Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 246 of 378
Found at i:73238149 original size:74 final size:75
Alignment explanation
Indices: 73238066--73238285 Score: 300
Period size: 74 Copynumber: 2.9 Consensus size: 75
73238056 TTTATTTCTG
* *
73238066 TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGTTGAGGTATTTT
73238131 CAATCTAT-TT
65 CAATCTATGTT
* *
73238141 TTTCAAAAAAATCAACTCATATTGCGAGCGGTGAGTTGAACCTCAGGACACGCTGAGGTAGTTTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGTTGAGGTA-TTTT
* *
73238206 -AATTTCTGTT
65 CAATCTATGTT
** *
73238216 CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTTACATGTTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG--ACACGTTGAGGTATTT
*
73238281 ACAAT
64 TCAAT
73238286 TTCCGTTTTT
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
74 57 0.45
75 54 0.42
76 3 0.02
77 14 0.11
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGTTGAGGTATTTTC
AATCTATGTT
Found at i:73238391 original size:90 final size:91
Alignment explanation
Indices: 73238220--73238440 Score: 252
Period size: 89 Copynumber: 2.4 Consensus size: 91
73238210 TCTGTTCATC
* * * * **
73238220 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTTACATGTTGAGGTATTTACAA
1 AAAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTACAA
**
73238285 TTTCCGTTTTTCAATTTATG-TTT-T
66 TTAACGTTTTTCAATTTATGCTTTCT
** * * *
73238309 TCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGATCACATGCCGAGGTATTTTCA
1 AAAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCAGG-TCACATGCCGAGGTATTTACA
* *
73238374 ATTAATGTTTTTTAATTTATGCTTTCT
65 ATTAACGTTTTTCAATTTATGCTTTCT
73238401 AAAAAAATCAACTT-ATATTG-TGAGAGGTGAGTTGAGCCTC
1 AAAAAAATCAA-TTCATATTGCT-AGAGGTGAGTTGAGCCTC
73238441 GGAACACGCT
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
89 36 0.33
90 34 0.31
91 4 0.04
92 32 0.30
93 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (91 bp):
AAAAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTACAA
TTAACGTTTTTCAATTTATGCTTTCT
Found at i:73238505 original size:71 final size:71
Alignment explanation
Indices: 73238403--73238542 Score: 176
Period size: 71 Copynumber: 2.0 Consensus size: 71
73238393 TGCTTTCTAA
* * ** *
73238403 AAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGGTATTGTT-AATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGCTGAGGTATT-TTCAATT
*
73238466 TTTGTTTC
64 TCTGTTTC
* *
73238474 AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
73238539 TGTT
66 TGTT
73238543 CAATTTATGT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 2 0.03
71 56 0.95
72 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTC
Found at i:73238682 original size:336 final size:326
Alignment explanation
Indices: 73238053--73238771 Score: 798
Period size: 336 Copynumber: 2.2 Consensus size: 326
73238043 TATTTTGATA
*
73238053 TTTTTTATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTTTATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* ***
73238118 GTTGAGGTATTTTCAATCTATTTTTTCAAAAAAATCAACTCATATTGCGAGCGGTGAGTTGAACC
66 GCTGAGGTATTTTCAATCTATTTTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACC
* *
73238183 TCAGGACACGCTGAGGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGT
130 TCAAGACACGCTGAGGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGAGAGAGGT
* * * * * *
73238248 GAGTTGAACCTCAGGTTACATGTTGAGGTATTTACAATTTCCGTTTTTCAATTTATGTTTTTCAA
195 GAGTTGAACCTCAGGTGACACGCTGAGATATTTACAATTTCCGTTTTTAAATTTATGCTTTTCAA
* * *
73238313 AAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCAGGATCACATGCCGAGGTATTTTCAATTA
260 AAATCAACTCATATTACGAAAGGTGAATTGAGCCTCAGG-TCACATGCCGAGGTATTTTCAATTA
73238378 ATG
324 ATG
* * * *
73238381 TTTTTTAATTTATGCTTTCTAAAAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTC-GGAA
1 TTTTTT-ATTTATG-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-A
*
73238445 CACGCTGAGGTATTGTT-AAT-T-TTTGTTTC-AAAACTCAACTCATATTGCGAGAAATGAGTTG
63 CACGCTGAGGTATT-TTCAATCTATTT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTG
* * * *
73238506 AGCCTCAAGACACGTTGAGGTA-TTTTCAATTTCTGTTCAATTTATGTTTTTCAAAAATCAACTC
126 AACCTCAAGACACGCTGAGGTAGTTTT-AATTTCTGTTC-A-TCA-------AAAAAATCAACTC
* * * ***
73238570 ATATTGAGAGAGGTGAGTTGAGCCTC-GG-GGCACGCTGAGATATTTTCAATTAATGTTTTTTTA
181 ATATTGAGAGAGGTGAGTTGAACCTCAGGTGACACGCTGAGATATTTACAATT--TCCGTTTTTA
* *
73238633 AATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCCG
244 AATTTATGCTTTTCAAAAATCAACTCATATTACGAAAGGTGAATTGAGCCTCAGGTCACATGCCG
73238698 AGGTATTTTCAA--AATCTG
309 AGGTATTTTCAATTAA--TG
** * * *
73238716 TTTTGCAAATTCTGTTTTC---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTT-TTATTTATG-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
73238772 TTGCTCACGT
Statistics
Matches: 330, Mismatches: 41, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
326 4 0.01
327 58 0.18
328 10 0.03
329 14 0.04
330 59 0.18
331 2 0.01
332 34 0.10
333 2 0.01
334 17 0.05
335 39 0.12
336 91 0.28
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (326 bp):
TTTTTTATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTATTTTCAATCTATTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCT
CAAGACACGCTGAGGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGAGAGAGGTG
AGTTGAACCTCAGGTGACACGCTGAGATATTTACAATTTCCGTTTTTAAATTTATGCTTTTCAAA
AATCAACTCATATTACGAAAGGTGAATTGAGCCTCAGGTCACATGCCGAGGTATTTTCAATTAAT
G
Found at i:73238729 original size:14 final size:13
Alignment explanation
Indices: 73238703--73238738 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
73238693 TGCCGAGGTA
73238703 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
73238716 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
73238730 TTTTCAAAA
1 TTTTCAAAA
73238739 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:73238793 original size:88 final size:88
Alignment explanation
Indices: 73238470--73238794 Score: 340
Period size: 89 Copynumber: 3.7 Consensus size: 88
73238460 TTAATTTTTG
* * * *
73238470 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT--TGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACGTGCTGAGGTATTTTC
** * *
73238533 AATTTCTG--TTCAATTTATGTT
66 AAAATCTGTTTTCAAATTATGCT
* * * * *
73238554 TTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGGCAC--GCTGAGATATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACGTGCTGAGGTATTTTC
* * *
73238617 AATTAATGTTTTTTTAAATTTATGCT
66 AA--AATCTGTTTTCAAA-TTATGCT
* * * *
73238643 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACGTGCTGAGGTATTTTC
*
73238708 AAAATCTGTTTTGCAAATTCTG-T
66 AAAATCTGTTTT-CAAATTATGCT
** * *
73238731 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACGTGCTGAGGTATTTT
73238795 TTTCAATTTC
Statistics
Matches: 198, Mismatches: 33, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
84 55 0.28
86 2 0.01
88 61 0.31
89 63 0.32
90 3 0.02
91 14 0.07
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (88 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACGTGCTGAGGTATTTTC
AAAATCTGTTTTCAAATTATGCT
Found at i:73240552 original size:8 final size:8
Alignment explanation
Indices: 73240541--73240682 Score: 54
Period size: 8 Copynumber: 17.9 Consensus size: 8
73240531 TATATGTATA
73240541 TATATATT
1 TATATATT
73240549 TATATATGT
1 TATATAT-T
*
73240558 TGT-TAATT
1 TATAT-ATT
73240566 TAT-TACTT
1 TATATA-TT
73240574 TAT-T-TT
1 TATATATT
* *
73240580 AATATCTT
1 TATATATT
73240588 TATTATATT
1 TA-TATATT
73240597 TAT-T-TT
1 TATATATT
73240603 TATAT-TT
1 TATATATT
73240610 TA-ATA-T
1 TATATATT
73240616 TAT-TA-T
1 TATATATT
73240622 TATCATGATT
1 TAT-AT-ATT
73240632 ACTATATATT
1 --TATATATT
*
73240642 AGTGTATATT
1 --TATATATT
*
73240652 TATATATA
1 TATATATT
*
73240660 TATATATA
1 TATATATT
*
73240668 TATATATA
1 TATATATT
73240676 TATATAT
1 TATATAT
73240683 ATGTTTTTAA
Statistics
Matches: 110, Mismatches: 9, Indels: 30
0.74 0.06 0.20
Matches are distributed among these distances:
6 20 0.18
7 8 0.07
8 52 0.47
9 13 0.12
10 12 0.11
11 2 0.02
12 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (8 bp):
TATATATT
Found at i:73240619 original size:23 final size:24
Alignment explanation
Indices: 73240566--73240619 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
73240556 GTTGTTAATT
*
73240566 TATTACTTTATTTTAATATCTTTAT
1 TATTA-TTTATTTTAATATCTTTAA
*
73240591 TA-TATTTATTTTTATAT-TTTAA
1 TATTATTTATTTTAATATCTTTAA
73240613 TATTATT
1 TATTATT
73240620 ATTATCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 6 0.23
23 16 0.62
24 2 0.08
25 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTTATTTTAATATCTTTAA
Found at i:73240638 original size:31 final size:31
Alignment explanation
Indices: 73240567--73240638 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
73240557 TTGTTAATTT
* *
73240567 ATTACTTTATTTTAATATCTTTATTATATTT
1 ATTACTATATTTTAATATCTTTATTATATTG
**
73240598 ATTTTTATATTTTAATAT-TATTATTATCA-TG
1 ATTACTATATTTTAATATCT-TTATTAT-ATTG
73240629 ATTACTATAT
1 ATTACTATAT
73240639 ATTAGTGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 1 0.03
31 31 0.94
32 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (31 bp):
