Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 305 of 318
Found at i:95338628 original size:17 final size:19
Alignment explanation
Indices: 95338478--95338620 Score: 230
Period size: 19 Copynumber: 7.9 Consensus size: 19
95338468 AATCATATCT
95338478 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
95338497 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
95338515 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
95338532 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
95338551 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
95338569 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
95338586 --TAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
95338603 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
95338621 TGAAGATTAT
Statistics
Matches: 116, Mismatches: 0, Indels: 16
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.07
17 29 0.25
18 32 0.28
19 47 0.41
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:95339151 original size:44 final size:45
Alignment explanation
Indices: 95338969--95339139 Score: 263
Period size: 45 Copynumber: 3.8 Consensus size: 45
95338959 GGAAGGCGAT
**
95338969 ATCTACTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTACTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
95339014 ATCTATTATCTTCAATCTGCTTCCCGTCTAATACAGAGACGCCAA
1 ATCTACTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
** * *
95339059 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTACTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
95339104 ATCTACT-TCTTCAATCTGCTCCCCGTCTAATACAGA
1 ATCTACTATCTTCAATCTGCTCCCCGTCTAATACAGA
95339140 AATGTCAAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
44 28 0.24
45 87 0.76
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (45 bp):
ATCTACTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:95339159 original size:89 final size:90
Alignment explanation
Indices: 95338976--95339165 Score: 292
Period size: 89 Copynumber: 2.1 Consensus size: 90
95338966 GATATCTACT
* * *
95338976 ATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATTATCTTCAATCTGCTTCCCGT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTATCTTCAATCTGCTCCCCGT
* *
95339041 CTAATACAGAGACGCCAAATCTGTT
66 CTAATACAGAAACGCCAAATCTGTC
*
95339066 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTACT-TCTTCAATCTGCTCCCCGT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTATCTTCAATCTGCTCCCCGT
* *
95339130 CTAATACAGAAATGTCAAATCTGTC
66 CTAATACAGAAACGCCAAATCTGTC
*
95339155 ATCTTGGATCT
1 ATCTTCGATCT
95339166 ACTTCGATGT
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 49 0.54
90 42 0.46
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTACTATCTTCAATCTGCTCCCCGT
CTAATACAGAAACGCCAAATCTGTC
Found at i:95339311 original size:78 final size:78
Alignment explanation
Indices: 95339182--95339680 Score: 788
Period size: 78 Copynumber: 6.4 Consensus size: 78
95339172 ATGTAAACAC
* * * * * *
95339182 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCTGTCTAATACAGAGATGCCAAATCAACT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATCT
95339247 TGGATCTGCTTCA
66 TGGATCTGCTTCA
**
95339260 ATGAAGGTCCA-ATCTATTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
95339324 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
95339338 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATCT
95339403 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
95339416 ATAAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
95339480 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
95339494 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATCT
95339559 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
95339572 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATC
95339636 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
95339650 ATGAAGGTCAGATCTACTATGTCTTCGATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCT
95339681 ACTCTCCGTT
Statistics
Matches: 388, Mismatches: 27, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
77 6 0.02
78 376 0.97
79 6 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:95339710 original size:156 final size:156
Alignment explanation
Indices: 95339182--95339689 Score: 908
Period size: 156 Copynumber: 3.3 Consensus size: 156
95339172 ATGTAAACAC
* *
95339182 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCTGTCTAATACAGAGATGCCAAATCAACT
1 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
95339247 TGGATCTGCTTCAATGAAGGTCCAATCTATTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
95339312 TGCCAAATCATCTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
* * *
95339338 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
95339403 TGGATCTGCTTCAATAAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
95339468 TGCCAAATCATCTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
* * *
95339494 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
95339559 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
95339624 TGCCAAATCATCTTGGATCTGCTTCA
131 TGCCAAATCATCTTGGATCTGCTTCA
* *
95339650 ATGAAGGTCAGATCTACTATGTCTTCGATCTACTCTCCGT
1 ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGT
95339690 TGAATATGGA
Statistics
Matches: 338, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 338 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (156 bp):
ATGAAGGTCAGATCTACTGTGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCA
Found at i:95339726 original size:20 final size:20
Alignment explanation
Indices: 95339698--95339737 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
95339688 GTTGAATATG
95339698 GAGACGCCAAATCTGTTTCT
1 GAGACGCCAAATCTGTTTCT
*
95339718 GAGATGCCAAATCTGTTTCT
1 GAGACGCCAAATCTGTTTCT
95339738 TCAATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (20 bp):
GAGACGCCAAATCTGTTTCT
Found at i:95348009 original size:18 final size:19
Alignment explanation
Indices: 95347976--95348012 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
95347966 GATATGATAC
*
95347976 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
95347995 TAAAA-TATATAAAAAAAT
1 TAAAATTATATAAAAAAAT
95348013 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:95348357 original size:35 final size:36
Alignment explanation
Indices: 95348301--95348426 Score: 193
Period size: 35 Copynumber: 3.5 Consensus size: 36
95348291 AATCATATGT
95348301 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
95348338 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
95348374 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
95348409 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
95348427 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
35 36 0.43
36 21 0.25
37 26 0.31
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:95348367 original size:54 final size:54
Alignment explanation
Indices: 95348301--95348426 Score: 252
Period size: 54 Copynumber: 2.3 Consensus size: 54
95348291 AATCATATGT
95348301 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
95348355 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
95348409 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
95348427 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:95348370 original size:14 final size:15
Alignment explanation
Indices: 95348315--95348424 Score: 87
Period size: 17 Copynumber: 6.5 Consensus size: 15
95348305 AGATTGCATA
95348315 TCATATCTAAGATTG
1 TCATATCTAAGATTG
95348330 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
95348348 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
95348365 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
95348384 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
95348402 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
95348419 -CATATC
1 TCATATC
95348425 ATTGAAGATT
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.37
18 31 0.36
19 17 0.20
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:95348434 original size:17 final size:19
Alignment explanation
Indices: 95348301--95348426 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
95348291 AATCATATGT
95348301 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
95348320 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
95348338 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
95348355 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
95348374 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
95348392 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
95348409 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
95348427 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 37 0.37
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:95350642 original size:12 final size:12
Alignment explanation
Indices: 95350627--95350663 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
95350617 ATCTTGATGG
95350627 AAATCTGCTTCA
