Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 27
Found at i:2426023 original size:17 final size:17
Alignment explanation
Indices: 2425993--2426030 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 17
2425983 GAAAATAAGC
2425993 AAAAAAGAACAAAA-CA
1 AAAAAAGAACAAAATCA
2426009 AAAAAAGAACAAAAATCA
1 AAAAAAGAAC-AAAATCA
2426027 AAAA
1 AAAA
2426031 GAAAAAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 4 0.20
18 6 0.30
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAGAACAAAATCA
Found at i:2427824 original size:15 final size:15
Alignment explanation
Indices: 2427804--2427835 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2427794 CGCCCCGTAT
2427804 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCGC
2427819 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCGC
2427834 CC
1 CC
2427836 ACCCAGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.69, G:0.19, T:0.06
Consensus pattern (15 bp):
CCGCCCCGCATCCGC
Found at i:2429698 original size:106 final size:106
Alignment explanation
Indices: 2428528--2429697 Score: 1860
Period size: 106 Copynumber: 11.0 Consensus size: 106
2428518 CCCTAGTGCC
* * * *
2428528 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2428593 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2428634 ACCCCATACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2428699 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2428740 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2428805 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2428846 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2428911 AATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2428952 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2429017 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2429058 ACTCGAGACAACGAAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2429123 AATTT-AGGAGCCAATTTCAACTTCATAGCGAAAGATATTGG
66 AATTTCA-GAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2429164 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCCGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2429229 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2429270 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2429335 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2429376 ACTCCAGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2429441 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2429482 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2429547 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
2429588 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* * * *
2429652 CGATTCCAGAGCCAATTTTAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2429694 ACTC
1 ACTC
2429698 GGAACAATGC
Statistics
Matches: 989, Mismatches: 71, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
105 3 0.00
106 985 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2430500 original size:37 final size:37
Alignment explanation
Indices: 2430447--2430551 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2430437 TCTTTTCGTC
2430447 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2430484 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
2430521 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2430552 CCACAAACAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2431187 original size:29 final size:28
Alignment explanation
Indices: 2431114--2431199 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 28
2431104 TTTTCCTAAC
*
2431114 GTTATATATATATATTATTACTTTATTTTA
1 GTTA-ATAT-TATATGATTACTTTATTTTA
* * * *
2431144 TTTTATATTTCTATGATTACTATTTTTTTA
1 GTTAATA-TTATATGATTACT-TTATTTTA
2431174 GTTAATATTATATG-TATA-TTTATTTT
1 GTTAATATTATATGAT-TACTTTATTTT
2431200 TCATTTATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
27 6 0.14
28 2 0.05
29 21 0.48
30 15 0.34
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (28 bp):
GTTAATATTATATGATTACTTTATTTTA
Found at i:2431227 original size:19 final size:17
Alignment explanation
Indices: 2431188--2431244 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
2431178 ATATTATATG
2431188 TATATTTA-T-TTTTCAT
1 TATATTTAGTATTTT-AT
*
2431204 T-TATTTATTATTATTAT
1 TATATTTAGTATT-TTAT
2431221 TAATATTTAGTATTTTAT
1 T-ATATTTAGTATTTTAT
2431239 TATATT
1 TATATT
2431245 ATACATACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.17
16 2 0.06
17 10 0.29
18 7 0.20
19 10 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATATTTAGTATTTTAT
Found at i:2431295 original size:22 final size:22
Alignment explanation
Indices: 2431192--2431301 Score: 75
Period size: 22 Copynumber: 5.0 Consensus size: 22
2431182 TATATGTATA
* *
2431192 TTTATT-TTTCATTTATTTATT
1 TTTATTATTTTATTTATATATT
* * *
2431213 ATTATTATTAATATTTA-GTA-T
1 TTTATTATT-TTATTTATATATT
* ** *
2431234 TTTATTATATTATACATACATT
1 TTTATTATTTTATTTATATATT
*
2431256 TTTA-TATTTGTATATATATATT
1 TTTATTATTT-TATTTATATATT
2431278 TTTATTATTTTATTTATACTATT
1 TTTATTATTTTATTTATA-TATT
2431301 T
1 T
2431302 ATTTAAATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
20 4 0.06
21 18 0.27
22 30 0.45
23 15 0.22
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTATTTTATTTATATATT
Found at i:2431436 original size:21 final size:19
Alignment explanation
Indices: 2431395--2431450 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
2431385 TTTTATCTTC
*
2431395 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATCCA
*
2431414 ATTTCATTTTTTTTCTATCCA
1 ATTT-ATTTTATTT-TATCCA
2431435 A-TTATTTTATCTTTAT
1 ATTTATTTTAT-TTTAT
2431451 TATTATTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.42
20 12 0.39
21 6 0.19
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATCCA
Found at i:2433386 original size:4 final size:4
Alignment explanation
Indices: 2433377--2433402 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2433367 TCATAGGTAG
2433377 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2433403 GTGTCTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2452872 original size:18 final size:18
Alignment explanation
Indices: 2452851--2452904 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
2452841 CGATTAGTTT
2452851 AATCACTGTGATAATTTC
1 AATCACTGTGATAATTTC
*
2452869 AATCAATGTGATAATTTC
1 AATCACTGTGATAATTTC
*
2452887 AATCGCTGTGATAATTTC
1 AATCACTGTGATAATTTC
2452905 GTTCGTACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (18 bp):
AATCACTGTGATAATTTC
Found at i:2456338 original size:2 final size:2
Alignment explanation
Indices: 2456331--2456358 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2456321 GACAACAATA
2456331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2456359 CTTATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2462916 original size:29 final size:30
Alignment explanation
Indices: 2462879--2462937 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
2462869 ATAAGTCCTG
*
2462879 AGGTTTCAGTCT-CCCATTGATGAGCTGAA
1 AGGTTTCAGTCTCCCCATTGACGAGCTGAA
*
2462908 AGGTTTCAGTCTCCCCCTTGACGAGCTGAA
1 AGGTTTCAGTCTCCCCATTGACGAGCTGAA
2462938 CTATTGATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (30 bp):
AGGTTTCAGTCTCCCCATTGACGAGCTGAA
Found at i:2473180 original size:168 final size:168
Alignment explanation
Indices: 2472733--2475421 Score: 3756
Period size: 168 Copynumber: 16.0 Consensus size: 168
2472723 AACAAATACC
2472733 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * * *
2472798 GTGAAGTCCTCGAGGGTGGTGATGTTCAAAGGGTGAATGATGGAACAAGTCCCAATGCAAATGAC
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* * *
2472863 CAGCAGGATAGTGTACTATGCACTATGAAGAGGAAACAGATACC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGG-----GA-ACA
* * * *
2472907 TAATACAGCTGTATGTTCTATGCCTGTTGAAGAGGTCCCTTTGGCAGACCCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * * * * *
2472972 GTGAACTCCTCGAGGGTGGTGATGTTCAAAGGGCGAATGATGGAATAAGTCCCAATGAAAATGAC
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* *
2473037 CAACAGGATAGTGTACGATGCACTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * *
2473075 TGATACAGCTGCATGGTCTATGCCCGCTGAAGAGGTCCCTTTGGCAGAACTTGATACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
*
2473140 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAA
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
2473205 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * *
2473243 TGATACAGCCGCATATTCTATGCCTGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
2473308 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* * * * *
2473373 CAACAGTATAGTGTACGATGCACTATGAACGGGGTACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * ** *
2473411 TGATACATCTGCATTTTCTATTCCTGCTGAAGAAGTCCCTTTGGCAGAACCTGATGCTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * * *
2473476 GTGAAGTGCTCAAGGTTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCGATTGAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
*
2473541 CAGCAGGATAATGTACAATGCACTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * *
2473579 TGATACAGCCGCATGTTCTATGCCTGCTAAAGAGTTTCCTTTGACAGAACCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* *
2473644 GTGAAG---TCAAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGAC
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* **
2473706 CAGCAGGATAGTCTACGTTGCACTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
** * *
2473744 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTCCGCAGAACCTGATACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * *
2473809 GTGAAGTCCTCAAGGGTGATAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTAAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
**
2473874 CAGCAGGATAGTGTACAATGTTCTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * *
2473912 TGATACAG-TCGCATGTTCTATGCCGGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGTTCCT
1 TGATACAGCT-GCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCT
* *
2473976 AGCGAAGTCCTCAAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGA
65 AGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGA
* * *
2474041 CCAACAGGATAGTGTACGATGCACTATGAACAGGGTACA
130 CCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * ** *
2474080 TGATACAGATGCATTTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGATGCTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * ** *
2474145 GTGAAGTGCTCAAGGTTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCTGATTGAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
*
2474210 CAGCAGGATAATGTACAATGCACTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * *
2474248 TGATACAGCCGCATGTTCTATGCCTGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
** *
2474313 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGAAGAATGATGGAACAAGTCCCAGTG-AAATAGA
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAAT-GA
* * **
2474377 CCATCAGGATAGTCTACGTTGCACTATGAACAGGGAACA
130 CCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
** * *
2474416 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTCCGCAGAACCTGACACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * * *
2474481 GTGAAGTCCTGAAGGG-GTATAATGTTCAAAGAGTGAATGATGGAACAAGTCCCATTAAAAATGA
66 GTGAAGTCCTCAAGGGTG-GTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGA
* *
2474545 TCAGCAGGATAGTGTACAATGTACTATGAACAGGGAACA
130 CCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * *
2474584 TGATACAG-TCGCATGTTCTATGCCGGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCT
1 TGATACAGCT-GCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCT
* *
2474648 AGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGA
65 AGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGA
** **
2474713 CCAGCAGGATAGTCCACGTTGCACTATGAACAGGGAACA
130 CCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
** * * *
2474752 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTCCGCAGAACCTGATACTACTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * * *
2474817 GTGAAGTCCTCAAGGGTGATAATGTTCAAAGGGTGAATCATGGAACAAGTCCCATTAAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* * *
2474882 CAGCAGGATAGTGTACAAAGTACTACGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * * *
2474920 TGATACAGCCGCATGTTCTATGCCGGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGTTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* *
2474985 GCGAAGTCCTCAAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* * *
2475050 CAACAAGATAGTGTACCATGCACTATGAACAGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * *
2475088 TGATACAGCTGCATGTTCTATGCCTGCTGGAGATGTCCCTTTCGCAGAACCTGATACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* * *
2475153 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGTACAAGTCCCATTGAAAATAAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
* *
2475218 CAGCAGGATAGTGTACAATGTACTATGAACGGGGAACA
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
* * * * *
2475256 TGGTACAGCCGCATGTTCTATGCCTGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
* *
2475321 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACATA-TCCCAGTGAAAATGA
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACA-AGTCCCATTGAAAATGA
* * * * *
2475385 CCAGCAGGATGGTGGACTATGCTCTATGAATAGGGAA
130 CCAGCAGGATAGTGTACAATGCACTATGAACAGGGAA
2475422 TCTGAACTCC
Statistics
Matches: 2206, Mismatches: 297, Indels: 30
0.87 0.12 0.01
Matches are distributed among these distances:
165 147 0.07
167 7 0.00
168 1890 0.86
169 10 0.00
174 152 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (168 bp):
TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAC
CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACA
Found at i:2473416 original size:336 final size:336
Alignment explanation
Indices: 2472733--2475421 Score: 4193
Period size: 336 Copynumber: 8.0 Consensus size: 336
2472723 AACAAATACC
* * *
2472733 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* * * * *
2472798 GTGAAGTCCTCGAGGGTGGTGATGTTCAAAGGGTGAATGATGGAACAAGTCCCAATGCAAATGAC
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
* * * * * *
2472863 CAGCAGGATAGTGTACTATGCACTATGAAGAGGAAACAGATACCTAATACAGCTGTATGTTCTAT
131 CAGCAGGATAGTGTACAATGCACTATGAACAGG-----GA-ACATGATACAGCCGCATGTTCTAT
* * * * * * * *
2472928 GCCTGTTGAAGAGGTCCCTTTGGCAGACCCTGAAACTGCTCCTAGTGAACTCCTCGAGGGTGGTG
190 GCCTGCTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTA
* * *
2472993 ATGTTCAAAGGGCGAATGATGGAATAAGTCCCAATGAAAATGACCAACAGGATAGTGTACGATGC
255 ATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGC
2473058 ACTATGAACAGGGAACA
320 ACTATGAACAGGGAACA
* * * *
2473075 TGATACAGCTGCATGGTCTATGCCCGCTGAAGAGGTCCCTTTGGCAGAACTTGATACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
*
2473140 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAA
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
*
2473205 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATATTCTATGCCTGC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
2473270 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
196 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
* * *
2473335 AAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGACCAACAGTATAGTGTACGATGCACTATG
261 AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTATG
* *
2473400 AACGGGGTACA
326 AACAGGGAACA
* * * * * *
2473411 TGATACATCTGCATTTTCTATTCCTGCTGAAGAAGTCCCTTTGGCAGAACCTGATGCTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* * *
2473476 GTGAAGTGCTCAAGGTTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCGATTGAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
*
2473541 CAGCAGGATAATGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
*
2473606 TAAAGAGTTTCCTTTGACAGAACCTGAAACTGCTCCTAGTGAAG---TCAAGGGTGGTAATGTTC
196 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
* * *
2473668 AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAGTCTACGTTGCACTATG
261 AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTATG
2473733 AACAGGGAACA
326 AACAGGGAACA
*
2473744 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTCCGCAGAACCTGATACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* *
2473809 GTGAAGTCCTCAAGGGTGATAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTAAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
** * *
2473874 CAGCAGGATAGTGTACAATGTTCTATGAACAGGGAACATGATACAGTCGCATGTTCTATGCCGGC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
* * *
2473939 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGTTCCTAGCGAAGTCCTCAAAGGTGGTAATGTTC
196 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
* *
2474004 AAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGACCAACAGGATAGTGTACGATGCACTATG
261 AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTATG
*
2474069 AACAGGGTACA
326 AACAGGGAACA
* * * *
2474080 TGATACAGATGCATTTTCTATGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGATGCTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* * **
2474145 GTGAAGTGCTCAAGGTTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCTGATTGAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
*
2474210 CAGCAGGATAATGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
2474275 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
196 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
* * * *
2474340 AAAGGAAGAATGATGGAACAAGTCCCAGTG-AAATAGACCATCAGGATAGTCTACGTTGCACTAT
261 AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAAT-GACCAACAGGATAGTGTACGATGCACTAT
2474404 GAACAGGGAACA
325 GAACAGGGAACA
* *
2474416 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTCCGCAGAACCTGACACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* * * *
2474481 GTGAAGTCCTGAAGGG-GTATAATGTTCAAAGAGTGAATGATGGAACAAGTCCCATTAAAAATGA
66 GTGAAGTCCTCAAGGGTG-GTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGA
* * *
2474545 TCAGCAGGATAGTGTACAATGTACTATGAACAGGGAACATGATACAGTCGCATGTTCTATGCCGG
130 TCAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTG
2474610 CTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTT
195 CTAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTT
* ** *
2474675 CAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAGTCCACGTTGCACTAT
260 CAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTAT
2474740 GAACAGGGAACA
325 GAACAGGGAACA
* *
2474752 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTCCGCAGAACCTGATACTACTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* * *
2474817 GTGAAGTCCTCAAGGGTGATAATGTTCAAAGGGTGAATCATGGAACAAGTCCCATTAAAAATGAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
* * * *
2474882 CAGCAGGATAGTGTACAAAGTACTACGAACAGGGAACATGATACAGCCGCATGTTCTATGCCGGC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
* * *
2474947 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGTTCCTAGCGAAGTCCTCAAAGGTGGTAATGTTC
196 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
* * * *
