Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 46 of 335
Found at i:16634537 original size:12 final size:12
Alignment explanation
Indices: 16634509--16634562 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
16634499 GTGGCGGCTT
*
16634509 AGGTGGTGGGGG
1 AGGTGGTGGTGG
16634521 AGGTGGTGGTGG
1 AGGTGGTGGTGG
* *
16634533 CGGTGGCGGTGG
1 AGGTGGTGGTGG
* *
16634545 TGGTGGAGGTGG
1 AGGTGGTGGTGG
*
16634557 GGGTGG
1 AGGTGG
16634563 CAAAGGAGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.06, C:0.04, G:0.70, T:0.20
Consensus pattern (12 bp):
AGGTGGTGGTGG
Found at i:16635438 original size:10 final size:10
Alignment explanation
Indices: 16635400--16635442 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
16635390 ATAACAAGTT
16635400 AATATTTAATA
1 AATATTTAA-A
* *
16635411 AATTTTTTAA
1 AATATTTAAA
16635421 AA-ATTTAAA
1 AATATTTAAA
16635430 AATATTTAAA
1 AATATTTAAA
16635440 AAT
1 AAT
16635443 TATATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.26
10 13 0.48
11 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATTTAAA
Found at i:16636121 original size:42 final size:42
Alignment explanation
Indices: 16636014--16636096 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
16636004 AAAAGAAAAG
*
16636014 AAATTGGTTGACAATGATGAGATTAAACCTTTTTTCCACATT
1 AAATTGATTGACAATGATGAGATTAAACCTTTTTTCCACATT
*
16636056 AAATTGATTGACAATGATGAGATTGAA-CTTTTTTCCACATT
1 AAATTGATTGACAATGATGAGATTAAACCTTTTTTCCACATT
16636097 TAAAATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 14 0.36
42 25 0.64
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (42 bp):
AAATTGATTGACAATGATGAGATTAAACCTTTTTTCCACATT
Found at i:16636916 original size:18 final size:18
Alignment explanation
Indices: 16636893--16636936 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
16636883 AAAGAGATAA
*
16636893 ATTTAATCAGCAATATTG
1 ATTTAATCAGAAATATTG
*
16636911 ATTTAAT-GGAAATATTG
1 ATTTAATCAGAAATATTG
*
16636928 ATTAAATCA
1 ATTTAATCA
16636937 TTAATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (18 bp):
ATTTAATCAGAAATATTG
Found at i:16641777 original size:15 final size:16
Alignment explanation
Indices: 16641759--16641789 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16641749 TTCAAGAGCA
16641759 AAAGGA-AAACATTTG
1 AAAGGAGAAACATTTG
16641774 AAAGGAGAAACATTTG
1 AAAGGAGAAACATTTG
16641790 CATGGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
AAAGGAGAAACATTTG
Found at i:16648052 original size:17 final size:18
Alignment explanation
Indices: 16648018--16648079 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 18
16648008 ATAATTATAA
*
16648018 TATT-TTTAATATAGAAT
1 TATTATTTAATATAAAAT
16648035 TATTATTTAA-ATAAAAT
1 TATTATTTAATATAAAAT
* * *
16648052 TATAATTTAATTTATAAT
1 TATTATTTAATATAAAAT
*
16648070 TATTAATTAA
1 TATTATTTAA
16648080 AAATTTTCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 19 0.51
18 18 0.49
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TATTATTTAATATAAAAT
Found at i:16665769 original size:6 final size:6
Alignment explanation
Indices: 16665760--16665800 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
16665750 TCCTTAAATT
16665760 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
16665801 TAGATTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:16666188 original size:2 final size:2
Alignment explanation
Indices: 16666181--16666208 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16666171 ACCAAGCAAC
16666181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16666209 TAACATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16668880 original size:2 final size:2
Alignment explanation
Indices: 16668873--16668925 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
16668863 AAAGATCATT
16668873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16668915 TA TA TA TA TA T
1 TA TA TA TA TA T
16668926 CGTATTACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16676038 original size:15 final size:17
Alignment explanation
Indices: 16676015--16676051 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
16676005 CTTTTGAAAG
16676015 TTATAAAAAT-AT-AAA
1 TTATAAAAATAATAAAA
*
16676030 TTATTAAAATAATAAAA
1 TTATAAAAATAATAAAA
16676047 TTATA
1 TTATA
16676052 TTTTTACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.50
16 2 0.11
17 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTATAAAAATAATAAAA
Found at i:16677244 original size:29 final size:29
Alignment explanation
Indices: 16677174--16677245 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
16677164 AGAAAATATC
16677174 CAGTGCACTCTCTATTCTATTAATGCATTT
1 CAGTGCA-TCTCTATTCTATTAATGCATTT
* *
16677204 CAGTGCCA-CTCTGTTCTATTTATGCACTTT
1 CAGTG-CATCTCTATTCTATTAATGCA-TTT
*
16677234 -TGTGCATCTCTA
1 CAGTGCATCTCTA
16677246 CATTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 2 0.06
29 23 0.66
30 8 0.23
31 2 0.06
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (29 bp):
CAGTGCATCTCTATTCTATTAATGCATTT
Found at i:16677674 original size:27 final size:26
Alignment explanation
Indices: 16677644--16677711 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
16677634 ATTGATAGAT
*
16677644 ATTATAATAAAATATAT-TTACTTAATA
1 ATTATAATAATATATATATTA--TAATA
*
16677671 ATTA-AGT-ATATATATATTATAATA
1 ATTATAATAATATATATATTATAATA
16677695 ATATATAATAATATATA
1 AT-TATAATAATATATA
16677712 ATAAAAACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 7 0.21
25 9 0.26
26 7 0.21
27 11 0.32
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
ATTATAATAATATATATATTATAATA
Found at i:16677692 original size:21 final size:19
Alignment explanation
Indices: 16677642--16677714 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
16677632 AAATTGATAG
*
16677642 ATATTATAATAAAATATAT
1 ATATTATAATAATATATAT
*
16677661 TTACTTAATAATTAAGTATATAT
1 ATA-TT-ATAA-TAA-TATATAT
16677684 ATATTATAATAATATATA-
1 ATATTATAATAATATATAT
*
16677702 ATAATAT-ATAATA
1 ATATTATAATAATA
16677715 AAAACAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
17 6 0.13
18 6 0.13
19 8 0.17
20 5 0.11
21 8 0.17
22 5 0.11
23 8 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (19 bp):
ATATTATAATAATATATAT
Found at i:16677703 original size:10 final size:10
Alignment explanation
Indices: 16677688--16677715 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16677678 ATATATATAT
16677688 TATAATAATA
1 TATAATAATA
16677698 TATAATAATA
1 TATAATAATA
16677708 TATAATAA
1 TATAATAA
16677716 AAACAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TATAATAATA
Found at i:16678604 original size:41 final size:40
Alignment explanation
Indices: 16678559--16678672 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 40
16678549 ACTTCGAGTT
**
16678559 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAAGCC
* * *
16678600 GATGAGGCACTGGGTGCCAA-TT-TACTTC-GATTTAGCC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGCC
*
16678637 GATGAGACACT-GGTGTCAATTTATTACTTCGAATTA
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTA
16678673 TCCAATGAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
36 7 0.12
37 18 0.30
38 6 0.10
39 6 0.10
40 5 0.08
41 18 0.30
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGCC
Found at i:16678681 original size:39 final size:40
Alignment explanation
Indices: 16678559--16678691 Score: 139
Period size: 39 Copynumber: 3.4 Consensus size: 40
16678549 ACTTCGAGTT
* * *
16678559 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGAATT-ATCC
* * * *
16678600 GATGAGGCACTGGGTGCCAA--T-TTACTTCGATTTAGCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCC
16678637 GATGAGACACT-GGTGTCAATTTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCC
* * *
16678676 AATGAGGCACTAGGTG
1 GATGAGACACTGGGTG
16678692 CCAAAATGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
36 7 0.09
37 12 0.16
38 10 0.13
39 24 0.32
40 4 0.05
41 18 0.24
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCC
Found at i:16682777 original size:23 final size:24
Alignment explanation
Indices: 16682741--16682794 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
16682731 TAAATTAATA
** *
16682741 ATATATTATGTATACAT-TTTTTT