ATTACTATATTTTAATATCTTTATTATATTG
Found at i:73240659 original size:10 final size:10
Alignment explanation
Indices: 73240646--73240707 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
73240636 TATATTAGTG
73240646 TATATTTATA
1 TATATTTATA
73240656 TATA--TATA
1 TATATTTATA
*
73240664 TATATATATA
1 TATATTTATA
*
73240674 TATATATATA
1 TATATTTATA
* *
73240684 TGTTTTTA-A
1 TATATTTATA
*
73240693 TATATTTATG
1 TATATTTATA
73240703 TATAT
1 TATAT
73240708 ACTTATGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 8 0.19
9 7 0.16
10 28 0.65
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
TATATTTATA
Found at i:73240697 original size:2 final size:2
Alignment explanation
Indices: 73240646--73240684 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
73240636 TATATTAGTG
*
73240646 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73240685 GTTTTTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:73240888 original size:19 final size:19
Alignment explanation
Indices: 73240864--73240900 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
73240854 CTATTTTATA
*
73240864 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
73240883 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
73240901 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:73240985 original size:9 final size:9
Alignment explanation
Indices: 73240967--73241003 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
73240957 TCATTTCTAA
73240967 TATATATAT
1 TATATATAT
*
73240976 TATATGTAT
1 TATATATAT
*
73240985 TTTATATAT
1 TATATATAT
73240994 TATATATAT
1 TATATATAT
73241003 T
1 T
73241004 TTAATGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TATATATAT
Found at i:73240992 original size:18 final size:18
Alignment explanation
Indices: 73240969--73241006 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
73240959 ATTTCTAATA
*
73240969 TATATATTATATGTATTT
1 TATATATTATATATATTT
73240987 TATATATTATATATATTT
1 TATATATTATATATATTT
73241005 TA
1 TA
73241007 ATGTTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:73243192 original size:14 final size:14
Alignment explanation
Indices: 73243154--73243196 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
73243144 CAAAATGTAC
73243154 AATATAATTAAA-T
1 AATATAATTAAATT
73243167 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
73243182 AA-ATAATTTAATT
1 AATATAATTAAATT
73243195 AA
1 AA
73243197 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:73248545 original size:22 final size:21
Alignment explanation
Indices: 73248519--73248564 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
73248509 CCTAGTAAGA
73248519 CTTCTCTTCATCTTTTCTATTT
1 CTTCTCTTCATCTTTTCT-TTT
**
73248541 CTTCTCTTTTTCTTTTCTTTT
1 CTTCTCTTCATCTTTTCTTTT
73248562 CTT
1 CTT
73248565 TTTCTTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTCTCTTCATCTTTTCTTTT
Found at i:73248550 original size:16 final size:15
Alignment explanation
Indices: 73248523--73248571 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
73248513 GTAAGACTTC
73248523 TCTTCATCTTTTCTATT
1 TCTTC-TCTTTTCT-TT
73248540 TCTTCTCTTTTTCTTT
1 TCTTCTC-TTTTCTTT
*
73248556 TCTTTTCTTTTTCTTT
1 TCTTCTC-TTTTCTTT
73248572 GCATCATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTCTCTTTTCTTT
Found at i:73248556 original size:5 final size:5
Alignment explanation
Indices: 73248529--73248571 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
73248519 CTTCTCTTCA
*
73248529 TCTTT TCTATT TCTTC TCTTTT TCTTT TCTTT TCTTTT TCTTT
1 TCTTT TCT-TT TCTTT TC-TTT TCTTT TCTTT TC-TTT TCTTT
73248572 GCATCATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 19 0.58
6 14 0.42
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:73248567 original size:11 final size:11
Alignment explanation
Indices: 73248529--73248571 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
73248519 CTTCTCTTCA
*
73248529 TCTTTTCTATT
1 TCTTTTCTTTT
*
73248540 TCTTCTCTTTT
1 TCTTTTCTTTT
73248551 TCTTTTC-TTT
1 TCTTTTCTTTT
73248561 TCTTTTTCTTT
1 TC-TTTTCTTT
73248572 GCATCATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.19
11 20 0.74
12 2 0.07
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:73252203 original size:107 final size:107
Alignment explanation
Indices: 73252017--73252234 Score: 366
Period size: 107 Copynumber: 2.0 Consensus size: 107
73252007 AATTAGAAGA
* *
73252017 CTTCTAGCCTTCAACTTGTACACTACCAATTCAAAACTAACCTAGGTCTAATTTTCACGAACACA
1 CTTCTAGCCTTCAACTTGTACACTACCAAATCAAAACTAACCCAGGTCTAATTTTCACGAACACA
73252082 ATGCCCTAACTTTTCAAAACCTGCATCC-AAAAGAGAACCTCT
66 ATGCCCTAACTTTTCAAAACCTGCA-CCTAAAAGAGAACCTCT
* *
73252124 CTTCTAGCCTTCAACTTGTACACTACCAAATCAAAACTAGCCCAGGTCTAATTTTCACGAACATA
1 CTTCTAGCCTTCAACTTGTACACTACCAAATCAAAACTAACCCAGGTCTAATTTTCACGAACACA
* *
73252189 GTGCCCTAACTTTTCAAAACCTGTACCTAAAAGAGAACCTCT
66 ATGCCCTAACTTTTCAAAACCTGCACCTAAAAGAGAACCTCT
73252231 CTTC
1 CTTC
73252235 AAAAATGATC
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 2 0.02
107 102 0.98
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (107 bp):
CTTCTAGCCTTCAACTTGTACACTACCAAATCAAAACTAACCCAGGTCTAATTTTCACGAACACA
ATGCCCTAACTTTTCAAAACCTGCACCTAAAAGAGAACCTCT
Found at i:73256986 original size:22 final size:23
Alignment explanation
Indices: 73256961--73257012 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
73256951 TGAATTAATT
73256961 TTAATTTTAAT-TT-AAAAGAACG
1 TTAATTTTAATCTTCAAAAGAA-G
*
73256983 TTAA-TTTAATCTTCAAAATAAG
1 TTAATTTTAATCTTCAAAAGAAG
73257005 TTAATTTT
1 TTAATTTT
73257013 TAAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 11 0.42
23 9 0.35
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (23 bp):
TTAATTTTAATCTTCAAAAGAAG
Found at i:73260126 original size:27 final size:27
Alignment explanation
Indices: 73260086--73260155 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
73260076 CTTTTATTTT
*
73260086 AAAAATACATAAAATAAAAA-ATAA-AGA
1 AAAAATA-AGAAAATAAAAAGATAATA-A
*
73260113 CAAAAATAAGAAAAAAAAAAGATAATAA
1 -AAAAATAAGAAAATAAAAAGATAATAA
*
73260141 AAAAATCAGAAAATA
1 AAAAATAAGAAAATA
73260156 TAGAAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 23 0.64
28 12 0.33
29 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (27 bp):
AAAAATAAGAAAATAAAAAGATAATAA
Found at i:73260901 original size:5 final size:6
Alignment explanation
Indices: 73260884--73260909 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
73260874 AAATTTCTAC
73260884 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
73260910 GAATTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:73272406 original size:80 final size:80
Alignment explanation
Indices: 73272322--73272470 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
73272312 TATGGTAACC
* * * *
73272322 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
73272386 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
73272402 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
73272467 CCGG
66 CCGG
73272471 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:73272412 original size:40 final size:38
Alignment explanation
Indices: 73272363--73272470 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
73272353 ATCACGATTT
*
73272363 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
73272403 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
73272443 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
73272471 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:73280525 original size:80 final size:80
Alignment explanation
Indices: 73280441--73280589 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
73280431 TATGGTAACC
* * * *
73280441 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
73280505 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
73280521 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
73280586 CCGG
66 CCGG
73280590 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:73280531 original size:40 final size:38
Alignment explanation
Indices: 73280482--73280589 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
73280472 ATCACGATTT
*
73280482 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
73280522 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
73280562 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
73280590 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:73284008 original size:31 final size:31
Alignment explanation
Indices: 73283973--73284032 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
73283963 TATTCTGGTT
73283973 TTGTTTATTGCTTTATATGCCTTCCATCAAC
1 TTGTTTATTGCTTTATATGCCTTCCATCAAC
73284004 TTGTTTATTGCTTTATATGCCTTCCATCA
1 TTGTTTATTGCTTTATATGCCTTCCATCA
73284033 TGTTCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.10, T:0.50
Consensus pattern (31 bp):
TTGTTTATTGCTTTATATGCCTTCCATCAAC
Found at i:73285731 original size:23 final size:23
Alignment explanation
Indices: 73285688--73285749 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
73285678 GGTTTTTTGT
* *
73285688 GAGCTTCTTGAATAATGGCTCTCTG
1 GAGCTTCCTG-AT-ATGGCTCACTG
*
73285713 GAGCTTCCTGATATGGCTCACTT
1 GAGCTTCCTGATATGGCTCACTG
