Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 302 of 320
Found at i:96097326 original size:30 final size:30
Alignment explanation
Indices: 96097292--96097352 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
96097282 TATTAAATCA
*
96097292 AACAA-AATAAAAAATGATAATAATAATAAT
1 AACAAGAAT-AAAAATGAAAATAATAATAAT
* * *
96097322 AACAAGAATTATAATTAAAATAATAATAAT
1 AACAAGAATAAAAATGAAAATAATAATAAT
96097352 A
1 A
96097353 TAAATTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (30 bp):
AACAAGAATAAAAATGAAAATAATAATAAT
Found at i:96097350 original size:15 final size:15
Alignment explanation
Indices: 96097310--96097356 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
96097300 AAAAAATGAT
96097310 AATAATAATAA-TAA
1 AATAATAATAATTAA
* *
96097324 CAAGAATTATAATTAA
1 -AATAATAATAATTAA
96097340 AATAATAATAATATAA
1 AATAATAATAAT-TAA
96097356 A
1 A
96097357 TTTTGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AATAATAATAATTAA
Found at i:96097515 original size:3 final size:3
Alignment explanation
Indices: 96097507--96097666 Score: 119
Period size: 3 Copynumber: 53.0 Consensus size: 3
96097497 AAATAAAACA
* * * *
96097507 AAT AAT AAT AAT AAA AAT AAT AA- AAT AAAG AAT AAT AA- CAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * * * *
96097551 AAT AAT AGT AAT AAT AAT AAG CAT GAT AAT ACT AAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
96097599 GAT AAT AGT AAT AAAT AAT AAT AAAT AGT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* *
96097646 AGT AATT AAT -TT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT
96097667 GTAGCTAAAA
Statistics
Matches: 119, Mismatches: 31, Indels: 14
0.73 0.19 0.09
Matches are distributed among these distances:
2 4 0.03
3 104 0.87
4 11 0.09
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:96097679 original size:41 final size:41
Alignment explanation
Indices: 96097506--96097651 Score: 74
Period size: 38 Copynumber: 3.5 Consensus size: 41
96097496 AAAATAAAAC
** * *
96097506 AAATAATAAT-AATAAAAATAATAA-AAT-A-AAGAATAAT
1 AAATAATAATAAATAGTAATAATAATAATGATAATAGTAAT
* *
96097543 AACATATTAAT-AATAGTAATAATAATAAGCATGATAATACTAAT
1 AA-ATAATAATAAATAGTAATAATAAT-A--ATGATAATAGTAAT
*
96097587 AATAAGAATAATGATAATAGTAATAAATAATAAT-A-AATAGTAAT
1 -A-AATAATAAT-A-AATAGTAAT-AATAATAATGATAATAGTAAT
96097631 -AATAATAATAGTAATAGTAAT
1 AAATAATAATA--AATAGTAAT
96097652 TAATTTAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
37 2 0.02
38 19 0.22
40 2 0.02
41 18 0.21
42 2 0.02
43 1 0.01
44 15 0.17
45 8 0.09
46 3 0.03
48 10 0.12
49 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (41 bp):
AAATAATAATAAATAGTAATAATAATAATGATAATAGTAAT
Found at i:96099316 original size:44 final size:44
Alignment explanation
Indices: 96099265--96099704 Score: 199
Period size: 44 Copynumber: 9.8 Consensus size: 44
96099255 TCGTCGTTTT
96099265 AATCTGCTCCACTGCAACTTCAGGAAGATAAGACTT-GTGATTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TTAGTGATTTC
* * * * *
96099309 AACCTGCTCCACTACAACTTTAAGG-AGATAATATT--TG-TTTT
1 AATCTGCTCCACTGCAAC-TTCAGGAAGATAAGATTAGTGATTTC
* * * * *
96099350 GATCTGCTCTACTGCAATTTCA-GAGAGATAAGATCTGTAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGA-AGATAAGA--T-T-AGTGAT---TTC
** * * * *
96099401 AA-CATATTCCACTACGACTTCAGGGAA-ATAAGATTCGTTATCTTC
1 AATC-TGCTCCACTGCAACTTCA-GGAAGATAAGATTAGTGAT-TTC
* * * *
96099446 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAATTTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TTAGTGATTTC
* * * *
96099490 AACCTGCTCCATTGCAACTTCAGGAAGATAAGGTTTGTG--TT-
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTAGTGATTTC
* * *
96099531 AATCTGCTCTACTGCAACTTCA-GAGAGATAAGATCTGTAATTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGA-AGATAAGA--T-TAGTGAT---TTC
** * * *
96099581 AATAAGTTCCACTGCAACTTTAGGGAA-ATAAGATTCGCT-ATCTTC
1 AATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTAG-TGAT-TTC
* * * * * * *
96099626 AGTTTGCTCCACTGCAACTTTAGGGAGATAATATTCGTAATTTC
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTAGTGATTTC
*
96099670 AACCTGCTCCACTGCAACTTCAGGAAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATT
96099705 TGTTTTGATC
Statistics
Matches: 298, Mismatches: 63, Indels: 70
0.69 0.15 0.16
Matches are distributed among these distances:
39 1 0.00
40 5 0.02
41 49 0.16
42 4 0.01
43 6 0.02
44 97 0.33
45 67 0.22
46 3 0.01
47 8 0.03
48 4 0.01
49 3 0.01
50 24 0.08
51 22 0.07
52 3 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTAGTGATTTC
Found at i:96099379 original size:85 final size:85
Alignment explanation
Indices: 96099260--96099715 Score: 287
Period size: 85 Copynumber: 5.1 Consensus size: 85
96099250 AGGACTCGTC
*
96099260 GTTTTAATCTGCTCCACTGCAACTTCAG-GAAGATAAGACTTGTGATTTCAACCTGCTCCACTAC
1 GTTTTAATCTGCTCCACTGCAACTTCAGAG-AGATAAGACTTGTAATTTCAACCTGCTCCACTAC
*
96099324 AACTTTAAGGAGATAATATTT
65 AACTTTAAGGAGATAAGATTT
* * * * **
96099345 GTTTTGATCTGCTCTACTGCAATTTCAGAGAGATAAGA-TCTGTAATTTATAGCTTCAACATATT
1 GTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---AT---TTCAACCTGCT
* * * * *
96099409 CCACTACGACTTCAGGGAAATAAGATTC
58 CCACTACAACTTTAAGGAGATAAGATTT
* * * *
96099437 GTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTTAACCTGCTCCAT
1 G-T-T-TT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAACCTGCTCCAC
* * *
96099502 TGCAAC-TTCAGGAAGATAAGGTTT
62 TACAACTTTAAGG-AGATAAGATTT
* * * *
96099526 GTGTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTAT-AGCTTCAATAAGTT
1 GTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGTAATT-TCAAC--C--T--GCT
* * * *
96099589 CCACTGCAACTTTAGGGAAATAAGATTC
58 CCACTACAACTTTAAGGAGATAAGATTT
* * * * *
96099617 GCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAATA-TTCGTAATTTCAACCTGCTCCA
1 G-T-T-TT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGACTT-GTAATTTCAACCTGCTCCA
* *
96099681 CTGCAAC-TTCAGGAAGATAAGATTT
61 CTACAACTTTAAGG-AGATAAGATTT
*
96099706 GTTTTGATCT
1 GTTTTAATCT
96099716 TGCTATATTG
Statistics
Matches: 281, Mismatches: 59, Indels: 62
0.70 0.15 0.15
Matches are distributed among these distances:
84 2 0.01
85 77 0.27
86 6 0.02
87 2 0.01
88 9 0.03
89 48 0.17
91 21 0.07
92 38 0.14
93 2 0.01
94 5 0.02
95 39 0.14
96 31 0.11
97 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (85 bp):
GTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAACCTGCTCCACTACA
ACTTTAAGGAGATAAGATTT
Found at i:96099461 original size:181 final size:180
Alignment explanation
Indices: 96099267--96099715 Score: 670
Period size: 180 Copynumber: 2.5 Consensus size: 180
96099257 GTCGTTTTAA
* * * *
96099267 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTGATTTCAACCTGCTCCACTACAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAAC-TTCA
* *
96099332 GG-AGATAATATTTGTTTTGATCTGCTCTACTGCAATTTCAGAGAGATAAGATCTGTAATTTATA
65 GGAAGATAAGATTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAA-TTATA
* *
96099396 GCTTCAACATA-TTCCACTACGACTTCAGGGAAATAAGATTCGTTATCTTCAG
129 GCTTCAACA-AGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* *
96099448 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTTAACCTGCTCCATTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAG
* * *
96099513 GAAGATAAGGTTTGTGTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGC
66 GAAGATAAGATTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGC
* * *
96099578 TTCAATAAGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAG
131 TTCAACAAGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * *
96099628 TTTGCTCCACTGCAACTTTAGGGAGATAATA-TTCGTAATTTCAACCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAATTTCAACCTGCTCCACTGCAACTTCA
96099692 GGAAGATAAGATTTGTTTTGATCT
65 GGAAGATAAGATTTGTTTTGATCT
96099716 TGCTATATTG
Statistics
Matches: 241, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
179 3 0.01
180 132 0.55
181 106 0.44
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (180 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAG
GAAGATAAGATTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGC
TTCAACAAGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
Found at i:96099466 original size:45 final size:45
Alignment explanation
Indices: 96099408--96099704 Score: 209
Period size: 45 Copynumber: 6.6 Consensus size: 45
96099398 TTCAACATAT
* * *
96099408 TCCACTACGACTTCAGGGAAATAAGATTCGTTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAATCTGC
* * * *
96099453 TCCACTGCAACTTCAGGGAGATAAGACTT-GTAAT-TTTAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGA-TTCGTTATCTTCAATCTGC
* * * *
96099497 TCCATTGCAACTTCA-GGAAGATAAG-GT--TTGTGTT-AATCTGC
1 TCCACTGCAACTTCAGGGAA-ATAAGATTCGTTATCTTCAATCTGC
* * * ** *
96099538 TCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTATAGCTTCAATAAGT
1 TCCACTGCAACTTCAGGGAAATAAGATTC-G---TTAT--CTTCAATCTGC
* * * *
96099588 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAATCTGC
* * * * *
96099633 TCCACTGCAACTTTAGGGAGATAATATTCGTAAT-TTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAATCTGC
96099677 TCCACTGCAACTTCA-GGAAGATAAGATT
1 TCCACTGCAACTTCAGGGAA-ATAAGATT
96099705 TGTTTTGATC
Statistics
Matches: 195, Mismatches: 41, Indels: 33
0.72 0.15 0.12
Matches are distributed among these distances:
41 27 0.14
42 5 0.03
43 6 0.03
44 54 0.28
45 64 0.33
46 2 0.01
47 6 0.03
49 2 0.01
50 27 0.14
51 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAATCTGC
Found at i:96100564 original size:14 final size:15
Alignment explanation
Indices: 96100545--96100573 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96100535 CTCATTTTTC
96100545 TTTTTCTTTT-TCTT
1 TTTTTCTTTTCTCTT
96100559 TTTTTCTTTTCTCTT
1 TTTTTCTTTTCTCTT
96100574 CCCATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTCTCTT
Found at i:96101910 original size:13 final size:14
Alignment explanation
Indices: 96101889--96101917 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
96101879 TGAAAAATGG
96101889 ATTAGAAAATATTT
1 ATTAGAAAATATTT
96101903 ATTA-AAAATATTT
1 ATTAGAAAATATTT
96101916 AT
1 AT
96101918 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:96102316 original size:25 final size:26
Alignment explanation
Indices: 96102265--96102317 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
96102255 AATATAATTG
**
96102265 TATATTTACTTAATTTTAGAATAAAA
1 TATATTTACTTAATTAAAGAATAAAA
* *
96102291 TATATTTA-TTAATTAAATAATTAAA
1 TATATTTACTTAATTAAAGAATAAAA
96102316 TA
1 TA
96102318 ATGAGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TATATTTACTTAATTAAAGAATAAAA
Found at i:96102480 original size:31 final size:32
Alignment explanation
Indices: 96102431--96102492 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
96102421 ATATTAAATA
*
96102431 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
96102462 AGATTTTTATGTAA-TAAATATATTAAATTAT
1 AGATATTTAT-TAATTAAATATATTAAATTAT
96102493 AACAAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:96103445 original size:15 final size:15
Alignment explanation
Indices: 96103422--96103469 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
96103412 TATCAAATTT
96103422 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
96103437 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
96103452 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
96103466 ATAT
1 ATAT
96103470 AATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:96104125 original size:18 final size:19
Alignment explanation
Indices: 96104104--96104144 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
96104094 AATGAAATGA
96104104 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
96104122 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
96104141 GAAA
1 GAAA
96104145 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:96107677 original size:19 final size:19
Alignment explanation
Indices: 96107655--96107700 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
96107645 TATAAAATTT
*
96107655 AATGCATATG-ATGAAATG
1 AATGCAAATGCATGAAATG
96107673 CAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
96107693 AATGCAAA
1 AATGCAAA
96107701 AAAGAGACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:96109671 original size:23 final size:23
Alignment explanation
Indices: 96109606--96109672 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
96109596 ATAGTAAAAT
96109606 AAATAAATAAATAAATAATAAAACA
1 AAATAAA-AAAT-AATAATAAAACA
*
96109631 AAAT-AAAAATATTAAATAAAACA
1 AAATAAAAAATAAT-AATAAAACA
*
96109654 AAATAAAAAATGATAATAA
1 AAATAAAAAATAATAATAA
96109673 TAATAATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 2 0.05
23 22 0.59
24 9 0.24
25 4 0.11
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (23 bp):
AAATAAAAAATAATAATAAAACA
Found at i:96109674 original size:3 final size:3
Alignment explanation
Indices: 96109666--96109731 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
96109656 ATAAAAAATG
* * * * * *
96109666 ATA ATA ATA ATA ATA ACA ATA ATA ACA ATA ATA ATA ACA ACA AGA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96109714 ATA ATTA A-A ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA
96109732 TAACTTTTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:96109948 original size:3 final size:3
Alignment explanation
Indices: 96109895--96109933 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
96109885 AAATAAAACA
* *
96109895 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
96109934 TTATTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:96112003 original size:267 final size:267
Alignment explanation
Indices: 96111528--96112067 Score: 1080
Period size: 267 Copynumber: 2.0 Consensus size: 267
96111518 TTGGCAATTA
96111528 TGGATTAGAAGAAACAATGTTATCTTTAATGCAGATTTCATTGAAGGGTTTAATATCTTGGAGAA
1 TGGATTAGAAGAAACAATGTTATCTTTAATGCAGATTTCATTGAAGGGTTTAATATCTTGGAGAA
96111593 GAGTAGTAGAATGCGGGATGAGTTTTTTTAGCTCAACCGAGAAACAATGAGTTTGTTCAAGCAAA
66 GAGTAGTAGAATGCGGGATGAGTTTTTTTAGCTCAACCGAGAAACAATGAGTTTGTTCAAGCAAA
96111658 GGGAAAACAAAACTTGCAGTTTCGTAGGGTGGCATCCACATGAAGAAGGATGGTATAAGGTAAAC
131 GGGAAAACAAAACTTGCAGTTTCGTAGGGTGGCATCCACATGAAGAAGGATGGTATAAGGTAAAC
96111723 ACTGATGGTGCTATGTGTAAAGTGTCTCGTAATGCTTCAACAGGTGAAGTTATCCGGGATAACCA
196 ACTGATGGTGCTATGTGTAAAGTGTCTCGTAATGCTTCAACAGGTGAAGTTATCCGGGATAACCA
96111788 TGGTACG
261 TGGTACG
96111795 TGGATTAGAAGAAACAATGTTATCTTTAATGCAGATTTCATTGAAGGGTTTAATATCTTGGAGAA
1 TGGATTAGAAGAAACAATGTTATCTTTAATGCAGATTTCATTGAAGGGTTTAATATCTTGGAGAA
96111860 GAGTAGTAGAATGCGGGATGAGTTTTTTTAGCTCAACCGAGAAACAATGAGTTTGTTCAAGCAAA
66 GAGTAGTAGAATGCGGGATGAGTTTTTTTAGCTCAACCGAGAAACAATGAGTTTGTTCAAGCAAA
96111925 GGGAAAACAAAACTTGCAGTTTCGTAGGGTGGCATCCACATGAAGAAGGATGGTATAAGGTAAAC
131 GGGAAAACAAAACTTGCAGTTTCGTAGGGTGGCATCCACATGAAGAAGGATGGTATAAGGTAAAC
96111990 ACTGATGGTGCTATGTGTAAAGTGTCTCGTAATGCTTCAACAGGTGAAGTTATCCGGGATAACCA
196 ACTGATGGTGCTATGTGTAAAGTGTCTCGTAATGCTTCAACAGGTGAAGTTATCCGGGATAACCA
96112055 TGGTACG
261 TGGTACG
96112062 TGGATT
1 TGGATT
96112068 TCTGGCTTCT
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 273 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (267 bp):
TGGATTAGAAGAAACAATGTTATCTTTAATGCAGATTTCATTGAAGGGTTTAATATCTTGGAGAA
GAGTAGTAGAATGCGGGATGAGTTTTTTTAGCTCAACCGAGAAACAATGAGTTTGTTCAAGCAAA
GGGAAAACAAAACTTGCAGTTTCGTAGGGTGGCATCCACATGAAGAAGGATGGTATAAGGTAAAC
ACTGATGGTGCTATGTGTAAAGTGTCTCGTAATGCTTCAACAGGTGAAGTTATCCGGGATAACCA
TGGTACG
Found at i:96113784 original size:18 final size:19
Alignment explanation
Indices: 96113752--96113790 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
96113742 TAGCAATTCC
*
96113752 ATGCATGAAATTTCAACAA
1 ATGCATGAAAGTTCAACAA
*
96113771 ATGC-TGAAAGTTCAGCAA
1 ATGCATGAAAGTTCAACAA
96113789 AT
1 AT
96113791 CAAAGTCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
ATGCATGAAAGTTCAACAA
Found at i:96115303 original size:16 final size:16
Alignment explanation
Indices: 96115274--96115306 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96115264 ATTTGGATAT
96115274 TAATATTAATATATTA
1 TAATATTAATATATTA
96115290 TAAT-TTAATAATATTA
1 TAATATTAAT-ATATTA
96115306 T
1 T
96115307 TATTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATTAATATATTA
Found at i:96117798 original size:2 final size:2
Alignment explanation
Indices: 96117791--96117818 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96117781 ATGTTTCTTG
96117791 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
96117819 CTTCACTCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:96123293 original size:16 final size:16
Alignment explanation
Indices: 96123272--96123325 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 16
96123262 GGCACGTGAT
96123272 ATTTTTTAATAATATA
1 ATTTTTTAATAATATA
*
96123288 ATTTTTTAAAATAAAATA
1 ATTTTTT--AATAATATA
* *
96123306 ATTATTTAATATTAT-
1 ATTTTTTAATAATATA
96123321 ATTTT
1 ATTTT
96123326 CTCTCTCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
18 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTTAATAATATA
Found at i:96130656 original size:18 final size:18
Alignment explanation
Indices: 96130633--96130696 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
96130623 CATTCGTGAT
96130633 CTGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
** * *
96130651 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT--TTAG
*
96130672 CGGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
96130690 CTGAAGC
1 CTGAAGC
96130697 ACATAAGTGC
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 15 0.45
19 5 0.15
20 5 0.15
21 8 0.24
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (18 bp):
CTGAAGCCCGAAGTTTAG
Found at i:96130678 original size:39 final size:39
Alignment explanation
Indices: 96130635--96130762 Score: 204
Period size: 39 Copynumber: 3.3 Consensus size: 39
96130625 TTCGTGATCT
96130635 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
96130674 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
* ** *
96130713 GAAGGCCGAAGGCT-GACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGTTTAG-CTGAAGCACATAAGTGCTAAACG