1 ATATATTACATATACATATCTTTT
*
16682764 ATATATTACATATATATATCTTTT
1 ATATATTACATATACATATCTTTT
16682788 A-ATATTA
1 ATATATTA
16682795 TATTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATATTACATATACATATCTTTT
Found at i:16682902 original size:50 final size:46
Alignment explanation
Indices: 16682792--16682905 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 46
16682782 TCTTTTAATA
* *
16682792 TTATAT-TTTTATTATTATGTATATATTTTAATACTACGTATATAT
1 TTATATATGTTATTATTACGTATATATTTTAATACTACGTATATAT
* * * *
16682837 TTTTTTATTTCTATTATTACGTATATATTTTAATACATATATGTATATAT
1 TTATATATGT-TATTATTACGTATATATTTTAATAC---TACGTATATAT
16682887 TTATATATCGTTATTATTA
1 TTATATAT-GTTATTATTA
16682906 GTTTTTTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
45 4 0.07
46 3 0.05
47 24 0.43
50 24 0.43
51 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (46 bp):
TTATATATGTTATTATTACGTATATATTTTAATACTACGTATATAT
Found at i:16683077 original size:15 final size:15
Alignment explanation
Indices: 16683057--16683088 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16683047 TTGTTAACGT
16683057 TTTATACTATTATTA
1 TTTATACTATTATTA
*
16683072 TTTATATTATTATTA
1 TTTATACTATTATTA
16683087 TT
1 TT
16683089 ATCGTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:16695602 original size:28 final size:28
Alignment explanation
Indices: 16695561--16695615 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
16695551 TTTTTTTTGA
* *
16695561 AATTTTCATGAATT-TAATAATTTTAAAG
1 AATTTTCATAAATTAGAAT-ATTTTAAAG
*
16695589 AATTTTTATAAATTAGAATATTTTAAA
1 AATTTTCATAAATTAGAATATTTTAAA
16695616 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (28 bp):
AATTTTCATAAATTAGAATATTTTAAAG
Found at i:16696417 original size:33 final size:33
Alignment explanation
Indices: 16696375--16696441 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16696365 TGAAACAAGC
16696375 TCAAGGAAACCCCTTTAGTCTTCATGATTGCTG
1 TCAAGGAAACCCCTTTAGTCTTCATGATTGCTG
16696408 TCAAGGAAACCCCTTTAGTCTTCATGATTGCTG
1 TCAAGGAAACCCCTTTAGTCTTCATGATTGCTG
16696441 T
1 T
16696442 TCCATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (33 bp):
TCAAGGAAACCCCTTTAGTCTTCATGATTGCTG
Found at i:16699865 original size:21 final size:21
Alignment explanation
Indices: 16699831--16699874 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16699821 AAATCTCTAC
*
16699831 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
16699852 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
16699873 AA
1 AA
16699875 GCTCTTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:16700883 original size:16 final size:16
Alignment explanation
Indices: 16700839--16700877 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
16700829 AGAGAGCAGG
* *
16700839 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
16700855 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
16700871 GGAAAAA
1 GGAAAAA
16700878 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:16703111 original size:91 final size:92
Alignment explanation
Indices: 16702965--16703178 Score: 385
Period size: 91 Copynumber: 2.3 Consensus size: 92
16702955 GTGAAATGTG
* **
16702965 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
16703030 TA-CATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAACGTGACATGAAAAGAA
*
16703056 TAAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
16703121 TACCATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAACGTGACATGAAAAGAA
16703148 TAAGACCATGGTTGAAAGATACCATGGCAAC
1 TAAGACCATGGTTGAAAGATACCATGGCAAC
16703179 ATGACAGAAA
Statistics
Matches: 117, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 63 0.54
92 54 0.46
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAA
Found at i:16703184 original size:46 final size:46
Alignment explanation
Indices: 16702965--16703226 Score: 357
Period size: 46 Copynumber: 5.6 Consensus size: 46
16702955 GTGAAATGTG
* * **
16702965 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
16703011 TAAGACCATGGTTGAAAGATA-CATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * *
16703056 TAAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
16703102 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
*
16703148 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A--A
* * *
16703197 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
16703227 TCATGTCAAA
Statistics
Matches: 194, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
45 46 0.24
46 120 0.62
47 1 0.01
49 1 0.01
50 26 0.13
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:16703191 original size:92 final size:92
Alignment explanation
Indices: 16702965--16703226 Score: 384
Period size: 91 Copynumber: 2.8 Consensus size: 92
16702955 GTGAAATGTG
* **
16702965 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
16703030 TA-CATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAACGTGACATGAAAAGAA
* *
16703056 TAAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
16703121 TACCATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAACGTGACATGAAAAGAA
* *
16703148 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATG-A--A-TAAGACCATGGTTG
* *
16703212 AAAGACACTATGGCA
61 AAAGATACCATGGCA
16703227 TCATGTCAAA
Statistics
Matches: 155, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
91 64 0.41
92 63 0.41
93 1 0.01
95 1 0.01
96 26 0.17
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAA
Found at i:16709373 original size:44 final size:45
Alignment explanation
Indices: 16709322--16709424 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 45
16709312 TGTCTTTGAC
* * *
16709322 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
16709366 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
16709412 ATGGACTTACATG
1 ATGGACTTACATG
16709425 GTTCATTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 33 0.65
46 18 0.35
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:16711501 original size:21 final size:21
Alignment explanation
Indices: 16711475--16711526 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
16711465 TAATTTTATA
16711475 TTTTGAATAAAATATAAGTTC
1 TTTTGAATAAAATATAAGTTC
16711496 TTTTGAATAAAATATAAGTTC
1 TTTTGAATAAAATATAAGTTC
16711517 TTTTGAATAA
1 TTTTGAATAA
16711527 GGCTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (21 bp):
TTTTGAATAAAATATAAGTTC
Found at i:16712363 original size:23 final size:23
Alignment explanation
Indices: 16712333--16712382 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
16712323 GATAAGTTTG
16712333 CACCATCGCCTCAAAGCTAAAAA
1 CACCATCGCCTCAAAGCTAAAAA
16712356 CACCATCGCCTCAAAGCTAAAAA
1 CACCATCGCCTCAAAGCTAAAAA
16712379 CACC
1 CACC
16712383 TTTGATATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (23 bp):
CACCATCGCCTCAAAGCTAAAAA
Found at i:16713003 original size:126 final size:125
Alignment explanation
Indices: 16712724--16713225 Score: 578
Period size: 126 Copynumber: 4.0 Consensus size: 125
16712714 GGCCAATCAT
* ** *** * *
16712724 GAACTACTGTAGAAAAAGACCGTCCACGTAGGAACTTTTTTCACAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTA-GAGTTTTTTTCTGTAATTTTGCTAACAGTGCATC
* * *
16712789 CTGTTTGAAGCGTTTTTGACACTATTTGTT-AAAAATATCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
16712849 GAACTACTGTAGAAAAAGAGCGTCCACGTTAGAGTTTTTTTCTGTAATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACG-TAGAGTTTTTTTCTGTAATTTTGCTAACAGTGCATC
* * * * *
16712914 CTGCTTGAAGCGTTTTTTACATTATTTGTTCAGAAACGTCTTCTAAAAATTATTTTTTCAT
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * * * *
16712975 AAATTACTGTAGAAAAAGAGCGTTCACGTGGTAGTTTTTTTCCT-TAATTTTACTGACTGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAG-AGTTTTTTT-CTGTAATTTTGCTAACAGTGCAT
* * * * * * *
16713039 CCTACTTGAAGCATTTTTTACAGTATTTGTTCAGAAACGTCTTCTTAAAATTATTTTTTTAG
64 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * *
16713101 GAACTATTGTAGAAAATGAGCGTTCACGTGAGAGCTTTTTTT-TGTATTTTTGCTAACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGT-AGAG-TTTTTTTCTGTAATTTTGCTAACAGTGCAT
* * * *
16713165 CATGCTTAAAGTGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCA
64 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