1 AAATCTGCTTCA
95350639 AAATCTGCTTCA
1 AAATCTGCTTCA
95350651 AAATCTGCTTCA
1 AAATCTGCTTCA
95350663 A
1 A
95350664 TGGTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AAATCTGCTTCA
Found at i:95352689 original size:30 final size:30
Alignment explanation
Indices: 95352655--95352712 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
95352645 CATGGACTGG
*
95352655 CACATGGGCGTATGGCCAGCCCGTGTGGCT
1 CACATGGGCATATGGCCAGCCCGTGTGGCT
* *
95352685 CACATGGGCATGTGGCCTGCCCGTGTGG
1 CACATGGGCATATGGCCAGCCCGTGTGG
95352713 AAATGCCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (30 bp):
CACATGGGCATATGGCCAGCCCGTGTGGCT
Found at i:95354782 original size:34 final size:36
Alignment explanation
Indices: 95354739--95354818 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 36
95354729 AAATATAAGT
* * *
95354739 ATAAGAATAATTAAT-TAATTAATT-AATT-AGTAAA
1 ATAAAAATAAATAATATAA-TAATTAAATTAAATAAA
95354773 ATAAAAATAAATAATATAATAATTAAATTAAATAAA
1 ATAAAAATAAATAATATAATAATTAAATTAAATAAA
95354809 AT-AAAATAAA
1 ATAAAAATAAA
95354819 ATTGGGGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
34 18 0.45
35 15 0.38
36 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (36 bp):
ATAAAAATAAATAATATAATAATTAAATTAAATAAA
Found at i:95354801 original size:5 final size:5
Alignment explanation
Indices: 95354769--95354820 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
95354759 AATTAATTAG
* * *
95354769 TAAAA TAAAA -ATAAA TAATA TAATAA TTAAA TTAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TA-AAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA
95354820 T
1 T
95354821 TGGGGTGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 1 0.03
5 35 0.88
6 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (5 bp):
TAAAA
Found at i:95354812 original size:21 final size:20
Alignment explanation
Indices: 95354769--95354821 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
95354759 AATTAATTAG
* *
95354769 TAAAATAAAAATAAATAATA
1 TAAAATAAAATTAAATAAAA
*
95354789 TAATAATTAAATTAAATAAAA
1 TAA-AATAAAATTAAATAAAA
95354810 TAAAATAAAATT
1 TAAAATAAAATT
95354822 GGGGTGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAATAAAATTAAATAAAA
Found at i:95358529 original size:27 final size:27
Alignment explanation
Indices: 95358499--95358555 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 27
95358489 AAGAAGAATG
95358499 TTAGACGACAGCAACAAAGGAGAGTAA
1 TTAGACGACAGCAACAAAGGAGAGTAA
*
95358526 TT--A-GACAGCAACAAATGAGAGTAA
1 TTAGACGACAGCAACAAAGGAGAGTAA
95358550 TTAGAC
1 TTAGAC
95358556 TCAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 22 0.85
25 1 0.04
26 1 0.04
27 2 0.08
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.16
Consensus pattern (27 bp):
TTAGACGACAGCAACAAAGGAGAGTAA
Found at i:95358534 original size:24 final size:24
Alignment explanation
Indices: 95358505--95358555 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
95358495 AATGTTAGAC
95358505 GACAGCAACAAAGGAGAGTAATTA
1 GACAGCAACAAAGGAGAGTAATTA
*
95358529 GACAGCAACAAATGAGAGTAATTA
1 GACAGCAACAAAGGAGAGTAATTA
95358553 GAC
1 GAC
95358556 TCAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.14
Consensus pattern (24 bp):
GACAGCAACAAAGGAGAGTAATTA
Found at i:95360357 original size:7 final size:7
Alignment explanation
Indices: 95360345--95360371 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
95360335 TTTTCTTCAC
95360345 TTGAAAG
1 TTGAAAG
95360352 TTGAAAG
1 TTGAAAG
95360359 TTGAAAG
1 TTGAAAG
95360366 TTGAAA
1 TTGAAA
95360372 CCCTTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (7 bp):
TTGAAAG
Found at i:95363516 original size:23 final size:25
Alignment explanation
Indices: 95363479--95363531 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
95363469 TAAAAGTAAC
95363479 TATTTAATAGTTTACCTTT-TTTTA
1 TATTTAATAGTTTACCTTTATTTTA
95363503 TATTTAA-AGTTTACCTTTATTTTA
1 TATTTAATAGTTTACCTTTATTTTA
95363527 TATTT
1 TATTT
95363532 GGATTTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTTAATAGTTTACCTTTATTTTA
Found at i:95366663 original size:2 final size:2
Alignment explanation
Indices: 95366656--95366687 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95366646 AAATTTTTAA
95366656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95366688 TGGAGGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95375238 original size:22 final size:22
Alignment explanation
Indices: 95375213--95375255 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
95375203 TAAATTAATT
95375213 TAATTTTGAAATCAATTCTATG
1 TAATTTTGAAATCAATTCTATG
*
95375235 TAATTTTGAAATCTATTCTAT
1 TAATTTTGAAATCAATTCTAT
95375256 TAGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
TAATTTTGAAATCAATTCTATG
Found at i:95375416 original size:9 final size:10
Alignment explanation
Indices: 95375389--95375417 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
95375379 AATAATATCA
95375389 TTTAGAAAAT
1 TTTAGAAAAT
95375399 TTTAGAAAAT
1 TTTAGAAAAT
95375409 TTTA-AAAAT
1 TTTAGAAAAT
95375418 AATTTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTTAGAAAAT
Found at i:95384433 original size:45 final size:45
Alignment explanation
Indices: 95384369--95384458 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
95384359 TATTCTCCTC
95384369 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
1 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
95384414 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
1 ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
95384459 TGCTTGGATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (45 bp):
ACTAATTTGGGTAGAAATATTCCTAGTTAAAACTAGTGAGGAAAA
Found at i:95386079 original size:102 final size:96
Alignment explanation
Indices: 95385924--95386178 Score: 321
Period size: 101 Copynumber: 2.6 Consensus size: 96
95385914 ATTTGTATAC
* *
95385924 AAAATACGAGTTTTTTAAAAAAAAATTTGGTGCTGGCCTGTCAATGACTGGCACCAAGTACCAAA
1 AAAATACGAG-TTTTTAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCAAGTA-CAAA
*
95385989 AAAATCAAAATTTTTAAAGAAAAATTTTACTGTCCG
64 AAAATCAAAATTTTTAAA-AAAAA-ATTACTG-CCG
* *
95386025 AAAATACGAGTTTTAAAAAAAAAAATTTAGGTGCTGGTCTGTCAATGGCCGGCACCAAGTACAAA
1 AAAATACGAGTTTT-TAAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAA
** * *
95386090 AAAATCAATTTTTTTAAAAAAAAATTGCTGCTG
64 AAAATCAAAATTTTTAAAAAAAAATTACTGCCG
* * * *
95386123 AAAATACAAGTTTTTAAAAAAAAATTTGAGTGTTGGCCTATCAATAGCCGGCACCA
1 AAAATACGAGTTTTTAAAAAAAAATTTG-GTGCTGGCCTGTCAATGGCCGGCACCA
95386179 GATACGGGTT
Statistics
Matches: 136, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
96 1 0.01
97 35 0.26
98 15 0.11
99 5 0.04
100 9 0.07
101 42 0.31
102 29 0.21
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (96 bp):
AAAATACGAGTTTTTAAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAA
AATCAAAATTTTTAAAAAAAAATTACTGCCG
Found at i:95386253 original size:57 final size:58
Alignment explanation
Indices: 95386133--95386275 Score: 170
Period size: 60 Copynumber: 2.5 Consensus size: 58
95386123 AAAATACAAG
* * *
95386133 TTTTTAAAAAAAA--ATTTGAGTGTTGGCCTATCAATAGCCGGCACCAGATACGGGTTTT
1 TTTTTAAAAAAAATTTTTTGAGTGCTGGCCTATCAATAGCCGGCACCAGATACGAG--TT
* * *
95386191 TTTTTAAAAAAAATTTTTTGGGTGCTGGTCTATCAATGGCCGGCACCAGATACGAG-T
1 TTTTTAAAAAAAATTTTTTGAGTGCTGGCCTATCAATAGCCGGCACCAGATACGAGTT
95386248 TTTTTAAAAAAAATTTGTTT--GTGCTGGC
1 TTTTTAAAAAAAATTT-TTTGAGTGCTGGC
95386276 TTGTCAATGG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
56 7 0.09
57 17 0.23
58 16 0.21
60 35 0.47
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (58 bp):
TTTTTAAAAAAAATTTTTTGAGTGCTGGCCTATCAATAGCCGGCACCAGATACGAGTT
Found at i:95386283 original size:56 final size:56
Alignment explanation
Indices: 95386126--95386294 Score: 166
Period size: 57 Copynumber: 3.0 Consensus size: 56
95386116 GCTGCTGAAA
* * * * * *
95386126 ATACAAGTTTTTAAAAAAAAATTTG--AGTGTTGGCCTATCAATAGCCGGCACCAG
1 ATACGAGTTTTTTAAAAAAAATTTGTTTGTGCTGGCTTATCAATGGCCGGCACCAG
*
95386180 ATACGGGTTTTTTTTTAAAAAAAATTT-TTTGGGTGCTGG-TCTATCAATGGCCGGCACCAG
1 ATACGAG---TTTTTTAAAAAAAATTTGTTT--GTGCTGGCT-TATCAATGGCCGGCACCAG
* * *
95386240 ATACGAGTTTTTTAAAAAAAATTTGTTTGTGCTGGCTTGTCAATGGTCAGCACCA
1 ATACGAGTTTTTTAAAAAAAATTTGTTTGTGCTGGCTTATCAATGGCCGGCACCA
95386295 AGTACAAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
54 5 0.05
56 22 0.23
57 34 0.36
58 3 0.03
60 30 0.32
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (56 bp):
ATACGAGTTTTTTAAAAAAAATTTGTTTGTGCTGGCTTATCAATGGCCGGCACCAG
Found at i:95395749 original size:54 final size:53
Alignment explanation
Indices: 95395691--95395796 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 53
95395681 TCAGTCAGAG
95395691 TATATGCTTCCTAATAGGGAATTTTGATATCTTATGATACATCTTAATTCAAAT
1 TATATGCTTCCTAATAGGGAATTTTGATATCTTA-GATACATCTTAATTCAAAT
*
95395745 TATATGCTTCCTAATAGGGGATTTTGATATCTTAGATACATCTTAATTCAAA
1 TATATGCTTCCTAATAGGGAATTTTGATATCTTAGATACATCTTAATTCAAA
