Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 52 of 343
Found at i:17152311 original size:86 final size:87
Alignment explanation
Indices: 17152201--17152412 Score: 209
Period size: 90 Copynumber: 2.4 Consensus size: 87
17152191 TTAAGGGTGT
* **
17152201 AAAAA-GCCCTCAAACTGTTCCAAAAAA-AAATTATTCAACC-C-TTTTTTTTGCACTCAATTGA
1 AAAAAGGCCCTCAAACT-TTTCAAAAAAGAAATTAAGC-ACCGCTTTTTTTTTGCACTCAATTGA
17152262 GCACTTAAACTTTCAAAATGCATC-
64 GCACTTAAACTTTCAAAATGCA-CA
* * *
17152286 AAAAAGGCCCTCAAACTTCTTCAAAAGAAGCAATTAAGCCCCTGCTTTTTTTTTTCACTCAATTG
1 AAAAAGGCCCTCAAACTT-TTCAAAA-AAGAAATTAAGCACC-GCTTTTTTTTTGCACTCAATTG
* * * *
17152351 GGTACTTGAACTTTCAAAATGTACA
63 AGCACTTAAACTTTCAAAATGCACA
* * *
17152376 AAAAAGACCCTCAAAATTTTTCAAAAAAGCAATTAAG
1 AAAAAGGCCCTC-AAACTTTTCAAAAAAGAAATTAAG
17152413 TCCATACACT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
85 6 0.06
86 17 0.16
87 4 0.04
88 6 0.06
89 13 0.12
90 55 0.52
91 5 0.05
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (87 bp):
AAAAAGGCCCTCAAACTTTTCAAAAAAGAAATTAAGCACCGCTTTTTTTTTGCACTCAATTGAGC
ACTTAAACTTTCAAAATGCACA
Found at i:17152363 original size:90 final size:89
Alignment explanation
Indices: 17152242--17152412 Score: 245
Period size: 90 Copynumber: 1.9 Consensus size: 89
17152232 TATTCAACCC
* *
17152242 TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATC-AAAAAGGCCCTCAAACTTCT
1 TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCA-CAAAAAAGACCCTCAAAATTCT
17152306 TCAAAAGAAGCAATTAAGCCCCTGCT
65 TCAAAA-AAGCAATTAAGCCCCTGCT
* * * * * *
17152332 TTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGTACAAAAAAGACCCTCAAAATTTTT
1 TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCACAAAAAAGACCCTCAAAATTCTT
17152397 CAAAAAAGCAATTAAG
66 CAAAAAAGCAATTAAG
17152413 TCCATACACT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 12 0.17
90 60 0.83
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (89 bp):
TTTTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCACAAAAAAGACCCTCAAAATTCTT
CAAAAAAGCAATTAAGCCCCTGCT
Found at i:17152449 original size:18 final size:18
Alignment explanation
Indices: 17152426--17152509 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
17152416 ATACACTTAT
17152426 TAAAAATTAGAAAAATTA
1 TAAAAATTAGAAAAATTA
*
17152444 TAAAAA--ACAATAAATTTAA
1 TAAAAATTAGAA-AAA-TT-A
** *
17152463 TAAAAATTTTAAAATTTA
1 TAAAAATTAGAAAAATTA
17152481 TTAAAAATTAGAAAAAAATTA
1 -TAAAAATTAG--AAAAATTA
17152502 TAAAAATT
1 TAAAAATT
17152510 GTAAAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 9 0.18
19 17 0.33
20 10 0.20
21 9 0.18
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAATTAGAAAAATTA
Found at i:17152506 original size:9 final size:9
Alignment explanation
Indices: 17152426--17152554 Score: 64
Period size: 9 Copynumber: 13.7 Consensus size: 9
17152416 ATACACTTAT
17152426 TAAAAATTA
1 TAAAAATTA
*
17152435 GAAAAATTA
1 TAAAAATTA
17152444 TAAAAA--A
1 TAAAAATTA
*
17152451 CAATAAATTTAA
1 TAA-AAA-TT-A
*
17152463 TAAAAATTT
1 TAAAAATTA
*
17152472 TAAAATTTA
1 TAAAAATTA
17152481 TTAAAAATTAGA
1 -TAAAAATT--A
*
17152493 AAAAAATTA
1 TAAAAATTA
*
17152502 TAAAAATTG
1 TAAAAATTA
*
17152511 TAAAAAAATA
1 T-AAAAATTA
* * *
17152521 AAAAAAATG
1 TAAAAATTA
*
17152530 TAAAATTTTA
1 TAAAA-ATTA
*
17152540 TAAAAATCA
1 TAAAAATTA
17152549 TAAAAA
1 TAAAAA
17152555 AATTAACGAC
Statistics
Matches: 89, Mismatches: 21, Indels: 20
0.68 0.16 0.15
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 48 0.54
10 21 0.24
11 10 0.11
12 4 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:17152515 original size:19 final size:19
Alignment explanation
Indices: 17152462--17152546 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
17152452 AATAAATTTA
* *
17152462 ATAAAAATT-TTAAAATTT
1 ATAAAAATTGTAAAAAATT
*
17152480 ATTAAAAATTAGAAAAAAATT
1 A-TAAAAATT-GTAAAAAATT
*
17152501 ATAAAAATTGTAAAAAAAT
1 ATAAAAATTGTAAAAAATT
* * **
17152520 AAAAAAAATGTAAAATTTT
1 ATAAAAATTGTAAAAAATT
17152539 ATAAAAAT
1 ATAAAAAT
17152547 CATAAAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
18 1 0.02
19 36 0.69
20 8 0.15
21 7 0.13
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
ATAAAAATTGTAAAAAATT
Found at i:17152515 original size:20 final size:20
Alignment explanation
Indices: 17152482--17152559 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
17152472 TAAAATTTAT
17152482 TAAAAATTAG-AAAAAAATTA
1 TAAAAATT-GTAAAAAAATTA
17152502 TAAAAATTGTAAAAAAA-TA
1 TAAAAATTGTAAAAAAATTA
* * **
17152521 AAAAAAATGT-AAAATTTTA
1 TAAAAATTGTAAAAAAATTA
**
17152540 TAAAAATCATAAAAAAATTA
1 TAAAAATTGTAAAAAAATTA
17152560 ACGACCCCTA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 4 0.09
19 19 0.42
20 22 0.49
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAAAATTGTAAAAAAATTA
Found at i:17152517 original size:30 final size:29
Alignment explanation
Indices: 17152422--17152559 Score: 88
Period size: 30 Copynumber: 4.8 Consensus size: 29
17152412 GTCCATACAC
* *
17152422 TTATTAAAAATT-AGAAAAATTATAAAAA
1 TTATAAAAAATTAAAAAAAATTATAAAAA
* * * * *
17152450 --ACAATAAATTTAATAAAAATTTTAAAAT
1 TTATAA-AAAATTAAAAAAAATTATAAAAA
*
17152478 TTATTAAAAATTAGAAAAAAATTATAAAAA
1 TTATAAAAAATTA-AAAAAAATTATAAAAA
* * *
17152508 TTGTAAAAAAATAAAAAAAA-TGT-AAAA
1 TTATAAAAAATTAAAAAAAATTATAAAAA
* *
17152535 TTTTATAAAAATCATAAAAAAATTA
1 TTATA-AAAAATTA-AAAAAAATTA
17152560 ACGACCCCTA
Statistics
Matches: 82, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
26 2 0.02
27 13 0.16
28 21 0.26
29 20 0.24
30 26 0.32
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (29 bp):
TTATAAAAAATTAAAAAAAATTATAAAAA
Found at i:17152526 original size:58 final size:58
Alignment explanation
Indices: 17152422--17152559 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 58
17152412 GTCCATACAC
** * *
17152422 TTATTAAAAATTAG--AAAAATTATAAAAAACAATAAATTTAATAAAAATTTTAAAAT
1 TTATTAAAAATTAGAAAAAAATTATAAAAAACAATAAAAATAATAAAAAATGTAAAAT
**
17152478 TTATTAAAAATTAGAAAAAAATTATAAAAATTGTAA-AAAAATAA-AAAAAATGTAAAAT
1 TTATTAAAAATTAGAAAAAAATTATAAAAA--ACAATAAAAATAATAAAAAATGTAAAAT
* *
17152536 TT-TATAAAAATCATAAAAAAATTA
1 TTAT-TAAAAATTAGAAAAAAATTA
17152560 ACGACCCCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
56 14 0.20
57 1 0.01
58 46 0.67
59 6 0.09
60 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (58 bp):
TTATTAAAAATTAGAAAAAAATTATAAAAAACAATAAAAATAATAAAAAATGTAAAAT
Found at i:17152845 original size:19 final size:19
Alignment explanation
Indices: 17152823--17152875 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
17152813 TTTGATAAAA
17152823 TTTTACAATTTTTTTTATT
1 TTTTACAATTTTTTTTATT
* *
17152842 TTTTACTATTTTTTATATT
1 TTTTACAATTTTTTTTATT
17152861 TTTTA-ATATTTTTTT
1 TTTTACA-ATTTTTTT
17152876 AATATTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTACAATTTTTTTTATT
Found at i:17152873 original size:10 final size:10
Alignment explanation
Indices: 17152838--17152882 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
17152828 CAATTTTTTT
*
17152838 TATTTTTTAC
1 TATTTTTTAA
17152848 TATTTTTT-A
1 TATTTTTTAA
17152857 TATTTTTTAA
1 TATTTTTTAA
17152867 TATTTTTTTAA
1 TA-TTTTTTAA
17152878 TATTT
1 TATTT
17152883 AAATTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.25
10 14 0.44
11 10 0.31
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:17153155 original size:90 final size:91
Alignment explanation
Indices: 17152991--17153163 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 91
17152981 AAAATTGAGG
* * * * *
17152991 GTCTTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAAGGGATTAA
1 GTCTTTTTTATACATTTTAAAAGTTCAAATACCCAAATAAGTGCAAAAAAAAAGTAAGGGATTAA
*
17153056 TTGATTTTTTT-AAAAAGGTTTGAAT
66 CTGATTTTTTTGAAAAAGGTTTGAAT
* * *
17153081 GTCTTTTTTATACATTTTAAAAGTTCAAATAGCCAAATAAGTG-AAAAAAAAGGGT-AGAGGTTT
1 GTCTTTTTTATACATTTTAAAAGTTCAAATACCCAAATAAGTGCAAAAAAAA-AGTAAG-GGATT
17153144 AACTGCA-TTTTTTGAAAAAG
64 AACTG-ATTTTTTTGAAAAAG
17153164 TTTAAAAACT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
89 10 0.14
90 53 0.76
91 7 0.10
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (91 bp):
GTCTTTTTTATACATTTTAAAAGTTCAAATACCCAAATAAGTGCAAAAAAAAAGTAAGGGATTAA
CTGATTTTTTTGAAAAAGGTTTGAAT
Found at i:17154616 original size:3 final size:3
Alignment explanation
Indices: 17154608--17154708 Score: 73
Period size: 3 Copynumber: 34.0 Consensus size: 3
17154598 AGGATGAAAC
* * * * *
17154608 AAT AAT AAT AA- AAT GA- AAT AAA AAT AAC AAT ACATT AAT AAG AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
** * * *
17154653 AAT AAT -AT AAT AAT AGC AAT AAT AAT AAC AAT AAC AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17154700 AAT AAT AAT
1 AAT AAT AAT
17154709 TAATTTGAAA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
2 5 0.07
3 64 0.88
4 2 0.03
5 2 0.03
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:17154663 original size:17 final size:17
Alignment explanation
Indices: 17154643--17154676 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17154633 AACAATACAT
*
17154643 TAATAAGAGTAATAATA
1 TAATAAGAGCAATAATA
*
17154660 TAATAATAGCAATAATA
1 TAATAAGAGCAATAATA
17154677 ATAACAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (17 bp):
TAATAAGAGCAATAATA
Found at i:17156437 original size:133 final size:131
Alignment explanation
Indices: 17156154--17156555 Score: 534
Period size: 132 Copynumber: 3.0 Consensus size: 131
17156144 ATTTCAGCCT
* * * * *
17156154 AGATAAGGCTAGTGGCTTAAATCTGCTCCCCTGTTACCTCAGGAAGATAAGATCCGTCGTCTTTG
1 AGATAAGGCTAGTGGCTTAAATCTGCT-CCCTGCTACCTCAGGAAGATAAGATTCGCCATCTTCG
* *
17156219 ATCTGCTCCACTGCTACTCAAGGGGATAAAATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAG
65 ATCTGCTCCACTGCTACTCAAGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAG
17156284 GG
130 GG
* *
17156286 AGATAAGGCTAGTGGCTTAAATTTGCTCCCTTGCTACCTTAGGAAGATAAGATTCGCCATCTTCG
1 AGATAAGGCTAGTGGCTTAAATCTGCTCCC-TGCTACCTCAGGAAGATAAGATTCGCCATCTTCG
* * * * *
17156351 ATCTGCTCCATTGTTACCTCATGGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTGCTTA
65 ATCTGCTCCACTGCTA-CTCAAGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCA
17156416 GGG
129 GGG
* * * *
17156419 AGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGGAGGATAAGATTCGCCATCTTCA
1 AGATAAGGCTAGTGGCTTAAATCTGCTC-CCTGCTACCTCAGGAAGATAAGATTCGCCATCTTCG
* * * * * ** *
17156484 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCACTGTTGCTCAG
65 ATCTGCTCCACTGCTACTCAAGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAG
17156549 GG
130 GG
17156551 AGATA
1 AGATA
17156556 GGATCTACAA
Statistics
Matches: 235, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
131 3 0.01
132 117 0.50
133 113 0.48
134 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (131 bp):
AGATAAGGCTAGTGGCTTAAATCTGCTCCCTGCTACCTCAGGAAGATAAGATTCGCCATCTTCGA
TCTGCTCCACTGCTACTCAAGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGG
G
Found at i:17156493 original size:88 final size:87
Alignment explanation
Indices: 17156398--17156690 Score: 279
Period size: 88 Copynumber: 3.3 Consensus size: 87
17156388 AATTTTCAGC
*
17156398 CTGCTCCACTGCTGCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGGA
*
17156463 GGATAAGATTCGCCATCTTCAAT
66 -GATAAGATTCACCATCTTCAAT
* **** * **
17156486 CTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTC-CACTG-TTGCTCAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTAGTGGCTTAAATCTGCTCTC-CTGCTACCTC-G