16713226 ATATACAAAA
Statistics
Matches: 320, Mismatches: 50, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
125 84 0.26
126 226 0.71
127 10 0.03
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTAGAGTTTTTTTCTGTAATTTTGCTAACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:16713194 original size:252 final size:251
Alignment explanation
Indices: 16712728--16713225 Score: 653
Period size: 252 Copynumber: 2.0 Consensus size: 251
16712718 AATCATGAAC
* **
16712728 TACTGTAGAAAAAGACCGTCCACGTAGGAACTTTTTTCACAAATTTTGCTGACATTGCATCCTGT
1 TACTGTAGAAAAAGACCGTCCACGTAGGAACTTTTTTCACAAATTTTACTGACATTGCATCCTAC
* *
16712793 TTGAAGCGTTTTTGACACTATTTGTTAAAAATATCTTCTCAAAATTATTTTTTCAGGAACTACTG
66 TTGAAGCATTTTTGACACTATTTGTTAAAAACATCTTCTCAAAATTATTTTTTCAGGAACTACTG
* * * *
16712858 TAGAAAAAGAGCGTCCACGTTAGAGTTTTTTTCTGTAATTTTGCTAACAGTGCATCCTGCTTGAA
131 TAGAAAAAGAGCGTCCACGTGAGAGTTTTTTTCTGTAATTTTGCTAACAATGCATCATGCTTAAA
* * *
16712923 GCGTTTTTTACATTATTTGTTCAGAAACGTCTTCTAAAAATTATTTTTTCATAAAT
196 GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTAAAAATTATTTTTTCATAAAT
* * ** *
16712979 TACTGTAGAAAAAGAGCGTTCACGT-GGTAGTTTTTTTC-CTTAATTTTACTGAC-TGTGCATCC
1 TACTGTAGAAAAAGACCGTCCACGTAGG-AACTTTTTTCAC-AAATTTTACTGACAT-TGCATCC
* * * * * *
16713041 TACTTGAAGCATTTTTTACAGTATTTGTTCAGAAACGTCTTCTTAAAATTATTTTTTTAGGAACT
63 TACTTGAAGCATTTTTGACACTATTTGTT-AAAAACATCTTCTCAAAATTATTTTTTCAGGAACT
* * * *
16713106 ATTGTAGAAAATGAGCGTTCACGTGAGAGCTTTTTTT-TGTATTTTTGCTAACAATGCATCATGC
127 ACTGTAGAAAAAGAGCGTCCACGTGAGAG-TTTTTTTCTGTAATTTTGCTAACAATGCATCATGC
* * *
16713170 TTAAAGTGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCA
191 TTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTAAAAATTATTTTTTCA
16713226 ATATACAAAA
Statistics
Matches: 212, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
250 4 0.02
251 73 0.34
252 128 0.60
253 7 0.03
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (251 bp):
TACTGTAGAAAAAGACCGTCCACGTAGGAACTTTTTTCACAAATTTTACTGACATTGCATCCTAC
TTGAAGCATTTTTGACACTATTTGTTAAAAACATCTTCTCAAAATTATTTTTTCAGGAACTACTG
TAGAAAAAGAGCGTCCACGTGAGAGTTTTTTTCTGTAATTTTGCTAACAATGCATCATGCTTAAA
GCGTTTTTGACACTATTTGTTCAGAAACATCTTCTAAAAATTATTTTTTCATAAAT
Found at i:16725783 original size:61 final size:61
Alignment explanation
Indices: 16725691--16725818 Score: 136
Period size: 61 Copynumber: 2.1 Consensus size: 61
16725681 TTTTTAAAAA
* * * * * * *
16725691 TTTTTAGAGTTAGGACTAAATTGACATATTTTGTAAATATTGAGGGCCA-AAATTTATTG-AT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACATTAAGGG--ATAAATTTATAGAAT
*
16725752 TTTTTAGAATT-GGAACTAAAATGATAAATTTTATAAACATTAAGGGATAAATTTATAGAAT
1 TTTTTAGAATTAGG-ACTAAAATGACAAATTTTATAAACATTAAGGGATAAATTTATAGAAT
16725813 TTTTTA
1 TTTTTA
16725819 TACTTAAGAT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
59 1 0.02
60 11 0.20
61 44 0.79
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (61 bp):
TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACATTAAGGGATAAATTTATAGAAT
Found at i:16733215 original size:17 final size:18
Alignment explanation
Indices: 16733195--16733230 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16733185 AAATAAATAT
*
16733195 AATAAAA-CAAGATTTTA
1 AATAAAATCAACATTTTA
16733212 AATAAAATCAACATTTTA
1 AATAAAATCAACATTTTA
16733230 A
1 A
16733231 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (18 bp):
AATAAAATCAACATTTTA
Found at i:16742915 original size:7 final size:7
Alignment explanation
Indices: 16742897--16742941 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
16742887 GAGTTACTAT
*
16742897 TTTAAGG
1 TTTATGG
16742904 TTTATGG
1 TTTATGG
*
16742911 ATTATGG
1 TTTATGG
16742918 TTTATGG
1 TTTATGG
16742925 TTTATGGG
1 TTTAT-GG
*
16742933 TTAATGG
1 TTTATGG
16742940 TT
1 TT
16742942 AGGGTTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:16742926 original size:21 final size:22
Alignment explanation
Indices: 16742852--16742949 Score: 69
Period size: 21 Copynumber: 4.6 Consensus size: 22
16742842 TAGGGTTTAG
* * *
16742852 GGTTTATGGTATAT-GATTAAG
1 GGTTTAAGGTTTATGGATTAAT
* *
16742873 GGTTTAATGTTTAT-GAGTTACT
1 GGTTTAAGGTTTATGGA-TTAAT
**
16742895 ATTTTAAGGTTTATGGATT-AT
1 GGTTTAAGGTTTATGGATTAAT
* *
16742916 GGTTTATGGTTTATGGGTTAAT
1 GGTTTAAGGTTTATGGATTAAT
*
16742938 GG-TTAGGGTTTA
1 GGTTTAAGGTTTA
16742950 AGTTTTAGGG
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
21 38 0.63
22 20 0.33
23 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (22 bp):
GGTTTAAGGTTTATGGATTAAT
Found at i:16742950 original size:14 final size:14
Alignment explanation
Indices: 16742902--16742949 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
16742892 ACTATTTTAA
*
16742902 GGTTTATGGATTAT
1 GGTTTATGGATTAG
*
16742916 GGTTTATGGTTTATG
1 GGTTTATGGATTA-G
*
16742931 GGTTAATGG-TTAG
1 GGTTTATGGATTAG
16742944 GGTTTA
1 GGTTTA
16742950 AGTTTTAGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 6 0.21
14 15 0.52
15 8 0.28
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
GGTTTATGGATTAG
Found at i:16742982 original size:21 final size:21
Alignment explanation
Indices: 16742938--16742984 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
16742928 ATGGGTTAAT
*
16742938 GGTTAGGGTTTAAGTTTTAGG
1 GGTTAGGGTTTAAGGTTTAGG
*
16742959 GGTTGGGGTTTAAGGTTT-GTG
1 GGTTAGGGTTTAAGGTTTAG-G
16742980 GGTTA
1 GGTTA
16742985 ATGGTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.15, C:0.00, G:0.43, T:0.43
Consensus pattern (21 bp):
GGTTAGGGTTTAAGGTTTAGG
Found at i:16743286 original size:11 final size:11
Alignment explanation
Indices: 16743262--16743291 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
16743252 TAATACTTTT
16743262 ATATTTAA-AA
1 ATATTTAATAA
16743272 ATATTTAATAA
1 ATATTTAATAA
16743283 ATATTTAAT
1 ATATTTAAT
16743292 CTACATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTTAATAA
Found at i:16744723 original size:225 final size:225
Alignment explanation
Indices: 16744332--16744785 Score: 899
Period size: 225 Copynumber: 2.0 Consensus size: 225
16744322 CTCCTAATTC
16744332 TCAAACCGAATCAACTACCATGTTCACCATAAAATTCATTTCTTCTGTCTACAAACAAACCATTA
1 TCAAACCGAATCAACTACCATGTTCACCATAAAATTCATTTCTTCTGTCTACAAACAAACCATTA
16744397 CAAGAATCCAATAATCAAAACTATTATTATAAAACCTGTGACGCAGTCGGTTAAGGCAAATTACA
66 CAAGAATCCAATAATCAAAACTATTATTATAAAACCTGTGACGCAGTCGGTTAAGGCAAATTACA
*
16744462 CATACACAAGATCACTTCCATAGATCAATACAAGGGTTCAAACATTTTTGTACGCACATTTTCCC
131 CATACACAAGATCACTTCCATAGATCAACACAAGGGTTCAAACATTTTTGTACGCACATTTTCCC
16744527 CAACTTAAAGTAAAAAGGATTGTGATGATT
196 CAACTTAAAGTAAAAAGGATTGTGATGATT
16744557 TCAAACCGAATCAACTACCATGTTCACCATAAAATTCATTTCTTCTGTCTACAAACAAACCATTA
1 TCAAACCGAATCAACTACCATGTTCACCATAAAATTCATTTCTTCTGTCTACAAACAAACCATTA
16744622 CAAGAATCCAATAATCAAAACTATTATTATAAAACCTGTGACGCAGTCGGTTAAGGCAAATTACA
66 CAAGAATCCAATAATCAAAACTATTATTATAAAACCTGTGACGCAGTCGGTTAAGGCAAATTACA
16744687 CATACACAAGATCACTTCCATAGATCAACACAAGGGTTCAAACATTTTTGTACGCACATTTTCCC
131 CATACACAAGATCACTTCCATAGATCAACACAAGGGTTCAAACATTTTTGTACGCACATTTTCCC
16744752 CAACTTAAAGTAAAAAGGATTGTGATGATT
196 CAACTTAAAGTAAAAAGGATTGTGATGATT
16744782 TCAA
1 TCAA
16744786 TGCCAAGATA
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 228 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (225 bp):
TCAAACCGAATCAACTACCATGTTCACCATAAAATTCATTTCTTCTGTCTACAAACAAACCATTA
CAAGAATCCAATAATCAAAACTATTATTATAAAACCTGTGACGCAGTCGGTTAAGGCAAATTACA
CATACACAAGATCACTTCCATAGATCAACACAAGGGTTCAAACATTTTTGTACGCACATTTTCCC
CAACTTAAAGTAAAAAGGATTGTGATGATT
Found at i:16758302 original size:10 final size:10
Alignment explanation
Indices: 16758287--16758342 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
16758277 TCCCCCTATC
16758287 CAAATTCTCT
1 CAAATTCTCT
16758297 CAAATTCT-T
1 CAAATTCTCT
*
16758306 CCAAAAATTCCCT
1 -C--AAATTCTCT
*
16758319 CATATTCTCT
1 CAAATTCTCT
*
16758329 CAAATTTTCT
1 CAAATTCTCT
16758339 CAAA
1 CAAA
16758343 GCTCTCTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 1 0.03
10 28 0.76
12 7 0.19
13 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.38
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:16758591 original size:49 final size:50
Alignment explanation
