Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 109 of 126
Found at i:32671512 original size:15 final size:15
Alignment explanation
Indices: 32671492--32671520 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32671482 GATATGGGTG
32671492 ATAAAAAATATATTT
1 ATAAAAAATATATTT
32671507 ATAAAAAATATATT
1 ATAAAAAATATATT
32671521 AAAATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAAAATATATTT
Found at i:32671623 original size:16 final size:15
Alignment explanation
Indices: 32671602--32671631 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32671592 AAAAATTAAT
32671602 CAAATTAATCTATTTA
1 CAAATTAATC-ATTTA
32671618 CAAATTAATCATTT
1 CAAATTAATCATTT
32671632 CTATTACAAA
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:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
CAAATTAATCATTTA
Found at i:32679740 original size:28 final size:28
Alignment explanation
Indices: 32679708--32679804 Score: 79
Period size: 28 Copynumber: 3.3 Consensus size: 28
32679698 AATTTAAACT
32679708 TATTTTTTGAACTTAATATTTTGAACAA
1 TATTTTTTGAACTTAATATTTTGAACAA
*** * * *
32679736 TATTTTTTGTTCAAACCTGCTTAATTTAAAC-T
1 TATTTTTTG----AA-CTTAATATTTTGAACAA
*
32679768 TATTTTTTGAATTTAATATTTTGAACAA
1 TATTTTTTGAACTTAATATTTTGAACAA
32679796 TATTTTTTG
1 TATTTTTTG
32679805 TTCAAGCTTC
Statistics
Matches: 50, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
27 9 0.18
28 20 0.40
32 11 0.22
33 10 0.20
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.54
Consensus pattern (28 bp):
TATTTTTTGAACTTAATATTTTGAACAA
Found at i:32679757 original size:60 final size:60
Alignment explanation
Indices: 32679685--32679809 Score: 241
Period size: 60 Copynumber: 2.1 Consensus size: 60
32679675 ATATCTATAC
32679685 TTCAAACCTGCTTAATTTAAACTTATTTTTTGAACTTAATATTTTGAACAATATTTTTTG
1 TTCAAACCTGCTTAATTTAAACTTATTTTTTGAACTTAATATTTTGAACAATATTTTTTG
*
32679745 TTCAAACCTGCTTAATTTAAACTTATTTTTTGAATTTAATATTTTGAACAATATTTTTTG
1 TTCAAACCTGCTTAATTTAAACTTATTTTTTGAACTTAATATTTTGAACAATATTTTTTG
32679805 TTCAA
1 TTCAA
32679810 GCTTCGAGCT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.50
Consensus pattern (60 bp):
TTCAAACCTGCTTAATTTAAACTTATTTTTTGAACTTAATATTTTGAACAATATTTTTTG
Found at i:32685147 original size:11 final size:11
Alignment explanation
Indices: 32685131--32685161 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
32685121 TTTGAGAAGT
32685131 AACTTGAATCA
1 AACTTGAATCA
32685142 AACTTGAATCA
1 AACTTGAATCA
32685153 AACTTGAAT
1 AACTTGAAT
32685162 GCCTTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (11 bp):
AACTTGAATCA
Found at i:32699000 original size:24 final size:24
Alignment explanation
Indices: 32698961--32699006 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
32698951 TGACTCAAAT
* * *
32698961 AAATAAATAGAGTTTAATTGAAGC
1 AAATAAATAAAATTTAACTGAAGC
32698985 AAATAAATAAAATTTAACTGAA
1 AAATAAATAAAATTTAACTGAA
32699007 AGATTATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (24 bp):
AAATAAATAAAATTTAACTGAAGC
Found at i:32706166 original size:23 final size:23
Alignment explanation
Indices: 32706140--32706183 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32706130 TGATTTTAAA
*
32706140 ATTAAAAATTTATTAT-TTCAAGG
1 ATTAAAAA-ATATTATATTCAAGG
32706163 ATTAAAAAATATTATATTCAA
1 ATTAAAAAATATTATATTCAA
32706184 ATAAAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (23 bp):
ATTAAAAAATATTATATTCAAGG
Found at i:32711506 original size:6 final size:6
Alignment explanation
