATTTTGATT
1 TAGGGTTTTGATT
*
23245486 TAGGGTTTTAATT
1 TAGGGTTTTGATT
* *
23245499 TAGGGTCTCGATT
1 TAGGGTTTTGATT
* *
23245512 TAAGATTTT-ATT
1 TAGGGTTTTGATT
* * *
23245524 TAGGGTCTCGACCT
1 TAGGGTTTTGA-TT
* **
23245538 TAGGATTCAGATTT
1 TAGGGTTTTGA-TT
*
23245552 TAGGGTTTTTATTT
1 TAGGGTTTTGA-TT
**
23245566 TAAAGTTTTGATT
1 TAGGGTTTTGATT
23245579 TAGGGTT
1 TAGGGTT
23245586 GCACTTTAGA
Statistics
Matches: 69, Mismatches: 29, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
12 8 0.12
13 34 0.49
14 27 0.39
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (13 bp):
TAGGGTTTTGATT
Found at i:23245530 original size:25 final size:26
Alignment explanation
Indices: 23245482--23245534 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
23245472 CTAGGATTTT
* *
23245482 GATTTAGGGTTTTAATTTAGGGTCTC
1 GATTTAAGATTTTAATTTAGGGTCTC
23245508 GATTTAAGATTTT-ATTTAGGGTCTC
1 GATTTAAGATTTTAATTTAGGGTCTC
23245533 GA
1 GA
23245535 CCTTAGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.45
Consensus pattern (26 bp):
GATTTAAGATTTTAATTTAGGGTCTC
Found at i:23245544 original size:26 final size:26
Alignment explanation
Indices: 23245485--23245544 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
23245475 GGATTTTGAT
* *
23245485 TTAGGGTTTTAATTTAGGGTCTCGAT
1 TTAGGATTTTAATTTAGGGTCTCGAC
*
23245511 TTAAGATTTT-ATTTAGGGTCTCGACC
1 TTAGGATTTTAATTTAGGGTCTCGA-C
23245537 TTAGGATT
1 TTAGGATT
23245545 CAGATTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.45
Consensus pattern (26 bp):
TTAGGATTTTAATTTAGGGTCTCGAC
Found at i:23245710 original size:27 final size:26
Alignment explanation
Indices: 23245676--23245768 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
23245666 AACAAGCTTA
23245676 TTTTTATAATTTTTCTAAAAATTAAT
1 TTTTTATAATTTTTCTAAAAATTAAT
* ** * *
23245702 TTTTATATAATTATTCTAACAAGCTCAC
1 TTTT-TATAATTTTTCTAA-AAATTAAT
*
23245730 TTTTTATAATTTCTCTAAAAATTGAA-
1 TTTTTATAATTTTTCTAAAAATT-AAT
*
23245756 TTTTTATACTTTT
1 TTTTTATAATTTT
23245769 CTCTTATTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 18 0.35
27 26 0.50
28 8 0.15
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTTATAATTTTTCTAAAAATTAAT
Found at i:23245772 original size:27 final size:24
Alignment explanation
Indices: 23245675--23245770 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 24
23245665 GAACAAGCTT
23245675 ATTTTTATAATTTTTCTAAAAATTA
1 ATTTTTAT-ATTTTTCTAAAAATTA
* *
23245700 ATTTTTATATAATTATTCTAACAAGCTCA
1 ATTTTTATAT--TT-TTCTAA-AA-ATTA
* *
23245729 CTTTTTATAATTTCTCTAAAAATTGA
1 ATTTTTAT-ATTTTTCTAAAAATT-A
*
23245755 ATTTTTATACTTTTCT
1 ATTTTTATATTTTTCT
23245771 CTTATTTCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
24 2 0.04
25 15 0.27
26 12 0.22
27 11 0.20
28 4 0.07
29 9 0.16
30 2 0.04
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTTTATATTTTTCTAAAAATTA
Done.