Indices: 16758494--16758594 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
16758484 AGTGATAATT
** *
16758494 TTAATATTTCAATAGTATTTAATATTTTTTTAAAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTAAAATTTAAGCAATTTTAA
* **
16758544 TTAATTTTTCAATACAATTTAATATTTTTTT-TCATTTAAGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTAAAATTTAAGCAATTTTAA
16758593 TT
1 TT
16758595 TTATAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
49 17 0.38
50 28 0.62
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (50 bp):
TTAATATTTCAATACAATTTAATATTTTTTTAAAATTTAAGCAATTTTAA
Found at i:16761376 original size:47 final size:47
Alignment explanation
Indices: 16761246--16761416 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
16761236 ATAGTAAAAC
* * * *
16761246 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
16761295 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCTCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
16761341 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
16761388 TATGGTCTTATACGGAAGCACATATCACA
1 TATGGTCTTACACAGTAGCACATATCACA
16761417 TTTCTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.25
47 55 0.54
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:16765241 original size:45 final size:45
Alignment explanation
Indices: 16765177--16765349 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 45
16765167 GTAACCCGCC
*
16765177 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* *
16765222 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * ** *
16765271 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
16765314 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 -CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
16765350 ATGCTCAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 37 0.35
46 27 0.25
47 27 0.25
48 3 0.03
49 6 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:16765289 original size:92 final size:93
Alignment explanation
Indices: 16765184--16765353 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
16765174 GCCCATAAGT
** * *
16765184 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT-CATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16765248 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
16765276 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
16765341 CGAGTTCGGATGC
66 CGAGCTCGGATGC
16765354 TCAACATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 33 0.46
93 38 0.54
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:16769395 original size:44 final size:44
Alignment explanation
Indices: 16769342--16769492 Score: 223
Period size: 44 Copynumber: 3.4 Consensus size: 44
16769332 TGTCTTTGAC
** * *
16769342 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
16769386 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
* *
16769430 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATA--TATAAT
16769476 ATGG-CTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16769493 TTTCTGTTCT
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
44 77 0.78
45 13 0.13
46 9 0.09
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
Found at i:16776856 original size:46 final size:44
Alignment explanation
Indices: 16776752--16776859 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16776742 TGTCTTTGAC
** * * *
16776752 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16776796 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16776842 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16776860 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16784221 original size:46 final size:44
Alignment explanation
Indices: 16784117--16784224 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16784107 TGTCTTTGAC
** * * *
16784117 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16784161 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16784207 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16784225 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16786055 original size:126 final size:124
Alignment explanation
Indices: 16785793--16786160 Score: 359
Period size: 125 Copynumber: 3.0 Consensus size: 124
16785783 GAGCGGTCAC
* * * * * * *
16785793 GTGAGAGCTTTTTTCAGAAATTTTGCTGAAAATGCATAC--CATGAAGCGTTTTTGACACTATTT
1 GTGAGAGC-TTTTTCAGTAATTTTACTGACACTGCATCCTGCTTAAAGCGTTTTTGACACTATTT
* ** * * * ** *
16785856 GTTT-AGAAAGGTAATCTCACAATTATTTTTTCAGATACCACTGTATCAAAAGAGCGTCCAC
65 -TTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTGTA-GAAAAAAAAGTCCAA
* * * *
16785917 GTGAGAGCTTTTTTCAGTACTTTTGCTGACACTGCATCCTGCTTAAAGCATTTTTTACACTATTT
1 GTGAGAGC-TTTTTCAGTAATTTTACTGACACTGCATCCTGCTTAAAGCGTTTTTGACACTATTT
16785982 TTTCAGAAACGTCTTCTCAAAATTATTTTCTT-AGATACCACTGTAGAAAAAAAAGTCCAA
65 TTTCAGAAACGTCTTCTCAAAATTATTTT-TTCAGATACCACTGTAGAAAAAAAAGTCCAA
* * * * * *
16786042 GTGGGAGCATTTTTCAGTAATTTTACTGACAGTGCATCCTGGTTAAAGTGTTTTGGATACTATTT
1 GTGAGAGC-TTTTTCAGTAATTTTACTGACACTGCATCCTGCTTAAAGCGTTTTTGACACTATTT
* * * * *
16786107 CTTCAGAAACTTCTTCTTAAAATT-TTTTTTCCAGATACTACTGAAGAAAAAAAA
65 TTTCAGAAACGTCTTCTCAAAATTATTTTTT-CAGATACCACTGTAGAAAAAAAA
16786161 CCAAAAATTT
Statistics
Matches: 204, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
123 2 0.01
124 38 0.19
125 108 0.53
126 54 0.26
127 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (124 bp):
GTGAGAGCTTTTTCAGTAATTTTACTGACACTGCATCCTGCTTAAAGCGTTTTTGACACTATTTT
TTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTGTAGAAAAAAAAGTCCAA
Found at i:16790421 original size:16 final size:16
Alignment explanation
Indices: 16790400--16790432 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16790390 TGAAAAAATG
16790400 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
16790416 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
16790432 A
1 A
16790433 AAAAAGGTTT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:16793857 original size:34 final size:35
Alignment explanation
Indices: 16793786--16793857 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
16793776 ATTACTCTAT
*
16793786 TAAATATATTTAAAATATATTTGTAATTATAAATTA
1 TAAATATATCTAAAATATATTTGTAA-TATAAATTA
* *
16793822 TAAATATATCTCAAATATATTTTTAA-ATAAATTA
1 TAAATATATCTAAAATATATTTGTAATATAAATTA
16793856 TA
1 TA
16793858 GTTCAATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 10 0.30
36 23 0.70
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (35 bp):
TAAATATATCTAAAATATATTTGTAATATAAATTA
Found at i:16794583 original size:33 final size:33
Alignment explanation
Indices: 16794541--16794606 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
16794531 AATTGACAAC
16794541 GAAAAAGTCTTTTTCTAATTGGTATAATCACAT
1 GAAAAAGTCTTTTTCTAATTGGTATAATCACAT
16794574 GAAAAAGTCTTTTTCTAATTGGTATAATCACAT
1 GAAAAAGTCTTTTTCTAATTGGTATAATCACAT
16794607 ACTTAGTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
GAAAAAGTCTTTTTCTAATTGGTATAATCACAT
Found at i:16804347 original size:6 final size:6
Alignment explanation
Indices: 16804336--16804370 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
16804326 GAACTTTGTT
16804336 GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGA
1 GGTGAG GGTGAG GGTGAG GGTGAG GGTGAG GGTGA
16804371 TTGACGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (6 bp):
GGTGAG
Found at i:16813673 original size:318 final size:319
Alignment explanation
Indices: 16813094--16813734 Score: 1248
Period size: 318 Copynumber: 2.0 Consensus size: 319
16813084 ATATAGGGGA
*
16813094 TACACGGCCTAACTACACGCCTATGTATAAACCATATGTCTTACACGGTCTGGCTACACACCCGT
1 TACACGGCCTAACTACACGCCCATGTATAAACCATATGTCTTACACGGTCTGGCTACACACCCGT
16813159 GTGCCAAGCCATGTGGACTCGCAATGAGCCTTAATGTCAAGTTTACCAACCCTGCAATACAATAA
66 GTGCCAAGCCA-GTGGACTCGCAATGAGCCTTAATGTCAAGTTTACCAACCCTGCAATACAATAA
16813224 CACCAAACAATCCAAAAACATACATTCAATCACTTCAATTCACATTTAAGTTTATTCTTAACTTG
130 CACCAAACAATCCAAAAACATACATTCAATCACTTCAATTCACATTTAAGTTTATTCTTAACTTG
16813289 TCAAACTAGAAATTTTATACTACTATATGATGAGTTTTTTTAAGTATTTCACATACGTTATCAAA
195 TCAAACTAGAAATTTTATACTACTATATGATGAGTTTTTTTAAGTATTTCACATACGTTATCAAA
16813354 TAACCCAAATTCATACCAAATAAACTATTTCCTACCCTATACCATTACCAACTCTAAATT