*
73285736 GAACTTCCTGATAT
1 GAGCTTCCTGATAT
73285750 ATGGCTGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 22 0.67
24 2 0.06
25 9 0.27
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (23 bp):
GAGCTTCCTGATATGGCTCACTG
Found at i:73285901 original size:25 final size:25
Alignment explanation
Indices: 73285786--73285901 Score: 76
Period size: 25 Copynumber: 4.7 Consensus size: 25
73285776 TGGCTCTTCG
* * *
73285786 GAGCTACCCGTTAT-TGGATCATAT
1 GAGCTTCCTGTTATATGGCTCATAT
* * *
73285810 GAGCTTCTTGAT-TATGGCTCTTAT
1 GAGCTTCCTGTTATATGGCTCATAT
* **
73285834 GAGCTTCCTATTATACAGCTCGA-AT
1 GAGCTTCCTGTTATATGGCTC-ATAT
* ** * *
73285859 AAGCTTCCCATTACATGGCTCACAT
1 GAGCTTCCTGTTATATGGCTCATAT
73285884 GAGCTTCCTGTTATATGG
1 GAGCTTCCTGTTATATGG
73285902 TTCGAGAGAG
Statistics
Matches: 67, Mismatches: 21, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
23 1 0.01
24 26 0.39
25 40 0.60
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGCTTCCTGTTATATGGCTCATAT
Found at i:73291914 original size:46 final size:46
Alignment explanation
Indices: 73291862--73292089 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
73291852 AGTATGCTCT
* *
73291862 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
73291908 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
73291954 CTGATATGAAATGTGTAAGACCTTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
73292000 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
73292046 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
73292090 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:73296693 original size:21 final size:22
Alignment explanation
Indices: 73296646--73296708 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 22
73296636 CAGAAGTAGT
73296646 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
***
73296668 A-ACGACACATTTGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
* * *
73296688 ATACGAAATATATAGTGCCTG
1 ATACGACACATAAAGTGCCTG
73296709 TCGGCAAAGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:73297564 original size:23 final size:23
Alignment explanation
Indices: 73297537--73297617 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 23
73297527 ACTTTACCAT
73297537 ATATATAATATAATAATAATATA
1 ATATATAATATAATAATAATATA
* *
73297560 ATATATAATATAATAAAAACATA
1 ATATATAATATAATAATAATATA
* *
73297583 ATAAATATATTTATTATTTAATAATATA
1 AT--ATATA-ATA-TA-ATAATAATATA
73297611 ATATATA
1 ATATATA
73297618 TTAAACTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 23 0.49
25 5 0.11
26 7 0.15
27 2 0.04
28 10 0.21
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATATAATATAATAATAATATA
Found at i:73297572 original size:20 final size:20
Alignment explanation
Indices: 73297535--73297617 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
73297525 TTACTTTACC
73297535 ATAT-ATATAAT-ATAATAAT
1 ATATAATATAATAAT-ATAAT
73297554 AATATAATAT-ATAATATAAT
1 -ATATAATATAATAATATAAT
* *
73297574 A-AAAACATAATAA-ATATAT
1 ATATAATATAATAATATA-AT
* * *
73297593 TTATTATTTAATAATATAAT
1 ATATAATATAATAATATAAT
73297613 ATATA
1 ATATA
73297618 TTAAACTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
18 8 0.17
19 7 0.15
20 24 0.50
21 9 0.19
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATAATATAATAATATAAT
Found at i:73298246 original size:20 final size:20
Alignment explanation
Indices: 73298200--73298246 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
73298190 AGTCCTTTTT
*
73298200 CCTAATTTCTCCTAATTAAG
1 CCTAATTTCACCTAATTAAG
73298220 -CTAAATTT-ACCTAATTAAAG
1 CCT-AATTTCACCTAATT-AAG
73298240 CCTAATT
1 CCTAATT
73298247 AGACACACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (20 bp):
CCTAATTTCACCTAATTAAG
Found at i:73306235 original size:50 final size:50
Alignment explanation
Indices: 73306159--73306542 Score: 344
Period size: 50 Copynumber: 7.6 Consensus size: 50
73306149 TCCATTGTGA
73306159 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
73306209 GTCACATGTGTAGTACTAAGTCCAGGCAACTATGCGTACTC-G-TTAACTTTG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTGA--TAG
* * * * * * *
73306260 ATCACGTATGTAGTACTAAGTGCA-GCGTACTACATGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGATTGATAG
* * *
73306310 GTCACGTGTGTAGGACTAAGTGCAGGCTACCATGTGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
73306360 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * *
73306411 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
73306461 GTCACGTGTGTAGTACTAAGTGTAGGGTGCTACATGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** ** *
73306511 GTTGCCAGTGTAGTACTAAGTGCAAGCTACTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTA
73306543 TTCGTACCAG
Statistics
Matches: 256, Mismatches: 68, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
49 6 0.02
50 178 0.70
51 70 0.27
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:73306372 original size:151 final size:151
Alignment explanation
Indices: 73306158--73306550 Score: 601
Period size: 151 Copynumber: 2.6 Consensus size: 151
73306148 ATCCATTGTG
*
73306158 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * *
73306223 ACTAAGTCCAGGCAACTATGCGTACTCGTTAACTTTGATCACGTATGTAGTACTAAGTGCA-GCG
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGC-
73306287 TACTACATGTATCAGATGGTTA
130 TACTACATGTATCAGATGGTTA
* * *
73306309 AGTCACGTGTGTAGGACTAAGTGCAGGCTACCATGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
73306374 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCT
*
73306439 ACTACGTGTATCAGATGGTTA
131 ACTACATGTATCAGATGGTTA
* * * * *
73306460 AGTCACGTGTGTAGTACTAAGTGTAGGGTGCTACATGTACCAGATTGATAGGTTGCCA-GTGTAG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG-CATGTGTAG
* *
73306524 TACTAAGTGCAAGCTACTATTCGTACC
65 TACTAAGTGCAGGCTACTATGCGTACC
73306551 AGAGAGCTTC
Statistics
Matches: 220, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
151 216 0.98
152 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTATGTAGTACTAAGTGCAGGCT
ACTACATGTATCAGATGGTTA
Found at i:73306500 original size:101 final size:101
Alignment explanation
Indices: 73306311--73306500 Score: 245
Period size: 101 Copynumber: 1.9 Consensus size: 101
73306301 GATGGTTAAG
* * * *
73306311 TCACGTGTGTAGGACTAAGTGCAGGCTACCATGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGGACTAAGTGCAGGCTACCACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
**
73306376 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTACACGTACCCGTTAACTTCGA
* * * * *
73306412 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGGACTAAGTGCAGGCTACCACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* * * *
73306477 TAAGTGTAGGGTGCTACATGTACC
66 TAAGTGCAGGCTACTACACGTACC
73306501 AGATTGATAG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGGACTAAGTGCAGGCTACCACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACACGTACCCGTTAACTTCGA
Found at i:73320915 original size:29 final size:29
Alignment explanation
Indices: 73320883--73320954 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
73320873 TTCGAGCTCG
* *
73320883 CACACCCAGTGCCGTATTTTTCCAGCATA
1 CACACCCAGTGCCATATATTTCCAGCATA
** *
73320912 CACACTTAGTGCCATATATTTCCAGCATG
1 CACACCCAGTGCCATATATTTCCAGCATA
**
73320941 CACACTTAGTGCCA
1 CACACCCAGTGCCA
73320955 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CACACCCAGTGCCATATATTTCCAGCATA
Found at i:73321411 original size:25 final size:26
Alignment explanation
Indices: 73321363--73321420 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
73321353 TTTTTTTCCT
73321363 TTTC-TTTGTTTTTCTTCATATTCTC
1 TTTCTTTTGTTTTTCTTCATATTCTC
* * *
73321388 TTTCTTTTTTTTTTTTTCAT-TTCTT
1 TTTCTTTTGTTTTTCTTCATATTCTC
73321413 TATTCTTT
1 T-TTCTTT
73321421 CTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTCTTTTGTTTTTCTTCATATTCTC
Found at i:73328048 original size:29 final size:29
Alignment explanation
Indices: 73328016--73328088 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
73328006 CTTCGAGCTC
* *
73328016 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
73328045 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
73328074 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
73328089 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:73328546 original size:12 final size:13
Alignment explanation
Indices: 73328507--73328549 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
73328497 TTTTCTTTGT
73328507 TTTTCTTCATATTC
1 TTTTCTTCAT-TTC
*
73328521 TCTTTCTTCTTTTC
1 T-TTTCTTCATTTC
73328535 TTTT-TTCATTTC
1 TTTTCTTCATTTC
73328547 TTT
1 TTT
73328550 ATTCTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 10 0.38
13 3 0.12
14 5 0.19
15 8 0.31
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCTTCATTTC
Found at i:73332443 original size:14 final size:14
Alignment explanation
Indices: 73332424--73332457 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
73332414 GCCCGAAGTG
*
73332424 GATGATATGATTAT
1 GATGATATGACTAT
*
73332438 GATGATATTACTAT
1 GATGATATGACTAT
73332452 GATGAT
1 GATGAT
73332458 GAAAGTCGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (14 bp):
