Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 11 of 290
Found at i:3222913 original size:21 final size:21
Alignment explanation
Indices: 3222889--3222957 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
3222879 CCCACCACTG
3222889 CTTCTTGCCTCTCCCTTCCAA
1 CTTCTTGCCTCTCCCTTCCAA
* * *
3222910 CTTCAATT-TCTTTCCC-TCCACTG
1 CTTC--TTGCCTCTCCCTTCCA--A
3222933 CTTCTTGCCTCTCCCTTCCAA
1 CTTCTTGCCTCTCCCTTCCAA
3222954 CTTC
1 CTTC
3222958 AATTTTTCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
21 14 0.39
22 12 0.33
23 10 0.28
ACGTcount: A:0.10, C:0.45, G:0.04, T:0.41
Consensus pattern (21 bp):
CTTCTTGCCTCTCCCTTCCAA
Found at i:3222937 original size:44 final size:44
Alignment explanation
Indices: 3222874--3222962 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
3222864 TTCTTCCTGC
3222874 TCTTTCCCACCACTGCTTCTTGCCTCTCCCTTCCAACTTCAATT
1 TCTTTCCCACCACTGCTTCTTGCCTCTCCCTTCCAACTTCAATT
*
3222918 TCTTTCCCTCCACTGCTTCTTGCCTCTCCCTTCCAACTTCAATT
1 TCTTTCCCACCACTGCTTCTTGCCTCTCCCTTCCAACTTCAATT
3222962 T
1 T
3222963 TTCCAATGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.12, C:0.43, G:0.04, T:0.40
Consensus pattern (44 bp):
TCTTTCCCACCACTGCTTCTTGCCTCTCCCTTCCAACTTCAATT
Found at i:3222947 original size:22 final size:22
Alignment explanation
Indices: 3222878--3222948 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
3222868 TCCTGCTCTT
*
3222878 TCCCACCACTGCTTCTTGCCTC
1 TCCCTCCACTGCTTCTTGCCTC
* * *
3222900 TCCCTTCCA--ACTTCAATT-TCTT
1 TCCC-TCCACTGCTTC--TTGCCTC
3222922 TCCCTCCACTGCTTCTTGCCTC
1 TCCCTCCACTGCTTCTTGCCTC
3222944 TCCCT
1 TCCCT
3222949 TCCAACTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
21 10 0.28
22 17 0.47
23 9 0.25
ACGTcount: A:0.10, C:0.46, G:0.06, T:0.38
Consensus pattern (22 bp):
TCCCTCCACTGCTTCTTGCCTC
Found at i:3222952 original size:23 final size:23
Alignment explanation
Indices: 3222883--3222952 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
3222873 CTCTTTCCCA
3222883 CCACTGCTTCTTGCCTCTCCCTT
1 CCACTGCTTCTTGCCTCTCCCTT
* * *
3222906 CCA--ACTTCAATT-TCTTTCCC-T
1 CCACTGCTTC--TTGCCTCTCCCTT
3222927 CCACTGCTTCTTGCCTCTCCCTT
1 CCACTGCTTCTTGCCTCTCCCTT
3222950 CCA
1 CCA
3222953 ACTTCAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
21 10 0.29
22 12 0.34
23 13 0.37
ACGTcount: A:0.10, C:0.46, G:0.06, T:0.39
Consensus pattern (23 bp):
CCACTGCTTCTTGCCTCTCCCTT
Found at i:3229437 original size:39 final size:39
Alignment explanation
Indices: 3229383--3229460 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
3229373 CATCTCCTTA
3229383 AGTATTTTAGACTTGAAAGGATGAAAAATCAACATCGAC
1 AGTATTTTAGACTTGAAAGGATGAAAAATCAACATCGAC
*
3229422 AGTATTTTAGACTTGAAAGGATGCAAAATCAACATCGAC
1 AGTATTTTAGACTTGAAAGGATGAAAAATCAACATCGAC
3229461 TCGAGCGGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (39 bp):
AGTATTTTAGACTTGAAAGGATGAAAAATCAACATCGAC
Found at i:3230578 original size:21 final size:21
Alignment explanation
Indices: 3230536--3230578 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3230526 TTTGCTATTT
* *
3230536 TCATTTTTGTTAGTTTCGGAG
1 TCATTTTTGTTAGTGTCAGAG
*
3230557 TCATTTTTGTTCGTGTCAGAG
1 TCATTTTTGTTAGTGTCAGAG
3230578 T
1 T
3230579 TGAAAGAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.51
Consensus pattern (21 bp):
TCATTTTTGTTAGTGTCAGAG
Found at i:3230952 original size:3 final size:3
Alignment explanation
Indices: 3230946--3230979 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
3230936 CAGCAACAGC
*
3230946 AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
3230980 TTCAACCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3251444 original size:79 final size:82
Alignment explanation
Indices: 3251326--3251510 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
3251316 GCTACTCGTT
* * *
3251326 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
3251389 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
3251406 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
3251469 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
3251486 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3251511 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:3251510 original size:40 final size:40
Alignment explanation
Indices: 3251307--3251510 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
3251297 GGGAATTTAA
** *
3251307 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
3251347 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
3251387 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3251426 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
3251466 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
3251506 CCGGA
1 CCGGA
3251511 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:3255748 original size:36 final size:36
Alignment explanation
Indices: 3255701--3255774 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
3255691 CTCCCTTCAG
*
3255701 TTGGTCGAACAAATCATCGATACGCGGTAACGGATA
1 TTGGTCGAACAAATCATCGATACGCGGCAACGGATA
*
3255737 TTGGTCGAACAAATCATCGATGCGCGGCAACGGATA
1 TTGGTCGAACAAATCATCGATACGCGGCAACGGATA
3255773 TT
1 TT
3255775 TGTTCTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (36 bp):
TTGGTCGAACAAATCATCGATACGCGGCAACGGATA
Found at i:3259488 original size:79 final size:82
Alignment explanation
Indices: 3259377--3259561 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
3259367 GCTACTCGTT
* *
3259377 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
3259440 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
3259457 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
3259520 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
3259537 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3259562 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:3259561 original size:40 final size:40
Alignment explanation
Indices: 3259358--3259561 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
3259348 CGGAATTTAA
** *
3259358 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3259398 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
3259438 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3259477 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
3259517 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
3259557 CCGGA
1 CCGGA
3259562 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:3263591 original size:17 final size:17
Alignment explanation
Indices: 3263569--3263602 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3263559 TGTAACGACC
3263569 CTACACGATGACCCATT
1 CTACACGATGACCCATT
*
3263586 CTACACGATGACGCATT
1 CTACACGATGACCCATT
3263603 GACTCGACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (17 bp):
CTACACGATGACCCATT
Found at i:3269854 original size:44 final size:44
Alignment explanation
Indices: 3269579--3270191 Score: 293
Period size: 44 Copynumber: 13.5 Consensus size: 44
3269569 TATTCTACTG
* * * * ** * *
3269579 CAACTTTAGGTAAATAAGATTCGCTATCTTCAGTCTACTCTACTA
1 CAACTTTAGGGAGATAAGATTTG-TAACTTCAACCTGCTCCACTA
* * *
3269624 CAACTTTAGGTAGATAAGACTTGTTGTAACTTCAACCTGCTCTACTG
1 CAACTTTAGGGAGATAAGA--T-TTGTAACTTCAACCTGCTCCACTA
* * * * * * * * * * *
3269671 TAACTTCAGGGAGAAAAGGTTTTTAGCTTTAATCTGCTCTATTG
1 CAACTTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTA
* * * *
3269715 CAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTG
1 CAACTTTAGGGAGATAAGATTTGT-A-----A-CTTCAACCTGCTCCACTA
* * * * ** *
3269766 CAACTTTATGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTA
1 CAACTTTAGGGAGATAAGATTTG-TAACTTCAACCTGCTCCACTA
* * *
3269811 CAA-TTTCAGGGAGATAAGACTTGTAACTTTAACCTACTCCACTA
1 CAACTTT-AGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTA
* * ** *
3269855 CAACTTTAGGGA-AAAAGATTTGCTATCTTCAGTCTGCTCCACTG
1 CAACTTTAGGGAGATAAGATTTG-TAACTTCAACCTGCTCCACTA
*
3269899 CAACTTTAGGGAGATAAGATTTGTAACTTCAACATGCTCCACTA
1 CAACTTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTA
* * * ** * *
3269943 CAACTTCAGGGAGAGAAGGTTTGTGGCCTT-AATCTGC-CTCACTG
1 CAACTTTAGGGAGATAAGATTTGT-AACTTCAACCTGCTC-CACTA
* * * *
3269987 CAACTTTAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGTTCCACTG
1 CAACTTTAGGGAGATAA-G------ATTTGTAACTTCAACCTGCTCCACTA
* * * **
3270038 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTA
1 CAACTTTAGGGAGATAAGATTTG-TAACTTCAACCTGCTCCACTA
* * * *
3270083 CAA-TTTCAAGGAGATAAGACTTGTAACTTCAACCTGTTCAACTA
1 CAACTTT-AGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTA
* * * ** * ** * *
3270127 CAACTTCAGGG-GAAGAAGGTTTGTGGCTTTAATTTGCTCTACTG
1 CAACTTTAGGGAG-ATAAGATTTGTAACTTCAACCTGCTCCACTA
*
3270171 CAACTTCAGGGAGATAAGATT
1 CAACTTTAGGGAGATAAGATT
3270192 CGTCATGGTA
Statistics
Matches: 438, Mismatches: 99, Indels: 63
0.73 0.17 0.10
Matches are distributed among these distances:
43 10 0.02
44 220 0.50
45 103 0.24
47 31 0.07
48 2 0.00
50 4 0.01
51 66 0.15
52 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
CAACTTTAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTA
Found at i:3270020 original size:272 final size:272
Alignment explanation
Indices: 3269579--3270191 Score: 818
Period size: 272 Copynumber: 2.2 Consensus size: 272
3269569 TATTCTACTG
* * * * *
3269579 CAACTTTAGGTAAATAAGATTCGCTATCTTCAGTCTACTCTACTACAACTTTAGGTAGATAAGAC
1 CAACTTTAGGGAAA-AAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAGA-
* * ** * *
3269644 TTGTTGTAACTTCAACCTGCTCTACTGTAACTTCAGGGAGAAAAGGTTTTTAGCTTTAATCTGCT
64 -T-TTGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAAAAGGTTTGTAGCCTTAATCTGCT
* * *
3269709 CTATTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTGCAACTTTA
127 CTACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCAACTTCA
* * * *
3269774 TGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTACAATTTCAGGGAGATAAGACTTGTAACT
192 GGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGATAAGACTTGTAACT
* *
3269839 TTAACCTACTCCACTA
257 TCAACCTACTCAACTA
*
3269855 CAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 CAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAGATT
* *
3269920 TGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAGAAGGTTTGTGGCCTTAATCTGC-CTCA
66 TGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAAAAGGTTTGTAGCCTTAATCTGCTCT-A
* *
3269984 CTGCAACTTTAGGGAGATAATG-TTTATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGG
130 CTGCAACTTCAGGGAGATAA-GATTTATAACTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGG
3270048 GAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGATAAGACTTGTAACTTC
194 GAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGATAAGACTTGTAACTTC
**
3270113 AACCTGTTCAACTA
259 AACCTACTCAACTA
* * * ** * * * *
3270127 CAACTTCAGGGGAAGAAGGTTTG-TGGCTTTAATTTGCTCTACTGCAACTTCAGGGAGATAAGAT
1 CAACTTTA-GGGAAAAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAGAT
3270191 T
65 T
3270192 CGTCATGGTA
Statistics
Matches: 297, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
271 2 0.01
272 224 0.75
273 14 0.05
275 44 0.15
276 13 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (272 bp):
CAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAGATT
TGTAACTTCAACATGCTCCACTACAACTTCAGGGAGAAAAGGTTTGTAGCCTTAATCTGCTCTAC
TGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
AATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGATAAGACTTGTAACTTCAA
CCTACTCAACTA
Found at i:3270059 original size:184 final size:183
Alignment explanation
Indices: 3269848--3270187 Score: 524
Period size: 184 Copynumber: 1.9 Consensus size: 183
3269838 TTTAACCTAC
* * *
3269848 TCCACTACAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTT-AGGGAG
1 TCCACTACAACTTCAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTACAA-TTTCAAGGAG
* *
3269912 ATAAGATTTGTAACTTCAACATGCTCCACTACAACTTCA-GGGAGAGAAGGTTTGTGGCCTTAAT
65 ATAAGACTTGTAACTTCAACATGCTCAACTACAACTTCAGGGGA-AGAAGGTTTGTGGCCTTAAT
*
3269976 CTGC-CTCACTGCAACTTTAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
129 CTGCTCT-ACTGCAACTTCAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
*
3270031 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAG
1 TCCACTACAACTTCAGGGAAA-AAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAG
* * * *
3270096 ATAAGACTTGTAACTTCAACCTGTTCAACTACAACTTCAGGGGAAGAAGGTTTGTGGCTTTAATT
65 ATAAGACTTGTAACTTCAACATGCTCAACTACAACTTCAGGGGAAGAAGGTTTGTGGCCTTAATC
3270161 TGCTCTACTGCAACTTCAGGGAGATAA
130 TGCTCTACTGCAACTTCAGGGAGATAA
3270188 GATTCGTCAT
Statistics
Matches: 142, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
183 22 0.15
184 114 0.80
185 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (183 bp):
TCCACTACAACTTCAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTACAATTTCAAGGAGA
TAAGACTTGTAACTTCAACATGCTCAACTACAACTTCAGGGGAAGAAGGTTTGTGGCCTTAATCT
GCTCTACTGCAACTTCAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
Found at i:3276361 original size:24 final size:25
Alignment explanation
Indices: 3276348--3276487 Score: 82
Period size: 24 Copynumber: 5.6 Consensus size: 25
3276338 TAATTAAAAT
3276348 AATAA-ATAAAAAATTTAAAAAATA
1 AATAATATAAAAAATTTAAAAAATA
*
3276372 AATAATAT-AAAAATGTT-TAAAATA
1 AATAATATAAAAAAT-TTAAAAAATA
* *
3276396 AATAATAAATGAAACAATTTAAAGTAA-A
1 AATAAT--AT-AAAAAATTTAAA-AAATA
*
3276424 AA-AATATAAAAAGTTTTAAAAAA-A
1 AATAATATAAAAA-ATTTAAAAAATA
3276448 TAAT-ATATGAAAAAAATTT--AAAATA
1 -AATAATAT--AAAAAATTTAAAAAATA
* *
3276473 AGTAATATATAAAAT
1 AATAATATAAAAAAT
3276488 GGTTCAGAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
23 6 0.07
24 36 0.40
25 23 0.25
26 5 0.05
27 10 0.11
28 9 0.10
29 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (25 bp):
AATAATATAAAAAATTTAAAAAATA
Found at i:3276372 original size:16 final size:16
Alignment explanation
Indices: 3276346--3276384 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3276336 ATTAATTAAA
*
3276346 ATAATAAATAAAAAAT
1 ATAAAAAATAAAAAAT
* *
3276362 TTAAAAAATAAATAAT
1 ATAAAAAATAAAAAAT
3276378 ATAAAAA
1 ATAAAAA
3276385 TGTTTAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAATAAAAAAT
Found at i:3276374 original size:27 final size:27
Alignment explanation
Indices: 3276344--3276418 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 27
3276334 AAATTAATTA
3276344 AAATAATAAATAAAAAATTTAAAAAAT
1 AAATAATAAATAAAAAATTTAAAAAAT
*
3276371 AAATAAT--AT-AAAAATGTT-TAAAAT
1 AAATAATAAATAAAAAAT-TTAAAAAAT
*
3276395 AAATAATAAATGAAACAATTTAAA
1 AAATAATAAAT-AAAAAATTTAAA
3276419 GTAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 18 0.46
25 4 0.10
26 2 0.05
27 9 0.23
28 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
AAATAATAAATAAAAAATTTAAAAAAT
Found at i:3276429 original size:27 final size:24
Alignment explanation
Indices: 3276337--3276429 Score: 64
Period size: 27 Copynumber: 3.6 Consensus size: 24
3276327 CAAAGACAAA
* *
3276337 TTAATTAAAATAATAAATAAAAAAT
1 TTAAATAAAAAAATAAAT-AAAAAT
*
3276362 TTAAA-AAATAAATAATATAAAAATGT
1 TTAAATAAAAAAATAA-ATAAAAA--T
*
3276388 TTAAA-ATAAATAATAAATGAAACAAT
1 TTAAATA-AAAAAATAAAT-AAA-AAT
3276414 TTAAAGTAAAAAAATA
1 TTAAA-TAAAAAAATA
3276430 TAAAAAGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
24 13 0.24
25 6 0.11
26 15 0.28
27 17 0.31
28 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (24 bp):
TTAAATAAAAAAATAAATAAAAAT
Found at i:3276478 original size:27 final size:26
Alignment explanation
Indices: 3276344--3276761 Score: 254
Period size: 26 Copynumber: 16.5 Consensus size: 26
3276334 AAATTAATTA
*
3276344 AAATAATAAAT-AAAAAATTT-AAA-
1 AAATAATATATAAAAAAATTTAAAAT
**
3276367 AAATAAATAATATAAAAATGTTTAAAAT
1 AAAT-AAT-ATATAAAAAAATTTAAAAT
* * * *
3276395 AAATAATAAATGAAACAATTTAAAGT
1 AAATAATATATAAAAAAATTTAAAAT
* **
3276421 AAA-AAAATATAAAAAGTTTTAAAA-
1 AAATAATATATAAAAAAATTTAAAAT
3276445 AAATAATATATGAAAAAAATTTAAAAT
1 AAATAATATAT-AAAAAAATTTAAAAT
* *** * *
3276472 AAGTAATATATAAAATGGTTCAGAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * * * *
3276498 AGACAATATATACATAAATTTTAACAT
1 AAATAATATATA-AAAAAATTTAAAAT
* * * *
3276525 AAATAAAATATAAAACAGTTTGAAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * ** *
3276551 AAATAGTTTATAAAGCAATTTAAAGT
1 AAATAATATATAAAAAAATTTAAAAT
*
3276577 AAATAATATAT-AAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * *
3276602 -TATAATACA-AAATAAA-TTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
*
3276625 AAATAATATGATAAAACAATTTAAAAT
1 AAATAATAT-ATAAAAAAATTTAAAAT
* *
3276652 AAATACTACATAAAAAAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
*** *
3276678 AAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * *
3276703 AAAT-A-ATA-AGAAAGATTTATAAT
1 AAATAATATATAAAAAAATTTAAAAT
** *
3276726 AAATAA-A-ATAAGTAAGTTTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
*
3276750 AAATAACATATA
1 AAATAATATATA
3276762 TTCTCATTAC
Statistics
Matches: 294, Mismatches: 82, Indels: 35
0.72 0.20 0.09
Matches are distributed among these distances:
23 26 0.09
24 42 0.14
25 54 0.18
26 122 0.41
27 46 0.16
28 4 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
AAATAATATATAAAAAAATTTAAAAT
Found at i:3276684 original size:53 final size:52
Alignment explanation
Indices: 3276344--3276761 Score: 312
Period size: 51 Copynumber: 8.2 Consensus size: 52
3276334 AAATTAATTA
* *
3276344 AAATAATAAAT-AAAAAATTTAAAAAATAAATAATATA-AAAA-TGTTTAAAAT
1 AAATAATATATAAAAAAATTT--AAAATAAATAATATATAAAACAGTTTAAAAT
* * * * *
3276395 AAATAATAAATGAAACAATTTAAAGTAAA-AAAATATAAAA-AGTTTTAAAA-
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAG-TTTAAAAT
* ** * *
3276445 AAATAATATATGAAAAAAATTTAAAATAAGTAATATATAAAATGGTTCAGAAT
1 AAATAATATAT-AAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * * * * *
3276498 AGACAATATATACATAAATTTTAACATAAATAAAATATAAAACAGTTTGAAAT
1 AAATAATATATA-AAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * ** * *
3276551 AAATAGTTTATAAAGCAATTTAAAGTAAATAATATAT-AAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * *
3276602 -TATAATACA-AAATAAA-TTAAAATAAATAATATGATAAAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATAT-ATAAAACAGTTTAAAAT
* * * *
3276652 AAATACTACATAAAAAAATTTAAAATAAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
* * * *
3276703 AAAT-A-ATA-AGAAAGATTTATAATAAATAA-A-ATAAGTA-AGTTTAAAAT
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAA-AACAGTTTAAAAT
*
3276750 AAATAACATATA
1 AAATAATATATA
3276762 TTCTCATTAC
Statistics
Matches: 291, Mismatches: 59, Indels: 35
0.76 0.15 0.09
Matches are distributed among these distances:
47 17 0.06
48 35 0.12
49 17 0.06
50 42 0.14
51 69 0.24
52 48 0.16
53 63 0.22
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (52 bp):
AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAACAGTTTAAAAT
Found at i:3276727 original size:101 final size:102
Alignment explanation
Indices: 3276344--3276761 Score: 323
Period size: 101 Copynumber: 4.1 Consensus size: 102
3276334 AAATTAATTA
* * *
3276344 AAATAATAAAT-AAAAAATTT-AAA-AAATAAATAATATAAAAATGTTTAAAATAAATAATAAAT
1 AAATAATATATAAAAAAATTTAAAATAAAT-AAT-ATATAAAAATGTTCAAAATAAATAATACA-
*
3276406 GAAACAATTTAAAGTAAA-AAAATATAAAA-AGTTTTAAAA-
63 GAAACAATTTAAA-TAAATAAAATATAAAACA-ATTTAAAAT
* *
3276445 AAATAATATATGAAAAAAATTTAAAATAAGTAATATAT-AAAATGGTTCAGAATAGACAATATAT
1 AAATAATATAT-AAAAAAATTTAAAATAAATAATATATAAAAAT-GTTCA-AA-ATA-AATA-AT
* * * *
3276509 ACA-TAA-ATTTTAACATAAATAAAATATAAAACAGTTTGAAAT
60 ACAGAAACAATTTAA-ATAAATAAAATATAAAACAATTTAAAAT
* * ** * *
3276551 AAATAGTTTATAAAGCAATTTAAAGTAAATAATATATAAACAAT-TT-AAAAT-TATAATACA-A
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAA-AATGTTCAAAATAAATAATACAGA
* * *
3276612 AATAAATTAAAATAAATAATATGATAAAACAATTTAAAAT
65 AA-CAATTTAAATAAATAAAAT-ATAAAACAATTTAAAAT
* * *
3276652 AAATACTACATAAAAAAATTTAAAATAAATAATA-ATAAAACTGTTCAAAATAAATAATA-AGAA
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAAATGTTCAAAATAAATAATACAGAA
* ** *
3276715 A-GATTTATAATAAATAAAATA-AGTA-AGTTTAAAAT
66 ACAATTTA-AATAAATAAAATATAAAACAATTTAAAAT
*
3276750 AAATAACATATA
1 AAATAATATATA
3276762 TTCTCATTAC
Statistics
Matches: 254, Mismatches: 40, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
98 18 0.07
99 11 0.04
100 25 0.10
101 75 0.30
102 15 0.06
103 19 0.07
104 19 0.07
105 49 0.19
106 16 0.06
107 7 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (102 bp):
AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAAATGTTCAAAATAAATAATACAGAA
ACAATTTAAATAAATAAAATATAAAACAATTTAAAAT
Found at i:3278311 original size:20 final size:20
Alignment explanation
Indices: 3278268--3278331 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
3278258 AAAATTTAAG
* *
3278268 ATTTTTATGCTTTTTTTT-C
1 ATTTTTATGATTTTTTTTAT
*
3278287 A-TTTTA-GAATTTTTTTTGT