Indices: 32711495--32711528 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
32711485 GATGAAAACC
32711495 TAAAAA TAAAAA TAAAAGA TAAAAA T-AAAA TAAA
1 TAAAAA TAAAAA TAAAA-A TAAAAA TAAAAA TAAA
32711529 TATATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:32715859 original size:32 final size:28
Alignment explanation
Indices: 32715821--32715890 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 28
32715811 AAAAATGCAT
32715821 AAAAATAACA-TCAAAACAACCAAAATAGTAGC
1 AAAAATAACAGT-AAAACAA-C-AAA-A-TAGC
*
32715853 AAAAATAACAGTAAAACCACAAAATAGC
1 AAAAATAACAGTAAAACAACAAAATAGC
32715881 AAAAATAACA
1 AAAAATAACA
32715891 ACAACAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 14 0.39
29 1 0.03
30 3 0.08
31 1 0.03
32 16 0.44
33 1 0.03
ACGTcount: A:0.66, C:0.17, G:0.06, T:0.11
Consensus pattern (28 bp):
AAAAATAACAGTAAAACAACAAAATAGC
Found at i:32715900 original size:15 final size:15
Alignment explanation
Indices: 32715880--32715926 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
32715870 CACAAAATAG
32715880 CAAAAATAACAACAA
1 CAAAAATAACAACAA
*
32715895 CAAAAAT---AGCAA
1 CAAAAATAACAACAA
*
32715907 CAAAAATAACAACAT
1 CAAAAATAACAACAA
32715922 CAAAA
1 CAAAA
32715927 CAGTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
12 11 0.42
15 15 0.58
ACGTcount: A:0.70, C:0.19, G:0.02, T:0.09
Consensus pattern (15 bp):
CAAAAATAACAACAA
Found at i:32715909 original size:12 final size:12
Alignment explanation
Indices: 32715890--32715920 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32715880 CAAAAATAAC
32715890 AACAACAAAAAT
1 AACAACAAAAAT
*
32715902 AGCAACAAAAAT
1 AACAACAAAAAT
32715914 AACAACA
1 AACAACA
32715921 TCAAAACAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.19, G:0.03, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:32715938 original size:27 final size:26
Alignment explanation
Indices: 32715881--32715958 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
32715871 ACAAAATAGC
*
32715881 AAAAATAACAACAACAAAAATAGCAAC
1 AAAAATAACAACAACAAAAATA-CAAA
*
32715908 AAAAATAACAACATCAAAACAGTA-AAA
1 AAAAATAACAACAACAAAA-A-TACAAA
* * *
32715935 AAAAACACCAA-AACAATAATACAA
1 AAAAATAACAACAACAAAAATACAA
32715959 TTTTTTATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
26 5 0.12
27 29 0.69
28 1 0.02
29 2 0.05
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.09
Consensus pattern (26 bp):
AAAAATAACAACAACAAAAATACAAA
Found at i:32715946 original size:21 final size:23
Alignment explanation
Indices: 32715908--32715949 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
32715898 AAATAGCAAC
*
32715908 AAAAATAACAACATCAAAACAGT
1 AAAAATAACAACACCAAAACAGT
32715931 AAAAA-AA-AACACCAAAACA
1 AAAAATAACAACACCAAAACA
32715950 ATAATACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.71, C:0.19, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAAATAACAACACCAAAACAGT
Found at i:32736045 original size:14 final size:14
Alignment explanation
Indices: 32736004--32736049 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
32735994 TTTTTTTATT
*
32736004 AAATCGATTAAAAA
1 AAATTGATTAAAAA
32736018 AAATAT-ATTGAAAAA
1 AAAT-TGATT-AAAAA
32736033 AAATTGATTAAAAA
1 AAATTGATTAAAAA
32736047 AAA
1 AAA
32736050 GTTAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (14 bp):
AAATTGATTAAAAA
Found at i:32736730 original size:18 final size:18
Alignment explanation
Indices: 32736707--32736743 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32736697 GAGGAACAGC