* * **
17156549 GGAGATAGGA-TCTACAATCTTCAGC
63 GGAGATAAGATTC-ACCATCTTCAAT
* * * * * *
17156574 CTGCTCTACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT-TCCCTACTACCTCGAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTCT-CCTGCTACCTCG-G
* * *
17156638 AAGATAAGATTCACCGTCTTCGAT
64 GAGATAAGATTCACCATCTTCAAT
*
17156662 CTGCTCCACTACTACTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
17156691 TCTACAACCT
Statistics
Matches: 156, Mismatches: 40, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
87 19 0.12
88 113 0.72
89 24 0.15
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (87 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGGA
GATAAGATTCACCATCTTCAAT
Found at i:17156586 original size:133 final size:133
Alignment explanation
Indices: 17156168--17156601 Score: 383
Period size: 133 Copynumber: 3.3 Consensus size: 133
17156158 AAGGCTAGTG
* ** * * * * ** * *
17156168 GCTTAAATCTGCTCCCCTGTTACCTCAGGAAGATAAGATCCGTCGTCTTTGATCTGCTCCACTGC
1 GCTTAAACCTGCTCTACTGCTACCTCAGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
* * *
17156233 TA-CTCAAGGG-GATAAAATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGATAAGGCT
66 TACCTC-AGGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTCAGGGAGATAAGACT
***
17156296 AGTG
130 ACAA
** * * * * * *
17156300 GCTTAAATTTGCTC-CCTTGCTACCTTAGGAAGATAAGATTCGCCATCTTCGATCTGCTCCATTG
1 GCTTAAACCTGCTCTAC-TGCTACCTCAGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTA
* * * * *
17156364 TTACCTCATGGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTGCTTAGGGAGATAAGACT
65 CTACCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTCAGGGAGATAAGACT
***
17156429 AGTG
130 ACAA
* * * *
17156433 GCTTAAATCTGCTCTCCTGCTACCTCGGGAGGATAAGATTCGCCATCTTCAATCTACTCCACTAC
1 GCTTAAACCTGCTCTACTGCTACCTCAGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
* * * * *
17156498 T-GCTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCACTGTTGCTCAGGGAGATAGGATCT
66 TACCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTCAGGGAGATAAGA-CT
17156562 ACAA
130 ACAA
* * * * *
17156566 TCTTCAGCCTGCTCTACTGCT-GCTCAGGGAGATAAG
1 GCTTAAACCTGCTCTACTGCTACCTCAGGAAGATAAG
17156602 GCTAGTGGCT
Statistics
Matches: 253, Mismatches: 44, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
131 2 0.01
132 120 0.47
133 129 0.51
134 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (133 bp):
GCTTAAACCTGCTCTACTGCTACCTCAGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
TACCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTCAGGGAGATAAGACTA
CAA
Found at i:17156634 original size:176 final size:176
Alignment explanation
Indices: 17156344--17156733 Score: 539
Period size: 176 Copynumber: 2.2 Consensus size: 176
17156334 AAGATTCGCC
* * * *
17156344 ATCTTCGATCTGCTCCATTGTTACCTCATGGAGATAAGATCTACAATTTTCAGCCTGCTCCACTG
1 ATCTTCAATCTGCTCCACTGTTA-CTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTG
* * ** *
17156409 CTGCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGGAGGATAAGATTC
65 CTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTACTACCTCGAAAAGATAAGATTC
* *
17156474 GCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
130 ACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACA
* * *
17156521 ATCTTCAATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTCAGCCTGCTCTACTGC
1 ATCTTCAATCTGCTCCACTGTTACTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGC
*
17156586 TGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT-TCCCTACTACCTCGAAAAGATAAGATTC
66 TGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCT-CCTACTACCTCGAAAAGATAAGATTC
* * *
17156650 ACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACA
130 ACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACA
* * ** * *
17156697 ACCTTTAGCCTGCTCCACTGCTACTTAGGGAGATAAG
1 ATCTTCAATCTGCTCCACTGTTACTCAGGGAGATAAG
17156734 GCTAGTGGCT
Statistics
Matches: 186, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
175 1 0.01
176 165 0.89
177 20 0.11
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (176 bp):
ATCTTCAATCTGCTCCACTGTTACTCAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGC
TGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTACTACCTCGAAAAGATAAGATTCA
CCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACA
Found at i:17156643 original size:132 final size:132
Alignment explanation
Indices: 17156507--17156825 Score: 437
Period size: 132 Copynumber: 2.4 Consensus size: 132
17156497 CTGCTTAGGG
* * ** * *
17156507 AGATAAGA-TCTACAATCTTCAATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTC
1 AGATAAGATTC-ACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAACCTTC
* *
17156571 AGCCTGCTCTACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT-TCCCTACTACCTC
65 AGCCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCT-CCTACTACCTC
17156635 -GAAA
129 AG-AA
* * * *
17156639 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACCTTTA
1 AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAACCTTCA
* *
17156704 GCCTGCTCCACTGCTACTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTCTTACTACCTCAG
66 GCCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTCCTACTACCTCAG
**
17156769 GG
131 AA
*
17156771 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
1 AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
17156826 GTGATCTTCA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
132 160 0.98
133 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (132 bp):
AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAACCTTCA
GCCTGCTCCACTGCTACTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTCCTACTACCTCAG
AA
Found at i:17156770 original size:176 final size:175
Alignment explanation
Indices: 17156397--17156778 Score: 428
Period size: 176 Copynumber: 2.2 Consensus size: 175
17156387 CAATTTTCAG
* * * * * **
17156397 CCTGCTCCACTGCTGCTTAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTGCTACCTCGGG
1 CCTGCTCTACTACTCCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTACTACCTCGAA
* * * *
17156462 AGGATAAGATTCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
66 AAGATAAGATTCACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACAACCTTC
* * * * * *
17156527 AATCTGCTCCACTGTTGCTCAGGGAGATAGGATCTACAATCTTCAG
131 AACCTGCTCCACTGCTACTCAGGGAGATAGGA-CTACAAGCTTAAA
* * *
17156573 CCTGCTCTACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCT-TCCCTACTACCTCGA
1 CCTGCTCTACTACTCCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCT-CCTACTACCTCGA
* * *
17156637 AAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACCTT
65 AAAGATAAGATTCACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACAACCTT
* * * ***
17156702 TAGCCTGCTCCACTGCTACTTAGGGAGATAAGG-CTAGTGGCTTAAA
130 CAACCTGCTCCACTGCTACTCAGGGAGAT-AGGACTACAAGCTTAAA
*
17156748 TCTGCTCT-CTTACTACCTCAGGGAGATAAGA
1 CCTGCTCTAC-TACT-CCTCAGGGAGATAAGA
17156779 TTCGCCATCT
Statistics
Matches: 173, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
174 1 0.01
175 18 0.10
176 151 0.87
177 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (175 bp):
CCTGCTCTACTACTCCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTCTCCTACTACCTCGAA
AAGATAAGATTCACCATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTACAACCTTC
AACCTGCTCCACTGCTACTCAGGGAGATAGGACTACAAGCTTAAA
Found at i:17156833 original size:44 final size:44
Alignment explanation
Indices: 17156191--17156835 Score: 207
Period size: 44 Copynumber: 14.6 Consensus size: 44
17156181 CCCCTGTTAC
* * ** * *
17156191 CTCAGGAAGATAAGATCCGTCG-TCTTTGATCTGCTCCACTGCTA
1 CTCAGGGAGATAAGATCTG-CGATCTTCAATCTGCTCCACTACTG
* * * ** *
17156235 CTCAAGGG-GATAAAATCTACAATCTTCAGCCTGCTCCACTGCTG
1 CTC-AGGGAGATAAGATCTGCGATCTTCAATCTGCTCCACTACTG
* * * * * * *
17156279 CTCAGGGAGATAAG-GCTAGTG-GCTTAAATTTGCTCC-CTTGCTAC
1 CTCAGGGAGATAAGATCT-GCGATCTTCAATCTGCTCCAC-TACT-G
* * * * * ** *
17156323 CTTAGGAAGATAAGAT-TCGCCATCTTCGATCTGCTCCATTGTTAC
1 CTCAGGGAGATAAGATCT-GCGATCTTCAATCTGCTCCACTACT-G
* * * * ** *
17156368 CTCATGGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTG
1 CTCAGGGAGATAAGATCTGCGATCTTCAATCTGCTCCACTACTG
* * * * * *
17156412 CTTAGGGAGATAAGA-CTAGTG-GCTTAAATCTGCTCTC-CTGCTAC
1 CTCAGGGAGATAAGATCT-GCGATCTTCAATCTGCTC-CACTACT-G
* *
17156456 CTC-GGGAGGATAAGAT-TCGCCATCTTCAATCTACTCCACTACTG
1 CTCAGGGA-GATAAGATCT-GCGATCTTCAATCTGCTCCACTACTG
* * * **
17156500 CTTAGGGAGATAAGATCTACAATCTTCAATCTGCTCCACTGTTG
1 CTCAGGGAGATAAGATCTGCGATCTTCAATCTGCTCCACTACTG
* * * ** * *
17156544 CTCAGGGAGATAGGATCTACAATCTTCAGCCTGCTCTACTGCTG
1 CTCAGGGAGATAAGATCTGCGATCTTCAATCTGCTCCACTACTG
* * * * *
17156588 CTCAGGGAGATAAG-GCTAGTG-GCTTAAATCTGCTTCC-CTACTAC
1 CTCAGGGAGATAAGATCT-GCGATCTTCAATCTGC-TCCACTACT-G
** ** * *
17156632 CTC-GAAAAGATAAGATTCACCG-TCTTCGATCTGCTCCACTACTA
1 CTCAG-GGAGATAAGA-TCTGCGATCTTCAATCTGCTCCACTACTG
* * * * * ** * *
17156676 CTTAGGGAGATAAGATCTACAACCTTTAGCCTGCTCCACTGCTA
1 CTCAGGGAGATAAGATCTGCGATCTTCAATCTGCTCCACTACTG
* * * * *
17156720 CTTAGGGAGATAAG-GCTAGTG-GCTTAAATCTGCTCTCTTACTAC--
1 CTCAGGGAGATAAGATCT-GCGATCTTCAATCTGCTC-C--ACTACTG
* *
17156764 CTCAGGGAGATAAGAT-TCGCCATCTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGATCT-GCGATCTTCAATCTGCTCCACTACTG
*
17156808 CTCAGGGAGATAAGATCTGTGATCTTCA
1 CTCAGGGAGATAAGATCTGCGATCTTCA
17156836 CCGATGTTGC
Statistics
Matches: 433, Mismatches: 131, Indels: 74
0.68 0.21 0.12
Matches are distributed among these distances:
42 6 0.01
43 71 0.16
44 253 0.58
45 97 0.22
46 6 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCAGGGAGATAAGATCTGCGATCTTCAATCTGCTCCACTACTG
Found at i:17158829 original size:37 final size:37
Alignment explanation
Indices: 17158779--17158853 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
17158769 TTTTTGAATT
17158779 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
1 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
17158816 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
1 TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
17158853 T
1 T
17158854 ACCTTCACCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (37 bp):
TGATAACTGTCGACCTTGTAACATTGGCATATGAAGC
Found at i:17159632 original size:11 final size:11
Alignment explanation
Indices: 17159587--17159635 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
17159577 AGATAAATAT
*
17159587 TATTTTATTAA
1 TATTTTATTAG
*
17159598 TATTTTAATAAG
1 TATTTT-ATTAG
17159610 ATATTTTATTAG
1 -TATTTTATTAG
17159622 TATTTTATTAG
1 TATTTTATTAG
17159633 TAT
1 TAT
17159636 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.61
12 7 0.21
13 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (11 bp):
TATTTTATTAG
Found at i:17161530 original size:46 final size:46
Alignment explanation
Indices: 17161474--17161746 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
17161464 GCTCTCTGAT
* *
17161474 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
17161520 ATGAATTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
17161566 ATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
17161611 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
17161657 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
17161703 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