95395797 AGTAAAAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 18 0.35
54 33 0.65
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (53 bp):
TATATGCTTCCTAATAGGGAATTTTGATATCTTAGATACATCTTAATTCAAAT
Found at i:95403242 original size:2 final size:2
Alignment explanation
Indices: 95403235--95403259 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95403225 AAATTTTAAC
95403235 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
95403260 AATGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95403717 original size:15 final size:16
Alignment explanation
Indices: 95403689--95403725 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
95403679 AATTTTAAAG
*
95403689 AAAAATTTATTATTTT
1 AAAAATTGATTATTTT
95403705 AAAAATTGA-TATTTT
1 AAAAATTGATTATTTT
95403720 AAAAAT
1 AAAAAT
95403726 ATCAGTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AAAAATTGATTATTTT
Found at i:95405491 original size:20 final size:20
Alignment explanation
Indices: 95405454--95405497 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
95405444 AGAAATATTG
* *
95405454 GTAAATCGTCAAATATTTTA
1 GTAAATCCTCAAAAATTTTA
* *
95405474 GTAAATCCTTAAAAATTTTG
1 GTAAATCCTCAAAAATTTTA
95405494 GTAA
1 GTAA
95405498 TTATTAAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
GTAAATCCTCAAAAATTTTA
Found at i:95405728 original size:20 final size:20
Alignment explanation
Indices: 95405699--95405850 Score: 55
Period size: 20 Copynumber: 7.7 Consensus size: 20
95405689 AGAAAATTTG
*
95405699 AAAATATTGGTAAAATCTTA
1 AAAATTTTGGTAAAATCTTA
* *
95405719 AAAATTTTGGTGAAGT-TTCA
1 AAAATTTTGGTAAAATCTT-A
* **
95405739 TAAATATTT-GTAAAATGATA
1 AAAAT-TTTGGTAAAATCTTA
* * *
95405759 GAAATTTTGAT-AACTCGTTA
1 AAAATTTTGGTAAAATC-TTA
* *
95405779 AATATTTTGAT-AAATCCTTA
1 AAAATTTTGGTAAAAT-CTTA
* *
95405799 GAAATTTTAGT-AAATCGTTA
1 AAAATTTTGGTAAAATC-TTA
* * * *
95405819 AATATATTGATAAAA-CATA
1 AAAATTTTGGTAAAATCTTA
*
95405838 GAAATTTTGGTAA
1 AAAATTTTGGTAA
95405851 TTGTTAAGAC
Statistics
Matches: 95, Mismatches: 29, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
19 20 0.21
20 67 0.71
21 8 0.08
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (20 bp):
AAAATTTTGGTAAAATCTTA
Found at i:95405801 original size:40 final size:40
Alignment explanation
Indices: 95405739--95405850 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
95405729 TGAAGTTTCA
* *
95405739 TAAATAT-TTG-TAAAATGATAGAAATTTTGA-TAACTCGT
1 TAAATATATTGATAAAA-CATAGAAATTTTGAGTAAATCGT
* * *
95405777 TAAATATTTTGATAAATCCTTAGAAATTTT-AGTAAATCGT
1 TAAATATATTGATAAA-ACATAGAAATTTTGAGTAAATCGT
95405817 TAAATATATTGATAAAACATAGAAATTTTG-GTAA
1 TAAATATATTGATAAAACATAGAAATTTTGAGTAA
95405851 TTGTTAAGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 7 0.11
39 19 0.31
40 36 0.58
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (40 bp):
TAAATATATTGATAAAACATAGAAATTTTGAGTAAATCGT
Found at i:95406270 original size:2 final size:2
Alignment explanation
Indices: 95406263--95406310 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
95406253 TGCACCATCC
* * * *
95406263 AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT GT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95406305 AT AT AT
1 AT AT AT
95406311 CATTAGCCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95406282 original size:14 final size:14
Alignment explanation
Indices: 95406263--95406310 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
95406253 TGCACCATCC
*
95406263 ATATATATATATAT
1 ATATATGTATATAT
*
95406277 ATATATGTATGTAT
1 ATATATGTATATAT
*
95406291 ATATATGTGTATAT
1 ATATATGTATATAT
95406305 ATATAT
1 ATATAT
95406311 CATTAGCCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (14 bp):
ATATATGTATATAT
Found at i:95406291 original size:16 final size:16
Alignment explanation
Indices: 95406263--95406310 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
95406253 TGCACCATCC
*
95406263 ATATATATATATATAT
1 ATATGTATATATATAT
*
95406279 ATATGTATGTATATAT
1 ATATGTATATATATAT
*
95406295 ATGTGTATATATATAT
1 ATATGTATATATATAT
95406311 CATTAGCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
ATATGTATATATATAT
Found at i:95414508 original size:16 final size:17
Alignment explanation
Indices: 95414489--95414530 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
95414479 AATCACTTCA
*
95414489 AAATTTATAT-AATTAT
1 AAATTTATATAAATGAT
*
95414505 AAATTAATATAAATGAT
1 AAATTTATATAAATGAT
*
95414522 AAAATTATA
1 AAATTTATA
95414531 GTTTAGTCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATTTATATAAATGAT
Found at i:95418855 original size:17 final size:18
Alignment explanation
Indices: 95418828--95418873 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
95418818 AATACAACCC
95418828 AAAAT-AAAAAAT-AAAA
1 AAAATAAAAAAATGAAAA
*
95418844 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAATGAAAA
*
95418862 AAAAGAAAAAAA
1 AAAATAAAAAAA
95418874 CCTAACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAAATGAAAA
Found at i:95420087 original size:19 final size:19
Alignment explanation
Indices: 95420063--95420101 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
95420053 TGAGATTGCC
*
95420063 AACCTATTTGCCTGAAATT
1 AACCTATTTACCTGAAATT
*
95420082 AACCTATTTATCTGAAATT
1 AACCTATTTACCTGAAATT
95420101 A
1 A
95420102 TTCATTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (19 bp):
AACCTATTTACCTGAAATT
Found at i:95425867 original size:40 final size:40
Alignment explanation
Indices: 95425759--95426048 Score: 465
Period size: 40 Copynumber: 7.2 Consensus size: 40
95425749 CGGGATTTAA
* * * * *
95425759 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
95425799 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
95425839 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
95425879 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
95425919 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
95425959 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
95425999 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
95426039 CCGGATATAT
1 CCGGATATAT
95426049 TTCCAATGTT
Statistics
Matches: 233, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.00
40 232 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:95430024 original size:43 final size:43
Alignment explanation
Indices: 95429977--95430097 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
95429967 CCTTGATTGA
* * *
95429977 GATTTACGTATAAGACCATGTTTGGGACATTGGCATCG-TATCT
1 GATTTACATGTAAGACCATGTATGGGACATTGGCATCGATAT-T
* * **
95430020 GATTT-CATGTAAGACCCTGTATGGGATAGAGGCATCGATATT
1 GATTTACATGTAAGACCATGTATGGGACATTGGCATCGATATT
* ** *
95430062 GAATTACATGTAAGACCATGTCCGGGACGTTGGCAT
1 GATTTACATGTAAGACCATGTATGGGACATTGGCAT
95430098 TGTACTTGGT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTTACATGTAAGACCATGTATGGGACATTGGCATCGATATT
Found at i:95432801 original size:5 final size:5
Alignment explanation
Indices: 95432765--95432821 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
95432755 AACCTAAATT
* * *
95432765 AATAA AATCA AATCA AATAAA AATAAA TAATAA AATAAA AATAA AACAA
1 AATAA AATAA AATAA AAT-AA AAT-AA -AATAA AAT-AA AATAA AATAA
95432814 AATAA AAT
1 AATAA AAT
95432822 CTTTCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 28 0.62
6 14 0.31
7 3 0.07
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:95433484 original size:18 final size:18
Alignment explanation
Indices: 95433461--95433497 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
95433451 ATTAACATAT
95433461 TCACATTTGAACATGCTA
1 TCACATTTGAACATGCTA
95433479 TCACATTTGAACATGCTA
1 TCACATTTGAACATGCTA
95433497 T
1 T
95433498 AACAATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (18 bp):
TCACATTTGAACATGCTA
Found at i:95434493 original size:21 final size:20
Alignment explanation
Indices: 95434453--95434493 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
95434443 ATTTTTTTCT
*
95434453 TAAAATTAAAGATAAATTAA
1 TAAAATTAAACATAAATTAA
*
95434473 TAAAATTAAGACATTAATTAA
1 TAAAATTAA-ACATAAATTAA
95434494 AAGAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAATTAAACATAAATTAA
Found at i:95436932 original size:24 final size:25
Alignment explanation
Indices: 95436875--95437048 Score: 73
Period size: 24 Copynumber: 6.8 Consensus size: 25
95436865 AAAAAAACTT
*
95436875 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
95436899 TATCTATATTATATT-TTA-TTACATAA
1 TAT-T-TATTATATTATTATTTACAT-A
* *
95436925 TATTTATTATACTA-T-TTTATAT-
1 TATTTATTATATTATTATTTACATA
*
95436947 TTTATTATTATATTATTTTACACTTTA-ATA
1 TAT-TTATTATATTA--TT--A-TTTACATA
95436977 TATGTTATTTTATATTATTA-TTACATCA
1 TAT-TTA--TTATATTATTATTTACAT-A
* **
95437005 TATTTATTAT-GTATT-TTTGTATA
1 TATTTATTATATTATTATTTACATA
95437028 T-TATTATCTATATTATTATTT
1 TAT-TTAT-TATATTATTATTT
95437049 TGATAGATTT
Statistics
Matches: 115, Mismatches: 11, Indels: 46
0.67 0.06 0.27
Matches are distributed among these distances:
22 3 0.03
23 16 0.14
24 28 0.24
25 15 0.13