260 TAACCCAAATTCATACCAAATAAACTATTTCCTACCCTATACCATTACCAACTCTAAATT
16813414 TACACGGCCTAACTACACGCCCATGTATAAACCATATGTCTTACACGGTCTGGCTACACACCCGT
1 TACACGGCCTAACTACACGCCCATGTATAAACCATATGTCTTACACGGTCTGGCTACACACCCGT
16813479 GTGCCAAGCCA-TGGACTCGCAATGAGCCTTAATGTCAAGTTTACCAACCCTGCAATACAATAAC
66 GTGCCAAGCCAGTGGACTCGCAATGAGCCTTAATGTCAAGTTTACCAACCCTGCAATACAATAAC
*
16813543 ACCAAACAATCCAAAAACATACATTCAATCACTTCAGTTCACATTTAAGTTTATTCTTAACTTGT
131 ACCAAACAATCCAAAAACATACATTCAATCACTTCAATTCACATTTAAGTTTATTCTTAACTTGT
16813608 CAAACTAGAAATTTTATACTACTATATGATGAGTTTTTTTAAGTATTTCACATACGTTATCAAAT
196 CAAACTAGAAATTTTATACTACTATATGATGAGTTTTTTTAAGTATTTCACATACGTTATCAAAT
16813673 AACCCAAATTCATACCAAATAAACTATTTCCTACCCTATACCATTACCAACTCTAAATT
261 AACCCAAATTCATACCAAATAAACTATTTCCTACCCTATACCATTACCAACTCTAAATT
16813732 TAC
1 TAC
16813735 TTATTTCATT
Statistics
Matches: 319, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
318 244 0.76
320 75 0.24
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.30
Consensus pattern (319 bp):
TACACGGCCTAACTACACGCCCATGTATAAACCATATGTCTTACACGGTCTGGCTACACACCCGT
GTGCCAAGCCAGTGGACTCGCAATGAGCCTTAATGTCAAGTTTACCAACCCTGCAATACAATAAC
ACCAAACAATCCAAAAACATACATTCAATCACTTCAATTCACATTTAAGTTTATTCTTAACTTGT
CAAACTAGAAATTTTATACTACTATATGATGAGTTTTTTTAAGTATTTCACATACGTTATCAAAT
AACCCAAATTCATACCAAATAAACTATTTCCTACCCTATACCATTACCAACTCTAAATT
Found at i:16814319 original size:18 final size:18
Alignment explanation
Indices: 16814298--16814429 Score: 174
Period size: 18 Copynumber: 7.3 Consensus size: 18
16814288 CCAATTGTTT
*
16814298 AGTAACAGTCGGTTATTC
1 AGTAACAGTCAGTTATTC
*
16814316 AGTAACAGTCATTTATTC
1 AGTAACAGTCAGTTATTC
*
16814334 AGTAACAGTCAATTATTC
1 AGTAACAGTCAGTTATTC
* *
16814352 AGTAATAATCAGTTATTC
1 AGTAACAGTCAGTTATTC
16814370 AGTAACAGTCAGTTATTC
1 AGTAACAGTCAGTTATTC
* *
16814388 AGTAACAGTTAATTATTC
1 AGTAACAGTCAGTTATTC
* * *
16814406 AATAGCAGTCAGTTATTT
1 AGTAACAGTCAGTTATTC
16814424 AGTAAC
1 AGTAAC
16814430 TTTATTTACC
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 97 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
AGTAACAGTCAGTTATTC
Found at i:16814335 original size:54 final size:54
Alignment explanation
Indices: 16814276--16814429 Score: 175
Period size: 54 Copynumber: 2.9 Consensus size: 54
16814266 TATCAATATA
* * * * *
16814276 ATTCAGTAAC-GACCAATTGTTTAGTAACAGTCGGTTATTCAGTAACAGTCATTT
1 ATTCAGTAACAG-CCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAGTT
* *
16814330 ATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTCAGTAACAGTCAGTT
1 ATTCAGTAACAGCCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAGTT
** * * * *
16814384 ATTCAGTAACAGTTAATTATTCAATAGCAGTCAGTTATTTAGTAAC
1 ATTCAGTAACAGCCAATTATTCAGTAACAATCAGTTATTCAGTAAC
16814430 TTTATTTACC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 85 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (54 bp):
ATTCAGTAACAGCCAATTATTCAGTAACAATCAGTTATTCAGTAACAGTCAGTT
Found at i:16814338 original size:36 final size:36
Alignment explanation
Indices: 16814276--16814429 Score: 175
Period size: 36 Copynumber: 4.3 Consensus size: 36
16814266 TATCAATATA
* * * *
16814276 ATTCAGTAAC-GACCAATTGTTTAGTAACAGTCGGTT
1 ATTCAGTAACAG-TCAATTATTCAGTAACAGTCAGTT
* *
16814312 ATTCAGTAACAGTCATTTATTCAGTAACAGTCAATT
1 ATTCAGTAACAGTCAATTATTCAGTAACAGTCAGTT
* * *
16814348 ATTCAGTAATAATCAGTTATTCAGTAACAGTCAGTT
1 ATTCAGTAACAGTCAATTATTCAGTAACAGTCAGTT
* * *
16814384 ATTCAGTAACAGTTAATTATTCAATAGCAGTCAGTT
1 ATTCAGTAACAGTCAATTATTCAGTAACAGTCAGTT
*
16814420 ATTTAGTAAC
1 ATTCAGTAAC
16814430 TTTATTTACC
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
36 99 0.99
37 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (36 bp):
ATTCAGTAACAGTCAATTATTCAGTAACAGTCAGTT
Found at i:16816267 original size:4 final size:4
Alignment explanation
Indices: 16816253--16816290 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
16816243 CACATTTGTC
16816253 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA CTTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
16816291 ATTAATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:16822778 original size:42 final size:42
Alignment explanation
Indices: 16822719--16822805 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
16822709 AAGAAAAGAA
16822719 AAGTTAGGATAAACATATACTAACATCAACAGTCTTTTGAAT
1 AAGTTAGGATAAACATATACTAACATCAACAGTCTTTTGAAT
16822761 AAGTTAGGATAAACATATACTAACATCAACAGTCTTTTGAAT
1 AAGTTAGGATAAACATATACTAACATCAACAGTCTTTTGAAT
16822803 AAG
1 AAG
16822806 ATCTTTCCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.30
Consensus pattern (42 bp):
AAGTTAGGATAAACATATACTAACATCAACAGTCTTTTGAAT
Found at i:16832194 original size:3 final size:3
Alignment explanation
Indices: 16832188--16832213 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16832178 TATTATTATT
16832188 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
16832214 TAATATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:16834204 original size:20 final size:20
Alignment explanation
Indices: 16834181--16834230 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
16834171 AAATCCAAAT
*
16834181 TAAAATACTAAAATTTAGGA
1 TAAAATACTAAAATTCAGGA
*
16834201 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
16834221 TAAAAATACT
1 T-AAAATACT
16834231 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:16838140 original size:14 final size:15
Alignment explanation
Indices: 16838101--16838142 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
16838091 GATAATTAAT
16838101 TTTTA-ATTATTCTA
1 TTTTATATTATTCTA
16838115 TTTTAATAATTATT-TA
1 TTTT-AT-ATTATTCTA
16838131 TTTTATATTATT
1 TTTTATATTATT
16838143 AGAGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 6 0.24
17 6 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATATTATTCTA
Found at i:16838143 original size:17 final size:17
Alignment explanation
Indices: 16838104--16838135 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16838094 AATTAATTTT
16838104 TAATTATTCTATTTTAA
1 TAATTATTCTATTTTAA
16838121 TAATTATT-TATTTTA
1 TAATTATTCTATTTTA
16838136 TATTATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTATTCTATTTTAA
Found at i:16845017 original size:13 final size:13
Alignment explanation
Indices: 16844999--16845061 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
16844989 TCTTCATTGC
16844999 TTTTGAAAAGTAT
1 TTTTGAAAAGTAT
*
16845012 TTTTGAAAAGTGT
1 TTTTGAAAAGTAT
* * *
16845025 TATGGAAAAGTAC
1 TTTTGAAAAGTAT
*
16845038 TTTTGACAAGTAT
1 TTTTGAAAAGTAT
*
16845051 TTTTGAGAAGT
1 TTTTGAAAAGT
16845062 GCTTTAAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (13 bp):
TTTTGAAAAGTAT
Found at i:16847430 original size:4 final size:4
Alignment explanation
Indices: 16847421--16847450 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
16847411 GAGATGGGGC
16847421 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
16847451 TGAGGAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:16854981 original size:12 final size:12
Alignment explanation
Indices: 16854964--16854988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16854954 CGCTATCCAT
16854964 CATTATACACTG
1 CATTATACACTG
16854976 CATTATACACTG
1 CATTATACACTG
16854988 C
1 C
16854989 TCATAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATTATACACTG
Found at i:16866530 original size:21 final size:21
Alignment explanation
Indices: 16866505--16866556 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
16866495 TTGTAGCGAA
16866505 CATCTTTCTTGCTAGGAGATC
1 CATCTTTCTTGCTAGGAGATC
16866526 CATCTTTCTTGCTAGGAGATC
1 CATCTTTCTTGCTAGGAGATC
16866547 CATCTTTCTT
1 CATCTTTCTT
16866557 TGCGAATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.42
Consensus pattern (21 bp):
CATCTTTCTTGCTAGGAGATC
Found at i:16866940 original size:21 final size:21
Alignment explanation
Indices: 16866914--16866954 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16866904 ATCTGCTCAA
* *
16866914 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16866935 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16866955 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16870732 original size:15 final size:15