17161747 TCAAAGATAA
Statistics
Matches: 205, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
45 42 0.20
46 163 0.80
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:17161633 original size:91 final size:92
Alignment explanation
Indices: 17161469--17161741 Score: 406
Period size: 91 Copynumber: 3.0 Consensus size: 92
17161459 AGTGTGCTCT
* * *
17161469 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGACATGAATTGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAG
17161534 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * *
17161561 CTGATATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAG
17161625 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* ***
17161652 CTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAA
* * *
17161716 GACCATAGTTGAAAGACACTATGGCA
65 GACCATGGTTGAAAGATACCATGGCA
17161742 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
91 85 0.52
92 78 0.48
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:17161760 original size:137 final size:136
Alignment explanation
Indices: 17161484--17161764 Score: 368
Period size: 137 Copynumber: 2.1 Consensus size: 136
17161474 ATGAAATGTG
* * ***
17161484 TAAGACTATGGTTGAAAGATACCATGGCAACATGACATGAATTGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
* * * * * *
17161549 TACCATGGCAACCTGATATGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG
66 TACCATGGCAACATGACATGAATGAGTAAGACCATAGTTGAAAGACACCATGGCAGCATGACA-G
*
17161614 AAATGAA
130 AAATAAA
*
17161621 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
* * *
17161686 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA
66 TACCATGGCAACATGACATG--AATGAGTAAGACCATAGTTGAAAGACACCATGGCAGCATGACA
17161750 -AAGATAAA
129 GAA-ATAAA
17161758 TAAGACC
1 TAAGACC
17161765 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
136 3 0.02
137 86 0.69
138 36 0.29
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAATGAGTAAGACCATAGTTGAAAGACACCATGGCAGCATGACAGA
AATAAA
Found at i:17162047 original size:16 final size:17
Alignment explanation
Indices: 17162026--17162058 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17162016 ATGATGGAGC
17162026 ATGAAA-CATTGATATA
1 ATGAAATCATTGATATA
*
17162042 ATGAAATGATTGATATA
1 ATGAAATCATTGATATA
17162059 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATCATTGATATA
Found at i:17165862 original size:20 final size:21
Alignment explanation
Indices: 17165816--17165863 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
17165806 TATATAATGC
*
17165816 AATAATAATGAAGAAGAAAAT
1 AATAATAAGGAAGAAGAAAAT
*
17165837 AA-AATAAGGATGAA-AAAAT
1 AATAATAAGGAAGAAGAAAAT
17165856 AATAATAA
1 AATAATAA
17165864 AATGAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 15 0.62
21 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (21 bp):
AATAATAAGGAAGAAGAAAAT
Found at i:17165868 original size:19 final size:20
Alignment explanation
Indices: 17165816--17165879 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 20
17165806 TATATAATGC
17165816 AATAATAATGAA-GAAGAAAAT
1 AATAATAA-GAATGAA-AAAAT
*
17165837 AA-AATAAGGATGAAAAAAT
1 AATAATAAGAATGAAAAAAT
17165856 AATAATAA-AATGAAATAAA-
1 AATAATAAGAATGAAA-AAAT
17165875 AATAA
1 AATAA
17165880 CAATGCATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 20 0.53
20 16 0.42
21 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (20 bp):
AATAATAAGAATGAAAAAAT
Found at i:17165873 original size:16 final size:17
Alignment explanation
Indices: 17165852--17165884 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17165842 AAGGATGAAA
*
17165852 AAATAATAATAA-AATG
1 AAATAAAAATAACAATG
17165868 AAATAAAAATAACAATG
1 AAATAAAAATAACAATG
17165885 CATTAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (17 bp):
AAATAAAAATAACAATG
Found at i:17167002 original size:26 final size:25
Alignment explanation
Indices: 17166972--17167035 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
17166962 GTTTGGGCCA
17166972 TTTGGGCTAGGGTAGTTAGGTTT-AAT
1 TTTGGGCTAGGGT--TTAGGTTTCAAT
* *
17166998 TTTGGGCCTTGGGTTTGGGTTTCAAT
1 TTTGGG-CTAGGGTTTAGGTTTCAAT
17167024 TGTTGGGCTAGG
1 T-TTGGGCTAGG
17167036 CTGAATTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.22
26 14 0.44
27 11 0.34
ACGTcount: A:0.12, C:0.08, G:0.38, T:0.42
Consensus pattern (25 bp):
TTTGGGCTAGGGTTTAGGTTTCAAT
Found at i:17171884 original size:21 final size:21
Alignment explanation
Indices: 17171860--17171935 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
17171850 CTGTTTAACC
17171860 CTTATGGGTTTTTGTTCAGCT
1 CTTATGGGTTTTTGTTCAGCT
* * * * *
17171881 CTTACGAGCTTTTGTTCAACC
1 CTTATGGGTTTTTGTTCAGCT
*
17171902 CTTATGGGTTTCTGCTT-AGCT
1 CTTATGGGTTTTTG-TTCAGCT
*
17171923 CTCATGAGGTTTT
1 CTTATG-GGTTTT
17171936 ATTCAGCCCT
Statistics
Matches: 40, Mismatches: 13, Indels: 3
0.71 0.23 0.05
Matches are distributed among these distances:
21 33 0.82
22 7 0.17
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (21 bp):
CTTATGGGTTTTTGTTCAGCT
Found at i:17171890 original size:42 final size:42
Alignment explanation
Indices: 17171784--17171912 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 42
17171774 TTGTGTTTAC
* * * * * *
17171784 TTTTCGTTTAGCTCTCATGAGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
* *
17171826 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
1 TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
* * * *
17171868 TTTTTGTTCAGCTCTTACGAGCTTTTGTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
17171910 TTT
1 TTT
17171913 CTGCTTAGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTTATGAGCTTCTGTTTAACCCTTATGGG
Found at i:17184887 original size:26 final size:26
Alignment explanation
Indices: 17184853--17184917 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
17184843 ATAAGAGCCA
* * * *
17184853 TAATCAGGAAGTTCATAAAGAACTTT
1 TAATAAGGAAGCTCACAAAGAACCTT
*
17184879 TAATAAGGAAGCTCACAAAGAGCCTT
1 TAATAAGGAAGCTCACAAAGAACCTT
*
17184905 TAATCA-GAAGCTC
1 TAATAAGGAAGCTC
17184918 CGGATAGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (26 bp):
TAATAAGGAAGCTCACAAAGAACCTT
Found at i:17190808 original size:16 final size:15
Alignment explanation
Indices: 17190782--17190816 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
17190772 TGATGTGAAT
17190782 AATATAAAATATTAA
1 AATATAAAATATTAA
*
17190797 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
17190813 AATA
1 AATA
17190817 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:17190989 original size:20 final size:20
Alignment explanation
Indices: 17190932--17190991 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
17190922 AATACTACAT
17190932 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
17190951 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
17190974 AAATATGTACATAATATA
1 AAATATGTACATAATATA
17190992 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:17191053 original size:27 final size:25
Alignment explanation
Indices: 17191005--17191086 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 25
17190995 TAAAAAATAC
*
17191005 ATACATAATAT-A-ATTAAA-ATAT
1 ATACATAAGATAACATTAAAGATAT
*
17191027 ATACATAAGATAACATGTAAAATATAT
1 ATACATAAGATAACAT-T-AAAGATAT
* * **
17191054 ATAAATAATATAGTATTAAAGATAT
1 ATACATAAGATAACATTAAAGATAT
17191079 ATACATAA
1 ATACATAA
17191087 AATAGTATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 10 0.21
23 1 0.02
24 2 0.04
25 15 0.31
26 4 0.08
27 16 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
ATACATAAGATAACATTAAAGATAT
Found at i:17191085 original size:74 final size:73
Alignment explanation
Indices: 17190963--17191104 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 73
17190953 ATAAATACGT
* * * * *
17190963 GATAATATTAAAAATATGTACATAATATAGTGTAAAAAATACATACATAATATAAT-TAAAATAT
1 GATAACATTAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATAT
17191027 ATACATAA
66 ATACATAA
* * * * *
17191035 GATAACATGTAAAATATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATAATAT
1 GATAACAT-TAAAA-ATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAAT
17191100 ATATA
64 ATATA
17191105 TTTATATATA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
72 7 0.12
73 5 0.09
74 35 0.61
75 10 0.18
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (73 bp):
GATAACATTAAAAATATATAAATAATATAGTATAAAAAATACATACATAAAATAATATAAAATAT
ATACATAA
Found at i:17191093 original size:25 final size:25
Alignment explanation
Indices: 17190968--17191094 Score: 125
Period size: 25 Copynumber: 5.1 Consensus size: 25
17190958 TACGTGATAA
*
17190968 TATTAAAAATATGTACATAATATAG
1 TATTAAAAATATATACATAATATAG
* * *
17190993 TGTAAAAAATACATACATAATATA-
1 TATTAAAAATATATACATAATATAG
* *
17191017 -ATT-AAAATATATACATAAGATAA
1 TATTAAAAATATATACATAATATAG
* *
17191040 CATGTAAAATATATATAAATAATATAG
1 TAT-TAAAA-ATATATACATAATATAG
* *
17191067 TATTAAAGATATATACATAAAATAG
1 TATTAAAAATATATACATAATATAG
17191092 TAT
1 TAT
17191095 AATATATATA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
22 17 0.21
23 1 0.01
24 2 0.02
25 39 0.48
26 7 0.09
27 16 0.20
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
TATTAAAAATATATACATAATATAG
Found at i:17191105 original size:27 final size:25
Alignment explanation
Indices: 17191046--17191105 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
17191036 ATAACATGTA
*
17191046 AAATATATATAAATAATATAGTATT
1 AAATATATATAAATAAAATAGTATT
* *
17191071 AAAGATATATACATAAAATAGTA-T
1 AAATATATATAAATAAAATAGTATT
17191095 AATATATATAT
1 AA-ATATATAT
17191106 TTATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.10
25 27 0.90
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (25 bp):
AAATATATATAAATAAAATAGTATT
Found at i:17191725 original size:18 final size:17
Alignment explanation
Indices: 17191702--17191757 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
17191692 GTGGAGTAAG
17191702 TAGTGGAGCAAGTATGGC
1 TAGTGGAGCAAGT-TGGC
17191720 TAGT-G-G--AGTTGG-
1 TAGTGGAGCAAGTTGGC
17191732 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGT-TGGC
17191750 TAGTGGAG
1 TAGTGGAG
17191758 TTGGTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 4 0.12
16 4 0.12
17 4 0.12
18 12 0.38
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.25
Consensus pattern (17 bp):
TAGTGGAGCAAGTTGGC
Found at i:17191759 original size:30 final size:30
Alignment explanation
Indices: 17191682--17191767 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
17191672 GTGGTGGTGG
**
17191682 AGTGTGGCTAGTGGAGTAAGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTAGTGGAGCA
*
17191712 AGTATGGCTAGTGGAGTTGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTAGTGGAGCA
*
17191742 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTAGTGG
17191768 CAAAGGCTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.21, C:0.06, G:0.47, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTAGTGGAGCA
Found at i:17193412 original size:11 final size:11
Alignment explanation
Indices: 17193396--17193429 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
17193386 GGAATCCCGG
17193396 AAAAAGAAAAA
1 AAAAAGAAAAA
17193407 AAAAAGAAAAA
1 AAAAAGAAAAA
*
17193418 AAGAAGTAAAAA
1 AAAAAG-AAAAA
17193430 CCAATCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:17196987 original size:20 final size:21
Alignment explanation