32736707 AAGCGGA-GATGGCGAAGA
1 AAGCGGAGGA-GGCGAAGA
32736725 AAGCGGAGGAGGCGAAGA
1 AAGCGGAGGAGGCGAAGA
32736743 A
1 A
32736744 GAGACAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.41, C:0.11, G:0.46, T:0.03
Consensus pattern (18 bp):
AAGCGGAGGAGGCGAAGA
Found at i:32745203 original size:13 final size:13
Alignment explanation
Indices: 32745185--32745209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32745175 ACCTTAAATC
32745185 CAAACTTTGAACT
1 CAAACTTTGAACT
32745198 CAAACTTTGAAC
1 CAAACTTTGAAC
32745210 CTCGAACCCA
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:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (13 bp):
CAAACTTTGAACT
Found at i:32748699 original size:13 final size:13
Alignment explanation
Indices: 32748668--32748700 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
32748658 TAAATCAACA
32748668 AAAAAAT-CCTTG
1 AAAAAATCCCTTG
32748680 AAAAAATCCCTTG
1 AAAAAATCCCTTG
*
32748693 AGAAAATC
1 AAAAAATC
32748701 TTATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (13 bp):
AAAAAATCCCTTG
Found at i:32750172 original size:29 final size:30
Alignment explanation
Indices: 32750130--32750378 Score: 183
Period size: 29 Copynumber: 8.6 Consensus size: 30
32750120 AGCTGGGGGC
32750130 AAAATGGTAA-TTTTGGTGAAATCGGGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT
**
32750159 AAAATGG-AATTTTTGAGT--CTTCGAGGG-T
1 AAAATGGTAATTTTTG-GTGAAATCG-GGGTT
* *
32750187 AAAATGGTAATTTTTGATGAAATCGAGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT
* *
32750217 AAAAATGG-AA-TTTT-G-GAAGTTCGGGGGT
1 -AAAATGGTAATTTTTGGTGAA-ATCGGGGTT
*
32750245 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT
* *
32750275 AAAAACGG-AA-TTTT-G-GAAAGTTCGAGG-T
1 -AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
32750303 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT
*
32750333 AAAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
1 -AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
*
32750362 AAAATGGTAAGTTTTGG
1 AAAATGGTAATTTTTGG
32750379 AAGTTTTGGG
Statistics
Matches: 176, Mismatches: 17, Indels: 52
0.72 0.07 0.21
Matches are distributed among these distances:
27 24 0.14
28 34 0.19
29 65 0.37
30 25 0.14
31 28 0.16
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTT
Found at i:32750382 original size:29 final size:28
Alignment explanation
Indices: 32750124--32750441 Score: 172
Period size: 29 Copynumber: 11.0 Consensus size: 28
32750114 CTAGATAGCT
* *
32750124 GGGGGCAAAATGGTAATTTTGGTGAA-ATC
1 GGGGGTAAAATGGTAATTTT-G-GAAGTTC
* *
32750153 GGGGTTAAAATGG-AATTTTTG-AGTCTTC
1 GGGGGTAAAATGGTAATTTTGGAAG--TTC
* *
32750181 GAGGGTAAAATGGTAATTTTTGATGAA-ATC
1 GGGGGTAAAATGGTAA-TTTTG--GAAGTTC
* *
32750211 GAGGTTAAAAATGG-AATTTTGGAAGTTC
1 GGGGGT-AAAATGGTAATTTTGGAAGTTC
*
32750239 GGGGGTAAAATGGTAATTTTTGGTGAA-ATC
1 GGGGGTAAAATGGTAA-TTTT-G-GAAGTTC
* * *
32750269 GAGGTTAAAAACGG-AATTTTGGAAAGTTC
1 GGGGGT-AAAATGGTAATTTTGG-AAGTTC
* *
32750298 -GAGGTAAAATGGTAATTTTTGGTGAA-ATC
1 GGGGGTAAAATGGTAA-TTTT-G-GAAGTTC
*
32750327 GGGGTTAAAAATGG-AATTTTGGAAAGTTC
1 GGGGGT-AAAATGGTAATTTTGG-AAGTTC
*
32750356 GGGGGTAAAATGGTAAGTTTTGGAAGTTTT
1 GGGGGTAAAATGGTAA-TTTTGGAAG-TTC
* ** *
32750386 GGGGTTAAAAATGG-AATTTTAAAAGGTTT
1 GGGGGT-AAAATGGTAATTTTGGAA-GTTC
*
32750415 GGAGGTAAAATGGTAATTTTGGAAGTT
1 GGGGGTAAAATGGTAATTTTGGAAGTT
32750442 TCAGGGACCT
Statistics
Matches: 224, Mismatches: 34, Indels: 63
0.70 0.11 0.20
Matches are distributed among these distances:
25 1 0.00
26 1 0.00