Alignment explanation
Indices: 16870712--16870763 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
16870702 ACTACAAAAC
16870712 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
16870727 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
16870746 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
16870761 ATT
1 ATT
16870764 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:16870882 original size:22 final size:22
Alignment explanation
Indices: 16870857--16870898 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16870847 TATTAAATAA
16870857 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
16870879 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
16870899 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:16874804 original size:14 final size:15
Alignment explanation
Indices: 16874780--16874808 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16874770 GACCGTCTCA
16874780 TATTAATTTTTATAT
1 TATTAATTTTTATAT
16874795 TATT-ATTTTTATAT
1 TATTAATTTTTATAT
16874809 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTAATTTTTATAT
Found at i:16875320 original size:7 final size:7
Alignment explanation
Indices: 16875308--16875332 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16875298 CATAAATATA
16875308 AATTGAT
1 AATTGAT
16875315 AATTGAT
1 AATTGAT
16875322 AATTGAT
1 AATTGAT
16875329 AATT
1 AATT
16875333 TGGATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
AATTGAT
Found at i:16875730 original size:31 final size:30
Alignment explanation
Indices: 16875659--16875731 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
16875649 ATATATATAT
* *
16875659 AAATTTTAATTTGATATAATTATAAACTTA
1 AAATTTTAATTTGATTTAAATATAAACTTA
* * *
16875689 AAACTCTAATTGTGATTTAAATA-AATATTTA
1 AAATTTTAATT-TGATTTAAATATAA-ACTTA
16875720 AAATTTTAATTT
1 AAATTTTAATTT
16875732 TAATTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
AAATTTTAATTTGATTTAAATATAAACTTA
Found at i:16877024 original size:38 final size:39
Alignment explanation
Indices: 16876940--16877074 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
16876930 ACCAATATGG
*
16876940 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
16876979 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
16877017 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
16877058 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
16877075 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:16878655 original size:5 final size:5
Alignment explanation
Indices: 16878637--16878672 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
16878627 TTTCTTTTAT
*
16878637 ATATA ATAATA ATATA ATATA TTATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
16878673 CTTAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:16878688 original size:20 final size:19
Alignment explanation
Indices: 16878635--16878699 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
16878625 TGTTTCTTTT
*
16878635 ATATATAAT-AATAATATA
1 ATATATTATAAATAATATA
16878653 ATATATTATAATATAATATA
1 ATATATTATAA-ATAATATA
*
16878673 CT-TAATTATTAAATAA-ATA
1 ATAT-ATTA-TAAATAATATA
16878692 TATATATT
1 -ATATATT
16878700 TTTTAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
18 8 0.21
19 5 0.13
20 21 0.55
21 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATATTATAAATAATATA
Found at i:16890989 original size:2 final size:2
Alignment explanation
Indices: 16890982--16891031 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
16890972 AATGAAAGAC
*
16890982 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
16891024 GA GA GA GA
1 GA GA GA GA
16891032 TGTAGTAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16891627 original size:21 final size:22
Alignment explanation
Indices: 16891598--16891639 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16891588 GTTTGCCCCA
* *
16891598 AAGCACAAAGAACAGAAAAGAT
1 AAGCACAAAGAAAAAAAAAGAT
16891620 AAGC-CAAAGAAAAAAAAAGA
1 AAGCACAAAGAAAAAAAAAGA
16891640 AAAAAAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.69, C:0.12, G:0.17, T:0.02
Consensus pattern (22 bp):
AAGCACAAAGAAAAAAAAAGAT
Found at i:16894554 original size:8 final size:9
Alignment explanation
Indices: 16894527--16894564 Score: 55
Period size: 8 Copynumber: 4.6 Consensus size: 9
16894517 AGTAATTAAG
16894527 TTAAATATT
1 TTAAATATT
16894536 TT-AA-ATT
1 TTAAATATT
16894543 TTAAAT-TT
1 TTAAATATT
16894551 TTAAATATT
1 TTAAATATT
16894560 TTAAA
1 TTAAA
16894565 ACAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 5 0.19
8 12 0.46
9 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTAAATATT
Found at i:16894554 original size:15 final size:16
Alignment explanation
Indices: 16894527--16894556 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16894517 AGTAATTAAG
16894527 TTAAATATTTTAAATT
1 TTAAATATTTTAAATT
16894543 TTAAAT-TTTTAAAT
1 TTAAATATTTTAAAT
16894557 ATTTTAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAATATTTTAAATT
Found at i:16894698 original size:16 final size:15
Alignment explanation
Indices: 16894673--16894702 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16894663 TTTAATGTGA
16894673 CATAATTATATTTAG
1 CATAATTATATTTAG
16894688 CATATATTATATTTA
1 CATA-ATTATATTTA
16894703 AAAAGTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (15 bp):
CATAATTATATTTAG
Found at i:16900748 original size:56 final size:56
Alignment explanation
Indices: 16900662--16900775 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
16900652 CTCACCGCCC
*
16900662 TTTCTATTGTTCCTGTTCCTCAACTCAAAACTCAAGCGACTAATGGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCGACTAATGGGCTATTGTCT
* * *
16900718 TTTCTATTGTTCCTCTTTCTCAACTCAAAACTCAAGCTACTAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCGACTAATGGGCTATTGTCT
16900774 TT
1 TT
16900776 GTTTCATAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (56 bp):
TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCGACTAATGGGCTATTGTCT
Found at i:16903999 original size:150 final size:146
Alignment explanation
Indices: 16903775--16904058 Score: 370
Period size: 149 Copynumber: 1.9 Consensus size: 146
16903765 ATTTAATTTA
* * * *
16903775 AAAAATTATTAAAATATTTTTATACATAAAATAATATATATTATTATGAGGGTATTTTTATCTTT
1 AAAAATTACTAAAATATTTTTATACATAAAATAAGATATATTATCATAAGGGTATTTTTATCTTT
* * *
16903840 TTACATTTTTATTTAAATTTTATACTAATATTAAATCCTAAACTATGTTGGTATCACGAGTTAAC
66 TTACATTTTTATATAAA-TCTATACTAATATTAAATCCTAAACTATGTTGGTATCACAAGTTAAC
16903905 ATACATTAATTCTTTTG
130 ATACATTAATTCTTTTG
* * * *
16903922 AAAATTTACTAAAATATCTTTTATATATAAATTGAGAGATATATTATCATAAGGGTGTTTTTATC
1 AAAAATTACTAAAATAT-TTTTATACATAAAAT-A-AGATATATTATCATAAGGGTATTTTTATC
* * * * * *
16903987 TTTTTGCATTTTTATATAAATCTATATTTATATTAAGTCTTAAACTGTGTTGGTATCACAAGTTA
63 TTTTTACATTTTTATATAAATCTATACTAATATTAAATCCTAAACTATGTTGGTATCACAAGTTA
*
16904052 ATATACA
128 ACATACA
16904059 CCAATGCAAG
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
147 15 0.13
148 13 0.11
149 45 0.39
150 43 0.37
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (146 bp):
AAAAATTACTAAAATATTTTTATACATAAAATAAGATATATTATCATAAGGGTATTTTTATCTTT
TTACATTTTTATATAAATCTATACTAATATTAAATCCTAAACTATGTTGGTATCACAAGTTAACA
TACATTAATTCTTTTG
Found at i:16904235 original size:28 final size:29
Alignment explanation
Indices: 16904203--16904259 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
16904193 ATTCTTTTTT
16904203 TTTAATAGTAAAAA-ATTAAATTAATTTA
1 TTTAATAGTAAAAATATTAAATTAATTTA
*
16904231 TTTAATAGTAAAAATATTAATTTAATTTA
1 TTTAATAGTAAAAATATTAAATTAATTTA
16904260 ATCGATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTAATAGTAAAAATATTAAATTAATTTA
Found at i:16904644 original size:3 final size:3
Alignment explanation
Indices: 16904624--16904662 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
16904614 AAAATATCTA
*
16904624 AAT AAT AAC AAT AA- AAT AAT AAT AAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16904663 AATGGCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16904644 original size:17 final size:17
Alignment explanation