26 16 0.14
27 11 0.10
28 5 0.04
29 2 0.02
30 11 0.10
32 8 0.07
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:95436958 original size:23 final size:23
Alignment explanation
Indices: 95436928--95436999 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
95436918 TACATAATAT
*
95436928 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
95436951 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
95436974 ATA-TATGTTATTTTATATTATTA
1 TTATTATATTATTTTATATT-TTA
95436997 TTA
1 TTA
95437000 CATCATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 13 0.32
23 27 0.68
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:95440496 original size:2 final size:2
Alignment explanation
Indices: 95440489--95440525 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
95440479 GTGTAAATAA
*
95440489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95440526 AATTTATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:95448051 original size:68 final size:69
Alignment explanation
Indices: 95447920--95448057 Score: 181
Period size: 68 Copynumber: 2.0 Consensus size: 69
95447910 TCCCACCTTT
* * * *
95447920 TCTTTTAAATGGCATCAAAACATTTCCAAGATACCAATCAAGTCCAAAAGATATCAACCAATAAG
1 TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAAG
95447985 CCAA
66 CCAA
* * * *
95447989 TCTTTCAAATGGCATCAAAAC-TAGT-CAATATACTAGTCAAGTCCAACAGAAAACAACCAATAA
1 TCTTTCAAATGGCATCAAAACAT-GTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAA
95448052 GCCAA
65 GCCAA
95448057 T
1 T
95448058 AGTCTGTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
68 39 0.65
69 21 0.35
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.22
Consensus pattern (69 bp):
TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAGAAAACAACCAATAAG
CCAA
Found at i:95450527 original size:33 final size:33
Alignment explanation
Indices: 95450489--95450561 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
95450479 ATTTAAAACT
*
95450489 TTTCATTTTAACTTATTAAACTATTCAAAAAAA
1 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
95450522 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
1 TTTCATTTTAACTTATCAAACTATTCAAAAAAA
95450555 TTT-ATTT
1 TTTCATTT
95450562 GTGCCTCAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (33 bp):
TTTCATTTTAACTTATCAAACTATTCAAAAAAA
Found at i:95451340 original size:38 final size:38
Alignment explanation
Indices: 95451298--95451374 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
95451288 TTTAGACAAC
95451298 TATATATGATATTGATACCACTCATAAACTCAGCCCGG
1 TATATATGATATTGATACCACTCATAAACTCAGCCCGG
95451336 TATATATGATATTGATACCACTCATAAACTCAGCCCGG
1 TATATATGATATTGATACCACTCATAAACTCAGCCCGG
95451374 T
1 T
95451375 TTAGTCCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (38 bp):
TATATATGATATTGATACCACTCATAAACTCAGCCCGG
Found at i:95451530 original size:8 final size:8
Alignment explanation
Indices: 95451519--95451546 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
95451509 AAACACTCAA
95451519 TTAAGCTC
1 TTAAGCTC
95451527 TTAAGCTC
1 TTAAGCTC
95451535 TTAAGCTC
1 TTAAGCTC
95451543 TTAA
1 TTAA
95451547 ACCTTTCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (8 bp):
TTAAGCTC
Found at i:95452525 original size:57 final size:55
Alignment explanation
Indices: 95452413--95452526 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 55
95452403 CCTGCAGAGA
** *
95452413 AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTTTCCACCATTTGGTTTATTCTT
1 AGTTGAACACCTTTTAGTTTGCTTATGTA--TTTTTTCCACCATTACGTTCATTCTT
* *
95452470 AGTTGAACTCCTTTTAGTAGTCTGCTTATGTA-TTTTTCCTCCATTACGTTCATTCTT
1 AGTTGAACACCTTTTAGT--T-TGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
95452527 GGTCAAACAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 38 0.78
59 1 0.02
60 10 0.20
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (55 bp):
AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
Found at i:95456158 original size:11 final size:11
Alignment explanation
Indices: 95456144--95456183 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
95456134 ATAAATAATT
95456144 TAAAAATTATC
1 TAAAAATTATC
* *
95456155 TAAAAAATAATT
1 T-AAAAATTATC
95456167 TAAAAATTATC
1 TAAAAATTATC
95456178 TAAAAA
1 TAAAAA
95456184 ATATAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATC
Found at i:95456162 original size:12 final size:12
Alignment explanation
Indices: 95456145--95456185 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
95456135 TAAATAATTT
95456145 AAAAATTATCTA
1 AAAAATTATCTA
* *
95456157 AAAAATAAT-TT
1 AAAAATTATCTA
95456168 AAAAATTATCTA
1 AAAAATTATCTA
95456180 AAAAAT
1 AAAAAT
95456186 ATAATTTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATTATCTA
Found at i:95456166 original size:23 final size:23
Alignment explanation
Indices: 95456136--95456186 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
95456126 GAAAAAATAT
95456136 AAATAATTTAAAAATTATCTAAA
1 AAATAATTTAAAAATTATCTAAA
95456159 AAATAATTTAAAAATTATCTAAA
1 AAATAATTTAAAAATTATCTAAA
95456182 AAATA
1 AAATA
95456187 TAATTTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAATTTAAAAATTATCTAAA
Found at i:95456578 original size:1 final size:1
Alignment explanation
Indices: 95456574--95456611 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
95456564 CTAAAAAGGT
95456574 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
95456612 GAAGGTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:95457011 original size:20 final size:21
Alignment explanation
Indices: 95456986--95457025 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
95456976 GATTAAAAAG
*
95456986 AAAATTGAT-ATTTTTATTAA
1 AAAATTCATCATTTTTATTAA
95457006 AAAATTCATCCATTTTTATT
1 AAAATTCAT-CATTTTTATT
95457026 GTTTAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
AAAATTCATCATTTTTATTAA
Found at i:95460726 original size:50 final size:51
Alignment explanation
Indices: 95460649--95460777 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
95460639 GACCATGACA
* *
95460649 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTG
1 ACAAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* *
95460700 A-AAGTGATAAATGATAGTTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
*
95460750 ACAAGTGA-AAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAA-TGATAGCTTCGGCTAC
95460778 CTGATCAGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 49 0.70
51 21 0.30
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:95460791 original size:31 final size:31
Alignment explanation
Indices: 95460753--95460901 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
95460743 ACAAATGACA
95460753 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
95460784 AGTGAAAAGTGGTAGCTTCGGCTACCTGA-C
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
95460814 TAGTGAAAAGTGGTAGCTTCGGCTATCTGACC
1 -AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
95460846 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
95460877 AGTGAATAGTGGTATCTTAGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
95460902 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 106 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:95462652 original size:44 final size:45
Alignment explanation
Indices: 95462562--95462690 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
95462552 GACAGAACGA
*
95462562 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
95462608 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
95462652 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
95462691 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:95465084 original size:31 final size:31
Alignment explanation
Indices: 95465049--95465113 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
95465039 GTAATAAAAT
* * * *
95465049 AGTCATTAAAGTATTTAAAATTTTTTATTTA
1 AGTCAATAAACTATTCAAAAGTTTTTATTTA
95465080 AGTCAATAAACTATTCAAAAGTTTTTATTTA
1 AGTCAATAAACTATTCAAAAGTTTTTATTTA
95465111 AGT
1 AGT
95465114 TAACATGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTCAATAAACTATTCAAAAGTTTTTATTTA
Found at i:95467743 original size:21 final size:21
Alignment explanation
Indices: 95467717--95467756 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
95467707 ACTTTTTATG
95467717 TTGGTTGGTACATATATTACA
1 TTGGTTGGTACATATATTACA
95467738 TTGGTTGGTACATATATTA
1 TTGGTTGGTACATATATTA
95467757 AATATTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGGTTGGTACATATATTACA
Found at i:95470382 original size:13 final size:14
Alignment explanation
Indices: 95470364--95470410 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
95470354 TTTTAATTTT
95470364 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
95470377 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
*
95470392 ATTTTAAATAATATT
1 ATTTT-AATAATATA
95470407 ATTT
1 ATTT
95470411 ACATATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
15 12 0.43