27 18 0.08
28 54 0.24
29 71 0.32
30 46 0.21
31 31 0.14
32 1 0.00
33 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (28 bp):
GGGGGTAAAATGGTAATTTTGGAAGTTC
Found at i:32750392 original size:59 final size:58
Alignment explanation
Indices: 32750124--32750434 Score: 380
Period size: 58 Copynumber: 5.3 Consensus size: 58
32750114 CTAGATAGCT
* * * ***
32750124 GGGGGCAAAATGGTAATTTTGGTGAAATCGGGGTT-AAAATGGAATTTTTGAGTCTTC
1 GGGGGTAAAATGGTAATTTTTGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
32750181 GAGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTTC
1 GGGGGTAAAATGGTAATTTTTG-TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* *
32750239 GGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAACGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTT-GTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
32750298 -GAGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTT-GTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * * * *
32750356 GGGGGTAAAATGGTAAGTTTTG-GAAGTTTTGGGGTTAAAAATGGAATTTT-AAAAGGTTT
1 GGGGGTAAAATGGTAATTTTTGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAA-GTTC
*
32750415 GGAGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
32750435 GGAAGTTTCA
Statistics
Matches: 225, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
57 22 0.10
58 122 0.54
59 81 0.36
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (58 bp):
GGGGGTAAAATGGTAATTTTTGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:32750768 original size:162 final size:162
Alignment explanation
Indices: 32750525--32750840 Score: 474
Period size: 162 Copynumber: 2.0 Consensus size: 162
32750515 GATTAAATTG
* * * * *
32750525 TAAACCTTGAAAAATTCTTGGGCCAATTTTATAATTAAATAAGAGTTGATTTGGGGATTAAATTG
1 TAAACCTTGAAAAATTCTCGGGCCAATTTTATAATTAAATAAAAGTTGAATTAGGGATTAAATTA
* *
32750590 AAACAAATGCAAAATGTCAAGGACTAAATG-AACAAATAAGCCAAAAAGTGACACGTGGCAGCCC
66 AAACAAATGAAAAATGTCAAGGACTAAATGCAA-AAATAAGCCAAAAAATGACACGTGGCAGCCC
32750654 CTGGTGCAGTCAAACAGTCAAAGGACTGATTTA
130 CTGGTGCAGTCAAACAGTCAAAGGACTGATTTA
* *
32750687 TAAAGCTTGAAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTT-AATTAGGGATTAAATT
1 TAAACCTTG-AAAAATTCTCGGGCCAATTTTATAATTAAATAAAAGTTGAATTAGGGATTAAATT
* * * * *
32750751 AAAATAAATTAAAAATGTCAGGGACTACATGCAAAAATAAGCCAAAAAATGACACGTGGCAGCCT
65 AAAACAAATGAAAAATGTCAAGGACTAAATGCAAAAATAAGCCAAAAAATGACACGTGGCAGCCC
32750816 CTGGTGCAGTCAAACAGTCAAAGGA
130 CTGGTGCAGTCAAACAGTCAAAGGA
32750841 TTAAATTGAA
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
162 101 0.73
163 37 0.27
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (162 bp):
TAAACCTTGAAAAATTCTCGGGCCAATTTTATAATTAAATAAAAGTTGAATTAGGGATTAAATTA
AAACAAATGAAAAATGTCAAGGACTAAATGCAAAAATAAGCCAAAAAATGACACGTGGCAGCCCC
TGGTGCAGTCAAACAGTCAAAGGACTGATTTA
Found at i:32752422 original size:6 final size:6
Alignment explanation
Indices: 32752394--32752449 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
32752384 AATGTTTAGT
* * *
32752394 ATTTTA ATTTTA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA
32752443 ATTTAA A
1 ATTTAA A
32752450 ATCAATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.09
6 34 0.77
8 6 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:32752422 original size:17 final size:17
Alignment explanation
Indices: 32752396--32752459 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
32752386 TGTTTAGTAT
*
32752396 TTTAATTTTAATTTAAA
1 TTTAAATTTAATTTAAA
**
32752413 TTTAAATTTAAAGTAAA