GATGATATGACTAT
Found at i:73334234 original size:48 final size:49
Alignment explanation
Indices: 73334145--73334472 Score: 266
Period size: 48 Copynumber: 6.8 Consensus size: 49
73334135 ATATGTGTGT
* * * * *
73334145 GCCAGCGTAAGACCATGTTTGAAACATGGCATCGAC-GATGTAATAAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTAATGTAATGAGA
* *
73334193 GCCAGCGTAAGACCATGTTTGGAACATGGCATC-TCTAATGTAATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTAATGTAATGAGA
* * * * * * * * *
73334241 GCTAGTGTAGGACCATGTCTGGGACATGGCGTC-GTTATTG-ATATGTGC
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTAATGTA-ATGAGA
* * * *
73334289 GCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCACAT-T-ATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTA-ATGTAATGAGA
* * * *
73334337 GCCAATGTAAGACCAAGTTTGGGACATGGCATCGG-TATTG-AGATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTAATGTA-ATGAGA
* * * * *
73334385 GCTAGTGTAAGACCACGTTTGGGAGATGGCATCGGCCT--TG-ACATGTGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-CTAATGTA-ATGAGA
73334433 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC-AATG
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTAATG
73334473 GTTTCAGGGG
Statistics
Matches: 227, Mismatches: 41, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
46 1 0.00
47 4 0.02
48 218 0.96
49 2 0.01
50 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTAATGTAATGAGA
Found at i:73334414 original size:144 final size:144
Alignment explanation
Indices: 73334140--73334466 Score: 383
Period size: 144 Copynumber: 2.3 Consensus size: 144
73334130 GGGTGATATG
* * * *
73334140 TGTGTGCCAGCGTAAGACCATGTTTGAAACATGGCATCGACGATGTAATAAGAGCCAGCGTAAGA
1 TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTAATAAGAGCCAACGTAAGA
* * * *
73334205 CCATGTTTGGAACATGGCATCTCTAATGTAATGAGAGCTAGTGTAGGACCATGTCTGGGACATGG
66 CCAAGTTTGGAACATGGCATCGCTAATGTAATGAGAGCTAGTGTAAGACCACGTCTGGGACATGG
* ** *
73334270 CGTCGTTATTGATA
131 CATCGGCATTGACA
* * * * *
73334284 TGTGCGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCAC-AT-T-ATGAGAGCCAATGTA
1 TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-G--ACGATGTAATAAGAGCCAACGTA
* * * * *
73334346 AGACCAAGTTTGGGACATGGCATCGGTATTG-AGATGAGAGCTAGTGTAAGACCACGTTTGGGAG
63 AGACCAAGTTTGGAACATGGCATCGCTAATGTA-ATGAGAGCTAGTGTAAGACCACGTCTGGGAC
*
73334410 ATGGCATCGGCCTTGACA
127 ATGGCATCGGCATTGACA
73334428 TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
73334467 GCAATGGTTT
Statistics
Matches: 154, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
143 2 0.01
144 146 0.95
145 2 0.01
146 2 0.01
147 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACGATGTAATAAGAGCCAACGTAAGA
CCAAGTTTGGAACATGGCATCGCTAATGTAATGAGAGCTAGTGTAAGACCACGTCTGGGACATGG
CATCGGCATTGACA
Found at i:73335607 original size:21 final size:21
Alignment explanation
Indices: 73335581--73335620 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73335571 TTAAGAAGCC
*
73335581 ACACGGGCATGTTGCCCTGCT
1 ACACGGGCATGTTCCCCTGCT
*
73335602 ACACGGGCGTGTTCCCCTG
1 ACACGGGCATGTTCCCCTG
73335621 TCTGCTTGAA
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:0.12, C:0.35, G:0.30, T:0.23
Consensus pattern (21 bp):
ACACGGGCATGTTCCCCTGCT
Found at i:73336079 original size:15 final size:15
Alignment explanation
Indices: 73336059--73336102 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
73336049 ATATGATTTG
73336059 TATTTTGGATTTCTC
1 TATTTTGGATTTCTC
*
73336074 TATTTTGGATTCCTC
1 TATTTTGGATTTCTC
*
73336089 TATTTTGGTTTTCT
1 TATTTTGGATTTCT
73336103 TGTCATCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.11, C:0.14, G:0.14, T:0.61
Consensus pattern (15 bp):
TATTTTGGATTTCTC
Found at i:73339266 original size:45 final size:44
Alignment explanation
Indices: 73339191--73339276 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
73339181 GAACTATGTG
* *
73339191 ATCTGAACTCATGAGTTGTGGTCTGCGTTCATGACATATGTGAC
1 ATCTGAACTCATAAGTTGTGGTCTGAGTTCATGACATATGTGAC
*
73339235 ATCTGAACTCATTAAGGTT-TGGTCTGAGTTCATGATATATGT
1 ATCTGAACTCA-TAA-GTTGTGGTCTGAGTTCATGACATATGT
73339277 TACACATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.30
45 23 0.62
46 3 0.08
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (44 bp):
ATCTGAACTCATAAGTTGTGGTCTGAGTTCATGACATATGTGAC
Found at i:73345611 original size:6 final size:6
Alignment explanation
Indices: 73345593--73345646 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
73345583 AAAAAGAACT
* * * *
73345593 AAAATA ACAATA AACATA AACAT- TAAATA AAAATA AAAATA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
73345639 AAAATA AA
1 AAAATA AA
73345647 TAAACTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 8 0.20
6 32 0.80
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:73345622 original size:11 final size:11
Alignment explanation
Indices: 73345592--73345646 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
73345582 TAAAAAGAAC
*
73345592 TAAAATAACAA
1 TAAAATAAAAA
*
73345603 TAAACATAAACA
1 TAAA-ATAAAAA
*
73345615 TTAAATAAAAA
1 TAAAATAAAAA
73345626 TAAAAATAAAAA
1 T-AAAATAAAAA
73345638 TAAAATAAA
1 TAAAATAAA
73345647 TAAACTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:73345627 original size:23 final size:23
Alignment explanation
Indices: 73345575--73345646 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
73345565 TAAGTCTAAG
*
73345575 AAAATAATAAA-AAGAACTAAAATA
1 AAAATAA-AAATAA-AAATAAAATA
* * * *
73345599 ACAATAAACATAAACATTAAATA
1 AAAATAAAAATAAAAATAAAATA
73345622 AAAATAAAAATAAAAATAAAATA
1 AAAATAAAAATAAAAATAAAATA
73345645 AA
1 AA
73345647 TAAACTTAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
23 30 0.79
24 8 0.21
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (23 bp):
AAAATAAAAATAAAAATAAAATA
Found at i:73345642 original size:17 final size:17
Alignment explanation
Indices: 73345593--73345646 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
73345583 AAAAAGAACT
*
73345593 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
* *
73345611 AACAT-TAAATAAAAATA
1 AAAATAAAAAT-AAAATA
73345628 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
73345645 AA
1 AA
73345647 TAAACTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:73347102 original size:18 final size:17
Alignment explanation
Indices: 73347079--73347112 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
73347069 ACTAGCTAAG
73347079 AAATAATAATGAAGAAAA
1 AAATAATAA-GAAGAAAA
73347097 AAATAATAAGAAGAAA
1 AAATAATAAGAAGAAA
73347113 CGAAGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (17 bp):
AAATAATAAGAAGAAAA
Found at i:73347193 original size:17 final size:18
Alignment explanation
Indices: 73347159--73347193 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
73347149 ACTACTAGTA
73347159 AAAATAAGTTAAAATAAT
1 AAAATAAGTTAAAATAAT
*
73347177 AAAATAA-TTATAATAAT
1 AAAATAAGTTAAAATAAT
73347194 TATAATGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATAAGTTAAAATAAT
Found at i:73347373 original size:23 final size:23
Alignment explanation
Indices: 73347346--73347392 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
73347336 TAAGGATAAG
*
73347346 AAACAATTACAACTAGAAA-AATA
1 AAACAA-TACAACTAAAAATAATA
*
73347369 AAACAATATAACTAAAAATAATA
1 AAACAATACAACTAAAAATAATA
73347392 A
1 A
73347393 TATTAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.19
Consensus pattern (23 bp):
AAACAATACAACTAAAAATAATA
Found at i:73349493 original size:9 final size:9
Alignment explanation
Indices: 73349468--73349519 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
73349458 CAGGGGAAGG
73349468 AAAGAAAGA
1 AAAGAAAGA
73349477 AAAG--AGA
1 AAAGAAAGA
73349484 AAAGAAAGA
1 AAAGAAAGA
*
73349493 AAATAAGAGA
1 AAAGAA-AGA
73349503 AAAGAAAGA
1 AAAGAAAGA
*
73349512 AAAAAAAG
1 AAAGAAAG
73349520 GGAAAATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
9 22 0.59
10 8 0.22
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:73349502 original size:19 final size:19
Alignment explanation
Indices: 73349467--73349517 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
73349457 GCAGGGGAAG
73349467 GAAAGAAAGAAAAGAGAAAA
1 GAAAGAAA-AAAAGAGAAAA
*
73349487 GAAAGAAAATAAGAGAAAA
1 GAAAGAAAAAAAGAGAAAA
73349506 GAAAGAAAAAAA
1 GAAAGAAAAAAA
73349518 AGGGAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (19 bp):
GAAAGAAAAAAAGAGAAAA
Found at i:73351216 original size:46 final size:46
Alignment explanation
Indices: 73351164--73351391 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
73351154 AGTGTGCTCT
73351164 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
73351210 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
73351256 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
73351302 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
73351348 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
73351392 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:73351722 original size:17 final size:17
Alignment explanation
Indices: 73351670--73351723 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 17
73351660 ATATACATAA
*
73351670 GATATAAGGAAATG-AT
