Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 153 of 322
Found at i:50151719 original size:31 final size:28
Alignment explanation
Indices: 50151674--50151739 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
50151664 TATAGGTATG
50151674 TTTAATAATATTAAAAATTATAACATTTGAT
1 TTTAATAATATT--AAATTATAA-ATTTGAT
* * *
50151705 TTTAATATTGTTAAATTTTAAATTTGAT
1 TTTAATAATATTAAATTATAAATTTGAT
50151733 TATTAAT
1 T-TTAAT
50151740 TTAGTAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 8 0.26
29 13 0.42
31 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (28 bp):
TTTAATAATATTAAATTATAAATTTGAT
Found at i:50152387 original size:19 final size:19
Alignment explanation
Indices: 50152365--50152403 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50152355 TTTAGATATC
*
50152365 TATTTCATTT-TAAATAGTA
1 TATTTAATTTCTAAA-AGTA
50152384 TATTTAATTTCTAAAAGTA
1 TATTTAATTTCTAAAAGTA
50152403 T
1 T
50152404 TGATGAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTAATTTCTAAAAGTA
Found at i:50154599 original size:22 final size:20
Alignment explanation
Indices: 50154567--50154620 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
50154557 AACTAAATTT
*
50154567 AAAA-AAAAATTAAGGACCA
1 AAAATAAAAATTAAGAACCA
50154586 ATATAATAAAAATT-AGAACCA
1 A-A-AATAAAAATTAAGAACCA
50154607 AAAATAAAAATTAA
1 AAAATAAAAATTAA
50154621 AAGAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 11 0.37
20 3 0.10
21 9 0.30
22 7 0.23
ACGTcount: A:0.69, C:0.07, G:0.06, T:0.19
Consensus pattern (20 bp):
AAAATAAAAATTAAGAACCA
Found at i:50160011 original size:60 final size:60
Alignment explanation
Indices: 50159909--50160028 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 60
50159899 TAACACGTGT
* * *
50159909 TTATACAATGTGGGTTTGCCGTTATGATGGTGTGAACATACATCGTGCGGTCTCATAGAA
1 TTATACAATGTGGGTTTGCCGTTATGATGATGCGAACATACATCGTGCAGTCTCATAGAA
* * * *
50159969 TTATACGATGTGGGTTTTCC-TATATGATGATGCGAACCTACATCGTGTAGTCTCATAGAA
1 TTATACAATGTGGGTTTGCCGT-TATGATGATGCGAACATACATCGTGCAGTCTCATAGAA
50160029 GGGTATGCGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (60 bp):
TTATACAATGTGGGTTTGCCGTTATGATGATGCGAACATACATCGTGCAGTCTCATAGAA
Found at i:50163472 original size:131 final size:131
Alignment explanation
Indices: 50162946--50163474 Score: 515
Period size: 131 Copynumber: 4.0 Consensus size: 131
50162936 AGGATTTTCG
* * * * * * * * ** *
50162946 TGATCTTAAATTGAATGAATTTAGGTTGCAATATTAAATCAACAAACATTAATAATATTAGTTGC
1 TGATCTTGAATTGAATGAACTTAGGTTGCGATCTTGAATCAACGAACCTTAATAATATCAACTAC
* * * * * * * ** * * *
50163011 GATCTTAAATCAGCTAGCTGTTTGGAGAAGTGATTTTAAATCAATTGACTAAAATAAAATTATTC
66 GATATTAAATCAACGAGCTGTTTGGAGTAGCGATATTAAATTAGCTAACTCAAATAAAATTGTTC
50163076 A
131 A
* ** ** *
50163077 TGATCTTGAAATTAAATGAACTTAGGTTGCTTTCTTGAATCAGTGAACCTTAATAATATCAACCA
1 TGATCTTG-AATTGAATGAACTTAGGTTGCGATCTTGAATCAACGAACCTTAATAATATCAACTA
* * *** * *
50163142 CGATATTAAATCAATGATCTGTTCATAGTAACGATATTAAATTAGCTAACTCGAATAAAATTGTT
65 CGATATTAAATCAACGAGCTGTTTGGAGTAGCGATATTAAATTAGCTAACTCAAATAAAATTGTT
50163207 CA
130 CA
* * *
50163209 TGATTTTGAATCT-AATGAACTTAGGTTGCGATCTTGAATCAGCGAACCTTAATAATATCAATTG
1 TGATCTTGAAT-TGAATGAACTTAGGTTGCGATCTTGAATCAACGAACCTTAATAATATCAACT-
* * * * * *
50163273 A-GATATTAAATCAGCGAGATGTTTGCAGTAG-GAATATTAAATAAGCTAACACGAATAAAATTG
64 ACGATATTAAATCAACGAGCTGTTTGGAGTAGCG-ATATTAAATTAGCTAACTCAAATAAAATTG
*
50163336 GTCA
128 TTCA
* *
50163340 TGATTTTGAATTGAATGAACTTAGGTTGCGATCTTGAATCAACGAACCCTAATAATATCAACTAC
1 TGATCTTGAATTGAATGAACTTAGGTTGCGATCTTGAATCAACGAACCTTAATAATATCAACTAC
* * * * * *
50163405 GATATTAAATCAACAAGCTGTTTGGAGTAGCGATGTTAAATTAGCTATCTCAAAGAGAATTTTTC
66 GATATTAAATCAACGAGCTGTTTGGAGTAGCGATATTAAATTAGCTAACTCAAATAAAATTGTTC
50163470 A
131 A
50163471 TGAT
1 TGAT
50163475 AGTTAAAGTA
Statistics
Matches: 323, Mismatches: 68, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
130 3 0.01
131 221 0.68
132 99 0.31
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (131 bp):
TGATCTTGAATTGAATGAACTTAGGTTGCGATCTTGAATCAACGAACCTTAATAATATCAACTAC
GATATTAAATCAACGAGCTGTTTGGAGTAGCGATATTAAATTAGCTAACTCAAATAAAATTGTTC
A
Found at i:50166153 original size:26 final size:26
Alignment explanation
Indices: 50166123--50166183 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
50166113 AATATTTGTA
50166123 AAATGATTGTAATGCCCCTAGAGGGT
1 AAATGATTGTAATGCCCCTAGAGGGT
* * ** * *
50166149 AAATGACTATTTTGCCCCTCGAGTGT
1 AAATGATTGTAATGCCCCTAGAGGGT
50166175 AAATGATTG
1 AAATGATTG
50166184 ATTTGTCCGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATTGTAATGCCCCTAGAGGGT
Found at i:50166241 original size:24 final size:24
Alignment explanation
Indices: 50166174--50166281 Score: 101
Period size: 24 Copynumber: 4.5 Consensus size: 24
50166164 CCCTCGAGTG
* * *
50166174 TAAATGATTGATTTGTCCGTGATG
1 TAAATGACTGATTTGTCTGTGATT
* *
50166198 TAAAT-AATGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*
50166221 TAAATGGCTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*** *
50166245 GGTATGACTGATTTATCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
**
50166269 TGTATGACTGATT
1 TAAATGACTGATT
50166282 CTAAGCATGG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
23 19 0.27
24 51 0.73
ACGTcount: A:0.24, C:0.06, G:0.23, T:0.46
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:50166453 original size:26 final size:26
Alignment explanation
Indices: 50166407--50166460 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
50166397 TTGGCCACTT
*
50166407 ATACTATTACTGGTAGTTTTGCTACG
1 ATACTATTACTGGCAGTTTTGCTACG
* *
50166433 ATACTGTTACTGGCA-TCTTTGCTGCG
1 ATACTATTACTGGCAGT-TTTGCTACG
50166459 AT
1 AT
50166461 GCTACTAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
ATACTATTACTGGCAGTTTTGCTACG
Found at i:50168532 original size:26 final size:27
Alignment explanation
Indices: 50168502--50168567 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
50168492 CATTTTTTGC
*
50168502 AATATAAAAGGAACACC-TTGTGGCAT
1 AATATAAAAGGAACACCTTTGTGGCAG
* *
50168528 AATATGGAAA-GAACGCCTTTGTGGCAG
1 AATAT-AAAAGGAACACCTTTGTGGCAG
*
50168555 ATTATAAAAGGAA
1 AATATAAAAGGAA
50168568 TTCTTTTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (27 bp):
AATATAAAAGGAACACCTTTGTGGCAG
Found at i:50171029 original size:18 final size:18
Alignment explanation
Indices: 50171006--50171047 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
50170996 CCATTAGGAC
50171006 TGATGTCACAATAGACAA
1 TGATGTCACAATAGACAA
50171024 TGATGTCACAATAGACAA
1 TGATGTCACAATAGACAA
50171042 TGATGT
1 TGATGT
50171048 GATAGTAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (18 bp):
TGATGTCACAATAGACAA
Found at i:50173365 original size:25 final size:25
Alignment explanation
Indices: 50173336--50173385 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
50173326 TGTCAAGGTA
50173336 AGTTTTATGACTCTGCATGTTGTGC
1 AGTTTTATGACTCTGCATGTTGTGC
50173361 AGTTTTATGACTCTGCATGTTGTGC
1 AGTTTTATGACTCTGCATGTTGTGC
50173386 TATGTAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (25 bp):
AGTTTTATGACTCTGCATGTTGTGC
Found at i:50176550 original size:4 final size:4
Alignment explanation
Indices: 50176535--50176565 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
50176525 AAGTTAACTA
*
50176535 AAAT AGAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
50176566 GTTAAAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:50188385 original size:50 final size:50
Alignment explanation
Indices: 50188324--50188570 Score: 275
Period size: 50 Copynumber: 4.9 Consensus size: 50
50188314 TGTCAACACG
** *
50188324 AGATGAGAGGTCGTATGTAAGACCATGTCTAGGG-CATGGCGTTGGCACCA
1 AGATGAGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCACCA
* ** *
50188374 AGATGAAAGGTCCTGTGTAAGACCATGCCTGAGG-CATGGCATTGGCACCA
1 AGATGAGAGGTCCCATGTAAGACCATGTCTG-GGACATGGCATTGGCACCA
*
50188424 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA
** * * *
50188474 AGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGAC-TTGGGTATCA
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT-GGCACCA
* ** * * *
50188524 ATATGAGAACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
50188571 ATACAGGAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 5 0.03
50 162 0.96
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA
Found at i:50190604 original size:12 final size:12
Alignment explanation
Indices: 50190587--50190613 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50190577 TTGGAATTTT
50190587 TTATGAGTAATG
1 TTATGAGTAATG
50190599 TTATGAGTAATG
1 TTATGAGTAATG
50190611 TTA
1 TTA
50190614 AGTGTGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (12 bp):
TTATGAGTAATG
Found at i:50194698 original size:44 final size:44
Alignment explanation
Indices: 50194650--50194745 Score: 174
Period size: 44 Copynumber: 2.2 Consensus size: 44
50194640 ATATCTCAAG
*
50194650 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
50194694 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
50194738 GTACCATG
1 GT-CCATG
50194746 GTTGATCCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:50194823 original size:50 final size:50
Alignment explanation
Indices: 50194763--50194995 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
50194753 CATGTCAACA
50194763 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* *
50194813 CAAGATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* * * * * *
50194863 CGGGATGAGAGGTCCTATGAAAGATCATGTCTGGGGCATGGCGTTGGCAT
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* ** * * * *
50194913 GGAGATGAGAGGTCCCCCGTAAGACCTTGTCTGGGACATGGC-ATGCGTAT
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTG-GCAC
* ** *
50194963 CGATATGAGAACTCCCATGTAAGACCATATCTG
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTG
50194996 AGATATGACA
Statistics
Matches: 153, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 2 0.01
50 151 0.99
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
Found at i:50209297 original size:6 final size:6
Alignment explanation
Indices: 50209282--50209331 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
50209272 TAGGATCAGC
* * *
50209282 AAAAAT AAAAAG -AAAAG AAAAAG AACGAAG AAGAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG
50209330 AA
1 AA
50209332 GGGTAACGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
5 5 0.13
6 29 0.74
7 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:50212780 original size:86 final size:86
Alignment explanation