1 ATTTTTATG-ATTTTTTTTAT
3278306 ATTTTTATGATTTTTTTTAT
1 ATTTTTATGATTTTTTTTAT
3278326 ATTTTT
1 ATTTTT
3278332 TAAGGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.34
19 2 0.05
20 21 0.55
21 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.73
Consensus pattern (20 bp):
ATTTTTATGATTTTTTTTAT
Found at i:3284993 original size:22 final size:22
Alignment explanation
Indices: 3284968--3285030 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
3284958 ATTTCATCTT
*
3284968 TTTTTTGTCCATGTAATTTTAA
1 TTTTTTGTCCATATAATTTTAA
* *
3284990 TTTTTGGTCCCTATAATTTTAA
1 TTTTTTGTCCATATAATTTTAA
*
3285012 TTTTTTATTCCA-ATAATTT
1 TTTTTT-GTCCATATAATTT
3285031 CACCTAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTTTGTCCATATAATTTTAA
Found at i:3285173 original size:13 final size:13
Alignment explanation
Indices: 3285155--3285195 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3285145 TTTAAATAAA
3285155 CAGTTAATAGAAT
1 CAGTTAATAGAAT
*
3285168 CAGTTAGTCA-AAT
1 CAGTTAAT-AGAAT
3285181 CAGTTAATAGAAT
1 CAGTTAATAGAAT
3285194 CA
1 CA
3285196 ATTGGTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (13 bp):
CAGTTAATAGAAT
Found at i:3285185 original size:26 final size:26
Alignment explanation
Indices: 3285155--3285205 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3285145 TTTAAATAAA
*
3285155 CAGTTAATAGAATCAGTTAGTCAAAT
1 CAGTTAATAGAATCAATTAGTCAAAT
*
3285181 CAGTTAATAGAATCAATTGGTCAAA
1 CAGTTAATAGAATCAATTAGTCAAA
3285206 CCATCCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (26 bp):
CAGTTAATAGAATCAATTAGTCAAAT
Found at i:3291080 original size:31 final size:30
Alignment explanation
Indices: 3291045--3291103 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3291035 AATTCAATTT
* **
3291045 TGTTTTTTCCTTTTTGTCTGTTTTTATTTTA
1 TGTTTTGT-CTTTTTGTCTACTTTTATTTTA
*
3291076 TGTTTTGTCTTTTTTTCTACTTTTATTT
1 TGTTTTGTCTTTTTGTCTACTTTTATTT
3291104 ACAACGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.07, C:0.10, G:0.08, T:0.75
Consensus pattern (30 bp):
TGTTTTGTCTTTTTGTCTACTTTTATTTTA
Found at i:3294912 original size:48 final size:48
Alignment explanation
Indices: 3294860--3295041 Score: 171
Period size: 48 Copynumber: 3.9 Consensus size: 48
3294850 ATGTGAGTAT
* *
3294860 TGAGATCCCATGTAAGACCATATCTGGGATATGACATTGGCATCGATA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* * * ** *
3294908 TGAGATCCCGTATAAGACCATGTCTGGGACATGGCATCAGCA-CTGTTA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC-GATA
* * * *
3294956 TGAGA-CTTCGTGTAAGACCATAGCT-GGAC-T---ATTGGCATCGATG
1 TGAGATC-CCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* *
3294999 TGAGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCAT
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
3295042 TTTTTCATGT
Statistics
Matches: 104, Mismatches: 21, Indels: 18
0.73 0.15 0.13
Matches are distributed among these distances:
43 25 0.24
44 6 0.06
45 1 0.01
46 1 0.01
47 6 0.06
48 65 0.62
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
Found at i:3295331 original size:83 final size:83
Alignment explanation
Indices: 3295200--3295400 Score: 402
Period size: 83 Copynumber: 2.4 Consensus size: 83
3295190 GGTTTATGAT
3295200 GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATGTGATTACGTTACGAAGTGATATAGATGCTG
1 GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATGTGATTACGTTACGAAGTGATATAGATGCTG
3295265 ACAGCAGCAGTGATGTAG
66 ACAGCAGCAGTGATGTAG
3295283 GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATGTGATTACGTTACGAAGTGATATAGATGCTG
1 GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATGTGATTACGTTACGAAGTGATATAGATGCTG
3295348 ACAGCAGCAGTGATGTAG
66 ACAGCAGCAGTGATGTAG
3295366 GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATG
1 GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATG
3295401 CTTATGAGAT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 118 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (83 bp):
GCACCTTTGGCAAGGATGCAAATAAGTAAGTCATGTGATTACGTTACGAAGTGATATAGATGCTG
ACAGCAGCAGTGATGTAG
Found at i:3298555 original size:16 final size:16
Alignment explanation
Indices: 3298536--3298571 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3298526 TAATTTTTTA
*
3298536 TTTTTTAAATTTGAAT
1 TTTTTTAAATTTAAAT
3298552 TTTTTTAAATTTAAAT
1 TTTTTTAAATTTAAAT
3298568 TTTT
1 TTTT
3298572 AACTTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTAAATTTAAAT
Found at i:3300330 original size:15 final size:15
Alignment explanation
Indices: 3300310--3300340 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3300300 CTCTGGAAGA
3300310 CTTAGTCTCTTCTCT
1 CTTAGTCTCTTCTCT
3300325 CTTAGTCTCTTCTCT
1 CTTAGTCTCTTCTCT
3300340 C
1 C
3300341 GAAATAAAAG
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:0.06, C:0.35, G:0.06, T:0.52
Consensus pattern (15 bp):
CTTAGTCTCTTCTCT
Found at i:3303175 original size:39 final size:39
Alignment explanation
Indices: 3303132--3303215 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
3303122 CACTTAAACT
*
3303132 TACCCCATGATACTTCTTGAAGTTATATAATTAACGACC
1 TACCCCATGATACTTCTTGAAGTTATATAAATAACGACC
* *
3303171 TACCCCATGATACTTCTTGAAGTTATATAAATAATGACT
1 TACCCCATGATACTTCTTGAAGTTATATAAATAACGACC
3303210 TACCCC
1 TACCCC
3303216 TCCTCCACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (39 bp):
TACCCCATGATACTTCTTGAAGTTATATAAATAACGACC
Found at i:3307783 original size:20 final size:20
Alignment explanation
Indices: 3307758--3307796 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3307748 TTGTTTGTAC
*
3307758 TTTTTCGTTTTTTTA-TTTTG
1 TTTTTC-TTTATTTACTTTTG
3307778 TTTTTCTTTATTTACTTTT
1 TTTTTCTTTATTTACTTTT
3307797 TTAGCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTCTTTATTTACTTTTG
Found at i:3307824 original size:20 final size:19
Alignment explanation
Indices: 3307784--3307829 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
3307774 TTTGTTTTTC
3307784 TTTATTTACTTTTTTAGCTT
1 TTTATTTACTTTTTTAGC-T
3307804 TTTATTTA-TTTATTT-GTCT
1 TTTATTTACTTT-TTTAG-CT
3307823 TTTATTT
1 TTTATTT
3307830 GTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTACTTTTTTAGCT
Found at i:3307824 original size:29 final size:28
Alignment explanation
Indices: 3307784--3307846 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
3307774 TTTGTTTTTC
3307784 TTTATTTACTTTT-TTAGCTTTTTATTTA
1 TTTATTTACTTTTATTAG-TTTTTATTTA
* * *
3307812 TTTATTTGTCTTTTATTTGTTTTTATTTG
1 TTTATTT-ACTTTTATTAGTTTTTATTTA
3307841 TTTATT
1 TTTATT
3307847 CTTTTTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.14, C:0.05, G:0.06, T:0.75
Consensus pattern (28 bp):
TTTATTTACTTTTATTAGTTTTTATTTA
Found at i:3307837 original size:10 final size:10
Alignment explanation
Indices: 3307812--3307843 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
3307802 TTTTTATTTA
3307812 TTTATTTGTCT
1 TTTATTTGT-T
3307823 TTTATTTGTT
1 TTTATTTGTT
3307833 TTTATTTGTT
1 TTTATTTGTT
3307843 T
1 T
3307844 ATTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.78
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:3308853 original size:21 final size:21
Alignment explanation
Indices: 3308813--3308853 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3308803 AATTGATACT
*
3308813 AAAATAGTTAATTTTCAAATC
1 AAAATAGTTAATTTTAAAATC
3308834 AAAAGTAGTTAA-TTTAAAAT
1 AAAA-TAGTTAATTTTAAAAT
3308854 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATAGTTAATTTTAAAATC
Found at i:3310118 original size:16 final size:17
Alignment explanation
Indices: 3310077--3310128 Score: 97
Period size: 17 Copynumber: 3.1 Consensus size: 17
3310067 TGTAATTTTT
3310077 TTAAAATTATATAGATA
1 TTAAAATTATATAGATA
3310094 TTAAAATTATATAGATA
1 TTAAAATTATATAGATA
3310111 TT-AAATTATATAGATA
1 TTAAAATTATATAGATA
3310127 TT
1 TT
3310129 TCATAGCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 16 0.46
17 19 0.54
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTAAAATTATATAGATA
Found at i:3329069 original size:26 final size:26
Alignment explanation
Indices: 3329040--3329092 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3329030 GGTCAGGACT
3329040 AAATTTTGTTTAATTATGAGGAGAAA
1 AAATTTTGTTTAATTATGAGGAGAAA
3329066 AAATTTTGTTTAATTATGAGGAGAAA
1 AAATTTTGTTTAATTATGAGGAGAAA
3329092 A
1 A
3329093 GAAGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
AAATTTTGTTTAATTATGAGGAGAAA
Found at i:3331965 original size:13 final size:14
Alignment explanation
Indices: 3331934--3331971 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
3331924 TTCATTTTTG
*
3331934 TTTTTATTTT-TAA
1 TTTTTGTTTTCTAA
3331947 TTTTTGTTTTCTAA
1 TTTTTGTTTTCTAA
3331961 -TTTTGTTTTCT
1 TTTTTGTTTTCT
3331972 TTTGTTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTTGTTTTCTAA
Found at i:3331969 original size:19 final size:19
Alignment explanation
Indices: 3331927--3331964 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3331917 ATTGCATTTC
*
3331927 ATTTTTGTTTTTATTTTTA
1 ATTTTTGTTTTTAATTTTA
3331946 ATTTTTGTTTTCTAATTTT
1 ATTTTTGTTTT-TAATTTT
3331965 GTTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (19 bp):
ATTTTTGTTTTTAATTTTA
Found at i:3333937 original size:15 final size:15
Alignment explanation
Indices: 3333917--3333953 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
3333907 AACTCGACAT
3333917 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
3333932 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
3333947 TTACTTG
1 TTACTTG
3333954 CACATTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.54
Consensus pattern (15 bp):
TTACTTGTCACTTTA
Found at i:3336536 original size:40 final size:39
Alignment explanation
Indices: 3336452--3336636 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
3336442 TTGAATGATG
* * * *
3336452 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
3336492 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
3336532 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
3336571 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
3336612 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
3336637 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.27
40 80 0.66
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:3336588 original size:79 final size:81
Alignment explanation