Indices: 16904624--16904662 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16904614 AAAATATCTA
16904624 AATAATAACAATAAAAT
1 AATAATAACAATAAAAT
* *
16904641 AATAATAATAATATAAT
1 AATAATAACAATAAAAT
16904658 AATAA
1 AATAA
16904663 AATGGCAATA
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:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATAACAATAAAAT
Found at i:16904656 original size:11 final size:12
Alignment explanation
Indices: 16904624--16904662 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
16904614 AAAATATCTA
*
16904624 AATAATAACAAT
1 AATAATAATAAT
16904636 AA-AATAATAAT
1 AATAATAATAAT
16904647 AATAAT-ATAAT
1 AATAATAATAAT
16904658 AATAA
1 AATAA
16904663 AATGGCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAATAATAAT
Found at i:16904660 original size:14 final size:14
Alignment explanation
Indices: 16904623--16904662 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
16904613 TAAAATATCT
*
16904623 AAATAATAACAATA
1 AAATAATAATAATA
16904637 AAATAATAATAATA
1 AAATAATAATAATA
*
16904651 ATATAATAATAA
1 AAATAATAATAA
16904663 AATGGCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:16927672 original size:3 final size:3
Alignment explanation
Indices: 16927666--16927701 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16927656 ACTCTCTTCT
16927666 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16927702 CTCATAATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16933284 original size:3 final size:3
Alignment explanation
Indices: 16933276--16933316 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16933266 ATTATATCTT
16933276 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16933317 CAATACTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16934842 original size:3 final size:3
Alignment explanation
Indices: 16934834--16934889 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
16934824 TAATGATCTG
16934834 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
16934882 CAT CAT CA
1 CAT CAT CA
16934890 CCGCTATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:16940857 original size:2 final size:2
Alignment explanation
Indices: 16940850--16940882 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16940840 AAATAACATT
16940850 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16940883 CTAAACCGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16947346 original size:3 final size:3
Alignment explanation
Indices: 16947338--16947394 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
16947328 TTAACTTTAT
16947338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16947386 TTA TTA TTA
1 TTA TTA TTA
16947395 ACGACAACTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16959626 original size:49 final size:49
Alignment explanation
Indices: 16959570--16959667 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
16959560 TTAATATTCG
*
16959570 ATGATAATGTAAAGTAGTAAAATTCAAGATAAAATTTAAATATAGTGGT
1 ATGATAATGCAAAGTAGTAAAATTCAAGATAAAATTTAAATATAGTGGT
16959619 ATGATAATGCAAAGTAGTAAAATTCAAGATAAAATTTAAATATAGTGGT
1 ATGATAATGCAAAGTAGTAAAATTCAAGATAAAATTTAAATATAGTGGT
16959668 CTGTATACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.49, C:0.03, G:0.16, T:0.32
Consensus pattern (49 bp):
ATGATAATGCAAAGTAGTAAAATTCAAGATAAAATTTAAATATAGTGGT
Found at i:16960070 original size:19 final size:19
Alignment explanation
Indices: 16960043--16960079 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16960033 CAAAATTTAT
* *
16960043 ATTTTTAAAAAATTATAAA
1 ATTTCTAAAAAAATATAAA
16960062 ATTTCTAAAAAAATATAA
1 ATTTCTAAAAAAATATAA
16960080 GAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTCTAAAAAAATATAAA
Found at i:16960120 original size:19 final size:19
Alignment explanation
Indices: 16960034--16960120 Score: 54
Period size: 19 Copynumber: 4.6 Consensus size: 19
16960024 TAAAAATTCC
*
16960034 AAAA-TTTATATTTTT-AA
1 AAAATTTTAAATTTTTAAA
* *
16960051 AAAATTATAAAATTTCTAAA
1 AAAATT-TTAAATTTTTAAA
** * *
16960071 AAAATATAAGAAATATATAAA
1 AAAAT-T-TTAAATTTTTAAA
*
16960092 GAAA-TTTAAATTTTTAAA
1 AAAATTTTAAATTTTTAAA
16960110 AAAATTTTAAA
1 AAAATTTTAAA
16960121 ATAATAATTT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
17 4 0.08
18 13 0.25
19 14 0.27
20 7 0.13
21 14 0.27
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTTTAAATTTTTAAA
Found at i:16960525 original size:29 final size:28
Alignment explanation
Indices: 16960479--16960540 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
16960469 TTGTTTCAAT
*
16960479 TTATTTCTTTGTTAATAAT-TTTGCTTTG
1 TTATTTCTTTGTAAATAATATTT-CTTTG
* *
16960507 TTATTTTTTTGATAAATAATATTTTTTTG
1 TTATTTCTTTG-TAAATAATATTTCTTTG
16960536 TTATT
1 TTATT
16960541 CAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 10 0.34
29 16 0.55
30 3 0.10
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.66
Consensus pattern (28 bp):
TTATTTCTTTGTAAATAATATTTCTTTG
Found at i:16964034 original size:33 final size:33
Alignment explanation
Indices: 16963989--16964053 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
16963979 ATACATAAAT
16963989 AAGAGAACATGAATAATTATGGGGCATTTGAAG
1 AAGAGAACATGAATAATTATGGGGCATTTGAAG
*
16964022 AAGAGAATATGAATAATTATGGGGCATTTGAA
1 AAGAGAACATGAATAATTATGGGGCATTTGAA
16964054 AAACAAGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.05, G:0.26, T:0.26
Consensus pattern (33 bp):
AAGAGAACATGAATAATTATGGGGCATTTGAAG
Found at i:16968280 original size:24 final size:24
Alignment explanation
Indices: 16968248--16968306 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
16968238 ACCGGTGTTT
16968248 CTGGTGGTTTCCG-GAGTAAAGTAG
1 CTGGTGGTTTCCGCG-GTAAAGTAG
*
16968272 CTGGTGGTTTCTGCGGTAAAGTAG
1 CTGGTGGTTTCCGCGGTAAAGTAG
16968296 CTGGTGGTTTC
1 CTGGTGGTTTC
16968307 GGCAGTGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.15, C:0.14, G:0.37, T:0.34
Consensus pattern (24 bp):
CTGGTGGTTTCCGCGGTAAAGTAG
Found at i:16969903 original size:23 final size:23
Alignment explanation
Indices: 16969868--16969913 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16969858 TATATAATAA
* *
16969868 ATATATATTTTTTATTTTTAATT
1 ATATATATATTTTAATTTTAATT
*
16969891 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
16969914 TCAATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:16969979 original size:40 final size:40
Alignment explanation
Indices: 16969935--16970015 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
16969925 AATTTTTATT
16969935 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
16969975 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
16970015 A
1 A
16970016 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:16972849 original size:13 final size:13
Alignment explanation
Indices: 16972833--16972866 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16972823 AAAATAAAAA
*
16972833 TAAAAATATTAAT
1 TAAAAATATGAAT
*
16972846 TAAAAAGATGAAT
1 TAAAAATATGAAT
16972859 TAAAAATA
1 TAAAAATA
16972867 AAAAACTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
TAAAAATATGAAT
Found at i:16980169 original size:2 final size:2
Alignment explanation
Indices: 16980162--16980186 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16980152 CACTTCAATT
16980162 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16980187 CCTTGCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16984347 original size:21 final size:22
Alignment explanation
Indices: 16984306--16984356 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
16984296 AGAGATTCTT
*
16984306 TTAAAATAAACTCAGTAATTTTA-
1 TTAAAA-AAACTCAATAA-TTTAC
16984329 TTAAAAAAACT-AATAATTTAC
1 TTAAAAAAACTCAATAATTTAC
16984350 TTAAAAA
1 TTAAAAA
16984357 CATTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 5 0.19
23 6 0.23
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAAAAACTCAATAATTTAC
Found at i:16987204 original size:15 final size:15
Alignment explanation
Indices: 16987186--16987242 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
16987176 GGAAAACAAG
16987186 GAAGAAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
16987201 GAAGCAGAGAAGAAA
1 GAAGAAGAGAAGAAA
* * * *
16987216 CAAGATGA-AGGAGA
1 GAAGAAGAGAAGAAA
16987230 GAAGAA-AGAAGAA