Indices: 50212635--50212801 Score: 316
Period size: 86 Copynumber: 1.9 Consensus size: 86
50212625 CCATTGAAGC
*
50212635 AGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTGTATAACTTC
1 AGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAACAAATTTAATGTGTATAACTTC
50212700 TAAATGTTTCATACTACAAGG
66 TAAATGTTTCATACTACAAGG
*
50212721 AGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAACAAATTTAATGTGTATATCTTC
1 AGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAACAAATTTAATGTGTATAACTTC
50212786 TAAATGTTTCATACTA
66 TAAATGTTTCATACTA
50212802 TAAGTATAGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.41
Consensus pattern (86 bp):
AGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAACAAATTTAATGTGTATAACTTC
TAAATGTTTCATACTACAAGG
Found at i:50213106 original size:86 final size:85
Alignment explanation
Indices: 50212962--50213131 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 85
50212952 CCATTAAAGC
50212962 AGCTCTAGGACATCTTATTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTGTATAACTTCT
1 AGCTCTAGGACATCTTATTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTGTATAACTTCT
50213027 AAATGTTTCATACTATAAGG
66 AAATGTTTCATACTATAAGG
*
50213047 AGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTGTATATCTTC
1 AGCTCTAGGACATCTTA-TTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTGTATAACTTC
50213112 TAAATGTTTCATACTATAAG
65 TAAATGTTTCATACTATAAG
50213132 TATAGTGGTT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 17 0.20
86 66 0.80
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (85 bp):
AGCTCTAGGACATCTTATTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTGTATAACTTCT
AAATGTTTCATACTATAAGG
Found at i:50213155 original size:326 final size:327
Alignment explanation
Indices: 50212561--50213220 Score: 1241
Period size: 326 Copynumber: 2.0 Consensus size: 327
50212551 TTTGTGAGGG
50212561 AAATGGGTTGGTGGCCGTTGGGTCTCCAATCTAGGAACCTCCCTCTGCTTCCTAGTGCTCAACGC
1 AAATGGGTTGGTGGCCGTTGGGTCTCCAATCTAGGAACCTCCCTCTGCTTCCTAGTGCTCAACGC
*
50212626 CATTGAAGCAGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTG
66 CATTAAAGCAGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTG
50212691 TATAACTTCTAAATGTTTCATACTACAAGGAGCTCTAGGACATCTTATTTTTTTTAATAAATTTA
131 TATAACTTCTAAATGTTTCATACTACAAGGAGCTCTAGGACATCTTATTTTTTTTAATAAATTTA
50212756 AAAAGTAACAAATTTAATGTGTATATCTTCTAAATGTTTCATACTATAAGTATAGTGGTTATAAA
196 AAAAGTAACAAATTTAATGTGTATATCTTCTAAATGTTTCATACTATAAGTATAGTGGTTATAAA
50212821 ATTCTAACCTATTTAGACATTGCAGACTATTTTACCTATAAAGGCCCTTTTTTAAGTTTATTTAT
261 ATTCTAACCTATTTAGACATTGCAGACTATTTTACCTATAAAGGCCCTTTTTTAAGTTTATTTAT
50212886 GA
326 GA
* * *
50212888 AAATGGGTTGGTGGCCGTTGGGTCTTCAATCTAGGTACCTCCCTCTGCTTCCTAGTTCTCAACGC
1 AAATGGGTTGGTGGCCGTTGGGTCTCCAATCTAGGAACCTCCCTCTGCTTCCTAGTGCTCAACGC
50212953 CATTAAAGCAGCTCTAGGACATCTTA-TTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTG
66 CATTAAAGCAGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTG
*
50213017 TATAACTTCTAAATGTTTCATACTATAAGGAGCTCTAGGACATCTTATTTTTTTTAATAAATTTA
131 TATAACTTCTAAATGTTTCATACTACAAGGAGCTCTAGGACATCTTATTTTTTTTAATAAATTTA
*
50213082 AAAAGTAGCAAATTTAATGTGTATATCTTCTAAATGTTTCATACTATAAGTATAGTGGTTATAAA
196 AAAAGTAACAAATTTAATGTGTATATCTTCTAAATGTTTCATACTATAAGTATAGTGGTTATAAA
*
50213147 ATTCTAACCTATTTAGACATTGCGGACTATTTTACCTATAAAGGCCCTTTTTTAAGTTTATTTAT
261 ATTCTAACCTATTTAGACATTGCAGACTATTTTACCTATAAAGGCCCTTTTTTAAGTTTATTTAT
*
50213212 GG
326 GA
50213214 AAATGGG
1 AAATGGG
50213221 CCAATTTTTT
Statistics
Matches: 325, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
326 238 0.73
327 87 0.27
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (327 bp):
AAATGGGTTGGTGGCCGTTGGGTCTCCAATCTAGGAACCTCCCTCTGCTTCCTAGTGCTCAACGC
CATTAAAGCAGCTCTAGGACATCTTATTTTTTTTAATAAATTTAAAAAGTAGCAAATTTAATGTG
TATAACTTCTAAATGTTTCATACTACAAGGAGCTCTAGGACATCTTATTTTTTTTAATAAATTTA
AAAAGTAACAAATTTAATGTGTATATCTTCTAAATGTTTCATACTATAAGTATAGTGGTTATAAA
ATTCTAACCTATTTAGACATTGCAGACTATTTTACCTATAAAGGCCCTTTTTTAAGTTTATTTAT
GA
Found at i:50213512 original size:42 final size:43
Alignment explanation
Indices: 50213465--50213558 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 43
50213455 TTTTTTTGGT
* * *
50213465 TTAGGGTTTTTAGGGTTAGTGTTTTATTAAAATAA-TTTAGGG
1 TTAGGGTTTTTAGGGGTAGGGTTTTATTAAAATAACTTAAGGG
* * *
50213507 TTAGGG-TTGTAGGGGTAGGGTTTTGTTAAAATAACTTAAGGT
1 TTAGGGTTTTTAGGGGTAGGGTTTTATTAAAATAACTTAAGGG
50213549 TTAGGGTTTT
1 TTAGGGTTTT
50213559 AAGAAATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 24 0.56
42 17 0.40
43 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (43 bp):
TTAGGGTTTTTAGGGGTAGGGTTTTATTAAAATAACTTAAGGG
Found at i:50213621 original size:33 final size:32
Alignment explanation
Indices: 50213574--50213666 Score: 91
Period size: 34 Copynumber: 2.9 Consensus size: 32
50213564 ATTTAAAAAA
* *
50213574 TAAATCAGGATTTAGTGTTTTTTTAAAATTAAT
1 TAAATTAGGGTTTAG-GTTTTTTTAAAATTAAT
**
50213607 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAG-GTTTTT-TTAAAATTAAT
* *
50213641 TAAACTATGGTTTA--TTTTTTTAAAAT
1 TAAATTAGGGTTTAGGTTTTTTTAAAAT
50213667 AATATTGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
30 5 0.10
31 5 0.10
33 19 0.38
34 21 0.42
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (32 bp):
TAAATTAGGGTTTAGGTTTTTTTAAAATTAAT
Found at i:50214062 original size:124 final size:123
Alignment explanation
Indices: 50213843--50214070 Score: 393
Period size: 124 Copynumber: 1.8 Consensus size: 123
50213833 AGCTCCCACC
* **
50213843 TGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTGTCAAAAACACTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAAAAGGATGC
*
50213908 ACTGTTAGCAAAATTGATGAAAAAAGCTCCCACGTGGACTTTTTTTTATAGTAGTTCT
66 ACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACTTTTTTTTATAGTAGTTCT
*
50213966 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAAACGCTTCAAAAAGGATG
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTC-AAAAACACTTCAAAAAGGATG
*
50214031 CACTGTCAGCAAAATTGATGAAAAAAGCTCCCGCGTGGAC
65 CACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTGGAC
50214071 GCTCTTTTTC
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
123 42 0.43
124 56 0.57
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (123 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAAAAGGATGC
ACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACTTTTTTTTATAGTAGTTCT
Found at i:50216855 original size:24 final size:23
Alignment explanation
Indices: 50216799--50216855 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
50216789 AAGAAATTTT
*
50216799 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
50216822 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
50216847 ACTTTTATT
1 A-TTTTATT
50216856 TTACTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:50225239 original size:20 final size:21
Alignment explanation
Indices: 50225189--50225246 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
50225179 AATTTTATGT
*
50225189 TAAGTAAATGAAATGG-AAAA
1 TAAGTAAATGGAATGGTAAAA
*
50225209 TAAGTAAATGGAATGGTAAGA
1 TAAGTAAATGGAATGGTAAAA
*
50225230 -AAGTAAATGGAGTGGTA
1 TAAGTAAATGGAATGGTA
50225247 TATAGTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (21 bp):
TAAGTAAATGGAATGGTAAAA
Found at i:50233783 original size:20 final size:22
Alignment explanation
Indices: 50233758--50233806 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
50233748 ATCTTGGACA
50233758 AAATAACATG-TA-AACAAATT
1 AAATAACATGCTAGAACAAATT
* *
50233778 AAATAATATGCTAGGACAAATT
1 AAATAACATGCTAGAACAAATT
50233800 AAA-AACA
1 AAATAACA
50233807 CTTAAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
22 10 0.42
ACGTcount: A:0.59, C:0.10, G:0.08, T:0.22
Consensus pattern (22 bp):
AAATAACATGCTAGAACAAATT
Found at i:50253347 original size:64 final size:64
Alignment explanation
Indices: 50253224--50253347 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 64
50253214 CATCCCTATT
* * * * * *
50253224 GGTACTGATCCTGCATGTGTTGCGGACATGCCGCAGCTCTTTCTGAGCGTCCTGTTATATAATC
1 GGTACTGATCCTGCATGTATTGCGGACATACCGCAGCTCTGTATGAGCGTCCCGATATATAATC
* * * *
50253288 GGTATTGATCCTGCATGTATTGTGGACATACTGCAGCTCTGTATGAGTGTCCCGATATAT
1 GGTACTGATCCTGCATGTATTGCGGACATACCGCAGCTCTGTATGAGCGTCCCGATATAT
50253348 GGCTCTTCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (64 bp):
GGTACTGATCCTGCATGTATTGCGGACATACCGCAGCTCTGTATGAGCGTCCCGATATATAATC
Found at i:50253377 original size:24 final size:24
Alignment explanation
Indices: 50253345--50253400 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
50253335 TGTCCCGATA
50253345 TATGGCTCTTCATGAGCTACCCGT
1 TATGGCTCTTCATGAGCTACCCGT
*
50253369 TATGGCTCTTTATGAGCTACCCGT
1 TATGGCTCTTCATGAGCTACCCGT
50253393 TATGGCTC
1 TATGGCTC
50253401 GCTTGAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (24 bp):
TATGGCTCTTCATGAGCTACCCGT
Found at i:50255385 original size:23 final size:23
Alignment explanation
Indices: 50255359--50255403 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50255349 TATTAATTAT
50255359 TACATTTTC-GATATTTAGTAGTC
1 TACATTTTCAG-TATTTAGTAGTC
50255382 TACATTTTCAGTATTTAGTAGT
1 TACATTTTCAGTATTTAGTAGT
50255404 TTAGTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (23 bp):
TACATTTTCAGTATTTAGTAGTC
Found at i:50256920 original size:11 final size:11
Alignment explanation
Indices: 50256876--50256927 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 11
50256866 TCTCATTTCT
50256876 TTTATTTTTAA
1 TTTATTTTTAA
*
50256887 TTTTTATTTATTTAC
1 --TTTA-TT-TTTAA
50256902 TGTTATTTTTAA
1 T-TTATTTTTAA
50256914 TTTATTTTTAA
1 TTTATTTTTAA
50256925 TTT
1 TTT
50256928 TGAGGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 13 0.38
12 5 0.15
13 7 0.21
14 5 0.15
15 4 0.12
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTTTTAA
Found at i:50259831 original size:19 final size:19
Alignment explanation
Indices: 50259807--50259843 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
50259797 AGTCTATCGC
50259807 CAAACTCCATTTAGCAGTT
1 CAAACTCCATTTAGCAGTT
50259826 CAAACTCCATTTAGCAGT
1 CAAACTCCATTTAGCAGT
50259844 ATTTCAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (19 bp):
CAAACTCCATTTAGCAGTT
Found at i:50260557 original size:19 final size:18
Alignment explanation
Indices: 50260524--50260571 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
50260514 ATTTAGTTGC
50260524 TGGTATTATTTATTTATTT
1 TGGT-TTATTTATTTATTT
*