16 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:95470390 original size:16 final size:16
Alignment explanation
Indices: 95470368--95470404 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
95470358 AATTTTATTT
95470368 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
95470385 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
95470400 TAATA
1 TAATA
95470405 TTATTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:95471567 original size:13 final size:13
Alignment explanation
Indices: 95471549--95471585 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
95471539 TGTACAATTG
95471549 TAATTTAAATATA
1 TAATTTAAATATA
*
95471562 TAATTT-ACT-TA
1 TAATTTAAATATA
95471573 TAATTTAAATATA
1 TAATTTAAATATA
95471586 AAGATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 8 0.40
12 4 0.20
13 8 0.40
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTTAAATATA
Found at i:95471767 original size:33 final size:30
Alignment explanation
Indices: 95471707--95471767 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
95471697 TACAATTGTA
*
95471707 ATATTTTTATTTAATTATTTAAGTAAATAG
1 ATATTTTTATTTAATTATTAAAGTAAATAG
*
95471737 ATATTTATTATTTATTATTATTAAATTAAAT
1 ATATTT-TTATTTA--ATTATTAAAGTAAAT
95471768 TAAAGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
33 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
ATATTTTTATTTAATTATTAAAGTAAATAG
Found at i:95472056 original size:13 final size:15
Alignment explanation
Indices: 95472027--95472068 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
95472017 GTTTATATAT
95472027 ATATATAAAGTGAATAA
1 ATATATAAA--GAATAA
95472044 A-ATA-AAAGAATAA
1 ATATATAAAGAATAA
95472057 ATATATAAAGAA
1 ATATATAAAGAA
95472069 AGAAAGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.30
14 3 0.13
15 9 0.39
16 3 0.13
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (15 bp):
ATATATAAAGAATAA
Found at i:95472910 original size:44 final size:44
Alignment explanation
Indices: 95472810--95472901 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
95472800 TGTTCAGGGA
* *
95472810 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTATTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACTATAAGTGTCATACTGT
**
95472854 TACTTCGACTTCGAGTCGATGAGGCACCT-TGTGTGTCATACTGT
1 TACTTCGACTTCGAGTCGATGAGGCA-CTATAAGTGTCATACTGT
95472898 TACT
1 TACT
95472902 GTTACTTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.07
44 37 0.88
45 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACTATAAGTGTCATACTGT
Found at i:95472990 original size:47 final size:47
Alignment explanation
Indices: 95472870--95472990 Score: 109
Period size: 47 Copynumber: 2.5 Consensus size: 47
95472860 GACTTCGAGT
* * ** **
95472870 CGATGAGGCACCTTGTGTGTCATACTGTTACTGTTACTTCGGTTTAATT
1 CGATGAGGCA-C-TGAGTGCCATACTGTTACTGTTACTTCGGTCAAAGC
* * * * *
95472919 TGATGAGGTACTAAGTACCGTACTGTTACTGTTTACTTCGG-CAAAGC
1 CGATGAGGCACTGAGTGCCATACTGTTACTG-TTACTTCGGTCAAAGC
95472966 CGATGAGGCACTGAGTGCCATACTG
1 CGATGAGGCACTGAGTGCCATACTG
95472991 GTGTGTTGGT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
47 37 0.67
48 10 0.18
49 8 0.15
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (47 bp):
CGATGAGGCACTGAGTGCCATACTGTTACTGTTACTTCGGTCAAAGC
Found at i:95482712 original size:47 final size:47
Alignment explanation
Indices: 95482629--95482781 Score: 225
Period size: 47 Copynumber: 3.2 Consensus size: 47
95482619 ACTGTTTGTT
* *
95482629 TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
1 TCTGCCATTGTATGAAT-ACATTATCAAACTGATGTGTATTGTGTATA
95482677 TCTGCCATTGTATGAATACATTATCAAACTGATGTGTATTGTGTATA
1 TCTGCCATTGTATGAATACATTATCAAACTGATGTGTATTGTGTATA
* * *
95482724 TCTACCATTGTATGAATGCATTATCAAACTGATCATGTTTATTGTGTATA
1 TCTGCCATTGTATGAATACATTATCAAACTG---ATGTGTATTGTGTATA
95482774 TCTGCCAT
1 TCTGCCAT
95482782 GATGTTTATT
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
47 57 0.59
48 17 0.18
50 22 0.23
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.41
Consensus pattern (47 bp):
TCTGCCATTGTATGAATACATTATCAAACTGATGTGTATTGTGTATA
Found at i:95482786 original size:25 final size:25
Alignment explanation
Indices: 95482758--95482806 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
95482748 CAAACTGATC
*
95482758 ATGTTTATTGTGTATATCTGCCATG
1 ATGTTTATTGTGTATATCTACCATG
95482783 ATGTTTATTGTGTATATCTACCAT
1 ATGTTTATTGTGTATATCTACCAT
95482807 TATCAAACTG
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:0.22, C:0.12, G:0.16, T:0.49
Consensus pattern (25 bp):
ATGTTTATTGTGTATATCTACCATG
Found at i:95483101 original size:15 final size:15
Alignment explanation
Indices: 95483081--95483121 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
95483071 GAAAACATGT
*
95483081 CTGGTAATGATGTGC
1 CTGGTAGTGATGTGC
*
95483096 CTGGTAGTGATGTGT
1 CTGGTAGTGATGTGC
95483111 CTGGTAGTGAT
1 CTGGTAGTGAT
95483122 AGTGATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (15 bp):
CTGGTAGTGATGTGC
Found at i:95484896 original size:40 final size:42
Alignment explanation
Indices: 95484763--95484896 Score: 150
Period size: 42 Copynumber: 3.2 Consensus size: 42
95484753 TTGTTGATCA
* * *
95484763 CATGCACTGATTGTTGGAAAGCTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTTGG-AAGCTGTTGCCTATTTTTTAATATG
* * *
95484805 TATGCAATGATTGTTGGAAAGCTGTTGTCTA-TTTTCAATATG
1 CATGCAATGATTGTTGG-AAGCTGTTGCCTATTTTTTAATATG
*
95484847 CATGCAATGATTGTTGG-TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAGCTGTTGCCTATTTTTTAATATG
*
95484887 CATACAATGA
1 CATGCAATGA
95484897 GTTTTTTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
39 8 0.10
40 20 0.25
42 52 0.65
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (42 bp):
CATGCAATGATTGTTGGAAGCTGTTGCCTATTTTTTAATATG
Found at i:95484930 original size:26 final size:26
Alignment explanation
Indices: 95484873--95484930 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
95484863 GTGTGTTGCC
* *
95484873 TATTTTTTAATATGCATACAATGAGT
1 TATTTTATAATATGCATACAATGACT
* ** *
95484899 TTTTTTATAATATGCATGTAGTGACT
1 TATTTTATAATATGCATACAATGACT
95484925 TATTTT
1 TATTTT
95484931 TTAGGGGTGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTATAATATGCATACAATGACT
Found at i:95485636 original size:21 final size:21
Alignment explanation
Indices: 95485610--95485663 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
95485600 CTCAACAAGG
* *
95485610 TGCCCCAAGTCAGTTACCTAC
1 TGCCCCAACTCAGATACCTAC
95485631 TGCCCCAACTCAGATACCTAC
1 TGCCCCAACTCAGATACCTAC
* *
95485652 TGTCCTAACTCA
1 TGCCCCAACTCA
95485664 TCAAGAAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.39, G:0.11, T:0.24
Consensus pattern (21 bp):
TGCCCCAACTCAGATACCTAC
Found at i:95486241 original size:28 final size:30
Alignment explanation
Indices: 95486209--95486267 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
95486199 AACCATTTTT
95486209 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
95486237 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
95486267 A
1 A
95486268 TTTCATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:95486615 original size:38 final size:38
Alignment explanation
Indices: 95486564--95486639 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
95486554 CCAGCTGAAA
95486564 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
1 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
*
95486602 AACCAACATGGTTTTCGAAATGCATTGCCGAATTTCTT
1 AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
95486640 CCACCTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (38 bp):
AACCAACATGGTTTTCGAAATGCACTGCCGAATTTCTT
Found at i:95486771 original size:26 final size:26
Alignment explanation
Indices: 95486742--95486797 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
95486732 GCATATCCAT
*
95486742 TTTTCCT-CTTCTCTTTCTTCTTCTTC
1 TTTTCCTCCTCCT-TTTCTTCTTCTTC
* *
95486768 TTTTCTTCCTCCTTTTCTTTTTCTTC
1 TTTTCCTCCTCCTTTTCTTCTTCTTC
95486794 TTTT
1 TTTT
95486798 TCTTTTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTCCTCCTCCTTTTCTTCTTCTTC
Found at i:95486800 original size:15 final size:15
Alignment explanation
Indices: 95486750--95486806 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
95486740 ATTTTTCCTC
* *
95486750 TTCTCTTTCTTCTTC
1 TTCTTTTTCTTCTTT
95486765 TTC-TTTTCTTCCTCCTT
1 TTCTTTTTCTT-CT--TT
95486782 TTCTTTTTCTTCTTT
1 TTCTTTTTCTTCTTT
95486797 TTCTTTTTCT
1 TTCTTTTTCT
95486807 CAAACCCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 6 0.17
15 17 0.47
17 6 0.17
18 7 0.19
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTTTTTCTTCTTT
Found at i:95491586 original size:18 final size:20
Alignment explanation
Indices: 95491563--95491603 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
95491553 TACATATACA
95491563 TTTTTAAC-TTG-AATTTAT
1 TTTTTAACTTTGAAATTTAT
*
95491581 TTTTTATCTTTGAAATTTAT
1 TTTTTAACTTTGAAATTTAT
95491601 TTT
1 TTT
95491604 ATTTCATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTAACTTTGAAATTTAT
Found at i:95492050 original size:29 final size:30
Alignment explanation
Indices: 95491992--95492099 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 30
95491982 ATTGTACATG
* * *
95491992 AATTTTAATTTAATATATAATTTGATATAT-A
1 AATTTTAATTTGAT-TGTAATAT-ATATATGA
95492023 AATTTTAATTTGA-TGTAATTATATATATGA
1 AATTTTAATTTGATTGTAA-TATATATATGA
*
95492053 AATTTTAATTATGATTTTAATATATATATGA
1 AATTTTAATT-TGATTGTAATATATATATGA
*
95492084 AACTTTAATTTTGATT
1 AATTTTAA-TTTGATT
95492100 CAATCAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
29 10 0.15
30 13 0.19
31 38 0.57
32 6 0.09
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (30 bp):
AATTTTAATTTGATTGTAATATATATATGA
Found at i:95492099 original size:31 final size:32
Alignment explanation
Indices: 95492016--95492099 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 32
95492006 ATATAATTTG
95492016 ATATAT-AAATTTTAA-TTTGA-TGTAATTAT
1 ATATATGAAATTTTAATTTTGATTGTAATTAT
* *
95492045 ATATATGAAATTTTAATTATGATTTTAA-TAT
1 ATATATGAAATTTTAATTTTGATTGTAATTAT
*
95492076 ATATATGAAACTTTAATTTTGATT
1 ATATATGAAATTTTAATTTTGATT
95492100 CAATCAAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.12
30 9 0.19
31 29 0.60
32 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (32 bp):
ATATATGAAATTTTAATTTTGATTGTAATTAT
Found at i:95504062 original size:14 final size:14
Alignment explanation
Indices: 95504045--95504083 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
95504035 ATTTTTTGAA
*
95504045 AAATAATTTTTTTC
1 AAATAATTTTATTC
*
95504059 AAATTATTTTATTC
1 AAATAATTTTATTC
*
95504073 CAATAATTTTA
1 AAATAATTTTA
95504084 CAAAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (14 bp):
AAATAATTTTATTC
Found at i:95505088 original size:29 final size:29
Alignment explanation
Indices: 95505051--95505119 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
95505041 AAATTCTTTT
* *
95505051 AAATTTTTAAAAAACATA-AAAAATTATAA
1 AAATATTTAAAAAACATATAAAAACTA-AA
*
95505080 AAATATTTAAAAAATATATAAAAACTAAA
1 AAATATTTAAAAAACATATAAAAACTAAA
*
95505109 AAA-ACTTAAAA
1 AAATATTTAAAA
95505120 TTTTTAGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.20
29 21 0.60
30 7 0.20
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (29 bp):
AAATATTTAAAAAACATATAAAAACTAAA
Found at i:95505145 original size:9 final size:9
Alignment explanation
Indices: 95505069--95505260 Score: 68
Period size: 9 Copynumber: 20.7 Consensus size: 9
95505059 AAAAAACATA
95505069 AAAAATTAT
1 AAAAATTAT
*
95505078 AAAAATATTT
1 AAAAAT-TAT
95505088 AAAAAATATAT
1 -AAAAAT-TAT
* *
95505099 AAAAACTAA
1 AAAAATTAT
*
95505108 AAAAACT-T
1 AAAAATTAT
* *
95505116 AAAATTTTT
1 AAAAATTAT
* * *
95505125 AGAATTTTT
1 AAAAATTAT
95505134 AAAAATTAT
1 AAAAATTAT
95505143 AAAAA-TAT
1 AAAAATTAT
*
95505151 AAAAA-TAA
1 AAAAATTAT
95505159 AAAAATTATTT
1 AAAAATTA--T
95505170 AAAAATTAT
1 AAAAATTAT
* **
95505179 -GAAAGCAT
1 AAAAATTAT
*
95505187 AACAAACTAT
1 AA-AAATTAT
*
95505197 AAAAATATTT
1 AAAAAT-TAT
**
95505207 AAAAACAAT
1 AAAAATTAT
**
95505216 AAAAGCTATT
1 AAAAATTA-T
*
95505226 AAAAATTAC
1 AAAAATTAT
95505235 AAAATATTAT
1 AAAA-ATTAT
* *
95505245 AATACATCAT
1 AA-AAATTAT
95505255 AAAAAT
1 AAAAAT
95505261 AAAAAAAATA
Statistics
Matches: 138, Mismatches: 33, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
8 25 0.18
9 55 0.40
10 40 0.29
11 18 0.13
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:95505171 original size:36 final size:38
Alignment explanation
Indices: 95505127--95505211 Score: 106
Period size: 36 Copynumber: 2.3 Consensus size: 38
95505117 AAATTTTTAG
*
95505127 AATT-TTTAAAAATTATAAAAATATAA-AAA-TAAAAA
1 AATTATTTAAAAATTATAAAAACATAACAAACTAAAAA
* * *
95505162 AATTATTTAAAAATTATGAAAGCATAACAAACTATAAA
1 AATTATTTAAAAATTATAAAAACATAACAAACTAAAAA
95505200 AA-TATTTAAAAA
1 AATTATTTAAAAA
95505212 CAATAAAAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.09
36 19 0.44
37 13 0.30
38 7 0.16
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (38 bp):
AATTATTTAAAAATTATAAAAACATAACAAACTAAAAA
Found at i:95506244 original size:27 final size:27
Alignment explanation
Indices: 95506206--95506260 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
95506196 TTAATATTTT
95506206 TCAAATATTTTTAATAATTTTATAGTA
1 TCAAATATTTTTAATAATTTTATAGTA
* **
95506233 TCAAATTTTTTTTGTAATTTTATAGTA
1 TCAAATATTTTTAATAATTTTATAGTA
95506260 T
1 T
95506261 GTTACGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (27 bp):
TCAAATATTTTTAATAATTTTATAGTA
Found at i:95507945 original size:6 final size:6
Alignment explanation
Indices: 95507936--95507970 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
95507926 GAATAAAGAG
*
95507936 AAAGGA AAAGGC AAAGGC AAAGGC AAAGGC AAAGG
1 AAAGGC AAAGGC AAAGGC AAAGGC AAAGGC AAAGG
95507971 AATGCTTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.34, T:0.00
Consensus pattern (6 bp):
AAAGGC
Found at i:95508850 original size:10 final size:10
Alignment explanation
Indices: 95508835--95508859 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
95508825 ACTTTTCATT
95508835 ATTATAAATC
1 ATTATAAATC
95508845 ATTATAAATC
1 ATTATAAATC
95508855 ATTAT
1 ATTAT
95508860 TATATCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATAAATC
Found at i:95508941 original size:22 final size:21
Alignment explanation
Indices: 95508920--95508960 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
95508910 TTAAACATTA
95508920 ATTTAATAAAAAAT-AATTATT
1 ATTT-ATAAAAAATAAATTATT
*
95508941 ATTTATATAAAATAAATTAT
1 ATTTATAAAAAATAAATTAT
95508961 ATTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTATAAAAAATAAATTATT
Found at i:95508963 original size:20 final size:20
Alignment explanation
Indices: 95508916--95508963 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
95508906 TTAATTAAAC
95508916 ATTA-ATTTAATAAAAAATA
1 ATTATATTTAATAAAAAATA
*
95508935 ATTATTATTT-ATATAAAATAA
1 ATTA-TATTTAATAAAAAAT-A
95508956 ATTATATT
1 ATTATATT
95508964 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTATATTTAATAAAAAATA
Found at i:95514341 original size:31 final size:30
Alignment explanation
Indices: 95514283--95514363 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 30
95514273 AAGTTGTGGG
*
95514283 TTTAGTC-TCTATAC-TTTTATTTGATCAAT
1 TTTAGTCAT-TATACTTTTTAATTGATCAAT
95514312 TTTAGTCATTATACTTTTTGAATTGATCAAT
1 TTTAGTCATTATACTTTTT-AATTGATCAAT
*
95514343 TTTAGTCATTGTACTTTTTAA
1 TTTAGTCATTATACTTTTTAA
95514364 AATTTGAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
29 12 0.26
30 7 0.15
31 28 0.60
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (30 bp):
TTTAGTCATTATACTTTTTAATTGATCAAT
Found at i:95516377 original size:32 final size:32
Alignment explanation
Indices: 95516334--95516396 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
95516324 TTTGTGTAAT
*
95516334 TATATAAATAAAATTTTGATTATAATTTAAAA
1 TATATAAATAAAATTTTAATTATAATTTAAAA
* *
95516366 TATATATATAAAATTTTAATTTTAATTTAAA
1 TATATAAATAAAATTTTAATTATAATTTAAA
95516397 TTATTGGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
TATATAAATAAAATTTTAATTATAATTTAAAA
Found at i:95519335 original size:2 final size:2
Alignment explanation
Indices: 95519328--95519354 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95519318 ATGTGTCTCC
95519328 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
95519355 AGAGAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:95520505 original size:6 final size:6
Alignment explanation
Indices: 95520494--95520522 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
95520484 TACATGTAAT
95520494 ATGTTG ATGTTG ATGTTG ATGTTG ATGTT
1 ATGTTG ATGTTG ATGTTG ATGTTG ATGTT
95520523 TATATATATA
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:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (6 bp):
ATGTTG
Found at i:95524590 original size:29 final size:29
Alignment explanation
Indices: 95524548--95524604 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
95524538 GGTAGAAGAG
95524548 TAAGGCAAATAAATAAGAAGCAATAACAT
1 TAAGGCAAATAAATAAGAAGCAATAACAT
95524577 TAAGGCAAATAAATAAGAAGCAATAACA
1 TAAGGCAAATAAATAAGAAGCAATAACA
95524605 CTAAATTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.16
Consensus pattern (29 bp):
TAAGGCAAATAAATAAGAAGCAATAACAT
Found at i:95524599 original size:15 final size:15
Alignment explanation
Indices: 95524552--95524599 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
95524542 GAAGAGTAAG
95524552 GCAAATAAATAAGAA
1 GCAAATAAATAAGAA
95524567 GC-AATAACATTAAG--
1 GCAAATAA-A-TAAGAA
95524581 GCAAATAAATAAGAA
1 GCAAATAAATAAGAA
95524596 GCAA
1 GCAA
95524600 TAACACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 12 0.43
16 4 0.14
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (15 bp):
GCAAATAAATAAGAA
Found at i:95524601 original size:14 final size:14
Alignment explanation
Indices: 95524555--95524602 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
95524545 GAGTAAGGCA
95524555 AATAAATAAGAAGC