1 TTTAAATTTAATTTAAA
32752430 TTTAAA--TAA-TTAAA
1 TTTAAATTTAATTTAAA
* *
32752444 TTTAAAATCAATTTAA
1 TTTAAATTTAATTTAA
32752460 CTCCAAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 10 0.26
15 3 0.08
16 2 0.05
17 24 0.62
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:32752447 original size:25 final size:23
Alignment explanation
Indices: 32752405--32752459 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
32752395 TTTTAATTTT
*
32752405 AATTTAAATTTAAATTTAAAGTA
1 AATTTAAATTTAAATTTAAAATA
*
32752428 AATTTAAATAATTAAATTTAAAATC
1 AATTTAAAT--TTAAATTTAAAATA
32752453 AATTTAA
1 AATTTAA
32752460 CTCCAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 9 0.32
25 19 0.68
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTTAAATTTAAATTTAAAATA
Found at i:32757920 original size:15 final size:15
Alignment explanation
Indices: 32757900--32757929 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32757890 TTGGTCGTGG
32757900 CGATGATGATGATGA
1 CGATGATGATGATGA
32757915 CGATGATGATGATGA
1 CGATGATGATGATGA
32757930 AATGGACGGT
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:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (15 bp):
CGATGATGATGATGA
Found at i:32760032 original size:17 final size:17
Alignment explanation
Indices: 32760010--32760050 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
32760000 CAATGTAAGT
*
32760010 ATAAAAATATTTTATAA
1 ATAAAAATATTTTAAAA
* *
32760027 ATAAAAGTTTTTTAAAA
1 ATAAAAATATTTTAAAA
32760044 ATAAAAA
1 ATAAAAA
32760051 AAAATAATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAAAAATATTTTAAAA
Found at i:32763434 original size:17 final size:20
Alignment explanation
Indices: 32763399--32763436 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32763389 TAAAAAAATC
32763399 TTATTATGTATAAATTATAA
1 TTATTATGTATAAATTATAA
32763419 TTATT-TGT-TAAATATATA
1 TTATTATGTATAAAT-TATA
32763437 GTTTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TTATTATGTATAAATTATAA
Found at i:32767332 original size:19 final size:17
Alignment explanation
Indices: 32767291--32767333 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
32767281 AATTTTATTT
*
32767291 TTAAAAAAATATAAAAT
1 TTAAAAAAATATAAAAG
32767308 TCTAAAAAATATATAAAAAG
1 T-TAAAAAA-ATAT-AAAAG
32767328 TTAAAA
1 TTAAAA
32767334 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 7 0.32
19 9 0.41
20 5 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
TTAAAAAAATATAAAAG
Found at i:32770092 original size:31 final size:30
Alignment explanation
Indices: 32770036--32770093 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
32770026 AACAGTCTAG
*
32770036 TGACTTAAATAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAACTTTAGAATAGTTCAA
32770066 TGACTTAAATAAAAACTTTCAG-ATAGTT
1 TGACTTAAAT-AAAACTTT-AGAATAGTT
32770094 TAGTAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 10 0.40
31 14 0.56
32 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (30 bp):
TGACTTAAATAAAACTTTAGAATAGTTCAA
Found at i:32781207 original size:3 final size:3
Alignment explanation
Indices: 32781195--32781253 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
32781185 GGCTACCTAT
32781195 TAA T-A TAA TAA 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 TAA TAA TAA TAA
32781242 TAA TAA TAA TAA
1 TAA TAA TAA TAA
32781254 AACAGTTTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:32786661 original size:11 final size:11
Alignment explanation