50260543 TTGTTTATATTATTTATTT
1 TGGTTTAT-TTATTTATTT
50260562 TGGTTTATTT
1 TGGTTTATTT
50260572 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (18 bp):
TGGTTTATTTATTTATTT
Found at i:50260576 original size:23 final size:22
Alignment explanation
Indices: 50260527--50260611 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 22
50260517 TAGTTGCTGG
*
50260527 TATTATTTA-TTTATTTTTGTTT
1 TATTATTTATTTTATTTAT-TTT
*
50260549 ATATTATTTATTTTGGTTTATTTT
1 -TATTATTTATTTT-ATTTATTTT
50260573 TATT-TTTATTATTATTTCA-TTT
1 TATTATTTATT-TTATTT-ATTTT
50260595 TATTATTTATTATTATT
1 TATTATTTATT-TTATT
50260612 ATTATATTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
22 16 0.30
23 28 0.52
24 6 0.11
25 4 0.07
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.73
Consensus pattern (22 bp):
TATTATTTATTTTATTTATTTT
Found at i:50260586 original size:3 final size:3
Alignment explanation
Indices: 50260566--50260616 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
50260556 TTATTTTGGT
* * *
50260566 TTA TTT TTA TTT TTA TTA TTA TT- TCA TT- TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
50260610 TTA TTA T
1 TTA TTA T
50260617 ATTTATGTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.85
4 3 0.08
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:50260599 original size:13 final size:13
Alignment explanation
Indices: 50260566--50260619 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
50260556 TTATTTTGGT
*
50260566 TTATTTTTATTT-
1 TTATTATTATTTA
50260578 TTATTATTATTTCA
1 TTATTATTATTT-A
50260592 TT-TTATTATTTA
1 TTATTATTATTTA
50260604 TTATTATTATTATA
1 TTATTATTATT-TA
50260618 TT
1 TT
50260620 TATGTACTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 14 0.38
13 17 0.46
14 6 0.16
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:50260603 original size:29 final size:26
Alignment explanation
Indices: 50260527--50260616 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 26
50260517 TAGTTGCTGG
* *
50260527 TATTATTTATTTATTTTTGTTTATAT
1 TATTATTTATTTATTTTTATTTTTAT
*
50260553 TATTTATTTTGGTTTATTTTTATTTTTAT
1 TA-TTA-TTT-ATTTATTTTTATTTTTAT
*
50260582 TATTATTTCATTTTATTATTTATTATTAT
1 TATTATTT-A-TTTATT-TTTATTTTTAT
50260611 TATTAT
1 TATTAT
50260617 ATTTATGTAC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 6 0.11
28 12 0.23
29 33 0.62
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (26 bp):
TATTATTTATTTATTTTTATTTTTAT
Found at i:50260787 original size:3 final size:3
Alignment explanation
Indices: 50260779--50260811 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
50260769 ATTGTTTGTC
*
50260779 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50260812 GTTGTTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:50269137 original size:23 final size:23
Alignment explanation
Indices: 50269100--50269370 Score: 310
Period size: 23 Copynumber: 11.7 Consensus size: 23
50269090 TCTACCCTAT
*
50269100 TTGGACAGC-TCTTATACATCAAA
1 TTGGACAGCAT-TTATACACCAAA
** *
50269123 TCAGACAGCATTTATACACCCAA
1 TTGGACAGCATTTATACACCAAA
* *
50269146 TTGGACAACATATATATATACCAAA
1 TTGGACAGCAT-T-TATACACCAAA
*
50269171 TTGGACAGCATATATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
50269194 TTGGACAACATTTCTACACCAAA
1 TTGGACAGCATTTATACACCAAA
*
50269217 TTGGACAGCATTTCTACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
50269240 TTGGACAGGATTTCTACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * * *
50269263 TTGGATAGCATATATACGCTAAA
1 TTGGACAGCATTTATACACCAAA
*
50269286 TTAGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
50269309 TTGGACAGCATATATACACTAAA
1 TTGGACAGCATTTATACACCAAA
*
50269332 TTAGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
50269355 TTGGATAGCATATATA
1 TTGGACAGCATTTATA
50269371 TATACCCAAT
Statistics
Matches: 208, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
23 187 0.90
24 2 0.01
25 19 0.09
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:50270451 original size:43 final size:43
Alignment explanation
Indices: 50270353--50270452 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
50270343 GCTAACCTCT
* *
50270353 CAGACGTGGTCTTAAATGTAATCACAGAATGATGCCACGGTCC
1 CAGACGTGGTCTTAAACGTAAACACAGAATGATGCCACGGTCC
* * *
50270396 CAGACAG-AGTCTTACACGTAAACACA-AGTTGATGCCAAC-GTCC
1 CAGAC-GTGGTCTTAAACGTAAACACAGA-ATGATGCC-ACGGTCC
50270439 CAGACGTGGTCTTA
1 CAGACGTGGTCTTA
50270453 TATGATAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.04
43 42 0.89
44 3 0.06
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (43 bp):
CAGACGTGGTCTTAAACGTAAACACAGAATGATGCCACGGTCC
Found at i:50270463 original size:43 final size:43
Alignment explanation
Indices: 50270353--50270464 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 43
50270343 GCTAACCTCT
50270353 CAGACGTGGTCTTAAATGTAATCAC-AGAATGATGCCACGGTCC
1 CAGACGTGGTCTTAAATGTAA-CACAAGAATGATGCCACGGTCC
* * * *
50270396 CAGACAG-AGTCTTACACGTAAACACAAG-TTGATGCCAAC-GTCC
1 CAGAC-GTGGTCTTAAATGT-AACACAAGAATGATGCC-ACGGTCC
*
50270439 CAGACGTGGTCTTATATGATAACACA
1 CAGACGTGGTCTTAAATG-TAACACA
50270465 TAACAGAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.02
43 47 0.84
44 8 0.14
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (43 bp):
CAGACGTGGTCTTAAATGTAACACAAGAATGATGCCACGGTCC
Found at i:50273261 original size:14 final size:15
Alignment explanation
Indices: 50273235--50273267 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50273225 TGCCAAACTG
50273235 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
50273250 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
50273264 GGAA
1 GGAA
50273268 AAGTGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:50273382 original size:22 final size:23
Alignment explanation
Indices: 50273364--50273406 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
50273354 TTAAAAAATG
50273364 AAAAAAA-AAG-AAAAGAAAAAC
1 AAAAAAAGAAGAAAAAGAAAAAC
50273385 AAAAAAAGAAGAAAAAGAAAAA
1 AAAAAAAGAAGAAAAAGAAAAA
50273407 GGATAGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAAGAAAAAC
Found at i:50273388 original size:17 final size:17
Alignment explanation
Indices: 50273364--50273407 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
50273354 TTAAAAAATG
50273364 AAAAAAAAAGAA-AAGA
1 AAAAAAAAAGAAGAAGA
50273380 AAAACAAAAA-AAGAAGA
1 AAAA-AAAAAGAAGAAGA
50273397 AAAAGAAAAAG
1 AAAA-AAAAAG
50273408 GATAGGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAGAAGA
Found at i:50274512 original size:92 final size:90
Alignment explanation
Indices: 50274402--50274710 Score: 279
Period size: 92 Copynumber: 3.4 Consensus size: 90
50274392 GATAGCGAAT
* *
50274402 CTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAA
50274467 GTTGTAGTAGAGTATATCATATCAAAC
65 GTTGTAGTAGAG-ATATCATATCAAAC
* ** * * *
50274494 CTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAG-T-T--ACT-AG-TCTTATCTCCCTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAG
** * *
50274553 TTGTAGTGGAGCAGACTGAAGATAACAAAT
66 TTGTAGT--AG-AGA-T-ATCATATCAAAC
* ** * *
50274583 CTTATTTCGTTGAAGTTGTAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATT-CAGATCTTATCTCTCTGAA
* * * *
50274648 GTTGCAGTAGAGCAGATCATGTCAGAC
65 GTTGTAGTAGAG-ATATCATATCAAAC
* * *
50274675 ATTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAG
50274711 TTACTAGTCT
Statistics
Matches: 166, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
85 22 0.13
86 2 0.01
87 3 0.02
88 5 0.03
89 36 0.22
90 2 0.01
91 2 0.01
92 65 0.39
93 4 0.02
94 3 0.02
95 2 0.01
96 20 0.12
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (90 bp):
CTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATTCAGATCTTATCTCTCTGAAG
TTGTAGTAGAGATATCATATCAAAC
Found at i:50274546 original size:44 final size:44
Alignment explanation
Indices: 50274494--50274980 Score: 218
Period size: 44 Copynumber: 10.8 Consensus size: 44
50274484 CATATCAAAC
*
50274494 CTTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGT
* ** * * *
50274538 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TTACTAGT
* ** * ** * *
50274583 CTTATTTCGTTGAAGTTGTAGTGGAATAGATTGAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-T-T--ACT--AG-T
* * * * * * *
50274634 CTTATATCTCTGAAGTTGCAGTAGAGCA-GATCATG-T-C-AGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGT
*
50274674 CATTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGT
* * * *
50274719 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-T-T--ACT--AG-T
* * * * * **
50274770 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT-CA--TATCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CTAGT
* * * * *
50274811 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGATAGTAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACT-AGT
* * * * * * ** *
50274856 CTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCCACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGT
* ** * ** *
50274900 CTTATCTCCCTGAAGTTGCAGTAGAGCAGAATGAAGATGGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACT-AGT
* *
50274945 CTTAT-TCCCTTATAGTTGCAGTGGAGCGGGTTGAAG
1 CTTATCTCCCTGA-AGTTGCAGTGGAGCAGGTTGAAG
50274981 CTACAAATCT
Statistics
Matches: 331, Mismatches: 85, Indels: 53
0.71 0.18 0.11
Matches are distributed among these distances:
40 1 0.00
41 50 0.15
42 7 0.02
43 3 0.01
44 105 0.32
45 104 0.31
46 1 0.00
47 1 0.00
48 3 0.01
49 1 0.00
50 7 0.02
51 48 0.15
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGT
Found at i:50274556 original size:85 final size:84
Alignment explanation
Indices: 50274452--50274736 Score: 255
Period size: 85 Copynumber: 3.2 Consensus size: 84
50274442 AAATTGCAGA
* *
50274452 TCTTATCTCTCTGAAGTTGTAGTAGAGTATATCATATCAAACCTTATCTCCCTGAAGTTGCAATG
1 TCTTATCTCCCTGAAGTTGTAGTAGAG-ATATCATATCAAACCTTATCTCCCTGAAGTTGCAGTG
*
50274517 GAGCAGGTTGAAGTTACTAG
65 GAGTAGGTTGAAGTTACTAG
** * * * ** *
50274537 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACAAATCTTATTTCGTTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGTAGT--AG-AGA-T-ATCATATCAAACCTTATCTCCCTGAAGTTGC
* * *
50274602 AGTGGAATAGATTGAAGCTATAAATTACAG
61 AGTGGAGTAGGTTGAAG-T-T--ACT--AG
* * * * * * *
50274632 ATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATGTCAGACATTATCTCCCTGAAGTTGCAGT
1 -TCTTATCTCCCTGAAGTTGTAGTAGAG-ATATCATATCAAACCTTATCTCCCTGAAGTTGCAGT
50274697 GGAGTAGGTTGAAGTTACTAG
64 GGAGTAGGTTGAAGTTACTAG
50274718 TCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTG
50274737 CAGTGGAACA
Statistics