1 GATATAACGAAATGAAT
* * *
73351686 GATA-CATGAAAT-ATT
1 GATATAACGAAATGAAT
73351701 GATATAACGAAATGAAT
1 GATATAACGAAATGAAT
73351718 GATATA
1 GATATA
73351724 TGCTTATGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 11 0.38
16 10 0.34
17 8 0.28
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.28
Consensus pattern (17 bp):
GATATAACGAAATGAAT
Found at i:73354863 original size:19 final size:19
Alignment explanation
Indices: 73354814--73354863 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
73354804 TTTTAAGTGG
* * *
73354814 TTTTTTATTAATTTTTAAT
1 TTTTTTATAAATTTTGAAA
73354833 TTTTTTGA-AAATTTTGAAA
1 TTTTTT-ATAAATTTTGAAA
73354852 TTTTTTATAAAT
1 TTTTTTATAAAT
73354864 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTTATAAATTTTGAAA
Found at i:73356824 original size:85 final size:85
Alignment explanation
Indices: 73356674--73356847 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
73356664 ACCACCGTTG
* * * **
73356674 ATTTGCAATTATTGCCACTTGTTTTGGGTGCACAACATATTTGTAAATTAAATGAACTGCCACTT
1 ATTTGCAATTAGTGCCACTTGTTGTAGGTGCACAACATATTTGTAAATTAAACAAACTGCCACTT
73356739 GGCTCATGATCGAACCA-CAT
66 GGCTCATGATCGAA-CAGCAT
* * *
73356759 ATTTGCAATTAGTGCCACTTGTTGTAGGTGCACAACA-AGTTTGTAGATTAAACAAATTGCTACT
1 ATTTGCAATTAGTGCCACTTGTTGTAGGTGCACAACATA-TTTGTAAATTAAACAAACTGCCACT
*
73356823 TGGTTCATGATCGAACAGCAT
65 TGGCTCATGATCGAACAGCAT
73356844 ATTT
1 ATTT
73356848 ACTATTACTA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
84 3 0.04
85 75 0.96
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (85 bp):
ATTTGCAATTAGTGCCACTTGTTGTAGGTGCACAACATATTTGTAAATTAAACAAACTGCCACTT
GGCTCATGATCGAACAGCAT
Found at i:73356892 original size:85 final size:85
Alignment explanation
Indices: 73356674--73356893 Score: 228
Period size: 85 Copynumber: 2.6 Consensus size: 85
73356664 ACCACCGTTG
* * * * * **
73356674 ATTTGCAATTATTGCCACTTGTTTTGGGTGCACAACATATTTGTAAATTAAATGAACTGCCACTT
1 ATTTACAATTACTACCACTTGTTATGGGTGCACAACATATTTGTAGATTAAACAAACTGCCACTT
73356739 GGCTCATGATCGAACCACAT
66 GGCTCATGATCGAACCACAT
* * * * * * *
73356759 ATTTGCAATTAGTGCCACTTGTTGTAGGTGCACAACA-AGTTTGTAGATTAAACAAATTGCTACT
1 ATTTACAATTACTACCACTTGTTATGGGTGCACAACATA-TTTGTAGATTAAACAAACTGCCACT
*
73356823 TGGTTCATGATCGAA-CAGCAT
65 TGGCTCATGATCGAACCA-CAT
* * * * *
73356844 ATTTACTATTACTATCATTTGTTATGGGTGCACAATATATTTGCAGATTA
1 ATTTACAATTACTACCACTTGTTATGGGTGCACAACATATTTGTAGATTA
73356894 TTGAACTACC
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 3 0.03
85 109 0.96
86 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (85 bp):
ATTTACAATTACTACCACTTGTTATGGGTGCACAACATATTTGTAGATTAAACAAACTGCCACTT
GGCTCATGATCGAACCACAT
Found at i:73360967 original size:20 final size:20
Alignment explanation
Indices: 73360942--73360991 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
73360932 ATTATATAAA
73360942 TCAAGAAACGGATCAACCGG
1 TCAAGAAACGGATCAACCGG
*
73360962 TCAAGAAACGGATTAACCGG
1 TCAAGAAACGGATCAACCGG
*
73360982 TCAATAAACG
1 TCAAGAAACG
73360992 CGAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.14
Consensus pattern (20 bp):
TCAAGAAACGGATCAACCGG
Found at i:73361200 original size:13 final size:13
Alignment explanation
Indices: 73361182--73361208 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73361172 TTATAAATTG
73361182 AGGTTTAATTGAT
1 AGGTTTAATTGAT
73361195 AGGTTTAATTGAT
1 AGGTTTAATTGAT
73361208 A
1 A
73361209 AATACAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
AGGTTTAATTGAT
Found at i:73368376 original size:4 final size:4
Alignment explanation
Indices: 73368369--73368428 Score: 77
Period size: 4 Copynumber: 15.0 Consensus size: 4
73368359 ATGGTTTATT
* * *
73368369 TATG TATG TATG TTTG TATG TATG TACG TATG TAAG TATAG -ATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G TATG TATG
73368417 TATG TATG TATG
1 TATG TATG TATG
73368429 AATAAACTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 1 0.02
4 46 0.96
5 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:73370001 original size:22 final size:22
Alignment explanation
Indices: 73369970--73370013 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
73369960 AATAACTTAA
*
73369970 GTGGACGAAATGCAATCAACCT
1 GTGGACGAAATGCAACCAACCT
*
73369992 GTGGATGAAATGCAACCAACCT
1 GTGGACGAAATGCAACCAACCT
73370014 AACACGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (22 bp):
GTGGACGAAATGCAACCAACCT
Found at i:73395724 original size:35 final size:35
Alignment explanation
Indices: 73395685--73395755 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
73395675 AATTGCTAAG
*
73395685 TTCAACATATGAAGGCATAATTTAAACTTAATGAT
1 TTCAACATATGAAGGCATAAGTTAAACTTAATGAT
73395720 TTCAACATATGAAGGCATAAGTTAAACTTAATGAT
1 TTCAACATATGAAGGCATAAGTTAAACTTAATGAT
73395755 T
1 T
73395756 GTAGCTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (35 bp):
TTCAACATATGAAGGCATAAGTTAAACTTAATGAT
Found at i:73402888 original size:20 final size:22
Alignment explanation
Indices: 73402865--73402912 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
73402855 AATATTTCTA
*
73402865 ATTTTTTAATT-TCTTAAA-AT
1 ATTTTATAATTATCTTAAATAT
*
73402885 ATTTTATAATTATTTTAAATAT
1 ATTTTATAATTATCTTAAATAT
73402907 ATTTTA
1 ATTTTA
73402913 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 6 0.25
22 8 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTATAATTATCTTAAATAT
Found at i:73402914 original size:20 final size:20
Alignment explanation
Indices: 73402867--73402924 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
73402857 TATTTCTAAT
*
73402867 TTTTTAATT-TCTTAAAATA
1 TTTTTAATTATTTTAAAATA
73402886 TTTTATAATTATTTT-AAATA
1 TTTT-TAATTATTTTAAAATA
*
73402906 TATTTTAA-TATTTAAAAAT
1 T-TTTTAATTATTTTAAAAT
73402925 TTAAAAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 9 0.27
20 18 0.55
21 6 0.18
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAATTATTTTAAAATA
Found at i:73403520 original size:17 final size:16
Alignment explanation
Indices: 73403487--73403533 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
73403477 ATTTTATTTG
*
73403487 AAATTTAATATACTTAT
1 AAATTTAATA-ATTTAT
73403504 AAATTATAATAATTTAT
1 AAATT-TAATAATTTAT
73403521 AAATTTTAATAAT
1 AAA-TTTAATAAT
73403534 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTTAATAATTTAT
Found at i:73403552 original size:20 final size:20
Alignment explanation
Indices: 73403507--73403552 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
73403497 TACTTATAAA
73403507 TTATAATAATTTATAAATTT
1 TTATAATAATTTATAAATTT
* *
73403527 TAATAATATTTTA-AAATTGT
1 TTATAATAATTTATAAATT-T
73403547 TTATAA
1 TTATAA
73403553 ATTACGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATAATAATTTATAAATTT
Found at i:73406129 original size:2 final size:2
Alignment explanation
Indices: 73406122--73406147 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
73406112 TTTTATGGTA
73406122 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
73406148 TCATGAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73407303 original size:2 final size:2
Alignment explanation
Indices: 73407296--73407330 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
73407286 ACCTAAGTGT
73407296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73407331 TTGATATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:73409460 original size:30 final size:30
Alignment explanation
Indices: 73409424--73409483 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
73409414 TCACCAGCAA
73409424 ACAATGGTGCACAAATTTGTTTAATTTATT
1 ACAATGGTGCACAAATTTGTTTAATTTATT
73409454 ACAATGGTGCACAAATTTGTTTAATTTATT
1 ACAATGGTGCACAAATTTGTTTAATTTATT
73409484 CTTATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (30 bp):
ACAATGGTGCACAAATTTGTTTAATTTATT
Found at i:73409815 original size:16 final size:17
Alignment explanation
Indices: 73409790--73409822 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
73409780 ATAAAATTTA
*
73409790 AATATTTTAA-TAAAAT
1 AATATCTTAACTAAAAT
73409806 AATATCTTAACTAAAAT
1 AATATCTTAACTAAAAT
73409823 TTATTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATCTTAACTAAAAT
Found at i:73410421 original size:34 final size:34
Alignment explanation
Indices: 73410365--73410431 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
73410355 AAAAATTATT
* *
73410365 TAAATTAGGATTTATGGTTTTTAAATAGATTAAG
1 TAAATTAGGATTTATGGATTTTAAATAAATTAAG
* *
73410399 TAAATTAGGGTTCTA-GGATTTTAGATAAATTAA
1 TAAATTAGGATT-TATGGATTTTAAATAAATTAA
73410432 ATTAGGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (34 bp):
TAAATTAGGATTTATGGATTTTAAATAAATTAAG
Found at i:73410448 original size:22 final size:22
Alignment explanation
Indices: 73410423--73410464 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
73410413 AGGATTTTAG
73410423 ATAAATTAAATTAGGGTTTAAA
1 ATAAATTAAATTAGGGTTTAAA
73410445 ATAAATTAAATTAGGGTTTA
1 ATAAATTAAATTAGGGTTTA
73410465 TAGTTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (22 bp):
ATAAATTAAATTAGGGTTTAAA
Found at i:73410507 original size:86 final size:86
Alignment explanation
Indices: 73410364--73410521 Score: 264
Period size: 86 Copynumber: 1.8 Consensus size: 86