2475012 AAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGACCAACAAGATAGTGTACCATGCACTATG
261 AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTATG
2475077 AACAGGGAACA
326 AACAGGGAACA
* *
2475088 TGATACAGCTGCATGTTCTATGCCTGCTGGAGATGTCCCTTTCGCAGAACCTGATACTGCTCTTA
1 TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
* *
2475153 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGTACAAGTCCCATTGAAAATAAT
66 GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
* * *
2475218 CAGCAGGATAGTGTACAATGTACTATGAACGGGGAACATGGTACAGCCGCATGTTCTATGCCTGC
131 CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
2475283 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
196 TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
* * * * *
2475348 AAAGGGAGAATGATGGAACATA-TCCCAGTGAAAATGACCAGCAGGATGGTGGACTATGCTCTAT
261 AAAGGGAGAATGATGGAACA-AGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTAT
*
2475412 GAATAGGGAA
325 GAACAGGGAA
2475422 TCTGAACTCC
Statistics
Matches: 2166, Mismatches: 173, Indels: 22
0.92 0.07 0.01
Matches are distributed among these distances:
333 305 0.14
335 5 0.00
336 1697 0.78
337 8 0.00
342 151 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (336 bp):
TGATACAGCTGCATGTTCTATGCCTGCTGAAGAGGTCCCTTTCGCAGAACCTGATACTGCTCTTA
GTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCATTGAAAATGAT
CAGCAGGATAGTGTACAATGCACTATGAACAGGGAACATGATACAGCCGCATGTTCTATGCCTGC
TAAAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTC
AAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAACAGGATAGTGTACGATGCACTATG
AACAGGGAACA
Found at i:2479364 original size:19 final size:19
Alignment explanation
Indices: 2479321--2479366 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
2479311 CCCAAATATT
2479321 TTATATAATTAATAAAAATA
1 TTATAT-ATTAATAAAAATA
* *
2479341 -AATATATTAATATAAATA
1 TTATATATTAATAAAAATA
2479359 TTATATAT
1 TTATATAT
2479367 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATATATTAATAAAAATA
Found at i:2480089 original size:17 final size:16
Alignment explanation
Indices: 2480067--2480101 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
2480057 CTCGAGATAA
2480067 TACTATAATTTTCTTTT
1 TACTATAATTTT-TTTT
2480084 TACTATAATTTTTTTT
1 TACTATAATTTTTTTT
2480100 TA
1 TA
2480102 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TACTATAATTTTTTTT
Found at i:2480513 original size:25 final size:25
Alignment explanation
Indices: 2480479--2480531 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
2480469 AGCTCGGATT
2480479 CTCATGTCCTGCTGATACAACAATC
1 CTCATGTCCTGCTGATACAACAATC
2480504 CTCATGTCCTGCTGATACAACAATC
1 CTCATGTCCTGCTGATACAACAATC
2480529 CTC
1 CTC
2480532 GACACTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.28
Consensus pattern (25 bp):
CTCATGTCCTGCTGATACAACAATC
Found at i:2481016 original size:69 final size:69
Alignment explanation
Indices: 2480931--2481074 Score: 207
Period size: 69 Copynumber: 2.1 Consensus size: 69
2480921 AAAAATCATA
* * ** *
2480931 TTGAAACAGTAGTTTTATCTAAATAAGAAATGTGATTCTCCAAGTATTGGTTCGCCTAAGACTAG
1 TTGAAACAATAGTTTTATCTAAATAAAAAATGTGATTCTCCAAGTACCGGTTCACCTAAGACTAG
2480996 GTAT
66 GTAT
* * * *
2481000 TTGAAATAATAGTTTTATCTGAATAAAAAATGTGATTCTTCAAGTACCGGTTCACCTAAGACTGG
1 TTGAAACAATAGTTTTATCTAAATAAAAAATGTGATTCTCCAAGTACCGGTTCACCTAAGACTAG
2481065 GTAT
66 GTAT
2481069 TTGAAA
1 TTGAAA
2481075 AAGAAACTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (69 bp):
TTGAAACAATAGTTTTATCTAAATAAAAAATGTGATTCTCCAAGTACCGGTTCACCTAAGACTAG
GTAT
Found at i:2481927 original size:20 final size:19
Alignment explanation
Indices: 2481899--2481940 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
2481889 ATTATTTACG
2481899 TTTTGTTTCAATAATTATA-A
1 TTTTGTTTC--TAATTATATA
*
2481919 TTTTTTTTCTAATTATATA
1 TTTTGTTTCTAATTATATA
2481938 TTT
1 TTT
2481941 AATTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTGTTTCTAATTATATA
Found at i:2481965 original size:25 final size:24
Alignment explanation
Indices: 2481911--2481965 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
2481901 TTGTTTCAAT
* *
2481911 AATTATAATTTTTTTTCTAATTATA
1 AATT-TAATTTTTATTATAATTATA
* *
2481936 TATTTAATTTATTATTATAATTGTA
1 AATTTAATTT-TTATTATAATTATA
2481961 AATTT
1 AATTT
2481966 TAGTTGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
AATTTAATTTTTATTATAATTATA
Found at i:2492344 original size:27 final size:27
Alignment explanation
Indices: 2492314--2492396 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
2492304 TTTTCCAGAT
2492314 TAACTCCTCTCTTCTTAAGTTCCACTC
1 TAACTCCTCTCTTCTTAAGTTCCACTC
* * *
2492341 TAACAACCACT-TTCCTT---TTCCAGAT-
1 TAAC-TCCTCTCTT-CTTAAGTTCCA-CTC
2492366 TAACTCCTCTCTTCTTAAGTTCCACTC
1 TAACTCCTCTCTTCTTAAGTTCCACTC
2492393 TAAC
1 TAAC
2492397 AACCACTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
24 7 0.17
25 11 0.26
26 2 0.05
27 15 0.36
28 7 0.17
ACGTcount: A:0.23, C:0.35, G:0.04, T:0.39
Consensus pattern (27 bp):
TAACTCCTCTCTTCTTAAGTTCCACTC
Found at i:2492364 original size:52 final size:52
Alignment explanation
Indices: 2492304--2492408 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
2492294 ACACTGGACA
2492304 TTTTCCAGATTAACTCCTCTCTTCTTAAGTTCCACTCTAACAACCACTTTCC
1 TTTTCCAGATTAACTCCTCTCTTCTTAAGTTCCACTCTAACAACCACTTTCC
2492356 TTTTCCAGATTAACTCCTCTCTTCTTAAGTTCCACTCTAACAACCACTTTCC
1 TTTTCCAGATTAACTCCTCTCTTCTTAAGTTCCACTCTAACAACCACTTTCC
2492408 T
1 T
2492409 ATGAGAAATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.39
Consensus pattern (52 bp):
TTTTCCAGATTAACTCCTCTCTTCTTAAGTTCCACTCTAACAACCACTTTCC
Found at i:2505984 original size:26 final size:26
Alignment explanation
Indices: 2505955--2506005 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2505945 TTTGAATCTG
* *
2505955 CTGTTGATTTTGATAATGAAGATTTT
1 CTGTTCATCTTGATAATGAAGATTTT
2505981 CTGTTCATCTTGATAATGAAGATTT
1 CTGTTCATCTTGATAATGAAGATTT
2506006 GGAAATAGAA
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:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (26 bp):
CTGTTCATCTTGATAATGAAGATTTT
Found at i:2527043 original size:28 final size:27
Alignment explanation
Indices: 2526985--2527060 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
2526975 ATCAAAAAAT
* *
2526985 AAAAGTTGAGTGCCTAATTGCACCCAAA
1 AAAAGTTGGGTACCTAATTGCACCC-AA
* *
2527013 AAAAGTTGGGTACCAAATTGCA-CCATT
1 AAAAGTTGGGTACCTAATTGCACCCA-A
* *
2527040 AAAAGGTAGGTACCTAATTGC
1 AAAAGTTGGGTACCTAATTGC
2527061 TCTGTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.03
27 20 0.50
28 19 0.47
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAAGTTGGGTACCTAATTGCACCCAA
Found at i:2539306 original size:23 final size:22
Alignment explanation
Indices: 2539280--2539323 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2539270 ACTTTATACG
*
2539280 CTATAATTATTATTTAATTTTTT
1 CTATAATTATTATAT-ATTTTTT
*
2539303 CTATTATTATTATATATTTTT
1 CTATAATTATTATATATTTTT
2539324 CCCTCTCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
CTATAATTATTATATATTTTTT
Found at i:2551436 original size:105 final size:105
Alignment explanation
Indices: 2550872--2551435 Score: 1092
Period size: 105 Copynumber: 5.4 Consensus size: 105
2550862 AGGTTTTACC
2550872 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
2550937 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2550977 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
2551042 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2551082 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
2551147 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
2551187 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
*
2551252 ACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
2551292 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
2551357 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
2551397 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACT
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
2551436 CTGAACAATA
Statistics
Matches: 455, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 455 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:2553125 original size:3 final size:3
Alignment explanation
Indices: 2553069--2553106 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
2553059 TTTACCTTTT
*
2553069 TTA TTA TTA TTA TTA TTA -TA TTA -TA TTT TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2553107 GTTTTTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2553455 original size:23 final size:22
Alignment explanation
Indices: 2553429--2553472 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2553419 ACTTTATACG
*
2553429 CTATAATTATTATTTAATTTTTT
1 CTATAATTATTATAT-ATTTTTT
*
2553452 CTATTATTATTATATATTTTT
1 CTATAATTATTATATATTTTT
2553473 CCCTCTCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
CTATAATTATTATATATTTTTT
Found at i:2553758 original size:10 final size:9
Alignment explanation
Indices: 2553739--2553763 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2553729 TATATATATC
2553739 TTTTTATTT
1 TTTTTATTT
2553748 TTTTTATTT
1 TTTTTATTT
2553757 TTTTTAT
1 TTTTTAT
2553764 ATCTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTATTT
Found at i:2562034 original size:7 final size:7
Alignment explanation
Indices: 2562024--2562049 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2562014 AATCATAAAC
2562024 CCTAAGT
1 CCTAAGT
2562031 CCTAAGT
1 CCTAAGT
2562038 CCTAAGT
1 CCTAAGT
2562045 CCTAA
1 CCTAA
