Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 80 of 144
Found at i:17906117 original size:31 final size:29
Alignment explanation
Indices: 17906077--17906148 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
17906067 ATACCAAAAC
* *
17906077 TATATATGAACTATGATTTAATGTGTAATTG
1 TATACATGAAATATGATTT--TGTGTAATTG
* *
17906108 TATACATGAAATTTGATTTTGTGTAATTT
1 TATACATGAAATATGATTTTGTGTAATTG
*
17906137 TATACATAAAAT
1 TATACATGAAAT
17906149 TTTGATTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 20 0.56
31 16 0.44
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (29 bp):
TATACATGAAATATGATTTTGTGTAATTG
Found at i:17906131 original size:29 final size:30
Alignment explanation
Indices: 17906098--17906156 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
17906088 TATGATTTAA
*
17906098 TGTGTAATTGTATACATGAAA-TTTGATTT
1 TGTGTAATTGTATACATAAAATTTTGATTT
*
17906127 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTGTATACATAAAATTTTGATTT
17906157 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTGTAATTGTATACATAAAATTTTGATTT
Found at i:17909132 original size:20 final size:21
Alignment explanation
Indices: 17909096--17909138 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
17909086 AATAAAAATA
*
17909096 AATAAAATTTATTAATTT-TT
1 AATAAAATTTATAAATTTATT
17909116 AATAAAA-TTATAAAATTTATT
1 AATAAAATTTAT-AAATTTATT
17909137 AA
1 AA
17909139 AAATTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAAAATTTATAAATTTATT
Found at i:17909141 original size:19 final size:18
Alignment explanation
Indices: 17909119--17909216 Score: 63
Period size: 19 Copynumber: 5.2 Consensus size: 18
17909109 AATTTTTAAT
17909119 AAAATTATAAAATTTATTA
1 AAAATTATAAAATTTA-TA
* **
17909138 AAAATTAGAATTTTTATA
1 AAAATTATAAAATTTATA
*** *
17909156 AAAATCGCAAAAGATTATA
1 AAAATTATAAAA-TTTATA
*
17909175 AAAATTGTAAAATTTTATAAAA
1 AAAATTATAAAA-TTTAT---A
17909197 AAAATTATAAAA-TTATA
1 AAAATTATAAAATTTATA
17909214 AAA
1 AAA
17909217 TATATCAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
17 4 0.07
18 9 0.15
19 32 0.52
20 4 0.07
22 12 0.20
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AAAATTATAAAATTTATA
Found at i:17909157 original size:18 final size:18
Alignment explanation
Indices: 17909109--17909160 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
17909099 AAAATTTATT
*
17909109 AATTTTTA-ATAAAATTAT
1 AATTTTTATA-AAAATTAG
**
17909127 AAAATTTATTAAAAATTAG
1 AATTTTTA-TAAAAATTAG
17909146 AATTTTTATAAAAAT
1 AATTTTTATAAAAAT
17909161 CGCAAAAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 13 0.48
19 13 0.48
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTTTATAAAAATTAG
Found at i:17909212 original size:20 final size:21
Alignment explanation
Indices: 17909174--17909216 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
17909164 AAAAGATTAT
*
17909174 AAAAATTGTAAAATTTTATAAA
1 AAAAATTATAAAA-TTTATAAA
17909196 AAAAATTATAAAA-TTATAAA
1 AAAAATTATAAAATTTATAAA
17909216 A
1 A
17909217 TATATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATTATAAAATTTATAAA
Found at i:17909227 original size:30 final size:31
Alignment explanation
Indices: 17909164--17909227 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
17909154 TAAAAATCGC
* * *
17909164 AAAAGATTATAAAAATTGTAAAATTTTATAA
1 AAAAAATTATAAAAATTATAAAATTATATAA
*
17909195 AAAAAATTAT-AAAATTATAAAA-TATATCA
1 AAAAAATTATAAAAATTATAAAATTATATAA
17909224 AAAA
1 AAAA
17909228 GTCCTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.31
30 11 0.38
31 9 0.31
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAAAATTATAAAAATTATAAAATTATATAA
Found at i:17909380 original size:10 final size:10
Alignment explanation
Indices: 17909367--17909468 Score: 59
Period size: 10 Copynumber: 10.2 Consensus size: 10
17909357 TTTCCATATA
17909367 TTTTATAATT
1 TTTTATAATT
17909377 TTTTACT-A-T
1 TTTTA-TAATT
17909386 TTTTATAATTT
1 TTTTATAA-TT
*
17909397 TTTTTTAATT
1 TTTTATAATT
* *
17909407 TTTAATAA-A
1 TTTTATAATT
* *
17909416 ATTTAAAATT
1 TTTTATAATT
17909426 TTTTATAATT
1 TTTTATAATT
* **
17909436 ATTTATTAAAA
1 TTTTA-TAATT
*
17909447 TTTAATAA-T
1 TTTTATAATT
17909456 TTTTATAACTT
1 TTTTATAA-TT
17909467 TT
1 TT
17909469 ATTGTTTTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
8 1 0.01
9 19 0.28
10 29 0.43
11 18 0.27
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:17909398 original size:28 final size:27
Alignment explanation
Indices: 17909292--17909398 Score: 65
Period size: 28 Copynumber: 3.8 Consensus size: 27
17909282 TTTTTATGAA
17909292 TTTTACATTTCTT-TACATTTTCTATAATT
1 TTTTACATTT-TTATA-ATTTT-TATAATT
** ** *
17909321 TTCTTACAACTTTATAAAATTTATATTT
1 TT-TTACATTTTTATAATTTTTATAATT
* **
17909349 TTTCTATATTTCCAT-ATATTTTATAATT
1 TTT-TACATTTTTATAAT-TTTTATAATT
17909377 TTTTACTATTTTTATAATTTTT
1 TTTTAC-ATTTTTATAATTTTT
17909399 TTTTAATTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 13
0.66 0.19 0.15
Matches are distributed among these distances:
27 4 0.07
28 35 0.62
29 9 0.16
30 8 0.14
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTACATTTTTATAATTTTTATAATT
Found at i:17909408 original size:19 final size:19
Alignment explanation
Indices: 17909366--17909412 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17909356 ATTTCCATAT
17909366 ATTTTATAATTTTTTACTA
1 ATTTTATAATTTTTTACTA
* **
17909385 TTTTTATAATTTTTTTTTA
1 ATTTTATAATTTTTTACTA
17909404 ATTTT-TAAT
1 ATTTTATAAT
17909413 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTATAATTTTTTACTA
Found at i:17909426 original size:30 final size:31
Alignment explanation
Indices: 17909387--17909459 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
17909377 TTTTACTATT
* *
17909387 TTTATAATTTTTTTTTAATT-TTTAATAAAA
1 TTTAAAATTTTTTTATAATTATTTAATAAAA
*
17909417 TTTAAAA-TTTTTTATAATTATTTATTAAAA
1 TTTAAAATTTTTTTATAATTATTTAATAAAA
17909447 TTTAATAATTTTT
1 TTTAA-AATTTTT
17909460 ATAACTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 11 0.30
30 20 0.54
31 2 0.05
32 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTAAAATTTTTTTATAATTATTTAATAAAA
Found at i:17909460 original size:30 final size:29
Alignment explanation
Indices: 17909395--17909471 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 29
17909385 TTTTTATAAT
* *
17909395 TTTTTTTTAATTTTTAATAAAATTTAAAA
1 TTTTTTATAATTTTTATTAAAATTTAAAA
17909424 TTTTTTATAATTATTTATTAAAATTTAATAA
1 TTTTTTATAATT-TTTATTAAAATTTAA-AA
*
17909455 -TTTTTATAACTTTTATT
1 TTTTTTATAATTTTTATT
17909472 GTTTTTTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 17 0.40
30 24 0.56
31 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTTATAATTTTTATTAAAATTTAAAA
Found at i:17916034 original size:18 final size:17
Alignment explanation
Indices: 17915992--17916034 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
17915982 GTTTTAAGTT
*
17915992 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
17916009 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
17916027 TATAATTT
1 TATAATTT
17916035 AGAATATATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:17918309 original size:195 final size:194
Alignment explanation
Indices: 17917869--17918315 Score: 488
Period size: 195 Copynumber: 2.3 Consensus size: 194
17917859 TACCAGTACT
* * * *
17917869 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAATATATGCGGTATCC-CAGCCATCGGTACGA
1 CGATGCTACTCACACGAGCTATCGAGGACTCGCAACATATGCGGTA-CCTCAGCCATCGATACGA
* * * *
17917933 TGCCTGTTTGTACTATAAACTATTCCTTAACGATGATGCTTACACGAGCTGTCGAGAGTATGCAT
65 TACCTG-TTGCACTATAAACTATTCCTTAACGATGATGCTCACACGAGCTGTCGAGAATATGCAT
* * ** *
17917998 AAAGCATAGTCCCAGCCATCGTAGGGGCTATAATCCATTTAGGATCCATGTCTCTTTTTCGAGTC
129 AAAGCATAATCCCAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATGTCTCTTTCCCGACTC
17918063 A
194 A
* * ** * ** *
17918064 TGATGCTACTCACACCAGCTATTTAGGACTCACAACATATGCAATACCTCAGCTATCGATACGAT
1 CGATGCTACTCACACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGAT
* * * * *
17918129 ATCTG-TGCA-TAT-AACTGTTCCTTAACGATGCTGCTCACACGAGCTGTTGAGAATATGCATTT
66 ACCTGTTGCACTATAAACTATTCCTTAACGATGATGCTCACACGAGCTGTCGAGAATATGCA-TA
* * * * * * * *
17918191 ATGCATAAATCTCAGCCATCGTATGGCCTGTAATCCATTCTTGGATTCTTTTCTCATTTCCCGAC
130 AAGCAT-AATCCCAGCCATCGTAGGGCCTATAATCCATT-TAGGATCCATGTCTC-TTTCCCGAC
17918256 TCA
192 TCA
* *
17918259 CGATGCTACTCACATGAGCTATCGAGGACTCGTAACATATGCGGTACCTCAGCCATC
1 CGATGCTACTCACACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAGCCATC
17918316 ATGTCGATTT
Statistics
Matches: 203, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
191 42 0.21
192 9 0.04
193 30 0.15
194 13 0.06
195 109 0.54
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (194 bp):
CGATGCTACTCACACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGAT
ACCTGTTGCACTATAAACTATTCCTTAACGATGATGCTCACACGAGCTGTCGAGAATATGCATAA
AGCATAATCCCAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATGTCTCTTTCCCGACTCA
Found at i:17919756 original size:22 final size:22
Alignment explanation
Indices: 17919730--17919787 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
17919720 TATACTAAAT
17919730 TTTAATTCAATAATTAAAATTC
1 TTTAATTCAATAATTAAAATTC
*
17919752 TTTAATTTAATAATTAAAATTC
1 TTTAATTCAATAATTAAAATTC
17919774 TTTAATTCAA-AATT
1 TTTAATTCAATAATT
17919788 TCATATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAATTCAATAATTAAAATTC
Found at i:17921846 original size:7 final size:7
Alignment explanation
Indices: 17921836--17921866 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17921826 AAATCAAGTT
*
17921836 TCAAGGA
1 TCAAGAA
17921843 TCAAGAA
1 TCAAGAA
17921850 TCAAGAA
1 TCAAGAA
17921857 TCAAGAA
1 TCAAGAA
17921864 TCA
1 TCA
17921867 TAAATTGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (7 bp):
TCAAGAA
Found at i:17921860 original size:21 final size:21
Alignment explanation
Indices: 17921827--17921866 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17921817 AAAAATTAAA
** *
17921827 AATCAAGTTTCAAGGATCAAG
1 AATCAAGAATCAAGAATCAAG
17921848 AATCAAGAATCAAGAATCA
1 AATCAAGAATCAAGAATCA
17921867 TAAATTGATG
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:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (21 bp):
AATCAAGAATCAAGAATCAAG
