Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 276 of 276
Found at i:91284422 original size:25 final size:25
Alignment explanation
Indices: 91284365--91284451 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
91284355 AATTTTTATT
91284365 TTATTT-TTA-TTTATTTTA-TTTA
1 TTATTTATTACTTTATTTTATTTTA
* *
91284387 TTA-TT-TT-CTTTTGTTTTCTTTT-
1 TTATTTATTAC-TTTATTTTATTTTA
91284409 TTATTTATTACTTTATTTTATTTTA
1 TTATTTATTACTTTATTTTATTTTA
*
91284434 TTATTTATTAATTTATTT
1 TTATTTATTACTTTATTT
91284452 GGATATTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
21 4 0.08
22 13 0.25
23 5 0.09
24 13 0.25
25 18 0.34
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (25 bp):
TTATTTATTACTTTATTTTATTTTA
Found at i:91284427 original size:29 final size:29
Alignment explanation
Indices: 91284359--91284442 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
91284349 CAACCCAATT
*
91284359 TTTATTTTATTTTTATTTATTTTATTTATTAT
1 TTTATTTTA-TTTTA-TT-TTTTATTTATTAC
* * *
91284391 TTTCTTTTGTTTTCTTTTTTATTTATTAC
1 TTTATTTTATTTTATTTTTTATTTATTAC
*
91284420 TTTATTTTATTTTATTATTTATT
1 TTTATTTTATTTTATTTTTTATT
91284443 AATTTATTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.70
30 2 0.05
31 4 0.09
32 7 0.16
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTATTTTATTTTATTTTTTATTTATTAC
Found at i:91285622 original size:96 final size:97
Alignment explanation
Indices: 91285458--91285639 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
91285448 TTTAAGAATG
**
91285458 TGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGAT
1 TGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
91285523 ATATTCTTAAG-AAAAATAAAAATTAGGAGTA
66 ATATTCCTAAGTAAAAATAAAAATTAGGAGTA
* * * *
91285554 TGTTGGGCTGAGTAACCGGGGTGGGGTGTTTGGCTGTCGTCTCTCTTCGCGTCAAAAGGTTCAAT
1 TGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAAT
*
91285619 ATATTCCTAAGTAAAACTAAA
66 ATATTCCTAAGTAAAAATAAA
91285640 TAAATTAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 69 0.90
97 8 0.10
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (97 bp):
TGTTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAAT
ATATTCCTAAGTAAAAATAAAAATTAGGAGTA
Found at i:91286294 original size:10 final size:10
Alignment explanation
Indices: 91286281--91286323 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
91286271 AGAATTTCTT
91286281 TTTATTTATC
1 TTTATTTATC
*
91286291 TTTAATTATC
1 TTTATTTATC
91286301 TTTATTTAT-
1 TTTATTTATC
91286310 TTGTATTTATC
1 TT-TATTTATC
91286321 TTT
1 TTT
91286324 TAGAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:91298528 original size:19 final size:20
Alignment explanation
Indices: 91298498--91298544 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
91298488 TATAATAATA
*
91298498 AAACAAATAAATA-AAAGAAG
1 AAACAAAGAAATAGAAA-AAG
91298518 AAA-AAAGAAATAGAAAAAG
1 AAACAAAGAAATAGAAAAAG
91298537 AAACAAAG
1 AAACAAAG
91298545 CAAACCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (20 bp):
AAACAAAGAAATAGAAAAAG
Found at i:91298579 original size:20 final size:19
Alignment explanation
Indices: 91298556--91298598 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
91298546 AAACCCAAAG
* *
91298556 GAAACAAAACGGGAAAGAAA
1 GAAACAAAAAGAGAAAG-AA
*
91298576 GAAAGAAAAAGAGAAAGAA
1 GAAACAAAAAGAGAAAGAA
91298595 GAAA
1 GAAA
91298599 GAAAGCCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.70, C:0.05, G:0.26, T:0.00
Consensus pattern (19 bp):
GAAACAAAAAGAGAAAGAA
Found at i:91299556 original size:41 final size:38
Alignment explanation
Indices: 91299468--91299574 Score: 119
Period size: 41 Copynumber: 2.8 Consensus size: 38
91299458 TGACTTCGAG
* *
91299468 TCGATGAGGCACTGAGTG-CTAATTTACT-TTGGTTTAA
1 TCGATGAGACACTGGGTGTC-AATTTACTATTGGTTTAA
* *
91299505 TCAATGAGACACTGGGTGTCAATTTACTACTTCGGATTTAT
1 TCGATGAGACACTGGGTGTCAATTTACTA-TT-GG-TTTAA
*
91299546 TCGATGAGACATTGGGTGTCAATTTACTA
1 TCGATGAGACACTGGGTGTCAATTTACTA
91299575 GTTTGAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
37 23 0.39
38 1 0.02
39 2 0.03
40 2 0.03
41 31 0.53
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAATTTACTATTGGTTTAA
Found at i:91299603 original size:40 final size:41
Alignment explanation
Indices: 91299505--91299603 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
91299495 TTTGGTTTAA
* *
91299505 TCAATGAGACACTGGGTGTCAATTTACTACTTCGGATTTAT
1 TCAATGAGACACCGGGTGTCAATTTACTACTTCGGAATTAT
* ** * *
91299546 TCGATGAGACATTGGGTGTCAATTTACTAGTT-TGAATTAT
1 TCAATGAGACACCGGGTGTCAATTTACTACTTCGGAATTAT
**
91299586 TCAATGAGGTACCGGGTG
1 TCAATGAGACACCGGGTG
91299604 CCAAACTGGT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 19 0.40
41 29 0.60
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (41 bp):
TCAATGAGACACCGGGTGTCAATTTACTACTTCGGAATTAT
Found at i:91299846 original size:16 final size:16
Alignment explanation
Indices: 91299795--91299850 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
91299785 TTATATACTC
*
91299795 ATGAATTGAGTATGGT
1 ATGAATTGAGTATTGT
* *
91299811 ATGAAATGATGTATT-C
1 ATGAATTGA-GTATTGT
91299827 ATGAATTGAGTATTGT
1 ATGAATTGAGTATTGT
91299843 ATG-ATTGA
1 ATGAATTGA
91299851 TGCCATTGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 10 0.30
16 19 0.58
17 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (16 bp):
ATGAATTGAGTATTGT
Found at i:91300028 original size:39 final size:39
Alignment explanation
Indices: 91299974--91300051 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
91299964 AATATGTCCT
91299974 TATAATTTAATTGTGCCTATTTTATTATCTTGTCTTTAA
1 TATAATTTAATTGTGCCTATTTTATTATCTTGTCTTTAA
91300013 TATAATTTAATTGTGCCTATTTTATTATCTTGTCTTTAA
1 TATAATTTAATTGTGCCTATTTTATTATCTTGTCTTTAA
91300052 ATATTCGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (39 bp):
TATAATTTAATTGTGCCTATTTTATTATCTTGTCTTTAA
Found at i:91310030 original size:28 final size:28
Alignment explanation
Indices: 91309985--91310038 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
91309975 CAAATGCCTA
*
91309985 TTTTTGTAATTATTTTATTTTCTATACC
1 TTTTTGTAATTATATTATTTTCTATACC
*
91310013 TTTTTCGTAATTA-ATTATTTTTTATA
1 TTTTT-GTAATTATATTATTTTCTATA
91310039 TTATTTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTTGTAATTATATTATTTTCTATACC
Found at i:91310034 original size:29 final size:27
Alignment explanation
Indices: 91309985--91310038 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
91309975 CAAATGCCTA
*
91309985 TTTTTGTAATTATTTTATTTTCTATACC
1 TTTTTGTAATTATTATATTTT-TATACC
91310013 TTTTTCGTAATTAATTAT-TTTTTATA
1 TTTTT-GTAATT-ATTATATTTTTATA
91310039 TTATTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 9 0.39
29 10 0.43
30 4 0.17
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTTGTAATTATTATATTTTTATACC
Found at i:91313945 original size:25 final size:24
Alignment explanation
Indices: 91313890--91313946 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
91313880 AATGTTCATA
91313890 CGAGCACATAAACGAGAAACTCTGT