2562050 ATACTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (7 bp):
CCTAAGT
Found at i:2562204 original size:7 final size:7
Alignment explanation
Indices: 2562194--2562227 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2562184 CAAAGCCTTG
2562194 AGCCCTA
1 AGCCCTA
2562201 AGCCCTA
1 AGCCCTA
*
2562208 AGTCCTA
1 AGCCCTA
2562215 AGCCCTA
1 AGCCCTA
*
2562222 AACCCT
1 AGCCCT
2562228 TAATTCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.41, G:0.12, T:0.18
Consensus pattern (7 bp):
AGCCCTA
Found at i:2568199 original size:30 final size:29
Alignment explanation
Indices: 2568165--2568254 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 29
2568155 TTAAGTGAAT
2568165 TGATTGTTATAATTGATAAATAAAATGATA
1 TGATTGTT-TAATTGATAAATAAAATGATA
* * *
2568195 TGATTG--TAATT-AAAAATATAATATTTATT
1 TGATTGTTTAATTGATAAATA-AA-A-TGATA
*
2568224 TTATT-TTTAATTGATAAATAAAATGATA
1 TGATTGTTTAATTGATAAATAAAATGATA
2568252 TGA
1 TGA
2568255 CTGTAATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
26 6 0.13
27 7 0.15
28 6 0.13
29 8 0.17
30 13 0.28
31 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (29 bp):
TGATTGTTTAATTGATAAATAAAATGATA
Found at i:2573873 original size:12 final size:12
Alignment explanation
Indices: 2573850--2573899 Score: 66
Period size: 12 Copynumber: 4.1 Consensus size: 12
2573840 CAAAGGAGAG
2573850 AAAGAAAAAAAT
1 AAAGAAAAAAAT
2573862 AAA-AATAAAAATT
1 AAAGAA-AAAAA-T
2573875 AAAGAAAAAAAT
1 AAAGAAAAAAAT
*
2573887 AAAGGAAAAAAT
1 AAAGAAAAAAAT
2573899 A
1 A
2573900 TTAAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 2 0.06
12 21 0.62
13 9 0.26
14 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (12 bp):
AAAGAAAAAAAT
Found at i:2573877 original size:13 final size:13
Alignment explanation
Indices: 2573850--2573904 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
2573840 CAAAGGAGAG
2573850 AAAGAAAAAAA-T
1 AAAGAAAAAAATT
2573862 AAA-AATAAAAATT
1 AAAGAA-AAAAATT
2573875 AAAGAAAAAAA-T
1 AAAGAAAAAAATT
2573887 AAAGGAAAAAATATT
1 AAA-GAAAAAA-ATT
2573902 AAA
1 AAA
2573905 TAAATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.05
12 12 0.32
13 16 0.43
14 3 0.08
15 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAGAAAAAAATT
Found at i:2573878 original size:25 final size:26
Alignment explanation
Indices: 2573850--2573921 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
2573840 CAAAGGAGAG
2573850 AAAGAAAAAAATAAA-AATAAAA-ATT
1 AAAGAAAAAAATAAAGAA-AAAATATT
2573875 AAAGAAAAAAATAAAGGAAAAAATATT
1 AAAGAAAAAAATAAA-GAAAAAATATT
* * *
2573902 AAATAAATAAATAAACAAAA
1 AAAGAAAAAAATAAAGAAAA
2573922 GTAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.37
26 8 0.20
27 18 0.44
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (26 bp):
AAAGAAAAAAATAAAGAAAAAATATT
Found at i:2573982 original size:3 final size:3
Alignment explanation
Indices: 2573974--2574008 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2573964 AAAGTAAATA
2573974 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2574009 ATGTGAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2574135 original size:15 final size:15
Alignment explanation
Indices: 2574105--2574148 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2574095 GACGGAAATG
*
2574105 AAATAAAAAGTTAAAA
1 AAATAAAAA-TAAAAA
2574121 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
* *
2574136 TAATAATAATAAA
1 AAATAAAAATAAA
2574149 TAAGGGTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
AAATAAAAATAAAAA
Found at i:2576076 original size:64 final size:63
Alignment explanation
Indices: 2575953--2576089 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
2575943 TCTTTAACAT
* * * *
2575953 GTGCATCGATGCACTACCCATGCATTGATACGCCAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACGCCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * * * *
2576017 GTGCATCGATGCACT-CCTTATGCATCGATGCGCTAATTACATTTGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACGCCAATCACATTCGATGTTTTCAT-TTTAAAGA
2576080 GTGCATCGAT
1 GTGCATCGAT
2576090 ACACATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACGCCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:2577954 original size:4 final size:4
Alignment explanation
Indices: 2577947--2577971 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2577937 AAAAAAGAAG
2577947 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
2577972 GGAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2577999 original size:16 final size:16
Alignment explanation
Indices: 2577975--2578015 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2577965 ATAAATAGGA
2577975 AATAA-AAACAATAAT
1 AATAATAAACAATAAT
2577990 AATAATAAACAATAAT
1 AATAATAAACAATAAT
2578006 AATATATAAA
1 AATA-ATAAA
2578016 AAATTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.21
16 14 0.58
17 5 0.21
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAATAAACAATAAT
Found at i:2578065 original size:39 final size:37
Alignment explanation
Indices: 2578022--2578379 Score: 334
Period size: 37 Copynumber: 9.5 Consensus size: 37
2578012 TAAAAAATTC
2578022 AAAAAC-ATATAATATATAAATTTTCAAAATGCTTTTTTT
1 AAAAACTATATAATATATAAATTTTCAAAATG---TTTTT
* *** * *
2578061 AAAAACTATATATTATACGTATTTTCAAAAACGTTTTA
1 AAAAACTATATAATATATAAATTTTC-AAAATGTTTTT
*
2578099 AAAAACTATATAATATATATATTTTCAAAAATGTTTTTT
1 AAAAACTATATAATATATAAATTTTC-AAAATG-TTTTT
* *
2578138 AAAAACTATATATTATATATATTTTCAAAATGTCTTTT
1 AAAAACTATATAATATATAAATTTTCAAAATGT-TTTT
2578176 AAAAAACTATATAATATATAAATGTTTTCAAAAATG-TTTT
1 -AAAAACTATATAATATATAAA--TTTTC-AAAATGTTTTT
* *
2578216 CAAAACTATATACTATAT-AATTTTCAAAATG-TTTT
1 AAAAACTATATAATATATAAATTTTCAAAATGTTTTT
* *
2578251 CAAAACTATATACTATATATAATTTTCAAAATG-TTTT
1 AAAAACTATATAATATATA-AATTTTCAAAATGTTTTT
* *
2578288 CAAAACTATATATTATATATAATTTTCAAAATG-TTTT
1 AAAAACTATATAATATATA-AATTTTCAAAATGTTTTT
* * * * *
2578325 AAAAACTATACAAGATAT-ATTTTTGAAAACCGTTTTCT
1 AAAAACTATATAATATATAAATTTTCAAAA-TGTTTT-T
* *
2578363 AAAAATTATATATTATA
1 AAAAACTATATAATATA
2578380 CTTTGTCAAA
Statistics
Matches: 278, Mismatches: 28, Indels: 27
0.83 0.08 0.08
Matches are distributed among these distances:
35 37 0.13
36 6 0.02
37 71 0.26
38 59 0.21
39 70 0.25
40 19 0.07
41 10 0.04
42 6 0.02
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (37 bp):
AAAAACTATATAATATATAAATTTTCAAAATGTTTTT
Found at i:2578212 original size:12 final size:12
Alignment explanation
Indices: 2578195--2578220 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2578185 TATAATATAT
2578195 AAATGTTTTCAA
1 AAATGTTTTCAA
2578207 AAATGTTTTCAA
1 AAATGTTTTCAA
2578219 AA
1 AA
2578221 CTATATACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAATGTTTTCAA
Found at i:2579673 original size:80 final size:81
Alignment explanation
Indices: 2579529--2579736 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 81
2579519 AATACGACGC
* * * * *
2579529 TATACAAACGCCACTAAAGTA-AAATTCTATCACGACATTTGTTAAAAAAAAGTCACTATAAATG
1 TATACAAACGCCGCTAAAGTACTACTT-TATCACGACGTTTGTTGAAAAAAAGTCACTATAAATG
*
2579593 AACCCTATTG-TGACAT
65 AACCCTATTGCGGACAT
* * *
2579609 TATACAAACGCCGCTAAAGTACTACTTTATCACGACGTTTGTTGAAAAAATGTCATTATGAATGA
1 TATACAAACGCCGCTAAAGTACTACTTTATCACGACGTTTGTTGAAAAAAAGTCACTATAAATGA
***
2579674 ACCCTATTGCGGTGTT
66 ACCCTATTGCGGACAT
* * * * * *
2579690 TATATAAAACACCGCTAAAATACTACTCTATCACAACGTTTTTTGAA
1 TATA-CAAACGCCGCTAAAGTACTACTTTATCACGACGTTTGTTGAA
2579737 CTATTGTTGC
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 62 0.58
81 9 0.08
82 36 0.34
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (81 bp):
TATACAAACGCCGCTAAAGTACTACTTTATCACGACGTTTGTTGAAAAAAAGTCACTATAAATGA
ACCCTATTGCGGACAT
Found at i:2582790 original size:108 final size:110
Alignment explanation
Indices: 2582580--2582790 Score: 261
Period size: 108 Copynumber: 1.9 Consensus size: 110
2582570 CAAAATGTAA
** *
2582580 TTTAAGGTTTTCACGTATTTAAGGTTCAGGTTCGAGTTTAAGTTTGAAGTTTTAATCGAGTTAAA
1 TTTAAGGTTTTCACGTATTTAAGGTTCAGGTTC-AG--TAAGTTTGAAACTTCAATCGAGTTAAA
** *
2582645 TTTAAGGGTTTTTTCCATTTGAGTCTTTTCGAGCTTTTACGAGCTTCAG
63 TTTAAGGGGGTTTT-CATTTAAGTCTTTTCGAGCTTTTACGAGCTTCAG
2582694 TTTAAGGTTTTCACGTATTTAAGGTTCAGGTTC-G-AA-TTTGAAACTTCAATCGAGTTAAATTT
1 TTTAAGGTTTTCACGTATTTAAGGTTCAGGTTCAGTAAGTTTGAAACTTCAATCGAGTTAAATTT
*
2582756 AAGGGGGGTTTT-ATTTCAAG-CATTTTTGAGCTTTT
66 AA-GGGGGTTTTCATTT-AAGTC-TTTTCGAGCTTTT
2582791 GTTCATGATT
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
107 5 0.06
108 39 0.45
109 9 0.10
112 1 0.01
114 33 0.38
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (110 bp):
TTTAAGGTTTTCACGTATTTAAGGTTCAGGTTCAGTAAGTTTGAAACTTCAATCGAGTTAAATTT
AAGGGGGTTTTCATTTAAGTCTTTTCGAGCTTTTACGAGCTTCAG
Found at i:2589349 original size:52 final size:51
Alignment explanation
Indices: 2589287--2589402 Score: 146
Period size: 52 Copynumber: 2.3 Consensus size: 51
2589277 AGGATTAGAT
* **
2589287 TTATTATTTTATT-AGAAATTAAGATAG-AGCTAAAATATTATTTTTCAGTTTA
1 TTATTATTTTATTAAG-AATTAAGATAGAATC-AAAATATTAACTTT-AGTTTA
* *
2589339 TTATTATTTTATTAAGAATTAGGATAGAATCGAAATATTAACTTTAGTTTA
1 TTATTATTTTATTAAGAATTAAGATAGAATCAAAATATTAACTTTAGTTTA
2589390 TTATTATTTTATT
1 TTATTATTTTATT
2589403 CAGTAGTTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
51 19 0.33
52 34 0.60
53 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.50
Consensus pattern (51 bp):
TTATTATTTTATTAAGAATTAAGATAGAATCAAAATATTAACTTTAGTTTA
Found at i:2601155 original size:2 final size:2