Found at i:17923400 original size:73 final size:73
Alignment explanation
Indices: 17923300--17923447 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
17923290 TACCACCTTC
17923300 ATCCCCACCAAGTGAGCTTAAAAATAAGTTTTAAAGTATTCTAATAAAGTTTTTTGGATTTGCTA
1 ATCCCCACCAAGTGAGCTTAAAAATAAGTTTTAAAGTATTCTAATAAAGTTTTTTGGATTTGCTA
17923365 ACATATGG
66 ACATATGG
* *
17923373 ATCCCTACCAAGTTAGCTTAAAAATAAGTTTTAAAGTATTCTAATAAAGTTTTTTGGATTTGCTA
1 ATCCCCACCAAGTGAGCTTAAAAATAAGTTTTAAAGTATTCTAATAAAGTTTTTTGGATTTGCTA
17923438 ACATATGG
66 ACATATGG
17923446 AT
1 AT
17923448 TAATTATCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (73 bp):
ATCCCCACCAAGTGAGCTTAAAAATAAGTTTTAAAGTATTCTAATAAAGTTTTTTGGATTTGCTA
ACATATGG
Found at i:17924175 original size:19 final size:19
Alignment explanation
Indices: 17924135--17924176 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
17924125 AAAAATATAA
* *
17924135 ATTTGGAATTTTTACAAAT
1 ATTTGGAATTTTGAAAAAT
17924154 ATTTGGAA-TTTGAAAAATT
1 ATTTGGAATTTTGAAAAA-T
17924173 ATTT
1 ATTT
17924177 TGTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
ATTTGGAATTTTGAAAAAT
Found at i:17924618 original size:34 final size:34
Alignment explanation
Indices: 17924575--17924655 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
17924565 TTTTACCTTT
**
17924575 CATCTTCCTTAACCTCCTTTGACCTTTAACATTC
1 CATCTTCCTTAACCTCCCATGACCTTTAACATTC
* * *
17924609 CATCTTCCTTAATCTCCCATGACTTTTAACTTTC
1 CATCTTCCTTAACCTCCCATGACCTTTAACATTC
17924643 CATCTTCCTTAAC
1 CATCTTCCTTAAC
17924656 TTTTCATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.21, C:0.35, G:0.02, T:0.42
Consensus pattern (34 bp):
CATCTTCCTTAACCTCCCATGACCTTTAACATTC
Found at i:17924658 original size:17 final size:17
Alignment explanation
Indices: 17924600--17924658 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
17924590 CCTTTGACCT
*
17924600 TTAACATTCCATCTTCC
1 TTAACTTTCCATCTTCC
*
17924617 TTAA-TCTCCCATGACTT--
1 TTAACT-TTCCAT--CTTCC
17924634 TTAACTTTCCATCTTCC
1 TTAACTTTCCATCTTCC
17924651 TTAACTTT
1 TTAACTTT
17924659 TCATATTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
15 3 0.09
17 26 0.79
18 1 0.03
19 3 0.09
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.46
Consensus pattern (17 bp):
TTAACTTTCCATCTTCC
Found at i:17925171 original size:33 final size:34
Alignment explanation
Indices: 17925124--17925190 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
17925114 TTATATCATG
* * * *
17925124 CTTGCAAGTTTTGTTAAGGGATTACTTATGTTTA
1 CTTGAAAGTTTTGTTAAAGGACTACTTATATTTA
17925158 CTTGAAAG-TTTGTTAAAGGACTACTTATATTTA
1 CTTGAAAGTTTTGTTAAAGGACTACTTATATTTA
17925191 TATTAAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 22 0.76
34 7 0.24
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (34 bp):
CTTGAAAGTTTTGTTAAAGGACTACTTATATTTA
Found at i:17933186 original size:16 final size:16
Alignment explanation
Indices: 17933165--17933209 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
17933155 AATGGGATTA
17933165 AAATAAATTTTTAATT
1 AAATAAATTTTTAATT
17933181 AAATAAA--TTTAATT
1 AAATAAATTTTTAATT
*
17933195 AATTAAAATTTTTAA
1 AAAT-AAATTTTTAA
17933210 ACCTAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 7 0.28
17 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATAAATTTTTAATT
Found at i:17937727 original size:23 final size:23
Alignment explanation
Indices: 17937701--17937746 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17937691 ATGGAATACA
17937701 TAGTCGGGAATATGAAGAAAAAC
1 TAGTCGGGAATATGAAGAAAAAC
17937724 TAGTCGGGAATATGAAGAAAAAC
1 TAGTCGGGAATATGAAGAAAAAC
17937747 CCTAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.26, T:0.17
Consensus pattern (23 bp):
TAGTCGGGAATATGAAGAAAAAC
Found at i:17942484 original size:28 final size:28
Alignment explanation
Indices: 17942444--17942542 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
17942434 CAAGCAAAAG
*
17942444 GTCTTTACGGAGACCACTGTTACTAAAT
1 GTCTCTACGGAGACCACTGTTACTAAAT
**
17942472 GTCTCTACGGAGACCACCATTACTAAAT
1 GTCTCTACGGAGACCACTGTTACTAAAT
* ** * **
17942500 GTTTCTTTGGAGACCATTGTTACTTTAT
1 GTCTCTACGGAGACCACTGTTACTAAAT
*
17942528 GTCTTTACGGAGACC
1 GTCTCTACGGAGACC
17942543 CTAGTGTGGT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (28 bp):
GTCTCTACGGAGACCACTGTTACTAAAT
Found at i:17964687 original size:34 final size:34
Alignment explanation
Indices: 17964649--17964715 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
17964639 TTTTTAAATA
* *
17964649 AGTTTGAATTTATTTTAAATTCAAATTCATTTTG
1 AGTTTGAATTTACTTGAAATTCAAATTCATTTTG
* *
17964683 AGTTTGAATTTACTTGAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTGAAATTCAAATTCATTTT
17964716 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (34 bp):
AGTTTGAATTTACTTGAAATTCAAATTCATTTTG
Found at i:17964832 original size:26 final size:26
Alignment explanation
Indices: 17964799--17964850 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
17964789 AGCCCAATTA
*
17964799 CAAACAGGCCTAAATAGCCCAAACAC
1 CAAACAGGCCCAAATAGCCCAAACAC
*
17964825 CAAACAGGCCCAAATGGCCCAAACAC
1 CAAACAGGCCCAAATAGCCCAAACAC
17964851 TACACCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.37, G:0.13, T:0.06
Consensus pattern (26 bp):
CAAACAGGCCCAAATAGCCCAAACAC
Found at i:17965436 original size:14 final size:15
Alignment explanation
Indices: 17965391--17965445 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
17965381 TAAATATCAT
*
17965391 TAATATTATTATTAA
1 TAATATTAATATTAA
*
17965406 TTAT-TATAATATTAA
1 TAATAT-TAATATTAA
17965421 TAATATTAAT-TTAA
1 TAATATTAATATTAA
17965435 TAATATTAATA
1 TAATATTAATA
17965446 AATATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 15 0.44
15 18 0.53
16 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATATTAATATTAA
Found at i:17965443 original size:9 final size:9
Alignment explanation
Indices: 17965389--17965446 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
17965379 AATAAATATC
*
17965389 ATTAATATT
1 ATTAATAAT
*
17965398 ATTATTAATT
1 ATTAATAA-T
17965408 ATT-ATAAT
1 ATTAATAAT
17965416 ATTAATAAT
1 ATTAATAAT
17965425 A-T--TAAT
1 ATTAATAAT
17965431 -TTAATAAT
1 ATTAATAAT
17965439 ATTAATAA
1 ATTAATAA
17965447 ATATATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
6 5 0.12
8 9 0.22
9 22 0.55
10 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTAATAAT
Found at i:17979036 original size:209 final size:209
Alignment explanation
Indices: 17978443--17979547 Score: 1486
Period size: 209 Copynumber: 5.3 Consensus size: 209
17978433 CGATTATCCA
* *
17978443 AAACAAGTGATACGGTCATCTTCCTGATGAGATACTGAGAAGTAA-ACCAAATCAATGAAATAAA
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAG-AAGACCAAATCAATGAAACAAA
* * *
17978507 GCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGATGCAGGTCGAAGCA
65 GCTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * * * * * *
17978572 ATAAAATGGTTAACTTCCTGATGAGATACGGAGAAGTGAGCCAGATCCGTCTTCCTGATGAGACA
130 ATAAAGTGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATA
* * **
17978637 CAGAGAAGTGGATCA
195 TAGAGAAGCGGATTG
* * * * *
17978652 AAACAAGAGATCCGGTCATCTTCCTGATGAGGTACTGAGAAGAAGACCAAATCAATGAAGCCAAG
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
* *
17978717 CTCAACGTGAGCAAATCTTCGAAC-CCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAA
66 CTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* *
17978781 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAT
131 TAAAGTGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATAT
17978846 AGAGAAGCGGATTG
196 AGAGAAGCGGATTG
* * *
17978860 AAACAAGTGATGCAGTCATCTTCTTGATGAGATACTAAGAAGAAGACCAAATCAATGAAACAAAG
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
* * *
17978925 CTCAATGTGAGCGAAAT-TTTGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
66 CTCAAAGTGAGC-AAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * *
17978989 ATAAAGTGGTTCGCTTCCTGATGAGATACTGAGAAGTAAACCAAATTCGTCTTCCTGATAAGATA
130 ATAAAGTGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATA
17979054 TAGAGAAGCGGATTG
195 TAGAGAAGCGGATTG
* *
17979069 AAACAAGTGATGCGGTCATCTTCCTGATAAGATACTGAGAAG-GGAACCAAATCAATGAAACAAA
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAG-ACCAAATCAATGAAACAAA
* * * * *
17979133 GCTCAATGTGAGCGAAA-CTTCGAACTCCAACTTCTTGATGAGATACTGAGAAGCAAGTTGAAGC
65 GCTCAAAGTGAGC-AAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* * * * *
17979197 AATAAAGTGGTTAGCTTCCTGACGAGATACTGATAAGTGGACCAAATTCATTTTCCTGATGAGAT
129 AATAAAGTGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGAT
*
17979262 ATAGAGAAGCAGATTG
194 ATAGAGAAGCGGATTG
* * *
17979278 AAATAAGTGATGCGGTCATCTTTCTGATGAGATACTGAGAAGAGGACCAAATCAATGAAACCAAA
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAA-CAAA
* * *
17979343 -CTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCAAAGTA
65 GCTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * * * * * *
17979407 ATAAAGAGGTTACCTTCCTGATGAGATACAGAGAAGTCAACCAGA-TCAATCTTCCTGATGAGAC
130 ATAAAGTGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTC-GTCTTCCTGATGAGAT
* * **
17979471 ACAGAGAAGTGGATCAAAA
194 ATAGAGAAGCGGAT---TG
* *
17979490 AAATAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA
1 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGA
17979548 CACCAAACCA
Statistics
Matches: 799, Mismatches: 85, Indels: 21
0.88 0.09 0.02
Matches are distributed among these distances:
208 187 0.23
209 551 0.69
210 6 0.01
212 55 0.07
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAG
CTCAAAGTGAGCAAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAGTGGTTAGCTTCCTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATAT
AGAGAAGCGGATTG
Found at i:17979930 original size:6 final size:6
Alignment explanation
Indices: 17979921--17979953 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17979911 TTGAATTTAC
*
17979921 TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
17979954 CTTTAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:17979967 original size:17 final size:17
Alignment explanation
Indices: 17979880--17979960 Score: 99
Period size: 17 Copynumber: 4.8 Consensus size: 17
17979870 AATAAGTTTG
* *
17979880 AATTTATTTTAAATTCA