96130752 GAAGCCCGAAG
1 GAAGCCCGAAG
96130763 GCTAACTGAA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 82 0.99
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
Found at i:96134188 original size:19 final size:20
Alignment explanation
Indices: 96134160--96134198 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
96134150 TACGAACAAT
96134160 CACATAATAATTT-ATCATA
1 CACATAATAATTTAATCATA
*
96134179 CACATCATAATTTAATCATA
1 CACATAATAATTTAATCATA
96134199 ATGTCCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
CACATAATAATTTAATCATA
Found at i:96135231 original size:16 final size:15
Alignment explanation
Indices: 96135193--96135231 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
96135183 CAAACAAATA
96135193 ATCAATTTCATAACAC
1 ATCAA-TTCATAACAC
96135209 ATC-ATTCATAACAC
1 ATCAATTCATAACAC
96135223 TATCAATTC
1 -ATCAATTC
96135232 TTATCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (15 bp):
ATCAATTCATAACAC
Found at i:96136560 original size:5 final size:5
Alignment explanation
Indices: 96136552--96136589 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
96136542 ATTTTATTAT
*
96136552 TAAAC TAAAC TAAAC TAAAC TAAAC CAAAC TAAAC TAA
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAA
96136590 TACAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
TAAAC
Found at i:96136596 original size:5 final size:5
Alignment explanation
Indices: 96136587--96136653 Score: 125
Period size: 5 Copynumber: 13.4 Consensus size: 5
96136577 CAAACTAAAC
*
96136587 TAATA CAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
96136637 TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TA
96136654 TTTATATTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:96140314 original size:15 final size:15
Alignment explanation
Indices: 96140287--96140324 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
96140277 GTACTAATGG
*
96140287 CTTTCTCTTTCT-TT
1 CTTTTTCTTTCTCTT
96140301 -TTTTTCTTTCTCTT
1 CTTTTTCTTTCTCTT
96140315 CTTTTTCTTT
1 CTTTTTCTTT
96140325 AGCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTTCTTTCTCTT
Found at i:96141725 original size:18 final size:18
Alignment explanation
Indices: 96141698--96141790 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
96141688 TACGACCGTT
96141698 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
96141716 TACGGCACTATTCATGTA
1 TACGGTACTATTCACGTA
* *
96141734 TATGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
* * *
96141752 TACAGCACTATTCAAGTA
1 TACGGTACTATTCACGTA
*
96141770 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
96141788 TAC
1 TAC
96141791 AGTAGTTGGG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:96141751 original size:36 final size:36
Alignment explanation
Indices: 96141698--96141792 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
96141688 TACGACCGTT
* *
96141698 TACGGTACTATTCACGTATACGGCACTATTCATGTA
1 TACGGTACTATTCACGTATACAGCACTATTCAAGTA
* *
96141734 TATGGTACTATTTACGTATACAGCACTATTCAAGTA
1 TACGGTACTATTCACGTATACAGCACTATTCAAGTA
*
96141770 TACGGTACTGTTCACGTATACAG
1 TACGGTACTATTCACGTATACAG
96141793 TAGTTGGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACAGCACTATTCAAGTA
Found at i:96147418 original size:16 final size:16
Alignment explanation
Indices: 96147399--96147439 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
96147389 TAATTTTTTA
96147399 AAAATTATAAAGAT-AT
1 AAAATTATAAA-ATGAT
96147415 AAAA-TATTAAAATGAT
1 AAAATTA-TAAAATGAT
96147431 AAAATTATA
1 AAAATTATA
96147440 TTTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.18
16 16 0.73
17 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAATGAT
Found at i:96154959 original size:18 final size:18
Alignment explanation
Indices: 96154936--96154973 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
96154926 TAATTTATTA
**
96154936 TTTTTATCTTAAAAATAT
1 TTTTTATCAAAAAAATAT
96154954 TTTTTATCAAAAAAATAT
1 TTTTTATCAAAAAAATAT
96154972 TT
1 TT
96154974 CTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTTATCAAAAAAATAT
Found at i:96179709 original size:17 final size:17
Alignment explanation
Indices: 96179687--96179728 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96179677 AGTATATTGA
*
96179687 ATATTAACTT-TTATATT
1 ATATTAAATTATT-TATT
96179704 ATATTAAATTATTTATT
1 ATATTAAATTATTTATT
*
96179721 ATAATAAA
1 ATATTAAA
96179729 CAAGATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTAAATTATTTATT
Found at i:96183346 original size:5 final size:5
Alignment explanation
Indices: 96183309--96183344 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
96183299 TGGTAGCACA
* *
96183309 CAACA CAACC CAACC CAACC CAACC CAACC CTACC C
1 CAACC CAACC CAACC CAACC CAACC CAACC CAACC C
96183345 TAGCTCTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.58, G:0.00, T:0.03
Consensus pattern (5 bp):
CAACC
Found at i:96186379 original size:41 final size:41
Alignment explanation
Indices: 96186319--96186401 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
96186309 TTGTTAAACA
96186319 TGGTTGTATGACAACCCACGTGTATTTCATGCTATTCTTTT
1 TGGTTGTATGACAACCCACGTGTATTTCATGCTATTCTTTT
* * *
96186360 TGGTTGTATGATAATCCACGTGTATTTTATGCTATTCTTTT
1 TGGTTGTATGACAACCCACGTGTATTTCATGCTATTCTTTT
96186401 T
1 T
96186402 AACTATATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (41 bp):
TGGTTGTATGACAACCCACGTGTATTTCATGCTATTCTTTT
Found at i:96195076 original size:23 final size:23
Alignment explanation
Indices: 96195033--96195078 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96195023 AAATTTATAT
*
96195033 TTATATATTATATATATAAATAA
1 TTATATATTATATATAAAAATAA
*
96195056 TTATAT-TTATCTAATAAAAATAA
1 TTATATATTATAT-ATAAAAATAA
96195079 ATTGATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TTATATATTATATATAAAAATAA
Found at i:96196904 original size:3 final size:3
Alignment explanation
Indices: 96196896--96196928 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
96196886 ATTTTTTAAT
*
96196896 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96196929 AGATAGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:96205635 original size:15 final size:15
Alignment explanation
Indices: 96205617--96205647 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
96205607 TAATTGGAGA
96205617 CTGTCCTTTTGGATG
1 CTGTCCTTTTGGATG
96205632 CTGTCCTTTTGGATG
1 CTGTCCTTTTGGATG
96205647 C
1 C
96205648 CTTGATCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.26, T:0.45
Consensus pattern (15 bp):
CTGTCCTTTTGGATG
Found at i:96213511 original size:18 final size:18
Alignment explanation
Indices: 96213469--96213516 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
96213459 TTTTTTTTAA
* * *
96213469 TAACAGTCAATTATTCGG
1 TAACAATCAATTATCCAG
96213487 TAACAATCAATTATCCAG
1 TAACAATCAATTATCCAG
*
96213505 TATCAATCAATT
1 TAACAATCAATT
96213517 GATCGGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (18 bp):
TAACAATCAATTATCCAG
Found at i:96213770 original size:59 final size:56
Alignment explanation
Indices: 96213700--96213827 Score: 154
Period size: 53 Copynumber: 2.3 Consensus size: 56
96213690 GGCCGAAGCC
* *
96213700 GGAACAGTAACAGTAATAGTAGCAGTGCGGTACACAGAGTACCTCATCGGAACAAATCT
1 GGAACAGTAACAGTAATA--A-CAGTACGATACACAGAGTACCTCATCGGAACAAATCT
* **
96213759 GGAACAATAACAG---TAACAGTACGATACACAGAGTACCTCATCGGAATGAATCT
1 GGAACAGTAACAGTAATAACAGTACGATACACAGAGTACCTCATCGGAACAAATCT
*
96213812 GAAACAGTAACAGTAA
1 GGAACAGTAACAGTAA
96213828 CGGTAACAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
53 44 0.75
54 1 0.02
56 2 0.03
59 12 0.20
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (56 bp):
GGAACAGTAACAGTAATAACAGTACGATACACAGAGTACCTCATCGGAACAAATCT
Found at i:96213884 original size:12 final size:12
Alignment explanation
Indices: 96213867--96213891 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96213857 AGTGCCGAAT
96213867 CGGTAACAGTAA
1 CGGTAACAGTAA
96213879 CGGTAACAGTAA
1 CGGTAACAGTAA
96213891 C
1 C
96213892 AATAGTTAGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:96215034 original size:8 final size:8
Alignment explanation
Indices: 96215021--96215066 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
96215011 TATCTTTATT
96215021 ATATAATA
1 ATATAATA
96215029 ATATAATA
1 ATATAATA
* *
96215037 ATACATTAA
1 ATATAAT-A
*
96215046 ACATAATA
1 ATATAATA
96215054 ATATAATA
1 ATATAATA
96215062 ATATA
1 ATATA
96215067 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
8 26 0.84
9 5 0.16
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (8 bp):
ATATAATA
Found at i:96215051 original size:25 final size:25
Alignment explanation
Indices: 96215023--96215071 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
96215013 TCTTTATTAT
96215023 ATAATAATATAATAATACATTAAAC
1 ATAATAATATAATAATACATTAAAC
*
96215048 ATAATAATATAATAATATATTAAA
1 ATAATAATATAATAATACATTAAA
96215072 AATTTTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATAATATAATAATACATTAAAC
Found at i:96216395 original size:31 final size:29
Alignment explanation
Indices: 96216332--96216397 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
96216322 AGTTTATATC
*
96216332 TTTA-TATTTTTAAAAGATTAAATTAATT
1 TTTATTATTTTTAAAAGATAAAATTAATT
96216360 TTTATTATTTTTAAGAAGATCAAAATGT-ATT
1 TTTATTATTTTTAA-AAGAT-AAAAT-TAATT
96216391 TTTATTA
1 TTTATTA
96216398 ATTCAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 9 0.27
30 5 0.15
31 14 0.42
32 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (29 bp):
TTTATTATTTTTAAAAGATAAAATTAATT
Found at i:96217266 original size:19 final size:20
Alignment explanation
Indices: 96217237--96217279 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
96217227 TTGAAATACT
*
96217237 ATTTAAAAATAATTTTTTA-A
1 ATTTAAAAAT-ATTGTTTATA
96217257 ATTT-AAAATATTGTTTATA
1 ATTTAAAAATATTGTTTATA
96217276 ATTT
1 ATTT
96217280 TTCCTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTAAAAATATTGTTTATA
Found at i:96217507 original size:34 final size:35
Alignment explanation
Indices: 96217442--96217509 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
96217432 TAACTATTTT
* *
96217442 ATTCTGAATTATGAATCTCAAATTTAGAATTTAGA
1 ATTCCGAATTATGAATCTCAAATCTAGAATTTAGA
*
96217477 ATTCCGAATT-TGAATCTTAAATCCTA-AATTTAG
1 ATTCCGAATTATGAATCTCAAAT-CTAGAATTTAG
96217510 GGTTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (35 bp):
ATTCCGAATTATGAATCTCAAATCTAGAATTTAGA
Found at i:96230627 original size:21 final size:21
Alignment explanation
Indices: 96230578--96230636 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
96230568 ATAATAAATC
*
96230578 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
96230598 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
96230620 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
96230637 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:96230734 original size:21 final size:21
Alignment explanation
Indices: 96230668--96230734 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
96230658 TAACAATATA
96230668 ATAAAAAATAGTTATATTAAAAT
1 ATAAAAAATA--TATATTAAAAT
** * *
96230691 -TTTAAAATA-ATTTTAAAAA
1 ATAAAAAATATATATTAAAAT
*
96230710 ATAAAAAATATATATTAATAT
1 ATAAAAAATATATATTAAAAT
96230731 ATAA
1 ATAA
96230735 TTCGGGCCGG
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 11 0.33
22 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
ATAAAAAATATATATTAAAAT
Found at i:96238911 original size:3 final size:3
Alignment explanation
Indices: 96238903--96238943 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
96238893 TCATCTCCCT
*
96238903 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
96238944 GTTTTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:96249351 original size:9 final size:9
Alignment explanation
Indices: 96249334--96249367 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
96249324 AACGGTTTGG
96249334 GCTGCTGTT
1 GCTGCTGTT
*
96249343 GCTGTTGTT
1 GCTGCTGTT
*
96249352 GCTGCTGCT
1 GCTGCTGTT
96249361 GCTGCTG
1 GCTGCTG
96249368 GTGACGCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.24, G:0.35, T:0.41
Consensus pattern (9 bp):
GCTGCTGTT
Found at i:96255087 original size:18 final size:20
Alignment explanation
Indices: 96255066--96255102 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96255056 TTTTTACATA
96255066 TTTATAA-TT-AAAAAATAT
1 TTTATAATTTCAAAAAATAT
96255084 TTTATAATTTCAAAAAATA
1 TTTATAATTTCAAAAAATA
96255103 AATAACGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTATAATTTCAAAAAATAT
Found at i:96255302 original size:16 final size:16
Alignment explanation
Indices: 96255281--96255335 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
96255271 GTTTGATTCA
96255281 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGA-G
*
96255297 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
96255313 CTGTAATGTAATAGAG
1 CTGTAATGGAATAGAG
96255329 CTGTAAT
1 CTGTAAT
96255336 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 34 0.97
17 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:96255379 original size:46 final size:44
Alignment explanation
Indices: 96255317--96255410 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
96255307 ATAGAGCTGT
* *
96255317 AATGTAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGG
***
96255363 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
96255407 AATG
1 AATG
96255411 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 3 0.07
46 17 0.40
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
Found at i:96256088 original size:40 final size:40
Alignment explanation
Indices: 96256033--96256110 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
96256023 AGTATATCTG
* *
96256033 TTAATACATACTTTATCCGGCTAAATTGTACAGTTTTCTA
1 TTAATACATACTTTATCCGGCTAAATTATACAATTTTCTA
*
96256073 TTAATACATACTTTATCTGGCTAAATTATACAATTTTC
1 TTAATACATACTTTATCCGGCTAAATTATACAATTTTC
96256111 ACTCAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.44
Consensus pattern (40 bp):
TTAATACATACTTTATCCGGCTAAATTATACAATTTTCTA
Found at i:96260343 original size:18 final size:18
Alignment explanation
Indices: 96260320--96260357 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
96260310 AGGCTGTCAC
*
96260320 TTTTTC-TGATGATTCAAG
1 TTTTTCGTGATCATT-AAG
96260338 TTTTTCGTGATCATTAAG
1 TTTTTCGTGATCATTAAG
96260356 TT
1 TT
96260358 ACTGTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (18 bp):
TTTTTCGTGATCATTAAG
Found at i:96261053 original size:6 final size:6
Alignment explanation
Indices: 96261042--96261070 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
96261032 TACCAAATCA
96261042 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAG
96261071 AGAACACCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:96280211 original size:12 final size:11
Alignment explanation
Indices: 96280190--96280218 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
96280180 ATTGAACCTC
96280190 TTTTTCTTTTT
1 TTTTTCTTTTT
96280201 TTTTTCTTTTT
1 TTTTTCTTTTT
96280212 TTTTTCT
1 TTTTTCT
96280219 GTTTGAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:96290637 original size:17 final size:18
Alignment explanation
Indices: 96290603--96290639 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
96290593 ATTATGTATG
96290603 AAAAATAGAATATTTTTA
1 AAAAATAGAATATTTTTA
96290621 AAAAATA-AAT-TTATTTA
1 AAAAATAGAATATT-TTTA
96290638 AA
1 AA
96290640 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 9 0.50
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAATAGAATATTTTTA
Found at i:96296874 original size:4 final size:4
Alignment explanation
Indices: 96296865--96296900 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
96296855 AGAAACAATA
96296865 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
96296901 GAGGAAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:96302083 original size:2 final size:2
Alignment explanation
Indices: 96302078--96302111 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
96302068 AAAATAAAAT
*
96302078 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
96302112 CTGCTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:96303644 original size:175 final size:174
Alignment explanation
Indices: 96303032--96303744 Score: 1047
Period size: 174 Copynumber: 4.1 Consensus size: 174
96303022 TACTGTCGTG
* * * * *
96303032 TTTTAAATTAATGCAC-GAAACGTTTCAAGAAA-GAAATAAATTAATTTTAAATTTTGAACATAC
1 TTTTAAACTAAAGCACAG-AACGTTTCAA-AAACAAAATGAGTTAATTTTAAATTTTGAACAT-C
* * * * * * * *
96303095 -TTTTAAGTTTGATATATATATATTGAGCGTTTACTGAAAATTTAAATAAATTTTTCATTTTATT
63 TTTTTAAGTTT-A-ATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATT
* * *
96303159 TATGACTATTTAATGCACATAGATATCGTTTTTATTATATTTTATTGTA
126 TATGACTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGTTGTA
* ** * *
96303208 TTTTAAACTAAAGTATGGAACATTTCAAAAACGAAATGAGTTAATTTTAAATTTTGAACATCTTT
1 TTTTAAACTAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAATTTTGAACATCTTT
* * *
96303273 TTAAGTTTGATGTATATGTTAAACATTCATTGAAAGTTTAAATAAACTCTTCATTTTATTTATGA
66 TTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATTTATGA
* *
96303338 CTATTTAATGAGCACAAATATCGTTTTTATTATATTTT-TTCGTA
131 CTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGTT-GTA
*
96303382 TTTTAAACTAAAGCACATAACGTTTCAAAAACAAAATGAGTTAATTTTAAATTTTGAACATCTTT
1 TTTTAAACTAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAATTTTGAACATCTTT
*
96303447 TTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATTTCTGA
66 TTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATTTATGA
* *
96303512 GTATTTAATGCGCACAGATATCATTTTTATTATATTTTGTTGTA
131 CTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGTTGTA
96303556 TTTTAAACTAAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAATTTTGAACATCTT
1 TTTTAAACT-AAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAATTTTGAACATCTT
96303621 TTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATTTATG
65 TTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATTTATG
* *
96303686 ACTACTTAATGCGCACAGATATCGTTTTTATTATATTTTGTCGTA
130 ACTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGTTGTA
96303731 TTTTAAACTAAAGC
1 TTTTAAACTAAAGC
96303745 TTAATTTTAA
Statistics
Matches: 489, Mismatches: 42, Indels: 14
0.90 0.08 0.03
Matches are distributed among these distances:
173 2 0.00
174 254 0.52
175 174 0.36
176 58 0.12
177 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (174 bp):
TTTTAAACTAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAATTTTGAACATCTTT
TTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATTTATGA
CTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGTTGTA
Found at i:96303793 original size:147 final size:148
Alignment explanation
Indices: 96303597--96303891 Score: 538
Period size: 147 Copynumber: 2.0 Consensus size: 148
96303587 ACAAAATGAG
*
96303597 TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTA
1 TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTAAAAGTTTA
96303662 AATAAACTCTTCATTTTATTTATGACTACTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
66 AATAAACTCTTCATTTTATTTATGACTACTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
*
96303727 CGTATTTTAAACTAAAGC
131 AGTATTTTAAACTAAAGC
* *
96303745 TTAATTTTAAATTTTGAACATC-TTTTAAGTTTGATGTATATGTTAAACGTTTACTAAAAGTTTA
1 TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTAAAAGTTTA
*
96303809 AATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
66 AATAAACTCTTCATTTTATTTATGACTACTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
96303874 AGTATTTTAAACTAAAGC
131 AGTATTTTAAACTAAAGC
96303892 ACGGAACGTT
Statistics
Matches: 142, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
147 120 0.85
148 22 0.15
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (148 bp):
TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTAAAAGTTTA
AATAAACTCTTCATTTTATTTATGACTACTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
AGTATTTTAAACTAAAGC
Found at i:96303965 original size:174 final size:173
Alignment explanation
Indices: 96303745--96304063 Score: 487
Period size: 174 Copynumber: 1.8 Consensus size: 173
96303735 AAACTAAAGC
* * *
96303745 TTAATTTTAAATTTTGAACATCTTTTAAGTTTGATGTATATGTTAAACGTTTACTA-AAAGTTTA
1 TTAATTTTAAAATTTAAACATCTTTTAAGTTTGATGTATATGTTAAACGTTCACTAGAAA-TTTA
* * * *
96303809 AATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
65 AATAAACTCTTCATTTTATTTATGACTATTTAATGAGCAAAGATATCATTTTTATTATATTCTGT
96303874 AGTATTTTAAACTAAAGCACGGAACGTTTCAAAAACGAAATGAG
130 AGTATTTTAAACTAAAGCACGGAACGTTTCAAAAACGAAATGAG
* * *
96303918 TTAATTTTAAAATTTAAATATCTTTTTAGGTTTGATGTATTTGTTAAACGTTCACTAGAAATTTA
1 TTAATTTTAAAATTTAAACATC-TTTTAAGTTTGATGTATATGTTAAACGTTCACTAGAAATTTA
* * *
96303983 AATAAATTCTTTATTTTATTTATGACTATTTGATGAGCAAAGATATCATTTTTATTATATTCTGT
65 AATAAACTCTTCATTTTATTTATGACTATTTAATGAGCAAAGATATCATTTTTATTATATTCTGT
*
96304048 CGTATTTTAAACTAAA
130 AGTATTTTAAACTAAA
96304064 TTTAAACTAA
Statistics
Matches: 130, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
173 19 0.15
174 108 0.83
175 3 0.02
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (173 bp):
TTAATTTTAAAATTTAAACATCTTTTAAGTTTGATGTATATGTTAAACGTTCACTAGAAATTTAA
ATAAACTCTTCATTTTATTTATGACTATTTAATGAGCAAAGATATCATTTTTATTATATTCTGTA
GTATTTTAAACTAAAGCACGGAACGTTTCAAAAACGAAATGAG
Found at i:96304043 original size:321 final size:323
Alignment explanation
Indices: 96303072--96304063 Score: 1206
Period size: 349 Copynumber: 3.0 Consensus size: 323
96303062 AAGAAATAAA
* * * * *
96303072 TTAATTTTAAATTTTGAACATAC-TTTTAAGTTTGATATATATATATTGAGCGTTTACTGAAAA-
1 TTAATTTTAAATTTTGAACAT-CTTTTTAAGTTT-A-ATGTATATGTTAAACGTTCACT-AAAAG
* * * * *
96303135 TTTAAATAAATTTTTCATTTTATTTATGACTATTTAATGCACATAGATATCGTTTTTATTATATT
62 TTTAAATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCATTTTTATTATATT
* * * ** * * * *
96303200 TTATTGTATTTTAAACT-AAAGTATGGAACATTTCAAAAACGAAATGAGTTAATTTTAAATTTTG
127 TTGTAGTATTTTAAACTAAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAAATTTA
* * *
96303264 AACATCTTTTTAAGTTTGATGTATATGTTAAACATTCATTGAAAGTTTAAATAAACTCTTCATTT
192 AACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTT
* * * *
96303329 TATTTATGACTATTTAATGAGCACAA-ATATCGTTTTTATTATATTTTTTCGTATTTTAAACTAA
257 TATTTATGACTACTTAATGAGCA-AAGATATCATTTTTATTATATTCTGTCGTATTTTAAACT--
96303393 AGCACATAACGTTTCAAAAAC
319 -----A-AA-G---------C
*
96303414 AAAATGAGTTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTG
1 --------TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTA
* *
96303479 AAAGTTTAAATAAACTCTTCATTTTATTTCTGAGTATTTAATGCGCACAGATATCATTTTTATTA
58 AAAGTTTAAATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCATTTTTATTA
* *
96303544 TATTTTGTTGTATTTTAAACTAAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAAT
123 TATTTTGTAGTATTTTAAACTAAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAAA
*
96303609 TTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTC
188 TTTAAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTC
* * * *
96303674 ATTTTATTTATGACTACTTAATGCGCACAGATATCGTTTTTATTATATTTTGTCGTATTTTAAAC
253 ATTTTATTTATGACTACTTAATGAGCAAAGATATCATTTTTATTATATTCTGTCGTATTTTAAAC
96303739 TAAAGC
318 TAAAGC
* *
96303745 TTAATTTTAAATTTTGAACATC-TTTTAAGTTTGATGTATATGTTAAACGTTTACTAAAAGTTTA
1 TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTAAAAGTTTA
*
96303809 AATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCGTTTTTATTATATTTTGT
66 AATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCATTTTTATTATATTTTGT
* * *
96303874 AGTATTTTAAACT-AAAGCACGGAACGTTTCAAAAACGAAATGAGTTAATTTTAAAATTTAAATA
131 AGTATTTTAAACTAAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAAATTTAAACA
* * * * *
96303938 TCTTTTTAGGTTTGATGTATTTGTTAAACGTTCACTAGAAA-TTTAAATAAATTCTTTATTTTAT
196 TCTTTTTAAGTTTAATGTATATGTTAAACGTTCACT-GAAAGTTTAAATAAACTCTTCATTTTAT
* *
96304002 TTATGACTATTTGATGAGCAAAGATATCATTTTTATTATATTCTGTCGTATTTTAAACTAAA
260 TTATGACTACTTAATGAGCAAAGATATCATTTTTATTATATTCTGTCGTATTTTAAACTAAA
96304064 TTTAAACTAA
Statistics
Matches: 588, Mismatches: 49, Indels: 39
0.87 0.07 0.06
Matches are distributed among these distances:
321 156 0.27
322 117 0.20
323 22 0.04
331 1 0.00
340 1 0.00
341 2 0.00
342 1 0.00
347 3 0.01
348 92 0.16
349 162 0.28
350 31 0.05
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (323 bp):
TTAATTTTAAATTTTGAACATCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTAAAAGTTTA
AATAAACTCTTCATTTTATTTATGACTATTTAATGCGCACAGATATCATTTTTATTATATTTTGT
AGTATTTTAAACTAAAAGCACAGAACGTTTCAAAAACAAAATGAGTTAATTTTAAAATTTAAACA
TCTTTTTAAGTTTAATGTATATGTTAAACGTTCACTGAAAGTTTAAATAAACTCTTCATTTTATT
TATGACTACTTAATGAGCAAAGATATCATTTTTATTATATTCTGTCGTATTTTAAACTAAAGC
Found at i:96304485 original size:201 final size:202
Alignment explanation
Indices: 96304202--96304703 Score: 601
Period size: 199 Copynumber: 2.5 Consensus size: 202
96304192 CAAATTATTA
* *
96304202 TTTTTATTTATAACTATTAAATACACAT--ATATCATTTTTATTATATTTTATCATGTTTTAAAT
1 TTTTTACTTATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTATCATG-TTTAAAT
* * * *
96304265 GAAAGCATGGAACGTTTCAAAAAATATATGAGTTAATTTGAAATTTTGAAAATCTTTCTATGTTT
65 GAAAGCACGAAACGTTTCAAAAAATATATGAGTTAATTTGAAATTTTGAAAATCTTTCTAAGCTT
* * * *
96304330 TGATGAGCAATGCTTTTGTATATGTTAACATTCACTAGAATTTTAAATAAAATTGGCAACAAACA
130 TGAAGAGCAAGGCTTTTGTATATGTTAACATTCACCAGAAATTTAAATAAAATTGGCAACAAACA
96304395 -ATT-TCC
195 GATTATCC
* * * * *
96304401 TCTTTT-CTTATAAGTATTAAATACATATAGATGTTATTTTTATTGTATTTTTTCATGTCTTAAA
1 T-TTTTACTTATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTATCATGT-TTAAA
* * * *
96304465 TGAAAGCACGAAACGTTTC-AAGAA-AGATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGCT
64 TGAAAGCACGAAACGTTTCAAAAAATATATGAGTTAATTTGAAATTTTGAAAATCTTTCTAAGCT
* * * * *
96304528 TTGAAGAGCAAGGGTTTTGTATATGTTAACGTTCACCGGAAATTTAAATAAAATTGGTAACAATC
129 TTGAAGAGCAAGGCTTTTGTATATGTTAACATTCACCAGAAATTTAAATAAAATTGGCAACAAAC
*
96304593 AGATTATTC
194 AGATTATCC
* * * *
96304602 TTTTTATTTATAACTATTAAATACACAAAGATATCATTTTTATTGTATTTTGTCGTGTTTCAAAT
1 TTTTTACTTATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTATCATGTTT-AAAT
* * *
96304667 GAAA--AC-ATAATGTTTCAAGAAATATACGAGTTAATTT
65 GAAAGCACGA-AACGTTTCAAAAAATATATGAGTTAATTT
96304704 ATATTTTTAA
Statistics
Matches: 254, Mismatches: 38, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
198 1 0.00
199 120 0.47
200 21 0.08
201 112 0.44
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (202 bp):
TTTTTACTTATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTATCATGTTTAAATG
AAAGCACGAAACGTTTCAAAAAATATATGAGTTAATTTGAAATTTTGAAAATCTTTCTAAGCTTT
GAAGAGCAAGGCTTTTGTATATGTTAACATTCACCAGAAATTTAAATAAAATTGGCAACAAACAG
ATTATCC
Found at i:96305602 original size:204 final size:204
Alignment explanation
Indices: 96305231--96305720 Score: 596
Period size: 204 Copynumber: 2.4 Consensus size: 204
96305221 TAAGTTTTTA
* *
96305231 TGTATATGTTAATGTTCACTAAAAAATTAAATAAATTTGACAACAAACAAATTCTTCTTTTTATT