Alignment explanation
Indices: 2601150--2601188 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2601140 TTTCCAATTC
*
2601150 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2601189 CACACACATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2611016 original size:19 final size:20
Alignment explanation
Indices: 2610976--2611023 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2610966 TTAAATGTAA
* *
2610976 TTTTTTTCATTGTTTTTCTT
1 TTTTTTTCATTGTATTTATT
2610996 TTTTTTTCATT-TATTTATT
1 TTTTTTTCATTGTATTTATT
*
2611015 TTTTATTCA
1 TTTTTTTCA
2611024 GAATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTCATTGTATTTATT
Found at i:2619539 original size:40 final size:38
Alignment explanation
Indices: 2619451--2619543 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
2619441 GTATGCAATA
*
2619451 AAGATCTATATATAATGTCTAACCCCAAAAGAAAGCAT
1 AAGATCTATATATAATGTCTAACACCAAAAGAAAGCAT
*
2619489 AAGATCTATATATAATGTCTAACACCAAAAGAAGGCAT
1 AAGATCTATATATAATGTCTAACACCAAAAGAAAGCAT
2619527 AAGATCTATATATAATG
1 AAGATCTATATATAATG
2619544 CCACGGCTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (38 bp):
AAGATCTATATATAATGTCTAACACCAAAAGAAAGCAT
Found at i:2621912 original size:16 final size:17
Alignment explanation
Indices: 2621869--2621913 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
2621859 TTATTATTTT
*
2621869 GTATTTAATTTATTTAA
1 GTATTTAACTTATTTAA
2621886 GTATTTAACTTATTTAA
1 GTATTTAACTTATTTAA
*
2621903 -TATTTTACTTA
1 GTATTTAACTTA
2621914 ATTATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (17 bp):
GTATTTAACTTATTTAA
Found at i:2627917 original size:20 final size:21
Alignment explanation
Indices: 2627892--2627936 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
2627882 AACAGTTTAC
* *
2627892 AATTAATTTAAATAA-TATAT
1 AATTAATTAAAAAAATTATAT
2627912 AATTAATTAAAAAAATTATAT
1 AATTAATTAAAAAAATTATAT
2627933 AATT
1 AATT
2627937 TTTTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTAATTAAAAAAATTATAT
Found at i:2628087 original size:14 final size:14
Alignment explanation
Indices: 2628068--2628094 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2628058 TTATTAATCG
2628068 TTAACCGAACTAAA
1 TTAACCGAACTAAA
2628082 TTAACCGAACTAA
1 TTAACCGAACTAA
2628095 TTCGATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (14 bp):
TTAACCGAACTAAA
Found at i:2628687 original size:6 final size:6
Alignment explanation
Indices: 2628676--2628719 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
2628666 ATTTCCTTTG
2628676 GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCT-TT GCT
1 GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCT
2628720 GTGATCCTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (6 bp):
GCTATT
Found at i:2630213 original size:61 final size:59
Alignment explanation
Indices: 2630135--2630250 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 59
2630125 TGGCGGAAGA
* *
2630135 CGCATTCCCGGGAACGCG-CTTTC-CATGAATTTATGATGACTCAGGTGACACGTGTGAAAGG
1 CGCATCCCCGGGAACGCGTC-TTCAC-GGAATTT-TGATGACTCAGGTGACACG-GTGAAAGG
* * *
2630196 CGCATCCCCGGGGACGCGTCTTCACGGGATTTTGCTGACTCAGGTGACACGGTGA
1 CGCATCCCCGGGAACGCGTCTTCACGGAATTTTGATGACTCAGGTGACACGGTGA
2630251 TATGTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
59 4 0.08
60 18 0.38
61 24 0.50
62 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (59 bp):
CGCATCCCCGGGAACGCGTCTTCACGGAATTTTGATGACTCAGGTGACACGGTGAAAGG
Found at i:2630810 original size:16 final size:16
Alignment explanation
Indices: 2630776--2630838 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
2630766 CACAAAAAAA
*
2630776 TAAATAATTAATAAATT
1 TAAATAAATAAT-AATT
2630793 TAAATAAATAATAATT
1 TAAATAAATAATAATT
* *
2630809 TATATAAAT-ATTATT
1 TAAATAAATAATAATT
* *
2630824 TTAATAAAAAATAAT
1 TAAATAAATAATAAT
2630839 ATTTATATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
15 11 0.29
16 16 0.42
17 11 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATAAATAATAATT
Found at i:2630870 original size:32 final size:32
Alignment explanation
Indices: 2630793--2630871 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 32
2630783 TTAATAAATT
*
2630793 TAAATAAATAATAATTTATATAAATATTATTTTAA
1 TAAA-AAATAAT-ATTTATAT-AATATTATATTAA
2630828 TAAAAAATAATATTTATAT-A-ATTATATTAA
1 TAAAAAATAATATTTATATAATATTATATTAA
2630858 TATAAAATATAATA
1 TA-AAAA-ATAATA
2630872 ACTATGTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
30 11 0.27
31 5 0.12
32 6 0.15
33 8 0.20
34 7 0.17
35 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
TAAAAAATAATATTTATATAATATTATATTAA
Found at i:2635438 original size:18 final size:18
Alignment explanation
Indices: 2635417--2635453 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2635407 GATGTGATAT
2635417 TTTTAAACAAAATTTTAA
1 TTTTAAACAAAATTTTAA
**
2635435 TTTTAAACATTATTTTAA
1 TTTTAAACAAAATTTTAA
2635453 T
1 T
2635454 AAACAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAACAAAATTTTAA
Found at i:2650995 original size:8 final size:8
Alignment explanation
Indices: 2650982--2651022 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2650972 CTCATTTTTA
2650982 GAGAATTT
1 GAGAATTT
2650990 GAGAATTT
1 GAGAATTT
*
2650998 -AGAGTTT
1 GAGAATTT
*
2651005 GGGAATTT
1 GAGAATTT
2651013 GAGAATTT
1 GAGAATTT
2651021 GA
1 GA
2651023 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:2651335 original size:128 final size:128
Alignment explanation
Indices: 2651093--2651464 Score: 674
Period size: 128 Copynumber: 2.9 Consensus size: 128
2651083 TAATCGGAGT
*
2651093 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCA-AGAATATATTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
* *
2651157 AATTACCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTACTATTTC
66 AATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATACTATTTC
2651220 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
* * *
2651285 CATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATTATTTC
66 AATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATACTATTTC
*
2651348 ACTATTCACATGAATGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
2651413 AATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 AATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
2651465 AATCAGCTAA
Statistics
Matches: 235, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
127 52 0.22
128 183 0.78
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
AATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATACTATTTC
Found at i:2652447 original size:34 final size:34
Alignment explanation
Indices: 2652409--2652509 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 34
2652399 AAATTTAATG
* ** *
2652409 TTAAATTTTGAATGCTATAATTTATACTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
2652443 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
2652477 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
2652510 AACATTTATC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:2653058 original size:21 final size:20
Alignment explanation
Indices: 2653031--2653100 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
2653021 GGTATAAAAC
*
2653031 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
2653051 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
2653072 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
2653093 CCCTGCGG
1 -CCTGCGG
2653101 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:2653130 original size:21 final size:21
Alignment explanation
Indices: 2653104--2653151 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2653094 CCTGCGGAGA
*
2653104 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
2653125 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
2653146 GGGCAT
1 TGGCAT
2653152 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:2654921 original size:35 final size:32
Alignment explanation
Indices: 2654880--2654964 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
2654870 AATTCTAAAT
2654880 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
2654915 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* * *
2654947 ATATAATAACTATTTAAA
1 AAATAATAATTATATAAA
2654965 AAAATACTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 22 0.52
34 2 0.05
35 18 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:2654941 original size:32 final size:34
Alignment explanation
Indices: 2654880--2654955 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 34
2654870 AATTCTAAAT
*
2654880 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTACATAAATATTA-TTTAATAAAAA
* *
2654915 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATAAAAA
*
2654947 ATATAATAA
1 AAATAATAA
2654956 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 16 0.44
34 2 0.06
35 18 0.50
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATAAAAA
Found at i:2654980 original size:34 final size:34
Alignment explanation
Indices: 2654908--2654985 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
2654898 TATTATTTTA
* * * *
2654908 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
2654942 ATAAAATATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAA-ATAATAA-TATTTACATAAAAATACTAAC
2654976 ATAAAAATAA
1 ATAAAAATAA
2654986 ATTTATTACC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 4 0.11
34 21 0.55
35 7 0.18
36 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:2656424 original size:25 final size:26
Alignment explanation