1 AATTTACTTTAAATTTA
* * * * *
17979897 AATTAATTTTGAGTTTG
1 AATTTACTTTAAATTTA
17979914 AATTTACTTTAAATTTA
1 AATTTACTTTAAATTTA
17979931 AATTTACTTTAAATTTA
1 AATTTACTTTAAATTTA
17979948 AATTTACTTTAAA
1 AATTTACTTTAAA
17979961 CTAAAATAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 54 1.00
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTACTTTAAATTTA
Found at i:17981823 original size:30 final size:28
Alignment explanation
Indices: 17981767--17981857 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
17981757 AACTTTTCTA
* *
17981767 AAAATTATAATTTT-CCTCCGAGTGTCC
1 AAAATTATCATTTTACCCCCGAGTGTCC
17981794 AAAAGTTATCATTTTACCCCCGAAGTGTCC
1 AAAA-TTATCATTTTACCCCCG-AGTGTCC
* * *
17981824 AAAATTACCATTTTACCCTCGAGTATCC
1 AAAATTATCATTTTACCCCCGAGTGTCC
17981852 GAAAAT
1 -AAAAT
17981858 CGTATTTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.07
28 15 0.27
29 25 0.45
30 11 0.20
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (28 bp):
AAAATTATCATTTTACCCCCGAGTGTCC
Found at i:17985072 original size:57 final size:60
Alignment explanation
Indices: 17985009--17985180 Score: 201
Period size: 57 Copynumber: 2.8 Consensus size: 60
17984999 TCATTTTTGT
*
17985009 TTTTGGAGAAAATCATATTCATTTCCAAATGATTTCATTTCTTCA-TTTC-T-ATTTTCA
1 TTTTGGAGAAAATCATATTCATTTCCAAATGATTTCATTTCTCCATTTTCTTCATTTTCA
* *
17985066 TTTTGGAGAAAACCATAATT-ATTTCCAAATG-TTTCCATTTCTCCATTTTCATTTTCATTTTTA
1 TTTTGGAGAAAATCAT-ATTCATTTCCAAATGATTT-CATTTCTCCATTTTC---TTCATTTTCA
* *
17985129 TTTTGGAGAAAATCATAATCATTTCCAAATGATTTCTCATTTCTCTATTTTC
1 TTTTGGAGAAAATCATATTCATTTCCAAATGA-TT-TCATTTCTCCATTTTC
17985181 AACATTTCTA
Statistics
Matches: 97, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
56 3 0.03
57 35 0.36
58 7 0.07
62 3 0.03
63 32 0.33
65 16 0.16
66 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (60 bp):
TTTTGGAGAAAATCATATTCATTTCCAAATGATTTCATTTCTCCATTTTCTTCATTTTCA
Found at i:17985119 original size:63 final size:65
Alignment explanation
Indices: 17985050--17985181 Score: 198
Period size: 63 Copynumber: 2.1 Consensus size: 65
17985040 ATTTCATTTC
*
17985050 TTCA-TTTCTATTTTCATTTTGGAGAAAACCATAATTATTTCCAAATG-TTTC-CATTTCTCCAT
1 TTCATTTTC-ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAT
17985112 T
65 T
* * *
17985113 TTCATTTTCATTTTTATTTTGGAGAAAATCATAATCATTTCCAAATGATTTCTCATTTCTCTATT
1 TTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCATT
17985178 TTCA
1 TTCA
17985182 ACATTTCTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
63 39 0.63
64 8 0.13
65 15 0.24
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.49
Consensus pattern (65 bp):
TTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCATT
Found at i:17987145 original size:17 final size:19
Alignment explanation
Indices: 17987123--17987208 Score: 108
Period size: 20 Copynumber: 4.6 Consensus size: 19
17987113 CTATAAGATA
17987123 AATATTAAATTAT-A-TTT
1 AATATTAAATTATAACTTT
*
17987140 AATATTAAAATAATAACTTT
1 AATATT-AAATTATAACTTT
17987160 AATATTAAATTAT-A-TTT
1 AATATTAAATTATAACTTT
*
17987177 AATATTAAAATAATAACTTT
1 AATATT-AAATTATAACTTT
17987197 AATATTAAATTA
1 AATATTAAATTA
17987209 ATAAAATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
17 15 0.25
18 13 0.22
19 13 0.22
20 18 0.31
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATTAAATTATAACTTT
Found at i:17987162 original size:20 final size:20
Alignment explanation
Indices: 17987137--17987212 Score: 113
Period size: 20 Copynumber: 4.0 Consensus size: 20
17987127 TTAAATTATA
17987137 TTTAATATTAAAATAATAAC
1 TTTAATATTAAAATAATAAC
*
17987157 TTTAATATT-AAATTAT-A-
1 TTTAATATTAAAATAATAAC
17987174 TTTAATATTAAAATAATAAC
1 TTTAATATTAAAATAATAAC
*
17987194 TTTAATATTAAATTAATAA
1 TTTAATATTAAAATAATAA
17987213 AATATTATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.18
18 7 0.14
19 7 0.14
20 27 0.54
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAATATTAAAATAATAAC
Found at i:17987169 original size:37 final size:37
Alignment explanation
Indices: 17987123--17987208 Score: 172
Period size: 37 Copynumber: 2.3 Consensus size: 37
17987113 CTATAAGATA
17987123 AATATTAAATTATATTTAATATTAAAATAATAACTTT
1 AATATTAAATTATATTTAATATTAAAATAATAACTTT
17987160 AATATTAAATTATATTTAATATTAAAATAATAACTTT
1 AATATTAAATTATATTTAATATTAAAATAATAACTTT
17987197 AATATTAAATTA
1 AATATTAAATTA
17987209 ATAAAATATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (37 bp):
AATATTAAATTATATTTAATATTAAAATAATAACTTT
Found at i:17988113 original size:30 final size:30
Alignment explanation
Indices: 17988077--17988135 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
17988067 CAATAGCTAA
17988077 TACTAAGGAAATGAGAAGTCACAAGATGAG
1 TACTAAGGAAATGAGAAGTCACAAGATGAG
17988107 TACTAAGGAAATGAGAAGTCACAAGATGA
1 TACTAAGGAAATGAGAAGTCACAAGATGA
17988136 CCAAACACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.25, T:0.17
Consensus pattern (30 bp):
TACTAAGGAAATGAGAAGTCACAAGATGAG
Found at i:17988977 original size:16 final size:16
Alignment explanation
Indices: 17988942--17988977 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17988932 ATGTTGGGTA
*
17988942 CATGACTTGTGTATGC
1 CATGACTTGTGCATGC
*
17988958 CATGACTTGTGCATGG
1 CATGACTTGTGCATGC
17988974 CATG
1 CATG
17988978 GCTTTACTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (16 bp):
CATGACTTGTGCATGC
Found at i:17993576 original size:11 final size:11
Alignment explanation
Indices: 17993540--17993595 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
17993530 TCATGAATTA
17993540 AATAATAAAAT
1 AATAATAAAAT
17993551 ATATTATATTAAAAT
1 A-A-TA-A-TAAAAT
17993566 AATAATAAAAT
1 AATAATAAAAT
*
17993577 AATATTAAAAT
1 AATAATAAAAT
*
17993588 AATCATAA
1 AATAATAA
17993596 TTAATCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 23 0.61
12 2 0.05
13 4 0.11
14 2 0.05
15 7 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:17993581 original size:22 final size:24
Alignment explanation
Indices: 17993539--17993596 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
17993529 ATCATGAATT
*
17993539 AAATAATAA-AATATATTATATTA
1 AAATAATAATAATATATAATATTA
17993562 AAATAATAATAA-A-ATAATATTA
1 AAATAATAATAATATATAATATTA
*
17993584 AAATAATCATAAT
1 AAATAATAATAAT
17993597 TAATCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 19 0.61
23 10 0.32
24 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATAATAATAATATATAATATTA
Found at i:18006195 original size:14 final size:15
Alignment explanation
Indices: 18006176--18006204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18006166 ATTAACCTTA
18006176 TGATT-CAATATCTT
1 TGATTCCAATATCTT
18006190 TGATTCCAATATCTT
1 TGATTCCAATATCTT
18006205 CTTCCCGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (15 bp):
TGATTCCAATATCTT
Found at i:18008541 original size:50 final size:50
Alignment explanation
Indices: 18008482--18008581 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
18008472 GTCAAAGCAA
* *
18008482 ATTGTTACAAACTGCGAAATAAAAGGGTTGTTGAGAGCAACAAGGAAGAT
1 ATTGTTACAAACTGCAAAATAAAAGGGTTGTTGAGAGCAACAAGAAAGAT
*
18008532 ATTGTTACAAATTGCAAAATAAAAGGGTTGTTGAGAGCAACAAGAAAGAT
1 ATTGTTACAAACTGCAAAATAAAAGGGTTGTTGAGAGCAACAAGAAAGAT
18008582 GTAGCTAGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (50 bp):
ATTGTTACAAACTGCAAAATAAAAGGGTTGTTGAGAGCAACAAGAAAGAT
Found at i:18010913 original size:30 final size:30
Alignment explanation
Indices: 18010879--18010940 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
18010869 ATAAGAATTG
18010879 ATTCAACAAGTGCCAATACCAGGAAAAGTT
1 ATTCAACAAGTGCCAATACCAGGAAAAGTT
18010909 ATTCAACAAGTGCCAATACCAGGAAAAGTT
1 ATTCAACAAGTGCCAATACCAGGAAAAGTT
18010939 AT
1 AT
18010941 CACGGGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (30 bp):
ATTCAACAAGTGCCAATACCAGGAAAAGTT
Found at i:18012001 original size:10 final size:11
Alignment explanation
Indices: 18011977--18012024 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
18011967 ACCCTTATTT
*
18011977 TTTCACACAAA
1 TTTCACTCAAA
18011988 TTTCACTC-AA
1 TTTCACTCAAA
*
18011998 TTTCTCTCTAAA
1 TTTCACTC-AAA
*
18012010 TTTCACACAAA
1 TTTCACTCAAA
18012021 TTTC
1 TTTC
18012025 TCTCTAAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.29
11 14 0.45
12 8 0.26
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTCACTCAAA
Found at i:18012010 original size:22 final size:23
Alignment explanation
Indices: 18011985--18012032 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
18011975 TTTTTCACAC
*
18011985 AAATTTCACTC-AATTTCTCTCT
1 AAATTTCACACAAATTTCTCTCT
18012007 AAATTTCACACAAATTTCTCTCT
1 AAATTTCACACAAATTTCTCTCT
18012030 AAA
1 AAA
18012033 GCTCTCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTTCACACAAATTTCTCTCT
Found at i:18012253 original size:29 final size:29
Alignment explanation
Indices: 18012210--18012279 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
18012200 TAAGAGTTAA
* * *
18012210 TTTT-ATTTTTTTAATATTATTTAATTTTT
1 TTTTAATTTTTATAAT-TTAATTAATATTT
*
18012239 TTTA-ATTTTTATAATTTAATTAATATTT
1 TTTTAATTTTTATAATTTAATTAATATTT
*
18012267 TTATAATTTTTAT
1 TTTTAATTTTTAT
18012280 GTGACTACCC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTAATTTTTATAATTTAATTAATATTT
Found at i:18015471 original size:14 final size:14
Alignment explanation
Indices: 18015439--18015485 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
18015429 TGGAAAGTGA
*
18015439 AAATTAATTAATTT
1 AAATTAATTAATAT
18015453 AAATTAATTAATAT
1 AAATTAATTAATAT
* *
18015467 GAATT-ATTTATA-
1 AAATTAATTAATAT
18015479 AAATTAA
1 AAATTAA
18015486 AGATACATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 4 0.14
13 7 0.25
14 17 0.61
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AAATTAATTAATAT
Found at i:18018187 original size:43 final size:42
Alignment explanation
Indices: 18018140--18018266 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 42
18018130 GACATTGAGA
*
18018140 GGAACATTGTTTCCTTAAATTGAAAGTATGAGATTGATTG-TGT
1 GGAACATTGTTTCC-TAAATTGAAAGTATGTGATTGATTGAT-T
* * *** *
18018183 GGAACACTGTTTCCTATTATTGAAAGTATGTGAACAAATGATT
1 GGAACATTGTTTCCTA-AATTGAAAGTATGTGATTGATTGATT
* *
18018226 GGAACATTGTTTCCTAATATTGATAGTCTGTGATTGATTGA
1 GGAACATTGTTTCCTAA-ATTGAAAGTATGTGATTGATTGA
18018267 GAGCATGATA