1 CGAGC-CATAAACGAGAAACTCTGT
* *
91313915 CAAGCCATATAACGAGAAGCTCATGT
1 CGAGCCATA-AACGAGAAACTC-TGT
91313941 -GAGCCA
1 CGAGCCA
91313947 ATATCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 20 0.74
26 3 0.11
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.16
Consensus pattern (24 bp):
CGAGCCATAAACGAGAAACTCTGT
Found at i:91313992 original size:24 final size:24
Alignment explanation
Indices: 91313930--91313994 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
91313920 CATATAACGA
**
91313930 GAAGCTCATGTGAGCCAATATCAG
1 GAAGCTCATAAGAGCCAATATCAG
* * **
91313954 GAAGTTCA-AGCGAGCCAATATTTG
1 GAAGCTCATA-AGAGCCAATATCAG
91313978 GAAGCTCATAAGAGCCA
1 GAAGCTCATAAGAGCCA
91313995 TAATGGGAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCAATATCAG
Found at i:91316610 original size:7 final size:7
Alignment explanation
Indices: 91316594--91316632 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
91316584 CAAACTCATA
*
91316594 CAAAGAT
1 CAAAGCT
91316601 CAAAGCT
1 CAAAGCT
91316608 CAAAGCT
1 CAAAGCT
91316615 CAAAGCT
1 CAAAGCT
91316622 CAAAGCT
1 CAAAGCT
91316629 CAAA
1 CAAA
91316633 TTTTGAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.13
Consensus pattern (7 bp):
CAAAGCT
Found at i:91317970 original size:20 final size:19
Alignment explanation
Indices: 91317947--91318007 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
91317937 TTATAAATAA
91317947 TATATTAATTATTTAAAAT
1 TATATTAATTATTTAAAAT
* *
91317966 GTATATT--TTATGTATAAT
1 -TATATTAATTATTTAAAAT
*
91317984 TATATTAAGCTATTTAAATAT
1 TATATTAA-TTATTTAAA-AT
91318005 TAT
1 TAT
91318008 CTAAATTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
17 6 0.19
18 9 0.28
20 12 0.38
21 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
TATATTAATTATTTAAAAT
Found at i:91331967 original size:24 final size:24
Alignment explanation
Indices: 91331940--91331991 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
91331930 TAAAACTAAT
91331940 TAAAAAGATAAAATGATTTCCCCA
1 TAAAAAGATAAAATGATTTCCCCA
**
91331964 TAAAGTGATAAAATGATTTCCCCA
1 TAAAAAGATAAAATGATTTCCCCA
91331988 TAAA
1 TAAA
91331992 GTCCCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (24 bp):
TAAAAAGATAAAATGATTTCCCCA
Found at i:91331992 original size:24 final size:24
Alignment explanation
Indices: 91331946--91331993 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
91331936 TAATTAAAAA
91331946 GATAAAATGATTTCCCCATAAAGT
1 GATAAAATGATTTCCCCATAAAGT
91331970 GATAAAATGATTTCCCCATAAAGT
1 GATAAAATGATTTCCCCATAAAGT
91331994 CCCAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (24 bp):
GATAAAATGATTTCCCCATAAAGT
Found at i:91332083 original size:21 final size:19
Alignment explanation
Indices: 91332059--91332101 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
91332049 CTTTTTATTG
*
91332059 AAAATTTAAAAATAAATCTA
1 AAAAATTAAAAATAAAT-TA
*
91332079 AAAAATTGAAAATAAATTA
1 AAAAATTAAAAATAAATTA
91332098 AAAA
1 AAAA
91332102 GATAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATTAAAAATAAATTA
Found at i:91337107 original size:25 final size:24
Alignment explanation
Indices: 91337077--91337126 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
91337067 AAATAAAAAA
* *
91337077 ATTTTAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
91337103 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
91337127 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:91343434 original size:25 final size:25
Alignment explanation
Indices: 91343388--91343435 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
91343378 AATTTTATAC
* * *
91343388 ATAAACTTTGGTTTTGTGCAATTTT
1 ATAAACTTTGATTTTATCCAATTTT
*
91343413 ATAAATTTTGATTTTATCCAATT
1 ATAAACTTTGATTTTATCCAATT
91343436 CTCACAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.52
Consensus pattern (25 bp):
ATAAACTTTGATTTTATCCAATTTT
Found at i:91349960 original size:18 final size:18
Alignment explanation
Indices: 91349937--91349972 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
91349927 TAATGGTACT
*
91349937 ACGTTTTTAAAAATTTTA
1 ACGTTTTGAAAAATTTTA
*
91349955 ACGTTTTGAAAATTTTTA
1 ACGTTTTGAAAAATTTTA
91349973 TTAATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (18 bp):
ACGTTTTGAAAAATTTTA
Found at i:91351765 original size:17 final size:17
Alignment explanation
Indices: 91351743--91351778 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
91351733 TCTTAAATTG
91351743 AAGCAAAATTAACAATA
1 AAGCAAAATTAACAATA
91351760 AAGCAAAATTAACAATA
1 AAGCAAAATTAACAATA
91351777 AA
1 AA
91351779 ACAAGAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (17 bp):
AAGCAAAATTAACAATA
Found at i:91353952 original size:30 final size:29
Alignment explanation
Indices: 91353918--91354025 Score: 72
Period size: 30 Copynumber: 3.4 Consensus size: 29
91353908 CCGATATCTT
91353918 GTTCAGGAGCTTGGGAAGACTCAATATACC
1 GTTCAGGAGCTTGGGAAGACTCAATAT-CC
* * **
91353948 GTTCAAGATCTTGGGATTAAGAAGACTTGATATCTC
1 GTTCAGGAGCTT-GG-----GAAGACTCAATATC-C
* *
91353984 GTTCAGGAGCTTAGGAAGACTCAATATTGC
1 GTTCAGGAGCTTGGGAAGACTCAATA-TCC
*
91354014 GTTTAGGAGCTT
1 GTTCAGGAGCTT
91354026 AGGATTAAGA
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
30 32 0.54
31 3 0.05
35 2 0.03
36 22 0.37
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (29 bp):
GTTCAGGAGCTTGGGAAGACTCAATATCC
Found at i:91354007 original size:66 final size:66
Alignment explanation
Indices: 91353901--91354054 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 66
91353891 TAAGAACTTG
* * * * *
91353901 AGAAGACCCGATATCTTGTTCAGGAGCTTGGGAAGACTCAATATACCGTTCAAGATCTTGGGATT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAGACTCAATATACCGTTCAAGAGCTTAGGATT
91353966 A
66 A
* ** * *
91353967 AGAAGACTTGATATCTCGTTCAGGAGCTTAGGAAGACTCAATATTGCGTTTAGGAGCTTAGGATT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAGACTCAATATACCGTTCAAGAGCTTAGGATT
91354032 A
66 A
* *
91354033 AGAAGGCCTGATATCTCATTCA
1 AGAAGACCTGATATCTCGTTCA
91354055 AAAGTTTGGA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (66 bp):
AGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAGACTCAATATACCGTTCAAGAGCTTAGGATT
A
Found at i:91360819 original size:5 final size:5
Alignment explanation
Indices: 91360809--91360855 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
91360799 TAACACATAT
* *
91360809 ATTCA ATTCA ATTCA ATTCA ATTCA A-TCA ACTTTA AATCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA A-TTCA ATTCA ATTCA AT
91360856 AATCAAAGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
5 29 0.81
6 3 0.08
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTCA
Found at i:91362077 original size:14 final size:14
Alignment explanation
Indices: 91362060--91362112 Score: 88
Period size: 14 Copynumber: 3.8 Consensus size: 14
91362050 CTTTGAAGGT
91362060 TTACAATTGAGTGA
1 TTACAATTGAGTGA
91362074 TTACAATTGAGTGA
1 TTACAATTGAGTGA
*
91362088 TTACAATTGAGTGC
1 TTACAATTGAGTGA
*