1 TGTATATGTTAATGTTCACTAAAAATTTAAATAAATTTGACAACAAATAAATTCTTCTTTTTATT
*
96305296 TATAACTATTAAATACACATAGATATTATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGAAC
66 TATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGAAC
* * * * * *
96305361 GAAACGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAAC-ATCTTTTTAAG-CTTTGATGA
131 GAAACGTCTCAAGAAAGAAATAAATTAATTATAAATTTTGAACAAT-TTTTTAAGTCTTTGAAGA
96305424 ATAAGACTTT
195 ATAAGACTTT
*
96305434 TGTATATGTTAATGTTCACTAAAAATTTAAATAAATTTTACAACAAATAAATTCTTCTTTTTTAT
1 TGTATATGTTAATGTTCACTAAAAATTTAAATAAATTTGACAACAAATAAATTCTTC-TTTTTAT
* * * *
96305499 TTATAACTATTGAATACAC-TCAGGTATCATTTTTATTGTATTTTGTTGTGTTTTAAATGAATGT
65 TTATAACTATTAAATACACAT-AGATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAG-
* * * * * *
96305563 ACCG-AATGATCT-AAGAATGAAATAAATTAGTTATAAATTTTGTACAATTTTTTAAGTTTTTGA
128 AACGAAACG-TCTCAAGAAAGAAATAAATTAATTATAAATTTTGAACAATTTTTTAAGTCTTTGA
*
96305626 AGATTAAGACTTT
192 AGAATAAGACTTT
* ** * * * * * * *
96305639 TGTATATGCTAACATCCATTATAAATTTAAGTAAATTTGACAAC-AATCAAAATATTCATTTTAT
1 TGTATATGTTAATGTTCACTAAAAATTTAAATAAATTTGACAACAAAT-AAATTCTTCTTTTTAT
*
96305703 TGATAACTATTAAATACA
65 TTATAACTATTAAATACA
96305721 TACAAATTTA
Statistics
Matches: 246, Mismatches: 34, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
203 55 0.22
204 125 0.51
205 66 0.27
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (204 bp):
TGTATATGTTAATGTTCACTAAAAATTTAAATAAATTTGACAACAAATAAATTCTTCTTTTTATT
TATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGAAC
GAAACGTCTCAAGAAAGAAATAAATTAATTATAAATTTTGAACAATTTTTTAAGTCTTTGAAGAA
TAAGACTTT
Found at i:96308721 original size:17 final size:18
Alignment explanation
Indices: 96308699--96308739 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
96308689 TTTAGAATTT
*
96308699 TTTTTATTGT-ATTAATA
1 TTTTTATAGTAATTAATA
96308716 TTTTTATAGTAATTAATA
1 TTTTTATAGTAATTAATA
*
96308734 TATTTA
1 TTTTTA
96308740 AAAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTTATAGTAATTAATA
Found at i:96308899 original size:36 final size:34
Alignment explanation
Indices: 96308824--96308892 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
96308814 TACACTCTGT
*
96308824 TAATTAAAAACATCTAAAAAATTATAAATTTTTA
1 TAATTAAAAACATCTAAAAAATAATAAATTTTTA
*
96308858 TAATTAAAAA-AT-TAAAATAATAATTACATTTTTA
1 TAATTAAAAACATCTAAAA-AATAA-TAAATTTTTA
96308892 T
1 T
96308893 CCAATTATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 5 0.16
33 6 0.19
34 20 0.65
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (34 bp):
TAATTAAAAACATCTAAAAAATAATAAATTTTTA
Found at i:96320424 original size:94 final size:94
Alignment explanation
Indices: 96320263--96320443 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 94
96320253 TATTTTATTT
* *
96320263 TTTAGCCTCTAATATCATCAAATTATGTAAGTTCTAAATCATTCTAGTGCTAGATAAGAGCATAT
1 TTTAGCCTCTAATATCATCAAATTATGTAACTTCGAAATCATTCTAGTGCTAGATAAGAGCATAT
96320328 TACTTTCTTTTGACTTTCAATTTTAGTAC
66 TACTTTCTTTTGACTTTCAATTTTAGTAC
* * *
96320357 TTTAGCCTCTAATATCATTAACTTATGTAACTTCGAAATCATTTTAGTG-TCAGATAAGAGCATA
1 TTTAGCCTCTAATATCATCAAATTATGTAACTTCGAAATCATTCTAGTGCT-AGATAAGAGCATA
*
96320421 TTACTTTCTTTTGGCTTTCAATT
65 TTACTTTCTTTTGACTTTCAATT
96320444 AGTCCTTATT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 79 0.99
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (94 bp):
TTTAGCCTCTAATATCATCAAATTATGTAACTTCGAAATCATTCTAGTGCTAGATAAGAGCATAT
TACTTTCTTTTGACTTTCAATTTTAGTAC
Found at i:96320658 original size:23 final size:23
Alignment explanation
Indices: 96320632--96320716 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
96320622 GAGATATGAA
96320632 AAAAATTAGATGAGAATGAGGTT
1 AAAAATTAGATGAGAATGAGGTT
96320655 AAAAA--AGA--AGAA--A-GTT
1 AAAAATTAGATGAGAATGAGGTT
96320671 CAATGAAATTAGATGAGAATGAGGTT
1 -AA--AAATTAGATGAGAATGAGGTT
*
96320697 AAAAGTTAGATGAGAATGAG
1 AAAAATTAGATGAGAATGAG
96320717 AATGAGATAT
Statistics
Matches: 51, Mismatches: 1, Indels: 20
0.71 0.01 0.28
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
19 7 0.14
21 6 0.12
23 26 0.51
25 3 0.06
26 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.26, T:0.22
Consensus pattern (23 bp):
AAAAATTAGATGAGAATGAGGTT
Found at i:96321020 original size:43 final size:43
Alignment explanation
Indices: 96320961--96321055 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
96320951 TTAAAATGAA
* *
96320961 AAATA-TTAAGAGTAATATTATGTAAAATATGGGTATGATATG
1 AAATATTTAAGAGTAATATTATGTAAAACATGGGTACGATATG
* *
96321003 AAATATTTAAG-GATAATATTGTGTAAAACATGTGTACGATATG
1 AAATATTTAAGAG-TAATATTATGTAAAACATGGGTACGATATG
**
96321046 ATTTATTTAA
1 AAATATTTAA
96321056 AAATGTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 6 0.13
43 39 0.87
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (43 bp):
AAATATTTAAGAGTAATATTATGTAAAACATGGGTACGATATG
Found at i:96321199 original size:33 final size:35
Alignment explanation
Indices: 96321157--96321235 Score: 128
Period size: 33 Copynumber: 2.3 Consensus size: 35
96321147 AACTATTTAA
96321157 TTTTGATTTTATAATTTATAAAATAAATG-TT-TG
1 TTTTGATTTTATAATTTATAAAATAAATGCTTATG
*
96321190 TTTTGATTTTATAATTTATAACATAAATGCTTATG
1 TTTTGATTTTATAATTTATAAAATAAATGCTTATG
96321225 -TTTGATTTTAT
1 TTTTGATTTTAT
96321236 TTATTTGTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
33 28 0.65
34 13 0.30
35 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.56
Consensus pattern (35 bp):
TTTTGATTTTATAATTTATAAAATAAATGCTTATG
Found at i:96321868 original size:36 final size:36
Alignment explanation
Indices: 96321803--96321871 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
96321793 TCACTAGTTG
* *
96321803 AATCACAGCAATATTGAAAAAGAATAAATTATATTC
1 AATCACAACAATATTGAAAAAGAACAAATTATATTC
* * *
96321839 AATCACAACAATGTTTAAAATGAACAAATTATA
1 AATCACAACAATATTGAAAAAGAACAAATTATA
96321872 AAATACCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.28
Consensus pattern (36 bp):
AATCACAACAATATTGAAAAAGAACAAATTATATTC
Found at i:96324146 original size:17 final size:17
Alignment explanation
Indices: 96324124--96324156 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96324114 TTTAGGTTCG
96324124 AGTTACGCTAATTGCGA
1 AGTTACGCTAATTGCGA
96324141 AGTTACGCTAATTGCG
1 AGTTACGCTAATTGCG
96324157 TTTGTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (17 bp):
AGTTACGCTAATTGCGA
Found at i:96324402 original size:41 final size:40
Alignment explanation
Indices: 96324357--96324436 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 40
96324347 AATAGAACAT
*
96324357 AAACTAAATTCCATATTTATAAATAATATAGGGACATTATA
1 AAACTAAATTCCATATTTATAAATAATACAGGGAC-TTATA
*
96324398 AAACTAAATTCCATATTTATAATTAATACAGGGACTTAT
1 AAACTAAATTCCATATTTATAAATAATACAGGGACTTAT
96324437 GTCATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 4 0.11
41 33 0.89
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (40 bp):
AAACTAAATTCCATATTTATAAATAATACAGGGACTTATA
Found at i:96324800 original size:15 final size:16
Alignment explanation
Indices: 96324769--96324802 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
96324759 AGTTTATTTG
*
96324769 ATTTTTAAATTACTAT
1 ATTTTTAAATTAATAT
96324785 ATTTTTAAA-TAATAT
1 ATTTTTAAATTAATAT
96324800 ATT
1 ATT
96324803 AAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTAAATTAATAT
Found at i:96325676 original size:23 final size:22
Alignment explanation
Indices: 96325649--96325691 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96325639 GTTAAAAAAA
96325649 TCAATTTAGATATTTTTAATAAT
1 TCAA-TTAGATATTTTTAATAAT
* *
96325672 TCAATTATATCTTTTTAATA
1 TCAATTAGATATTTTTAATA
96325692 CAATTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TCAATTAGATATTTTTAATAAT
Found at i:96335048 original size:13 final size:15
Alignment explanation
Indices: 96335020--96335053 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
96335010 AATGATATTA
96335020 TAATAAATATAAATT
1 TAATAAATATAAATT
96335035 TAATAAA-A-AAATT
1 TAATAAATATAAATT
96335048 TAATAA
1 TAATAA
96335054 TGTTAGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 1 0.05
15 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATAAATATAAATT
Found at i:96335652 original size:23 final size:23
Alignment explanation
Indices: 96335616--96335660 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96335606 TAATCACTTG
96335616 AAAAAAATATAAAATC-TAAAAAT
1 AAAAAAATATAAAA-CATAAAAAT
96335639 AAAAAAAT-TCAAAACATAAAAA
1 AAAAAAATAT-AAAACATAAAAA
96335661 AATTGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAAAAATATAAAACATAAAAAT
Found at i:96335659 original size:17 final size:16
Alignment explanation
Indices: 96335633--96335664 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
96335623 TATAAAATCT
96335633 AAAAATAAAAAAATTC
1 AAAAATAAAAAAATTC
96335649 AAAACATAAAAAAATT
1 AAAA-ATAAAAAAATT
96335665 GTAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAAAATTC
Found at i:96351439 original size:77 final size:76
Alignment explanation