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.03
43 63 0.95
44 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (42 bp):
GGAACATTGTTTCCTAAATTGAAAGTATGTGATTGATTGATT
Found at i:18018485 original size:27 final size:28
Alignment explanation
Indices: 18018455--18018510 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
18018445 TACTGACGGG
*
18018455 ATTGGCGATCTTTATCGCGTTATT-GTT
1 ATTGGCGATCTTTATCGCATTATTCGTT
*
18018482 ATTGGCGATCTTTATTGCATTATTCGTT
1 ATTGGCGATCTTTATCGCATTATTCGTT
18018510 A
1 A
18018511 ATCGGCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (28 bp):
ATTGGCGATCTTTATCGCATTATTCGTT
Found at i:18020434 original size:2 final size:2
Alignment explanation
Indices: 18020429--18020478 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
18020419 CACCACACAA
18020429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18020471 AT AT AT AT
1 AT AT AT AT
18020479 TTAAAAAAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18023225 original size:4 final size:4
Alignment explanation
Indices: 18023216--18023272 Score: 69
Period size: 4 Copynumber: 13.8 Consensus size: 4
18023206 AGAGTGCTAA
* * *
18023216 AAAT AAAT AAAT AAACA AAAT ATAT AAAT AAAT AAAT AAAT AATT AAAAT
1 AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT
18023266 AAAT AAA
1 AAAT AAA
18023273 ATAAGTATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
4 39 0.87
5 6 0.13
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:18023244 original size:21 final size:19
Alignment explanation
Indices: 18023217--18023273 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
18023207 GAGTGCTAAA
18023217 AATAAATAAATAAACAAAAT
1 AATAAATAAATAAA-AAAAT
*
18023237 ATATAAATAAATAAATAAAT
1 A-ATAAATAAATAAAAAAAT
18023257 AATTAAAATAAATAAAA
1 AA-T-AAATAAATAAAA
18023274 TAAGTATGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 7 0.22
21 24 0.75
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AATAAATAAATAAAAAAAT
Found at i:18023248 original size:29 final size:29
Alignment explanation
Indices: 18023216--18023272 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
18023206 AGAGTGCTAA
*
18023216 AAATAAATAAATAAACAAAATATATAAAT
1 AAATAAATAAATAAACAAAATAAATAAAT
**
18023245 AAATAAATAAATAATTAAAATAAATAAA
1 AAATAAATAAATAAACAAAATAAATAAA
18023273 ATAAGTATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (29 bp):
AAATAAATAAATAAACAAAATAAATAAAT
Found at i:18025164 original size:50 final size:50
Alignment explanation
Indices: 18024900--18025706 Score: 385
Period size: 50 Copynumber: 16.1 Consensus size: 50
18024890 CAAGAAGACG
* * * * *
18024900 AGATTTGACATCT-TAGCTTTATCTTGCTCCACTGCATCTTTAGGGAGATG
1 AGATTTGATAT-TGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* * * * ** * *
18024950 AGTTTTGCTACTGTAACTTCAATCGGA-TCCACTGCAACTTCAGGGATATA
1 AGATTTGATATTGTAGCTTC-ATCTTACTCCACTGCATCTTCAGGGAGATA
* * * * * *
18025000 AGATTTGATGTTGTAGCTTTATCTTGCTCTACTGTATCTTCAAGGAGATA
1 AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* * * * * * * * * * * *
18025050 GGATTTGCTACTATAACTTCA-CTCCATTCCATTGCAACTTCATGGATATG
1 AGATTTGATATTGTAGCTTCATCT-TACTCCACTGCATCTTCAGGGAGATA
* * * * *
18025100 TGAGTCGA-AGTTGTAGCTTCATCTTACTCCATTGCATCTTCAAGGAGATA
1 AGATTTGATA-TTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* * * * * * *
18025150 ATATTTGTTATTGTAGTTTCAATCTGA-TCCACTGTAACTTCAGGGATATA
1 AGATTTGATATTGTAGCTTC-ATCTTACTCCACTGCATCTTCAGGGAGATA
* * * *
18025200 AGATTTAATGTTGTAGCTTTATCTTGCTCCACTGCATCTTCAGGGAGATA
1 AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* * ** * *
18025250 AGATATGATACTGTAATTTCAATCTGA-TCCACTGC-TACTTCAGGGATATA
1 AGATTTGATATTGTAGCTTC-ATCTTACTCCACTGCAT-CTTCAGGGAGATA
* * * *
18025300 GGATTTGATGTTGTAGCTTCATCTTACTCCACTGCATCTCCAAGGAGATA
1 AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* * * * * ** * * * **
18025350 ATATTTGCTATTATGGTTTCAATCCGA-TCTATTGCATCTTCAAGGATTTA
1 AGATTTGATATTGTAGCTTC-ATCTTACTCCACTGCATCTTCAGGGAGATA
* * * * * * *
18025400 ATATTTGATGTAGTAGCTTTATATTGCTCTACTGCATCTTCAGGGAGATA
1 AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
** * * ** * * *
18025450 AGATTTGCCACTATAGCTTCAATCCGA-TCCACTACATCTTTAGGGATATA
1 AGATTTGATATTGTAGCTTC-ATCTTACTCCACTGCATCTTCAGGGAGATA
* ** * *
18025500 GGATTTGACGTTGTAACTTCATCTTACTCCACTGTATCTTCAGGGAGATA
1 AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* * * ** * * *
18025550 AGATTTGCTATTCTAGCTTCA-CTTTATTCCACTATAGCTTTAGGGAGATG
1 AGATTTGATATTGTAGCTTCATC-TTACTCCACTGCATCTTCAGGGAGATA
* ** * * * * * * * * *
18025600 AGATTTGCTATCATAGTTTTAATATGA-TCCACTGCAGCTTTAGGAATATG
1 AGATTTGATATTGTAG-CTTCATCTTACTCCACTGCATCTTCAGGGAGATA
* ** * * * *
18025650 GGATTTGACGTTGTAACTTCATCTTGCTCCACTACATCTTTAGGGAGATA
1 AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
18025700 AGATTTG
1 AGATTTG
18025707 CTACTATAGC
Statistics
Matches: 540, Mismatches: 196, Indels: 42
0.69 0.25 0.05
Matches are distributed among these distances:
49 29 0.05
50 484 0.90
51 27 0.05
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (50 bp):
AGATTTGATATTGTAGCTTCATCTTACTCCACTGCATCTTCAGGGAGATA
Found at i:18025225 original size:200 final size:199
Alignment explanation
Indices: 18024913--18025570 Score: 780
Period size: 200 Copynumber: 3.3 Consensus size: 199
18024903 TTTGACATCT
* * * * * * * *
18024913 TAGCTTTATCTTGCTCCACTGCATCTTTAGGGAGATGAGT-TTTGCTACTGTAACTTCAATCGGA
1 TAGCTTCATCTTACTCCACTGCATCTTCAAGGAGAT-AATATTTGCTATTGTAGCTTCAATCCGA
*
18024977 TCCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTTATCTTGCTCTACTGTATCTTCA
65 TCCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTTATCTTGCTCTACTGCATCTTCA
* * * * * * *
18025042 AGGAGATAGGATTTGCTACTATAACTTCACTCCATTCCATTGCAACTTCATGGATAT-GTGAGTC
130 GGGAGATAAGATTTGCTACTATAACTTCAATCCA-TCCACTGCAACTTCAGGGATATAG-GATTT
18025106 GAAGTTG
193 GAAGTTG
* * * *
18025113 TAGCTTCATCTTACTCCATTGCATCTTCAAGGAGATAATATTTGTTATTGTAGTTTCAATCTGAT
1 TAGCTTCATCTTACTCCACTGCATCTTCAAGGAGATAATATTTGCTATTGTAGCTTCAATCCGAT
* * *
18025178 CCACTGTAACTTCAGGGATATAAGATTTAATGTTGTAGCTTTATCTTGCTCCACTGCATCTTCAG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTTATCTTGCTCTACTGCATCTTCAG
* * * * * *
18025243 GGAGATAAGATATGATACTGTAATTTCAATCTGATCCACTGCTACTTCAGGGATATAGGATTTGA
131 GGAGATAAGATTTGCTACTATAACTTCAATC-CATCCACTGCAACTTCAGGGATATAGGATTTGA
*
18025308 TGTTG
195 AGTTG
* * * *
18025313 TAGCTTCATCTTACTCCACTGCATCTCCAAGGAGATAATATTTGCTATTATGGTTTCAATCCGAT
1 TAGCTTCATCTTACTCCACTGCATCTTCAAGGAGATAATATTTGCTATTGTAGCTTCAATCCGAT
* * * * * * * *
18025378 CTATTGCATCTTCAAGGATTTAATATTTGATGTAGTAGCTTTATATTGCTCTACTGCATCTTCAG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTTATCTTGCTCTACTGCATCTTCAG
* * * * *
18025443 GGAGATAAGATTTGCCACTATAGCTTCAATCCGATCCACTACATCTTTAGGGATATAGGATTTGA
131 GGAGATAAGATTTGCTACTATAACTTCAATCC-ATCCACTGCAACTTCAGGGATATAGGATTTGA
*
18025508 CGTTG
195 AGTTG
* * * * *
18025513 TAACTTCATCTTACTCCACTGTATCTTCAGGGAGATAAGATTTGCTATTCTAGCTTCA
1 TAGCTTCATCTTACTCCACTGCATCTTCAAGGAGATAATATTTGCTATTGTAGCTTCA
18025571 CTTTATTCCA
Statistics
Matches: 388, Mismatches: 66, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
199 2 0.01
200 384 0.99
201 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (199 bp):
TAGCTTCATCTTACTCCACTGCATCTTCAAGGAGATAATATTTGCTATTGTAGCTTCAATCCGAT
CCACTGCAACTTCAGGGATATAAGATTTGATGTTGTAGCTTTATCTTGCTCTACTGCATCTTCAG
GGAGATAAGATTTGCTACTATAACTTCAATCCATCCACTGCAACTTCAGGGATATAGGATTTGAA
GTTG
Found at i:18025567 original size:100 final size:100
Alignment explanation
Indices: 18024913--18025570 Score: 679
Period size: 100 Copynumber: 6.6 Consensus size: 100
18024903 TTTGACATCT
* * * * * * *
18024913 TAGCTTTATCTTGCTCCACTGCATCTTTAGGGAGATGAGTTTTGCTACTGTAACTTCAATCGGAT
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGAT
18024978 CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
* * * * * * *
18025013 TAGCTTTATCTTGCTCTACTGTATCTTCAAGGAGATAGGATTTGCTACTATAACTTCACTCC-AT
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGA-
* * ** * * *
18025077 TCCATTGCAACTTCATGGATATGTGAGTCGAAGTTG
65 TCCACTGCAACTTCAGGGATATAAGATTTGATGTTG
* * * * * * * * *
18025113 TAGCTTCATCTTACTCCATTGCATCTTCAAGGAGATAATATTTGTTATTGTAGTTTCAATCTGAT
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGAT
* *
18025178 CCACTGTAACTTCAGGGATATAAGATTTAATGTTG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
* * * * ** *
18025213 TAGCTTTATCTTGCTCCACTGCATCTTCAGGGAGATAAGATATGATACTGTAATTTCAATCTGAT
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGAT
* *
18025278 CCACTGCTACTTCAGGGATATAGGATTTGATGTTG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
* * * * * * *
18025313 TAGCTTCATCTTACTCCACTGCATCTCCAAGGAGATAATATTTGCTATTATGGTTTCAATCCGAT
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGAT
* * * * * * *
18025378 CTATTGCATCTTCAAGGATTTAATATTTGATGTAG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
* * * *
18025413 TAGCTTTATATTGCTCTACTGCATCTTCAGGGAGATAAGATTTGCCACTATAGCTTCAATCCGAT
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGAT
* * * * *
18025478 CCACTACATCTTTAGGGATATAGGATTTGACGTTG
66 CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
* * * * *
18025513 TAACTTCATCTTACTCCACTGTATCTTCAGGGAGATAAGATTTGCTATTCTAGCTTCA
1 TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCA
18025571 CTTTATTCCA
Statistics
Matches: 452, Mismatches: 104, Indels: 4
0.81 0.19 0.01
Matches are distributed among these distances:
99 1 0.00
100 450 1.00
101 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (100 bp):
TAGCTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTATAGCTTCAATCCGAT
CCACTGCAACTTCAGGGATATAAGATTTGATGTTG
Found at i:18025745 original size:150 final size:150
Alignment explanation
Indices: 18025430--18025745 Score: 400
Period size: 150 Copynumber: 2.1 Consensus size: 150
18025420 ATATTGCTCT
* * * *
18025430 ACTGCATCTTCAGGGAGATAAGATTTGCCACTATAGCTTCAATCCGATCCACTACATCTTTAGGG
1 ACTGCAACTTCAGGGAGATAAGATTTGCCACTATAGCTTCAATACGATCCACTACAGCTTTAGGA
**
18025495 ATATAGGATTTGACGTTGTAACTTCATCTTACTCCACTGTATCTTCAGGGAGATAAGATTTGCTA
66 ATATAGGATTTGACGTTGTAACTTCATCTTACTCCACTACATCTTCAGGGAGATAAGATTTGCTA
* * **
18025560 TTCTAGCTTCACTTTATTCC
131 CTATAGCTTCACTCCATTCC