Matches: 153, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
85 39 0.25
86 2 0.01
87 3 0.02
88 5 0.03
89 36 0.24
90 2 0.01
91 2 0.01
92 35 0.23
93 4 0.03
94 3 0.02
95 2 0.01
96 20 0.13
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (84 bp):
TCTTATCTCCCTGAAGTTGTAGTAGAGATATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGG
AGTAGGTTGAAGTTACTAG
Found at i:50274647 original size:181 final size:181
Alignment explanation
Indices: 50274343--50274748 Score: 596
Period size: 181 Copynumber: 2.2 Consensus size: 181
50274333 CCTTATCTCT
* * * * * * *
50274343 TTGAAGTTACTAGTCTCATCTCCCTGATGTTGAAGTAGAGTAGACTTAAGATAGCGAATCTTATT
1 TTGAAGTTACTAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCTTATT
* * *
50274408 TCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGTA
66 TCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCA
* * *
50274473 GTAGAGTATATCATATCAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGG
131 GTAGAGCAGATCATATCAAACATTATCTCCCTGAAGTTGCAATGGAGCAGG
*
50274524 TTGAAGTTACTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACAAATCTTATT
1 TTGAAGTTACTAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCTTATT
** * *
50274589 TCGTTGAAGTTGTAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCA
66 TCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCA
* * * *
50274654 GTAGAGCAGATCATGTCAGACATTATCTCCCTGAAGTTGCAGTGGAGTAGG
131 GTAGAGCAGATCATATCAAACATTATCTCCCTGAAGTTGCAATGGAGCAGG
* *
50274705 TTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGA
1 TTGAAGTTACTAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGA
50274749 TTAAAGCTAT
Statistics
Matches: 201, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
181 201 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (181 bp):
TTGAAGTTACTAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTGAAGATAACAAATCTTATT
TCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCA
GTAGAGCAGATCATATCAAACATTATCTCCCTGAAGTTGCAATGGAGCAGG
Found at i:50274693 original size:41 final size:41
Alignment explanation
Indices: 50274627--50274839 Score: 133
Period size: 41 Copynumber: 4.9 Consensus size: 41
50274617 AGCTATAAAT
* * *
50274627 TACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATG
1 TACAGA-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATG
* * * *
50274669 T-CAGACATTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAG
1 TACAGAC-TTATCTCCCTGAAGTTGCAGTGGAGCA-GATCATG
* * *
50274711 TTACTAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAAT
1 -TAC-AGACTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----C-AT---G
* * *
50274763 TACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA
1 TACAGA-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATG
* *
50274805 T-CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAG
1 TACAGA-CTTATCTCCCTGAAGTTGCAGTGGAGCAG
50274840 GCTGAAGATA
Statistics
Matches: 132, Mismatches: 24, Indels: 31
0.71 0.13 0.17
Matches are distributed among these distances:
40 1 0.01
41 56 0.42
42 6 0.05
43 2 0.02
44 27 0.20
45 5 0.04
46 1 0.01
49 1 0.01
50 3 0.02
51 30 0.23
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (41 bp):
TACAGACTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATG
Found at i:50274756 original size:136 final size:136
Alignment explanation
Indices: 50274539--50274892 Score: 474
Period size: 136 Copynumber: 2.6 Consensus size: 136
50274529 GTTACTAGTC
* * * * * **
50274539 TTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAACAAATCTTATTTCGTTGAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAG-TTACTAATCTTATCTCCCTGAAGTTGTAG
* * *
50274604 TGGAATAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATG
65 TGGAACAGATTAAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATA
*
50274669 TCAGACA
130 TCAAACA
* * * *
50274676 TTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGTTACTAATCTTATCTCCCTGAAGTTGTAGT
*
50274741 GGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAT
66 GGAACAGATTAAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATAT
*
50274806 CAAACC
131 CAAACA
* * * * *
50274812 TTATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGATAGTAAATCTTATCTCTCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGTTACT-AATCTTATCTCCCTGAAGTTGTAG
* *
50274877 TAGAGCAGATTAAAGC
65 TGGAACAGATTAAAGC
50274893 CACTAATCTT
Statistics
Matches: 188, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
136 123 0.65
137 65 0.35
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (136 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGTTACTAATCTTATCTCCCTGAAGTTGTAGT
GGAACAGATTAAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATAT
CAAACA
Found at i:50274872 original size:45 final size:44
Alignment explanation
Indices: 50274768--50274980 Score: 166
Period size: 45 Copynumber: 4.9 Consensus size: 44
50274758 TAAATTACAG
* * * *
50274768 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATATCA--A
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGAT-AGTA
* * **
50274809 ACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGATAGTAA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAGT-A
* * * ** *
50274854 ATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCCACTA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAGTA
* * *
50274898 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATGAAGATGGTGA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAGT-A
* * * *
50274943 ATCTTAT-TCCCTTATAGTTGCAGTGGAGCGGGTTGAAG
1 ATCTTATCTCCC-TAAAGTTGCAGTAGAGCAGATTGAAG
50274981 CTACAAATCT
Statistics
Matches: 133, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
41 27 0.20
42 2 0.02
43 3 0.02
44 39 0.29
45 62 0.47
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGATAGTA
Found at i:50274935 original size:89 final size:88
Alignment explanation
Indices: 50274713--50274971 Score: 245
Period size: 89 Copynumber: 2.9 Consensus size: 88
50274703 GGTTGAAGTT
* * * * *
50274713 ACTAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTC
1 ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAG--AT--AGTA-A-ATCTTATCTC
* * *
50274778 TCTGAAGTTGCAGTAGAGCAGATCATATC
60 TCTAAAGTTGCAGTAGAGCAGATCAAACC
* * **
50274807 A--AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGCTGAAGATAGTAAATCTTATCTCTCTAAA
1 ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGTAAATCTTATCTCTCTAAA
* *
50274870 GTTGTAGTAGAGCAGATTAAAGCC
66 GTTGCAGTAGAGCAGATCAAA-CC
* * * * *
50274894 ACTAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATGAAGATGGTGAATCTTAT-TCCCTTAT
1 ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGTAAATCTTATCTCTC-TAA
*
50274958 AGTTGCAGTGGAGC
65 AGTTGCAGTAGAGC
50274972 GGGTTGAAGC
Statistics
Matches: 137, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
86 33 0.24
87 3 0.02
88 6 0.04
89 60 0.44
90 2 0.01
92 32 0.23
94 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (88 bp):
ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATAGTAAATCTTATCTCTCTAAA
GTTGCAGTAGAGCAGATCAAACC
Found at i:50274990 original size:89 final size:89
Alignment explanation
Indices: 50274768--50274996 Score: 223
Period size: 89 Copynumber: 2.6 Consensus size: 89
50274758 TAAATTACAG
* * * * * *
50274768 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA---TCAAACCTTATCTCCCTAAAGTTGC
1 ATCTTATCCCTCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTGC
* **
50274830 AGTGGAGCAGGCTGAAGATAGTAA
66 AGTAGAGCAGAATGAAGATAGTAA
* * * *
50274854 ATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCCACTAATCTTATCTCCCTGAAGTTGC
1 ATCTTATCCCTCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTGC
* *
50274919 AGTAGAGCAGAATGAAGATGGTGA
66 AGTAGAGCAGAATGAAGATAGTAA
* * * * * * *
50274943 ATCTTATTCCCT-TATAGTTGCAGTGGAGCGGGTTGAAGCTACAAATCTCATCTC
1 ATCTTA-TCCCTCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTC
50274997 AGACCAGGCA
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
86 33 0.28
89 79 0.68
90 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (89 bp):
ATCTTATCCCTCTAAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTGC
AGTAGAGCAGAATGAAGATAGTAA
Found at i:50275130 original size:17 final size:17
Alignment explanation
Indices: 50275105--50275141 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
50275095 GCCCAAGACC
*
50275105 AAATACAAACAATAAAT
1 AAATACAAAAAATAAAT
*
50275122 AAATCCAAAAAATAAAT
1 AAATACAAAAAATAAAT
50275139 AAA
1 AAA
50275142 AAGGTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATACAAAAAATAAAT
Found at i:50276821 original size:27 final size:28
Alignment explanation
Indices: 50276785--50276837 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
50276775 CTTTCATGCG
50276785 CATTGTTTGTCATTT-TTGTTATTATTAT
1 CATTGTTTGTCATTTATT-TTATTATTAT
*
50276813 CATTG-TTGTTATTTATTTTATTATT
1 CATTGTTTGTCATTTATTTTATTATT
50276838 TATTTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (28 bp):
CATTGTTTGTCATTTATTTTATTATTAT
Found at i:50278943 original size:72 final size:71
Alignment explanation
Indices: 50278855--50278987 Score: 212
Period size: 72 Copynumber: 1.9 Consensus size: 71
50278845 GAAAACATGC
* * *
50278855 TAGGTTGCTCATAAGAGCTATTCCAACCGATAACATGCCATATGCACATAGTGCAAAGCCCGCAT
1 TAGGTTGCTCATAAGAGCTATTCCAACCGATAACATGCCAGATACACATAGTGAAAAGCCCGCAT
50278920 GCTAAA
66 GCTAAA
* *
50278926 TAGGATTGCTCATAAGAGCTATTCCAACTGATAACATGCCAGATACATATAGTGAAAAGCCC
1 TAGG-TTGCTCATAAGAGCTATTCCAACCGATAACATGCCAGATACACATAGTGAAAAGCCC
50278988 ATAGGCTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
71 4 0.07
72 52 0.93
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (71 bp):
TAGGTTGCTCATAAGAGCTATTCCAACCGATAACATGCCAGATACACATAGTGAAAAGCCCGCAT
GCTAAA
Found at i:50286987 original size:45 final size:44
Alignment explanation
Indices: 50286923--50287080 Score: 167
Period size: 45 Copynumber: 3.5 Consensus size: 44
50286913 GTGTGGCATG
*
50286923 GTGTCTTTCAACTATGGTCTTATTTATTCTCATCTTTATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTTATT-TCATCTTTATGCCATA
* * *
50286968 GTGTCTTTCAACCATGGTCTTATTCATTTTCCGTCGTGT-TGCCATA
1 GTGTCTTTCAACCATGGTCTTATTTA-TTT-CATC-TTTATGCCATA
* * *
50287014 GTGTCTTTCAACCATGGT-TCTATTTGTTTGATTCTTGATGCCATA
1 GTGTCTTTCAACCATGGTCT-TATTTATTTCA-TCTTTATGCCATA
* *
50287059 GCGTCTTTCAACTATGGTCTTA
1 GTGTCTTTCAACCATGGTCTTA
50287081 CTCGATAGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 56 0.60
46 35 0.37