73410354 TAAAAATTAT
* * *
73410364 TTAAATTAGGATTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTAGGATTTTAGATAAAT
1 TTAAATTAGGATTTATAGTTGTTAAATAGATTAAGTAAATTAGGGCTCTAGGATTTTAGATAAAT
73410429 TAAATTAGGGTTTAAAATAAA
66 TAAATTAGGGTTTAAAATAAA
*
73410450 TTAAATTAGGGTTTATAGTTGTTAAATAGATTAAGTAAATTAGGGCTCTA-GAGTTTTAGATAAA
1 TTAAATTAGGATTTATAGTTGTTAAATAGATTAAGTAAATTAGGGCTCTAGGA-TTTTAGATAAA
73410514 TTAAATTA
65 TTAAATTA
73410522 AGATTTTGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
85 2 0.03
86 65 0.97
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.41
Consensus pattern (86 bp):
TTAAATTAGGATTTATAGTTGTTAAATAGATTAAGTAAATTAGGGCTCTAGGATTTTAGATAAAT
TAAATTAGGGTTTAAAATAAA
Found at i:73410517 original size:34 final size:34
Alignment explanation
Indices: 73410451--73410517 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
73410441 TAAAATAAAT
* * *
73410451 TAAATTAGGGTTTATAGTTGTTAAATAGATTAAG
1 TAAATTAGGGTCTAGAGTTGTTAAATAAATTAAG
*
73410485 TAAATTAGGGCTCTAGAGTT-TTAGATAAATTAA
1 TAAATTAGGG-TCTAGAGTTGTTAAATAAATTAA
73410518 ATTAAGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (34 bp):
TAAATTAGGGTCTAGAGTTGTTAAATAAATTAAG
Found at i:73410614 original size:22 final size:22
Alignment explanation
Indices: 73410562--73410615 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
73410552 AATTAGAGTT
* *
73410562 TTAGGGTTTTAGATAAATTAAA
1 TTAGGGTTTAAAATAAATTAAA
**
73410584 TTAAAGTTTAAAATAAATTAAA
1 TTAGGGTTTAAAATAAATTAAA
73410606 TTAGGGTTTA
1 TTAGGGTTTA
73410616 TGGTTTTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (22 bp):
TTAGGGTTTAAAATAAATTAAA
Found at i:73413865 original size:49 final size:49
Alignment explanation
Indices: 73413804--73413927 Score: 169
Period size: 49 Copynumber: 2.5 Consensus size: 49
73413794 ACATCAAAGT
*
73413804 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATTG-AGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATA-TGAAGGC
* * * * * *
73413853 CGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATGAATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATGAAGGC
73413902 CGATGCCATGTCCCAGACAGGTCTTA
1 CGATGCCATGTCCCAGACAGGTCTTA
73413928 TGCTGACACA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
48 2 0.03
49 63 0.97
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATGAAGGC
Found at i:73415350 original size:37 final size:37
Alignment explanation
Indices: 73415309--73415383 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
73415299 GATAGGTGAG
73415309 AATGAAAATGAATAAATACAGGAAGATTCAGATATGT
1 AATGAAAATGAATAAATACAGGAAGATTCAGATATGT
*
73415346 AATGAAAATGAATAAATACAGGAAGATTCAGGTATGT
1 AATGAAAATGAATAAATACAGGAAGATTCAGATATGT
73415383 A
1 A
73415384 TGATACCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (37 bp):
AATGAAAATGAATAAATACAGGAAGATTCAGATATGT
Found at i:73418262 original size:68 final size:67
Alignment explanation
Indices: 73418190--73418339 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
73418180 CATCATGTGT
* * * *
73418190 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
73418252 ATGTAG
62 ATGTAG
** * *
73418258 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
73418323 AG
66 AG
73418325 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
73418340 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:73418295 original size:64 final size:64
Alignment explanation
Indices: 73418214--73418397 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
73418204 AGACATTATG
* *
73418214 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
73418278 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
73418343 AA
63 AA
* * * *
73418345 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
73418398 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:73422737 original size:29 final size:29
Alignment explanation
Indices: 73422705--73422835 Score: 212
Period size: 29 Copynumber: 4.5 Consensus size: 29
73422695 ATAGTGAATC
73422705 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
73422734 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
73422764 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
73422793 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
73422821 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73422836 GTACAATTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.02
28 18 0.18
29 49 0.50
30 29 0.30
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:73422797 original size:59 final size:57
Alignment explanation
Indices: 73422705--73422835 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
73422695 ATAGTGAATC
*
73422705 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
73422764 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
73422821 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73422836 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 50 0.71
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:73422856 original size:59 final size:57
Alignment explanation
Indices: 73422705--73422865 Score: 180
Period size: 59 Copynumber: 2.8 Consensus size: 57
73422695 ATAGTGAATC
* * * * *
73422705 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAA--TTCAACT
* * * *
73422764 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTC-AACT
*
73422821 CGCACACTTAGTGCTGTACAATTTTAAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTT-AAACCCGCACACTTAGTGC
73422866 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 5 0.05
59 66 0.71
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTCAACT
Found at i:73422856 original size:88 final size:87
Alignment explanation
Indices: 73422705--73422865 Score: 225
Period size: 88 Copynumber: 1.8 Consensus size: 87
73422695 ATAGTGAATC
* * * * * *
73422705 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACA
1 CGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
73422770 CTTAGTGCTATATATTTTCAGCT
65 CTTAGTGCTATATATTTTCAGCT
*
73422793 CGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAACCCGCAC
1 CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTT-AAACCCGCAC
73422857 ACTTAGTGC
64 ACTTAGTGC
73422866 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
86 2 0.03
87 26 0.41
88 36 0.56
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (87 bp):
CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGCT
Found at i:73430660 original size:30 final size:30
Alignment explanation
Indices: 73430606--73430764 Score: 213
Period size: 30 Copynumber: 5.5 Consensus size: 30
73430596 ATAGTGAATC
73430606 CGCACACTTAGTGCTA-AT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
73430634 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
73430664 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
73430693 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
73430721 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
73430751 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73430765 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
27 2 0.02
28 38 0.32
29 31 0.26
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:73430755 original size:87 final size:87
Alignment explanation
Indices: 73430606--73430764 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 87
73430596 ATAGTGAATC
** * * * * *
73430606 CGCACACTTAGTGCTAATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACAC
1 CGCACACTTAGTGCTAATATAATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
73430671 TTAGTGCTATATATTTTCAGCT
66 TTAGTGCTATATATTTTCAGCT
*
73430693 CGCACACTTAGTGCT-ATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA
1 CGCACACTTAGTGCTAATATAATC-AACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
73430757 CTTAGTGC
65 CTTAGTGC
73430765 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 6 0.10
87 57 0.90
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (87 bp):
CGCACACTTAGTGCTAATATAATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGCT
Found at i:73433511 original size:41 final size:41
Alignment explanation
Indices: 73433454--73433600 Score: 215
Period size: 41 Copynumber: 3.6 Consensus size: 41
73433444 GGGTTTAAAA
73433454 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
73433495 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
* * * * * * * *
73433535 CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
73433576 CCGAGCTTGGTCTCGAAGGGCTTTT
1 CCGAGCTTGGTCTCGAAGGGCTTTT
73433601 TGAGTCAGCG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.35
41 59 0.65
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
Found at i:73440254 original size:40 final size:40
Alignment explanation
Indices: 73440199--73440344 Score: 292
Period size: 40 Copynumber: 3.6 Consensus size: 40
73440189 AACATTGGAA
73440199 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73440239 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73440279 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73440319 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
73440345 TTTGTGCAAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:73444097 original size:40 final size:40