** * * * * * * * *
18025580 ACTATAGCTTTAGGGAGATGAGATTTGCTA-TCATAGTTTTAATATGATCCACTGCAGCTTTAGG
1 ACTGCAACTTCAGGGAGATAAGATTTGCCACT-ATAGCTTCAATACGATCCACTACAGCTTTAGG
* * *
18025644 AATATGGGATTTGACGTTGTAACTTCATCTTGCTCCACTACATCTTTAGGGAGATAAGATTTGCT
65 AATATAGGATTTGACGTTGTAACTTCATCTTACTCCACTACATCTTCAGGGAGATAAGATTTGCT
*
18025709 ACTATAGCTTCGCTCCATTCC
130 ACTATAGCTTCACTCCATTCC
18025730 ACTGCAACTTCAGGGA
1 ACTGCAACTTCAGGGA
18025746 TAGGAGTTGA
Statistics
Matches: 138, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
149 1 0.01
150 137 0.99
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (150 bp):
ACTGCAACTTCAGGGAGATAAGATTTGCCACTATAGCTTCAATACGATCCACTACAGCTTTAGGA
ATATAGGATTTGACGTTGTAACTTCATCTTACTCCACTACATCTTCAGGGAGATAAGATTTGCTA
CTATAGCTTCACTCCATTCC
Found at i:18027814 original size:45 final size:44
Alignment explanation
Indices: 18027716--18027820 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
18027706 TCATACACGC
18027716 GAATTCATAGAAGAAATTCACAAATATGGTAGGCTCAAACATGT
1 GAATTCATAGAAGAAATTCACAAATATGGTAGGCTCAAACATGT
* * * * * *
18027760 -AGATACATAGAAGATAATTCATAGATTTGGT-GGACTCATACTTGT
1 GA-ATTCATAGAAGA-AATTCACAAATATGGTAGG-CTCAAACATGT
18027805 GAATTCATAGAAGAAA
1 GAATTCATAGAAGAAA
18027821 CTTGATGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.02
44 15 0.30
45 33 0.66
46 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (44 bp):
GAATTCATAGAAGAAATTCACAAATATGGTAGGCTCAAACATGT
Found at i:18033270 original size:10 final size:10
Alignment explanation
Indices: 18033255--18033290 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
18033245 CTCTCTCAAC
18033255 AAAAATTTTA
1 AAAAATTTTA
18033265 AAAAATTTTA
1 AAAAATTTTA
*
18033275 AAATATTTATA
1 AAAAATTT-TA
18033286 AAAAA
1 AAAAA
18033291 ATTCAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:18033302 original size:19 final size:19
Alignment explanation
Indices: 18033256--18033304 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
18033246 TCTCTCAACA
**
18033256 AAAATTTTA-AAAAATTTT
1 AAAATTTTATAAAAAAATT
18033274 AAAATATTTATAAAAAAATT
1 AAAAT-TTTATAAAAAAATT
*
18033294 CAAATTTTATA
1 AAAATTTTATA
18033305 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTTATAAAAAAATT
Found at i:18033368 original size:54 final size:54
Alignment explanation
Indices: 18033256--18033374 Score: 123
Period size: 54 Copynumber: 2.2 Consensus size: 54
18033246 TCTCTCAACA
* * * * * ** *
18033256 AAAATTTTAAAAAATTTTAAAATATTTATAAAAAAATTCAAATTTTATATTTTTT
1 AAAATTAT-AAAAATTCTAAAATATATATAAAAAAATTAAAATTTTAAAAGTTCT
*
18033311 AAAATTATAAAAATTCTAAAATATATAT-AAAAAGTTAAAATTTTTAAAAGTTCT
1 AAAATTATAAAAATTCTAAAATATATATAAAAAAATTAAAA-TTTTAAAAGTTCT
*
18033365 AAAATAATAA
1 AAAATTATAA
18033375 TTTTGAGAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
53 10 0.19
54 36 0.68
55 7 0.13
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (54 bp):
AAAATTATAAAAATTCTAAAATATATATAAAAAAATTAAAATTTTAAAAGTTCT
Found at i:18040886 original size:39 final size:39
Alignment explanation
Indices: 18040832--18040911 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
18040822 AAACTCAGGT
18040832 CATATCTGAAGTAATGAACACCTTTAACCATCAGACCAA
1 CATATCTGAAGTAATGAACACCTTTAACCATCAGACCAA
18040871 CATATCTGAAGTAATGAACACCTTTAACCATCAGACCAA
1 CATATCTGAAGTAATGAACACCTTTAACCATCAGACCAA
18040910 CA
1 CA
18040912 CACACGGTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (39 bp):
CATATCTGAAGTAATGAACACCTTTAACCATCAGACCAA
Found at i:18052761 original size:21 final size:21
Alignment explanation
Indices: 18052734--18052787 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
18052724 GAAGTTTTTA
18052734 GTATCGGTAGAAGCATA-ACTT
1 GTATCGGTAGAAG-ATACACTT
* *
18052755 GTTTCGGTAGAAGTTACACTT
1 GTATCGGTAGAAGATACACTT
18052776 GTATCGGTAGAA
1 GTATCGGTAGAA
18052788 CCATCACAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGATACACTT
Found at i:18056778 original size:12 final size:13
Alignment explanation
Indices: 18056752--18056784 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18056742 GATATGCATG
18056752 AAAACTAAAACTA
1 AAAACTAAAACTA
*
18056765 AAAACTGAAA-TA
1 AAAACTAAAACTA
18056777 AAAACTAA
1 AAAACTAA
18056785 CTCAATTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.70, C:0.12, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAACTAAAACTA
Found at i:18064049 original size:193 final size:193
Alignment explanation
Indices: 18063709--18064087 Score: 582
Period size: 193 Copynumber: 2.0 Consensus size: 193
18063699 TCAGAGCGAA
* * *
18063709 TATAGCATCTAATTCAATAACTTTGAGATTTGCTTTGATTTGTGCAGCTCTAGAGATCAGATATT
1 TATAGCATCTAATTCAATAACTTAGAGATTTGCTTTAACTTGTGCAGCTCTAGAGATCAGATATT
* * *
18063774 GGTAATCATTCTGAGAAATTCGCTCTAGAATTCTGACAGCTTCCTCATATGTACAGTCCAACAAA
66 GGTAATCATTCTGAGAAATTCACTCTAGAATTCTAACAACTTCCTCATATGTACAGTCCAACAAA
* * *
18063839 GGACCATTAGTAGATGCGTCGACAAGATTT-TTCGTTTGTGCATTCAGCCCGTTATAGAAGATT
131 AGACCATTAGCAGATGCGTCGACAAGATTTCTT-GTCTGTGCATTCAGCCCGTTATAGAAGATT
* * * *
18063902 TATATCATGTAATTCAATAACTCTAGA-ATTTTCTTTAACTTGTGCAGCTCTAGAGATCGGATAT
1 TATAGCATCTAATTCAATAACT-TAGAGATTTGCTTTAACTTGTGCAGCTCTAGAGATCAGATAT
*
18063966 TGGTAATCATTCTGAGAAATTCACTCTAGAATTCTAACAACTTCCTCGTATGTACAGTCCAACAA
65 TGGTAATCATTCTGAGAAATTCACTCTAGAATTCTAACAACTTCCTCATATGTACAGTCCAACAA
* *
18064031 AAGACCATTAGCAGATGCGTCGACAAGATTTCTTGTCTGTGCATTTAGCTCGTTATA
130 AAGACCATTAGCAGATGCGTCGACAAGATTTCTTGTCTGTGCATTCAGCCCGTTATA
18064088 AAATATTTCA
Statistics
Matches: 168, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
193 163 0.97
194 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (193 bp):
TATAGCATCTAATTCAATAACTTAGAGATTTGCTTTAACTTGTGCAGCTCTAGAGATCAGATATT
GGTAATCATTCTGAGAAATTCACTCTAGAATTCTAACAACTTCCTCATATGTACAGTCCAACAAA
AGACCATTAGCAGATGCGTCGACAAGATTTCTTGTCTGTGCATTCAGCCCGTTATAGAAGATT
Found at i:18077251 original size:15 final size:15
Alignment explanation
Indices: 18077216--18077244 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18077206 TTTACATTTT
18077216 CTTTTATTTGTTTCA
1 CTTTTATTTGTTTCA
18077231 CTTTTATTTGTTTC
1 CTTTTATTTGTTTC
18077245 GTGTTTAAAT
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:0.10, C:0.14, G:0.07, T:0.69
Consensus pattern (15 bp):
CTTTTATTTGTTTCA
Found at i:18079624 original size:19 final size:17
Alignment explanation
Indices: 18079582--18079624 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
18079572 ATAGTTTGCA
*
18079582 TGCATTTTTATTGTCGT
1 TGCATTTTTATTGTCAT
*
18079599 TGTATTTTTATTTTGTCAT
1 TGCATTTTTA--TTGTCAT
18079618 TGCATTT
1 TGCATTT
18079625 CTTTAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.43
19 12 0.57
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (17 bp):
TGCATTTTTATTGTCAT
Found at i:18080248 original size:24 final size:26
Alignment explanation
Indices: 18080214--18080268 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
18080204 TCAATCACTT
*
18080214 GAAAAAGGAAAATG-AGAAAAAG-AAA
1 GAAAAAGGAAAA-GAAAAAAAAGAAAA
18080239 GAAAAA-GAAAAGAAAAAAAAGAAAA
1 GAAAAAGGAAAAGAAAAAAAAGAAAA
18080264 GAAAA
1 GAAAA
18080269 GAAGAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 1 0.04
24 12 0.44
25 14 0.52
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (26 bp):
GAAAAAGGAAAAGAAAAAAAAGAAAA
Found at i:18080251 original size:5 final size:5
Alignment explanation
Indices: 18080231--18080279 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
18080221 GAAAATGAGA
18080231 AAAAG -AAAG AAAAAG AAAAG AAAA- AAAAG AAAAG AAAAG AAGAAG AAAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAA
18080280 TGTTTGCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.20
5 23 0.57
6 9 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:18080269 original size:24 final size:25
Alignment explanation
Indices: 18080230--18080279 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
18080220 GGAAAATGAG
18080230 AAAAAGAAAGAAAAAGAA-AAGAAA
1 AAAAAGAAAGAAAAAGAAGAAGAAA
18080254 AAAAAGAAA-AGAAAAGAAGAAGAAA
1 AAAAAGAAAGA-AAAAGAAGAAGAAA
18080279 A
1 A
18080280 TGTTTGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAGAAAAAGAAGAAGAAA
Found at i:18082989 original size:16 final size:16
Alignment explanation
Indices: 18082968--18082999 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18082958 GTTATTTTTA
*
18082968 AAAAAATTGAAAAAAT
1 AAAAAATAGAAAAAAT
18082984 AAAAAATAGAAAAAAT
1 AAAAAATAGAAAAAAT
18083000 TTTAGTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAAATAGAAAAAAT
Found at i:18083047 original size:12 final size:12
Alignment explanation
Indices: 18083032--18083075 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
18083022 TTTTAGTTTC
18083032 ATTTTCATTTTT
1 ATTTTCATTTTT
18083044 ATTTTCATTTTTT
1 ATTTTCA-TTTTT
*
18083057 ATTTTTTTATTTTT
1 A--TTTTCATTTTT
18083071 ATTTT
1 ATTTT
18083076 ATGGATGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 11 0.39
13 6 0.21
14 6 0.21
15 5 0.18
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTTTCATTTTT
Found at i:18083061 original size:18 final size:17
Alignment explanation
Indices: 18083022--18083077 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
18083012 AATTTTATTT
* *
18083022 TTTTAGTTTCATTTTCA
1 TTTTATTTTCATTTTTA
18083039 TTTTTATTTTCATTTTT-
1 -TTTTATTTTCATTTTTA
18083056 TATTT-TTTT-ATTTTTA
1 T-TTTATTTTCATTTTTA
18083072 TTTTAT
1 TTTTAT
18083078 GGATGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 9 0.27
16 7 0.21
17 3 0.09
18 14 0.42
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTATTTTCATTTTTA
Found at i:18083075 original size:19 final size:19
Alignment explanation
Indices: 18083013--18083077 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
18083003 AGTACATTTA
* *
18083013 ATTTTATTTTTTTAGTTTC
1 ATTTTATTTTTTTATTTTT
18083032 ATTTTCA--TTTTTATTTTCAT
1 ATTTT-ATTTTTTTATTTT--T
*
18083052 TTTTTATTTTTTTATTTTT
1 ATTTTATTTTTTTATTTTT
18083071 ATTTTAT
1 ATTTTAT
18083078 GGATGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
18 9 0.24
19 13 0.35
20 5 0.14
21 10 0.27
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTT
Found at i:18084861 original size:29 final size:29
Alignment explanation
Indices: 18084828--18084906 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