1 AATAAATAAGAAGC
95524569 AATAACATTAAG--GC
1 AATAA-A-TAAGAAGC
95524583 AAATAAATAAGAAGC
1 -AATAAATAAGAAGC
95524598 AATAA
1 AATAA
95524603 CACTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 8 0.28
16 4 0.14
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.17
Consensus pattern (14 bp):
AATAAATAAGAAGC
Found at i:95527011 original size:3 final size:3
Alignment explanation
Indices: 95527003--95527299 Score: 233
Period size: 3 Copynumber: 99.7 Consensus size: 3
95526993 GGGGAAAAAT
* *
95527003 ATA ATA AT- ATA A-A AGTA GTA ATA ATA ATA ATA A-A TATA GTA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
95527047 ATA ATA GTA ATA A-A A-A AT- AGA ACA ACAA ATA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA
* * * * * *
95527092 ATA AAA ATA ATA AGA AT- TTG TTA ATA ATA ATA A-A TTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
95527137 ATGA ATAA ATAA ATA A-A CACA AAA ATA A-A AT- ATA ATT ATA ATA GTA
1 AT-A AT-A AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
95527183 ATA TTA ACA A-A ATA ATA ATA ATA ATA ATA ATA CATTA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
95527229 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95527277 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
95527300 GTGATAAAGC
Statistics
Matches: 242, Mismatches: 31, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
2 21 0.09
3 198 0.82
4 19 0.08
5 4 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:95528312 original size:44 final size:45
Alignment explanation
Indices: 95528211--95528314 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 45
95528201 TTTAATCTGT
* *
95528211 TCCACTACAAA-TTCAGGGAAATAAGATTCGTTATTTTCAATCTAC
1 TCCACTA-AAACTTCAGGGAAATAAGATTCGTGATCTTCAATCTAC
** * *
95528256 TCCACTGCAACTTCAGGGAGATAAGACTT-GTGA-CTTCAATCTTC
1 TCCACTAAAACTTCAGGGAAATAAGA-TTCGTGATCTTCAATCTAC
95528300 TCCACTAAAACTTCA
1 TCCACTAAAACTTCA
95528315 AAGAGATCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
44 24 0.49
45 23 0.47
46 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (45 bp):
TCCACTAAAACTTCAGGGAAATAAGATTCGTGATCTTCAATCTAC
Found at i:95528598 original size:87 final size:87
Alignment explanation
Indices: 95528380--95528751 Score: 436
Period size: 87 Copynumber: 4.3 Consensus size: 87
95528370 TGTAATTTCC
* * *
95528380 AGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATT-GCCTTCGATCTGTTTCCTTACTGCTT
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCC-TTCACCTTCGATCTGTTTCCCTACTGCTT
*
95528444 AGGGGGTTAAGATCTG------T
65 AGGGGGATAAGATCTGTAAATTT
** * * *
95528461 AGCCTGTTACCCTACTATTTTAGGGATTTAAGGTCCATCACCTTCGATCTGTTTCCCTACTGCTT
1 AGCCTGTTACCCTACT-GCTTAGGGGTTTAAGGCCCTTCACCTTCGATCTGTTTCCCTACTGCTT
*
95528526 AGGGTGATAAGATCTGTAAATTT
65 AGGGGGATAAGATCTGTAAATTT
* **
95528549 AGCCTATTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCACCTTCGATCTGTTTCCCTACTGCTTA
*
95528614 GGGTGATAAGATCTGTAAATTT
66 GGGGGATAAGATCTGTAAATTT
* * * * * *
95528636 AGCTTGTTACCCGACTGCTTAGGGGTTTAAGGCCCTTCATCGTCGATCTG-CTCCACTACTACTT
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCACCTTCGATCTGTTTCC-CTACTGCTT
* * *
95528700 AGGGGGTTAAAATCTGTAAATTC
65 AGGGGGATAAGATCTGTAAATTT
* *
95528723 AGCCTGTTACCCTATTGTTTAGGGGTTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTA
95528752 GATCTGTAAA
Statistics
Matches: 250, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
81 17 0.07
82 53 0.21
86 3 0.01
87 161 0.64
88 16 0.06
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (87 bp):
AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCACCTTCGATCTGTTTCCCTACTGCTTA
GGGGGATAAGATCTGTAAATTT
Found at i:95528749 original size:42 final size:42
Alignment explanation
Indices: 95528509--95528964 Score: 176
Period size: 43 Copynumber: 10.6 Consensus size: 42
95528499 CACCTTCGAT
* * * *
95528509 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAAATCTGTAAATTCAGC
* *** * *
95528552 CTATTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT--CTTC-GAT
1 CTGTTACCCTACTGCTTAGGGG-TTAA-AATC-T-GTAAATTCAG-C
* * * *
95528596 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAAATCTGTAAATTCAGC
* * * ** ** ** *
95528639 TTGTTACCCGACTGCTTAGGGGTTTAAGGCCCTTCATCGTC-GAT
1 CTGTTACCCTACTGCTTAGGGGTTAAAATCTGTAAAT--TCAG-C
* *
95528683 CTGCT-CCACTACTACTTAGGGGGTTAAAATCTGTAAATTCAGC
1 CTGTTACC-CTACTGCTTA-GGGGTTAAAATCTGTAAATTCAGC
* * * *
95528726 CTGTTACCCTATTGTTTAGGGGTTTAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGTTAAAATCTGTAAATTCAGC
* * ** * *
95528768 CTGTTATCCTACTGCTTAGGGGTTTGAAGCCCAT-TGT-CGTTGA-T
1 CTGTTACCCTACTGCTTAGGGG-TT-AA---AATCTGTAAATTCAGC
* * *
95528812 CTGCT-CCACTACTGCTTAGGGGTTAAGATCTGTAAATTCAGT
1 CTGTTACC-CTACTGCTTAGGGGTTAAAATCTGTAAATTCAGC
* * ** ** *
95528854 CTGTTACCCTACTGCTTAGGGGTTTAAGTCCCATCACCTTC-GAT
1 CTGTTACCCTACTGCTTAGGGGTTAAAAT-CTGT-AAATTCAG-C
* * * *
95528898 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAAATCTGTAAATTCAGC
* *
95528941 CTGTTACCTTATTGCTTAGGGGTT
1 CTGTTACCCTACTGCTTAGGGGTT
95528965 TAAGGCCTGT
Statistics
Matches: 297, Mismatches: 85, Indels: 63
0.67 0.19 0.14
Matches are distributed among these distances:
39 2 0.01
40 3 0.01
41 5 0.02
42 81 0.27
43 89 0.30
44 85 0.29
45 25 0.08
46 5 0.02
47 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAAATCTGTAAATTCAGC
Found at i:95528786 original size:129 final size:128
Alignment explanation
Indices: 95528596--95528879 Score: 392
Period size: 129 Copynumber: 2.2 Consensus size: 128
95528586 CGTCTTCGAT
* * * * *
95528596 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCTTGTTACCCGACTGCTTAGGGG
1 CTGTTACCCTACTGCTTAGGG-GTTTAGATCTGTAAATTCAGCCTGTTACCCGACTGCTTAGGGG
95528661 TTT-AAGGCCC-TTCATCGTCGATCTGCTCCACTACTACTTAGGGGGTTAAAATCTGTAAATTCA
65 TTTGAA-GCCCATT-ATCGTCGATCTGCTCCACTACTACTTA-GGGGTTAAAATCTGTAAATTCA
95528724 GC
127 GC
* * * *
95528726 CTGTTACCCTATTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTATCCTACTGCTTAGGGGT
1 CTGTTACCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACCCGACTGCTTAGGGGT
* * * * *
95528791 TTGAAGCCCATTGTCGTTGATCTGCTCCACTACTGCTTAGGGGTTAAGATCTGTAAATTCAGT
66 TTGAAGCCCATTATCGTCGATCTGCTCCACTACTACTTAGGGGTTAAAATCTGTAAATTCAGC
95528854 CTGTTACCCTACTGCTTAGGGGTTTA
1 CTGTTACCCTACTGCTTAGGGGTTTA
95528880 AGTCCCATCA
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
128 46 0.34
129 68 0.50
130 22 0.16
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (128 bp):
CTGTTACCCTACTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTACCCGACTGCTTAGGGGT
TTGAAGCCCATTATCGTCGATCTGCTCCACTACTACTTAGGGGTTAAAATCTGTAAATTCAGC
Found at i:95528918 original size:215 final size:216
Alignment explanation
Indices: 95528509--95528966 Score: 606
Period size: 215 Copynumber: 2.1 Consensus size: 216
95528499 CACCTTCGAT
* * * * *
95528509 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGG
1 CTGTTACCCTATTGCTTAGGG-GTTTAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGG
* *
95528574 TTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGC
65 TTTAAGGCCCTTCGTCTTCGATCTGTCTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGC
* *
95528639 TTGTTACCCGACTGCTTAGGGGTTTAAGGCCCTTCATCGTCGATCTGCTCCACTACTACTTAGGG
130 TTGTTACCCGACTGCTTAGGGGTTTAAGGCCCATCACCGTCGATCTGCTCCACTACTACTTAGGG
*
95528704 GGTTAAAATCTGTAAATTCAGC
195 GGTTAAAATCTGTAAATTCAAC
* * *
95528726 CTGTTACCCTATTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTATCCTACTGCTTAGGGGT
1 CTGTTACCCTATTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGGT
*
95528791 TTGAA-GCCCATT-GTCGTT-GATCTG-CTCCACTACTGCTTAGGG-GTTAAGATCTGTAAATTC
66 TT-AAGGCCC-TTCGTC-TTCGATCTGTCTCC-CTACTGCTTAGGGTGATAAGATCTGTAAATTC
* * * * *
95528851 AG-TCTGTTACCCTACTGCTTAGGGGTTTAAGTCCCATCACCTTCGATCTGTTTCC-CTACTGCT
127 AGCT-TGTTACCCGACTGCTTAGGGGTTTAAGGCCCATCACCGTCGATCTG-CTCCACTACTACT
* *
95528914 TAGGGGGTTAAGATCTGTAAATTTAAC
190 TAGGGGGTTAAAATCTGTAAATTCAAC
*
95528941 CTGTTACCTTATTGCTTAGGGGTTTA
1 CTGTTACCCTATTGCTTAGGGGTTTA
95528967 AGGCCTGTGA
Statistics
Matches: 212, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
214 1 0.00
215 117 0.55
216 70 0.33
217 24 0.11
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (216 bp):
CTGTTACCCTATTGCTTAGGGGTTTAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGGT
TTAAGGCCCTTCGTCTTCGATCTGTCTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCT
TGTTACCCGACTGCTTAGGGGTTTAAGGCCCATCACCGTCGATCTGCTCCACTACTACTTAGGGG
GTTAAAATCTGTAAATTCAAC
Found at i:95528964 original size:87 final size:84
Alignment explanation
Indices: 95528726--95528968 Score: 292
Period size: 86 Copynumber: 2.8 Consensus size: 84
95528716 TAAATTCAGC
* * * *
95528726 CTGTTACCCTATTGTTTAGGGGTTTAGATCTGTAAATTCAGCCTGTTATCCTACTGCTTAGGGGT
1 CTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTA-CCTACTGCTTAGGGGT
** *
95528791 TTGAAGCCCATTGTCGTTGAT
65 TT-AAGCCCATTCACCTTGAT
* *