Indices: 3336452--3336634 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
3336442 TTGAATGATG
* *
3336452 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
3336516 TGTGTGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
3336531 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
3336593 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
3336611 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
3336635 TGAACGAGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:3336658 original size:79 final size:79
Alignment explanation
Indices: 3336505--3336669 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
3336495 GGACTAAGAT
* * ** *
3336505 CCGAAGGCATTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
3336570 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
3336584 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
3336647 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
3336663 CCGAAGG
1 CCGAAGG
3336670 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:3341746 original size:17 final size:19
Alignment explanation
Indices: 3341706--3341747 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
3341696 GCATATGCAT
3341706 ATGT-AAAGAGTTGTGACCA
1 ATGTCAAAGAGTTGTGA-CA
3341725 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
3341742 ATGTCA
1 ATGTCA
3341748 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:3346687 original size:22 final size:24
Alignment explanation
Indices: 3346653--3346696 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
3346643 CGTCATAATA
*
3346653 TCATCTATTTCAT-ATCACAAAAT
1 TCATCTATATCATCATCACAAAAT
*
3346676 TCAT-TATATCATCATCTCAAA
1 TCATCTATATCATCATCACAAA
3346697 CCAAACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (24 bp):
TCATCTATATCATCATCACAAAAT
Found at i:3347373 original size:48 final size:47
Alignment explanation
Indices: 3347270--3347398 Score: 159
Period size: 48 Copynumber: 2.7 Consensus size: 47
3347260 AACGAATAAG
* * ** *
3347270 TACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGGAG
1 TACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACAAAA
* * * *
3347317 TACCTATACTATAGCCCGTAGCCAAAATCAAGGTAACTCCTCACAAAA
1 TACTTATACCATGGCCCGTAGCC-AAATCAAGGTAACTCATCACAAAA
*
3347365 TACTTATACCATGGCGCGTAGCCAAATCAAGGTA
1 TACTTATACCATGGCCCGTAGCCAAATCAAGGTA
3347399 TTTACTTGCA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 31 0.46
48 37 0.54
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (47 bp):
TACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACAAAA
Found at i:3348559 original size:13 final size:13
Alignment explanation
Indices: 3348541--3348565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3348531 ACAAATGATA
3348541 AAATTTTCACACC
1 AAATTTTCACACC
3348554 AAATTTTCACAC
1 AAATTTTCACAC
3348566 ATATCACACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACC
Found at i:3355960 original size:21 final size:21
Alignment explanation
Indices: 3355922--3355961 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3355912 AGCAAGCCGT
*
3355922 TTTAGGATTTTAATTTAGTAG
1 TTTAGGATTTTAACTTAGTAG
*
3355943 TTTAGGATTTTAGCTTAGT
1 TTTAGGATTTTAACTTAGT
3355962 TTTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.53
Consensus pattern (21 bp):
TTTAGGATTTTAACTTAGTAG
Found at i:3365163 original size:48 final size:47
Alignment explanation
Indices: 3365063--3365198 Score: 132
Period size: 48 Copynumber: 2.8 Consensus size: 47
3365053 CATTTGGGGA
* * **
3365063 ATATGTGTGCCAATGTAAGATCATGTATGGGACATGGCATCGGCCACG
1 ATATGTGTGCCAGTGTAAGACCATGTAT-GGACATGGCATCGAACACG
*
3365111 ATATGTGTGCCAGTGTAAGACCATGTTTAGGACATGGCATC-AACATTC-
1 ATATGTGTGCCAGTGTAAGACCATGTAT-GGACATGGCATCGAACA--CG
** * *
3365159 ATATGTGCACTAGTGTAAGACCATGTCTGAGACATGGCAT
1 ATATGTGTGCCAGTGTAAGACCATGTATG-GACATGGCAT
3365199 TAGCGTTGAG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 3 0.04
48 71 0.95
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (47 bp):
ATATGTGTGCCAGTGTAAGACCATGTATGGACATGGCATCGAACACG
Found at i:3372344 original size:48 final size:48
Alignment explanation
Indices: 3372273--3372604 Score: 371
Period size: 48 Copynumber: 6.9 Consensus size: 48
3372263 ACATTTGGAG
* *
3372273 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCC
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
3372321 GATATGTGTGCTAGTGTAAGACCATTTCTGGGACATGACATCGGCCAC
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
3372369 GATATGAGAGCCAGTGTAAGACCATGTCTGGTACATGGCATCAGCATT
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
3372417 GATATGTGCA-CTAGTGTAATACCATGTCTGGAACATGGCATCGGCCAC
1 GATATGTG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
3372465 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTT
1 GA-TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
3372513 GAGATGAGAGCTAGTGTAAGAACATGTCTGGGACTTGGCATAGGCCTC
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
3372561 GACATGTGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGG
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
3372605 TAATTCACTC
Statistics
Matches: 235, Mismatches: 45, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 231 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:3374604 original size:43 final size:42
Alignment explanation
Indices: 3374554--3374693 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 42
3374544 TATCCCGGAT
*
3374554 ATGGTCTTACATGTTAACATATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTTAACATAT-TCGATGCCAATGTCCCAGAC
* * * * *
3374597 AGGGTCTTATACG--AATCATATGCGATGCCAATGTCCCAGAG
1 ATGGTCTTACATGTTAA-CATATTCGATGCCAATGTCCCAGAC
* *
3374638 ATGGTCTTACATGTTTTATCA-CTTCGATGCCAATGTCCCAGAC
1 ATGGTCTTACATG--TTAACATATTCGATGCCAATGTCCCAGAC
3374681 ATGGTCTTACATG
1 ATGGTCTTACATG
3374694 AAATCACATC
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
41 29 0.37
42 5 0.06
43 42 0.53
44 2 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACATGTTAACATATTCGATGCCAATGTCCCAGAC
Found at i:3376202 original size:85 final size:87
Alignment explanation
Indices: 3376096--3376260 Score: 244
Period size: 87 Copynumber: 1.9 Consensus size: 87
3376086 CGTTGCTTGA
* * * *
3376096 GAAATCGGAGCCACCTATT-AAATTA-TTTTTTCTCTCCTTAAATATCCATATTTTTTACGACTA
1 GAAATCGGAGACACCTATTAAAATAATTTTTTTCTCTCCTTAAATATCCATATCTCTTACGACTA
*
3376159 TTTTAAAAAATACATGCGAGAT
66 TTTAAAAAAATACATGCGAGAT
* * *
3376181 GAAATCGGTGACACTTATTAAAATAATTTTTTTCTCTCCTTAAATATTCATATCTCTTACGACTA
1 GAAATCGGAGACACCTATTAAAATAATTTTTTTCTCTCCTTAAATATCCATATCTCTTACGACTA
3376246 TTTAAAAAAATACAT
66 TTTAAAAAAATACAT
3376261 ATTATCGCAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 16 0.23
86 5 0.07
87 49 0.70
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (87 bp):
GAAATCGGAGACACCTATTAAAATAATTTTTTTCTCTCCTTAAATATCCATATCTCTTACGACTA
TTTAAAAAAATACATGCGAGAT
Found at i:3382655 original size:29 final size:30
Alignment explanation
Indices: 3382612--3382715 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 30
3382602 GGTGACAACC
3382612 ATCGAATTATGAAAAGGGATAGCTTTGGCT
1 ATCGAATTATGAAAAGGGATAGCTTTGGCT
* * *
3382642 ATCG-ATTATGAAAAGGGAT-GGTGATGGCC
1 ATCGAATTATGAAAAGGGATAGCT-TTGGCT
* * * *
3382671 ATCGAATTATGTAAAGGGATAACTTCGACT
1 ATCGAATTATGAAAAGGGATAGCTTTGGCT
3382701 ATCG-ATTATGAAAAG
1 ATCGAATTATGAAAAG
3382716 AGATGGTGAC
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.03
29 33 0.55
30 24 0.40
31 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (30 bp):
ATCGAATTATGAAAAGGGATAGCTTTGGCT
Found at i:3382660 original size:59 final size:59
Alignment explanation
Indices: 3382561--3382746 Score: 275
Period size: 59 Copynumber: 3.2 Consensus size: 59
3382551 TCATAAACCA
* * *
3382561 ATGAAAAGGGATAGCTTCGACTATCGATTATGGAATGGGATGGTGACAACCATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * *
3382620 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATGGCCATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * *
3382679 ATGTAAAGGGATAACTTCGACTATCGATTATGAAAAGAGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
3382737 ATGAAAAGGG
1 ATGAAAAGGG
3382747 GTGGTGACGA
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
58 13 0.12
59 99 0.88
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
Found at i:3382768 original size:59 final size:58
Alignment explanation
Indices: 3382705--3382877 Score: 150
Period size: 59 Copynumber: 2.9 Consensus size: 58
3382695 TCGACTATCG
* * * *
3382705 ATTATGAAAAGAGATGGTGACGACCATCAATTATGAAAAGGGGTGGTGACGACCACCGA
1 ATTATGAAAAGAAAAGCT-ACGACCATCAATTATGAAAAGGGATGGTGACGACCACCGA
* * * * * *
3382764 ATTATGAAAAGGAAAAGCTTCGACTATCGATTATGAAAATGGATGGTGACGACCATCGG
1 ATTATGAAAA-GAAAAGCTACGACCATCAATTATGAAAAGGGATGGTGACGACCACCGA
* * * * * * *
3382823 ATTATGAAAAGGGATAGCTTCGGCTATCGATTA-GAAAAAGGGATAGTGACGACCA
1 ATTATGAAAA-GAAAAGCTACGACCATCAATTATG-AAAAGGGATGGTGACGACCA
3382878 TCAACTATAA
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 1 0.01
59 91 0.94
60 5 0.05
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (58 bp):
ATTATGAAAAGAAAAGCTACGACCATCAATTATGAAAAGGGATGGTGACGACCACCGA
Found at i:3382828 original size:147 final size:147
Alignment explanation
Indices: 3382578--3382904 Score: 440
Period size: 147 Copynumber: 2.2 Consensus size: 147
3382568 GGGATAGCTT
* * * * * * * * * *
3382578 CGACTATCGATTATGGAATGGGATGGTGACAACCATCGAATTATGAAAAGGGATAGCTTTGGCTA
1 CGACCATCAATTATGAAAAGGGATGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
* * *
3382643 TCGATTATGAAAAGGGATGGTGATGGCCATCGAATTATGTAAAGGGATAACTTCGACTATCGATT
66 TCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTCGACTATCGATT
*
3382708 ATG-AAAAGAGATGGTGA
131 A-GAAAAAGAGATAGTGA
*
3382725 CGACCATCAATTATGAAAAGGGGTGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
1 CGACCATCAATTATGAAAAGGGATGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
* * * *
3382790 TCGATTATGAAAATGGATGGTGACGACCATCGGATTATGAAAAGGGATAGCTTCGGCTATCGATT
66 TCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTCGACTATCGATT
*
3382855 AGAAAAAGGGATAGTGA
131 AGAAAAAGAGATAGTGA
* *
3382872 CGACCATCAACTATAAAAAGGGATGGTGACGAC
1 CGACCATCAATTATGAAAAGGGATGGTGACGAC
3382905 TTTGTGTCCC
Statistics
Matches: 156, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
146 1 0.01
147 155 0.99
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (147 bp):
CGACCATCAATTATGAAAAGGGATGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
TCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTCGACTATCGATT
AGAAAAAGAGATAGTGA
Found at i:3382863 original size:88 final size:88
Alignment explanation
Indices: 3382646--3382837 Score: 262
Period size: 88 Copynumber: 2.2 Consensus size: 88
3382636 TTGGCTATCG
* * * * * *
3382646 ATTATGAAAAGGGATGGTGATGGCCATCGAATTATGTAAAGGGATAA-CTTCGACTATCGATTAT
1 ATTATGAAAAGGGATGCTGACGACCACCGAATTATG-AAAAGGAAAAGCTTCGACTATCGATTAT
3382710 GAAAAGAGATGGTGACGACCATCA
65 GAAAAGAGATGGTGACGACCATCA
* *
3382734 ATTATGAAAAGGGGTGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTATCGATTATG
1 ATTATGAAAAGGGATGCTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTATCGATTATG
*
3382799 AAAATG-GATGGTGACGACCATCGG
66 AAAA-GAGATGGTGACGACCATC-A
3382823 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
3382838 AGCTTCGGCT
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
87 8 0.09
88 70 0.75
89 15 0.16
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.23
Consensus pattern (88 bp):
ATTATGAAAAGGGATGCTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTATCGATTATG
AAAAGAGATGGTGACGACCATCA
Found at i:3382878 original size:59 final size:59
Alignment explanation
Indices: 3382725--3382892 Score: 205
Period size: 59 Copynumber: 2.9 Consensus size: 59
3382715 GAGATGGTGA
* * * *
3382725 CGACCATCAATTATGAAAAGGGGTGGTGACGACCACCGAATTATGAAAAGGAAAAGCTT
1 CGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGAAAAGCTT
* * * *
3382784 CGACTATCGATTATGAAAATGGATGGTGACGACCATCGGATTATGAAAAGGGATAGCTT
1 CGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGAAAAGCTT
* * * *
3382843 CGGCTATCGATTA-GAAAAAGGGATAGTGACGACCATC-AACTATAAAAAGG
1 CGACTATCGATTATG-AAAAGGGATGGTGACGACCATCGAATTATGAAAAGG
3382893 GATGGTGACG
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
58 11 0.12
59 83 0.88
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (59 bp):
CGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGAAAAGCTT
Found at i:3388421 original size:29 final size:29
Alignment explanation
Indices: 3388389--3388652 Score: 180
Period size: 29 Copynumber: 9.0 Consensus size: 29
3388379 TTTGACTATA
3388389 AATTATGAAAAGGGATGGTGACGACCATC
1 AATTATGAAAAGGGATGGTGACGACCATC
*
3388418 AATTATGAAAAGGGATGG-GACGACCATTG
1 AATTATGAAAAGGGATGGTGACGACCA-TC
* ** * *
3388447 AATTATGAAAAGGGATAGCT-TTGGCTATC
1 AATTATGAAAAGGGAT-GGTGACGACCATC
* * *
3388476 GATTATGAAAAGGGATGGTGAAGACCATAA
1 AATTATGAAAAGGGATGGTGACGACCAT-C
* * * * *
3388506 AATTATGGAAAGGGAAAGCT-TCTG-CTATC
1 AATTATGAAAAGGG-ATGGTGAC-GACCATC
* *
3388535 GATTATGAAAAGGGATGGTGATGACCATC
1 AATTATGAAAAGGGATGGTGACGACCATC
* * * * *
3388564 GAATTATGAAAAGGAATAGCT-TCGGCTATC
1 -AATTATGAAAAGGGAT-GGTGACGACCATC
* * *
3388594 GATTATAAAAAGGGATGGTGACGACCATT
1 AATTATGAAAAGGGATGGTGACGACCATC
* *
3388623 AACTATGAAATA-GGATTGTGACGACCATC
1 AATTATGAAA-AGGGATGGTGACGACCATC
3388652 A
1 A
3388653 TGATTCCACT
Statistics
Matches: 173, Mismatches: 49, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
28 16 0.09
29 112 0.65
30 39 0.23
31 6 0.03
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
AATTATGAAAAGGGATGGTGACGACCATC
Found at i:3388520 original size:59 final size:59
Alignment explanation
Indices: 3388419--3388621 Score: 293
Period size: 59 Copynumber: 3.5 Consensus size: 59
3388409 ACGACCATCA
*
3388419 ATTATGAAAAGGGATGG-GACGACCATTGAATTATGAAAAGGGATAGCTTTGGCTATCG
1 ATTATGAAAAGGGATGGTGACGACCATAGAATTATGAAAAGGGATAGCTTTGGCTATCG
* * * *
3388477 ATTATGAAAAGGGATGGTGAAGACCATAAAATTATGGAAAGGGAAAGCTTCT-GCTATCG
1 ATTATGAAAAGGGATGGTGACGACCATAGAATTATGAAAAGGGATAGCTT-TGGCTATCG
* * * *
3388536 ATTATGAAAAGGGATGGTGATGACCATCGAATTATGAAAAGGAATAGCTTCGGCTATCG
1 ATTATGAAAAGGGATGGTGACGACCATAGAATTATGAAAAGGGATAGCTTTGGCTATCG
*
3388595 ATTATAAAAAGGGATGGTGACGACCAT
1 ATTATGAAAAGGGATGGTGACGACCAT
3388622 TAACTATGAA
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
58 17 0.13
59 110 0.86
60 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (59 bp):
ATTATGAAAAGGGATGGTGACGACCATAGAATTATGAAAAGGGATAGCTTTGGCTATCG
Found at i:3394805 original size:23 final size:23
Alignment explanation
Indices: 3394778--3394824 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3394768 ACAATATTAC
*
3394778 AATATTACTTGAATAGTTGTAAA
1 AATATTACTTGAATAGTTATAAA
**
3394801 AATATTGTTTGAATAGTTATAAA
1 AATATTACTTGAATAGTTATAAA
3394824 A
1 A
3394825 TTAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (23 bp):
AATATTACTTGAATAGTTATAAA
Found at i:3407553 original size:109 final size:109
Alignment explanation
Indices: 3407362--3407579 Score: 409
Period size: 109 Copynumber: 2.0 Consensus size: 109
3407352 AAATTGAATA
3407362 AGTTGTAAAATACATGTTCTAGAAGCTTTGAACATGAAATTGTCATGGATTTTTAATTAGAGGGT
1 AGTTGTAAAATACATGTTCTAGAAGCTTTGAACATGAAATTGTCATGGATTTTTAATTAGAGGGT
*
3407427 CTTAAATAGAAATTTGACCAATTTCTAAATTTATGGACAAAAAT
66 CTTAAATAGAAATTTGACCAATTTCTAAATTTACGGACAAAAAT
*
3407471 AGTTGTAAAATACATGTTCTAGAAGCTTTGAGCATGAAATTGTCATGGATTTTTAATTAGAGGGT
1 AGTTGTAAAATACATGTTCTAGAAGCTTTGAACATGAAATTGTCATGGATTTTTAATTAGAGGGT
*
3407536 CTTAAATAGCAATTTGACCAATTTCTAAATTTACGGACAAAAAT
66 CTTAAATAGAAATTTGACCAATTTCTAAATTTACGGACAAAAAT
3407580 GGGCATGGAT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (109 bp):
AGTTGTAAAATACATGTTCTAGAAGCTTTGAACATGAAATTGTCATGGATTTTTAATTAGAGGGT
CTTAAATAGAAATTTGACCAATTTCTAAATTTACGGACAAAAAT
Found at i:3413992 original size:19 final size:18
Alignment explanation
Indices: 3413965--3414003 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
3413955 AGCCCCACTA
3413965 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
*
3413984 TTAATTCTTCATTACAAT
1 TTAACTCTTCATTACAAT
3414002 TT
1 TT
3414004 TACATCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:3414531 original size:12 final size:13
Alignment explanation
Indices: 3414507--3414671 Score: 116
Period size: 12 Copynumber: 12.8 Consensus size: 13
3414497 GTAATATACC
*
3414507 ACATAACAAACAT
1 ACATAACATACAT
3414520 ACA-AACATACAT
1 ACATAACATACAT
3414532 ACA-AA-AT--AT
1 ACATAACATACAT
*
3414541 ACATAACAATATAT
1 ACATAAC-ATACAT
3414555 AACATAACATACAT
1 -ACATAACATACAT
* *
3414569 ACA-AATATACAA
1 ACATAACATACAT
3414581 ACATAACAATA-A-
1 ACATAAC-ATACAT
3414593 ACATAACATACAT
1 ACATAACATACAT
*
3414606 ATATAACAGTACAT
1 ACATAACA-TACAT
3414620 AGCATAACATAACAT
1 A-CATAACAT-ACAT
* *
3414635 AACAT-ACAAATAT
1 -ACATAACATACAT
3414648 ACAT-ACATAACACT
1 ACATAACAT-ACA-T
3414662 ACATAACATA
1 ACATAACATA
3414672 ACTATAACAA
Statistics
Matches: 124, Mismatches: 11, Indels: 33
0.74 0.07 0.20
Matches are distributed among these distances:
9 5 0.04
10 2 0.02
11 5 0.04
12 40 0.32
13 21 0.17
14 26 0.21
15 24 0.19
16 1 0.01
ACGTcount: A:0.58, C:0.19, G:0.01, T:0.21
Consensus pattern (13 bp):
ACATAACATACAT
Found at i:3414541 original size:37 final size:36
Alignment explanation
Indices: 3414499--3414673 Score: 125
Period size: 37 Copynumber: 4.8 Consensus size: 36
3414489 ACATAATAGT
3414499 AATATACCACATAACAA-ACATACA-AACATACATACA
1 AATATA-CACATAACAATA-ATACATAACATACATACA
*
3414535 AA-ATATACATAACAATATATAACATAACATACATACA
1 AATATACACATAACAATA-AT-ACATAACATACATACA
*
3414572 AATATACAAACATAACAATAA-ACATAACATACATATA
1 AATATAC--ACATAACAATAATACATAACATACATACA
* *
3414609 TAACAGT--ACATAGC-AT-A-ACATAACATAACATACA
1 -AATA-TACACATAACAATAATACATAACAT-ACATACA
*
3414643 AATATACATACATAACACTACATAACATAAC
1 AATATAC--ACATAACAATA-AT-ACATAAC
3414674 TATAACAACC
Statistics
Matches: 111, Mismatches: 10, Indels: 31
0.73 0.07 0.20
Matches are distributed among these distances:
32 1 0.01
33 13 0.12
34 17 0.15
35 12 0.11
36 11 0.10
37 30 0.27
38 6 0.05
39 3 0.03
40 11 0.10
41 7 0.06
ACGTcount: A:0.58, C:0.20, G:0.01, T:0.21
Consensus pattern (36 bp):
AATATACACATAACAATAATACATAACATACATACA
Found at i:3414563 original size:5 final size:5
Alignment explanation
Indices: 3414507--3414680 Score: 99
Period size: 5 Copynumber: 35.6 Consensus size: 5
3414497 GTAATATACC
3414507 ACATA ACA-A ACAT- ACA-A ACAT- ACAT- ACA-A A-ATA TACATA ACA-A
1 ACATA ACATA ACATA ACATA ACATA ACATA ACATA ACATA -ACATA ACATA
* *
3414550 TATATA ACATA ACAT- ACATA CAAATA TACA-A ACATA ACAATAA ACATA
1 -ACATA ACATA ACATA ACATA -ACATA -ACATA ACATA AC-AT-A ACATA
* * *
3414598 ACAT- ACAT- ATATA ACAGT- ACATA GCATA ACATA ACATA ACATA CAAATA
1 ACATA ACATA ACATA ACA-TA ACATA ACATA ACATA ACATA ACATA -ACATA
3414647 TACAT- ACATA ACACT- ACATA ACATA ACTATA ACA
1 -ACATA ACATA ACA-TA ACATA ACATA AC-ATA ACA
3414681 ACCCATTTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 44
0.71 0.06 0.23
Matches are distributed among these distances:
3 1 0.01
4 40 0.30
5 63 0.47
6 28 0.21
7 3 0.02
ACGTcount: A:0.58, C:0.20, G:0.01, T:0.21
Consensus pattern (5 bp):
ACATA
Found at i:3414581 original size:65 final size:68
Alignment explanation
Indices: 3414512--3414671 Score: 170
Period size: 70 Copynumber: 2.3 Consensus size: 68
3414502 ATACCACATA
*
3414512 ACAAACATAC-AAACAT-ACATACAAA-ATATACA-TAACAATA-TATAACATAACAT-ACATAC
1 ACAAACATACAAAACATAACATACAAATATA-ACAGT-AC-ATAGCATAACATAACATAACATAC
3414571 AAATAT
63 AAATAT
*
3414577 ACAAACATAACAATAAACATAACATACATATATAACAGTACATAGCATAACATAACATAACATAC
1 ACAAACAT-AC-A-AAACATAACATACAAATATAACAGTACATAGCATAACATAACATAACATAC
3414642 AAATAT
63 AAATAT
* **
3414648 ACATACATAACACTACATAACATA
1 ACAAACAT-ACAAAACATAACATA
3414672 ACTATAACAA
Statistics
Matches: 81, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
65 8 0.10
66 2 0.02
69 19 0.23
70 26 0.32
71 26 0.32
ACGTcount: A:0.58, C:0.19, G:0.01, T:0.21
Consensus pattern (68 bp):
ACAAACATACAAAACATAACATACAAATATAACAGTACATAGCATAACATAACATAACATACAAA
TAT
Found at i:3414639 original size:55 final size:54
Alignment explanation
Indices: 3414507--3414673 Score: 146
Period size: 55 Copynumber: 3.0 Consensus size: 54
3414497 GTAATATACC
* *
3414507 ACATAACAAACATACAAACATACATACA-AAATATACATAACAATATATAACATAACAT
1 ACAT-ACAAATATACAAACATACA-A-ATAAACATACAT-AC-ATATATAACATAACAT
3414565 ACATACAAATATACAAACATA-ACAATAAACATAACATACATATATAACAGT-ACAT
1 ACATACAAATATACAAACATACA-AATAAACAT-ACATACATATATAACA-TAACAT
* * *
3414620 AGCATA-ACATA-ACATAACATACAAATATACATACATAACACTACATAACATAAC
1 A-CATACAAATATACA-AACATACAAATAAACATACAT-ACA-TATATAACATAAC
3414674 TATAACAACC