18084818 ACACAGGCTG
* *
18084828 GGCACACGGCCGTGTGAGCCACGCGGTTT
1 GGCACACGGCCGTGTGAGCCACACGGGTT
* *
18084857 GGCACACAGCTGTGTGAGCCACACGGGTT
1 GGCACACGGCCGTGTGAGCCACACGGGTT
*
18084886 GACACACGGCCGTGTGAGCCA
1 GGCACACGGCCGTGTGAGCCA
18084907 TACGAGCTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.19, C:0.30, G:0.35, T:0.15
Consensus pattern (29 bp):
GGCACACGGCCGTGTGAGCCACACGGGTT
Found at i:18084920 original size:29 final size:28
Alignment explanation
Indices: 18084815--18084922 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 28
18084805 CTACACACAT
*
18084815 GCCACACAGGCTGGGCACACGGCCGTGTGA
1 GCCACAC-GGCT-AGCACACGGCCGTGTGA
* * * * *
18084845 GCCACGCGGTTTGGCACACAGCTGTGTGA
1 GCCACACGG-CTAGCACACGGCCGTGTGA
* *
18084874 GCCACACGGGTTGACACACGGCCGTGTGA
1 GCCACACGGCTAG-CACACGGCCGTGTGA
*
18084903 GCCATACGAGCTAGCACACG
1 GCCACACG-GCTAGCACACG
18084923 ACCATGTGCT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
28 2 0.03
29 51 0.81
30 10 0.16
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.14
Consensus pattern (28 bp):
GCCACACGGCTAGCACACGGCCGTGTGA
Found at i:18086285 original size:20 final size:18
Alignment explanation
Indices: 18086268--18086302 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18086258 AGCTTTTATC
18086268 ACACTCACAATACTTTTA
1 ACACTCACAATACTTTTA
* *
18086286 ACCCTCACAATGCTTTT
1 ACACTCACAATACTTTT
18086303 GTTCTGACAA
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:0.31, C:0.31, G:0.03, T:0.34
Consensus pattern (18 bp):
ACACTCACAATACTTTTA
Found at i:18094020 original size:12 final size:11
Alignment explanation
Indices: 18093989--18094027 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18093979 TCTCCTCATG
18093989 GCCACGTCAGC
1 GCCACGTCAGC
18094000 GCCACGTCAGC
1 GCCACGTCAGC
*
18094011 TGCCATGTCAGC
1 -GCCACGTCAGC
*
18094023 CCCAC
1 GCCAC
18094028 AACCCGAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (11 bp):
GCCACGTCAGC
Found at i:18094288 original size:23 final size:23
Alignment explanation
Indices: 18094245--18094288 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18094235 TTACAGAAAA
* *
18094245 ATATACAAAGAAAAGAGGCAAAT
1 ATATACAAAGAAAAAAAGCAAAT
18094268 ATATACAGAA-AAAAAAAGCAA
1 ATATACA-AAGAAAAAAAGCAA
18094289 TACAATCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.66, C:0.09, G:0.14, T:0.11
Consensus pattern (23 bp):
ATATACAAAGAAAAAAAGCAAAT
Found at i:18097645 original size:34 final size:34
Alignment explanation
Indices: 18097607--18097676 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18097597 GAGCTAGGCT
18097607 CACTTTTGCGGTTTATCCGCTAGGCACTAGGTGC
1 CACTTTTGCGGTTTATCCGCTAGGCACTAGGTGC
18097641 CACTTTTGCGGTTTATCCGCTAGGCACTAGGTGC
1 CACTTTTGCGGTTTATCCGCTAGGCACTAGGTGC
18097675 CA
1 CA
18097677 AGAATTGACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.16, C:0.27, G:0.26, T:0.31
Consensus pattern (34 bp):
CACTTTTGCGGTTTATCCGCTAGGCACTAGGTGC
Found at i:18097928 original size:80 final size:80
Alignment explanation
Indices: 18097795--18097982 Score: 304
Period size: 80 Copynumber: 2.4 Consensus size: 80
18097785 GCACAAAACC
* * * *
18097795 GTTGGTTAATCTAACTAGAGTTGGGCTCACTTATTGCGTTTTATCCGCTAGGCACTGGGTGCTAG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCCAG
*
18097860 GAATTGACGGGCTTT
66 GAATTGACGGACTTT
* *
18097875 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATTCGCTAGGCATTGGGTGCCAG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCCAG
18097940 GAATTGACGGACTTT
66 GAATTGACGGACTTT
*
18097955 GTTGGTTAATCCAGCTAGAGCTGGGCTC
1 GTTGGTTAATCCAACTAGAGCTGGGCTC
18097983 CGCTAGGCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 100 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (80 bp):
GTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGCGGTTTATCCGCTAGGCACTGGGTGCCAG
GAATTGACGGACTTT
Found at i:18100043 original size:18 final size:17
Alignment explanation
Indices: 18100013--18100046 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18100003 TTTCATTTGC
*
18100013 TTATTTTATTTTATATA
1 TTATTTTAATTTATATA
18100030 TTATATTTAATTTATAT
1 TTAT-TTTAATTTATAT
18100047 TAGACCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTAATTTATATA
Found at i:18105699 original size:31 final size:32
Alignment explanation
Indices: 18105631--18105704 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
18105621 TTTAAAAAAA
*
18105631 TCAATTTTTAAAGATTTAAAGATTTTATTTAT
1 TCAATTTTTAAAGATCTAAAGATTTTATTTAT
*
18105663 T-AATTTTTAAGGAGTCTAAATG-TTTT-TTT-T
1 TCAATTTTTAAAGA-TCTAAA-GATTTTATTTAT
18105693 TCAATTTTTAAA
1 TCAATTTTTAAA
18105705 AAAATCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
30 2 0.06
31 23 0.64
32 10 0.28
33 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (32 bp):
TCAATTTTTAAAGATCTAAAGATTTTATTTAT
Found at i:18106948 original size:23 final size:23
Alignment explanation
Indices: 18106921--18106972 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
18106911 TTATATATAT
18106921 AATGAAACAATAAACAAGCTTTA
1 AATGAAACAATAAACAAGCTTTA
*** *
18106944 AATGATTTATTAAACAAGCTTTA
1 AATGAAACAATAAACAAGCTTTA
*
18106967 AGTGAA
1 AATGAA
18106973 TATAAACGAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (23 bp):
AATGAAACAATAAACAAGCTTTA
Found at i:18107728 original size:22 final size:21
Alignment explanation
Indices: 18107703--18107745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18107693 GCTCAGTTGA
* *
18107703 TTAATGATTATGATTAATATTT
1 TTAATAATTATAATTAA-ATTT
18107725 TTAATAATTATAATTAAATTT
1 TTAATAATTATAATTAAATTT
18107746 AATCATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTAATAATTATAATTAAATTT
Found at i:18108493 original size:20 final size:20
Alignment explanation
Indices: 18108468--18108526 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
18108458 GTTTATACAT
18108468 ATTATTAAATTTTAATAAAA
1 ATTATTAAATTTTAATAAAA
**
18108488 ATTATTAAAAATTAGA-AAAA
1 ATTATTAAATTTTA-ATAAAA
* *
18108508 AATATAAAATTTT-ATAAAA
1 ATTATTAAATTTTAATAAAA
18108527 TTTTATAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.03
19 4 0.13
20 25 0.81
21 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTATTAAATTTTAATAAAA
Found at i:18108516 original size:10 final size:10
Alignment explanation
Indices: 18108484--18108620 Score: 65
Period size: 10 Copynumber: 14.3 Consensus size: 10
18108474 AAATTTTAAT
*
18108484 AAAAATTATT
1 AAAAATTATA
*
18108494 AAAAATTAGA
1 AAAAATTATA
*
18108504 AAAAAATATA
1 AAAAATTATA
**
18108514 AAATTTTATA
1 AAAAATTATA
**
18108524 AAATTTTAT-
1 AAAAATTATA
**
18108533 AAAAATCGTA
1 AAAAATTATA
18108543 AAAAATTATA
1 AAAAATTATA
*
18108553 AAATA-TAT-
1 AAAAATTATA
18108561 AAAAA-TAT-
1 AAAAATTATA
*
18108569 -AAAATTTTA
1 AAAAATTATA
* **
18108578 TAAAATCGTA
1 AAAAATTATA
18108588 AGAAAATTATA
1 A-AAAATTATA
*
18108599 TAAAA-TATA
1 AAAAATTATA
18108608 AAGAAA-TATA
1 AA-AAATTATA
18108618 AAA
1 AAA
18108621 TTCGTAACAA
Statistics
Matches: 98, Mismatches: 23, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
7 4 0.04
8 9 0.09
9 14 0.14
10 64 0.65
11 7 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:18108525 original size:39 final size:40
Alignment explanation
Indices: 18108474--18108566 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
18108464 ACATATTATT
*
18108474 AAATTTTAATAAAAATTATTA-AAAATTAG-AAAAAAATATA
1 AAATTTT-ATAAAAATT-TTATAAAAATAGTAAAAAAATATA
* *
18108514 AAATTTTAT-AAAATTTTATAAAAATCGTAAAAAATTATA
1 AAATTTTATAAAAATTTTATAAAAATAGTAAAAAAATATA
*
18108553 AAA-TATATAAAAAT
1 AAATTTTATAAAAAT
18108567 ATAAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
37 3 0.07
38 16 0.35
39 20 0.43
40 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (40 bp):
AAATTTTATAAAAATTTTATAAAAATAGTAAAAAAATATA
Found at i:18108594 original size:56 final size:56
Alignment explanation
Indices: 18108505--18108620 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 56
18108495 AAAATTAGAA
** * *
18108505 AAAAATATAAAATTTTATAAAATTTTATAAAAATCGTAAAAAATTATAAA-ATATAT
1 AAAAATATAAAATTTTATAAAATCGTATAAAAATCATAAAAAA-TATAAAGAAATAT
* *
18108561 AAAAATATAAAATTTTATAAAATCGTA-AGAAAATTATATAAAATATAAAGAAATAT
1 AAAAATATAAAATTTTATAAAATCGTATA-AAAATCATAAAAAATATAAAGAAATAT
18108617 AAAA
1 AAAA
18108621 TTCGTAACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
55 7 0.13
56 45 0.87
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (56 bp):
AAAAATATAAAATTTTATAAAATCGTATAAAAATCATAAAAAATATAAAGAAATAT
Found at i:18108599 original size:39 final size:41
Alignment explanation
Indices: 18108552--18108645 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 41
18108542 AAAAAATTAT
** *
18108552 AAAA-TATATAAAAATATAAA-ATTTTATAAAA-TCGTAA-G
1 AAAATTATATAAAAATATAAAGA-AATATAAAATTCGTAACA
18108590 AAAATTATAT-AAAATATAAAGAAATATAAAATTCGTAACA
1 AAAATTATATAAAAATATAAAGAAATATAAAATTCGTAACA
*
18108630 AAAATTTTATAAAAAT
1 AAAATTATATAAAAAT
18108646 TATCGTACCA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 21 0.45
39 12 0.26
40 9 0.19
41 5 0.11
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (41 bp):
AAAATTATATAAAAATATAAAGAAATATAAAATTCGTAACA
Found at i:18108620 original size:48 final size:46
Alignment explanation
Indices: 18108474--18108622 Score: 158
Period size: 46 Copynumber: 3.1 Consensus size: 46
18108464 ACATATTATT
** * * * *
18108474 AAATTTTAATAAAAATTATTAAAAATTAGAAAAAAATATAAAATTTTATA
1 AAATTTT-ATAAAAATCGTAAAAAATTA-TAAAATATATAAAA--ATATA
18108524 AAATTTTATAAAAATCGTAAAAAATTATAAAATATATAAAAATATA
1 AAATTTTATAAAAATCGTAAAAAATTATAAAATATATAAAAATATA
18108570 AAATTTTAT-AAAATCGTAAGAAAATTATATAAA-ATATAAAGAAATATA
1 AAATTTTATAAAAATCGTAA-AAAATTATA-AAATATAT-AA-AAATATA
18108618 AAATT
1 AAATT
18108623 CGTAACAAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
45 10 0.11
46 26 0.29
47 5 0.06
48 24 0.27
49 17 0.19
50 7 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (46 bp):
AAATTTTATAAAAATCGTAAAAAATTATAAAATATATAAAAATATA
Found at i:18108684 original size:11 final size:11
Alignment explanation
Indices: 18108668--18108700 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18108658 AGAAGCATTT
*
18108668 TATAATTTTTC
1 TATAATTTTTA
18108679 TATAATTTTTA
1 TATAATTTTTA
18108690 T-TAATTTTTA