47 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.46
Consensus pattern (44 bp):
GTGTCTTTCAACCATGGTCTTATTTATTTCATCTTTATGCCATA
Found at i:50287098 original size:45 final size:45
Alignment explanation
Indices: 50287049--50287263 Score: 317
Period size: 45 Copynumber: 4.8 Consensus size: 45
50287039 GTTTGATTCT
*
50287049 TGATGCCATAGCGTCTTTCAACT-ATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTC-ACTCATGGTCTTACTCGATAGAATCA
*
50287094 TGATGCCATAGCGTCTTTCAGCT-ATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCA-CTCATGGTCTTACTCGATAGAATCA
* * *
50287139 TGATGTCATAACGTCTTTCATTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCACTCATGGTCTTACTCGATAGAATCA
* * *
50287184 TGATGCCATAACGCCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCACTCATGGTCTTACTCGATAGAATCA
*
50287229 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTC
1 TGATGCCATAACGTCTTTCACTCATGGTCTTACTC
50287264 ATTTCTGGTA
Statistics
Matches: 160, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
44 2 0.01
45 158 0.99
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCACTCATGGTCTTACTCGATAGAATCA
Found at i:50287340 original size:46 final size:46
Alignment explanation
Indices: 50287232--50287396 Score: 219
Period size: 46 Copynumber: 3.6 Consensus size: 46
50287222 AGAATCGTGA
* * * * *
50287232 TGCCATAACGTCTTTC-AGTCATGGTCTTACTCATT-TCTGGTATGG
1 TGCCATAATGTCTTTCAACT-ATGGTCTTATTTATTCTCTGGTATAG
* * *
50287277 GGACATAGT-TCTTTCAACTATGGTCTTATTTATTCTCTGGTATAG
1 TGCCATAATGTCTTTCAACTATGGTCTTATTTATTCTCTGGTATAG
*
50287322 TGCCATAATGTCTTTCAACTATGGTCTTATTTATTCTCCGGTATAG
1 TGCCATAATGTCTTTCAACTATGGTCTTATTTATTCTCTGGTATAG
50287368 TGCCATAATGTCTTTCAACTATGGTCTTA
1 TGCCATAATGTCTTTCAACTATGGTCTTA
50287397 ATCATTTTCC
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
44 19 0.18
45 22 0.21
46 64 0.61
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (46 bp):
TGCCATAATGTCTTTCAACTATGGTCTTATTTATTCTCTGGTATAG
Found at i:50288214 original size:33 final size:34
Alignment explanation
Indices: 50288159--50288250 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 34
50288149 TTACTAAATG
* *
50288159 CATCTTTAATTAATGTCTTGCATTAT-TGATCTA
1 CATCTTTAATTAATGGCATGCATTATGTGATCTA
*
50288192 CATCTTTTAATT-ATGGCATGCATTATGTGTTCTA
1 CATC-TTTAATTAATGGCATGCATTATGTGATCTA
* *
50288226 CA--TTTAA-TAAAGTCATGCATTATGT
1 CATCTTTAATTAATGGCATGCATTATGT
50288251 AACTCTCATG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 19 0.37
33 16 0.31
34 15 0.29
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (34 bp):
CATCTTTAATTAATGGCATGCATTATGTGATCTA
Found at i:50288374 original size:51 final size:50
Alignment explanation
Indices: 50288226--50288397 Score: 172
Period size: 50 Copynumber: 3.4 Consensus size: 50
50288216 ATGTGTTCTA
* * *
50288226 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCT-ATGTTAGTTTAGTTTGCAT
* * * * *
50288277 CA-TAAAATATGACATGCTTTATGTAACTCCCATGTTAGTTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACT-CTATGTTAGTTT-AGTTTGCAT
* *
50288328 CATTAAATTAAGTCATGCATTAAGTAACTCATTTGTTCA-TTTAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTC-TATGTT-AGTTTAGTTTGCAT
*
50288379 C-TT-AATTAAATCATGCATT
1 CATTAAATTAAGTCATGCATT
50288398 TAAGCATCAT
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
49 15 0.15
50 31 0.31
51 25 0.25
52 28 0.28
53 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (50 bp):
CATTAAATTAAGTCATGCATTATGTAACTCTATGTTAGTTTAGTTTGCAT
Found at i:50290815 original size:16 final size:18
Alignment explanation
Indices: 50290776--50290817 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
50290766 TAAGTTAGTA
50290776 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
50290793 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
50290810 A-ATTTATA
1 ATATTTATA
50290818 ACATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:50293564 original size:31 final size:31
Alignment explanation
Indices: 50293519--50293596 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
50293509 CTGAAGACTC
* * * *
50293519 TAATTGAAAGTTTTAAAAATTTTCAAAGATT
1 TAATTAAAATTTTTAAAAACTTTCAAAGATA
* *
50293550 TAA-TAATAATTTTTAAAAACTTTGATAGATA
1 TAATTAA-AATTTTTAAAAACTTTCAAAGATA
50293581 TAATTAAAATTTTTAA
1 TAATTAAAATTTTTAA
50293597 TTAATAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 34 0.87
32 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (31 bp):
TAATTAAAATTTTTAAAAACTTTCAAAGATA
Found at i:50305485 original size:28 final size:28
Alignment explanation
Indices: 50305422--50305687 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
50305412 ATATTAAGTC
*
50305422 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
50305449 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
50305477 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
50305505 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
50305533 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
50305561 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
50305589 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
50305617 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
50305645 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
50305674 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50305688 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:50316537 original size:4 final size:4
Alignment explanation
Indices: 50316528--50316563 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
50316518 AATTGAAAAT
*
50316528 TTAA TTAA TTAA TTAA TTAA TTAA TTTAA TAAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA -TTAA TTAA TTA
50316564 TATTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:50316537 original size:16 final size:15
Alignment explanation
Indices: 50316507--50316553 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
50316497 ATTAGGTTGA
*
50316507 GAAAATTATTTAATT
1 GAAAATTAATTAATT
50316522 GAAAATTTAATTAATT
1 GAAAA-TTAATTAATT
50316538 -AATTAATTAATTAATT
1 GAA--AATTAATTAATT
50316554 TAATAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.25
16 19 0.68
17 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
GAAAATTAATTAATT
Found at i:50316543 original size:12 final size:13
Alignment explanation
Indices: 50316525--50316569 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
50316515 TTTAATTGAA
50316525 AATTTAATTAATT
1 AATTTAATTAATT
50316538 AA-TTAATTAATT
1 AATTTAATTAATT
*
50316550 AATTTAATAAATT
1 AATTTAATTAATT
50316563 ATATTTA
1 A-ATTTA
50316570 TTTTGAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.41
13 12 0.41
14 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTTAATTAATT
Found at i:50318142 original size:41 final size:40
Alignment explanation
Indices: 50318096--50318173 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
50318086 TCATATTAAT
*
50318096 TTTTGTGTTCA-GATTTTTTAGAT-TTATTTTGATAAAATGAG
1 TTTTGT-TTCATGA-TTTTTAAATATTA-TTTGATAAAATGAG
*
50318137 TTTTGTTTTATGATTTTTAAATATTATTTGATAAAAT
1 TTTTGTTTCATGATTTTTAAATATTATTTGATAAAAT
50318174 TTTAAGCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.56
Consensus pattern (40 bp):
TTTTGTTTCATGATTTTTAAATATTATTTGATAAAATGAG
Found at i:50319000 original size:18 final size:18
Alignment explanation
Indices: 50318977--50319011 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
50318967 CCAAGGGACC
50318977 TTATCTTCTTTAGGCATA
1 TTATCTTCTTTAGGCATA
50318995 TTATCTTCTTTAGGCAT
1 TTATCTTCTTTAGGCAT
50319012 TCTCTAGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (18 bp):
TTATCTTCTTTAGGCATA
Found at i:50319191 original size:19 final size:20
Alignment explanation
Indices: 50319166--50319210 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
50319156 ATAACAATTA
*
50319166 CAAAATAATTTTTAAAA-TTT
1 CAAAAT-ATTTATAAAAGTTT
50319186 -AAAATATTTATAAAAGTTT
1 CAAAATATTTATAAAAGTTT
50319205 CAAAAT
1 CAAAAT
50319211 TTATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
CAAAATATTTATAAAAGTTT
Found at i:50319199 original size:18 final size:17
Alignment explanation
Indices: 50319172--50319244 Score: 65
Period size: 18 Copynumber: 4.1 Consensus size: 17
50319162 ATTACAAAAT
*
50319172 AATTTTTAAAATTTAAA
1 AATTTATAAAATTTAAA
*
50319189 ATATTTATAAAAGTTTCAA
1 A-ATTTATAAAA-TTTAAA
** *
50319208 AATTTATTTATTTTAAA
1 AATTTATAAAATTTAAA
*
50319225 AAATTATAGAAATTTAAA
1 AATTTATA-AAATTTAAA
50319243 AA
1 AA
50319245 ATATAAAGAA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 12 0.28
18 25 0.58
19 6 0.14
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTTATAAAATTTAAA
Found at i:50319254 original size:19 final size:19
Alignment explanation
Indices: 50319219--50319270 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
50319209 ATTTATTTAT
*
50319219 TTTAAAAAATTATAGAA-A
1 TTTAAAAAATTAAAGAATA
50319237 TTTAAAAAATATAAAGAATA
1 TTTAAAAAAT-TAAAGAATA
* *
50319257 TATAAAAAGTTAAA
1 TTTAAAAAATTAAA
50319271 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.34
19 10 0.34
20 9 0.31
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
TTTAAAAAATTAAAGAATA
Found at i:50327572 original size:17 final size:17
Alignment explanation
Indices: 50327550--50327586 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
50327540 GTTTTATGGA
50327550 AGAAAA-AAATGAACAAT
1 AGAAAAGAAATGAA-AAT
50327567 AGAAAAGAAATGAAAAT
1 AGAAAAGAAATGAAAAT
50327584 AGA
1 AGA
50327587 GCTTTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.70, C:0.03, G:0.16, T:0.11
Consensus pattern (17 bp):
AGAAAAGAAATGAAAAT
Found at i:50330088 original size:272 final size:272
Alignment explanation
Indices: 50329667--50330210 Score: 1088
Period size: 272 Copynumber: 2.0 Consensus size: 272
50329657 ATTGGTTAGA
50329667 AATTAACATCTTTCTACTGTAATGATTAAGAATTAATTATCACCTCTCTACTCACTTTTTTATCT
1 AATTAACATCTTTCTACTGTAATGATTAAGAATTAATTATCACCTCTCTACTCACTTTTTTATCT
50329732 CATTTAATTGTTAAACATATTTTTATTATTGTATTATTATTAAATATTATAAGTATTATTATTAT
66 CATTTAATTGTTAAACATATTTTTATTATTGTATTATTATTAAATATTATAAGTATTATTATTAT
50329797 TATTAAAGATATAAGTAATATTATTATTCAAAATATTTTTTTATTATAAGATTATTGTTAAACAT
131 TATTAAAGATATAAGTAATATTATTATTCAAAATATTTTTTTATTATAAGATTATTGTTAAACAT
50329862 ATATATGAATACATAAATACAAAAATATGAGCAAAATGCTAAAATATAATAAATTAGTATTATTC
196 ATATATGAATACATAAATACAAAAATATGAGCAAAATGCTAAAATATAATAAATTAGTATTATTC
50329927 AACAATAATCAT
261 AACAATAATCAT
50329939 AATTAACATCTTTCTACTGTAATGATTAAGAATTAATTATCACCTCTCTACTCACTTTTTTATCT