91362102 TTACAAATGAG
1 TTACAATTGAG
91362113 GGGGAAGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (14 bp):
TTACAATTGAGTGA
Found at i:91379378 original size:18 final size:17
Alignment explanation
Indices: 91379354--91379389 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
91379344 CGTATCCTCA
91379354 TAAAATTACAATTCTCT
1 TAAAATTACAATTCTCT
91379371 TNAAAATTACAATTCTCT
1 T-AAAATTACAATTCTCT
91379389 T
1 T
91379390 TCCCTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTACAATTCTCT
Found at i:91380065 original size:15 final size:17
Alignment explanation
Indices: 91380033--91380068 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
91380023 TGTTGAAATA
91380033 AAAT-TATATCTAATTT
1 AAATATATATCTAATTT
91380049 AAATATATAT-TAA-TT
1 AAATATATATCTAATTT
91380064 AAATA
1 AAATA
91380069 GTCCAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATATATCTAATTT
Found at i:91391206 original size:20 final size:19
Alignment explanation
Indices: 91391183--91391227 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
91391173 ATAAATAACT
91391183 TAATTGTACCCTTTGGACAA
1 TAATT-TACCCTTTGGACAA
*
91391203 TAATTTGCCCTTTGGACAA
1 TAATTTACCCTTTGGACAA
91391222 TAATTT
1 TAATTT
91391228 GAGCATACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (19 bp):
TAATTTACCCTTTGGACAA
Found at i:91391215 original size:19 final size:19
Alignment explanation
Indices: 91391191--91391228 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91391181 CTTAATTGTA
91391191 CCCTTTGGACAATAATTTG
1 CCCTTTGGACAATAATTTG
91391210 CCCTTTGGACAATAATTTG
1 CCCTTTGGACAATAATTTG
91391229 AGCATACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (19 bp):
CCCTTTGGACAATAATTTG
Found at i:91393044 original size:15 final size:15
Alignment explanation
Indices: 91392977--91393079 Score: 84
Period size: 15 Copynumber: 6.9 Consensus size: 15
91392967 TGGTGGTGGG
* *
91392977 GTAGCTGGAGGAGGA
1 GTAGCCGGAGGGGGA
*
91392992 GTAGCAGGAGGGGGA
1 GTAGCCGGAGGGGGA
* * *
91393007 GAAGCAGGTGGTGGG-
1 GTAGCCGGAGG-GGGA
91393022 GTAGCCGGAGGGGGA
1 GTAGCCGGAGGGGGA
* *
91393037 GAAGCCGGTGGGGGA
1 GTAGCCGGAGGGGGA
* *
91393052 GTTGCGGGAGGGGGA
1 GTAGCCGGAGGGGGA
*
91393067 GGAGCCGG-GGGGG
1 GTAGCCGGAGGGGG
91393080 NNNNNNNNNN
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
14 8 0.11
15 59 0.84
16 3 0.04
ACGTcount: A:0.19, C:0.10, G:0.62, T:0.09
Consensus pattern (15 bp):
GTAGCCGGAGGGGGA
Found at i:91393073 original size:30 final size:30
Alignment explanation
Indices: 91392989--91393079 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
91392979 AGCTGGAGGA
*
91392989 GGAGTAGCAGGAGGGGGAGAAGCAGGTGGTG
1 GGAGTAGCAGGAGGGGGAGAAGCCGGTGG-G
*
91393020 GG-GTAGCCGGAGGGGGAGAAGCCGGTGGG
1 GGAGTAGCAGGAGGGGGAGAAGCCGGTGGG
* * *
91393049 GGAGTTGCGGGAGGGGGAGGAGCCGG-GGG
1 GGAGTAGCAGGAGGGGGAGAAGCCGGTGGG
91393078 GG
1 GG
91393080 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.15
30 44 0.81
31 2 0.04
ACGTcount: A:0.19, C:0.10, G:0.64, T:0.08
Consensus pattern (30 bp):
GGAGTAGCAGGAGGGGGAGAAGCCGGTGGG
Found at i:91397651 original size:25 final size:25
Alignment explanation
Indices: 91397591--91397678 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 25
91397581 GTTGTTTTTA
91397591 ATATTATG-ATTATTTCTAGTATA-TAT
1 ATATTATGTA-TATTTCTA--ATACTAT
91397617 ATATTATGTATATACTTCTAATACTAT
1 ATATTATGTATAT--TTCTAATACTAT
*
91397644 ATA-T-TGTATATTTCTAATACCAT
1 ATATTATGTATATTTCTAATACTAT
*
91397667 -TATTATTTATAT
1 ATATTATGTATAT
91397679 GTGTATATGT
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
22 2 0.04
23 12 0.22
24 6 0.11
25 7 0.13
26 15 0.28
27 7 0.13
28 5 0.09
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (25 bp):
ATATTATGTATATTTCTAATACTAT
Found at i:91397768 original size:13 final size:13
Alignment explanation
Indices: 91397750--91397826 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 13
91397740 GTTGCTAATA
*
91397750 TATATATATCATG
1 TATATATATTATG
* *
91397763 TATATATGATTTTTT
1 TATATAT-A-TTATG
91397778 TATATATATTATG
1 TATATATATTATG
*
91397791 TATATATCTT-T-
1 TATATATATTATG
* *
91397802 AATATTATATTATT
1 TATA-TATATTATG
91397816 TATATAT-TTAT
1 TATATATATTAT
91397827 TCTTACATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 3 0.06
12 10 0.20
13 23 0.46
14 5 0.10
15 9 0.18
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (13 bp):
TATATATATTATG
Found at i:91398003 original size:27 final size:27
Alignment explanation
Indices: 91397960--91398013 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
91397950 TTATGTATAC
*
91397960 ATTTTTAAATACTATATTATATACATAT
1 ATTTTTAAATACCATA-TATATACATAT
*
91397988 ATTTTT-AATACCATATATGTACATAT
1 ATTTTTAAATACCATATATATACATAT
91398014 CATTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 8 0.33
28 6 0.25
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTTTTAAATACCATATATATACATAT
Found at i:91398102 original size:18 final size:15
Alignment explanation
Indices: 91398081--91398131 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
91398071 ATTATACGTG
91398081 TATATATA-TACTTTT
1 TATATATATTA-TTTT
91398096 TAATATAGTATTATTTT
1 T-ATATA-TATTATTTT
*
91398113 TATATATCATTATATT
1 TATATAT-ATTATTTT
91398129 TAT
1 TAT
91398132 TATTATACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.06
16 20 0.65
17 7 0.23
18 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
TATATATATTATTTT
Found at i:91406874 original size:16 final size:16
Alignment explanation
Indices: 91406853--91406883 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91406843 TATGTTAGAG
91406853 CACATAAATTTGAAAT
1 CACATAAATTTGAAAT
*
91406869 CACATATATTTGAAA
1 CACATAAATTTGAAA
91406884 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
CACATAAATTTGAAAT
Found at i:91407072 original size:18 final size:19
Alignment explanation
Indices: 91407035--91407071 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
91407025 TTTAAAAAAA
91407035 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
91407053 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
91407072 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:91407196 original size:9 final size:9
Alignment explanation
Indices: 91407182--91407211 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
91407172 ATACCAATCT
91407182 ATTATTCGA
1 ATTATTCGA
91407191 ATTATTCGA
1 ATTATTCGA
*
91407200 GTTATTCGA
1 ATTATTCGA
91407209 ATT
1 ATT
91407212 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:91407860 original size:21 final size:21
Alignment explanation
Indices: 91407836--91407878 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
91407826 TCAACAATAC
91407836 TAAAAACATTAAAATAAATGT
1 TAAAAACATTAAAATAAATGT
91407857 TAAAAACATTAAAATAAATGT
1 TAAAAACATTAAAATAAATGT
91407878 T
1 T
91407879 CCCCAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAAACATTAAAATAAATGT
Found at i:91407908 original size:19 final size:20
Alignment explanation