1 TATAATTTTTA
18108700 T
1 T
18108701 GTTTTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:18108715 original size:9 final size:9
Alignment explanation
Indices: 18108665--18108716 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
18108655 AAAAGAAGCA
18108665 TTTTATAATT
1 TTTTATAA-T
18108675 TTTCTATAAT
1 TTT-TATAAT
18108685 TTTTATTAAT
1 TTTTA-TAAT
**
18108695 TTTTATGTT
1 TTTTATAAT
*
18108704 TTTTATCAT
1 TTTTATAAT
18108713 TTTT
1 TTTT
18108717 CAACATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.42
10 16 0.44
11 5 0.14
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18109128 original size:91 final size:83
Alignment explanation
Indices: 18109006--18109221 Score: 236
Period size: 91 Copynumber: 2.5 Consensus size: 83
18108996 TAATAAGAGC
* * * * *
18109006 AAGGACTTAATTGC-TTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGT
1 AAGGGCTTAATT-CTTTTTTTTAAAAAGTTTGAGGGTATTTTTGATGCATTTTAAAAGTTCAAGT
18109070 ACCCAATTGAGTGGACAAAAAA
65 ACCCAATTGAGT-G-C-AAAAA
* *
18109092 AGCAGGGGCTTAATTACTTTTTTTTAAAGAAGTTTGAGGGTTTTTTTTATGCATTTTAAAAGTTC
1 A--A-GGGCTTAATT-CTTTTTTTTAAA-AAGTTTGAGGGTATTTTTGATGCATTTTAAAAGTTC
* **
18109157 AAGTGCTTAATTGAGTGCAAAAA
61 AAGTACCCAATTGAGTGCAAAAA
*
18109180 AAGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAGGGTATTTT
1 AAGGGCTTAATTCTTTTTTTT-AAAAAGTTTGAGGGTATTTT
18109222 ACACCCTTAA
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
84 24 0.21
85 13 0.12
86 2 0.02
88 7 0.06
89 11 0.10
90 10 0.09
91 45 0.40
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (83 bp):
AAGGGCTTAATTCTTTTTTTTAAAAAGTTTGAGGGTATTTTTGATGCATTTTAAAAGTTCAAGTA
CCCAATTGAGTGCAAAAA
Found at i:18121474 original size:20 final size:20
Alignment explanation
Indices: 18121437--18121474 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18121427 TTTTATCAAG
*
18121437 ATATATTTATTGTCTATTGA
1 ATATATTTATTCTCTATTGA
*
18121457 ATATATTTATTCTTTATT
1 ATATATTTATTCTCTATT
18121475 TTCATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
ATATATTTATTCTCTATTGA
Found at i:18122740 original size:20 final size:19
Alignment explanation
Indices: 18122712--18122750 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
18122702 CTTTACAACT
*
18122712 ATTGCAAATGAGAAACGATG
1 ATTGAAAATGAGAAA-GATG
*
18122732 ATTGAAAATGTGAAAGATG
1 ATTGAAAATGAGAAAGATG
18122751 GGAACAACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.23
Consensus pattern (19 bp):
ATTGAAAATGAGAAAGATG
Found at i:18124251 original size:22 final size:22
Alignment explanation
Indices: 18124217--18124259 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
18124207 CAACAAATGA
18124217 TTTTAAAATTATTAAAATTATTT
1 TTTTAAAATTATT-AAATTATTT
*
18124240 TTTTGAAA-TATTAAATTATT
1 TTTTAAAATTATTAAATTATT
18124260 AAAATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAAATTATTAAATTATTT
Found at i:18127779 original size:15 final size:15
Alignment explanation
Indices: 18127755--18127790 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18127745 GCTTCATCAA
* *
18127755 CAAGAGGATCTGGTT
1 CAAGAAGATCTAGTT
18127770 CAAGAAGATCTAGTT
1 CAAGAAGATCTAGTT
18127785 CAAGAA
1 CAAGAA
18127791 CTAGATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (15 bp):
CAAGAAGATCTAGTT
Found at i:18134439 original size:34 final size:34
Alignment explanation
Indices: 18134396--18134463 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
18134386 TAGGATTGTA
18134396 ATTATGGTTCCTAGATTGAGTCAGAGTATCAAAG
1 ATTATGGTTCCTAGATTGAGTCAGAGTATCAAAG
18134430 ATTATGGTTCCTAGATTGAGTCAGAGTATCAAAG
1 ATTATGGTTCCTAGATTGAGTCAGAGTATCAAAG
18134464 GTAGCATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (34 bp):
ATTATGGTTCCTAGATTGAGTCAGAGTATCAAAG
Found at i:18152121 original size:14 final size:15
Alignment explanation
Indices: 18152091--18152124 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18152081 AAAGTTACAT
*
18152091 TATGTCATTAGTTTA
1 TATGTCATTAATTTA
18152106 TATGTCA-TAATTTA
1 TATGTCATTAATTTA
18152120 TATGT
1 TATGT
18152125 TAAATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TATGTCATTAATTTA
Found at i:18152391 original size:15 final size:15
Alignment explanation
Indices: 18152371--18152401 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18152361 CCTTAGTTAA
18152371 TCCTTCTACTTGACC
1 TCCTTCTACTTGACC
18152386 TCCTTCTACTTGACC
1 TCCTTCTACTTGACC
18152401 T
1 T
18152402 AAGGCCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.39, G:0.06, T:0.42
Consensus pattern (15 bp):
TCCTTCTACTTGACC
Found at i:18157338 original size:12 final size:12
Alignment explanation
Indices: 18157311--18157350 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
18157301 AAAGAGGAAA
18157311 AAGAAAGAAAGA-
1 AAGAAAGAAA-AT
18157323 AAGAAAGAAAAT
1 AAGAAAGAAAAT
18157335 AAG-AA-AAAAT
1 AAGAAAGAAAAT
18157345 AAGAAA
1 AAGAAA
18157351 AAGAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.31
11 5 0.19
12 13 0.50
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (12 bp):
AAGAAAGAAAAT
Found at i:18158338 original size:14 final size:15
Alignment explanation
Indices: 18158309--18158352 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
18158299 AAAGAGAGAG
18158309 AAAAGAAATGAAAAGA
1 AAAAGAAA-GAAAAGA
18158325 AAAAGAAA-AAAAGA
1 AAAAGAAAGAAAAGA
*
18158339 AGAAGAAAGGAAAA
1 AAAAGAAA-GAAAA
18158353 AGGAAAGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:18159341 original size:49 final size:49
Alignment explanation
Indices: 18159249--18159497 Score: 218
Period size: 49 Copynumber: 5.1 Consensus size: 49
18159239 TACCATTAGA
* * * * * * *
18159249 ATGTGAA-GGAAGAGATTAAAGCTGCAATGGCGAATCTTATACCTTAGAG
1 ATGTGAAGGGAA-AGATTGAAGCCGCAACGACGAACCTTATACCCTAAAG
* * * * * * **
18159298 ACGTGATGGGAAAGGTTGAAGTCGCAACGACAAACCTTATACCTTAGTG
1 ATGTGAAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCCTAAAG
** *
18159347 ATGTGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCCTAAAG
1 ATGTGAAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCCTAAAG
* * **
18159396 ATG-AAGAGGGAAAG-GTGAAAGCCATAACGACGAACCTTATACCCTAAAG
1 ATGTGA-AGGGAAAGATTG-AAGCCGCAACGACGAACCTTATACCCTAAAG
* *
18159445 ATGTGAAGGGAAAGATTGAAGCCGCAAC-AGCGAATCTTATACCCGAAAG
1 ATGTGAAGGGAAAGATTGAAGCCGCAACGA-CGAACCTTATACCCTAAAG
18159494 ATGT
1 ATGT
18159498 AGAGAAGCAG
Statistics
Matches: 159, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 4 0.03
49 148 0.93
50 7 0.04
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.20
Consensus pattern (49 bp):
ATGTGAAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCCTAAAG
Found at i:18159354 original size:98 final size:98
Alignment explanation
Indices: 18159249--18159494 Score: 291
Period size: 98 Copynumber: 2.5 Consensus size: 98
18159239 TACCATTAGA
* * * * * *
18159249 ATGTGAA-GGAAGAGATTAAAGCTGCAATGGCGAATCTTATACCTTAGAGACG-TGATGGGAAAG
1 ATGTGAAGGGAA-AGATTGAAGCCGCAACGGCGAATCTTATACCCTAAAGACGAAGA-GGGAAAG
* * * **
18159312 GTTG-AAGTCGCAACGACAAACCTTATACCTTAGTG
64 G-TGAAAGCCACAACGACAAACCTTATACCCTAAAG
* *
18159347 ATGTGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCCTAAAGATGAAGAGGGAAAGGT
1 ATGTGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCCTAAAGACGAAGAGGGAAAGGT
* *
18159412 GAAAGCCATAACGACGAACCTTATACCCTAAAG
66 GAAAGCCACAACGACAAACCTTATACCCTAAAG
* *
18159445 ATGTGAAGGGAAAGATTGAAGCCGCAACAGCGAATCTTATACCCGAAAGA
1 ATGTGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCCTAAAGA
18159495 TGTAGAGAAG
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
97 2 0.02
98 119 0.94
99 6 0.05
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (98 bp):
ATGTGAAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCCTAAAGACGAAGAGGGAAAGGT
GAAAGCCACAACGACAAACCTTATACCCTAAAG
Found at i:18159805 original size:42 final size:42
Alignment explanation
Indices: 18159746--18160032 Score: 376
Period size: 42 Copynumber: 6.8 Consensus size: 42
18159736 AAGTTATATC
* *
18159746 ATCATCCAATCTTTTACCCCGACCATGGGGCAGATTAAAGAT
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
* * * * * *
18159788 ATCATCTAATCTCTTACCTCGATCATAGGGCAAATTGAAGTT
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
* * *
18159830 ATCATCTAATCTCTTACCCCGACCATGGGGCAAATTGAAGTT
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
* * *
18159872 ATCATCCAATCTCTTACCCTGACCATAGGGCAGATTGAAGTT
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
* *
18159914 ATCATCCAATCTCTTACCCCGACCATGGGGTAGATTGAAGAC
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
* ** *
18159956 ATCATCCAATCTCTTACCCCGACCATAGGTTAGATTGAAGAC
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
* *
18159998 ATCATCCAATCTCTTACCCCGACCACGGGGTAGAT
1 ATCATCCAATCTCTTACCCCGACCATGGGGCAGAT
18160033 CAAAGCCATC
Statistics
Matches: 220, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 220 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
ATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAT
Found at i:18159896 original size:126 final size:126
Alignment explanation
Indices: 18159745--18160105 Score: 398
Period size: 126 Copynumber: 2.8 Consensus size: 126
18159735 GAAGTTATAT
* *
18159745 CATCATCCAATCTTTTACCCCGACCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCTCGA
1 CATCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGA
* ** * * *
18159810 TCATAGGGCAAATTGAAGTTATCATCTAATCTCTTACCCCGACCATGGGGCAAATTGAAGT
66 CCATAGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGACCATAGGGCAAATTGAAGA
* * * * * *
18159871 TATCATCCAATCTCTTACCCTGACCATAGGGCAGATTGAAGTTATCATCCAATCTCTTACCCCGA
1 CATCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGA
* * * ** *
18159936 CCATGGGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCATAGGTTAGATTGAAGA
66 CCATAGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGACCATAGGGCAAATTGAAGA
* * * ** * *
18159997 CATCATCCAATCTCTTACCCCGACCACGGGGTAGATCAAAGCCATCATCTAATCTTTTACCCTTA
1 CATCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCC--C
* * * * *
18160062 AATCAAGAGGGGCAAATTGAAGCCATCATCCAATCTTTTACCCC
64 GA-CCATA-GGGCAAATTGAAGACATCATCCAATCTCTTACCCC
18160106 TAAGTCAAAA
Statistics
Matches: 191, Mismatches: 40, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
126 157 0.82