Indices: 96351357--96351504 Score: 233
Period size: 76 Copynumber: 1.9 Consensus size: 76
96351347 TCAGATAAGA
* *
96351357 AAGAAAAGTAAAAAAGAGACAGTGGAAAGAAAAAAATATCCATCGTGCTCGAATTGCAAGAAATT
1 AAGAAAAGTAAAAAAGAGACAGTGGAAAG-AAAAAATATCCACCATGCTCGAATTGCAAGAAATT
*
96351422 TGGTCACCCTAC
65 GGGTCACCCTAC
* * *
96351434 AAGAAAAGTCAAAAAGAGACAGTGGAAAGAAAAAATATCCACCATTCTTGAATTGCAAGAAATTG
1 AAGAAAAGTAAAAAAGAGACAGTGGAAAGAAAAAATATCCACCATGCTCGAATTGCAAGAAATTG
96351499 GGTCAC
66 GGTCAC
96351505 ATTGAGAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
76 37 0.57
77 28 0.43
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (76 bp):
AAGAAAAGTAAAAAAGAGACAGTGGAAAGAAAAAATATCCACCATGCTCGAATTGCAAGAAATTG
GGTCACCCTAC
Found at i:96361685 original size:3 final size:3
Alignment explanation
Indices: 96361679--96361707 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
96361669 TTTTTTCTTA
96361679 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
96361708 ATTAGTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:96365171 original size:16 final size:17
Alignment explanation
Indices: 96365150--96365181 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
96365140 AGCAGGGAAA
96365150 GAAAGAAAAA-AAAAGG
1 GAAAGAAAAAGAAAAGG
96365166 GAAAGAAAAAGAAAAG
1 GAAAGAAAAAGAAAAG
96365182 AAAAATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAGAAAAGG
Found at i:96378660 original size:49 final size:49
Alignment explanation
Indices: 96378585--96378679 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
96378575 TGAGTACTGT
* * *
96378585 TAAAAGGTGGCAACAAACAGCGTATGTACGTTATCC-GGATGAAATATGC
1 TAAAAGGTGGCAACAAACAACATATGTAAGTTA-CCTGGATGAAATATGC
96378634 TAAAAGGTGGCAACAAACAACATATGTAAGTTACCTGGATGAAATA
1 TAAAAGGTGGCAACAAACAACATATGTAAGTTACCTGGATGAAATA
96378680 CAGCAACATG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 2 0.05
49 40 0.95
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (49 bp):
TAAAAGGTGGCAACAAACAACATATGTAAGTTACCTGGATGAAATATGC
Found at i:96380705 original size:40 final size:39
Alignment explanation
Indices: 96380649--96380794 Score: 129
Period size: 40 Copynumber: 3.7 Consensus size: 39
96380639 CTTTTAGTGG
* * *
96380649 CTTTAGCGGCAC-TTTTTAAAAACGTCGCTAAAG-ATCAG
1 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGTA-CAC
* *
96380687 GTATTAGCGGTGCTTTTTTAAGAAACGCCGCTATAAGTACAC
1 CT-TTAGCGGCGCTTTTTTAA-AAACGCCGCTA-AAGTACAC
* * *
96380729 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCT-CGAT
1 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAG-TAC-AC
*
96380769 CTTTAGCGGCG-TTTTTGAAAAACGCC
1 CTTTAGCGGCGCTTTTTTAAAAACGCC
96380795 ACAAAAAATG
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 25 0.28
40 31 0.34
41 26 0.29
42 6 0.07
43 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGTACAC
Found at i:96381029 original size:22 final size:22
Alignment explanation
Indices: 96381004--96381049 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
96380994 GAGTTACTAT
* *
96381004 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
96381026 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
96381048 TT
1 TT
96381050 GGGGTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:96381047 original size:15 final size:15
Alignment explanation
Indices: 96381009--96381043 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
96380999 ACTATTTTAA
*
96381009 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
96381024 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
96381038 GGTTTA
1 GGTTTA
96381044 AGGGTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:96381087 original size:14 final size:14
Alignment explanation
Indices: 96381068--96381098 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
96381058 AAGTTTAGGT
96381068 GTTAGGGGTTAATG
1 GTTAGGGGTTAATG
*
96381082 GTTAGGGGTTCATG
1 GTTAGGGGTTAATG
96381096 GTT
1 GTT
96381099 TATGTTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.42, T:0.39
Consensus pattern (14 bp):
GTTAGGGGTTAATG
Found at i:96381121 original size:14 final size:14
Alignment explanation
Indices: 96381102--96381150 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
96381092 CATGGTTTAT
*
96381102 GTTTAGGATTTATG
1 GTTTAGGATTTAGG
*
96381116 GTTTAGGGTTTAGG
1 GTTTAGGATTTAGG
*
96381130 GATTAGGAGTTTAGG
1 GTTTAGGA-TTTAGG
96381145 GTTTAG
1 GTTTAG
96381151 ATTAATTAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:96381332 original size:15 final size:15
Alignment explanation
Indices: 96381312--96381359 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
96381302 ACTATTTTAA
96381312 GGTTTATGGATTATG
1 GGTTTATGGATTATG
96381327 GGTTTA-GAGATTAT-
1 GGTTTATG-GATTATG
* *
96381341 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
96381356 GGTT
1 GGTT
96381360 AGGGGTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:96381332 original size:22 final size:21
Alignment explanation
Indices: 96381307--96381356 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
96381297 GAGTTACTAT
*
96381307 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
*
96381329 TTT-AGAGATTATGGTTTATGG
1 TTTAAG-GATTATGGATTATGG
96381350 TTTAAGG
1 TTTAAGG
96381357 GTTAGGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:96381423 original size:21 final size:21
Alignment explanation
Indices: 96381386--96381425 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96381376 AGGTTTAGGG
*
96381386 TTTATGATTTATAGTTTATCC
1 TTTATGATTTAGAGTTTATCC
*
96381407 TTTATGATTTAGGGTTTAT
1 TTTATGATTTAGAGTTTAT
96381426 GGGGATACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (21 bp):
TTTATGATTTAGAGTTTATCC
Found at i:96381442 original size:22 final size:23
Alignment explanation
Indices: 96381415--96381469 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
96381405 CCTTTATGAT
96381415 TTAGGGTTTATGGGGATACG-GG
1 TTAGGGTTTATGGGGATACGAGG
* * *
96381437 TTAGGGGTTA-GGGGATATGAGT
1 TTAGGGTTTATGGGGATACGAGG
96381459 TTAGGGTTTAT
1 TTAGGGTTTAT
96381470 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.20, C:0.02, G:0.42, T:0.36
Consensus pattern (23 bp):
TTAGGGTTTATGGGGATACGAGG
Found at i:96381843 original size:21 final size:21
Alignment explanation
Indices: 96381819--96381865 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96381809 TAGGGTGTAA
* *
96381819 GTTTATTATCTATGATTTAAG
1 GTTTATGATCTAGGATTTAAG
*
96381840 GTTTATGATCTAGGATTTGAG
1 GTTTATGATCTAGGATTTAAG
96381861 GTTTA
1 GTTTA
96381866 GTGTTTGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTTATGATCTAGGATTTAAG
Found at i:96384819 original size:24 final size:24
Alignment explanation
Indices: 96384792--96384847 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
96384782 TGTTATTGTT
*
96384792 TTTTATGTTATAAGTACATATTCC
1 TTTTATGTTATAAGTACAGATTCC
** *
96384816 TTTTAT-TT-TATTTATAGATTCC
1 TTTTATGTTATAAGTACAGATTCC
96384838 TTTTATGTTA
1 TTTTATGTTA
96384848 ATAAACATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 16 0.62
23 4 0.15
24 6 0.23
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (24 bp):
TTTTATGTTATAAGTACAGATTCC
Found at i:96385483 original size:22 final size:22
Alignment explanation
Indices: 96385457--96385501 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96385447 TTTTAATAAA
96385457 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
96385479 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
96385501 A
1 A
96385502 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:96390081 original size:22 final size:22
Alignment explanation
Indices: 96390055--96390099 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96390045 TTTTAATAAA
96390055 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
96390077 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
96390099 A
1 A
96390100 CAATGGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:96397234 original size:21 final size:21
Alignment explanation
Indices: 96397208--96397248 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
96397198 ACCTAGAGTA
96397208 AGTTATTTTTACTCTCGAAAG
1 AGTTATTTTTACTCTCGAAAG
96397229 AGTTATTTTTACTCTCGAAA
1 AGTTATTTTTACTCTCGAAA
96397249 TAGATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (21 bp):
AGTTATTTTTACTCTCGAAAG
Found at i:96397256 original size:21 final size:21
Alignment explanation
Indices: 96397211--96397256 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
96397201 TAGAGTAAGT
*
96397211 TATTTTTACTCTCGAAAGAGT
1 TATTTTTACTCTCGAAAGAGA
*
96397232 TATTTTTACTCTCGAAATAGA
1 TATTTTTACTCTCGAAAGAGA
96397253 TATT
1 TATT
96397257 AATATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (21 bp):
TATTTTTACTCTCGAAAGAGA
Found at i:96398410 original size:30 final size:30
Alignment explanation
Indices: 96398374--96398433 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96398364 TTCCCGAGCC
*
96398374 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
96398404 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