Indices: 32786640--32786690 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
32786630 TGATCGTGGG
32786640 TCGGG-TCGGA
1 TCGGGTTCGGA
*
32786650 TCGGGATCGGA
1 TCGGGTTCGGA
32786661 TCGGGTTCGGA
1 TCGGGTTCGGA
32786672 TCGGGTTCGGA
1 TCGGGTTCGGA
32786683 TTCGGGTT
1 -TCGGGTT
32786691 GGGCTTTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
10 5 0.13
11 26 0.68
12 7 0.18
ACGTcount: A:0.10, C:0.18, G:0.45, T:0.27
Consensus pattern (11 bp):
TCGGGTTCGGA
Found at i:32787146 original size:12 final size:12
Alignment explanation
Indices: 32787131--32787199 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
32787121 CAACATTAAA
32787131 AACAACAAAAAT
1 AACAACAAAAAT
*
32787143 AACAAC-AAAAC
1 AACAACAAAAAT
*
32787154 AGCAACAAAAAT
1 AACAACAAAAAT
* ** *
32787166 AATAGTAAAAAC
1 AACAACAAAAAT
*
32787178 AAC-ACGAAAAT
1 AACAACAAAAAT
32787189 AACAACCAAAA
1 AACAA-CAAAA
32787200 CAATAAAAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
11 16 0.40
12 20 0.50
13 4 0.10
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:32787154 original size:20 final size:20
Alignment explanation
Indices: 32787129--32787221 Score: 64
Period size: 23 Copynumber: 4.3 Consensus size: 20
32787119 AACAACATTA
32787129 AAAACAACAAAAATAACAAC
1 AAAACAACAAAAATAACAAC
*
32787149 AAAACAGCAACAAAAATAATAGTA-
1 -AAA-A-CAACAAAAATAACA--AC
32787173 AAAACAACACGAAAATAACAACC
1 AAAACAACA--AAAATAACAA-C
* *
32787196 AAAACAATAAAAA-AAGCACC
1 AAAACAACAAAAATAA-CAAC
32787216 AAAACA
1 AAAACA
32787222 GTAAAAAACA
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
20 9 0.15
21 15 0.25
22 2 0.03
23 32 0.54
25 1 0.02
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.06
Consensus pattern (20 bp):
AAAACAACAAAAATAACAAC
Found at i:32787163 original size:23 final size:23
Alignment explanation
Indices: 32787131--32787210 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
32787121 CAACATTAAA
32787131 AACAACAAAAATAACAACAAAAC
1 AACAACAAAAATAACAACAAAAC
* *
32787154 AGCAACAAAAATAATAGTA-AAAAC
1 AACAACAAAAATAACA--ACAAAAC
*
32787178 AAC-ACGAAAATAACAACCAAAAC
1 AACAACAAAAATAACAA-CAAAAC
*
32787201 AATAA-AAAAA
1 AACAACAAAAA
32787211 GCACCAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.02
23 35 0.78
24 8 0.18
25 1 0.02
ACGTcount: A:0.71, C:0.17, G:0.04, T:0.07
Consensus pattern (23 bp):
AACAACAAAAATAACAACAAAAC
Found at i:32787174 original size:54 final size:53
Alignment explanation
Indices: 32787076--32787178 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
32787066 AATAACATCC
** *
32787076 AAACAACAAAAATAACAACCAAAACAGCAGTAAAAATATTGTAAACAACATTAA
1 AAACAACAAAAATAACAACCAAAACAGCAACAAAAATATAGTAAA-AACATTAA
32787130 AAACAACAAAAATAACAA-CAAAACAGCAACAAAAATAATAGTAAAAACA
1 AAACAACAAAAATAACAACCAAAACAGCAACAAAAAT-ATAGTAAAAACA
32787179 ACACGAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 20 0.44
54 25 0.56
ACGTcount: A:0.67, C:0.17, G:0.05, T:0.12
Consensus pattern (53 bp):
AAACAACAAAAATAACAACCAAAACAGCAACAAAAATATAGTAAAAACATTAA
Found at i:32787226 original size:20 final size:20
Alignment explanation
Indices: 32787193--32787271 Score: 90
Period size: 22 Copynumber: 4.0 Consensus size: 20
32787183 GAAAATAACA
*
32787193 ACCAAAACAATAAAAAAAGC
1 ACCAAAACAGTAAAAAAAGC
32787213 ACCAAAACAGT-AAAAAA-C
1 ACCAAAACAGTAAAAAAAGC
* * *
32787231 ACAAAAATAGTAAAAAATAAC
1 ACCAAAACAGTAAAAAA-AGC
32787252 AACCAAAACAGTAAAAAAAG
1 -ACCAAAACAGTAAAAAAAG
32787272 AGCACTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 10 0.20
19 11 0.22
20 11 0.22
21 2 0.04