Indices: 17196954--17196992 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
17196944 GCGGGTAAAG
17196954 GGTGAAAAATAAAA-TTTTAA
1 GGTGAAAAATAAAAGTTTTAA
17196974 GGTG-AAAATAAAAAGTTTT
1 GGTGAAAAAT-AAAAGTTTT
17196993 GAGTTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (21 bp):
GGTGAAAAATAAAAGTTTTAA
Found at i:17200386 original size:49 final size:49
Alignment explanation
Indices: 17200314--17200411 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
17200304 GTAGACCTTC
17200314 AATCCATTGTCACAGTATCTTTGCCATAGTATTATTAGTTATTTATTTA
1 AATCCATTGTCACAGTATCTTTGCCATAGTATTATTAGTTATTTATTTA
17200363 AATCCATTGTCACAGTATCTTTGCCATAGTATTATTAGTTATTTATTTA
1 AATCCATTGTCACAGTATCTTTGCCATAGTATTATTAGTTATTTATTTA
17200412 TTCACTCGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (49 bp):
AATCCATTGTCACAGTATCTTTGCCATAGTATTATTAGTTATTTATTTA
Found at i:17202019 original size:12 final size:12
Alignment explanation
Indices: 17202002--17202026 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17201992 GGCAATCCAA
17202002 TTTTATTTTCTT
1 TTTTATTTTCTT
17202014 TTTTATTTTCTT
1 TTTTATTTTCTT
17202026 T
1 T
17202027 ATTTTCTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:17206667 original size:26 final size:26
Alignment explanation
Indices: 17206612--17206669 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17206602 CTTTATAAAA
* * * * *
17206612 TTTTATATATTTTTCATTTTAAATTT
1 TTTTATATAGTATTCATTTCAAACTG
17206638 TTTTATATAGTATTCATTTCAAACTG
1 TTTTATATAGTATTCATTTCAAACTG
17206664 TTTTAT
1 TTTTAT
17206670 TGTACATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATAGTATTCATTTCAAACTG
Found at i:17206928 original size:26 final size:26
Alignment explanation
Indices: 17206889--17206952 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
17206879 TAAACTATTT
17206889 TATTTTTATTTATTTTAA-GATTTCATA
1 TATTTTTA--TATTTTAACGATTTCATA
* *
17206916 TATTATTTATA-TTTAACTATTTTATA
1 TATT-TTTATATTTTAACGATTTCATA
17206942 TATTTTTATAT
1 TATTTTTATAT
17206953 ATATTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
25 11 0.34
26 13 0.41
27 4 0.12
28 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTTTTATATTTTAACGATTTCATA
Found at i:17206940 original size:19 final size:17
Alignment explanation
Indices: 17206913--17206968 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
17206903 TTAAGATTTC
17206913 ATATATTATTTATATTTA
1 ATATATTATTTAT-TTTA
* *
17206931 ACTATTTTATATATTTTTA
1 A-TATATTATTTA-TTTTA
17206950 TATATATTATTTATTTTA
1 -ATATATTATTTATTTTA
17206968 A
1 A
17206969 ATTTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 1 0.03
18 6 0.19
19 22 0.71
20 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTATTTTA
Found at i:17206945 original size:9 final size:9
Alignment explanation
Indices: 17206892--17206967 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
17206882 ACTATTTTAT
*
17206892 TTTTATTTA
1 TTTTATATA
*
17206901 TTTTA-AGA
1 TTTTATATA
*
17206909 TTTCATATA
1 TTTTATATA
17206918 TTATT-TATA
1 TT-TTATATA
17206927 -TTTA-ACTA
1 TTTTATA-TA
17206935 TTTTATATA
1 TTTTATATA
17206944 TTTTTATATA
1 -TTTTATATA
* *
17206954 TATTATTTA
1 TTTTATATA
17206963 TTTTA
1 TTTTA
17206968 AATTTCTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
7 3 0.06
8 8 0.15
9 30 0.58
10 11 0.21
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATATA
Found at i:17206955 original size:12 final size:13
Alignment explanation
Indices: 17206913--17206963 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
17206903 TTAAGATTTC
17206913 ATATATTATTTAT
1 ATATATTATTTAT
* *
17206926 ATTTAACTATTT-T
1 ATAT-ATTATTTAT
17206939 ATATATT-TTTAT
1 ATATATTATTTAT
17206951 ATATATTATTTAT
1 ATATATTATTTAT
17206964 TTTAAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 3 0.10
12 10 0.32
13 12 0.39
14 6 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATATTATTTAT
Found at i:17207064 original size:22 final size:24
Alignment explanation
Indices: 17207038--17207095 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
17207028 GTTTTTTATG
17207038 TATTATTTATTTAAAATTG-TCT-
1 TATTATTTATTTAAAATTGTTCTA
* * *
17207060 TATTATTAATTTTAAATTGTTTTA
1 TATTATTTATTTAAAATTGTTCTA
17207084 TATTATTTATTT
1 TATTATTTATTT
17207096 TATTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 17 0.57
23 2 0.07
24 11 0.37
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (24 bp):
TATTATTTATTTAAAATTGTTCTA
Found at i:17207095 original size:24 final size:24
Alignment explanation
Indices: 17206988--17207097 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 24
17206978 TTTCACATAC
* *
17206988 TATTTACTTTAAATTGCTTTTTA-
1 TATTTATTTTAAATTGTTTTTTAT
*
17207011 TAGTCTATTTTAAACTTGTTTTTTATGTAT
1 TA-TTTATTTTAAA-TTG--TTTT-T-TAT
* *
17207041 TATTTATTTAAAATTG--TCTTAT
1 TATTTATTTTAAATTGTTTTTTAT
* *
17207063 TATTAATTTTAAATTGTTTTATAT
1 TATTTATTTTAAATTGTTTTTTAT
17207087 TATTTATTTTA
1 TATTTATTTTA
17207098 TTTTTCTTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
22 17 0.25
23 3 0.04
24 24 0.36
25 3 0.04
27 3 0.04
28 4 0.06
29 11 0.16
30 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
TATTTATTTTAAATTGTTTTTTAT
Found at i:17210779 original size:19 final size:20
Alignment explanation
Indices: 17210736--17210780 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
17210726 CGCCTCTTTT
*
17210736 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCATTCATA
*
17210755 TACATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
17210774 TGCATTA
1 TGCATTA
17210781 AGTTTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:17214489 original size:37 final size:37
Alignment explanation
Indices: 17214447--17214518 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
17214437 TCTGAGCAAG
*
17214447 TATTCTTTTATTCTTT-TCATTTCATTCATAACCAAAA
1 TATTCTTTTATTCTTTCT-ATTTCATCCATAACCAAAA
17214484 TATTCTTTTATTCTTTCTATTTCATCCATAACCAA
1 TATTCTTTTATTCTTTCTATTTCATCCATAACCAA
17214519 TCATATGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (37 bp):
TATTCTTTTATTCTTTCTATTTCATCCATAACCAAAA
Found at i:17219029 original size:23 final size:24
Alignment explanation
Indices: 17218973--17219031 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
17218963 AAATAAATTA
* *
17218973 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
17218997 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
17219021 TTTTATTACAA
1 TTTTATTACAA
17219032 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:17222241 original size:44 final size:44
Alignment explanation
Indices: 17222193--17222347 Score: 179
Period size: 44 Copynumber: 3.5 Consensus size: 44
17222183 CAAACCTTAC
* * *
17222193 CTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGTTACTAGTCTCAT
1 CTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGTTACTAATCTCAT
* * * * * *
17222237 CTCCCTGAAGTTGCAATGGAGCAAATTAAAGTCACAAACCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGTTACTAATCTCAT
* *
17222281 CCCCCTGAAGTTGC-GATGGAGCAAGTTGAAGTTA-TAAATCTCAT
1 CTCCCTGAAGTTGCAG-TGGAGCAAGTTAAAGTTACT-AATCTCAT
17222325 CTCCCTGAAGTTGCAGTGGAGCA
1 CTCCCTGAAGTTGCAGTGGAGCA
17222348 GATAGCAAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
44 89 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAAGTTAAAGTTACTAATCTCAT
Found at i:17222273 original size:88 final size:88
Alignment explanation
Indices: 17222139--17222347 Score: 271
Period size: 88 Copynumber: 2.4 Consensus size: 88
17222129 GTCATCATGG
* * * * *
17222139 TAAATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAGAGCCACAAACCTTA-CCTCCCTAAAG
1 TAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTATCC-CCCTAAAG
*
17222203 TTGC-AGTGGAGCAGGTTAAAGTTA
65 TTGCGA-TGGAGCAAGTTAAAGTTA
* * * *
17222227 CT-AGTCTCATCTCCCTGAAGTTGCAATGGAGCAAATTAAAGTCACAAACCTTATCCCCCTGAAG
1 -TAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTAAAG
*
17222291 TTGCGATGGAGCAAGTTGAAGTTA
65 TTGCGATGGAGCAAGTTAAAGTTA
17222315 TAAATCTCATCTCCCTGAAGTTGCAGTGGAGCA
1 TAAATCTCATCTCCCTGAAGTTGCAGTGGAGCA
17222348 GATAGCAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 1 0.01
88 99 0.95
89 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (88 bp):
TAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTATCCCCCTAAAGT
TGCGATGGAGCAAGTTAAAGTTA
Found at i:17222368 original size:38 final size:38
Alignment explanation
Indices: 17222316--17222388 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
17222306 TTGAAGTTAT
* *
17222316 AAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATAGC
1 AAATCTCATCTCCCTGAAGTTGCAATGGAACAGATAGC
*
17222354 AAATCTCATTTCCCTGAAGTTGCAATGGAACAGAT
1 AAATCTCATCTCCCTGAAGTTGCAATGGAACAGAT
17222389 TAAAGCTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (38 bp):
AAATCTCATCTCCCTGAAGTTGCAATGGAACAGATAGC
Found at i:17222534 original size:44 final size:45
Alignment explanation
Indices: 17222455--17222568 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 45
17222445 CTACCATGGA
* * *
17222455 AAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAA-ACCAC
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAACAGATTGAAGACAAC
* * * * *
17222499 TAGTCTTATCTCCCTGAAGTTGTAGAGGAGCAGATTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGAGGAACAGATTGAAGACAAC
*
17222544 AAATCTTATCTCTCTGAAGTTGCAG
1 AAATCTTATCTCCCTGAAGTTGCAG
17222569 TAGAGCAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 33 0.58
45 24 0.42
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGCAGAGGAACAGATTGAAGACAAC
Found at i:17222632 original size:51 final size:50
Alignment explanation
Indices: 17222542--17222639 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
17222532 ATTGAAGATA
17222542 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTACAAACC
1 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAG-AAATTAAAGCTACAAACC
* * *
17222593 ACAAATCTTATTTTTCTGAAGTTGCAGT-GAAGAGGATTAAAGCTACA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTAG-AGA-AATTAAAGCTACA
17222640 GGTCTAATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (50 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAATTAAAGCTACAAACC
Found at i:17223333 original size:10 final size:10
Alignment explanation
Indices: 17223318--17223355 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17223308 TTCTTTTATC
17223318 ATTTTCTTTT
1 ATTTTCTTTT
17223328 ATTTTCTTTT
1 ATTTTCTTTT
*
17223338 -TTTTATTTT
1 ATTTTCTTTT
17223347 ATTTT-TTTT
1 ATTTTCTTTT
17223356 GCAAATCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (10 bp):
ATTTTCTTTT
Found at i:17223343 original size:14 final size:14
Alignment explanation
Indices: 17223318--17223355 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
17223308 TTCTTTTATC
17223318 ATTTTCTTTTATTTT
1 ATTTT-TTTTATTTT
*
17223333 CTTTTTTTTATTTT
1 ATTTTTTTTATTTT
17223347 ATTTTTTTT
1 ATTTTTTTT
17223356 GCAAATCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (14 bp):
ATTTTTTTTATTTT
Found at i:17223346 original size:19 final size:18
Alignment explanation
Indices: 17223319--17223355 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17223309 TCTTTTATCA
*
17223319 TTTTCTTTTATTTTCTTTT
1 TTTTATTTTATTTT-TTTT
17223338 TTTTATTTTATTTTTTTT
1 TTTTATTTTATTTTTTTT
17223356 GCAAATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTATTTTATTTTTTTT
Found at i:17224332 original size:30 final size:28
Alignment explanation