Alignment explanation
Indices: 73444042--73444251 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
73444032 AACATTGGAA
73444042 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73444082 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73444122 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
73444162 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
73444201 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
73444242 CTATATCCGG
1 ATATATCCGG
73444252 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:73452223 original size:40 final size:40
Alignment explanation
Indices: 73452168--73452377 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
73452158 AACATTGGAA
73452168 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73452208 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73452248 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
73452288 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
73452327 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
73452368 CTATATCCGG
1 ATATATCCGG
73452378 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:73457007 original size:41 final size:41
Alignment explanation
Indices: 73456950--73457137 Score: 288
Period size: 41 Copynumber: 4.6 Consensus size: 41
73456940 GGGTTTAAAA
73456950 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
*
73456991 CCGAGCTTGGTCTCGAAGGCCTTTTGAGCCAGTGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
73457032 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
* * * * * * * *
73457072 CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAAT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
73457113 CCGAGCTTGGTCTCGAAGGGCTTTT
1 CCGAGCTTGGTCTCGAAGGGCTTTT
73457138 TGAGTCAGCG
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 32 0.25
41 98 0.75
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
Found at i:73457141 original size:82 final size:82
Alignment explanation
Indices: 73456950--73457137 Score: 290
Period size: 81 Copynumber: 2.3 Consensus size: 82
73456940 GGGTTTAAAA
* * *
73456950 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAGCTTGGTCTCGAAGGCCTTT
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGCCTTT
* *
73457015 TGAGCCAGTGTCATAAT
66 CGAGCCAATGTCATAAT
*
73457032 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAA-CCGAACCTAGTTTCGAAGGGCC-T
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAA-GGCCTT
*
73457095 TCGGGCCAATGTCATAAT
65 TCGAGCCAATGTCATAAT
73457113 CCGAGCTTGGTCTCGAAGGGCTTTT
1 CCGAGCTTGGTCTCGAAGGGCTTTT
73457138 TGAGTCAGCG
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 54 0.55
82 44 0.45
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (82 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGAACCTAGTCTCGAAGGCCTTT
CGAGCCAATGTCATAAT
Found at i:73458980 original size:19 final size:20
Alignment explanation
Indices: 73458956--73459007 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
73458946 ACTATAGCAA
73458956 CACACAATTT-CAA-TTATTT
1 CACAC-ATTTACAACTTATTT
73458975 CACACATTTACAACTTATTT
1 CACACATTTACAACTTATTT
*
73458995 TACA-ACTTTACAA
1 CACACA-TTTACAA
73459008 AATAGCACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 16 0.55
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (20 bp):
CACACATTTACAACTTATTT
Found at i:73459906 original size:29 final size:29
Alignment explanation
Indices: 73459873--73460030 Score: 192
Period size: 29 Copynumber: 5.4 Consensus size: 29
73459863 GTGACGAGAT
73459873 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
73459902 TGGCACTAAGTGTGCGTGTTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
73459931 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
73459960 TGGCACTAAGTGTGCGAGCTTGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
73459989 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
73460018 TGGCACTAAGTGT
1 TGGCACTAAGTGT
73460031 ACGAAATCGA
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.02
29 110 0.98
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:73464540 original size:18 final size:18
Alignment explanation
Indices: 73464514--73464645 Score: 75
Period size: 18 Copynumber: 7.6 Consensus size: 18
73464504 ACATAAATGA
*
73464514 AAAATATTAAACAATATTC
1 AAAA-ATTAAATAATATTC
*
73464533 AAAAATTAAA-ATTAATT-
1 AAAAATTAAATAAT-ATTC
* **
73464550 -AAAATTATATAA-ATAA
1 AAAAATTAAATAATATTC
73464566 AAAATATTAAATAATATTC
1 AAAA-ATTAAATAATATTC
*
73464585 AAAAATTAAA-ATTAATT-
1 AAAAATTAAATAAT-ATTC
* *
73464602 -AAAATTACATAA-A-TA
1 AAAAATTAAATAATATTC
73464617 AAAATATTAAATAATATTC
1 AAAA-ATTAAATAATATTC
*
73464636 AAAATTTAAA
1 AAAAATTAAA
73464646 GTAAACCGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
14 1 0.01
15 3 0.03
16 19 0.22
17 17 0.20
18 32 0.37
19 15 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTAAATAATATTC
Found at i:73464645 original size:51 final size:52
Alignment explanation
Indices: 73464489--73464645 Score: 271
Period size: 52 Copynumber: 3.0 Consensus size: 52
73464479 TATAAAATAC
* *
73464489 AAATTAATTAAAATTACATAAATGAAAAATATTAAACAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATAAAAAATATTAAATAATATTCAAAAATTA
*
73464541 AAATTAATTAAAATTATATAAATAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATAAAAAATATTAAATAATATTCAAAAATTA
*
73464593 AAATTAATTAAAATTACATAAAT-AAAAATATTAAATAATATTCAAAATTTA
1 AAATTAATTAAAATTACATAAATAAAAAATATTAAATAATATTCAAAAATTA
73464644 AA
1 AA
73464646 GTAAACCGTT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 29 0.29
52 71 0.71
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (52 bp):
AAATTAATTAAAATTACATAAATAAAAAATATTAAATAATATTCAAAAATTA
Found at i:73465299 original size:17 final size:18
Alignment explanation
Indices: 73465279--73465313 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
73465269 ATTTCTTGTA
73465279 AACTTTTA-AAATTTTAT
1 AACTTTTATAAATTTTAT
*
73465296 AACTTTTATATATTTTAT
1 AACTTTTATAAATTTTAT
73465314 TTTTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
AACTTTTATAAATTTTAT
Found at i:73471983 original size:23 final size:23
Alignment explanation
Indices: 73471940--73471983 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
73471930 AACAATAAAA
* *
73471940 TTTTAGTATTAATAATTATATTG
1 TTTTAGTATTAAAAATAATATTG
73471963 TTTTA-TATTCAAAAATAATAT
1 TTTTAGTATT-AAAAATAATAT
73471984 ATACATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
TTTTAGTATTAAAAATAATATTG
Found at i:73475438 original size:37 final size:37
Alignment explanation
Indices: 73475388--73475537 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
73475378 CTTTAGCTCA
* *
73475388 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
73475425 GACAAAATCTCCACACGTAGTCAGCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
73475462 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
73475499 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
73475536 GA
1 GA
73475538 ATATATTTCC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:73475814 original size:22 final size:22
Alignment explanation
Indices: 73475788--73475910 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
73475778 GTTCATATTC
73475788 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
73475810 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
73475834 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
73475857 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
73475881 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
73475904 ATCACAT
1 ATCACAT
73475911 ATATGCGCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 26 0.35
23 15 0.20
24 15 0.20
25 19 0.25
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:73475816 original size:47 final size:47
Alignment explanation
Indices: 73475742--73475935 Score: 307
Period size: 47 Copynumber: 4.1 Consensus size: 47
73475732 TATATATATT
* ** * *
73475742 TCACATTAGCCATTCGGTTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
73475789 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
73475836 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
***
73475883 TCACATTGGCCATTCGGCCTTATCACATATATGCGCATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
73475930 TCACAT
1 TCACAT
73475936 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:73475932 original size:25 final size:24
Alignment explanation
Indices: 73475810--73475936 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 24
73475800 ATTCGGCCTT
73475810 ATCACATATATG-CATGCTCACATTC
1 ATCACATATATGCCAT--TCACATTC
* * *
73475835 ATCACAT-T-GGCCATTCGGCCTT-
1 ATCACATATATGCCATTC-ACATTC
73475857 ATCACATATATG-CATGTTCACATTC
1 ATCACATATATGCCA--TTCACATTC
* * *
73475882 ATCACAT-T-GGCCATTCGGCCTT-
1 ATCACATATATGCCATTC-ACATTC
73475904 ATCACATATATGCGCATTCACATTC
1 ATCACATATATGC-CATTCACATTC
73475929 ATCACATA
1 ATCACATA
73475937 AAATCCTAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
22 19 0.25
23 12 0.16
24 16 0.21
25 30 0.39
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (24 bp):
ATCACATATATGCCATTCACATTC
Found at i:73482205 original size:48 final size:48