22 15 0.31
ACGTcount: A:0.70, C:0.16, G:0.06, T:0.08
Consensus pattern (20 bp):
ACCAAAACAGTAAAAAAAGC
Found at i:32787229 original size:22 final size:21
Alignment explanation
Indices: 32787184--32787270 Score: 74
Period size: 18 Copynumber: 4.2 Consensus size: 21
32787174 AAACAACACG
* *
32787184 AAAATAACAACCAAAACAAT-A
1 AAAAAAAC-ACCAAAACAGTAA
*
32787205 AAAAAAGCACCAAAACAGT--
1 AAAAAAACACCAAAACAGTAA
* *
32787224 -AAAAAACACAAAAATAGTAA
1 AAAAAAACACCAAAACAGTAA
*
32787244 AAAATAACAACCAAAACAGTAA
1 AAAAAAAC-ACCAAAACAGTAA
32787266 AAAAA
1 AAAAA
32787271 GAGCACTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
18 15 0.29
20 10 0.19
21 12 0.23
22 15 0.29
ACGTcount: A:0.71, C:0.16, G:0.05, T:0.08
Consensus pattern (21 bp):
AAAAAAACACCAAAACAGTAA
Found at i:32787283 original size:22 final size:19
Alignment explanation
Indices: 32787193--32787270 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 19
32787183 GAAAATAACA
*
32787193 ACCAAAACAATAAAAAAAGC
1 ACCAAAACAGTAAAAAAA-C
32787213 ACCAAAACAGT-AAAAAAC
1 ACCAAAACAGTAAAAAAAC
* *
32787231 ACAAAAATAGTAAAAAATAAC
1 ACCAAAACAGT-AAAAA-AAC
32787252 AACCAAAACAGTAAAAAAA
1 -ACCAAAACAGTAAAAAAA
32787271 GAGCACTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.20
19 6 0.12
20 16 0.33
21 8 0.16
22 9 0.18
ACGTcount: A:0.71, C:0.17, G:0.05, T:0.08
Consensus pattern (19 bp):
ACCAAAACAGTAAAAAAAC
Found at i:32791522 original size:38 final size:38
Alignment explanation
Indices: 32791471--32791546 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
32791461 AGCGATAATG
32791471 CCGCTAGATTCCTTTCCATTACCCCTTTAATTTGATAT
1 CCGCTAGATTCCTTTCCATTACCCCTTTAATTTGATAT
32791509 CCGCTAGATTCCTTTCCATTACCCCTTTAATTTGATAT
1 CCGCTAGATTCCTTTCCATTACCCCTTTAATTTGATAT
32791547 ACTAAGAGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (38 bp):
CCGCTAGATTCCTTTCCATTACCCCTTTAATTTGATAT
Found at i:32799514 original size:118 final size:118
Alignment explanation
Indices: 32799306--32799542 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
32799296 TTGTTTTTGC
*
32799306 TTTTCTTTCAATTTCAACCCCGTACTAAAATTTAGACTCATAATCAGATACACGAATCCGCCACC
1 TTTTCTTTCAATGTCAACCCCGTACTAAAATTTAGACTCATAATCAGATACACGAATCCGCCACC
32799371 CCGAGTTGTTCAGCAACGATGGCTATCAGAGTAGTCCACGATCCTCAAGGAAT
66 CCGAGTTGTTCAGCAACGATGGCTATCAGAGTAGTCCACGATCCTCAAGGAAT
*
32799424 TTTTCTTTCAATGTCAACCCCGTACTAAAATTTAGACTCATAATCAGATACATGAATCCGCCACC
1 TTTTCTTTCAATGTCAACCCCGTACTAAAATTTAGACTCATAATCAGATACACGAATCCGCCACC
*
32799489 CCGAGTTGTTCGGCAACGATGGCTATCAGAGTAGTCCACGATCCTCAAGGAAT
66 CCGAGTTGTTCAGCAACGATGGCTATCAGAGTAGTCCACGATCCTCAAGGAAT
32799542 T
1 T
32799543 GGGACTGCCC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (118 bp):
TTTTCTTTCAATGTCAACCCCGTACTAAAATTTAGACTCATAATCAGATACACGAATCCGCCACC
CCGAGTTGTTCAGCAACGATGGCTATCAGAGTAGTCCACGATCCTCAAGGAAT
Found at i:32801650 original size:36 final size:36
Alignment explanation
Indices: 32801609--32801682 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
32801599 ATATTAAAAT
32801609 AAGAAATAATAAGTATTTTTATACCAAGAAGCAAAC
1 AAGAAATAATAAGTATTTTTATACCAAGAAGCAAAC
*
32801645 AAGAAATAATAAGTATTTTTATACCAAGAAGCTAAC
1 AAGAAATAATAAGTATTTTTATACCAAGAAGCAAAC
32801681 AA
1 AA
32801683 TACCTAGGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (36 bp):
AAGAAATAATAAGTATTTTTATACCAAGAAGCAAAC
Found at i:32802492 original size:25 final size:25
Alignment explanation
Indices: 32802439--32802484 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