Indices: 17224271--17224354 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 28
17224261 ATTGTTTTAC
* * *
17224271 ATATTATTTATTTTGAATATTTATTTAT
1 ATATTATTTATTTTAAACATTTATATAT
*
17224299 ATATTATTTTTTTTAAACCATTTCATATAT
1 ATATTATTTATTTTAAA-CATTT-ATATAT
* **
17224329 ATATTATCTATTTTAAATTTTTATAT
1 ATATTATTTATTTTAAACATTTATAT
17224355 GTTATTTAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 19 0.41
29 7 0.15
30 20 0.43
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (28 bp):
ATATTATTTATTTTAAACATTTATATAT
Found at i:17224359 original size:24 final size:25
Alignment explanation
Indices: 17224140--17224482 Score: 143
Period size: 24 Copynumber: 13.4 Consensus size: 25
17224130 CTTTATAAAC
*
17224140 TTTTATATATTATTCATTTTAAAATTG
1 TTTTATATATTATTTATTTT-AAA-TG
* * * * *
17224167 TATTATATAGTATTCATTTCAAACTA
1 TTTTATATATTATTTATTTTAAA-TG
* *
17224193 TTTTAT-T-GTACATTATTTT-AAT-
1 TTTTATATATTA-TTTATTTTAAATG
* *
17224215 TTATTTTATATT-TTTATTTTAAGT-
1 TT-TTATATATTATTTATTTTAAATG
* ** *
17224239 TTTTTTGCATTATCTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAA-TG
* *
17224265 TTTTACATATTATTTATTTTGAATATT
1 TTTTATATATTATTTATTTT-AA-ATG
*
17224292 TATTTATATATTATTTTTTTTAAACCAT-
1 T-TTTATATATTATTTATTTT-AA--ATG
*
17224320 TTCATATATATATTATCTATTTTAAAT-
1 TT--T-TATATATTATTTATTTTAAATG
* * *
17224347 TTTTATATGTTATTTAGTTTATACTG
1 TTTTATATATTATTTATTTTA-AATG
* ** *
17224373 TTTTATATGTTAACTGTTTTAAAT-
1 TTTTATATATTATTTATTTTAAATG
* * * *
17224397 TCTTCTTTATTATTTATTTTAAACTA
1 TTTTATATATTATTTATTTTAAA-TG
*
17224423 TTTTAT-TTTTATTTATTTT-AA-G
1 TTTTATATATTATTTATTTTAAATG
* *
17224445 ATTTCATATATTATTTATATTTAACTG
1 -TTTTATATATTATTTAT-TTTAAATG
17224472 TTTTATATATT
1 TTTTATATATT
17224483 TTTTTATATA
Statistics
Matches: 239, Mismatches: 53, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
22 2 0.01
23 23 0.10
24 61 0.26
25 29 0.12
26 56 0.23
27 27 0.11
28 21 0.09
29 5 0.02
30 15 0.06
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTATATATTATTTATTTTAAATG
Found at i:17224573 original size:53 final size:50
Alignment explanation
Indices: 17224516--17224622 Score: 117
Period size: 53 Copynumber: 2.1 Consensus size: 50
17224506 AAATTTCTTT
* *
17224516 TTTTTCACATACTATTTATTTTAAATTG-CTTTTTATAGTCTATTTTAAACTTG
1 TTTTTCACATACTATTTATTTAAAATTGTCTTGTTAT--T-TATTTTAAA-TTG
* ** *
17224569 TTTTTTATGTATTATTTATTTAAAATTGTCTTGTTATTTATTTTAAATTG
1 TTTTTCACATACTATTTATTTAAAATTGTCTTGTTATTTATTTTAAATTG
17224619 TTTT
1 TTTT
17224623 ATATTATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
50 7 0.15
51 9 0.19
52 1 0.02
53 23 0.49
54 7 0.15
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (50 bp):
TTTTTCACATACTATTTATTTAAAATTGTCTTGTTATTTATTTTAAATTG
Found at i:17224584 original size:25 final size:24
Alignment explanation
Indices: 17224530--17224585 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
17224520 TCACATACTA
17224530 TTTATTTTAAATTGCTTTTTATAG
1 TTTATTTTAAATTGCTTTTTATAG
* *
17224554 TCTATTTTAAACTTGTTTTTTAT-G
1 TTTATTTTAAA-TTGCTTTTTATAG
17224578 TATTATTT
1 T-TTATTT
17224586 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.64
Consensus pattern (24 bp):
TTTATTTTAAATTGCTTTTTATAG
Found at i:17224630 original size:46 final size:50
Alignment explanation
Indices: 17224528--17224635 Score: 127
Period size: 53 Copynumber: 2.2 Consensus size: 50
17224518 TTTCACATAC
* *
17224528 TATTTATTTTAAATTGCTTTTTATAGTCTATTTTAAACTTGTTTTTTATGTAT
1 TATTTATTTAAAATTGCTTGTTATA-TCTATTTTAAACTTG-TTTTTA-GTAT
17224581 TATTTATTTAAAATTGTCTTGTTAT-T-TATTTTAAA-TTG-TTTTA-TAT
1 TATTTATTTAAAATTG-CTTGTTATATCTATTTTAAACTTGTTTTTAGTAT
17224627 TATTTATTT
1 TATTTATTT
17224636 TATTTTTCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
46 12 0.23
48 5 0.10
50 3 0.06
51 9 0.17
52 1 0.02
53 15 0.29
54 7 0.13
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (50 bp):
TATTTATTTAAAATTGCTTGTTATATCTATTTTAAACTTGTTTTTAGTAT
Found at i:17224633 original size:24 final size:24
Alignment explanation
Indices: 17224528--17224637 Score: 91
Period size: 24 Copynumber: 4.5 Consensus size: 24
17224518 TTTCACATAC
*
17224528 TATTTATTTTAAATTGCTTTTTA-
1 TATTTATTTTAAATTGTTTTTTAT
*
17224551 TAGTCTATTTTAAACTTGTTTTTTATGTAT
1 TA-TTTATTTTAAA-TTG--TTTT-T-TAT
* * *
17224581 TATTTATTTAAAATTG--TCTTGT
1 TATTTATTTTAAATTGTTTTTTAT
*
17224603 TATTTATTTTAAATTGTTTTATAT
1 TATTTATTTTAAATTGTTTTTTAT
17224627 TATTTATTTTA
1 TATTTATTTTA
17224638 TTTTTCTTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
22 17 0.25
23 3 0.04
24 25 0.37
25 3 0.04
27 3 0.04
28 4 0.06
29 11 0.16
30 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (24 bp):
TATTTATTTTAAATTGTTTTTTAT
Found at i:17232800 original size:65 final size:63
Alignment explanation
Indices: 17232698--17232822 Score: 169
Period size: 65 Copynumber: 2.0 Consensus size: 63
17232688 CCGATATGTT
* * * * *
17232698 TTTAAATATTTTTCATATATATTTATAGTATACTTTTTAGTTTCTTGATAAATCATATATAAA
1 TTTAAATATTTTTCACATATATTTATAGTATAATTTTTAATTTATTAATAAATCATATATAAA
* *
17232761 TTTAAATATTTTTCACGCATATATTTATAGTCTAATTTTTAATTTATTAATAAATTATATAT
1 TTTAAATATTTTTCA--CATATATTTATAGTATAATTTTTAATTTATTAATAAATCATATAT
17232823 TTTCTAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 15 0.28
65 38 0.72
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (63 bp):
TTTAAATATTTTTCACATATATTTATAGTATAATTTTTAATTTATTAATAAATCATATATAAA
Found at i:17233351 original size:30 final size:27
Alignment explanation
Indices: 17233296--17233351 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
17233286 TTATTGCCAT
**
17233296 TAAGTAATATTAATTTTTTTTATTAAA
1 TAAGTAATATTAATTTTTTAAATTAAA
17233323 TAAGTAATATTGAAATTTTTTGAAATTAA
1 TAAGTAATATT--AATTTTTT-AAATTAA
17233352 TGAATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.46
29 8 0.33
30 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (27 bp):
TAAGTAATATTAATTTTTTAAATTAAA
Found at i:17238561 original size:63 final size:64
Alignment explanation
Indices: 17238440--17238567 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 64
17238430 TGCATATTTC
* * ** * * * *
17238440 TATAAGGCTAAATCTTAGCTTTAATTTATATATAATTATAACACTATTTAAGTTATAATCTATT
1 TATAAGGCTAAATATTAGCTTTAATTCATATATAACCATAACACTAATAAAGTGATAATCAATT
*
17238504 TATAAGGCTAAATATTA-TTTTAATTCATATATAACCATAAC-CTTAATAAAGTGATAATCAATT
1 TATAAGGCTAAATATTAGCTTTAATTCATATATAACCATAACAC-TAATAAAGTGATAATCAATT
17238567 T
1 T
17238568 CAAATAATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
62 1 0.02
63 37 0.69
64 16 0.30
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.42
Consensus pattern (64 bp):
TATAAGGCTAAATATTAGCTTTAATTCATATATAACCATAACACTAATAAAGTGATAATCAATT
Found at i:17239321 original size:43 final size:43
Alignment explanation
Indices: 17239222--17239330 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
17239212 TTTATTTGAA
*
17239222 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTACT
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTACT
* *
17239265 ACAAACGCCGCTAAAAATCATGACTTTTAGCGGCGCTTTT-CT
1 AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTACT
* * *
17239307 CAAAAACACTGCTAAAAGTCATGA
1 -AAAAACGCCGCTAAAAATCATGA
17239331 AATTCAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAATCATGACCTTTAGCGGCGCTTTTACT
Found at i:17244056 original size:21 final size:22
Alignment explanation
Indices: 17244025--17244070 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
17244015 CATGACACAT
*
17244025 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACCCCTAAACCATA
*
17244047 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCCTAAACCATA
17244068 AAC
1 AAC
17244071 TATAAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.15
Consensus pattern (22 bp):
AACCCCTAACCCCTAAACCATA
Found at i:17244061 original size:14 final size:15
Alignment explanation
Indices: 17244032--17244064 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17244022 CATAACCCCT
17244032 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
17244047 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
17244061 AACC
1 AACC
17244065 ATAAACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:17244069 original size:7 final size:7
Alignment explanation
Indices: 17244059--17244126 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
17244049 CCCCAACCCT
17244059 TAAACCA
1 TAAACCA
*
17244066 TAAACTA
1 TAAACCA
17244073 TAAACCA
1 TAAACCA
*
17244080 TAATCCA
1 TAAACCA
17244087 TAAACCCA
1 TAAA-CCA
*
17244095 TAATCCA
1 TAAACCA
*
17244102 TAATCCA
1 TAAACCA
* *
17244109 TAATCTA
1 TAAACCA
*
17244116 TAAACCT
1 TAAACCA
17244123 TAAA
1 TAAA
17244127 ATAGTAACTC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 45 0.88
8 6 0.12
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:17244076 original size:14 final size:14
Alignment explanation
Indices: 17244059--17244121 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
17244049 CCCCAACCCT
* *
17244059 TAAACCATAAACTA
1 TAAACCATAATCCA
17244073 TAAACCATAATCCA
1 TAAACCATAATCCA
17244087 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
* *
17244102 TAATCCATAATCTA
1 TAAACCATAATCCA
17244116 TAAACC
1 TAAACC
17244122 TTAAAATAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 30 0.70
15 13 0.30
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:17244097 original size:22 final size:21
Alignment explanation
Indices: 17244063--17244121 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
17244053 AACCCTTAAA
*
17244063 CCATAAACTATAAACCATAAT
1 CCATAAACCATAAACCATAAT
*
17244084 CCATAAACCCATAATCCATAAT
1 CCATAAA-CCATAAACCATAAT
* *
17244106 CCATAATCTATAAACC
1 CCATAAACCATAAACC
17244122 TTAAAATAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
CCATAAACCATAAACCATAAT
Found at i:17244109 original size:29 final size:29
Alignment explanation
Indices: 17244032--17244121 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
17244022 CATAACCCCT
* * ** * *
17244032 AACCCCTAAACCTTAAACCCCAACCCTTA
1 AACCCATAAACCATAAACCATAATCCATA
*
17244061 AA-CCATAAACTATAAACCATAATCCATA
1 AACCCATAAACCATAAACCATAATCCATA
* * *
17244089 AACCCATAATCCATAATCCATAATCTATA
1 AACCCATAAACCATAAACCATAATCCATA
17244118 AACC
1 AACC
17244122 TTAAAATAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 21 0.43
29 28 0.57
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (29 bp):
AACCCATAAACCATAAACCATAATCCATA
Found at i:17244432 original size:24 final size:24
Alignment explanation
Indices: 17244404--17244453 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
17244394 ACCAAAATAA
*
17244404 AAATTAATTTTTATATAGACTTTT
1 AAATTAATTTTTATATAAACTTTT
17244428 AAATTAATTTTTATATAAACTTTT
1 AAATTAATTTTTATATAAACTTTT
17244452 AA
1 AA
17244454 TAAATATACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
AAATTAATTTTTATATAAACTTTT
Found at i:17245090 original size:41 final size:41
Alignment explanation
Indices: 17245033--17245133 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
17245023 AAGAGTTATA
* *
17245033 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCTGGTAATGCCC
1 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCC
17245074 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCC
1 TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCC
17245115 TGGT-TTTTAGCGGCGTTTT
1 T-GTCTTTTAGCGGCGTTTT
17245134 TGGTAAACGC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