Indices: 91407884--91407922 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
91407874 ATGTTCCCCA
91407884 ACAAATTGA-AAATAAATTT
1 ACAAATTGATAAATAAATTT
*
91407903 ACAAATTGATTAATAAATTT
1 ACAAATTGATAAATAAATTT
91407923 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
ACAAATTGATAAATAAATTT
Found at i:91411558 original size:3 final size:3
Alignment explanation
Indices: 91411550--91411596 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
91411540 TGAAGGCAGA
91411550 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
91411597 AATTTAAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:91413249 original size:3 final size:3
Alignment explanation
Indices: 91413231--91413281 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
91413221 TTAAATACTC
* *
91413231 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
91413275 TGTA TTA
1 T-TA TTA
91413282 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:91413261 original size:15 final size:15
Alignment explanation
Indices: 91413231--91413281 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
91413221 TTAAATACTC
*
91413231 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
91413245 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
91413260 TTATTAATATTATTA
1 TTATTAATTTTATTA
91413275 TGTATTA
1 T-TATTA
91413282 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:91422552 original size:111 final size:111
Alignment explanation
Indices: 91422352--91422563 Score: 293
Period size: 111 Copynumber: 1.9 Consensus size: 111
91422342 CAGCTCCAGG
* * *
91422352 AAGCCTCTCATTTGCTCTCAAACTTTGCCTGCTTGAACTGCTTACACCATCTGCATTTAATCCAT
1 AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTTACACCATCTGCATTTAACCCAT
*
91422417 AGCTCGAACTGAGCTCACCAGTACCTTCATCAAACCCTTCTCTAGC
66 AGCTCGAACTAAGCTCACCAGTACCTTCATCAAACCCTTCTCTAGC
* * *
91422463 AAGCCTCTCACTTGATCTCAAACTTTGCCTTCTTGCATTGCTTACACCGA-CTGCATTTAACCCA
1 AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTTACACC-ATCTGCATTTAACCCA
* * **
91422527 TTGCTCGATAC-AAGCTCGCTGGTACCTTCATCAAACC
65 TAGCTCGA-ACTAAGCTCACCAGTACCTTCATCAAACC
91422564 GCACTGATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
111 85 0.97
112 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.31
Consensus pattern (111 bp):
AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTTACACCATCTGCATTTAACCCAT
AGCTCGAACTAAGCTCACCAGTACCTTCATCAAACCCTTCTCTAGC
Found at i:91424297 original size:87 final size:91
Alignment explanation
Indices: 91424168--91424386 Score: 220
Period size: 87 Copynumber: 2.5 Consensus size: 91
91424158 GCTCTTCAAT
* * ** * * *
91424168 TTTTTCAAAAAAGCAATTAAGTCTTTAC--TTTTTTCACTCAA-TTGAGTACTTTAACTTTTAAA
1 TTTTTCAAAAAAACAATTAAGCCCATACTTTTTTTTCACTCAATTTG-GCACTTGAACTTTCAAA
* ** *
91424230 ATGCAT-A-AAAAAGGATCC-TCAAAC
65 ATACATAATAAAAAAAAACCTTCAAAC
*
91424254 TTTTTC-AAAAAA-AATTAAGCCCCTACTTTTTTTTACACTCAATTTGGCACTTGAACTTTCAAA
1 TTTTTCAAAAAAACAATTAAGCCCATACTTTTTTTT-CACTCAATTTGGCACTTGAACTTTCAAA
* *
91424317 ATATATAATAAAAAAAAACCTTCAAGC
65 ATACATAATAAAAAAAAACCTTCAAAC
*
91424344 TTTTTCAAAAAAAGCAATTAAGCCCATACTTTTTTTTTACTCA
1 TTTTTCAAAAAAA-CAATTAAGCCCATACTTTTTTTTCACTCA
91424387 GTTGATTGGG
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
84 11 0.10
85 5 0.05
86 12 0.11
87 25 0.23
88 4 0.04
89 8 0.07
90 11 0.10
91 6 0.06
92 5 0.05
93 21 0.19
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (91 bp):
TTTTTCAAAAAAACAATTAAGCCCATACTTTTTTTTCACTCAATTTGGCACTTGAACTTTCAAAA
TACATAATAAAAAAAAACCTTCAAAC
Found at i:91424601 original size:18 final size:18
Alignment explanation
Indices: 91424564--91424633 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
91424554 AATACAAGTT
*
91424564 ATAAAAAGTATTAAACTTTA
1 ATAAAAA-TA-TAAAATTTA
91424584 ATAAAAATATAAAATTTA
1 ATAAAAATATAAAATTTA
* * * *
91424602 TTAAAATTGTAAAATTTT
1 ATAAAAATATAAAATTTA
91424620 ATAAAAATCATAAA
1 ATAAAAAT-ATAAA
91424634 TAATTATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 28 0.68
19 6 0.15
20 7 0.17
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAATATAAAATTTA
Found at i:91424634 original size:18 final size:17
Alignment explanation
Indices: 91424562--91424644 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 17
91424552 TCAATACAAG
91424562 TTATAAAAAGTATTAAACTT
1 TTATAAAAA-TA-TAAA-TT
* *
91424582 TAATAAAAATATAAAAT
1 TTATAAAAATATAAATT
* *
91424599 TTATTAAAATTGTAAAATT
1 TTA-TAAAAATAT-AAATT
*
91424618 TTATAAAAATCATAAATAA
1 TTATAAAAAT-ATAAAT-T
91424637 TTATAAAA
1 TTATAAAA
91424645 TGTATCAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
17 3 0.06
18 21 0.42
19 18 0.36
20 8 0.16
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TTATAAAAATATAAATT
Found at i:91424879 original size:19 final size:19
Alignment explanation
Indices: 91424852--91424978 Score: 105
Period size: 19 Copynumber: 6.6 Consensus size: 19
91424842 TTTTGGTACG
91424852 ATAATTTTTATATTTTTTT
1 ATAATTTTTATATTTTTTT
* *
91424871 ATAAATTTTATATTTCTTT
1 ATAATTTTTATATTTTTTT
* * *
91424890 ACATTTTTTTATAATTTTCTT
1 ATA-ATTTTTAT-ATTTTTTT
* * *
91424911 ACAATTTTTATAATTGTTT
1 ATAATTTTTATATTTTTTT
*
91424930 ATGATTTTTATAATTTTTTTT
1 ATAATTTTTAT-A-TTTTTTT
* *
91424951 CTAATTTTTA-ATATTTTT
1 ATAATTTTTATATTTTTTT
91424969 AT-ATTTTTAT
1 ATAATTTTTAT
91424979 TAAAATTTAA
Statistics
Matches: 84, Mismatches: 19, Indels: 11
0.74 0.17 0.10
Matches are distributed among these distances:
17 7 0.08
18 7 0.08
19 34 0.40
20 14 0.17
21 22 0.26
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
ATAATTTTTATATTTTTTT
Found at i:91424901 original size:39 final size:40
Alignment explanation
Indices: 91424856--91424976 Score: 106
Period size: 39 Copynumber: 3.1 Consensus size: 40
91424846 GGTACGATAA
* *
91424856 TTTTTATATTTTTTTATAAATTTTATATTTCTTTA-CATT
1 TTTTTATATTTTTTTACAAATTTTATAATTCTTTATCATT
* * * *
91424895 TTTTTATAATTTTCTTACAATTTTTATAATTGTTTATGATT
1 TTTTTAT-ATTTTTTTACAAATTTTATAATTCTTTATCATT
* * * *
91424936 TTTATA-ATTTTTTTTCTAATTTT-TAATATTTTTAT-ATT
1 TTTTTATATTTTTTTACAAATTTTATAAT-TCTTTATCATT
91424974 TTT
1 TTT
91424977 ATTAAAATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
38 10 0.15
39 26 0.39
40 23 0.34
41 8 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (40 bp):
TTTTTATATTTTTTTACAAATTTTATAATTCTTTATCATT
Found at i:91424920 original size:40 final size:39
Alignment explanation
Indices: 91424855--91424978 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 39
91424845 TGGTACGATA
* *
91424855 ATTTTTAT-ATTTTTTTATAAATTTTATATTTCTTTACAT-
1 ATTTTTATAATTTTTTTACAATTTTTATATTTCTTT--ATG
* * * *
91424894 TTTTTTATAATTTTCTTACAATTTTTATAATTGTTTATG
1 ATTTTTATAATTTTTTTACAATTTTTATATTTCTTTATG
*
91424933 ATTTTTATAATTTTTTTTCTAATTTTTA-ATATT-TTTAT-
1 ATTTTTATAATTTTTTTAC-AATTTTTATAT-TTCTTTATG
91424971 ATTTTTAT
1 ATTTTTAT
91424979 TAAAATTTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
38 10 0.14
39 29 0.41
40 32 0.45
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (39 bp):