96398434 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:96405981 original size:30 final size:30
Alignment explanation
Indices: 96405945--96406004 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96405935 TTCCCGAGCC
*
96405945 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
96405975 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
96406005 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:96409155 original size:13 final size:13
Alignment explanation
Indices: 96409137--96409162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96409127 AATATTGCAT
96409137 GAAAATTTTTATC
1 GAAAATTTTTATC
96409150 GAAAATTTTTATC
1 GAAAATTTTTATC
96409163 AATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GAAAATTTTTATC
Found at i:96409642 original size:20 final size:22
Alignment explanation
Indices: 96409612--96409659 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
96409602 GAATATGCTG
*
96409612 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
96409634 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
96409655 TAAAT
1 TAAAT
96409660 CATTTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:96410399 original size:32 final size:31
Alignment explanation
Indices: 96410363--96410453 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 31
96410353 GACTATGTAC
*
96410363 ACTTTGTGTGTACACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACACTTGGAAAGG-AAGGTAT
* *
96410395 ACTTTGTGTATAC-CATATGAAAAGGAAGGTAT
1 ACTTTGTGTGTACAC-T-TGGAAAGGAAGGTAT
96410427 ACTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTA-CACTTGGAAAGGAA
96410454 TGTACACCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
31 1 0.02
32 39 0.78
33 9 0.18
34 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (31 bp):
ACTTTGTGTGTACACTTGGAAAGGAAGGTAT
Found at i:96413815 original size:18 final size:18
Alignment explanation
Indices: 96413794--96413845 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
96413784 TTCAATAACG
96413794 GTCATTTATTCAGTACCA
1 GTCATTTATTCAGTACCA
* **
96413812 GTCAGTCT-TTCAGTAATA
1 GTCA-TTTATTCAGTACCA
*
96413830 GTCAATTATTCAGTAC
1 GTCATTTATTCAGTAC
96413846 ATTTATTTAC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (18 bp):
GTCATTTATTCAGTACCA
Found at i:96414379 original size:13 final size:13
Alignment explanation
Indices: 96414361--96414386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96414351 TGAAATAATA
96414361 GCACACGGGCGTG
1 GCACACGGGCGTG
96414374 GCACACGGGCGTG
1 GCACACGGGCGTG
96414387 TCCCTACCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.46, T:0.08
Consensus pattern (13 bp):
GCACACGGGCGTG
Found at i:96436340 original size:10 final size:10
Alignment explanation
Indices: 96436327--96436378 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
96436317 TAATTTTAGG
96436327 ATTTATTTTT
1 ATTTATTTTT
*
96436337 ATTTATCTTT
1 ATTTATTTTT
* *
96436347 AATTATCTTT
1 ATTTATTTTT
*
96436357 ATTTATTTGT
1 ATTTATTTTT
96436367 ATTTATCTTTT
1 ATTTAT-TTTT
96436378 A
1 A
96436379 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:96452931 original size:30 final size:29
Alignment explanation
Indices: 96452908--96452979 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 29
96452898 TTTATTTCTC
96452908 TTTA-TTTTATTATTTTTATTTTTATTA-
1 TTTATTTTTATTATTTTTATTTTTATTAT
*
96452935 TTTATTATT-TTATTTTTATTATTTATTAT
1 TTTATTTTTATTATTTTTATT-TTTATTAT
* *
96452964 TTTATCTTAATTATTT
1 TTTATTTTTATTATTT
96452980 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 15 0.41
28 10 0.27
29 6 0.16
30 6 0.16
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTATTTTTATTATTTTTATTTTTATTAT
Found at i:96452938 original size:7 final size:7
Alignment explanation
Indices: 96452917--96452982 Score: 70
Period size: 6 Copynumber: 9.7 Consensus size: 7
96452907 CTTTATTTTA
96452917 TTATT-T
1 TTATTAT
96452923 TTATT-T
1 TTATTAT
96452929 TTATTAT
1 TTATTAT
96452936 TTATTATT
1 TTATTA-T
96452944 TTATT-T
1 TTATTAT
96452950 TTATTAT
1 TTATTAT
96452957 TTATTA-
1 TTATTAT
96452963 TT-TTAT
1 TTATTAT
96452969 CTTAATTAT
1 -TT-ATTAT
96452978 TTATT
1 TTATT
96452983 TTATTTTGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
5 3 0.06
6 19 0.36
7 19 0.36
8 8 0.15
9 4 0.08
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTAT
Found at i:96452947 original size:21 final size:21
Alignment explanation
Indices: 96452913--96452982 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
96452903 TTCTCTTTAT
96452913 TTTATTATTTTTATTTTTATTA
1 TTTATTA-TTTTATTTTTATTA
96452935 TTTATTATTTTATTTTTATTA
1 TTTATTATTTTATTTTTATTA
* *
96452956 TTTATTATTTTATCTTAATTA
1 TTTATTATTTTATTTTTATTA
96452977 TTTATT
1 TTTATT
96452983 TTATTTTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 39 0.85
22 7 0.15
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTATTATTTTATTTTTATTA
Found at i:96454056 original size:93 final size:93
Alignment explanation
Indices: 96453872--96454056 Score: 262
Period size: 93 Copynumber: 2.0 Consensus size: 93
96453862 GGAATTAATT
* * *
96453872 TTTAAGAATGTGTTGGGCTGAGTAATCGGGGTGAGGTGCTTGGCTGTCATTTCTCTTCGCGTTAA
1 TTTAAGAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAA
* * *
96453937 AAAGTTCGATATGTTCTTAAGAAAAAAA
66 AAAGTTCAATATATTCCTAAGAAAAAAA
* * * *
96453965 TTTAAGAGTGTGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGGTTGTCATCTCTCTTCGCGTCAA
1 TTTAAGAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAA
* *
96454030 AAGGTTCAATATATTCCTAAGTAAAAA
66 AAAGTTCAATATATTCCTAAGAAAAAA
96454057 TAATAATAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 80 1.00
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (93 bp):
TTTAAGAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAA
AAAGTTCAATATATTCCTAAGAAAAAAA
Found at i:96454727 original size:10 final size:10
Alignment explanation
Indices: 96454712--96454761 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
96454702 TAATTTTAGG
96454712 ATTTAT-TTT
1 ATTTATCTTT
96454721 CATTTATCTTT
1 -ATTTATCTTT
*
96454732 AATTATCTTT
1 ATTTATCTTT
96454742 ATTTAT-TTGT
1 ATTTATCTT-T
96454752 ATTTATCTTT
1 ATTTATCTTT
96454762 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:96459623 original size:24 final size:23
Alignment explanation
Indices: 96459582--96459627 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
96459572 AATTATATTA
*
96459582 TTAATTATTTAGATATAAATTATG
1 TTAATTATTTAGAAAT-AATTATG
96459606 TTAATTAATTTA-AAATAATTAT
1 TTAATT-ATTTAGAAATAATTAT
96459628 ATTATAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTAATTATTTAGAAATAATTATG
Found at i:96459758 original size:3 final size:3
Alignment explanation
Indices: 96459750--96459807 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
96459740 AAATAGATAT
* *
96459750 TTA TTA TTA TAA TTA TTAA TTA TTA TTG TT- TATA TTA TTA TT- TTCA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TT-A
96459796 TTA TTA -TA TTA T
1 TTA TTA TTA TTA T
96459808 GGAATAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
2 5 0.11
3 35 0.76
4 6 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:96460065 original size:18 final size:18
Alignment explanation
Indices: 96460044--96460080 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96460034 TAAAAGATAT
*
96460044 TTATTAATTAAATTATTA
1 TTATAAATTAAATTATTA
*
96460062 TTATAAATTATATTATTA
1 TTATAAATTAAATTATTA
96460080 T
1 T
96460081 AATATAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAAATTAAATTATTA
Found at i:96460111 original size:17 final size:16
Alignment explanation
Indices: 96460086--96460137 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
96460076 ATTATAATAT
*
96460086 AAAGTAAAGAAATAAAA
1 AAAGAAAAGAAA-AAAA
*
96460103 AAAGAAAAGAAAAGAA
1 AAAGAAAAGAAAAAAA
96460119 AAAGAAAGGAGAAAAAAA
1 AAAGAAA--AGAAAAAAA
96460137 A
1 A
96460138 CAGAGAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 10 0.33
17 11 0.37
18 9 0.30
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAGAAAAGAAAAAAA
Found at i:96460136 original size:16 final size:15
Alignment explanation
Indices: 96460099--96460137 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
96460089 GTAAAGAAAT
96460099 AAAAAAAGAAAAGAA
1 AAAAAAAGAAAAGAA
*
96460114 AAGAAAAAGAAAGGAGA
1 AA-AAAAAGAAAAGA-A
96460131 AAAAAAA
1 AAAAAAA
96460138 CAGAGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 16 0.76
17 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAGAA
Found at i:96460597 original size:44 final size:44
Alignment explanation
Indices: 96460548--96460639 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
96460538 TGTTCAGGGA
* **
96460548 TACTTCGACCTT-GAGTCGATGAGGCATTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCAATGAGGCACCATAAGTGTCGTACTGT
**
96460592 TACTTCGACTTCGAGTCAATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCAATGAGGCACCATAAGTGTCGTACTGT
96460636 TACT
1 TACT
96460640 GTTATTTCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCAATGAGGCACCATAAGTGTCGTACTGT
Done.