41 55 0.96
42 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (41 bp):
TGTCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCCC
Found at i:17258487 original size:40 final size:40
Alignment explanation
Indices: 17258384--17258491 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
17258374 TGGATCGAAT
* * * *
17258384 ATTAGCGGTGC-TTTCTAAAAAACACCGCTATAGATCAAGC
1 ATTAGCGGCGCTTTTCT-AAAAACGCTGCTATAGATCAACC
* *
17258424 ATTGGCGGCGCTTTTCTAAAAACGCTGCTATAGGTCAACC
1 ATTAGCGGCGCTTTTCTAAAAACGCTGCTATAGATCAACC
*
17258464 ATTAGTGGCGCTTTT-TGAAAAACGCTGC
1 ATTAGCGGCGCTTTTCT-AAAAACGCTGC
17258492 AAAAAATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 52 0.90
41 5 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTCTAAAAACGCTGCTATAGATCAACC
Found at i:17258639 original size:39 final size:40
Alignment explanation
Indices: 17258546--17258639 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
17258536 CATTAGCGGT
17258546 GCTTTTTGAAAAACGCCGCTATAGATCAAACATTAACAGC
1 GCTTTTTGAAAAACGCCGCTATAGATCAAACATTAACAGC
* * *
17258586 GCTTTTCT-AAAAACGCCGCTATAGATCGACCA-TAGC-GTC
1 GCTTTT-TGAAAAACGCCGCTATAGATCAAACATTAACAG-C
17258625 GCTTTTTGAAAAACG
1 GCTTTTTGAAAAACG
17258640 TCGCAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 2 0.04
39 17 0.35
40 28 0.58
41 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (40 bp):
GCTTTTTGAAAAACGCCGCTATAGATCAAACATTAACAGC
Found at i:17258720 original size:152 final size:151
Alignment explanation
Indices: 17258384--17258802 Score: 450
Period size: 152 Copynumber: 2.7 Consensus size: 151
17258374 TGGATCGAAT
* * * *
17258384 ATTAGCGGTGCTTTCTAAAAAACACCGCTATAGATCAAGCATTGGCGGCGCTTTTCTAAAAACGC
1 ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCTAAAAACGC
* * * * *
17258449 TGCTATAGGTCAACCATTAGTGGCGCTTTTTGAAAAACGCTGCAAAAAATTAAGCACAACGCTGT
66 CGCTATAGATCGACCATTAG-CGCGCTTTTTGAAAAACGC-GCAAAAAATTAAGCACAACACTGT
* * * * *
17258514 GTTTTATGTTGAGCTTTAGTGTC
129 GTGTCATGTAGAGCTATAGAGTC
* * *
17258537 ATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCAAACATTAACAGCGCTTTTCTAAAAACGC
1 ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCTAAAAACGC
*
17258602 CGCTATAGATCGACCA-TAGCGTCGCTTTTTGAAAAACGTCGCAAAAAATTAAGCACAACACTTT
66 CGCTATAGATCGACCATTAGCG-CGCTTTTTGAAAAACG-CGCAAAAAATTAAGCACAACACTGT
* * *
17258666 AGTGTCAT-TAGCGGTGATCGAG-C
129 -GTGTCATGTAGAGCT-ATAGAGTC
* * * * * *
17258689 ATTAGCTGCGCTTTCTGAAAAATGCCACTATAGATCAAGCATTAGCTGCGCTTTT-TGAAAAACA
1 ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCT-AAAAACG
* * * *
17258753 CCGCTATAGATCGATCATTATCAGCGCTTTGTCAAAAACGCCGCAAAAAA
65 CCGCTATAGATCGACCATTAGC-GCGCTTTTTGAAAAACG-CGCAAAAAA
17258803 CATTTTATTT
Statistics
Matches: 224, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
151 2 0.01
152 115 0.51
153 106 0.47
154 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (151 bp):
ATTAGCGGTGCTTTCTGAAAAACGCCGCTATAGATCAAGCATTAGCAGCGCTTTTCTAAAAACGC
CGCTATAGATCGACCATTAGCGCGCTTTTTGAAAAACGCGCAAAAAATTAAGCACAACACTGTGT
GTCATGTAGAGCTATAGAGTC
Found at i:17258741 original size:40 final size:40
Alignment explanation
Indices: 17258681--17258791 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
17258671 CATTAGCGGT
**
17258681 GATCGAGCATTAGCTGCGCTTTCTGAAAAATGCCACTATA
1 GATCGAGCATTAGCTGCGCTTTCTGAAAAACACCACTATA
* * *
17258721 GATCAAGCATTAGCTGCGCTTTTTGAAAAACACCGCTATA
1 GATCGAGCATTAGCTGCGCTTTCTGAAAAACACCACTATA
* * * * *
17258761 GATCGATCATTATCAGCGCTTTGTCAAAAAC
1 GATCGAGCATTAGCTGCGCTTTCTGAAAAAC
17258792 GCCGCAAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (40 bp):
GATCGAGCATTAGCTGCGCTTTCTGAAAAACACCACTATA
Found at i:17259120 original size:7 final size:7
Alignment explanation
Indices: 17259099--17259212 Score: 58
Period size: 7 Copynumber: 16.3 Consensus size: 7
17259089 TTAATTATCA
*
17259099 TTATAGT
1 TTATGGT
*
17259106 TTAGGGT
1 TTATGGT
17259113 TTATGGT
1 TTATGGT
*
17259120 TTAGGGT
1 TTATGGT
* *
17259127 ATATAG-
1 TTATGGT
*
17259133 TTAGGGT
1 TTATGGT
*
17259140 TTAAGGT
1 TTATGGT
17259147 TTATGAGT
1 TTATG-GT
17259155 TACTAT--T
1 T--TATGGT
*
17259162 TTAAGGT
1 TTATGGT
17259169 TTATGG-
1 TTATGGT
17259175 TTATGGGT
1 TTAT-GGT
*
17259183 TTA-GAGG
1 TTATG-GT
17259190 TTATGGT
1 TTATGGT
17259197 TTATGGT
1 TTATGGT
*
17259204 TTAAGGT
1 TTATGGT
17259211 TT
1 TT
17259213 GGGGGTTAGT
Statistics
Matches: 80, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
5 2 0.03
6 8 0.10
7 60 0.75
8 7 0.09
10 3 0.04
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:17259121 original size:14 final size:14
Alignment explanation
Indices: 17259099--17259212 Score: 67
Period size: 14 Copynumber: 8.1 Consensus size: 14
17259089 TTAATTATCA
*
17259099 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
17259113 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
17259127 ATATAG-TTAGGGT
1 TTATGGTTTAGGGT
* *
17259140 TTAAGGTTTATGAGT
1 TTATGGTTTA-GGGT
*
17259155 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
17259169 TTATGG-TTATGGGT
1 TTATGGTTTA-GGGT
* *
17259183 TTA-GAGGTTATGGT
1 TTATG-GTTTAGGGT
*
17259197 TTATGGTTTAAGGT
1 TTATGGTTTAGGGT
17259211 TT
1 TT
17259213 GGGGGTTAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
12 3 0.04
13 14 0.18
14 45 0.59
15 12 0.16
17 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:17259211 original size:28 final size:29
Alignment explanation
Indices: 17259166--17259226 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
17259156 ACTATTTTAA
*
17259166 GGTTTATGGTTATGGGTTTAGAGGTTA-T
1 GGTTTATGGTTATAGGTTTAGAGGTTAGT
* *
17259194 GGTTTATGGTT-TAAGGTTTGGGGGTTAGT
1 GGTTTATGGTTAT-AGGTTTAGAGGTTAGT
17259223 GGTT
1 GGTT
17259227 AGGGATTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 22 0.79
29 5 0.18
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (29 bp):
GGTTTATGGTTATAGGTTTAGAGGTTAGT
Found at i:17259219 original size:22 final size:22
Alignment explanation
Indices: 17259194--17259271 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 22
17259184 TAGAGGTTAT
*
17259194 GGTTTATGGTTTAAGG-TTTGG
1 GGTTTATGGTTTAAGGATTAGG
* *
17259215 GGGTTAGTGG-TTAGGGATTAGG
1 GGTTTA-TGGTTTAAGGATTAGG
* ** *
17259237 GGTTAATGGGATAAGGGTTAGG
1 GGTTTATGGTTTAAGGATTAGG
*
17259259 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
17259272 GGGTAATTAG
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
21 13 0.31
22 29 0.69
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (22 bp):
GGTTTATGGTTTAAGGATTAGG
Found at i:17259227 original size:35 final size:35
Alignment explanation
Indices: 17259161--17259227 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
17259151 GAGTTACTAT
* *
17259161 TTTAAGGTTTATGGTTATGGGTTTAGAGGTTATGG
1 TTTAAGGTTTAAGGTTATGGGGTTAGAGGTTATGG
* *
17259196 TTTATGGTTTAAGGTT-TGGGGGTTAGTGGTTA
1 TTTAAGGTTTAAGGTTAT-GGGGTTAGAGGTTA
17259228 GGGATTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.04
35 26 0.96
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (35 bp):
TTTAAGGTTTAAGGTTATGGGGTTAGAGGTTATGG
Found at i:17259275 original size:14 final size:14
Alignment explanation
Indices: 17259104--17259275 Score: 52
Period size: 14 Copynumber: 12.1 Consensus size: 14
17259094 TATCATTATA
*
17259104 GTTTAGGGTTTATG
1 GTTTAGGGTTTAGG
* **
17259118 GTTTAGGGTATATA
1 GTTTAGGGTTTAGG
*
17259132 G-TTAGGGTTTAAG
1 GTTTAGGGTTTAGG
*
17259145 GTTTATGAGTTACTA--
1 GTTTA-GGGTT--TAGG
* * *
17259160 TTTTAAGGTTTATG
1 GTTTAGGGTTTAGG
17259174 G-TTATGGGTTTAGAG
1 GTTTA-GGGTTTAG-G
* *
17259189 G-TTATGGTTTATG
1 GTTTAGGGTTTAGG
* *
17259202 GTTTAAGGTTTGGG
1 GTTTAGGGTTTAGG
*
17259216 GGTTAGTGG-TTAGG
1 GTTTAG-GGTTTAGG
* *
17259230 GATTAGGGGTTAATGG
1 GTTTA-GGGTTTA-GG
* *
17259246 GATAAGGG-TTAGGG
1 GTTTAGGGTTTA-GG
17259260 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
17259274 GT
1 GT
17259276 AATTAGTGTG
Statistics
Matches: 117, Mismatches: 27, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
12 2 0.02
13 15 0.13
14 68 0.58
15 24 0.21
16 6 0.05
17 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:17259403 original size:16 final size:16
Alignment explanation
Indices: 17259384--17259414 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17259374 ATATTAAATA
17259384 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTAAAG
17259400 ATTTCAAATTTTAAA
1 ATTTCAAATTTTAAA
17259415 TAATTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTCAAATTTTAAAG
Found at i:17260193 original size:22 final size:20
Alignment explanation
Indices: 17260163--17260202 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
17260153 TTAGTGAATT
17260163 TTATAAATATTGAATAAATTTA
1 TTATAAATA-TG-ATAAATTTA
*
17260185 TTATTAATATGATAAATT
1 TTATAAATATGATAAATT
17260203 CATTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATAAATATGATAAATTTA
Found at i:17263746 original size:21 final size:21
Alignment explanation
Indices: 17263713--17263764 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
17263703 TGAGCGTTGT
* *
17263713 ATAAAAAGTTAAAATAGAT-A
1 ATAAAAAATTAAAATAAATAA
17263733 ATAAAAAATGTAAAATAAATAA
1 ATAAAAAAT-TAAAATAAATAA
17263755 ATAAATAAAT
1 ATAAA-AAAT
17263765 AGAATGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 9 0.33
22 6 0.22
23 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (21 bp):
ATAAAAAATTAAAATAAATAA
Found at i:17263839 original size:23 final size:22
Alignment explanation
Indices: 17263807--17263938 Score: 80
Period size: 23 Copynumber: 6.0 Consensus size: 22
17263797 TAAGAAAAAA
*
17263807 AGTAAT-AATAAAAATAATATT
1 AGTAATAAATAAAAATAATAAT
* *
17263828 AGTATATAAATAGAAATAAAAAT
1 AGTA-ATAAATAAAAATAATAAT
17263851 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATA-AAA-ATAATAAT
* *
17263874 AGT-AGAAATATAAATAGATAA-
1 AGTAATAAATAAAAATA-ATAAT
17263895 A-TAA-AAATTAGATAAATAATAAT
1 AGTAATAAA-TA-A-AAATAATAAT
* *
17263918 AGTATTAGAATAACAA-AATAA
1 AGTAATA-AATAAAAATAATAA
17263939 ATATAAATAG
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
20 4 0.05
21 18 0.21
22 21 0.24
23 35 0.40
24 4 0.05
25 3 0.03
26 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.28
Consensus pattern (22 bp):
AGTAATAAATAAAAATAATAAT
Found at i:17263883 original size:44 final size:44
Alignment explanation
Indices: 17263835--17263921 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
17263825 ATTAGTATAT
17263835 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
17263879 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
17263922 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:17263906 original size:15 final size:14
Alignment explanation
Indices: 17263833--17263961 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
17263823 ATATTAGTAT
*
17263833 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
17263846 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
17263862 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
17263876 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
17263891 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
17263906 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
17263920 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
17263935 ATAAATATAAATAG
1 ATAAATAAAAATAG
17263949 A-AACATAAAAATA
1 ATAA-ATAAAAATA
17263962 ATAGGAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:17263911 original size:29 final size:28