ATTTTTATAATTTTTTTACAATTTTTATATTTCTTTATG
Found at i:91424925 original size:9 final size:9
Alignment explanation
Indices: 91424852--91424978 Score: 78
Period size: 9 Copynumber: 13.2 Consensus size: 9
91424842 TTTTGGTACG
91424852 ATAATTTTT
1 ATAATTTTT
*
91424861 ATATTTTTTT
1 ATA-ATTTTT
*
91424871 ATAAATTTT
1 ATAATTTTT
*
91424880 ATATTTCTTT
1 ATAATT-TTT
* *
91424890 ACATTTTTTT
1 ATA-ATTTTT
91424900 ATAATTTTCTT
1 ATAA-TTT-TT
*
91424911 ACAATTTTT
1 ATAATTTTT
91424920 ATAATTGTTT
1 ATAATT-TTT
*
91424930 ATGATTTTT
1 ATAATTTTT
91424939 ATAATTTTTTTT
1 ATAA---TTTTT
*
91424951 CTAATTTTT
1 ATAATTTTT
91424960 A-ATATTTTT
1 ATA-ATTTTT
91424969 AT-ATTTTT
1 ATAATTTTT
91424977 AT
1 AT
91424979 TAAAATTTAA
Statistics
Matches: 93, Mismatches: 14, Indels: 23
0.72 0.11 0.18
Matches are distributed among these distances:
8 9 0.10
9 36 0.39
10 32 0.34
11 8 0.09
12 8 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
ATAATTTTT
Found at i:91424949 original size:30 final size:29
Alignment explanation
Indices: 91424915--91425012 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 29
91424905 TTTCTTACAA
91424915 TTTTTATAATTGTTTATGATTTTTATAATTT
1 TTTTTATAATT-TTTATGATTTTTATAA-TT
*
91424946 TTTTTCTAATTTTTAAT-ATTTTTAT-ATT
1 TTTTTATAATTTTT-ATGATTTTTATAATT
* *
91424974 TTTATTA-AAATTTAATGATTTTTTATAAATT
1 TTT-TTATAATTTTTATGA-TTTTTAT-AATT
91425005 TTATTTAT
1 TT-TTTAT
91425013 TTTTAATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
27 2 0.04
28 11 0.20
29 10 0.18
30 11 0.20
31 20 0.36
32 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTTTATAATTTTTATGATTTTTATAATT
Found at i:91425014 original size:20 final size:21
Alignment explanation
Indices: 91424966--91425016 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
91424956 TTTTAATATT
91424966 TTTATATTTTTATTAAAATTTA
1 TTTAT-TTTTTATTAAAATTTA
* * *
91424988 ATGATTTTTTA-TAAATTTTA
1 TTTATTTTTTATTAAAATTTA
91425008 TTTATTTTT
1 TTTATTTTT
91425017 AATTTTTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 15 0.62
21 6 0.25
22 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTTTTTATTAAAATTTA
Found at i:91425015 original size:19 final size:19
Alignment explanation
Indices: 91424914--91425017 Score: 61
Period size: 19 Copynumber: 5.4 Consensus size: 19
91424904 TTTTCTTACA
* *
91424914 ATTTTTATAATTGTTTA-TG
1 ATTTTTATAAAT-TTTATTT
* *
91424933 ATTTTTATAATTTTTTTTCT
1 ATTTTTATAAATTTTATT-T
* *
91424953 AATTTTTA-ATATTTT-TAT
1 -ATTTTTATAAATTTTATTT
* * *
91424971 ATTTTTATTAAAATTTAATG
1 ATTTTTA-TAAATTTTATTT
91424991 ATTTTTTATAAATTTTATTT
1 A-TTTTTATAAATTTTATTT
91425011 ATTTTTA
1 ATTTTTA
91425018 ATTTTTATCA
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
17 7 0.11
18 4 0.06
19 25 0.38
20 16 0.25
21 13 0.20
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTTTTATAAATTTTATTT
Found at i:91428629 original size:11 final size:12
Alignment explanation
Indices: 91428608--91428649 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
91428598 AAAAAAAAAA
91428608 TCAAAATAATTT
1 TCAAAATAATTT
91428620 TCAAAA-AATTT
1 TCAAAATAATTT
91428631 T-AAATATAATTT
1 TCAAA-ATAATTT
*
91428643 TTAAAAT
1 TCAAAAT
91428650 TCAGAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 7 0.26
12 14 0.52
13 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (12 bp):
TCAAAATAATTT
Found at i:91431759 original size:29 final size:29
Alignment explanation
Indices: 91431717--91431783 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
91431707 ACAACACATT
* *
91431717 AACATAAGTGACTGAAATGTAACAATTGA
1 AACATAAGTAACTGAAATATAACAATTGA
*
91431746 AACATAAGTAACTGAAATATAATAATTGA
1 AACATAAGTAACTGAAATATAACAATTGA
91431775 AACATAAGT
1 AACATAAGT
91431784 GACTATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.25
Consensus pattern (29 bp):
AACATAAGTAACTGAAATATAACAATTGA
Found at i:91431781 original size:14 final size:15
Alignment explanation
Indices: 91431740--91431783 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
91431730 GAAATGTAAC
91431740 AATTGAAACATAAGT
1 AATTGAAACATAAGT
* *
91431755 AACTGAAATATAA-T
1 AATTGAAACATAAGT
91431769 AATTGAAACATAAGT
1 AATTGAAACATAAGT
91431784 GACTATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (15 bp):
AATTGAAACATAAGT
Found at i:91434797 original size:6 final size:6
Alignment explanation
Indices: 91434786--91434814 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
91434776 AGGATTGCAA
91434786 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
91434815 CATTGAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:91438005 original size:40 final size:40
Alignment explanation
Indices: 91437920--91438057 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
91437910 CTCGAGAATA
* ** *
91437920 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
91437960 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
** * *
91438000 TAAAGTAAATAGGATTTATTCTTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
91438040 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
91438058 ACCTGAAAAG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:91438349 original size:76 final size:76
Alignment explanation
Indices: 91438223--91438375 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
91438213 AAGGGTTATT
*
91438223 TCTGAATATGAATTGATGGAATATGGAAATGAACGCTTTGAATGTACTGTTGAAAAATCCATCCG
1 TCTGAATATGAATTGATGGAATATGAAAATGAACGCTTTGAATGTACTGTTGAAAAATCCATCCG
91438288 AACTCCAATGA
66 AACTCCAATGA
* * *
91438299 TCTGAATATGAATTGATGGAATATGAAAATGTACGCTTTGAGTGTACTGTTGAAAAATCCATCGG
1 TCTGAATATGAATTGATGGAATATGAAAATGAACGCTTTGAATGTACTGTTGAAAAATCCATCCG
91438364 AACTCCAATGA
66 AACTCCAATGA
91438375 T
1 T
91438376 TCAACGGATA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (76 bp):
TCTGAATATGAATTGATGGAATATGAAAATGAACGCTTTGAATGTACTGTTGAAAAATCCATCCG
AACTCCAATGA
Found at i:91449688 original size:24 final size:24
Alignment explanation
Indices: 91449635--91449688 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
91449625 TTCTAATTAA
*
91449635 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAATATTTAT
*
91449659 -TGTTTAAAAATATTTAA-ATTTTAT
1 AT-TTTAAAAATAATTAATA-TTTAT
91449683 ATTTTA
1 ATTTTA
91449689 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 2 0.08
24 22 0.88
25 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTAAAAATAATTAATATTTAT
Found at i:91460757 original size:41 final size:41
Alignment explanation
Indices: 91460712--91460844 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 41
91460702 CATATAAGTA
91460712 TATATTTATTATTAATAGATGTTTTCAACATTATTATTATG
1 TATATTTATTATTAATAGATGTTTTCAACATTATTATTATG
** ** * ** *
91460753 TATA-TTATGTGAATATTTTA-ACATTAT-ATTATATATGTATTTATA
1 TATATTTAT-T--AT-TAATAGATGTTTTCAACAT-TAT-TA-TTATG
91460798 TATATTTATTATTAATAGATGTTTTCAACATTATTATTATG
1 TATATTTATTATTAATAGATGTTTTCAACATTATTATTATG
91460839 TATATT
1 TATATT
91460845 ATATGAATAT
Statistics