Statistics
Matches: 94, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
54 7 0.07
55 38 0.40
56 25 0.27
57 20 0.21
58 4 0.04
ACGTcount: A:0.58, C:0.20, G:0.01, T:0.21
Consensus pattern (54 bp):
ACATACAAATATACAAACATACAAATAAACATACATACATATATAACATAACAT
Found at i:3416374 original size:3 final size:3
Alignment explanation
Indices: 3416368--3416437 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
3416358 ATAATTTTGA
* * *
3416368 TAT TAT TAT TAT TAT TACT T-T CAT TAT TAT TAG TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
**
3416413 TAT TGC TAT TAT TGA- TAT TAT TAT T
1 TAT TAT TAT TAT T-AT TAT TAT TAT T
3416438 CGCTTATATA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:3416712 original size:4 final size:4
Alignment explanation
Indices: 3416703--3416729 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3416693 TATTTTCATT
3416703 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
3416730 ATCTATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:3416795 original size:28 final size:27
Alignment explanation
Indices: 3416752--3416849 Score: 92
Period size: 29 Copynumber: 3.5 Consensus size: 27
3416742 TTTTGTATAG
*
3416752 ATATTTT-ATTTCTTTCAAATATTTTA
1 ATATTTTAATTTATTTCAAATATTTTA
* * *
3416778 ACATCTTTAATTTATTTCAACTTATTTCA
1 ATAT-TTTAATTTATTTCAA-ATATTTTA
*
3416807 ATATTGTTAATTTATCT-AAATTTATTTTA
1 ATATT-TTAATTTATTTCAAA--TATTTTA
3416836 ATATTTTAATTTAT
1 ATATTTTAATTTAT
3416850 ATATTATATT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
26 3 0.05
27 3 0.05
28 22 0.38
29 30 0.52
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (27 bp):
ATATTTTAATTTATTTCAAATATTTTA
Found at i:3418338 original size:20 final size:20
Alignment explanation
Indices: 3418284--3418338 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3418274 AACTTTTGGG
* *
3418284 ACTTCTACCCATATAGGTCC
1 ACTTCTACCCATACAAGTCC
* *
3418304 ACTTTTATCCATACAAGTCC
1 ACTTCTACCCATACAAGTCC
*
3418324 ACTTCTACCCGTACA
1 ACTTCTACCCATACA
3418339 TCTTGTGAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.35, G:0.07, T:0.31
Consensus pattern (20 bp):
ACTTCTACCCATACAAGTCC
Found at i:3420689 original size:49 final size:49
Alignment explanation
Indices: 3420629--3420931 Score: 483
Period size: 49 Copynumber: 6.3 Consensus size: 49
3420619 CAAGACAGTG
3420629 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
3420678 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
3420727 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
3420776 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
3420823 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * *
3420870 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
3420919 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
3420932 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 93 0.39
48 1 0.00
49 147 0.61
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:3421106 original size:37 final size:37
Alignment explanation
Indices: 3421050--3421128 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
3421040 CCGAGCTCTA
* *
3421050 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
3421087 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
3421124 AAGAC
1 AAGAC
3421129 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:3423683 original size:43 final size:42
Alignment explanation
Indices: 3423633--3423783 Score: 194
Period size: 43 Copynumber: 3.5 Consensus size: 42
3423623 TATCCCTGAT
* * * * *
3423633 ATGGTCTTATATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-AATGCCAATGTACCAGAC
* * *
3423676 AAGGTCTTACACGTAATCACAATATAATGCCAATGTACCAGGC
1 ATGGTCTTACATGTAATCAC-ATATAATGCCAATGTACCAGAC
*
3423719 ATGGTCTTACATGTAATCACAATAAAATGCCAATGTACCAGAC
1 ATGGTCTTACATGTAATCAC-ATATAATGCCAATGTACCAGAC
3423762 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
3423784 TTCTGTAACC
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 2 0.02
43 89 0.94
44 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACATATAATGCCAATGTACCAGAC
Found at i:3425235 original size:18 final size:18
Alignment explanation
Indices: 3425214--3425283 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 18
3425204 AACAGTAATA
*
3425214 ACATCCATACATAACAAT
1 ACATACATACATAACAAT
*
3425232 ACATAACATA-ATAGTAAACAT
1 ACAT-ACATACATA--ACA-AT
3425253 AACATACATACATAACAAT
1 -ACATACATACATAACAAT
3425272 ACATAACATACA
1 ACAT-ACATACA
3425284 AAATAGACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
18 11 0.26
19 13 0.31
20 4 0.10
21 7 0.17
22 7 0.17
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.21
Consensus pattern (18 bp):
ACATACATACATAACAAT
Found at i:3425242 original size:5 final size:5
Alignment explanation
Indices: 3425177--3425281 Score: 50
Period size: 5 Copynumber: 21.6 Consensus size: 5
3425167 GGGTATTACA
* *
3425177 ATAAC AT-AC ATACAA ATATAC A-AAC ATAAC AGT-A- ATAAC AT-CC
1 ATAAC ATAAC ATA-AC ATA-AC ATAAC ATAAC A-TAAC ATAAC ATAAC
*
3425220 AT-AC ATAAC A-ATAC ATAAC ATAAT AGTAAAC ATAAC AT-AC AT-AC
1 ATAAC ATAAC ATA-AC ATAAC ATAAC A-T-AAC ATAAC ATAAC ATAAC
3425264 ATAAC A-ATAC ATAAC ATA
1 ATAAC ATA-AC ATAAC ATA
3425282 CAAAATAGAC
Statistics
Matches: 79, Mismatches: 7, Indels: 28
0.69 0.06 0.25
Matches are distributed among these distances:
3 1 0.01
4 25 0.32
5 39 0.49
6 11 0.14
7 3 0.04
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (5 bp):
ATAAC
Found at i:3425264 original size:40 final size:37
Alignment explanation
Indices: 3425176--3425281 Score: 137
Period size: 40 Copynumber: 2.9 Consensus size: 37
3425166 GGGGTATTAC
*
3425176 AATAACATACATACA-AA-TATACA-AACATAACAGT
1 AATAACATACATACATAACAATACATAACATAACAGT
* *
3425210 AATAACATCCATACATAACAATACATAACATAATAGT
1 AATAACATACATACATAACAATACATAACATAACAGT
3425247 AAACATAACATACATACATAACAATACATAACATA
1 --A-ATAACATACATACATAACAATACATAACATA
3425282 CAAAATAGAC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
34 14 0.23
35 2 0.03
36 5 0.08
37 10 0.16
39 1 0.02
40 30 0.48
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.22
Consensus pattern (37 bp):
AATAACATACATACATAACAATACATAACATAACAGT
Found at i:3425293 original size:23 final size:23
Alignment explanation
Indices: 3425249--3425293 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3425239 ATAATAGTAA
*
3425249 ACATAACATACATACATAACAAT
1 ACATAACATACATAAATAACAAT
3425272 ACATAACATACA-AAATAGACAA
1 ACATAACATACATAAATA-ACAA
3425294 AACAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.60, C:0.20, G:0.02, T:0.18
Consensus pattern (23 bp):
ACATAACATACATAAATAACAAT
Found at i:3425482 original size:29 final size:29
Alignment explanation
Indices: 3425421--3425486 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
3425411 AATAAAAATA
* *
3425421 AAAAATAAAAGTCAAATATAATATGAATT
1 AAAAATAAAAGTCAAATATAATACGAATC
* *
3425450 AAAAATCAGAAGTCAAATATAATACGTA-C
1 AAAAAT-AAAAGTCAAATATAATACGAATC
3425479 AAAAATAA
1 AAAAATAA
3425487 TTAGTTTGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.03
29 12 0.39
30 18 0.58
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAAATAAAAGTCAAATATAATACGAATC
Found at i:3429807 original size:37 final size:37
Alignment explanation
Indices: 3429765--3429851 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
3429755 TAGTATTTTA
* *
3429765 TTAATTTAATATTAAAGTGAT-TATCTTAATATTAAAT
1 TTAATTTAATATTAAACTGATAGAT-TTAATATTAAAT
* * *
3429802 TTAATTTAATATTTACCTTATAGATTTAATATTAAAT
1 TTAATTTAATATTAAACTGATAGATTTAATATTAAAT
*
3429839 TTAATCTAATATT
1 TTAATTTAATATT
3429852 TATCTAGATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 41 0.95
38 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (37 bp):
TTAATTTAATATTAAACTGATAGATTTAATATTAAAT
Found at i:3429815 original size:12 final size:12
Alignment explanation
Indices: 3429765--3429853 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
3429755 TAGTATTTTA
3429765 TTAATTTAATAT
1 TTAATTTAATAT
* * * *
3429777 TAAAGTGATTAT
1 TTAATTTAATAT
3429789 CTTAATATTAA-AT
1 -TTAAT-TTAATAT
3429802 TTAATTTAATAT
1 TTAATTTAATAT
** *
3429814 TTACCTTATAGAT
1 TTAATTTA-ATAT
3429827 TTAATATTAA-AT
1 TTAAT-TTAATAT
*
3429839 TTAATCTAATAT
1 TTAATTTAATAT
3429851 TTA
1 TTA
3429854 TCTAGATAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
11 7 0.12
12 33 0.58
13 12 0.21
14 5 0.09
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (12 bp):
TTAATTTAATAT
Found at i:3439899 original size:305 final size:306
Alignment explanation
Indices: 3439340--3439936 Score: 826
Period size: 305 Copynumber: 2.0 Consensus size: 306
3439330 TAGCCCAAAA
* * ** *
3439340 TTGGGTCTAGTTGGAACAGAGGTTTCGGGACTGCAAAATTCGAGATAGAAATAATTATTTTATGA
1 TTGGGCCTAGTCGGAACAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGA
* *
3439405 TTATTTTGAGGTCTATGATATGATTGCATGAATGTGTGAAAATTTCGTGAAGAAATTCTATGCAT
66 TTATTTTAAGGTCTATGATATAATTGCATGAATGTGTGAAAATTTCGTGAAGAAATTCTATGCAT
* * *
3439470 AAAGTGCTCAATTTGAAGTTAGGGACTAAATTGAATAAGTTGCAAAGCTTTCATTCTAGAAGTTT
131 AAAGTGCTCAATTTGAAATTAGGGACTAAATTGAATAAATTGCAAAACTTTCATTCTAGAAGTTT
* * ** * * *
3439535 CTAGTATGAAATTTCTTTGAAATCTTAATTAGGAGGTCTTAAATAGAAATTTGACCAATTTCTAA
196 CTAGCATAAAATTAATTAGAAATATTAATTAGGAGGTCTTAAAGAGAAATTTGACCAATTTCTAA
*
3439600 GCG-ATTGACAAAAATTGGACATGGATGGAATGTAATATCCTGATT
261 GCGTATGGACAAAAATTGGACATGGATGGAATGTAATATCCTGATT
* * *
3439645 TTGGGCCTAGTCGGAATAGTGGTTTCGTGACCACAAAATCCGAGATAGAAATAATTATTTTATGA
1 TTGGGCCTAGTCGGAACAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGA
* *
3439710 TTATTTTAAGGTCTATGATATAATTGCATGATTGTGTGAAAATTTCGTGAAGAAATTTTATGCAT
66 TTATTTTAAGGTCTATGATATAATTGCATGAATGTGTGAAAATTTCGTGAAGAAATTCTATGCAT
* * *
3439775 AAAGTGCTTAATTTGAAATTTGGGACTAAATTGAATAAATTGCAAAACTTGT-GTTCTAGAAGTA
131 AAAGTGCTCAATTTGAAATTAGGGACTAAATTGAATAAATTGCAAAACTT-TCATTCTAGAAGT-
* * ** *
3439839 TT-TTGCATAAAATTGAATTAG-ATTATTAATTA-GAGGTCCTTAAAGATTAATTTTACCAATTT
194 TTCTAGCATAAAATT-AATTAGAAATATTAATTAGGAGGT-CTTAAAGAGAAATTTGACCAATTT
* *
3439901 TTAAGTGTATGGACAAAAATTGGACATGGATGGAAT
257 CTAAGCGTATGGACAAAAATTGGACATGGATGGAAT
3439937 TTTTGGAAAG
Statistics
Matches: 254, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
304 5 0.02
305 216 0.85
306 33 0.13
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (306 bp):
TTGGGCCTAGTCGGAACAGAGGTTTCGGGACCACAAAATCCGAGATAGAAATAATTATTTTATGA