Indices: 2656376--2656425 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
2656366 AATTTTTAAT
* *
2656376 TTTATTTTTATAATTTTTATAAATTA
1 TTTAATTTTATAATTTTTAAAAATTA
2656402 TTTAATTTTAT-ATTTTTAAAAATT
1 TTTAATTTTATAATTTTTAAAAATT
2656426 TTATAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTAATTTTATAATTTTTAAAAATTA
Found at i:2656428 original size:34 final size:31
Alignment explanation
Indices: 2656365--2656431 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
2656355 ACACACCTTA
* *
2656365 AAATTTTTAATTTTATTTTTATAATTTTTAT
1 AAATTTTTAATTTTATTTTTAAAAATTTTAT
2656396 AAATTATTTAATTTTATATTTTTAAAAATTTTAT
1 AAATT-TTTAA-TTT-TATTTTTAAAAATTTTAT
2656430 AA
1 AA
2656432 CTTCACATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 5 0.16
32 5 0.16
33 3 0.10
34 18 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
AAATTTTTAATTTTATTTTTAAAAATTTTAT
Found at i:2656833 original size:35 final size:35
Alignment explanation
Indices: 2656792--2656862 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
2656782 GTTAAAAACT
** *
2656792 ATATTAATATCCTAAATTAAAAGCATGGCCCATAA
1 ATATTAATAAACTAAATTAAAAGCAAGGCCCATAA
2656827 ATATTAATAAACTAAATTAAAAGCAAGGCCCATAA
1 ATATTAATAAACTAAATTAAAAGCAAGGCCCATAA
2656862 A
1 A
2656863 CTTATTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.25
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGCAAGGCCCATAA
Found at i:2660981 original size:16 final size:16
Alignment explanation
Indices: 2660962--2661008 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
2660952 TTATATATTA
2660962 TTATTTTTAAATAATT
1 TTATTTTTAAATAATT
* *
2660978 TTA-TTTTAATTAGTAT
1 TTATTTTTAAATAAT-T
2660994 TT-TTTTTAAATAATT
1 TTATTTTTAAATAATT
2661009 GAGAAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATTTTTAAATAATT
Found at i:2661374 original size:17 final size:18
Alignment explanation
Indices: 2661338--2661375 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2661328 ATATAAAATA
*
2661338 TCAAATAATCCATTTACCC
1 TCAAATAAT-CATATACCC
2661357 TCAAATAAT-ATATACCC
1 TCAAATAATCATATACCC
2661374 TC
1 TC
2661376 GAATTTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (18 bp):
TCAAATAATCATATACCC
Found at i:2686561 original size:21 final size:20
Alignment explanation
Indices: 2686508--2686563 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
2686498 TCTAGTAGAA
*
2686508 TGTTATCTTAAATATTATTT
1 TGTTATCTAAAATATTATTT
*
2686528 TTTCTAT-TAAAAATATTAATTT
1 TGT-TATCT-AAAATATT-ATTT
2686550 TGTTATCTAAAATA
1 TGTTATCTAAAATA
2686564 AATATTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 3 0.10
21 19 0.66
22 7 0.24
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (20 bp):
TGTTATCTAAAATATTATTT
Found at i:2686602 original size:34 final size:33
Alignment explanation
Indices: 2686539--2686611 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
2686529 TTCTATTAAA
**
2686539 AATATTAATTTTGTTATCTAAAATAAATATTTCT
1 AATATTAATTTTGTTATAAAAAATAAATATTT-T
*
2686573 AATATTAATATTTTTTATAAAAAAT-AATATTTT
1 AATATTAAT-TTTGTTATAAAAAATAAATATTTT
2686606 AA-ATTA
1 AATATTA
2686612 TATCTAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 4 0.11
33 3 0.09
34 16 0.46
35 12 0.34
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (33 bp):
AATATTAATTTTGTTATAAAAAATAAATATTTT
Found at i:2688340 original size:19 final size:20
Alignment explanation
Indices: 2688308--2688345 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
2688298 TTCTCTCATC
2688308 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTCTCTTA
2688327 TCTTCTTCAC-TCTTCTCTT
1 TCTTCTTC-CTTCTTCTCTT
2688346 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTCTCTTA
Found at i:2689340 original size:21 final size:21
Alignment explanation
Indices: 2689314--2689375 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
2689304 GTCGAGGGTT
2689314 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
* *
2689335 TCATAGGTCCTTCGGGACTAT
1 TCATAGGTCCTTCGGGACAAC
*
2689356 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
2689376 ATTTCATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:2689915 original size:22 final size:22
Alignment explanation
Indices: 2689887--2689932 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2689877 TGTAGCAGTA
*
2689887 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
*
2689909 CTGTAGCAGGGGGATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
2689931 CT
1 CT
2689933 ATTTGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:2690633 original size:18 final size:19
Alignment explanation
Indices: 2690592--2690633 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2690582 TAAAAATTAT
*
2690592 AAATTTTATATATTTTTGA
1 AAATTTTATATACTTTTGA
2690611 AAATTTTAT-TGACTTTT-A
1 AAATTTTATAT-ACTTTTGA
2690629 AAATT
1 AAATT
2690634 AACTGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTTTATATACTTTTGA
Found at i:2691102 original size:329 final size:309
Alignment explanation
Indices: 2690631--2691272 Score: 650
Period size: 329 Copynumber: 2.0 Consensus size: 309
2690621 GACTTTTAAA
* **
2690631 ATTAACTGTTTAGAAATATAAAAAATATTAAAATAAACTTTTTAAAAAATTTAACAACGGTTAAT
1 ATTAACTGTTTAAAAATATAAAAAATATTAAAAT-AACTTTTTAAAAAATTTAACAACAATTAAT
* *
2690696 AATGTTTATTCATTTTTAATAAAATTAAAATTAAAATTTAATATTTATTTAATATTTTTTAAATT
65 AATGTTTAATCATTTTTAATAAAATTAAAATTAAAATTT-ATATTTAATTAATA---TTT--A-T
**
2690761 AATATTATAAAGAATATTTTAAATAAAGAGGTGATATTTTTTTAGCTTTATATTCTTTTTTATTG
123 -A-A--AT---GAATA--TT--ATAAAGATATGATATTTTTTTA-CTTTATATTCTTTTTTATTG
* * *
2690826 AATTTTAATTTTTTATTGA-ATTTTTATTGATTTTTTAAAAAATGAATATTA-TTAATATT-T-T
176 AATTTTAA-TTTATATT-ACATTTTTATTGA-TTTTAAAAAAATGAATAATATTTAAT-TTATCT
2690887 ATCAACTGTAATTAAAAGTTTATTTTAATATTTTTATTTTTTAAATAATTAATATTAAAATTCAA
237 ATCAACTGTAATTAAAAGTTTATTTTAATATTTTTATTTTTTAAATAATTAATATTAAAATTCAA
2690952 TAAACATT
302 TAAACATT
* **** *
2690960 ATTAATTGTTTAAAAATATAAAAAAATATTAAAAT-ACTCTTTTAATTTTTTTAATAACAATTAA
1 ATTAACTGTTTAAAAATAT-AAAAAATATTAAAATAACT-TTTTAAAAAATTTAACAACAATTAA
* *
2691024 TAATGTTTAATCATTTTTAATAAAATTAGAATTTAATATTT-T-TTTAAATTAATA-TTATAAA-
64 TAATGTTTAATCATTTTTAATAAAATTA-AAATTAAAATTTATATTT-AATTAATATTTATAAAT
*
2691085 GAATATTTTAAATAAAGATATGATATTTTTTTATTTTATATTCTTTTTTATTGAATTTTAATTTA
127 GAATA--TT--ATAAAGATATGATATTTTTTTACTTTATATTCTTTTTTATTGAATTTTAATTTA
* *
2691150 TATTACATTTTTATTGATTTTAAAAAAATGAATAATATTTCATTTGATCTATCAATTGTAATTAA
188 TATTACATTTTTATTGATTTTAAAAAAATGAATAATATTTAATTT-ATCTATCAACTGTAATTAA
* * * *
2691215 AATTTTATTTT-A-A----TA-TTTTTGAACAATTAATATTAAAAATCAATAAACATT
252 AAGTTTATTTTAATATTTTTATTTTTTAAATAATTAATATTAAAATTCAATAAACATT
2691266 ATTAACT
1 ATTAACT
2691273 TTTGTTAAAA
Statistics
Matches: 278, Mismatches: 26, Indels: 41
0.81 0.08 0.12
Matches are distributed among these distances:
306 39 0.14
307 2 0.01
310 21 0.08
311 23 0.08
312 29 0.10
313 56 0.20
317 1 0.00
319 1 0.00
320 1 0.00
321 1 0.00
322 1 0.00
324 2 0.01
327 3 0.01
328 11 0.04
329 62 0.22
330 25 0.09
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (309 bp):
ATTAACTGTTTAAAAATATAAAAAATATTAAAATAACTTTTTAAAAAATTTAACAACAATTAATA
ATGTTTAATCATTTTTAATAAAATTAAAATTAAAATTTATATTTAATTAATATTTATAAATGAAT
ATTATAAAGATATGATATTTTTTTACTTTATATTCTTTTTTATTGAATTTTAATTTATATTACAT
TTTTATTGATTTTAAAAAAATGAATAATATTTAATTTATCTATCAACTGTAATTAAAAGTTTATT
TTAATATTTTTATTTTTTAAATAATTAATATTAAAATTCAATAAACATT
Found at i:2691143 original size:28 final size:28
Alignment explanation
Indices: 2691112--2691170 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
2691102 ATATGATATT
* *
2691112 TTTTTATTTTATATT-CTTTTTTATTGA
1 TTTTTAATTTATATTACATTTTTATTGA
*
2691139 ATTTTAATTTATATTACATTTTTATTGA
1 TTTTTAATTTATATTACATTTTTATTGA
2691167 TTTT
1 TTTT
2691171 AAAAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (28 bp):
TTTTTAATTTATATTACATTTTTATTGA
Found at i:2691150 original size:27 final size:27
Alignment explanation
Indices: 2691113--2691172 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
2691103 TATGATATTT
* *
2691113 TTTTATTTTATATT-CTTTTTTATTGAA
1 TTTTAATTTATATTACATTTTTATTG-A
2691140 TTTTAATTTATATTACATTTTTATTGA
1 TTTTAATTTATATTACATTTTTATTGA
2691167 TTTTAA
1 TTTTAA
2691173 AAAAATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTTAATTTATATTACATTTTTATTGA
Found at i:2692236 original size:26 final size:26
Alignment explanation
Indices: 2692199--2692248 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2692189 CATAGTGTAT
2692199 ATTTTTTAATTT-AATTATAATTTTGG
1 ATTTTTTAATTTCAA-TATAATTTTGG
*
2692225 ATTTTTTTATTTCAATATAATTTT
1 ATTTTTTAATTTCAATATAATTTT
2692249 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (26 bp):
ATTTTTTAATTTCAATATAATTTTGG
Found at i:2692255 original size:27 final size:26
Alignment explanation
Indices: 2692199--2692262 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
2692189 CATAGTGTAT
**
2692199 ATTTTTTAATTTAATTATAATTTTGG
1 ATTTTTTAATTTAATTATAATTTTAA
*
2692225 ATTTTTTTATTTCAA-TATAATTTTAA
1 ATTTTTTAATTT-AATTATAATTTTAA
*
2692251 A-ATTTTAATTTA
1 ATTTTTTAATTTA
2692263 GTAATATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 8 0.25
26 21 0.66
27 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (26 bp):
ATTTTTTAATTTAATTATAATTTTAA
Found at i:2693118 original size:27 final size:27
Alignment explanation
Indices: 2693079--2693133 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
2693069 AAACATGTTA
2693079 TAAAAACATTAAAAAAATAATTTTTAT
1 TAAAAACATTAAAAAAATAATTTTTAT
* *