Matches: 66, Mismatches: 16, Indels: 20
0.65 0.16 0.20
Matches are distributed among these distances:
40 4 0.06
41 15 0.23
42 8 0.12
43 18 0.27
44 8 0.12
45 9 0.14
46 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (41 bp):
TATATTTATTATTAATAGATGTTTTCAACATTATTATTATG
Found at i:91460801 original size:86 final size:86
Alignment explanation
Indices: 91460710--91460889 Score: 351
Period size: 86 Copynumber: 2.1 Consensus size: 86
91460700 TACATATAAG
*
91460710 TATATATTTATTATTAATAGATGTTTTCAACATTATTATTATGTATATTATGTGAATATTTTAAC
1 TATATATTTATTATTAATAGATGTTTTCAACATTATTATTATGTATATTATATGAATATTTTAAC
91460775 ATTATATTATATATGTATTTA
66 ATTATATTATATATGTATTTA
91460796 TATATATTTATTATTAATAGATGTTTTCAACATTATTATTATGTATATTATATGAATATTTTAAC
1 TATATATTTATTATTAATAGATGTTTTCAACATTATTATTATGTATATTATATGAATATTTTAAC
91460861 ATTATATTATATATGTATTTA
66 ATTATATTATATATGTATTTA
91460882 TATATATT
1 TATATATT
91460890 ACGCATATAT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 93 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (86 bp):
TATATATTTATTATTAATAGATGTTTTCAACATTATTATTATGTATATTATATGAATATTTTAAC
ATTATATTATATATGTATTTA
Found at i:91460834 original size:28 final size:29
Alignment explanation
Indices: 91460717--91460837 Score: 82
Period size: 28 Copynumber: 4.2 Consensus size: 29
91460707 AAGTATATAT
91460717 TTATTATTAATAGATGT-TTTCAACATTA
1 TTATTATTAATAGATGTATTTCAACATTA
*
91460745 TTATTATGTATATTATG-TGAATATTTTAACATTA
1 TTATTAT-TA-A-TA-GATG--TATTTCAACATTA
*
91460779 -TATTA-T-AT--ATGTATTT--ATATATA
1 TTATTATTAATAGATGTATTTCAACAT-TA
91460802 TTTATTATTAATAGATGT-TTTCAACATTA
1 -TTATTATTAATAGATGTATTTCAACATTA
91460831 TTATTAT
1 TTATTAT
91460838 GTATATTATA
Statistics
Matches: 73, Mismatches: 3, Indels: 34
0.66 0.03 0.31
Matches are distributed among these distances:
22 3 0.04
23 2 0.03
24 5 0.07
25 5 0.07
26 3 0.04
27 2 0.03
28 18 0.25
29 9 0.12
30 4 0.05
31 5 0.07
32 1 0.01
33 6 0.08
34 10 0.14
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (29 bp):
TTATTATTAATAGATGTATTTCAACATTA
Found at i:91460890 original size:45 final size:45
Alignment explanation
Indices: 91460748--91460890 Score: 129
Period size: 45 Copynumber: 3.3 Consensus size: 45
91460738 AACATTATTA
* *
91460748 TTATGTATATTATGTGAATATTTTAACATTATATTATATATGTAT
1 TTATATATATTATATGAATATTTTAACATTATATTATATATGTAT
* ** * **
91460793 TTATATATATT-TAT---TATTAATAGATGTTTTCAACAT-TAT-TA-
1 TTATATATATTATATGAATATT-TTA-ACATTAT-ATTATATATGTAT
*
91460834 TTATGTATATTATATGAATATTTTAACATTATATTATATATGTAT
1 TTATATATATTATATGAATATTTTAACATTATATTATATATGTAT
91460879 TTATATATATTA
1 TTATATATATTA
91460891 CGCATATATA
Statistics
Matches: 72, Mismatches: 16, Indels: 20
0.67 0.15 0.19
Matches are distributed among these distances:
41 14 0.19
42 10 0.14
43 14 0.19
44 9 0.12
45 25 0.35
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (45 bp):
TTATATATATTATATGAATATTTTAACATTATATTATATATGTAT
Found at i:91461018 original size:25 final size:25
Alignment explanation
Indices: 91460990--91461039 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
91460980 TATCTCATGT
*
91460990 ATATATTTCAAACACTATATGTATA
1 ATATATTTCAAACACTATATATATA
*
91461015 ATATATTTCTAACACTATATATATA
1 ATATATTTCAAACACTATATATATA
91461040 TTTTACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATATTTCAAACACTATATATATA
Found at i:91462901 original size:16 final size:16
Alignment explanation
Indices: 91462880--91462912 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
91462870 ATAATCTTTG
91462880 CTATAATTGATTTAGT
1 CTATAATTGATTTAGT
91462896 CTATAATTGATTTAGT
1 CTATAATTGATTTAGT
91462912 C
1 C
91462913 ATAGACTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (16 bp):
CTATAATTGATTTAGT
Found at i:91467163 original size:30 final size:30
Alignment explanation
Indices: 91467127--91467187 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
91467117 TCCTAAACTT
91467127 TATTTTATATTATTATTAATAATTTTTATA
1 TATTTTATATTATTATTAATAATTTTTATA
91467157 TATTTTATATTATTATTAATAATTTTTATA
1 TATTTTATATTATTATTAATAATTTTTATA
91467187 T
1 T
91467188 GAATAACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTTATATTATTATTAATAATTTTTATA
Found at i:91470063 original size:35 final size:35
Alignment explanation
Indices: 91470017--91470084 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
91470007 TCCGGAGCTC
*
91470017 GGCAAATATGGAAAGTAATATTCAAAGATATGCTT
1 GGCAAATATGGAAAGGAATATTCAAAGATATGCTT
* * *
91470052 GGCAAATATGGAAGGGGATCTTCAAAGATATGC
1 GGCAAATATGGAAAGGAATATTCAAAGATATGC
91470085 GATCCTAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (35 bp):
GGCAAATATGGAAAGGAATATTCAAAGATATGCTT
Found at i:91471959 original size:118 final size:118
Alignment explanation
Indices: 91471751--91471985 Score: 418
Period size: 118 Copynumber: 2.0 Consensus size: 118
91471741 TTGTCGACAC
*
91471751 AGGTGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGCCTCAAGATTGAAAATG
1 AGGTGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGCCTCAAGATTAAAAATG
*
91471816 AGCCGGGTCGGATTAAGATGATGAATTCGGAAAGTGTTCCAACCAAGGGGGTT
66 AGCCGGGTCGAATTAAGATGATGAATTCGGAAAGTGTTCCAACCAAGGGGGTT
*
91471869 AGGTGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGTCTCAAGATTAAAAATG
1 AGGTGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGCCTCAAGATTAAAAATG
*
91471934 ATCCGGGTCGAATTAAGACTG-TGAATTCGGAAAGTGTTCCAACCAAGGGGGT
66 AGCCGGGTCGAATTAAGA-TGATGAATTCGGAAAGTGTTCCAACCAAGGGGGT
91471986 CGCAAAGGGA
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
118 110 0.98
119 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (118 bp):
AGGTGCGTCTGATTTATTTATGTCCGAAGGGGCTGCGCATAAACTTGGCCTCAAGATTAAAAATG
AGCCGGGTCGAATTAAGATGATGAATTCGGAAAGTGTTCCAACCAAGGGGGTT
Found at i:91475314 original size:35 final size:35
Alignment explanation
Indices: 91475275--91475346 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
91475265 CATCTCCGGA
*
91475275 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
91475310 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
91475345 GC
1 GC
91475347 GATCCTAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:91477716 original size:13 final size:13
Alignment explanation
Indices: 91477698--91477722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91477688 TAAAATAAAA
91477698 GAAATAAAGAAAT
1 GAAATAAAGAAAT
91477711 GAAATAAAGAAA
1 GAAATAAAGAAA
91477723 AAAGGAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:91478813 original size:51 final size:53
Alignment explanation
Indices: 91478729--91478846 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 53
91478719 ATATGTCGAC
* **
91478729 TACTGTGACTGTTCCGGATTCGTTTTGAAGAGGTAC-TT-TGTACCTG-ACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTTTGTGTA-CTGCACTGT
* * *
91478780 TACTGTTACTGTTCTGGATTTGTTCCGATGAGGTACTTTGTGTACTGCTACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTTTGTGTACTGC-ACTGT
*
91478834 TATTGTTACTGTT
1 TACTGTTACTGTT