TTATTTTAAGGTCTATGATATAATTGCATGAATGTGTGAAAATTTCGTGAAGAAATTCTATGCAT
AAAGTGCTCAATTTGAAATTAGGGACTAAATTGAATAAATTGCAAAACTTTCATTCTAGAAGTTT
CTAGCATAAAATTAATTAGAAATATTAATTAGGAGGTCTTAAAGAGAAATTTGACCAATTTCTAA
GCGTATGGACAAAAATTGGACATGGATGGAATGTAATATCCTGATT
Found at i:3440887 original size:48 final size:48
Alignment explanation
Indices: 3440816--3440913 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
3440806 GTATCGGTAT
3440816 CGGCATTCCGTAGAAGATGGTTGAGACACATGATTGAGAAAAAGGTCC
1 CGGCATTCCGTAGAAGATGGTTGAGACACATGATTGAGAAAAAGGTCC
*
3440864 CGGCATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCC
1 CGGCATTCCGTAGAAGATGGTTGAGACACATGATTGAGAAAAAGGTCC
3440912 CG
1 CG
3440914 TTGAACCTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (48 bp):
CGGCATTCCGTAGAAGATGGTTGAGACACATGATTGAGAAAAAGGTCC
Found at i:3442956 original size:30 final size:30
Alignment explanation
Indices: 3442922--3442979 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3442912 CCGAGCCTAG
3442922 GGGCAAAAGTGTAAATATGCAAAAGTTTCA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTCA
* * *
3442952 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
3442980 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTCA
Found at i:3454930 original size:20 final size:20
Alignment explanation
Indices: 3454885--3454931 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 20
3454875 TTTTATTAAT
*
3454885 TTAATATTAAATTGATTATC
1 TTAATATTAAAGTGATTATC
3454905 ----TATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
3454921 TTAATATTAAA
1 TTAATATTAAA
3454932 TTAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 8
0.71 0.03 0.26
Matches are distributed among these distances:
16 15 0.68
20 7 0.32
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:3460743 original size:14 final size:15
Alignment explanation
Indices: 3460726--3460754 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3460716 AATCCTAACT
3460726 GCAAAAT-AAATTAA
1 GCAAAATAAAATTAA
3460740 GCAAAATAAAATTAA
1 GCAAAATAAAATTAA
3460755 ATGGATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
GCAAAATAAAATTAA
Found at i:3461029 original size:19 final size:19
Alignment explanation
Indices: 3461005--3461047 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
3460995 CTGAAAAGCC
*
3461005 CAACTCAAATCAACGGCCT
1 CAACTCAAATCAACGACCT
* *
3461024 CAACTCGAATCAATGACCT
1 CAACTCAAATCAACGACCT
3461043 CAACT
1 CAACT
3461048 GTGCGGGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.35, G:0.09, T:0.19
Consensus pattern (19 bp):
CAACTCAAATCAACGACCT
Found at i:3461781 original size:40 final size:41
Alignment explanation
Indices: 3461736--3461829 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
3461726 AAAAATCTTC
* * *
3461736 CAATCTTTATCCAGCT-ACTTTTTTTAAATCTCCAACCCTA
1 CAATCTTTATCCAGATCACTTTTTTAAAATCTCCAACCATA
* *
3461776 CAATCTTTATCCA-ATCACTTTTTTAAAATCTTCAACCATT
1 CAATCTTTATCCAGATCACTTTTTTAAAATCTCCAACCATA
3461816 CAATCTTTATCCAG
1 CAATCTTTATCCAG
3461830 GCAACTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.02
40 46 0.98
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.40
Consensus pattern (41 bp):
CAATCTTTATCCAGATCACTTTTTTAAAATCTCCAACCATA
Found at i:3462306 original size:16 final size:17
Alignment explanation
Indices: 3462274--3462305 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3462264 CAAATATATA
3462274 ATTTATTTATATTTTTT
1 ATTTATTTATATTTTTT
3462291 ATTT-TTTAT-TTTTTT
1 ATTTATTTATATTTTTT
3462306 TCAAACGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTATTTATATTTTTT
Found at i:3464450 original size:58 final size:59
Alignment explanation
Indices: 3464356--3464474 Score: 186
Period size: 58 Copynumber: 2.0 Consensus size: 59
3464346 AAAAACCCAA
* * * *
3464356 ATTTTATACCATTTTATCCTATAATTAGCCAGAAATAAATATATT-AAAATACGAATTT
1 ATTTAATACCATTTTATCCGATAATTAGCCAAAAATAAAAATATTAAAAATACGAATTT
*
3464414 ATTTAATACCATTTTATCCGATAATTAGCCAAAAATAAAAATATTAAAAATAGGAATTT
1 ATTTAATACCATTTTATCCGATAATTAGCCAAAAATAAAAATATTAAAAATACGAATTT
3464473 AT
1 AT
3464475 CTTGATATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 41 0.75
59 14 0.25
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (59 bp):
ATTTAATACCATTTTATCCGATAATTAGCCAAAAATAAAAATATTAAAAATACGAATTT
Found at i:3468608 original size:38 final size:38
Alignment explanation
Indices: 3468566--3468642 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
3468556 ACCCAACGTG
* *
3468566 TACTTTTTGAACCGAAGCGATCAACTTTAAGGGACAAA
1 TACTTTTTGAACCGAAGCAATCAACTTTAAAGGACAAA
3468604 TACTTTTTGAACCGAAGCAATCAACTTTAAAGGACAAA
1 TACTTTTTGAACCGAAGCAATCAACTTTAAAGGACAAA
3468642 T
1 T
3468643 TTGTACTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (38 bp):
TACTTTTTGAACCGAAGCAATCAACTTTAAAGGACAAA
Found at i:3469220 original size:37 final size:38
Alignment explanation
Indices: 3469134--3469222 Score: 101
Period size: 37 Copynumber: 2.3 Consensus size: 38
3469124 AAATATAAAA
* *
3469134 AATCCTTCAATCTTTATCCAACCACTTTTTTTAAATCTTC
1 AATCTTTCAATCTTTATCCAACCA--TATTTTAAATCTTC
* *
3469174 AA-CTATTCAATCTTTATCCAGCCA-ATTTTAAATCTTG
1 AATCT-TTCAATCTTTATCCAACCATATTTTAAATCTTC
3469211 AATCTTTCAATC
1 AATCTTTCAATC
3469223 AAGCCCTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
37 20 0.47
38 2 0.05
39 1 0.02
40 20 0.47
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.43
Consensus pattern (38 bp):
AATCTTTCAATCTTTATCCAACCATATTTTAAATCTTC
Found at i:3472801 original size:32 final size:32
Alignment explanation
Indices: 3472754--3472855 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 32
3472744 TAGATTTTTC
3472754 CCACAAAGGCATTCATTAACATTCAGTAATCG
1 CCACAAAGGCATTCATTAACATTCAGTAATCG
** * * *
3472786 CCACAAAGGTTTTCATGT-CCA--AAGT-ATTG
1 CCACAAAGGCATTCAT-TAACATTCAGTAATCG
* *
3472815 CCACAAAGGCATTCATTAACATTCAGTACTCA
1 CCACAAAGGCATTCATTAACATTCAGTAATCG
3472847 CCACAAAGG
1 CCACAAAGG
3472856 TTTTCTTGTC
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
28 1 0.02
29 19 0.36
30 3 0.06
31 3 0.06
32 26 0.49
33 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (32 bp):
CCACAAAGGCATTCATTAACATTCAGTAATCG
Found at i:3472829 original size:61 final size:61
Alignment explanation
Indices: 3472754--3472889 Score: 227
Period size: 61 Copynumber: 2.2 Consensus size: 61
3472744 TAGATTTTTC
*
3472754 CCACAAAGGCATTCATTAACATTCAGTAATCGCCACAAAGGTTTTCATGTCCAAAGTATTG
1 CCACAAAGGCATTCATTAACATTCAGTAATCACCACAAAGGTTTTCATGTCCAAAGTATTG
* * *
3472815 CCACAAAGGCATTCATTAACATTCAGTACTCACCACAAAGGTTTTCTTGTCCAGAGTATTG
1 CCACAAAGGCATTCATTAACATTCAGTAATCACCACAAAGGTTTTCATGTCCAAAGTATTG
*
3472876 TCACAAAGGCATTC
1 CCACAAAGGCATTC
3472890 CTTCCCGTGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (61 bp):
CCACAAAGGCATTCATTAACATTCAGTAATCACCACAAAGGTTTTCATGTCCAAAGTATTG
Found at i:3480540 original size:27 final size:27
Alignment explanation
Indices: 3480509--3480567 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
3480499 CTAATGAGAT
*
3480509 AAGAATATTGGTTCAACAATTAATGTA
1 AAGAATATTGATTCAACAATTAATGTA
*
3480536 AAGAATATTGATTGAACAATTAATGTA
1 AAGAATATTGATTCAACAATTAATGTA
3480563 AAGAA
1 AAGAA
3480568 GTTTTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (27 bp):
AAGAATATTGATTCAACAATTAATGTA
Found at i:3485329 original size:13 final size:13
Alignment explanation
Indices: 3485311--3485335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3485301 AAAGGAAAAT
3485311 AAAATAAATAATA
1 AAAATAAATAATA
3485324 AAAATAAATAAT
1 AAAATAAATAAT
3485336 GACAATGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAATAATA
Found at i:3485356 original size:21 final size:20
Alignment explanation
Indices: 3485324--3485371 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
3485314 ATAAATAATA
3485324 AAAATAAATAATGAC-AATGAT
1 AAAAT-AATAAT-ACTAATGAT
3485345 AACAATAATAATACTAATGAT
1 AA-AATAATAATACTAATGAT
3485366 AAAATA
1 AAAATA
3485372 CGCCCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATACTAATGAT
Found at i:3485540 original size:3 final size:3
Alignment explanation
Indices: 3485532--3485558 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3485522 AATAAAACAT
3485532 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
3485559 TATGTACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3485643 original size:18 final size:18
Alignment explanation
Indices: 3485636--3485675 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3485626 TAAATAGATA
3485636 ATAATAAAACAATAATAG
1 ATAATAAAACAATAATAG
* *
3485654 ATAATAAAATAGTAATA-
1 ATAATAAAACAATAATAG
3485671 ATAAT
1 ATAAT
3485676 GAAGCCATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATAAAACAATAATAG
Found at i:3486635 original size:27 final size:27
Alignment explanation
Indices: 3486597--3486650 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3486587 ACGGCAGAAG
3486597 ACCAAGCGTTAGGTGAGGTTCCTTTCT
1 ACCAAGCGTTAGGTGAGGTTCCTTTCT
3486624 ACCAAGCGTTAGGTGAGGTTCCTTTCT
1 ACCAAGCGTTAGGTGAGGTTCCTTTCT
3486651 CTTTTCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (27 bp):
ACCAAGCGTTAGGTGAGGTTCCTTTCT
Found at i:3492630 original size:13 final size:13
Alignment explanation
Indices: 3492608--3492645 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3492598 GAGGGGTTGT
3492608 TTAT-TAAACTAA
1 TTATATAAACTAA
3492620 TTA-ACTAAACTAA
1 TTATA-TAAACTAA
3492633 TTATATAAACTAA
1 TTATATAAACTAA
3492646 AACAAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 19 0.83
14 1 0.04
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (13 bp):
TTATATAAACTAA
Found at i:3495006 original size:16 final size:16
Alignment explanation
Indices: 3494982--3495012 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3494972 AACTTATGAT
*
3494982 ATATCAACAATAATTC
1 ATATAAACAATAATTC
3494998 ATATAAACAATAATT
1 ATATAAACAATAATT
3495013 ATAGATCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAAACAATAATTC
Found at i:3495539 original size:6 final size:6
Alignment explanation
Indices: 3495530--3495561 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
3495520 AATAAAATTG
*
3495530 AAATGA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
3495562 GGATAGGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:3500980 original size:13 final size:13
Alignment explanation
Indices: 3500962--3500990 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3500952 GGTTGTTTAT