2693106 TAAAAA-ATATAAAAATATTATTTTTAT
1 TAAAAACAT-TAAAAAAATAATTTTTAT
2693133 T
1 T
2693134 TAGAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAAAACATTAAAAAAATAATTTTTAT
Found at i:2693120 original size:28 final size:27
Alignment explanation
Indices: 2693080--2693143 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
2693070 AACATGTTAT
2693080 AAAAACATTAAAAAAATAATTTTTATTA
1 AAAAACA-TAAAAAAATAATTTTTATTA
* * *
2693108 AAAAATATAAAAATATTATTTTTATTTA
1 AAAAACATAAAAAAATAATTTTTA-TTA
2693136 GAAAAACA
1 -AAAAACA
2693144 AATATACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 15 0.50
28 9 0.30
29 6 0.20
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAACATAAAAAAATAATTTTTATTA
Found at i:2693514 original size:19 final size:21
Alignment explanation
Indices: 2693490--2693533 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2693480 GTTAATCTAT
2693490 TATAATT-AT-TTATAAAAAA
1 TATAATTCATATTATAAAAAA
*
2693509 TATAATTCATATTTTAAAAAA
1 TATAATTCATATTATAAAAAA
2693530 TATA
1 TATA
2693534 TAATACTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
21 13 0.59
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAATTCATATTATAAAAAA
Found at i:2694603 original size:20 final size:20
Alignment explanation
Indices: 2694580--2694617 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2694570 AAACTTGCCC
2694580 TAGAGTATCGATACTACAGT
1 TAGAGTATCGATACTACAGT
* *
2694600 TAGATTATTGATACTACA
1 TAGAGTATCGATACTACA
2694618 CACTCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
TAGAGTATCGATACTACAGT
Found at i:2698734 original size:18 final size:18
Alignment explanation
Indices: 2698707--2698743 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2698697 TCAACCTTTA
*
2698707 GCACCGTCCAAGCCAACT
1 GCACCATCCAAGCCAACT
2698725 GCACCATCCAAGCCAACT
1 GCACCATCCAAGCCAACT
2698743 G
1 G
2698744 TTACAACACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.43, G:0.16, T:0.11
Consensus pattern (18 bp):
GCACCATCCAAGCCAACT
Found at i:2699884 original size:2 final size:2
Alignment explanation
Indices: 2699877--2699914 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2699867 TTGTTGGGTT
2699877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2699915 ATGCAGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2713492 original size:6 final size:6
Alignment explanation
Indices: 2713483--2713511 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2713473 CAATCGCTCT
2713483 CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
2713512 CAGGGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.69, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCCA
Found at i:2735777 original size:25 final size:22
Alignment explanation
Indices: 2735737--2735783 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
2735727 ATTAAAAATA
*
2735737 TAAAAAAAATTGAATTTAGTTTT
1 TAAAAAAAATTAAATTTA-TTTT
2735760 TAAATAAAATATTAAATTTATTTT
1 TAAA-AAAA-ATTAAATTTATTTT
2735784 AATTCGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 8 0.38
25 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAAAAAAATTAAATTTATTTT
Found at i:2736460 original size:47 final size:44
Alignment explanation
Indices: 2736363--2736474 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 44
2736353 TAGTCATCAA
*
2736363 ATTATTATTACTTTTATTTTGGTCACTTTTACATAAAGATGATT
1 ATTATTATTATTTTTATTTTGGTCACTTTTACATAAAGATGATT
** *
2736407 ATTATTATGTATTTTTATTTTGGTCACTTTTTTATAAA-ATTATT
1 ATTATTAT-TATTTTTATTTTGGTCACTTTTACATAAAGATGATT
2736451 AGTGGTATTATCTATTTTTATTTT
1 A-T--TATTAT-TATTTTTATTTT
2736475 AACCACCAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 14 0.24
45 27 0.46
47 18 0.31
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (44 bp):
ATTATTATTATTTTTATTTTGGTCACTTTTACATAAAGATGATT
Found at i:2737204 original size:3 final size:3
Alignment explanation
Indices: 2737196--2737273 Score: 68
Period size: 3 Copynumber: 24.0 Consensus size: 3
2737186 GCAACAGTAG
* *
2737196 CTT CTT CTT CCT CCT CTT CCTT CTT CCTT CTT -TT CCTT CTT CCTT CTT
1 CTT CTT CTT CTT CTT CTT -CTT CTT -CTT CTT CTT -CTT CTT -CTT CTT
2737244 CCTT CTT CCTT CTT CCTT CTT CTT CTT CTT
1 -CTT CTT -CTT CTT -CTT CTT CTT CTT CTT
2737274 TCACACAGTC
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
2 2 0.03
3 43 0.66
4 20 0.31
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (3 bp):
CTT
Found at i:2737222 original size:7 final size:7
Alignment explanation
Indices: 2737196--2737271 Score: 104
Period size: 7 Copynumber: 11.0 Consensus size: 7
2737186 GCAACAGTAG
2737196 CTTCTT-
1 CTTCTTC
*
2737202 CTTCCTC
1 CTTCTTC
2737209 C-TCTTC
1 CTTCTTC
2737215 CTTCTTC
1 CTTCTTC
2737222 CTTCTTTTC
1 CTTC--TTC
2737231 CTTCTTC
1 CTTCTTC
2737238 CTTCTTC
1 CTTCTTC
2737245 CTTCTTC
1 CTTCTTC
2737252 CTTCTTC
1 CTTCTTC
2737259 CTTCTT-
1 CTTCTTC
2737265 CTTCTTC
1 CTTCTTC
2737272 TTTCACACAG
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
6 16 0.25
7 40 0.63
9 7 0.11
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTCTTC
Found at i:2737752 original size:15 final size:16
Alignment explanation
Indices: 2737721--2737754 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2737711 TAAAATTTCC
2737721 GAAGATAAAGAGAAAG
1 GAAGATAAAGAGAAAG
*
2737737 GAAGATACAG-GAAAG
1 GAAGATAAAGAGAAAG
2737752 GAA
1 GAA
2737755 CAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.03, G:0.32, T:0.06
Consensus pattern (16 bp):
GAAGATAAAGAGAAAG
Found at i:2740129 original size:19 final size:19
Alignment explanation
Indices: 2740105--2740205 Score: 105
Period size: 19 Copynumber: 5.1 Consensus size: 19
2740095 ATTTTGAAAG
2740105 ATGTGTTGCGATAGTTAAA
1 ATGTGTTGCGATAGTTAAA
2740124 ATGTGTTGCGATAGTTAAA
1 ATGTGTTGCGATAGTTAAA
*
2740143 ATGTGTTGCGAGAGTTTGAAAA
1 ATGTGTTGCGATAG-TT--AAA
* *
2740165 ACGTGTTATTGCGATAGTGAAA
1 A--TG-TGTTGCGATAGTTAAA
*
2740187 A-GTGTTGCGATAGTGAAA
1 ATGTGTTGCGATAGTTAAA
2740205 A
1 A
2740206 ATCCAAAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
18 16 0.23
19 33 0.46
20 2 0.03
22 8 0.11
24 3 0.04
25 9 0.13
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (19 bp):
ATGTGTTGCGATAGTTAAA
Found at i:2740533 original size:6 final size:6
Alignment explanation
Indices: 2740512--2740554 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
2740502 TCCCGTCTCG
2740512 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2740555 AATACGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:2743039 original size:2 final size:2
Alignment explanation
Indices: 2743032--2743069 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2743022 TGGGAACTTC
2743032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2743070 CATCAGAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2744773 original size:6 final size:6
Alignment explanation
Indices: 2744752--2744802 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
2744742 AATATTAAAT
* *
2744752 TTATAA TAAAAA TTATAA TTATAA TTATAA TTATAAA TTA-AA TATATAA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTAT-AA TTATAA T-TATAA
2744801 TT
1 TT
2744803 GTACTTTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 3 0.08
6 27 0.71
7 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TTATAA
Found at i:2744773 original size:18 final size:19
Alignment explanation
Indices: 2744738--2744787 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
2744728 TATTGAAAAT
2744738 ATAAAATATTA-AATTTATA
1 ATAAAA-ATTATAATTTATA
2744757 ATAAAAATTATAA-TTATA
1 ATAAAAATTATAATTTATA
* *
2744775 ATTATAATTATAA
1 ATAAAAATTATAA
2744788 ATTAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAAAATTATAATTTATA
Found at i:2753429 original size:21 final size:21
Alignment explanation
Indices: 2753399--2753476 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 21
2753389 ATCTGCAAAA
2753399 AAAT-AATTAAATAAAATATT
1 AAATAAATTAAATAAAATATT
*
2753419 AAATAAATTAAAT---A-CTT
1 AAATAAATTAAATAAAATATT
2753436 AAATAAATTAAATACAAAATATT
1 AAATAAATTAAAT--AAAATATT
2753459 -AA-AAA-TATAATAAAATAT
1 AAATAAATTA-AATAAAATAT
2753477 ATGTCAGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
17 15 0.31
18 1 0.02
19 7 0.15
20 6 0.12
21 14 0.29
22 3 0.06
23 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAAATTAAATAAAATATT
Found at i:2753430 original size:9 final size:9
Alignment explanation
Indices: 2753416--2753449 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2753406 TAAATAAAAT
2753416 ATTAAATAA
1 ATTAAATAA
2753425 ATTAAAT-A
1 ATTAAATAA
*
2753433 CTTAAATAA
1 ATTAAATAA
2753442 ATTAAATA
1 ATTAAATA
2753450 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:2753437 original size:17 final size:17
Alignment explanation
Indices: 2753406--2753450 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
2753396 AAAAAATAAT
*
2753406 TAAATAAAATA-TTAAA
1 TAAATTAAATACTTAAA
2753422 TAAATTAAATACTTAAA
1 TAAATTAAATACTTAAA
2753439 TAAATTAAATAC
1 TAAATTAAATAC
2753451 AAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATTAAATACTTAAA
Found at i:2753864 original size:30 final size:29
Alignment explanation
Indices: 2753800--2753870 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
2753790 AAGGGTGTTA
* *
2753800 GATCGGAAAATATAGTCTGAACGGTGCTT
1 GATCGGAAAATATAGTCTCAACGGTGATT
2753829 GATCGGAAAATATATTGT-TCAACGGTGATAT
1 GATCGGAAAATATA--GTCTCAACGGTGAT-T
2753860 -ATCGGGAAAAT
1 GATC-GGAAAAT
2753871 CGCCTTGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 14 0.39
30 12 0.33
31 10 0.28