95528812 CTG-CTCCACTACTGCTTAGGGGTTAAGATCTGTAAATTCAGTCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCC-CTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTA-CCTACTGCTTAGGGG
95528876 TTTAAGTCCCA-TCACCTTCGAT
64 TTTAAG-CCCATTCACCTT-GAT
* * *
95528898 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTGTTACCTTATTGCTTAGGGG
1 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATTCAGCCTGTTACC-TACTGCTTAGGGG
95528963 TTTAAG
64 TTTAAG
95528969 GCCTGTGAAT
Statistics
Matches: 136, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
85 9 0.07
86 79 0.58
87 48 0.35
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (84 bp):
CTGTTTCCCTACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCTACTGCTTAGGGGTT
TAAGCCCATTCACCTTGAT
Found at i:95530198 original size:30 final size:30
Alignment explanation
Indices: 95530164--95530249 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
95530154 AAAACCCTAG
95530164 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
95530194 CCACCTTGCCTCCCACTTGCACCTACTCTA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
95530224 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
95530250 ACCATCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:95530216 original size:18 final size:18
Alignment explanation
Indices: 95530165--95530217 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
95530155 AAACCCTAGC
95530165 CACCTTGCCTCCCACTTG
1 CACCTTGCCTCCCACTTG
*
95530183 CACC-T-ACT-CCAC---
1 CACCTTGCCTCCCACTTG
95530195 CACCTTGCCTCCCACTTG
1 CACCTTGCCTCCCACTTG
95530213 CACCT
1 CACCT
95530218 ACTCTACCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 4 0.15
13 1 0.04
14 2 0.07
15 8 0.30
16 2 0.07
17 1 0.04
18 9 0.33
ACGTcount: A:0.15, C:0.53, G:0.08, T:0.25
Consensus pattern (18 bp):
CACCTTGCCTCCCACTTG
Found at i:95530895 original size:3 final size:3
Alignment explanation
Indices: 95530889--95531060 Score: 84
Period size: 3 Copynumber: 55.7 Consensus size: 3
95530879 TTCTGACTAC
*
95530889 TAT TAT TA- TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * *
95530936 TAT TAT TAT TAT TAT TAT TAT TAT CACT CA- TAT TGT TAT TAC T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * *
95530980 TACT TTT GTAT TCT AAT ATAT TAT TAA TAT TAC TAA TAT T-T TCAT TAT
1 TA-T TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* ** *
95531028 TTT TGC TAT TAC TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
95531061 GTGTATATTT
Statistics
Matches: 130, Mismatches: 26, Indels: 26
0.71 0.14 0.14
Matches are distributed among these distances:
2 7 0.05
3 98 0.75
4 25 0.19
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:95531102 original size:12 final size:11
Alignment explanation
Indices: 95531040--95531102 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
95531030 TTGCTATTAC
95531040 TATTAT-TAT-
1 TATTATATATA
95531049 TATTATATAT-
1 TATTATATATA
*
95531059 TAGTGTATATTTA
1 TA-T-TATATATA
95531072 TATGTATATATA
1 TAT-TATATATA
95531084 TATTTATATATA
1 TA-TTATATATA
95531096 GTATTAT
1 -TATTAT
95531103 TTTTTATTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
9 6 0.13
10 5 0.11
11 1 0.02
12 29 0.63
13 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (11 bp):
TATTATATATA
Found at i:95539404 original size:22 final size:22
Alignment explanation
Indices: 95539361--95539404 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
95539351 GCAGCGCTGC
* *
95539361 TTTAAGTTCTTCTATCTTCTCT
1 TTTAAGTTCTTCAATCTACTCT
95539383 TTTAA-TTCTTCAACTCTACTCT
1 TTTAAGTTCTTCAA-TCTACTCT
95539405 AACTAGCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.18, C:0.25, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAGTTCTTCAATCTACTCT
Found at i:95541783 original size:3 final size:3
Alignment explanation
Indices: 95541775--95542139 Score: 256
Period size: 3 Copynumber: 120.7 Consensus size: 3
95541765 GGGGAAAAAT
95541775 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
95541822 GTA ATA A-A A-A AT- AGA ACA ACAA ATA ATA ATA ATA ATA CTA CATTA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -A-TA
* * * * * *
95541867 ATA AAA ATA ATA AGA AT- GTG TTA ATA ATA ATA A-A TTA ATGA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A A-TA
* * *
95541912 ATA ATA A-A ATGA ATAA ATA TATA A-A CACA AAA ATA A-A AT- ATA ATT
1 ATA ATA ATA AT-A AT-A ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * *
95541957 ATA ATA GTA ATA TTA ACA A-A ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
95542004 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CATTA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
* * * *
95542051 ATA AGA ATGCG TTA ATA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATGA
1 ATA ATA AT--A ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A
95542099 ATAA ATAA ATA A-A AT- ATA ATA ATA ATA ATA ATA ATA ATA AT
1 AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
95542140 GTGATAAAGC
Statistics
Matches: 292, Mismatches: 41, Indels: 58
0.75 0.10 0.15
Matches are distributed among these distances:
2 25 0.09
3 227 0.78
4 33 0.11
5 7 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:95541892 original size:37 final size:38
Alignment explanation
Indices: 95541851--95541922 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
95541841 CAAATAATAA
* *
95541851 TAATAATACTACATTAAT-AA-AAATAATAAGAATGTGT
1 TAATAATAATAAATTAATGAATAAATAATAA-AATGTGT
*
95541888 TAATAATAATAAATTAATGAATTAATAATAAAATG
1 TAATAATAATAAATTAATGAATAAATAATAAAATG
95541923 AATAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 16 0.53
38 6 0.20
39 8 0.27
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (38 bp):
TAATAATAATAAATTAATGAATAAATAATAAAATGTGT
Found at i:95541922 original size:16 final size:17
Alignment explanation
Indices: 95541903--95541936 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
95541893 ATAATAAATT
*
95541903 AATGAATTAATA-ATAA
1 AATGAATAAATATATAA
95541919 AATGAATAAATATATAA
1 AATGAATAAATATATAA
95541936 A
1 A
95541937 CACAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AATGAATAAATATATAA
Found at i:95542090 original size:16 final size:17
Alignment explanation
Indices: 95542069--95542113 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
95542059 GCGTTAATAA
*
95542069 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
95542085 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
95542101 AAATAAATAAAAT
1 TAATAAATAAAAT
95542114 ATAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.56
17 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:95542764 original size:2 final size:2
Alignment explanation
Indices: 95542759--95542791 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
95542749 ATGTTTCTTA
95542759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95542792 AGTGAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95544632 original size:15 final size:15
Alignment explanation
Indices: 95544614--95544652 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
95544604 TTAGTCTTAA
95544614 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
95544629 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
95544644 TTAACTTAA
1 TTAA-TTAA
95544653 ATTTAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:95546537 original size:2 final size:2
Alignment explanation
Indices: 95546532--95546556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95546522 CTGGTATAAG
95546532 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
95546557 ATTTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95547531 original size:17 final size:16
Alignment explanation
Indices: 95547495--95547526 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95547485 AATTTAACTT
95547495 TTAAAAAAAGTACAAA
1 TTAAAAAAAGTACAAA
95547511 TTAAAAAAA-TACAAA
1 TTAAAAAAAGTACAAA
95547526 T
1 T
95547527 ATTAACATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (16 bp):
TTAAAAAAAGTACAAA
Found at i:95557491 original size:60 final size:60
Alignment explanation
Indices: 95557424--95557543 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
95557414 AAACCGGTGT
95557424 ATTTAAACTAAAAGCTTATGTAACCATCGCACCTTCTTCCCTTGCTGATGTCCCCACCAA
1 ATTTAAACTAAAAGCTTATGTAACCATCGCACCTTCTTCCCTTGCTGATGTCCCCACCAA
95557484 ATTTAAACTAAAAGCTTATGTAACCATCGCACCTTCTTCCCTTGCTGATGTCCCCACCAA
1 ATTTAAACTAAAAGCTTATGTAACCATCGCACCTTCTTCCCTTGCTGATGTCCCCACCAA
95557544 CATTCATGCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (60 bp):
ATTTAAACTAAAAGCTTATGTAACCATCGCACCTTCTTCCCTTGCTGATGTCCCCACCAA
Found at i:95560098 original size:25 final size:24
Alignment explanation
Indices: 95560068--95560120 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
95560058 GGGAAATAGC
* *
95560068 AAATTTAGGTATAAAATTAGACAAA
1 AAATTTAGATACAAAATTAGA-AAA
* *
95560093 AAATTTTGATACCAAATTAGAAAA
1 AAATTTAGATACAAAATTAGAAAA
95560117 AAAT
1 AAAT
95560121 GTTAAGTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (24 bp):
AAATTTAGATACAAAATTAGAAAA
Done.