1 AATTAACATCTTTCTACTGTAATGATTAAGAATTAATTATCACCTCTCTACTCACTTTTTTATCT
50330004 CATTTAATTGTTAAACATATTTTTATTATTGTATTATTATTAAATATTATAAGTATTATTATTAT
66 CATTTAATTGTTAAACATATTTTTATTATTGTATTATTATTAAATATTATAAGTATTATTATTAT
50330069 TATTAAAGATATAAGTAATATTATTATTCAAAATATTTTTTTATTATAAGATTATTGTTAAACAT
131 TATTAAAGATATAAGTAATATTATTATTCAAAATATTTTTTTATTATAAGATTATTGTTAAACAT
50330134 ATATATGAATACATAAATACAAAAATATGAGCAAAATGCTAAAATATAATAAATTAGTATTATTC
196 ATATATGAATACATAAATACAAAAATATGAGCAAAATGCTAAAATATAATAAATTAGTATTATTC
50330199 AACAATAATCAT
261 AACAATAATCAT
50330211 CTATAATTAT
Statistics
Matches: 272, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 272 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (272 bp):
AATTAACATCTTTCTACTGTAATGATTAAGAATTAATTATCACCTCTCTACTCACTTTTTTATCT
CATTTAATTGTTAAACATATTTTTATTATTGTATTATTATTAAATATTATAAGTATTATTATTAT
TATTAAAGATATAAGTAATATTATTATTCAAAATATTTTTTTATTATAAGATTATTGTTAAACAT
ATATATGAATACATAAATACAAAAATATGAGCAAAATGCTAAAATATAATAAATTAGTATTATTC
AACAATAATCAT
Found at i:50333504 original size:18 final size:19
Alignment explanation
Indices: 50333481--50333525 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
50333471 AAATGTACTA
50333481 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
50333499 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
50333518 ATTAATTT
1 ATTAATTT
50333526 AAGATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:50345500 original size:37 final size:37
Alignment explanation
Indices: 50345454--50345526 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
50345444 CGAAACATGC
* * *
50345454 CAAATGCTCAAGAGAGCTAGTCCAATCGATAACACGT
1 CAAAGGCTCAAGAGAGCTAATCCAATCAATAACACGT
*
50345491 CAAAGGCTCATGAGAGCTAATCCAATCAATAACACG
1 CAAAGGCTCAAGAGAGCTAATCCAATCAATAACACG
50345527 CCTCGGCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.18
Consensus pattern (37 bp):
CAAAGGCTCAAGAGAGCTAATCCAATCAATAACACGT
Found at i:50351761 original size:20 final size:20
Alignment explanation
Indices: 50351728--50351767 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50351718 GATCTCATAT
*
50351728 TTATTTTGTGTTTTATTTAC
1 TTATTTTGTCTTTTATTTAC
* *
50351748 TTATTTTTTCTTTTCTTTAC
1 TTATTTTGTCTTTTATTTAC
50351768 CAATTTACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.72
Consensus pattern (20 bp):
TTATTTTGTCTTTTATTTAC
Found at i:50355589 original size:502 final size:502
Alignment explanation
Indices: 50354661--50356131 Score: 2542
Period size: 502 Copynumber: 3.0 Consensus size: 502
50354651 AGATTAATCA
* * *
50354661 ACTATGTTTTTACACTTTGATTGTCGAGGTAAGTTCGTATGATAAAATAGCGTTTTAATGTTATG
1 ACTATGTTTTTACACTTTGATTGTCGAGGTAAGTTCGTATGATTAAATAACATTTTAATGTTATG
** *
50354726 TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAGCGAT-TGAAATCTAACGATGTCATT
66 TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAATGATGT-AAATCTAACGATGTCATG
50354790 ATGACTATCGAG-C-C------A-C------ATTCGTAGGATACAAATGACATGTCATTAGGGTT
130 ATGACTATCGAGCCACGTTAGAACCTTAGGAATTCGTAGGATACAAATGACATGTCATTAGGGTT
*
50354840 TTCATGTTTCGGGTGCTAGTCTTGAATGCCCTATCGATGGATGAGGTCCTGTATTTGTTGCGAAT
195 TTCATGTTTCGGGTGCTAGTCTTGAATGCCCTATCGATGGATGAGGTCCTGCATTTGTTGCGAAT
50354905 ACTCCACAGCTTGTGCGAGCAGCATCGTGTAGCTTACATTCTGACCCACAGCTCGTGTGAGTAGG
260 ACTCCACAGCTTGTGCGAGCAGCATCGTGTAGCTTACATTCTGACCCACAGCTCGTGTGAGTAGG
50354970 CCCATTTCATAGCTCGTGTGATCAACAATGTAACGGAAAATGAAAGGTTATATGTTTAGCACAAT
325 CCCATTTCATAGCTCGTGTGATCAACAATGTAACGGAAAATGAAAGGTTATATGTTTAGCACAAT
50355035 TCATGTGAGATTTCCCACGTATCTGATGTTATTCTGAATGGTTCAATGGGTATGAAAAGGAAAGG
390 TCATGTGAGATTTCCCACGTATCTGATGTTATTCTGAATGGTTCAATGGGTATGAAAAGGAAAGG
50355100 AACGGTAAGTGTTCAATATAATATATCAATATGTTATTATATTGATCG
455 AACGGTAAGTGTTCAATATAATATATCAATATGTTATTATATTGATCG
* * * *
50355148 GCTATGTTTTCACACTTTGATTGTTGAGGTAAGTTCGTATGATTAAATAACATTTTAATATTATG
1 ACTATGTTTTTACACTTTGATTGTCGAGGTAAGTTCGTATGATTAAATAACATTTTAATGTTATG
50355213 TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAATGATGTAAATCTAACGATGTCATGA
66 TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAATGATGTAAATCTAACGATGTCATGA
*
50355278 TTACTATCGAGCCACGTTAGAACCTTAGGAATTCGTAGGATACAAATGACATGTCATTAGGGTTT
131 TGACTATCGAGCCACGTTAGAACCTTAGGAATTCGTAGGATACAAATGACATGTCATTAGGGTTT
50355343 TCATGTTTCGGGTGCTAGTCTTGAATGCCCTATCGATGGATGAGGTCCTGCATTTGTTGCGAATA
196 TCATGTTTCGGGTGCTAGTCTTGAATGCCCTATCGATGGATGAGGTCCTGCATTTGTTGCGAATA
*
50355408 CTCCACAGCTTGTGCGAGCAGCATCGTGTAGCTTACATTCTGACCCATAGCTCGTGTGAGTAGGC
261 CTCCACAGCTTGTGCGAGCAGCATCGTGTAGCTTACATTCTGACCCACAGCTCGTGTGAGTAGGC
* *
50355473 CCATTTCATAGCTCGTGTGATCAACAATGTAACGAAAAATAAAAGGTTATATGTTTAGCACAATT
326 CCATTTCATAGCTCGTGTGATCAACAATGTAACGGAAAATGAAAGGTTATATGTTTAGCACAATT
*
50355538 CATGTGAGATTTCCCACGTATCTAATGTTATTCTGAATGGTTCAATGGGTATGAAAAGGAAAGGA
391 CATGTGAGATTTCCCACGTATCTGATGTTATTCTGAATGGTTCAATGGGTATGAAAAGGAAAGGA
50355603 ACGGTAAGTGTTCAATATAATATATCAATATGTTATTATATTGATCG
456 ACGGTAAGTGTTCAATATAATATATCAATATGTTATTATATTGATCG
*
50355650 ACTATGTTTTTACACTTTGATTGTCGAGGTAAGTTCGTATGATTAAATAACATTTAAATGTTATG
1 ACTATGTTTTTACACTTTGATTGTCGAGGTAAGTTCGTATGATTAAATAACATTTTAATGTTATG
*
50355715 TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAATGATGTAAATCTAATGATGTCATGA
66 TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAATGATGTAAATCTAACGATGTCATGA
*
50355780 TGACTATCGAGCCACGTTAGAACCTTAGGAATTCGTAGGGTACAAATGACATGTCATTAGGGTTT
131 TGACTATCGAGCCACGTTAGAACCTTAGGAATTCGTAGGATACAAATGACATGTCATTAGGGTTT
* * * *
50355845 TCATGTTTCGGGTGCTAGTCTAGAATGTCTTATCGATGGATGAGGTCCTGCATTTGTTGCAAATA
196 TCATGTTTCGGGTGCTAGTCTTGAATGCCCTATCGATGGATGAGGTCCTGCATTTGTTGCGAATA
* *
50355910 CTCCACAGCTTGTGCGAGCAGTATCGTGTAGCTTACATTCTGACCCACAGCTCGTATGAGTAGGC
261 CTCCACAGCTTGTGCGAGCAGCATCGTGTAGCTTACATTCTGACCCACAGCTCGTGTGAGTAGGC
* *
50355975 CCATTTCATAGCTCGTGTGATCAACAATGTAAAGGAAAATGAAAGGTTATATGTTTAGCATAATT
326 CCATTTCATAGCTCGTGTGATCAACAATGTAACGGAAAATGAAAGGTTATATGTTTAGCACAATT
* *
50356040 CATGTGAGATTTCCCACATATCTGATGTTATTCTGAATGGTTCAATGGGCATGAAAAGGAAAGGA
391 CATGTGAGATTTCCCACGTATCTGATGTTATTCTGAATGGTTCAATGGGTATGAAAAGGAAAGGA
* *
50356105 ACAGTAAGTGCTCAATATAATATATCA
456 ACGGTAAGTGTTCAATATAATATATCA
50356132 TGAAATTATG
Statistics
Matches: 928, Mismatches: 40, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
487 128 0.14
488 2 0.00
489 1 0.00
495 1 0.00
496 1 0.00
502 795 0.86
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (502 bp):
ACTATGTTTTTACACTTTGATTGTCGAGGTAAGTTCGTATGATTAAATAACATTTTAATGTTATG
TTGATCTATATGTCAATATGTTATTTGGCATGTAACTAAATGATGTAAATCTAACGATGTCATGA
TGACTATCGAGCCACGTTAGAACCTTAGGAATTCGTAGGATACAAATGACATGTCATTAGGGTTT
TCATGTTTCGGGTGCTAGTCTTGAATGCCCTATCGATGGATGAGGTCCTGCATTTGTTGCGAATA
CTCCACAGCTTGTGCGAGCAGCATCGTGTAGCTTACATTCTGACCCACAGCTCGTGTGAGTAGGC
CCATTTCATAGCTCGTGTGATCAACAATGTAACGGAAAATGAAAGGTTATATGTTTAGCACAATT
CATGTGAGATTTCCCACGTATCTGATGTTATTCTGAATGGTTCAATGGGTATGAAAAGGAAAGGA
ACGGTAAGTGTTCAATATAATATATCAATATGTTATTATATTGATCG
Found at i:50362404 original size:13 final size:14
Alignment explanation
Indices: 50362386--50362414 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50362376 AAGTGATTTA
50362386 AAGGTT-AATTAGT
1 AAGGTTAAATTAGT
50362399 AAGGTTAAATTAGT
1 AAGGTTAAATTAGT
50362413 AA
1 AA
50362415 TTTAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (14 bp):
AAGGTTAAATTAGT
Found at i:50375892 original size:17 final size:17
Alignment explanation
Indices: 50375870--50375908 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50375860 CGGGTTTGGG
*
50375870 GTGTTACAGATTAAATA
1 GTGTTACAGAGTAAATA
50375887 GTGTTACAGAGTAAATA
1 GTGTTACAGAGTAAATA
*
50375904 ATGTT
1 GTGTT
50375909 TTAATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (17 bp):
GTGTTACAGAGTAAATA
Found at i:50378786 original size:25 final size:25
Alignment explanation
Indices: 50378758--50378805 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50378748 TAACCTGAAC
*
50378758 AATGGTAAGCTCATGCGAGCTAAGT
1 AATGGTAAGCTCATACGAGCTAAGT
50378783 AATGGTAAGCTCATACGAGCTAA
1 AATGGTAAGCTCATACGAGCTAA
50378806 AATCGGTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (25 bp):
AATGGTAAGCTCATACGAGCTAAGT
Found at i:50385358 original size:23 final size:22
Alignment explanation
Indices: 50385315--50385358 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
50385305 TTCTAAGTCG
50385315 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
50385338 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
50385359 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:50385568 original size:51 final size:50
Alignment explanation
Indices: 50385513--50385689 Score: 221
Period size: 51 Copynumber: 3.5 Consensus size: 50
50385503 AGTATCCTAT
* * *
50385513 ACATAGTACTATACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTACTACACACGTGACCA-TACCATCCGGTACACGTAGTAGCCTGC
* * * * *
50385564 ACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAGCCTGC
1 ACATAGTACTACACACGTGA-CCATACCATCCGGTACACGTAGTAGCCTGC
* * *
50385615 ACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGC
1 ACATAGTACTACACACGTGACCATACCA-TCCGGTACACGTAGTAGCCTGC
50385665 ACATAGTACTACACACGTGACCATA
1 ACATAGTACTACACACGTGACCATA
50385690 ACTTTCAGTT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.02
50 41 0.39
51 60 0.57
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (50 bp):
ACATAGTACTACACACGTGACCATACCATCCGGTACACGTAGTAGCCTGC
Found at i:50387408 original size:2 final size:2
Alignment explanation
Indices: 50387401--50387439 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
50387391 TCATAAAGAA
*
50387401 AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
50387440 TTTACACTAC
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:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:50388169 original size:21 final size:22
Alignment explanation
Indices: 50388127--50388173 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
50388117 GTTTCGCTTT
* * *
50388127 GTTTACTTTATTTTTAACTTAA
1 GTTTACTTTAATTATAAATTAA
50388149 GTTT-CTTTAATTATAAATTAA
1 GTTTACTTTAATTATAAATTAA
50388170 -TTTA
1 GTTTA
50388174 TCACATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 14 0.67
22 4 0.19
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (22 bp):
GTTTACTTTAATTATAAATTAA
Found at i:50396055 original size:18 final size:19
Alignment explanation
Indices: 50396028--50396063 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50396018 CAATATAGGG
*
50396028 TCATTGATTTC-ACTTAAA
1 TCATTCATTTCAACTTAAA