91478847 ACCCTTACGG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
51 30 0.54
52 5 0.09
53 4 0.07
54 17 0.30
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (53 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTTTGTGTACTGCACTGT
Found at i:91479013 original size:18 final size:18
Alignment explanation
Indices: 91478992--91479026 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91478982 CTGAATAATT
*
91478992 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
91479010 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
91479027 TAAATATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:91484943 original size:66 final size:65
Alignment explanation
Indices: 91484824--91484948 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 65
91484814 ACACACAGGT
* *
91484824 GTGTGACTGGCCGTGTGGTATAAGTCAGTATACCCCCTATTTGGCACATGGCCTAGCACTCGGGC
1 GTGTGACTGGCCGTGTGGTATAAGTCAGTATACCCACTATTTGGCACACGGCCTAGCACTCGGGC
* * * *
91484889 GTGTGACTTGGCTGTGTTGTATAAGTCAGTATACCTTAC-AGTTTTGC-CACGGCCTAGCAC
1 GTGTGAC-TGGCCGTGTGGTATAAGTCAGTATACC-CACTA-TTTGGCACACGGCCTAGCAC
91484949 ACGGCCTGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
65 7 0.14
66 38 0.75
67 6 0.12
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (65 bp):
GTGTGACTGGCCGTGTGGTATAAGTCAGTATACCCACTATTTGGCACACGGCCTAGCACTCGGGC
Found at i:91487304 original size:26 final size:26
Alignment explanation
Indices: 91487275--91487326 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
91487265 AACAACTGGG
*
91487275 TTCATTCTGGTACTTGAACTTAGAAA
1 TTCATTCTGATACTTGAACTTAGAAA
* *
91487301 TTCATTTTGATCCTTGAACTTAGAAA
1 TTCATTCTGATACTTGAACTTAGAAA
91487327 AATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (26 bp):
TTCATTCTGATACTTGAACTTAGAAA
Found at i:91492060 original size:23 final size:24
Alignment explanation
Indices: 91492022--91492069 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
91492012 TTGAGTTCCC
91492022 ATACTTTAAAAAAACTAAAAAATT
1 ATACTTTAAAAAAACTAAAAAATT
91492046 ATACTTT-AAAAAACTAAAAAATT
1 ATACTTTAAAAAAACTAAAAAATT
91492069 A
1 A
91492070 ATCTAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATACTTTAAAAAAACTAAAAAATT
Found at i:91494476 original size:9 final size:9
Alignment explanation
Indices: 91494464--91494488 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
91494454 CCTTCATCGT
91494464 CTTCTTCCA
1 CTTCTTCCA
91494473 CTTCTTCCA
1 CTTCTTCCA
91494482 CTTCTTC
1 CTTCTTC
91494489 GGCGGCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (9 bp):
CTTCTTCCA
Found at i:91503392 original size:12 final size:12
Alignment explanation
Indices: 91503371--91503433 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
91503361 CAATTTAATC
91503371 TTTTCTTTTATTT
1 TTTTC-TTTATTT
91503384 TTTTCTTTATTT
1 TTTTCTTTATTT
* * *
91503396 TTCAT-TTTAATC
1 TT-TTCTTTATTT
91503408 TTTTCATTTA-TT
1 TTTTC-TTTATTT
91503420 TTTTCTTTATTT
1 TTTTCTTTATTT
91503432 TT
1 TT
91503434 CATTCTCTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 5 0.12
12 26 0.63
13 10 0.24
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTTATTT
Found at i:91503429 original size:36 final size:37
Alignment explanation
Indices: 91503364--91503437 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
91503354 TGTTGAGCAA
*
91503364 TTTAATCTTTTCTTTTATTTTTTTCTTTATTTTTCAT
1 TTTAATCTTTTCATTTATTTTTTTCTTTATTTTTCAT
91503401 TTTAATCTTTTCATTTA-TTTTTTCTTTATTTTTCAT
1 TTTAATCTTTTCATTTATTTTTTTCTTTATTTTTCAT
91503437 T
1 T
91503438 CTCTTCTACT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 20 0.56
37 16 0.44
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (37 bp):
TTTAATCTTTTCATTTATTTTTTTCTTTATTTTTCAT
Found at i:91509033 original size:125 final size:125
Alignment explanation
Indices: 91508811--91509050 Score: 426
Period size: 125 Copynumber: 1.9 Consensus size: 125
91508801 ACTCATTCAT
* *
91508811 ACAACTGTTTTCAACTATCTGATTATGGTTTTAGCTTTGTATTTATCAATTCATAGCCATGCTTT
1 ACAACTGTTTTCAACTATCTGATTATGGTTTTAGCTTCGTATTTATCAAATCATAGCCATGCTTT
*
91508876 CATAGACAACATTGTTAGGAATTAATATGATGAGAATGAAATCATCAAACTCGTTCATAG
66 CATAGACAACATTGTTAGGAATTAATATGATGAGAATGAAACCATCAAACTCGTTCATAG
* *
91508936 ACAACTGTTTTCAACTATCTGATTATGGTTTTAGCTTCGTATTTATTAAATCATATCCATGCTTT
1 ACAACTGTTTTCAACTATCTGATTATGGTTTTAGCTTCGTATTTATCAAATCATAGCCATGCTTT
*
91509001 CATAGACAACATTGTTAGGAATTAGTATGATGAGAATGAAACCATCAAAC
66 CATAGACAACATTGTTAGGAATTAATATGATGAGAATGAAACCATCAAAC
91509051 CAGGACCTGG
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (125 bp):
ACAACTGTTTTCAACTATCTGATTATGGTTTTAGCTTCGTATTTATCAAATCATAGCCATGCTTT
CATAGACAACATTGTTAGGAATTAATATGATGAGAATGAAACCATCAAACTCGTTCATAG
Found at i:91510090 original size:43 final size:42
Alignment explanation
Indices: 91510028--91510109 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 42
91510018 AAGACTTCGT
*
91510028 AATAACTCTATAGCGAGCTTTTCATTGACATCAGATAAAAAA
1 AATAACTCTATAGCAAGCTTTTCATTGACATCAGATAAAAAA
*
91510070 AATAAGCTCTATAGCAAGCTTTTCATTGACATTAGATAAA
1 AATAA-CTCTATAGCAAGCTTTTCATTGACATCAGATAAA
91510110 CTGATTATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 5 0.14
43 32 0.86
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (42 bp):
AATAACTCTATAGCAAGCTTTTCATTGACATCAGATAAAAAA
Found at i:91516306 original size:12 final size:12
Alignment explanation
Indices: 91516273--91516306 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
91516263 AAATATCTAT
* *
91516273 ATCCATCCACCC
1 ATCCATACATCC
91516285 ATCCATACATCC
1 ATCCATACATCC
91516297 ATCCATACAT
1 ATCCATACAT
91516307 ACATGTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (12 bp):
ATCCATACATCC
Found at i:91517668 original size:21 final size:20
Alignment explanation
Indices: 91517644--91517683 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91517634 ATTTATGAAT
91517644 AATTAACTTAAATTTATTTTA
1 AATTAACTTAAA-TTATTTTA
* *
91517665 AATTAATTTATATTATTTT
1 AATTAACTTAAATTATTTT
91517684 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTAACTTAAATTATTTTA
Found at i:91517729 original size:23 final size:24
Alignment explanation
Indices: 91517699--91517750 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
91517689 AAATTTTAAA
91517699 AATATATTTATTT-TT-TAATATTT
1 AATATATTTATTTATTATAAT-TTT
91517722 AATATATTTATTTATTATAATTTT
1 AATATATTTATTTATTATAATTTT
91517746 -ATATA
1 AATATA
91517751 GTCATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 18 0.67
24 5 0.19
25 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AATATATTTATTTATTATAATTTT
Found at i:91518671 original size:21 final size:20
Alignment explanation
Indices: 91518647--91518686 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91518637 ATTTATGAAT
91518647 AATTAACTTAAATTTATTTTA
1 AATTAACTTAAA-TTATTTTA
* *
91518668 AATTAATTTATATTATTTT
1 AATTAACTTAAATTATTTT
91518687 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTAACTTAAATTATTTTA
Found at i:91518732 original size:23 final size:24