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (29 bp):
GATCGGAAAATATAGTCTCAACGGTGATT
Found at i:2754338 original size:24 final size:24
Alignment explanation
Indices: 2754294--2754339 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2754284 GTTTATGGTA
*
2754294 TATTTTATTATATTTAATATTTTG
1 TATTTAATTATATTTAATATTTTG
2754318 TATTTAATT-TATTTAAGTATTT
1 TATTTAATTATATTTAA-TATTT
2754340 AAATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TATTTAATTATATTTAATATTTTG
Found at i:2754339 original size:17 final size:17
Alignment explanation
Indices: 2754317--2754373 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
2754307 TTAATATTTT
2754317 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
*
2754334 GTATTTAAATTATTTAA
1 GTATTTAATTTATTTAA
* *
2754351 -TATTGTATTTTAATTAA
1 GTATT-TAATTTATTTAA
*
2754368 TTATTT
1 GTATTT
2754374 TGCATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 4 0.12
17 26 0.76
18 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:2759602 original size:23 final size:24
Alignment explanation
Indices: 2759547--2759603 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
2759537 ACGAAAATGT
*
2759547 AACATAATAAAATTTTTACACATA
1 AACATAATAAAATTTTTACAAATA
* *
2759571 AACGT-ATAATATTTTT-CAAATA
1 AACATAATAAAATTTTTACAAATA
*
2759593 ATCATAATAAA
1 AACATAATAAA
2759604 CTATAAGTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
22 8 0.31
23 14 0.54
24 4 0.15
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.35
Consensus pattern (24 bp):
AACATAATAAAATTTTTACAAATA
Found at i:2760833 original size:12 final size:12
Alignment explanation
Indices: 2760816--2760868 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
2760806 TTAATTAATC
2760816 AAATTTATATGT
1 AAATTTATATGT
2760828 AAATTTAT-T-T
1 AAATTTATATGT
* *
2760838 AAA--TAGAAGT
1 AAATTTATATGT
2760848 CAAATTTATATGT
1 -AAATTTATATGT
2760861 AAATTTAT
1 AAATTTAT
2760869 TTAAATAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
8 2 0.06
10 5 0.16
11 4 0.12
12 16 0.50
13 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (12 bp):
AAATTTATATGT
Found at i:2760852 original size:33 final size:33
Alignment explanation
Indices: 2760814--2760880 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2760804 ATTTAATTAA
2760814 TCAAATTTATATGTAAATTTATTTAAATAGAAG
1 TCAAATTTATATGTAAATTTATTTAAATAGAAG
2760847 TCAAATTTATATGTAAATTTATTTAAATAGAAG
1 TCAAATTTATATGTAAATTTATTTAAATAGAAG
2760880 T
1 T
2760881 ATATATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (33 bp):
TCAAATTTATATGTAAATTTATTTAAATAGAAG
Found at i:2766796 original size:2 final size:2
Alignment explanation
Indices: 2766789--2766818 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2766779 TCTAACATTA
2766789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2766819 TATTTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2768898 original size:26 final size:26
Alignment explanation
Indices: 2768869--2768924 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
2768859 CATGATATTA
2768869 AAAAAATAGAAAAAATA-AAATAAAGT
1 AAAAAATAGAAAAAATATAAATAAA-T
* * *
2768895 -AAAAATATAATATATATAAATAAAT
1 AAAAAATAGAAAAAATATAAATAAAT
2768920 AAAAA
1 AAAAA
2768925 CAAAAATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (26 bp):
AAAAAATAGAAAAAATATAAATAAAT
Found at i:2769085 original size:14 final size:14
Alignment explanation
Indices: 2769077--2769114 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2769067 TATAAGATAT
2769077 ATATAATAAAAATA
1 ATATAATAAAAATA
*
2769091 ATATAATATAAATA
1 ATATAATAAAAATA
2769105 A-ATAA-AAAAA
1 ATATAATAAAAA
2769115 GAGGAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 4 0.18
13 4 0.18
14 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:2769094 original size:25 final size:25
Alignment explanation
Indices: 2769046--2769112 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
2769036 ACATACATAC
* *
2769046 ATATATATATATATATAATGATATAAG
1 ATATATATA-ATA-AAAATAATATAAG
*
2769073 ATATATATAATAAAAATAATATAAT
1 ATATATATAATAAAAATAATATAAG
*
2769098 ATAAATA-AATAAAAA
1 ATATATATAATAAAAA
2769113 AAGAGGAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 8 0.22
25 16 0.44
26 3 0.08
27 9 0.25
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATATATAATAAAAATAATATAAG
Found at i:2769344 original size:26 final size:28
Alignment explanation
Indices: 2769303--2769363 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
2769293 CTTTTCTTTA
*
2769303 ATTTTC-CTTTGTTTTTTTCTCT-TTTT
1 ATTTTCTCTTTGTTTTTTTCTCTCTCTT
2769329 ATTTTCTCTTTGTTTTTTT-TCTCTCTT
1 ATTTTCTCTTTGTTTTTTTCTCTCTCTT
2769356 -TTTTCTCT
1 ATTTTCTCT
2769364 GATTGAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.75
Consensus pattern (28 bp):
ATTTTCTCTTTGTTTTTTTCTCTCTCTT
Found at i:2769348 original size:15 final size:15
Alignment explanation
Indices: 2769304--2769352 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 15
2769294 TTTTCTTTAA
2769304 TTTTC-CTTTG-TTT
1 TTTTCTCTTTGTTTT
*
2769317 TTTTCTC-TT-TTTA
1 TTTTCTCTTTGTTTT
2769330 TTTTCTCTTTGTTTT
1 TTTTCTCTTTGTTTT
2769345 TTTTCTCT
1 TTTTCTCT
2769353 CTTTTTTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 16 0.53
14 3 0.10
15 11 0.37
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTCTCTTTGTTTT
Found at i:2769348 original size:28 final size:27
Alignment explanation
Indices: 2769297--2769357 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 27
2769287 CTTATTCTTT
*
2769297 TCTTTAATTTTCCTTTGTTTTTTTCTC
1 TCTTTTATTTTCCTTTGTTTTTTTCTC
2769324 T-TTTTATTTTCTCTTTGTTTTTTTTCTC
1 TCTTTTATTTTC-CTTTG-TTTTTTTCTC
2769352 TCTTTT
1 TCTTTT
2769358 TTCTCTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 9 0.30
27 6 0.20
28 11 0.37
29 4 0.13
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.75
Consensus pattern (27 bp):
TCTTTTATTTTCCTTTGTTTTTTTCTC
Found at i:2769353 original size:17 final size:17
Alignment explanation
Indices: 2769324--2769356 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2769314 TTTTTTTCTC
2769324 TTTTTATTTTCTCTTTG
1 TTTTTATTTTCTCTTTG
2769341 TTTTT-TTTCTCTCTTT
1 TTTTTATTT-TCTCTTT
2769357 TTTCTCTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTCTCTTTG
Found at i:2769357 original size:13 final size:12
Alignment explanation
Indices: 2769314--2769363 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
2769304 TTTTCCTTTG
2769314 TTTTTTTCTCTT
1 TTTTTTTCTCTT
2769326 TTTATTTTCTCTT
1 TTT-TTTTCTCTT
*
2769339 TGTTTTTTTTCTCT
1 T-TTTTTTCTCT-T
*
2769353 CTTTTTTCTCT
1 TTTTTTTCTCT
2769364 GATTGAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 3 0.09
13 26 0.81
14 3 0.09
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:2769359 original size:15 final size:15
Alignment explanation
Indices: 2769309--2769359 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
2769299 TTTAATTTTC
*
2769309 CTTTGTTTTTT-TCT
1 CTTTTTTTTTTCTCT
*
2769323 CTTTTTATTTTCTCT
1 CTTTTTTTTTTCTCT
2769338 -TTGTTTTTTTTCTCT
1 CTT-TTTTTTTTCTCT
2769353 CTTTTTT
1 CTTTTTT
2769360 CTCTGATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.35
15 18 0.58
16 2 0.06
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (15 bp):
CTTTTTTTTTTCTCT
Found at i:2769527 original size:21 final size:22
Alignment explanation
Indices: 2769490--2769542 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
2769480 GGTTAGGGTT
2769490 GAATCAAAAGAAAAATACTATA
1 GAATCAAAAGAAAAATACTATA
2769512 GAATCAAAAG-AAAATACTATA
1 GAATCAAAAGAAAAATACTATA
*
2769533 GACTCAAAAG
1 GAATCAAAAG
2769543 GGGACACAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.17
Consensus pattern (22 bp):
GAATCAAAAGAAAAATACTATA
Found at i:2772516 original size:25 final size:25
Alignment explanation
Indices: 2772453--2772516 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
2772443 CAAACATGAG
*
2772453 AATAATAAATAAAACAAGAAAAAAT
1 AATAATAAAAAAAACAAGAAAAAAT
* * * *
2772478 AGAAAAT-AACAAAACACGTAAAAAT
1 A-ATAATAAAAAAAACAAGAAAAAAT
2772503 AATAATAAAAAAAA
1 AATAATAAAAAAAA
2772517 TGAATAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 4 0.13
25 23 0.74
26 4 0.13
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (25 bp):
AATAATAAAAAAAACAAGAAAAAAT
Found at i:2772733 original size:16 final size:16
Alignment explanation
Indices: 2772714--2772824 Score: 66
Period size: 16 Copynumber: 6.6 Consensus size: 16
2772704 AAAATAGAAA
2772714 AAAAATATAATAAAGT
1 AAAAATATAATAAAGT
*
2772730 AAAAATATAATATA-T
1 AAAAATATAATAAAGT
* **
2772745 ATAAATA-AATAAAAAC
1 AAAAATATAAT-AAAGT
*
2772761 AAAAATAAAATATTAAG-
1 AAAAATATAATA--AAGT
2772778 AAAATATATATATAAACGT
1 AAAA-ATATA-ATAAA-GT
*
2772797 ATAAAATATAATATTAAGA
1 A-AAAATATAATA--AAGT
2772816 AAAAATATA
1 AAAAATATA
2772825 TATACATAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.04
15 9 0.12
16 20 0.27
17 9 0.12
18 18 0.24
19 11 0.15
20 5 0.07
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
AAAAATATAATAAAGT
Found at i:2772825 original size:15 final size:16
Alignment explanation
Indices: 2772770--2772827 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
2772760 CAAAAATAAA
2772770 ATATTAAGAAAATATAT
1 ATATTAAGAAAA-ATAT
*
2772787 ATATAAACGTATAAAATAT
1 ATATTAA-G-A-AAAATAT
2772806 AATATTAAGAAAAAATAT
1 -ATATTAAG-AAAAATAT
2772824 ATAT
1 ATAT
2772828 ACATAGCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 7 0.21
20 9 0.26
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (16 bp):
ATATTAAGAAAAATAT
Done.