3500962 TAAACTAATTAAC
1 TAAACTAATTAAC
3500975 TAAACTAATTAAC
1 TAAACTAATTAAC
3500988 TAA
1 TAA
3500991 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:3505751 original size:13 final size:13
Alignment explanation
Indices: 3505733--3505770 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
3505723 TATCAGAGTA
3505733 CTTTTAGGAAACC
1 CTTTTAGGAAACC
3505746 CTTTTAGGAAACC
1 CTTTTAGGAAACC
3505759 CTTTTAGGAAAC
1 CTTTTAGGAAAC
3505771 TTTATCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTTTAGGAAACC
Found at i:3512259 original size:50 final size:50
Alignment explanation
Indices: 3512193--3512324 Score: 178
Period size: 50 Copynumber: 2.6 Consensus size: 50
3512183 CACATAGTGA
* * *
3512193 GATGCCAATGCCATGTCCCATATATGGTCTTACATTG-G-TTCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTAC-GTGAGATT-ACACATATC
*
3512243 GATGCCAATGCCATGTCCCAGACATGGTCTTACGTGAGATTGCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACGTGAGATTACACATATC
* *
3512293 GATGCCAATGCCATCTCCCCGACATGGTCTTA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTA
3512325 TATGGGATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
49 2 0.03
50 70 0.95
51 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACGTGAGATTACACATATC
Found at i:3515316 original size:40 final size:40
Alignment explanation
Indices: 3515261--3515405 Score: 204
Period size: 40 Copynumber: 3.6 Consensus size: 40
3515251 CGGATGATAA
3515261 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
3515301 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATT
* * *
3515342 -CGGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
3515381 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
3515406 AGTGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 85 0.91
41 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:3518841 original size:95 final size:95
Alignment explanation
Indices: 3518688--3519001 Score: 286
Period size: 96 Copynumber: 3.3 Consensus size: 95
3518678 ACATGTCAAA
* * * * * *
3518688 CCGATGCCATGT-CTCAGACATGGTCTTACACTAGCTCACATCT-TAAGTCGATGCCATGTCCCA
1 CCGATG-CATGTCCT-AGACAT-GTCTTACACTAGCACTCGTCTCAAAGCCAATGCCATGTCCCA
3518751 GACATGGTCTTACATTGACTATCATCATCGAGG
63 GACATGGTCTTACATTGACTATCATCATCGAGG
* * * **
3518784 CCGATGCGTGTCCTAGACACGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGTATCAGAC
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAAGCCAATGCCATGTCCCAGAC
* * *
3518849 ATGATCTTACACTAGCACACAT-ATC-TCGAGG
66 ATGGTCTTACA-TTG-AC-TATCATCATCGAGG
* * ** *
3518880 CCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCTCAAAGCTGATG-CATGTCCCAGAG
1 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAAGCCAATGCCATGTCCCAGAC
* * * *
3518944 AT-GTCTTACACTGGCTTTCA-CTAT-GTGG
66 ATGGTCTTACATTGACTATCATC-ATCGAGG
3518972 CCGATGCATGTTCC-AGACATGTCTTACACT
1 CCGATGCATG-TCCTAGACATGTCTTACACT
3519002 GGCTCACATA
Statistics
Matches: 178, Mismatches: 31, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
91 2 0.01
92 31 0.17
93 5 0.03
94 25 0.14
95 47 0.26
96 61 0.34
97 5 0.03
98 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAAGCCAATGCCATGTCCCAGAC
ATGGTCTTACATTGACTATCATCATCGAGG
Found at i:3518950 original size:142 final size:142
Alignment explanation
Indices: 3518691--3518955 Score: 320
Period size: 142 Copynumber: 1.9 Consensus size: 142
3518681 TGTCAAACCG
* * * * *
3518691 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCACATCTTAAGTCGATGCCATGTCCCAGACAT
1 ATGCCATGTATCAGACATGATCTTACACTAGCACACATCTGAAGCCGATGCCATGTCCCAGACAT
* * * * *
3518756 GGTCTTACATTGACTATCATCATCGAGGCCGATGCGTGTCCTAGACACGTCTTACACTAGCACTC
66 GGTCTTACACTGACTATCATCATCAAAGCCGATGCATGTCCCAGACACGTCTTACACTAGCACTC
3518821 GTCTCAATGCCA
131 GTCTCAATGCCA
* *
3518833 ATGCCATGTATCAGACATGATCTTACACTAGCACACATATCTCGAGGCCGATG-CATGTCCTAGA
1 ATGCCATGTATCAGACATGATCTTACACTAGCACAC--ATCT-GAAGCCGATGCCATGTCCCAGA
* * * * * *
3518897 CAT-GTCTTACACTGGCTCTCGTC-TCAAAGCTGATGCATGTCCCAGAGATGTCTTACACT
63 CATGGTCTTACACTGACTATCATCATCAAAGCCGATGCATGTCCCAGACACGTCTTACACT
3518956 GGCTTTCACT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
142 62 0.61
143 16 0.16
144 17 0.17
145 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (142 bp):
ATGCCATGTATCAGACATGATCTTACACTAGCACACATCTGAAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGACTATCATCATCAAAGCCGATGCATGTCCCAGACACGTCTTACACTAGCACTC
GTCTCAATGCCA
Found at i:3518978 original size:46 final size:46
Alignment explanation
Indices: 3518688--3519006 Score: 198
Period size: 46 Copynumber: 6.8 Consensus size: 46
3518678 ACATGTCAAA
* * * *
3518688 CCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCAC-ATCTTAA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGA-CTCAAGG
* * * * *
3518735 TCGATGCCATGTCCCAGACATGGTCTTACATTGACTATC-ATCATCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGA-C-TCAAGG
* * * * * * *
3518784 CCGATGCGTGTCCTAGACACGTCTTACACTAGCACTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGACTCAAGG
* ** * * * * *
3518830 CCAATGCCATGTATCAGACATGATCTTACACTAGCACACATATCTCGAGG
1 CCGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTC-GA-CTCAAGG
* * *
3518880 CCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCTCAAAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGACTCAAGG
* * * *
3518926 CTGATGCATGTCCCAGAGATGTCTTACACTGGCTTTC-ACT-ATGTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGACTCA--AGG
*
3518972 CCGATGCATGTTCCAGACATGTCTTACACTGGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTC
3519007 ACATATCACC
Statistics
Matches: 209, Mismatches: 54, Indels: 19
0.74 0.19 0.07
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 79 0.38
47 58 0.28
48 41 0.20
49 18 0.09
50 10 0.05
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGACTCAAGG
Found at i:3532285 original size:27 final size:27
Alignment explanation
Indices: 3532255--3532534 Score: 384
Period size: 27 Copynumber: 10.4 Consensus size: 27
3532245 GGGCATAATC
* * *
3532255 GTCATTTTACCATACAGGGGTATTGCA
1 GTCATTTTACCCTACAGGGGTATTACG
*
3532282 GTCA-TTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
3532308 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
3532335 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
3532362 GTCA-TTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
3532388 GTCATTTTACCCTACAGTGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
3532415 GTCATTTTACCCTACAAGGGTACTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
3532442 ATCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
3532469 GTCATTTTGCCCTATAAGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
3532496 GTGATTTTACCCTACAGGGGTACTACA
1 GTCATTTTACCCTACAGGGGTATTACG
3532523 GTCATTTTACCC
1 GTCATTTTACCC
3532535 ACGCGACCCA
Statistics
Matches: 224, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 47 0.21
27 177 0.79
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:3532388 original size:80 final size:81
Alignment explanation
Indices: 3532255--3532534 Score: 395
Period size: 80 Copynumber: 3.5 Consensus size: 81
3532245 GGGCATAATC
* * *
3532255 GTCATTTTACCATACAGGGGTATTGCAGTCA-TTTACCCTACAGGGGTATTATGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGTACTACAGTCATTTTACCCTACAGGGGTATTATGGTCATTTTACC
3532319 CTACAGGGGTATTACG
66 CTACAGGGGTATTACG
* *
3532335 GTCATTTTACCCTACAGGGGTATTACGGTCA-TTTACCCTACAGGGGTATTATGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGTACTACAGTCATTTTACCCTACAGGGGTATTATGGTCATTTTACC
* *
3532399 CTACAGTGGCATTACG
66 CTACAGGGGTATTACG
* * * *
3532415 GTCATTTTACCCTACAAGGGTACTAC-GATCATTTTACCCTACAAGGGTATTACGGTCATTTTGC
1 GTCATTTTACCCTACAGGGGTACTACAG-TCATTTTACCCTACAGGGGTATTATGGTCATTTTAC
* * *
3532479 CCTATAAGGGTATTATG
65 CCTACAGGGGTATTACG
*
3532496 GTGATTTTACCCTACAGGGGTACTACAGTCATTTTACCC
1 GTCATTTTACCCTACAGGGGTACTACAGTCATTTTACCC
3532535 ACGCGACCCA
Statistics
Matches: 180, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
79 1 0.01
80 102 0.57
81 76 0.42
82 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGTACTACAGTCATTTTACCCTACAGGGGTATTATGGTCATTTTACC
CTACAGGGGTATTACG
Found at i:3534594 original size:35 final size:35
Alignment explanation
Indices: 3534499--3534596 Score: 142
Period size: 35 Copynumber: 2.8 Consensus size: 35
3534489 CTATTTTGGA
* * *
3534499 GTGTTTCGGTTGGATTAACTCTTATAAGCATTAGT
1 GTGTTTCGGATGGATTAGCTCTTATGAGCATTAGT
* * *
3534534 GTGTTTCAGATGGACTAGATCTTATGAGCATTAGT
1 GTGTTTCGGATGGATTAGCTCTTATGAGCATTAGT
3534569 GTGTTTCGGATGGATTAGCTCTTATGAG
1 GTGTTTCGGATGGATTAGCTCTTATGAG
3534597 TATCTGGTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (35 bp):
GTGTTTCGGATGGATTAGCTCTTATGAGCATTAGT
Found at i:3535474 original size:31 final size:31
Alignment explanation
Indices: 3535402--3535474 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
3535392 ATTTTAGGTC
*
3535402 CACACGGCCTAAGACACGGGCATGTGACTCT
1 CACACGGCCTGAGACACGGGCATGTGACTCT
3535433 CACACGGCCTGAGACACGGGCATGTGACTCT
1 CACACGGCCTGAGACACGGGCATGTGACTCT
*
3535464 CACATGGCCTG
1 CACACGGCCTG
3535475 GCGACATGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.16
Consensus pattern (31 bp):
CACACGGCCTGAGACACGGGCATGTGACTCT
Found at i:3541963 original size:20 final size:20
Alignment explanation
Indices: 3541938--3541980 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
3541928 ATTTACCCAA
3541938 GAGTGATATGCTGGTATTTT
1 GAGTGATATGCTGGTATTTT
3541958 GAGTGATATGCTGGTATTTT
1 GAGTGATATGCTGGTATTTT
3541978 GAG
1 GAG
3541981 GTTTAATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.42
Consensus pattern (20 bp):
GAGTGATATGCTGGTATTTT
Found at i:3547100 original size:37 final size:42
Alignment explanation
Indices: 3547026--3547105 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
3547016 AGGGTAAATC
*
3547026 CAACAACCCAAGTTTATCTTCTCTTTTTTAAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCTTTTTTAAAATTCTTTTTT
3547068 CAACAACCCAAGATT-TC-T-TC-TTTTT-AAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCTTTTTTAAAATTCTTTTTT
3547105 C
1 C
3547106 TAGGAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 13 0.35
38 5 0.14
39 2 0.05
40 1 0.03
41 2 0.05
42 14 0.38
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (42 bp):
CAACAACCCAAGATTATCTTCTCTTTTTTAAAATTCTTTTTT
Done.