128 1 0.01
129 2 0.01
130 31 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (126 bp):
CATCATCCAATCTCTTACCCCGACCATGGGGCAGATTAAAGATATCATCTAATCTCTTACCCCGA
CCATAGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGACCATAGGGCAAATTGAAGA
Found at i:18160091 original size:46 final size:46
Alignment explanation
Indices: 18160035--18160128 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
18160025 GGGTAGATCA
* * *
18160035 AAGCCATCATCTAATCTTTTACCCTTAAATCAAGAGGGGCAAATTG
1 AAGCCATCATCCAATCTTTTACCCCTAAATCAAAAGGGGCAAATTG
* *
18160081 AAGCCATCATCCAATCTTTTACCCCTAAGTCAAAAGGGGCAGATTG
1 AAGCCATCATCCAATCTTTTACCCCTAAATCAAAAGGGGCAAATTG
18160127 AA
1 AA
18160129 ACTATTATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (46 bp):
AAGCCATCATCCAATCTTTTACCCCTAAATCAAAAGGGGCAAATTG
Found at i:18160274 original size:75 final size:75
Alignment explanation
Indices: 18160151--18160320 Score: 277
Period size: 75 Copynumber: 2.3 Consensus size: 75
18160141 CTCAAGTTGT
* * *
18160151 AGTGGAGCAAAACAATGAAGTGAAGCTCAATGTGAGTGAAACTTCAAACCCCATCTTCCTGATGA
1 AGTGGATCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCAAACCCCATCTTCCTGATGA
*
18160216 GATATAGAAA
66 GATACAGAAA
* *
18160226 AGTGGGTCAAAACAATGAAGCGGAGCTCAACGTGAGTGAAACTTCAAACCCCATCTTCCTGATGA
1 AGTGGATCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCAAACCCCATCTTCCTGATGA
*
18160291 GATACAGAGA
66 GATACAGAAA
18160301 AGTGGATCAAAACAATGAAG
1 AGTGGATCAAAACAATGAAG
18160321 AGGTCATCAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 87 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (75 bp):
AGTGGATCAAAACAATGAAGCGAAGCTCAACGTGAGTGAAACTTCAAACCCCATCTTCCTGATGA
GATACAGAAA
Found at i:18160351 original size:48 final size:48
Alignment explanation
Indices: 18160277--18160416 Score: 203
Period size: 48 Copynumber: 2.9 Consensus size: 48
18160267 CTTCAAACCC
*
18160277 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAG-AGGT
1 CATCATCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGCA-GT
*
18160325 CATCATCTTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGCAGT
1 CATCATCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGCAGT
* * *
18160373 CATCTTCCTAATGAGATACA-AGGAATTGGATCAAAACAATGAAG
1 CATCATCCTGATGAGATACAGA-GAAGTGGATCAAAACAATGAAG
18160417 TGGAGCTCAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 82 0.98
49 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (48 bp):
CATCATCCTGATGAGATACAGAGAAGTGGATCAAAACAATGAAGCAGT
Found at i:18160495 original size:75 final size:76
Alignment explanation
Indices: 18160372--18160567 Score: 288
Period size: 75 Copynumber: 2.6 Consensus size: 76
18160362 AATGAAGCAG
* *
18160372 TCATCTTCCTAATGAGATACAAGGAATTGGATCAAAACAATGAAGTGGAGCTCAACATGAGTGAA
1 TCATCTTCCTAATGAGATATAAGGAAGTGGATCAAAACAATGAAGTGGAGCTCAACATGAGTGAA
18160437 ACTTCAAA-CC
66 ACTTCAAACCC
* * *
18160447 TCATCTTCCTAATGAAATATAAGGAAGTGGATCAAAACAATGAAGTGGAGCTTAACGTGAGTGAA
1 TCATCTTCCTAATGAGATATAAGGAAGTGGATCAAAACAATGAAGTGGAGCTCAACATGAGTGAA
18160512 ACTTCAAACCC
66 ACTTCAAACCC
* * * *
18160523 CCATCTTCTTGATGAGATAT-AGAGAAGTGGATCAAAACGATGAAG
1 TCATCTTCCTAATGAGATATAAG-GAAGTGGATCAAAACAATGAAG
18160568 CGGTCATCTT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
75 70 0.64
76 39 0.36
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (76 bp):
TCATCTTCCTAATGAGATATAAGGAAGTGGATCAAAACAATGAAGTGGAGCTCAACATGAGTGAA
ACTTCAAACCC
Found at i:18160595 original size:48 final size:48
Alignment explanation
Indices: 18160524--18160616 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
18160514 TTCAAACCCC
* * * * * *
18160524 CATCTTCTTGATGAGATATAGAGAAGTGGATCAAAACGATGAAGCGGT
1 CATCTTCCTGATAAGATACAGAGAAGTAGACCAAAACAATGAAGCGGT
*
18160572 CATCTTCCTGATAAGATACAGAGAAGTAGACCAAAATAATGAAGC
1 CATCTTCCTGATAAGATACAGAGAAGTAGACCAAAACAATGAAGC
18160617 AAAGCTCAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (48 bp):
CATCTTCCTGATAAGATACAGAGAAGTAGACCAAAACAATGAAGCGGT
Found at i:18160693 original size:145 final size:145
Alignment explanation
Indices: 18160505--18160912 Score: 611
Period size: 145 Copynumber: 2.8 Consensus size: 145
18160495 AGCTTAACGT
*
18160505 GAGTGAAACTTCAAACCCCCATCTTCTTGATGAGATA-TAGAGAAGTGGATCAAAACGATGAAGC
1 GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACT-GAGAAGTGGATCAAAACGATGAAGC
* * * * *
18160569 GGTCATCTTCCTGATAAGATACAGAGAAGTAGACCAAAATAATGAAGCAAAGCTCAACGTCCCTG
65 GGTCATCTTTCTGATGAGATACAAAGAAGTGGACCAAAATAATGAAGCAAAGCTCAACATCCCTG
18160634 AGGTTACAGTGGAATA
130 AGGTTACAGTGGAATA
* * *
18160650 GAGTGAAACTTCAAACCACCATATTCCTGATGAGACACTGAGAAGTGGATCAAAACGATGAAGCG
1 GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGATCAAAACGATGAAGCG
* * * * * *
18160715 GTCATCTTTTTTATGAGATACAAAGAAGTGGACCAAAATAATGAAGCAGAGTTTAACATCTCTGA
66 GTCATCTTTCTGATGAGATACAAAGAAGTGGACCAAAATAATGAAGCAAAGCTCAACATCCCTGA
*
18160780 GGTTACAGTGGAGTA
131 GGTTACAGTGGAATA
* * *
18160795 GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAACGATGAAGCG
1 GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGATCAAAACGATGAAGCG
* *
18160860 GTCATCTTTCTGATGAGATACAAAGAAGTGGACCAAAACAATGAAGCGAAGCT
66 GTCATCTTTCTGATGAGATACAAAGAAGTGGACCAAAATAATGAAGCAAAGCT
18160913 AATATGAGTG
Statistics
Matches: 234, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
145 233 1.00
146 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (145 bp):
GAGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACTGAGAAGTGGATCAAAACGATGAAGCG
GTCATCTTTCTGATGAGATACAAAGAAGTGGACCAAAATAATGAAGCAAAGCTCAACATCCCTGA
GGTTACAGTGGAATA
Found at i:18160866 original size:48 final size:48
Alignment explanation
Indices: 18160814--18160907 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
18160804 TTCAAACCCC
* ** *
18160814 CATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAACGATGAAGCGGT
1 CATCTTCCTAATGAGATACAAAGAAGTGGACCAAAACAATGAAGCGGT
* *
18160862 CATCTTTCTGATGAGATACAAAGAAGTGGACCAAAACAATGAAGCG
1 CATCTTCCTAATGAGATACAAAGAAGTGGACCAAAACAATGAAGCG
18160908 AAGCTAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.20
Consensus pattern (48 bp):
CATCTTCCTAATGAGATACAAAGAAGTGGACCAAAACAATGAAGCGGT
Found at i:18160992 original size:48 final size:47
Alignment explanation
Indices: 18160936--18161077 Score: 185
Period size: 48 Copynumber: 3.0 Consensus size: 47
18160926 CTTCAAACCC
* *
18160936 TCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACGATGAAGCAG
1 TCATCTTCCTAATGAGATACAGAGAAGTGGA-CAAAACAATGAAGCAG
* * * *
18160984 TCATCTTCCTTATGAGATACAGAGAAGTGGACCAAACAACGAAGCGG
1 TCATCTTCCTAATGAGATACAGAGAAGTGGACAAAACAATGAAGCAG
* * *
18161031 TCATCTTCTTGATAAGATACAGAGAAGTGGACCAAAACAATGAAGCA
1 TCATCTTCCTAATGAGATACAGAGAAGTGGA-CAAAACAATGAAGCA
18161078 AAGCTCAATG
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 40 0.49
48 41 0.51
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (47 bp):
TCATCTTCCTAATGAGATACAGAGAAGTGGACAAAACAATGAAGCAG
Found at i:18161014 original size:123 final size:122
Alignment explanation
Indices: 18160795--18161029 Score: 389
Period size: 123 Copynumber: 1.9 Consensus size: 122
18160785 CAGTGGAGTA
* * *
18160795 GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAACGATGAAGCG
1 GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACGATGAAGCA
* *
18160860 GTCATCTTTCTGATGAGATACAAAGAAGTGGACCAAAACAATGAAGCGAAGCTAATAT
66 GTCATCTTCCTGATGAGATACAAAGAAGTGGACC-AAACAACGAAGCGAAGCTAATAT
*
18160918 GAGTGAAACTTCAAACCCTCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACGATGAAGCA
1 GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACGATGAAGCA
* *
18160983 GTCATCTTCCTTATGAGATACAGAGAAGTGGACCAAACAACGAAGCG
66 GTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAACAACGAAGCG
18161030 GTCATCTTCT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 12 0.12
123 92 0.88
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (122 bp):
GAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACGATGAAGCA
GTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAACAACGAAGCGAAGCTAATAT
Found at i:18161049 original size:47 final size:46
Alignment explanation
Indices: 18160936--18161077 Score: 176
Period size: 47 Copynumber: 3.0 Consensus size: 46
18160926 CTTCAAACCC
* * * *
18160936 TCATCTTCCTAATGAGATACAAAGAAGTGGATCAAAACGATGAAGCAG
1 TCATCTT-CTTATGAGATACAGAGAAGTGGA-CCAAACAATGAAGCAG
* *
18160984 TCATCTTCCTTATGAGATACAGAGAAGTGGACCAAACAACGAAGCGG
1 TCATCTT-CTTATGAGATACAGAGAAGTGGACCAAACAATGAAGCAG
*
18161031 TCATCTTCTTGATAAGATACAGAGAAGTGGACCAAAACAATGAAGCA
1 TCATCTTCTT-ATGAGATACAGAGAAGTGGACC-AAACAATGAAGCA
18161078 AAGCTCAATG
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
46 3 0.04
47 40 0.48
48 40 0.48
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (46 bp):
TCATCTTCTTATGAGATACAGAGAAGTGGACCAAACAATGAAGCAG
Found at i:18161113 original size:170 final size:170
Alignment explanation
Indices: 18160814--18161149 Score: 500
Period size: 170 Copynumber: 2.0 Consensus size: 170
18160804 TTCAAACCCC
* * * *
18160814 CATCTTCCTAATGAGATACAGAGAAGTGGGTCAAAACGATGAAGCGGTCATCTTTCTGATGAGAT
1 CATCTTCCTAATGAGATACAGAGAAGTGGGACAAAACAACGAAGCGGTCATCTTTCTGATAAGAT
* *
18160879 ACAAAGAAGTGGACCAAAACAATGAAGCGAAGCTAATATGAGTGAAACTTCAAACCCTCATCTTC
66 ACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTAATACGAGTGAAACTTCAAACCCTCATCTTC
* *
18160944 CTAATGAGATAC-AAAGAAGTGGATCAAAACGATGAAGCAGT
131 CTAATGAGATACAAAAG-AGAGGACCAAAA-GATGAAGCAGT
* *
18160985 CATCTTCCTTATGAGATACAGAGAAGT-GGACCAAACAACGAAGCGGTCATC-TTCTTGATAAGA
1 CATCTTCCTAATGAGATACAGAGAAGTGGGACAAAACAACGAAGCGGTCATCTTTC-TGATAAGA
* *
18161048 TACAGAGAAGTGGACCAAAACAATGAAGCAAAGCTCAATGCGAGTGAAACTTCAAACCC-CATCT
65 TACAAAGAAGTGGACCAAAACAATGAAGCAAAGCT-AATACGAGTGAAACTTCAAACCCTCATCT
18161112 TCCTAATGAGATACAAAAGAGAGGACCAAAAGATGAAG
129 TCCTAATGAGATACAAAAGAGAGGACCAAAAGATGAAG
18161150 TTACAACATC
Statistics
Matches: 150, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
169 10 0.07
170 89 0.59
171 51 0.34
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (170 bp):
CATCTTCCTAATGAGATACAGAGAAGTGGGACAAAACAACGAAGCGGTCATCTTTCTGATAAGAT
ACAAAGAAGTGGACCAAAACAATGAAGCAAAGCTAATACGAGTGAAACTTCAAACCCTCATCTTC
CTAATGAGATACAAAAGAGAGGACCAAAAGATGAAGCAGT
Done.