50396046 TCATTCATTTCAACTTAA
1 TCATTCATTTCAACTTAA
50396064 GCATACAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (19 bp):
TCATTCATTTCAACTTAAA
Found at i:50396452 original size:40 final size:40
Alignment explanation
Indices: 50396403--50396533 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
50396393 TAGATTCAGC
* *
50396403 AGGTATGGCTCAAAAGCGCATACATTTTATTAGATTTAAT
1 AGGTATGGCTCAAAAGCGCATACATTTCAATAGATTTAAT
* * *
50396443 AGGTGTGGCTCAAAAGCGCATACATTTCAATAGATTCAGT
1 AGGTATGGCTCAAAAGCGCATACATTTCAATAGATTTAAT
* * * * * *
50396483 AAGTATGCCTTGAAAA-CACATACGTTTCAATAGATTTAGT
1 AGGTATGGC-TCAAAAGCGCATACATTTCAATAGATTTAAT
50396523 AGGTATGGCTC
1 AGGTATGGCTC
50396534 TTCTGGGCAT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 69 0.92
41 5 0.07
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (40 bp):
AGGTATGGCTCAAAAGCGCATACATTTCAATAGATTTAAT
Found at i:50398708 original size:46 final size:46
Alignment explanation
Indices: 50398656--50398801 Score: 136
Period size: 46 Copynumber: 3.2 Consensus size: 46
50398646 TTGTTGTGTT
* * *
50398656 GGTTTAACCCTAATGGGTGACC-AGACACTGTTATTCGA-ATCATGTA
1 GGTTTAACCCTAACGAGTGACCAAG-CACTATTATTCGATATC-TGTA
* *
50398702 GGTTTAACCCTAACGAGTGACCAAGCACTATTATTTGATTTCTGTA
1 GGTTTAACCCTAACGAGTGACCAAGCACTATTATTCGATATCTGTA
* * * * * * *
50398748 GGTTTAACCCTATC-AGGTGACTAGGTACTATTATTAGATTTGTGTA
1 GGTTTAACCCTAACGA-GTGACCAAGCACTATTATTCGATATCTGTA
50398794 GGTTTAAC
1 GGTTTAAC
50398802 GAAATGGGTA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 81 0.94
47 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (46 bp):
GGTTTAACCCTAACGAGTGACCAAGCACTATTATTCGATATCTGTA
Found at i:50417507 original size:45 final size:45
Alignment explanation
Indices: 50417438--50417528 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
50417428 AGATACTCGA
* * *
50417438 TGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
*
50417483 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
50417528 T
1 T
50417529 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:50417598 original size:51 final size:51
Alignment explanation
Indices: 50417530--50417673 Score: 175
Period size: 51 Copynumber: 2.8 Consensus size: 51
50417520 ATGTTCGGTT
*
50417530 CACATAGTAGTCC-GCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAG-CCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
* * * * * *
50417581 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATA
* *
50417632 CGCATAGTAGCCTGCACATAGTACAACACATGTGACCATAAC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAAC
50417674 TTTCACTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
50 4 0.05
51 72 0.92
52 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATA
Found at i:50417689 original size:51 final size:49
Alignment explanation
Indices: 50417531--50417700 Score: 137
Period size: 51 Copynumber: 3.3 Consensus size: 49
50417521 TGTTCGGTTC
* ** *
50417531 ACATAGTAGTCC-GCACATAGTACTACACATGTGACCATTACCATCCGAT
1 ACATAGTAG-CCTGCACATAGTACTACACATGTGACCATAACTTTCCTAT
* * * *
50417580 ACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATTCGGTAC
1 ACA--TAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACT-TTC-CTAT
* * *
50417633 GCATAGTAGCCTGCACATAGTACAACACATGTGACCATAACTTTCACTTTT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACTTTC-C-TAT
* *
50417684 ACATAGTTGCCTACACA
1 ACATAGTAGCCTGCACA
50417701 CAGTCCGTGC
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
49 3 0.03
50 7 0.07
51 77 0.82
52 4 0.04
53 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACTTTCCTAT
Found at i:50420252 original size:49 final size:50
Alignment explanation
Indices: 50420195--50420292 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 50
50420185 GACGTTTTCT
** * *
50420195 CGATGCCATAGTCCAACTATGGTCTTACAC-GTAATCACATAACACATAC
1 CGATGCCATAACCCAACCATGGTCTTACACGGAAATCACATAACACATAC
* * *
50420244 CGATGCCATAACCCAGCCATGGTCTTATACGGAAATCACATATCACATA
1 CGATGCCATAACCCAACCATGGTCTTACACGGAAATCACATAACACATA
50420293 TTGTCATGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 25 0.61
50 16 0.39
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (50 bp):
CGATGCCATAACCCAACCATGGTCTTACACGGAAATCACATAACACATAC
Found at i:50423363 original size:45 final size:45
Alignment explanation
Indices: 50423299--50423387 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
50423289 AACAGATACT
* * *
50423299 CGGTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
50423344 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
50423388 TCTGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:50423460 original size:51 final size:50
Alignment explanation
Indices: 50423398--50423584 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
50423388 TCTGTTCACA
* ** *
50423398 TAGTAGTCTGCACATAGTACTACACATATGACCATTACCATCCT-ATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCAT-CTGGTACACG
* * * * *
50423449 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCTGGTACACG
* * * *
50423500 TAGTAGCCTGCACATAGTATTACACATGCGACC-TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCTGGTACACG
* *
50423550 TAGTAGCATGCACATAGTATTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
50423585 CACTTTCACT
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 2 0.02
50 42 0.38
51 65 0.59
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGGTACACG
Found at i:50423564 original size:50 final size:51
Alignment explanation
Indices: 50423443--50423582 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 51
50423433 TACCATCCTA
* * *
50423443 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCTGG
1 TACACGTAGTAGCCTGCACATAGTATTACACACGCGACCGAAACTATCTGG
* * * * *
50423494 TACGCATAGTAGCCTGCACATAGTATTACACATGCGACC-TATC-ATTCTGG
1 TACACGTAGTAGCCTGCACATAGTATTACACACGCGACCGAAACTA-TCTGG
* *
50423544 TACACGTAGTAGCATGCACATAGTATTACACACGTGACC
1 TACACGTAGTAGCCTGCACATAGTATTACACACGCGACC
50423583 ATCACTTTCA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
49 1 0.01
50 41 0.55
51 33 0.44
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTATTACACACGCGACCGAAACTATCTGG
Found at i:50423574 original size:101 final size:101
Alignment explanation
Indices: 50423396--50423580 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
50423386 GTTCTGTTCA
* * *
50423396 CATAGTAGTCTGCACATAGTACTACACATATGACCATTACCATCCTATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCA-TACCATCCTATACACGTAGTAGCATGCA
50423461 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* * * * *
50423498 CATAGTAGCCTGCACATAGTATTACACATGCGACC-TATCATTCTGGTACACGTAGTAGCATGCA
1 CATAGTAGCCTGCACATAGTACTACACATACGACCATACCATCCT-ATACACGTAGTAGCATGCA
*
50423562 CATAGTATTACACACGTGA
65 CATAGTACTACACACGTGA
50423581 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 7 0.10
101 35 0.48
102 31 0.42
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATACGACCATACCATCCTATACACGTAGTAGCATGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:50425889 original size:16 final size:17
Alignment explanation
Indices: 50425868--50425901 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50425858 AATATTAGGA
*
50425868 GTAAAAGTGT-AATTTT
1 GTAAAAGTATGAATTTT
50425884 GTAAAAGTATGAATTTT
1 GTAAAAGTATGAATTTT
50425901 G
1 G
50425902 GACTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (17 bp):
GTAAAAGTATGAATTTT
Found at i:50428505 original size:50 final size:49
Alignment explanation
Indices: 50428438--50428573 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 49
50428428 AAAGTGAAAG
*
50428438 TGAT-GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGAA
1 TGATAGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGG-A
* * * *
50428487 TGATAGGTCGCGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGA
1 TGATAGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA
* *
50428536 TGGTAATGGTCACATGTGTAGTACTATGTGTAGGCTAC
1 TGAT-A-GGTCACGTGTGTAGTACTATGTGTAGGCTAC
50428574 CATGTGAACC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 8 0.11
50 39 0.52
51 28 0.37
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.32
Consensus pattern (49 bp):
TGATAGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA
Found at i:50428637 original size:45 final size:45
Alignment explanation
Indices: 50428581--50428675 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
50428571 TACCATGTGA
* * *
50428581 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
50428626 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
50428671 ACCGA
1 ACCGA
50428676 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:50432531 original size:46 final size:46
Alignment explanation
Indices: 50432436--50432574 Score: 237
Period size: 46 Copynumber: 3.1 Consensus size: 46
50432426 TTACACTTCT
*
50432436 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
50432480 ATTCCATTGAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
50432526 ATTCCATTCAACCAAACAAAAGAATTATCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
50432572 ATT
1 ATT
50432575 ACGCCTCTAT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
44 22 0.25
45 4 0.04
46 63 0.71
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:50432577 original size:16 final size:16
Alignment explanation
Indices: 50432556--50432608 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
50432546 AGAATTATCT
50432556 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
50432572 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
50432588 ATTACACCTCTATTCT
1 ATTACGCCTCTATTCC
50432604 ATTAC
1 ATTAC
50432609 AGTAAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:50439055 original size:12 final size:12
Alignment explanation
Indices: 50439040--50439069 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50439030 TTAGGTTGTT
50439040 ACACGGCCTAGC
1 ACACGGCCTAGC
*
50439052 ACACGACCTAGC
1 ACACGGCCTAGC
50439064 ACACGG
1 ACACGG
50439070 GCATGTGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:50439851 original size:19 final size:19
Alignment explanation
Indices: 50439822--50439864 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
50439812 GTGGAAAGGC
50439822 TTAAT-TGTGAACAATGAT
1 TTAATATGTGAACAATGAT
50439840 TTAATATGTGAACAATGAT
1 TTAATATGTGAACAATGAT
50439859 TTAATA
1 TTAATA
50439865 GGTATATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (19 bp):
TTAATATGTGAACAATGAT
Found at i:50448852 original size:28 final size:28
Alignment explanation