Alignment explanation
Indices: 91518702--91518753 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
91518692 AAATTTTAAA
91518702 AATATATTTATTT-TT-TAATATTT
1 AATATATTTATTTATTATAAT-TTT
91518725 AATATATTTATTTATTATAATTTT
1 AATATATTTATTTATTATAATTTT
91518749 -ATATA
1 AATATA
91518754 GTCATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 18 0.67
24 5 0.19
25 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AATATATTTATTTATTATAATTTT
Found at i:91519965 original size:34 final size:33
Alignment explanation
Indices: 91519892--91519974 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
91519882 AAATCTATAC
91519892 AATTAAATCAAAATTAAAATTTTATATATACAT
1 AATTAAATCAAAATTAAAATTTTATATATACAT
* * * * *
91519925 ATTTAAATCATATTTTAAATTTTTTATATA-ATT
1 AATTAAATCAAAATTAAAATTTTATATATACA-T
91519958 ACATTAAATCAAAATTA
1 A-ATTAAATCAAAATTA
91519975 GTATATAGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 1 0.03
33 27 0.69
34 11 0.28
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (33 bp):
AATTAAATCAAAATTAAAATTTTATATATACAT
Found at i:91521684 original size:28 final size:26
Alignment explanation
Indices: 91521644--91521695 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 26
91521634 CTTTTTTTAA
91521644 AAATGTTATAATTAAATTATAAAATTTT
1 AAATGTTATAATT-AATT-TAAAATTTT
91521672 AAATGGTTA-AATTAATTTAAAATT
1 AAAT-GTTATAATTAATTTAAAATT
91521696 ATACAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 4 0.17
28 8 0.35
29 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (26 bp):
AAATGTTATAATTAATTTAAAATTTT
Found at i:91527541 original size:18 final size:18
Alignment explanation
Indices: 91527514--91527566 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
91527504 TGTTAATATA
*
91527514 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCTTGATTG
*
91527532 GGAGTTAATCCTTGATTG
1 GGAGTAAATCCTTGATTG
91527550 GGAGTAAATCCTTGATT
1 GGAGTAAATCCTTGATT
91527567 AGGATTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (18 bp):
GGAGTAAATCCTTGATTG
Found at i:91530305 original size:18 final size:18
Alignment explanation
Indices: 91530278--91530312 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91530268 NNNNNNNNNN
91530278 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
91530296 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
91530313 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:91532548 original size:18 final size:18
Alignment explanation
Indices: 91532522--91532573 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
91532512 GTTAATATAC
*
91532522 GAGTAAATCCCTGATTGG
1 GAGTAAATCCTTGATTGG
*
91532540 GAGTCAATCCTTGATTGG
1 GAGTAAATCCTTGATTGG
91532558 GAGTAAATCCTTGATT
1 GAGTAAATCCTTGATT
91532574 AGGATTTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (18 bp):
GAGTAAATCCTTGATTGG
Found at i:91537003 original size:16 final size:17
Alignment explanation
Indices: 91536982--91537015 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
91536972 ATTAAAAGTA
91536982 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
91536998 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
91537015 A
1 A
91537016 GAGAGGATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:91538582 original size:18 final size:18
Alignment explanation
Indices: 91538555--91538589 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91538545 GATAAATCCT
91538555 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
91538573 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
91538590 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:91539720 original size:18 final size:18
Alignment explanation
Indices: 91539699--91539787 Score: 99
Period size: 18 Copynumber: 4.8 Consensus size: 18
91539689 GGAACATAAT
91539699 ATCCTTGATTAGGA-TAAA
1 ATCCTTGATTAGGAGT-AA
*
91539717 ATCCTGTTAATATAGGAGTAA
1 ATCC--TTGAT-TAGGAGTAA
* *
91539738 ATCCTTGATTGGGAGTCA
1 ATCCTTGATTAGGAGTAA
*
91539756 ATCCTTGATTGGGAGTAA
1 ATCCTTGATTAGGAGTAA
91539774 ATCCTTGATTAGGA
1 ATCCTTGATTAGGA
91539788 TTTATCTGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
18 41 0.67
19 4 0.07
20 4 0.07
21 11 0.18
22 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (18 bp):
ATCCTTGATTAGGAGTAA
Found at i:91541167 original size:18 final size:18
Alignment explanation
Indices: 91541144--91541178 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91541134 TGTTAATATA
91541144 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
91541162 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
91541179 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:91545719 original size:86 final size:86
Alignment explanation
Indices: 91545574--91545746 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
91545564 AAATATGAAT
91545574 TGGATTTGTACTCCTATAATCAAGGCCCAAGTTAGGCGAAGCCATTTCTCAATTTTGTAATATAT
1 TGGATTTGTACTCCTATAATCAAGGCCCAAGTTAGGCGAAGCCATTTCTCAATTTTGTAATATAT
91545639 GATTTTTTATATATTATGTAA
66 GATTTTTTATATATTATGTAA
91545660 TGGATTTGTACTCCTATAATCAAGGCCCAAGTTAGGCGAAGCCATTTCTCAATTTTGTAATATAT
1 TGGATTTGTACTCCTATAATCAAGGCCCAAGTTAGGCGAAGCCATTTCTCAATTTTGTAATATAT
91545725 GATTTTTTATATATTATGTAA
66 GATTTTTTATATATTATGTAA
91545746 T
1 T
91545747 TTATATTACA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (86 bp):
TGGATTTGTACTCCTATAATCAAGGCCCAAGTTAGGCGAAGCCATTTCTCAATTTTGTAATATAT
GATTTTTTATATATTATGTAA
Found at i:91548153 original size:25 final size:25
Alignment explanation
Indices: 91548125--91548174 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
91548115 GTTTAAGACT
91548125 AAAATTTTGAAATATGAAAAGTACA
1 AAAATTTTGAAATATGAAAAGTACA
91548150 AAAATTTTGAAATATGAAAAGTACA
1 AAAATTTTGAAATATGAAAAGTACA
91548175 GGAACTGAAA
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:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (25 bp):
AAAATTTTGAAATATGAAAAGTACA
Found at i:91548743 original size:21 final size:22
Alignment explanation
Indices: 91548717--91548775 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
91548707 GTTTTAAGAA
*
91548717 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
91548738 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
91548760 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
91548776 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:91549146 original size:38 final size:39
Alignment explanation
Indices: 91549094--91549184 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
91549084 TATATTTTTC
*
91549094 TCGAGTTTCAAGTTTATGG-TTTAGGGTTTATATC-AGATT
1 TCGAGTTT-GAGTTTA-GGATTTAGGGTTTATATCGAGATT
* *
91549133 TCGAGTTTGAGTTTAGGATTTATGGTTTATATCGAGTTT
1 TCGAGTTTGAGTTTAGGATTTAGGGTTTATATCGAGATT
*
91549172 TAG-GTTTGAGTTT
1 TCGAGTTTGAGTTT
91549185 CATATTTTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 2 0.04
38 30 0.65
39 14 0.30
ACGTcount: A:0.21, C:0.05, G:0.25, T:0.48
Consensus pattern (39 bp):
TCGAGTTTGAGTTTAGGATTTAGGGTTTATATCGAGATT
Done.