Alignment explanation
Indices: 73482115--73482417 Score: 222
Period size: 48 Copynumber: 6.5 Consensus size: 48
73482105 TTTGTGCACT
* * * *
73482115 AGTGTAAGA-CATGTTTGGGACAT-ACATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATTGGCCACATGATGAGAGCC
*
73482161 AGTGTAAGACCATGTCTGGGACATGACATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATTGGCCACATGATGAGAGCC
**** * *
73482209 AGTGTAAGACCATGTCTGGGACATGACATTAGGATTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGACATT-GGCCACATGATGAGAGCC
** * * *
73482257 AGTGTAAGA-CAT-TCTGGGACATG-CATCAGCCTCGA-GGTGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGACATTGGCCAC-ATGATG-AGAGCC
* * * *
73482302 AGAGTAAGA-CATGTCTGGGACATG-CATTGGCTACATGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGACATTGGCCACATGATGAGAGCC
* * * **
73482346 AGTGTAAGACCATGTCTAGGACATGGCA-TCGCCTTA-ATG-TGAGAATC
1 AGTGTAAGACCATGTCTGGGACATGACATTGGCC--ACATGATGAGAGCC
*
73482393 AGTGTAAGACCAAGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
73482418 GATTCGACAT
Statistics
Matches: 209, Mismatches: 34, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.05
45 40 0.19
46 45 0.22
47 43 0.21
48 67 0.32
49 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGACATTGGCCACATGATGAGAGCC
Found at i:73483600 original size:20 final size:21
Alignment explanation
Indices: 73483562--73483600 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73483552 TTATAATGAA
73483562 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
*
73483583 CACATGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
73483601 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:73488494 original size:49 final size:49
Alignment explanation
Indices: 73488424--73488597 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
73488414 TGAGGTCATG
*
73488424 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCA
* * * ***
73488473 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TTAG-TCGCA
*
73488524 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCA
*
73488573 TGTGTAGTACTAACTGCAGGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
73488598 GTGCGTACCT
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 60 0.56
50 11 0.10
51 36 0.34
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCA
Found at i:73488592 original size:100 final size:100
Alignment explanation
Indices: 73488419--73488606 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
73488409 TATTATGAGG
*
73488419 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGTAGTACT
*
73488484 AAGTGCAGGCTACTATGCGTACCCAATAACTTCGA
66 AACTGCAGGCTACTATGCGTACCCAATAACTTCGA
*
73488519 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGTAGTACT
*
73488584 AACTGCAGGCTACTGTGCGTACC
66 AACTGCAGGCTACTATGCGTACC
73488607 TGATAGCCTT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGTAGTACT
AACTGCAGGCTACTATGCGTACCCAATAACTTCGA
Found at i:73492098 original size:38 final size:38
Alignment explanation
Indices: 73492023--73492196 Score: 224
Period size: 38 Copynumber: 4.5 Consensus size: 38
73492013 GAATCCAGTC
* * *
73492023 ACCAGCACAAAACCTGTGGGACTTTAAGCTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATAAT
* *
73492063 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
*
73492101 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
**
73492139 ACCAGCACGAAGCCTATGGGATTTAACTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
* *
73492177 TCCAGCA-TATAGCCTGCGGG
1 ACCAGCACGA-AGCCTGCGGG
73492197 TCTTTAAGCC
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 95 0.80
39 5 0.04
40 18 0.15
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
Found at i:73492134 original size:76 final size:78
Alignment explanation
Indices: 73492023--73492212 Score: 249
Period size: 76 Copynumber: 2.5 Consensus size: 78
73492013 GAATCCAGTC
* * * *
73492023 ACCAGCACAAAACCTGTGGGACTTTAAGCTCGGATATAATACCAGCACTAAGCCTGCGGGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCTCGGATATAATACCAGCACGAAGCCTACGGGATTTA
73492088 ACCCGGATATAAT
66 ACCCGGATATAAT
* * *
73492101 ACCAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATATTACCAGCACGAAGCCTATGGGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCTCGGATATAATACCAGCACGAAGCCTACGGGATTTA
*
73492164 ACTCGGATATAAT
66 ACCCGGATATAAT
* * * * *
73492177 TCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCTCGGATA
73492213 CACATCAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
76 61 0.64
77 10 0.10
78 25 0.26
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (78 bp):
ACCAGCACAAAGCCTGCGGGACTTTAAGCTCGGATATAATACCAGCACGAAGCCTACGGGATTTA
ACCCGGATATAAT
Found at i:73495471 original size:40 final size:40
Alignment explanation
Indices: 73495346--73495473 Score: 156
Period size: 39 Copynumber: 3.2 Consensus size: 40
73495336 ATGCTGGAAA
* *
73495346 TTATATCC-GGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
73495385 CTACATCCGGGCTAAGACCC-AAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
73495424 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
73495464 TTATATCCGG
1 TTATATCCGG
73495474 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
38 3 0.04
39 37 0.49
40 35 0.47
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:73503458 original size:40 final size:40
Alignment explanation
Indices: 73503331--73503460 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
73503321 ATGCTGGAAA
* *
73503331 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
73503371 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
73503411 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
73503451 TTATATCCGG
1 TTATATCCGG
73503461 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:73510026 original size:40 final size:40
Alignment explanation
Indices: 73509899--73510028 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
73509889 ATGCTGGAAA
* *
73509899 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
73509939 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
73509979 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
73510019 TTATATCCGG
1 TTATATCCGG
73510029 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:73514119 original size:46 final size:46
Alignment explanation
Indices: 73514047--73514212 Score: 201
Period size: 46 Copynumber: 3.5 Consensus size: 46
73514037 TTTGTGTGCT
*
73514047 AGTGTAAGACCATGTCTGGGACATGCATCGGCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCACATTATGAGAGTC
* * * * *
73514093 AGTGTAAGATCATGTCTAGGATATGCATCGGCTACATGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACATTATGAGAGTC
* *
73514138 AGTGTAAGACTATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCAC--AT-TATGAGAGTC
73514188 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
73514213 GCATTGACAT
Statistics
Matches: 99, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
45 25 0.25
46 37 0.37
47 8 0.08
48 1 0.01
49 1 0.01
50 27 0.27
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACATTATGAGAGTC
Found at i:73516607 original size:32 final size:32
Alignment explanation
Indices: 73516555--73516648 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 32
73516545 CTATGGGCCA
* *
73516555 TACTGTTATC-GAAAAGGGGCTAAGGCCCAGT-T
1 TACTG-TATCTGAAAA-GGGCTTAGGCCCAGTAC
*
73516587 TACTGTATTCTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTA-TCTGAAAAGGGCTTAGGCCCAGTA-C
* *
73516621 TGCTGTATCTGAATAGGGCTTAGGCCCA
1 TACTGTATCTGAAAAGGGCTTAGGCCCA
73516649 ATGGGCTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.04
32 20 0.38
33 24 0.46
34 6 0.12
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (32 bp):
TACTGTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:73517707 original size:34 final size:35
Alignment explanation
Indices: 73517656--73517727 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
73517646 ATTCTGTAGT
*
73517656 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
73517690 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
73517725 TAG
1 TAG
73517728 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:73520009 original size:13 final size:12
Alignment explanation
Indices: 73519982--73520016 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
73519972 CCCATACGGG
73519982 TAATAAAAAAAA
1 TAATAAAAAAAA
*
73519994 TAATAAAAATATA
1 TAATAAAAA-AAA
73520007 TAATAAAAAA
1 TAATAAAAAA
73520017 TAGGCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
TAATAAAAAAAA
Found at i:73520432 original size:63 final size:63
Alignment explanation
Indices: 73520321--73520447 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
73520311 ACCCTAGGGT
73520321 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTTGCATGCCATGTTATTATTATCTGA
73520384 TAAGGTT-ACCTGAATGCATGTTTGA-TGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTT--TGCATGCCATGTTATTATTATCTGA
73520447 T
1 T
73520448 GTGGGACTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
61 11 0.18
62 18 0.29
63 33 0.53
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (63 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTTGCATGCCATGTTATTATTATCTGA
Done.