1 GAAGAAGAGAAGAA
16987243 GATCAAGGCA
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
13 1 0.03
14 11 0.35
15 19 0.61
ACGTcount: A:0.61, C:0.04, G:0.33, T:0.02
Consensus pattern (15 bp):
GAAGAAGAGAAGAAA
Found at i:16987230 original size:21 final size:21
Alignment explanation
Indices: 16987201--16987241 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16987191 AGAGAAGAAA
16987201 GAAGCAGAGAAGAAACAAGAT
1 GAAGCAGAGAAGAAACAAGAT
* *
16987222 GAAGGAGAGAAGAAAGAAGA
1 GAAGCAGAGAAGAAACAAGA
16987242 AGATCAAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.34, T:0.02
Consensus pattern (21 bp):
GAAGCAGAGAAGAAACAAGAT
Found at i:16993816 original size:30 final size:30
Alignment explanation
Indices: 16993780--16993839 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
16993770 TTGCCAACCA
*
16993780 TGTGTTTCTATCCTCATAAATCCGTTGATC
1 TGTGTTTCTAGCCTCATAAATCCGTTGATC
16993810 TGTGTTTCTAGCCTCATAAATCCGTTGATC
1 TGTGTTTCTAGCCTCATAAATCCGTTGATC
16993840 CTTTGTAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (30 bp):
TGTGTTTCTAGCCTCATAAATCCGTTGATC
Found at i:16994133 original size:15 final size:15
Alignment explanation
Indices: 16994113--16994142 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16994103 TCTAACCCCT
16994113 TAAATACCACAATAA
1 TAAATACCACAATAA
16994128 TAAATACCACAATAA
1 TAAATACCACAATAA
16994143 GCTCGATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAATACCACAATAA
Found at i:16998804 original size:1 final size:1
Alignment explanation
Indices: 16998798--16998823 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
16998788 AGGCCAATGT
16998798 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
16998824 GAGTCCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16999132 original size:19 final size:17
Alignment explanation
Indices: 16999098--16999132 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
16999088 CTAAAATAGT
16999098 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
16999115 AACAAGAATTATACAATA
1 AACAA-AATTA-ACAATA
16999133 TTCAAATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:17002235 original size:13 final size:13
Alignment explanation
Indices: 17002216--17002279 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
17002206 TAAATCAAAT
17002216 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
17002229 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
17002242 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
17002255 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
17002268 TTTTCAAAAGCA
1 TTTTCAAAAGCA
17002280 TTGTCAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:17002279 original size:26 final size:26
Alignment explanation
Indices: 17002216--17002287 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
17002206 TAAATCAAAT
*
17002216 TTTTCAAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
* * * *
17002242 TTTTCCACAGCACTTTTTAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
*
17002268 TTTTCAAAAGCA-TTGTCAAA
1 TTTTCAAAAGCACTTCTCAAA
17002288 CTAGCCCTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 6 0.16
26 31 0.84
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGCAC
Found at i:17002286 original size:12 final size:13
Alignment explanation
Indices: 17002219--17002287 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
17002209 ATCAAATTTT
*
17002219 TCAAAAGCACTTC
1 TCAAAAGCACTTG
* *
17002232 TCAAAAGTACTTT
1 TCAAAAGCACTTG
* * *
17002245 TCCACAGCACTTT
1 TCAAAAGCACTTG
* *
17002258 TTAAAAGCACTTT
1 TCAAAAGCACTTG
17002271 TCAAAAGCA-TTG
1 TCAAAAGCACTTG
17002283 TCAAA
1 TCAAA
17002288 CTAGCCCTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
12 7 0.15
13 39 0.85
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (13 bp):
TCAAAAGCACTTG
Found at i:17016047 original size:27 final size:27
Alignment explanation
Indices: 17016009--17016062 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17015999 ACAACTGAAG
17016009 GAGATTTTCATCTTCCTATGTGTTTTT
1 GAGATTTTCATCTTCCTATGTGTTTTT
17016036 GAGATTTTCATCTTCCTATGTGTTTTT
1 GAGATTTTCATCTTCCTATGTGTTTTT
17016063 TTCTGATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (27 bp):
GAGATTTTCATCTTCCTATGTGTTTTT
Found at i:17020898 original size:10 final size:10
Alignment explanation
Indices: 17020885--17020989 Score: 53
Period size: 10 Copynumber: 11.1 Consensus size: 10
17020875 CTTTATAAAA
17020885 TTTTATAATT
1 TTTTATAATT
17020895 TTTTAT-A-T
1 TTTTATAATT
*
17020903 TTCTAT-ATAT
1 TTTTATAAT-T
*
17020913 TTTTATAATA
1 TTTTATAATT
**
17020923 TTTTACGA-T
1 TTTTATAATT
*
17020932 TTTTATAA-A
1 TTTTATAATT
* *
17020941 ATTTA-CATT
1 TTTTATAATT
*
17020950 TTTT-TACTT
1 TTTTATAATT
*
17020959 TTTTATATTT
1 TTTTATAATT
*
17020969 TTTTCTAATT
1 TTTTATAATT
*
17020979 TTTAATAATT
1 TTTTATAATT
17020989 T
1 T
17020990 ATTTTTATTA
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
8 8 0.12
9 20 0.29
10 39 0.57
11 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:17020953 original size:18 final size:19
Alignment explanation
Indices: 17020911--17020952 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
17020901 ATTTCTATAT
*
17020911 ATTTTTATAATATTTTACG
1 ATTTTTATAATAATTTACG
17020930 ATTTTTATAA-AATTTAC-
1 ATTTTTATAATAATTTACG
17020947 ATTTTT
1 ATTTTT
17020953 TTACTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTATAATAATTTACG
Found at i:17020971 original size:20 final size:21
Alignment explanation
Indices: 17020948--17020996 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
17020938 AAAATTTACA
* *
17020948 TTTTTTTACTTTTTTAT-ATT
1 TTTTTTTAATTTTTAATAATT
*
17020968 TTTTTCTAATTTTTAATAATT
1 TTTTTTTAATTTTTAATAATT
*
17020989 TATTTTTA
1 TTTTTTTA
17020997 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTTAATTTTTAATAATT
Found at i:17021229 original size:91 final size:89
Alignment explanation
Indices: 17021079--17021274 Score: 245
Period size: 91 Copynumber: 2.2 Consensus size: 89
17021069 AAGAAAGGGT
* * * *
17021079 TTAATTGCTTTTTTTGAAAAATTTTGAGGGTTTTTTTGATGTATTTTGAAAGTTCAAGTA-TCCA
1 TTAATTGCTTTTTTTGAAAAAGTTTGAGGCTTTTTTTGATGCATTTTGAAAATTCAAGTACT-CA
17021143 AATGAGTGTAAAAAAAAAGAGCAGGGGC
65 AATGAGTG-AAAAAAAAA-A-CAGGGGC
* *
17021171 TTAATTGCTTTTTTT-AAAAGGTTTGAAGGCTTTTTTT-ATGCATTTTGAAAATTTAAGTACTCA
1 TTAATTGCTTTTTTTGAAAAAGTTTG-AGGCTTTTTTTGATGCATTTTGAAAATTCAAGTACTCA
*
17021234 AATGAGTGCAAAAAAAAACAGGGGC
65 AATGAGTGAAAAAAAAAACAGGGGC
*
17021259 TTAATTTGTTTTTTTT
1 TTAA-TTGCTTTTTTT
17021275 TTTTTTAAGT
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
88 11 0.12
89 11 0.12
90 8 0.09
91 37 0.40
92 26 0.28
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (89 bp):
TTAATTGCTTTTTTTGAAAAAGTTTGAGGCTTTTTTTGATGCATTTTGAAAATTCAAGTACTCAA
ATGAGTGAAAAAAAAAACAGGGGC
Found at i:17026241 original size:27 final size:30
Alignment explanation
Indices: 17026211--17026273 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
17026201 ATAATGAAAT
*
17026211 TTAATTAAAAAAT-TAAATTAA-A-TTAAA
1 TTAATTAAAAAATAAAAATTAAGAGTTAAA
17026238 TTAA-TAAAAAATAAAAATTAAGAGTTAAA
1 TTAATTAAAAAATAAAAATTAAGAGTTAAA
*
17026267 TTTATTA
1 TTAATTA
17026274 TTATACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 8 0.27
27 11 0.37
28 1 0.03
29 8 0.27
30 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
TTAATTAAAAAATAAAAATTAAGAGTTAAA
Found at i:17029534 original size:18 final size:18
Alignment explanation
Indices: 17029511--17029548 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17029501 TATGGTTGAC
17029511 TTATTTAACTCAGTAAGT
1 TTATTTAACTCAGTAAGT
*
17029529 TTATTTAACTCATTAAGT
1 TTATTTAACTCAGTAAGT
17029547 TT
1 TT
17029549 GCTTAATTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (18 bp):
TTATTTAACTCAGTAAGT
Found at i:17029554 original size:18 final size:18
Alignment explanation
Indices: 17029515--17029554 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17029505 GTTGACTTAT
*
17029515 TTAACTCAGTAAGTTTAT
1 TTAACTCAGTAAGTTTAC
* *
17029533 TTAACTCATTAAGTTTGC
1 TTAACTCAGTAAGTTTAC
17029551 TTAA
1 TTAA
17029555 TTCCTCACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (18 bp):
TTAACTCAGTAAGTTTAC
Done.