Indices: 50448820--50448889 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 28
50448810 AAATAACATC
*
50448820 ATAAAACCATTCAACTCTTAAACTAAAT
1 ATAAAACCATTCAAATCTTAAACTAAAT
*
50448848 ATAAAAACCATTAAAATCTTAAACTAAAT
1 AT-AAAACCATTCAAATCTTAAACTAAAT
*
50448877 ATAAAATCATTCA
1 ATAAAACCATTCA
50448890 TAATTCATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 11 0.30
29 26 0.70
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (28 bp):
ATAAAACCATTCAAATCTTAAACTAAAT
Found at i:50449402 original size:21 final size:20
Alignment explanation
Indices: 50449373--50449412 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50449363 ATTTCAAACT
*
50449373 ATATTAAACTATTCAAAACAC
1 ATATAAAAC-ATTCAAAACAC
50449394 ATATAAAACATTCAAAACA
1 ATATAAAACATTCAAAACA
50449413 TGCCTAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.25
Consensus pattern (20 bp):
ATATAAAACATTCAAAACAC
Found at i:50458296 original size:32 final size:32
Alignment explanation
Indices: 50458241--50458350 Score: 123
Period size: 32 Copynumber: 3.5 Consensus size: 32
50458231 TAATGGTTAC
* * *
50458241 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
* *
50458272 AAGCCATCAGTAGTAGTGATATGATCGGTACA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
* * * * *
50458304 AAACCATCAGTAATGGTAATATGATCGACAAA
1 AAGCCATCAGTAGTAGTAATATGATCGGCACA
50458336 AAGCCATCAGTAGTA
1 AAGCCATCAGTAGTA
50458351 TCGCAGCAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
31 11 0.17
32 52 0.83
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAGTAGTAATATGATCGGCACA
Found at i:50458545 original size:24 final size:24
Alignment explanation
Indices: 50458518--50458574 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
50458508 GCCATACTTA
* *
50458518 AAATCCGTCATGCAAATCACAAAC
1 AAATCAGTCATACAAATCACAAAC
* *
50458542 AAATCAGTCATACCAATCACAGAC
1 AAATCAGTCATACAAATCACAAAC
*
50458566 AAATGAGTC
1 AAATCAGTC
50458575 GTTTACATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.18
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAAAC
Found at i:50458603 original size:24 final size:24
Alignment explanation
Indices: 50458557--50458605 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50458547 AGTCATACCA
* * *
50458557 ATCACAGACAAATGAGTCGTTTAC
1 ATCACAGACAAATCAATCATTTAC
*
50458581 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
50458605 A
1 A
50458606 CTCAAAGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:50458724 original size:81 final size:81
Alignment explanation
Indices: 50458638--50458807 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
50458628 GACCCTCTAG
* *
50458638 GGGCATTACGATCATTTTA-CCT-TACAGGAGTATTTCAATCATTTAACCCTATGAA-GGTATTA
1 GGGCATTACGATCATTTGACCCTATA-AGGA-TATTTCAATCATTTAACCCTA-CAAGGGTATTA
50458700 CGATCATTTTACCCTACAA
63 CGATCATTTTACCCTACAA
* * ** * *
50458719 GGGCATTACGGTCATTTGACCCTATAAGGATTTTTTGATCATTTTACCCTACAAGGGTATTACGG
1 GGGCATTACGATCATTTGACCCTATAAGGATATTTCAATCATTTAACCCTACAAGGGTATTACGA
* *
50458784 TCATTTTACCTTACAG
66 TCATTTTACCCTACAA
50458800 GGGCATTA
1 GGGCATTA
50458808 TGGTTATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
80 2 0.03
81 65 0.86
82 7 0.09
83 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (81 bp):
GGGCATTACGATCATTTGACCCTATAAGGATATTTCAATCATTTAACCCTACAAGGGTATTACGA
TCATTTTACCCTACAA
Found at i:50458726 original size:27 final size:27
Alignment explanation
Indices: 50458642--50458807 Score: 147
Period size: 27 Copynumber: 6.1 Consensus size: 27
50458632 CTCTAGGGGC
*
50458642 ATTACGATCATTTTACCTTAC-AGGAGT
1 ATTACGATCATTTTACCCTACAAGG-GT
* * * *
50458669 ATTTCAATCATTTAACCCTATGAA-GGT
1 ATTACGATCATTTTACCCTA-CAAGGGT
*
50458696 ATTACGATCATTTTACCCTACAAGGGC
1 ATTACGATCATTTTACCCTACAAGGGT
* * * *
50458723 ATTACGGTCATTTGACCCTATAAGGAT
1 ATTACGATCATTTTACCCTACAAGGGT
* **
50458750 TTTTTGATCATTTTACCCTACAAGGGT
1 ATTACGATCATTTTACCCTACAAGGGT
* * * *
50458777 ATTACGGTCATTTTACCTTACAGGGGC
1 ATTACGATCATTTTACCCTACAAGGGT
50458804 ATTA
1 ATTA
50458808 TGGTTATTTT
Statistics
Matches: 107, Mismatches: 29, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
26 2 0.02
27 103 0.96
28 1 0.01
29 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTACAAGGGT
Found at i:50458734 original size:54 final size:54
Alignment explanation
Indices: 50458642--50458789 Score: 183
Period size: 54 Copynumber: 2.7 Consensus size: 54
50458632 CTCTAGGGGC
* * **
50458642 ATTACGATCATTTTACCTTAC-AGGAGTATTTCAATCATTTAACCCTATGAAGG-T
1 ATTACGATCATTTTACCCTACAAGG-GTATTACGGTCATTTAACCCTAT-AAGGAT
* *
50458696 ATTACGATCATTTTACCCTACAAGGGCATTACGGTCATTTGACCCTATAAGGAT
1 ATTACGATCATTTTACCCTACAAGGGTATTACGGTCATTTAACCCTATAAGGAT
* **
50458750 TTTTTGATCATTTTACCCTACAAGGGTATTACGGTCATTT
1 ATTACGATCATTTTACCCTACAAGGGTATTACGGTCATTT
50458790 TACCTTACAG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
53 4 0.05
54 75 0.91
55 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (54 bp):
ATTACGATCATTTTACCCTACAAGGGTATTACGGTCATTTAACCCTATAAGGAT
Found at i:50467757 original size:41 final size:42
Alignment explanation
Indices: 50467656--50467758 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
50467646 TATGTTATCT
*
50467656 TGTAAGACCAAT-TCTGGGACATTGGCATTGACTTGTGTTACG
1 TGTAAGACC-ATGTCTGGGACATTGGCATCGACTTGTGTTACG
* *
50467698 TGTAAGACCATGTATGGGACATTGGCATCGTA-TT-TGTTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ACTTGTGTTACG
*
50467739 TGTAAGACCCTGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
50467759 GCATAGATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
41 26 0.48
42 27 0.50
43 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGACTTGTGTTACG
Found at i:50469029 original size:49 final size:50
Alignment explanation
Indices: 50468904--50469085 Score: 172
Period size: 49 Copynumber: 3.7 Consensus size: 50
50468894 GATAATAACA
* * * * *
50468904 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGA-GTTCTCATATCAG
* * *
50468953 TGCAAATGCCATATCCCAGACACGGTCTTACATGAGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCAG
* ** ** * *
50469003 TGCCAATGCCATGTCCCA-ATATGGTCTTACGGGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCAG
* **
50469052 TACCAACACCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
50469086 GGACCTATTA
Statistics
Matches: 106, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
48 3 0.03
49 74 0.70
50 29 0.27
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCAG
Found at i:50475376 original size:17 final size:16
Alignment explanation
Indices: 50475342--50475377 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
50475332 TCCCTTATCC
*
50475342 CTCATCCTTCTCATCT
1 CTCATCCTTCTCAACT
50475358 CTCATCCTCTCTCAACT
1 CTCATCCT-TCTCAACT
50475375 CTC
1 CTC
50475378 TTAGCTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.14, C:0.47, G:0.00, T:0.39
Consensus pattern (16 bp):
CTCATCCTTCTCAACT
Found at i:50478889 original size:27 final size:27
Alignment explanation
Indices: 50478840--50478904 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
50478830 AATGCATGTT
*
50478840 TTTAATTTGTCTTAGTTAGTGCACATA
1 TTTAATTTGTCTCAGTTAGTGCACATA
* * *
50478867 TTTAATTTGT-TCAGCTTATTGCACCTT
1 TTTAATTTGTCTCAG-TTAGTGCACATA
*
50478894 TTTAATATGTC
1 TTTAATTTGTC
50478905 CTAATTCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (27 bp):
TTTAATTTGTCTCAGTTAGTGCACATA
Found at i:50480864 original size:51 final size:51
Alignment explanation
Indices: 50480740--50480933 Score: 230
Period size: 51 Copynumber: 3.8 Consensus size: 51
50480730 TGAAAGTGAT
* *
50480740 GGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-ATC
* * * *
50480790 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATC
* * * * * *
50480841 GATCACGTGTGTAGTACTATGTGCAGGCTACTGCGTGTATCGGATGGTAAC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATC
* * *
50480892 GGTCACATGTGTAGTACTATGTACAGGCTACTATGTGAACCG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
50480934 AACATCACTG
Statistics
Matches: 119, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 40 0.34
51 78 0.66
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATC
Found at i:50480869 original size:101 final size:102
Alignment explanation
Indices: 50480742--50480926 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
50480732 AAAGTGATGG
* *
50480742 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAACGGTCACATGTGTAGT
*
50480805 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
* * * *
50480843 TCACGTGTGTAGTACTATGTGCAGGCTACTGCGTGTATCGGATGGTAACGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAACGGTCACATGTGTAGTA
50480908 CTATGTACAGGCTACTATG
66 CTATGTACAGGCTACTATG
50480927 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAACGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:50480991 original size:45 final size:45
Alignment explanation
Indices: 50480930--50481021 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
50480920 TACTATGTGA
* * * *
50480930 ACCGAACATCACTGATTAGTAAAGTGGTTTCTATGTGCTGATTCC
1 ACCGAACATCACTGATTAATAAAGTGGTTGCTATGTCCTGAATCC
* * *
50480975 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTCCTGAATCC
1 ACCGAACATCACTGATTAATAAAGTGGTTGCTATGTCCTGAATCC
50481020 AC
1 AC
50481022 TGAGTATCTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
ACCGAACATCACTGATTAATAAAGTGGTTGCTATGTCCTGAATCC
Found at i:50489218 original size:3 final size:3
Alignment explanation
Indices: 50489212--50489236 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50489202 AAGCTATATT
50489212 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
50489237 TTAGAAGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:50494960 original size:22 final size:22
Alignment explanation
Indices: 50494932--50494979 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
50494922 TATAGGCTTA
*
50494932 AGAATATTCCTTCACTTCCTTC
1 AGAATATTCCTTCACTTCATTC
50494954 AGAATATTCCTTCACTTCATTC
1 AGAATATTCCTTCACTTCATTC
50494976 AGAA
1 AGAA
50494980 GTGATTGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (22 bp):
AGAATATTCCTTCACTTCATTC
Found at i:50499774 original size:14 final size:14
Alignment explanation
Indices: 50499741--50499777 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
50499731 TCCAAGTTAG
*
50499741 ATAAAACAATTAAA
1 ATAAAATAATTAAA
50499755 AT-AAATAATTAAA
1 ATAAAATAATTAAA
50499768 ATAAAATAAT
1 ATAAAATAAT
50499778 ATATCAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Done.