Alignment explanation
Indices: 17263854--17263961 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
17263844 TAAAAATATA
* * *
17263854 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
17263883 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
17263912 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
17263941 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
17263962 ATAGGAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:17265010 original size:44 final size:44
Alignment explanation
Indices: 17264931--17265193 Score: 186
Period size: 44 Copynumber: 6.0 Consensus size: 44
17264921 ACTTAAAGAG
* * *
17264931 GATAAAATCTGTTAATCTTCAGTCTGCTT-CACTACTGCTTAGGGA
1 GATAAGATCTG-TAATTTTCAGTCTG-TTACCCTACTGCTTAGGGA
* * *
17264976 GGTAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGG
1 GATAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGA
* * * * * *
17265020 GTTAAGGCTCACTGT--CTTTGA-TCTGTT-CCACTACTACTTAAGGA
1 GATAA-GAT--CTGTAATTTTCAGTCTGTTACC-CTACTGCTTAGGGA
*
17265064 GATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGA
1 GATAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGA
* * * * *
17265108 GTTAAG-GCT-TACCATCTTC-GATCTGCT-CCACTACTG-TTTGGGA
1 GATAAGATCTGTA--ATTTTCAG-TCTGTTACC-CTACTGCTTAGGGA
* *
17265151 GATAAGATCTGTAATTTTTAGTCTATTACCCTACTGCTTAGGG
1 GATAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGG
17265194 GGTTAAGGCT
Statistics
Matches: 166, Mismatches: 34, Indels: 37
0.70 0.14 0.16
Matches are distributed among these distances:
41 4 0.02
42 2 0.01
43 40 0.24
44 97 0.58
45 19 0.11
47 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (44 bp):
GATAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGA
Found at i:17265112 original size:88 final size:87
Alignment explanation
Indices: 17264953--17265227 Score: 397
Period size: 88 Copynumber: 3.1 Consensus size: 87
17264943 TAATCTTCAG
* *
17264953 TCTGCTTCACTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACT-CTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* *
17265018 GGGTTAAGGCTCACTGTCTTTGA
65 GGGTTAAGGCTTACTGTCTTCGA
* *
17265041 TCTGTTCCACTACTACTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
1 TCTGCTCCACTACT-CTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGG
* **
17265106 GAGTTAAGGCTTACCATCTTCGA
65 GGGTTAAGGCTTACTGTCTTCGA
* * * * *
17265129 TCTGCTCCACTACTGTTTGGGAGATAAGATCTGTAATTTTTAGTCTATTACCCTACTGCTTAGGG
1 TCTGCTCCACTACTCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
*
17265194 GGTTAAGGCTTGCTGTCTTCGA
66 GGTTAAGGCTTACTGTCTTCGA
17265216 TCTGCTCCACTA
1 TCTGCTCCACTA
17265228 TTGTTTAGGG
Statistics
Matches: 166, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 75 0.45
88 91 0.55
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (87 bp):
TCTGCTCCACTACTCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAGGCTTACTGTCTTCGA
Found at i:17265199 original size:87 final size:87
Alignment explanation
Indices: 17264945--17265255 Score: 378
Period size: 88 Copynumber: 3.6 Consensus size: 87
17264935 AAATCTGTTA
* * * *
17264945 ATCTTC-AGTCTGCTTCACTACTGCTTAGGGAGGTAAGATCTGTAATTTTCAGCCTGTTACCCTA
1 ATCTTCGA-TCTGCTCCACTACTG-TTAAGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTA
*
17265009 CTGCTTAGGGGGTTAAGGCTCACT
64 CTGCTTAGGGGGTTAAGGCTTACT
* * * * *
17265033 GTCTTTGATCTGTTCCACTACTACTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTAC
1 ATCTTCGATCTGCTCCACTACT-GTTAAGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTAC
* *
17265098 TGCTTAGGGAGTTAAGGCTTACC
65 TGCTTAGGGGGTTAAGGCTTACT
** * *
17265121 ATCTTCGATCTGCTCCACTACTGTTTGGGAGATAAGATCTGTAATTTTTAGTCTATTACCCTACT
1 ATCTTCGATCTGCTCCACTACTGTTAAGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTACT
*
17265186 GCTTAGGGGGTTAAGGCTTGCT
66 GCTTAGGGGGTTAAGGCTTACT
* * * *
17265208 GTCTTCGATCTGCTCCACTATTGTTTAGG-G--AAGATCTGTATTTTTCAG
1 ATCTTCGATCTGCTCCACTACTGTTAAGGAGATAAGATCTGTAATTTTCAG
17265256 TCTACTCCAT
Statistics
Matches: 194, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
84 16 0.08
86 1 0.01
87 82 0.42
88 94 0.48
89 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (87 bp):
ATCTTCGATCTGCTCCACTACTGTTAAGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTACT
GCTTAGGGGGTTAAGGCTTACT
Found at i:17265328 original size:45 final size:45
Alignment explanation
Indices: 17265260--17265465 Score: 165
Period size: 45 Copynumber: 4.6 Consensus size: 45
17265250 TTTCAGTCTA
* *
17265260 CTCCATAGCCGATACATGAAGATAAGACTCGTCATTTCTGATTTG
1 CTCCATAGCCGATACATGGAGATAAGACTCGTCATTTCTGATCTG
* *
17265305 CTCCATAGCCGATACATGGAGATAAGA-TCTGTAACTTT-TCAGTCTG
1 CTCCATAGCCGATACATGGAGATAAGACTC-GTCA-TTTCTGA-TCTG
* * * *** ***
17265351 CTTCC-TA--CAACTTCA-GGAAGATAAGACTAGT-GGCTAAAATCTG
1 C-TCCATAGCCGA-TACATGG-AGATAAGACTCGTCATTTCTGATCTG
* *
17265394 CTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTG
1 CTCCATAGCCGATACATGGAGATAAGACTCGTCATTTCTGATCTG
*
17265439 CTCCATAGCCGGTACATGGAGATAAGA
1 CTCCATAGCCGATACATGGAGATAAGA
17265466 TCTGTAACTT
Statistics
Matches: 124, Mismatches: 24, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
42 3 0.02
43 8 0.06
44 21 0.17
45 79 0.64
46 10 0.08
47 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CTCCATAGCCGATACATGGAGATAAGACTCGTCATTTCTGATCTG
Found at i:17265500 original size:134 final size:134
Alignment explanation
Indices: 17265260--17265511 Score: 432
Period size: 134 Copynumber: 1.9 Consensus size: 134
17265250 TTTCAGTCTA
* * *
17265260 CTCCATAGCCGATACATGAAGATAAGACTCGTCATTTCTGATTTGCTCCATAGCCGATACATGGA
1 CTCCATAGCCCATACATGAAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGA
* *
17265325 GATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
66 GATAAGATCTGTAACTTTTCAATCAGCTTCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
17265390 TCTG
131 TCTG
* *
17265394 CTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGGTACATGGA
1 CTCCATAGCCCATACATGAAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGA
*
17265459 GATAAGATCTGTAACTTTTCAATCAGCTTCCTGCAACTTCAGGAAGATAAGAC
66 GATAAGATCTGTAACTTTTCAATCAGCTTCCTACAACTTCAGGAAGATAAGAC
17265512 CTGTATCTTC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 110 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (134 bp):
CTCCATAGCCCATACATGAAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGA
GATAAGATCTGTAACTTTTCAATCAGCTTCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
TCTG
Found at i:17265670 original size:306 final size:308
Alignment explanation
Indices: 17265256--17265816 Score: 878
Period size: 306 Copynumber: 1.8 Consensus size: 308
17265246 TATTTTTCAG
* * *
17265256 TCTACTCCATAGCCGATACATGAAGATAAGACTCGTCATTTCTGATTTGCTCCATAGCCGATACA
1 TCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATTTCTCA--T-ATCCATAGCCGATACA
* *
17265321 TGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGACTAGTGGCT
63 TGGAGATAAGATCTGTAACTTTGCAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCT
* *
17265386 AAAATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGG
128 AAAATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTAATCTGCTCCATAGCCGA
* * *
17265451 TACATGGAGATAAGATCTGTA-ACTTTTCAATCAGCTTCCTGCAACTTCAGGAAGATAAGACCTG
193 TACATGGAGATAAGATCTATATA--TTGCAATCAGCTCCCTGCAACTTCAGGAAGATAAGACCTG
17265515 TATCTTCAACCGGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
256 TATCTTCAACCGGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
* *
17265568 TCTACTCCATAGCTGATACATGAAGATGAGACTCGCCATTT-TCA-ATCCATAGCCGATACATGG
1 TCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATTTCTCATATCCATAGCCGATACATGG
*
17265631 AGATAAGATCTGTAA-TTTGCAGTCTGCTCCCTGCAACTTCAGGAAGATAAGACTAGTGGCTAAA
66 AGATAAGATCTGTAACTTTGCAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAA
* * *
17265695 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCGATTTCTAATCTGCTCCATAGCCGATAC
131 ATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTAATCTGCTCCATAGCCGATAC
* * *
17265760 ATGGAGATAAGATCTATATATTGCAGTCTGCTCCCTGCAACTTTAGGAAGATAAGAC
196 ATGGAGATAAGATCTATATATTGCAATCAGCTCCCTGCAACTTCAGGAAGATAAGAC
17265817 TAGTGGCTAA
Statistics
Matches: 229, Mismatches: 19, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
305 32 0.14
306 123 0.54
307 34 0.15
311 2 0.01
312 38 0.17
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (308 bp):
TCTACTCCATAGCCGATACATGAAGATAAGACTCGCCATTTCTCATATCCATAGCCGATACATGG
AGATAAGATCTGTAACTTTGCAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAA
ATCTGCTCCATAGCCCATACATGGAGATAAGACTCGCCATTTCTAATCTGCTCCATAGCCGATAC
ATGGAGATAAGATCTATATATTGCAATCAGCTCCCTGCAACTTCAGGAAGATAAGACCTGTATCT
TCAACCGGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
Found at i:17265790 original size:45 final size:45
Alignment explanation
Indices: 17265694--17266037 Score: 159
Period size: 45 Copynumber: 7.7 Consensus size: 45
17265684 TAGTGGCTAA
* *
17265694 AATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCGATTTCT
1 AATCTGCTCCATAGCCGATACATGGAGATAAGACTTGAGATTGCT
*
17265739 AATCTGCTCCATAGCCGATACATGGAGATAAGATCTAT-ATATTGC-
1 AATCTGCTCCATAGCCGATACATGGAGATAAGA-CT-TGAGATTGCT
* * * *
17265784 AGTCTGCTCCCT-G-C-A-ACTTTAGGAAGATAAGAC-T-AG-TGGCT
1 AATCTGCTCCATAGCCGATAC-AT-GG-AGATAAGACTTGAGATTGCT
* * * *
17265825 AAAATCTGCTCCATAGCCAATACATGGAGATAAGA-TTCACCATTTCT
1 --AATCTGCTCCATAGCCGATACATGGAGATAAGACTTGA-GATTGCT
* * * *
17265872 GATCTGCTCCATAGCCGATACATGAAAATAAAATCTCT-A-ATTTGC-
1 AATCTGCTCCATAGCCGATACATGGAGATAAGA-CT-TGAGA-TTGCT
* * * * * *
17265917 AGTCTGCTCCCT-G-CAACTTCA-GAAAGATAAGAC-T-AG-TGGCT
1 AATCTGCTCCATAGCCGA-TACATG-GAGATAAGACTTGAGATTGCT
* * * ** *
17265958 AAAATCTGCTCCATAGCCAATATATGGAGAAAAGACTTGCCATTTCT
1 --AATCTGCTCCATAGCCGATACATGGAGATAAGACTTGAGATTGCT
* *
17266005 GATTTGCTCCATAGCCGATACATGGAGATAAGA
1 AATCTGCTCCATAGCCGATACATGGAGATAAGA
17266038 TCTATAATTT
Statistics
Matches: 224, Mismatches: 43, Indels: 64
0.68 0.13 0.19
Matches are distributed among these distances:
40 6 0.03
41 6 0.03
42 2 0.01
43 28 0.12
44 41 0.18
45 118 0.53
46 11 0.05
47 11 0.05
48 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
AATCTGCTCCATAGCCGATACATGGAGATAAGACTTGAGATTGCT
Found at i:17265792 original size:133 final size:133
Alignment explanation
Indices: 17265547--17266166 Score: 878
Period size: 133 Copynumber: 4.7 Consensus size: 133
17265537 TACCTCAGAG
* * * * * * *
17265547 AGATAAGGCTGGTGGCTAAAATCTACTCCATAGCTGATACATGAAGATGAGACTCGCCA-TT-T-
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCTG
** *
17265609 -TC-AATCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCTGCTCCCTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
17265672 GGA
131 GGA
* *
17265675 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCGATTTCTA
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCTG
*
17265740 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTAT-ATATTGCAGTCTGCTCCCTGCAACTTT
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAAT-TTGCAGTCTGCTCCCTGCAACTTC
17265804 AGGA
130 AGGA
* *
17265808 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGA-TTCACCATTTCT
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTT-GCCATTTCT
* * * *
17265872 GATCTGCTCCATAGCCGATACATGAAAATAAAATCTCTAATTTGCAGTCTGCTCCCTGCAACTTC
65 GATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTC
*
17265937 AGAA
130 AGGA
* * *
17265941 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATATATGGAGAAAAGACTTGCCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCTG
* *
17266006 ATTTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCGTGCAACTTCA
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
17266071 GGA
131 GGA
* * **
17266074 AGATAATACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTT-TC
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCT-
* *
17266138 GATCTACTTCATAGCCGATACATGGAGAT
65 GATCTGCTCCATAGCCGATACATGGAGAT
17266167 TATGGGTGAG
Statistics
Matches: 440, Mismatches: 42, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
128 51 0.12
129 2 0.00
130 1 0.00
132 7 0.02
133 375 0.85
134 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (133 bp):
AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTTGCCATTTCTG
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTGCAACTTCA
GGA
Found at i:17266058 original size:45 final size:43
Alignment explanation
Indices: 17265613--17266059 Score: 150
Period size: 45 Copynumber: 10.1 Consensus size: 43
17265603 CCATTTTCAA
*
17265613 TCCATAGCCGATACATGGAGATAAGATCTGTAATTTGCAGTCTGC
1 TCCATAGCCGATACATGGAGATAAGA-CTAT-ATTTGCAGTCTGC
* * * *** ** *
17265658 TCCCT-G-CAACTTCA-GGAAGATAAGACTAGTGGCTAAAATCTGC
1 TCCATAGCCGA-TACATGG-AGATAAGACTA-TATTTGCAGTCTGC
*
17265701 TCCATAGCCGATACATGGAGATAAGACT-TGCGATTT-CTAATCTGC
1 TCCATAGCCGATACATGGAGATAAGACTAT---ATTTGC-AGTCTGC
17265746 TCCATAGCCGATACATGGAGATAAGATCTATATATTGCAGTCTGC
1 TCCATAGCCGATACATGGAGATAAGA-CTATAT-TTGCAGTCTGC
* * *** ** *
17265791 TCCCT-G-C-A-ACTTTAGGAAGATAAGACTAGTGGCTAAAATCTGC
1 TCCATAGCCGATAC-AT-GG-AGATAAGACTA-TATTTGCAGTCTGC
* * * *
17265834 TCCATAGCCAATACATGGAGATAAGATTCACCATTT-CTGATCTGC
1 TCCATAGCCGATACATGGAGATAAGACT-A-TATTTGCAG-TCTGC
* * * *
17265879 TCCATAGCCGATACATGAAAATAAAATCTCTAATTTGCAGTCTGC
1 TCCATAGCCGATACATGGAGATAAGA-CTAT-ATTTGCAGTCTGC
* * * * *** ** *
17265924 TCCCT-G-CAACTTCA-GAAAGATAAGACTAGTGGCTAAAATCTGC
1 TCCATAGCCGA-TACATG-GAGATAAGACTA-TATTTGCAGTCTGC
* * * * *
17265967 TCCATAGCCAATATATGGAGAAAAGACT-TGCCATTT-CTGATTTGC
1 TCCATAGCCGATACATGGAGATAAGACTAT---ATTTGCAG-TCTGC
17266012 TCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGC
1 TCCATAGCCGATACATGGAGATAAGA-CTAT-ATTTGCAGTCTGC
17266057 TCC
1 TCC
17266060 GTGCAACTTC
Statistics
Matches: 287, Mismatches: 75, Indels: 80
0.65 0.17 0.18
Matches are distributed among these distances:
41 2 0.01
42 4 0.01
43 50 0.17
44 73 0.25
45 142 0.49
46 12 0.04
47 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
TCCATAGCCGATACATGGAGATAAGACTATATTTGCAGTCTGC
Found at i:17266374 original size:28 final size:29
Alignment explanation
Indices: 17266334--17266395 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
17266324 TGTTCGAGTT
* * *
17266334 AATTTTT-TAAAAAAATGATTTTCTTTGA
1 AATTTTTCAAAAAAAATAATTTTCTTTAA
17266362 AATTTTTCAAAAAAAATAATTTTCTTTAA
1 AATTTTTCAAAAAAAATAATTTTCTTTAA
17266391 AATTT
1 AATTT
17266396 CTAAACATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (29 bp):
AATTTTTCAAAAAAAATAATTTTCTTTAA
Found at i:17269197 original size:24 final size:25
Alignment explanation
Indices: 17269170--17269228 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
17269160 AGTTTTAGCA
* ** *
17269170 TTTATTTATAATTAA-TTATTTAAT
1 TTTATTTATAATAAAGTTATCAAAA
17269194 TTTATTTA-AATAAAGTTATCAAAA
1 TTTATTTATAATAAAGTTATCAAAA
17269218 TTTATTTATAA
1 TTTATTTATAA
17269229 GTCTTCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATTTATAATAAAGTTATCAAAA
Found at i:17269900 original size:17 final size:17
Alignment explanation
Indices: 17269878--17269928 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
17269868 CAAGTTGGAA
17269878 TTAAGAATTTATAATAT
1 TTAAGAATTTATAATAT
* *
17269895 TTAAGATTTTTCTAAT-T
1 TTAAGA-ATTTATAATAT
*
17269912 CTAA-AATTTATAATAT
1 TTAAGAATTTATAATAT
17269928 T
1 T
17269929 CAAGTTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 10 0.38
18 7 0.27
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
TTAAGAATTTATAATAT
Found at i:17270617 original size:9 final size:9
Alignment explanation
Indices: 17270603--17270635 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
17270593 TCGAGCTGAT
17270603 TCGATTAAC
1 TCGATTAAC
*
17270612 TCGATTAAA
1 TCGATTAAC
17270621 TCGATTAAC
1 TCGATTAAC
17270630 TCGATT
1 TCGATT
17270636 CAAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (9 bp):
TCGATTAAC
Found at i:17270626 original size:18 final size:19
Alignment explanation
Indices: 17270603--17270640 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
17270593 TCGAGCTGAT
17270603 TCGATTAACTCGATT-AAA
1 TCGATTAACTCGATTCAAA
17270621 TCGATTAACTCGATTCAAA
1 TCGATTAACTCGATTCAAA
17270640 T
1 T
17270641 AATTCGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
TCGATTAACTCGATTCAAA
Found at i:17270778 original size:43 final size:43
Alignment explanation
Indices: 17270728--17270866 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
17270718 TAATTTGCAG
17270728 TCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
1 TCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
* * * * * *** * *
17270771 TTTGCTCCATAGCCGA-TACATGAAGATAAGATCTA-TAATTTACAG
1 TCTGCTCCCTA--CAACTTCAGGAAGATAAGA-CTAGT-GGCTAAAA
* *
17270816 TCTGCTCTCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
1 TCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
17270859 TCTGCTCC
1 TCTGCTCC
17270867 ATAGCCGATA
Statistics
Matches: 67, Mismatches: 23, Indels: 12
0.66 0.23 0.12
Matches are distributed among these distances:
43 24 0.36
44 27 0.40
45 16 0.24
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (43 bp):
TCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
Found at i:17270796 original size:44 final size:44
Alignment explanation
Indices: 17270748--17270890 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 44
17270738 ACAACTTCAG
*
17270748 GAAGATAAGACTAGTGGCTAAAATTTGCTCCATAGCCGATACAT
1 GAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACAT
*** * * * * *
17270792 GAAGATAAGATCTA-TAATTTACAGTCTGCTCTC-TA--CAACTTCAG
1 GAAGATAAGA-CTAGT-GGCTAAAATCTGCTC-CATAGCCGA-TACAT
*
17270836 GAAGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACAT
1 GAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACAT
*
17270880 GGAGATAAGAC
1 GAAGATAAGAC
17270891 CCGCCATTTT
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
42 1 0.01
43 17 0.24
44 37 0.51
45 16 0.22
46 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (44 bp):
GAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACAT
Found at i:17270855 original size:88 final size:88
Alignment explanation
Indices: 17270706--17270889 Score: 305
Period size: 88 Copynumber: 2.1 Consensus size: 88
17270696 CCCCTAATGG
* * * *
17270706 AGATAATATCTCTAATTTGCAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGTGGCTAAAA
1 AGATAAGATCTATAATTTACAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
*
17270771 TTTGCTCCATAGCCGATACATGA
66 TCTGCTCCATAGCCGATACATGA
*
17270794 AGATAAGATCTATAATTTACAGTCTGCTCTCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
1 AGATAAGATCTATAATTTACAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
*
17270859 TCTGCTCCATAGCCGATACATGG
66 TCTGCTCCATAGCCGATACATGA
17270882 AGATAAGA
1 AGATAAGA
17270890 CCCGCCATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (88 bp):
AGATAAGATCTATAATTTACAGTCTGCTCCCTACAACTTCAGGAAGATAAGACTAGAGGCTAAAA
TCTGCTCCATAGCCGATACATGA
Found at i:17271045 original size:45 final size:45
Alignment explanation
Indices: 17270858--17271063 Score: 138
Period size: 45 Copynumber: 4.6 Consensus size: 45
17270848 AGAGGCTAAA
* * *
17270858 ATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
* * * * *
17270903 ATCTGCTCCATAGCCGATGCATGGAGATAATA-TCTCTAATT-TG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
* * * * * * ** *
17270946 CAGTCTGCTCCCT-G-CAACTTCAAGAAGATAAGACTAG---TGGCTAAA
1 -A-TCTGCTCCATAGCCGA-TACATGGAGATAAGACTCGCCATTTCT--G
17270991 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
* * *
17271036 ATCTGCTCCATAGTCAATAAATGGAGAT
1 ATCTGCTCCATAGCCGATACATGGAGAT
17271064 GAGATCTATA
Statistics
Matches: 118, Mismatches: 31, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
43 13 0.11
44 35 0.30
45 67 0.57
47 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
Found at i:17271078 original size:133 final size:133
Alignment explanation
Indices: 17270773--17271099 Score: 474
Period size: 133 Copynumber: 2.5 Consensus size: 133
17270763 GGCTAAAATT
* * * *
17270773 TGCTCCATAGCCGATACATGAAGATAAGATCTATAATTTACAGTCTGCTCTCTACAACTTCAGGA
1 TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTACAACTTCAAGA
* *
17270838 AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTTTT
66 AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTCTG
17270903 ATC
131 ATC
* * * *
17270906 TGCTCCATAGCCGATGCATGGAGATAATATCTCTAATTTGCAGTCTGCTCCCTGCAACTTCAAGA
1 TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTACAACTTCAAGA
* *
17270971 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
66 AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTCTG
17271036 ATC
131 ATC
* * * * * * *
17271039 TGCTCCATAGTCAATAAATGGAGATGAGATCTATAATTTGCAGCCTGTTACCCTACTACTT
1 TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCT-CCCTACAACTT
17271100 AGAGAGTTAA
Statistics
Matches: 170, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
133 161 0.95
134 9 0.05
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (133 bp):
TGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTGCTCCCTACAACTTCAAGA
AGATAAGACTAGAGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACCCGCCATTTCTG
ATC
Found at i:17271287 original size:64 final size:64
Alignment explanation
Indices: 17271186--17271308 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 64
17271176 GTATATATGT
* * *
17271186 TTATGCCAAACAGTTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAGCTAGATGTGATGC
1 TTATGCCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGC
*
17271250 TTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 TTATGCCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
17271309 ACTATGAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (64 bp):
TTATGCCAAACAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGC
Found at i:17275409 original size:19 final size:19
Alignment explanation
Indices: 17275385--17275448 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
17275375 TGAAAATTTA
*
17275385 ATGCAAATGATGCAATGCT
1 ATGCAAATGATGCAATGAT
17275404 ATGCAAATGATGCAATGAT
1 ATGCAAATGATGCAATGAT
* *
17275423 ATACAAATGCATGGAATGA-
1 ATGCAAATG-ATGCAATGAT
17275442 ATGCAAA
1 ATGCAAA
17275449 AGAAAGAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 32 0.80
20 8 0.20
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (19 bp):
ATGCAAATGATGCAATGAT
Found at i:17277452 original size:15 final size:15
Alignment explanation
Indices: 17277428--17277473 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
17277418 ATATAAATAG
*
17277428 AAATAAAAATATAAT
1 AAATAGAAATATAAT
17277443 AAATAGAAATATAAT
1 AAATAGAAATATAAT
17277458 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
17277474 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Done.