32802429 GTTGGATCCA
32802439 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
32802464 AATTAAA-TCTAAAAA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
32802485 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:32803528 original size:10 final size:10
Alignment explanation
Indices: 32803513--32803537 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32803503 TGTCTTCTTC
32803513 TTTTTCTCAA
1 TTTTTCTCAA
32803523 TTTTTCTCAA
1 TTTTTCTCAA
32803533 TTTTT
1 TTTTT
32803538 TTTCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTCTCAA
Found at i:32803537 original size:11 final size:11
Alignment explanation
Indices: 32803513--32803551 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
32803503 TGTCTTCTTC
32803513 TTTTTCTCAA-
1 TTTTTCTCAAT
32803523 TTTTTCTCAAT
1 TTTTTCTCAAT
* *
32803534 TTTTTTTCATT
1 TTTTTCTCAAT
32803545 TTTTTCT
1 TTTTTCT
32803552 TTTCGACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTCTCAAT
Found at i:32804518 original size:17 final size:17
Alignment explanation
Indices: 32804498--32804535 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32804488 AATGCATAAT
32804498 TAAAAT-AAAATTAAAAA
1 TAAAATGAAAA-TAAAAA
*
32804515 TAAAATGAAAATGAAAA
1 TAAAATGAAAATAAAAA
32804532 TAAA
1 TAAA
32804536 TATACTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
TAAAATGAAAATAAAAA
Found at i:32804573 original size:13 final size:13
Alignment explanation
Indices: 32804557--32804584 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32804547 TTTTTTGAAC
32804557 TTTTCAATTTTTT
1 TTTTCAATTTTTT
32804570 TTTTCAATTTTTT
1 TTTTCAATTTTTT
32804583 TT
1 TT
32804585 AAAAACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCAATTTTTT
Found at i:32808578 original size:25 final size:25
Alignment explanation
Indices: 32808525--32808570 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
32808515 GTTGGATCCA
32808525 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
32808550 AATTAAA-TCTAAAAA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
32808571 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:32808654 original size:13 final size:13
Alignment explanation
Indices: 32808633--32808666 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
32808623 TAAATAATAT
32808633 AATAATAATCCTA
1 AATAATAATCCTA
*
32808646 AATATTAATCCTA
1 AATAATAATCCTA
*
32808659 AAAAATAA
1 AATAATAA
32808667 ATTTTAAATT
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:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:32809988 original size:23 final size:20
Alignment explanation
Indices: 32809954--32809994 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
32809944 AGCTTTATTT
32809954 AATAAATGTTTTGATATAACA
1 AATAAATGTTTTGA-ATAACA
32809975 AATATAATGTTTTTGAATAA
1 AATA-AATG-TTTTGAATAA
32809995 AACTTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (20 bp):
AATAAATGTTTTGAATAACA
Found at i:32811811 original size:51 final size:51
Alignment explanation
Indices: 32811754--32811857 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
32811744 TAAGGGAAGA
32811754 TAGATATTGTAGAAAATATTTAAATATAAAATGAAATTATGGAAGGTGATT
1 TAGATATTGTAGAAAATATTTAAATATAAAATGAAATTATGGAAGGTGATT
32811805 TAGATATTGTAGAAAATATTTAAATATAAAATGAAATTATGGAAGGTGATT
1 TAGATATTGTAGAAAATATTTAAATATAAAATGAAATTATGGAAGGTGATT
32811856 TA
1 TA
32811858 AGCCCTCAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (51 bp):
TAGATATTGTAGAAAATATTTAAATATAAAATGAAATTATGGAAGGTGATT
Found at i:32815636 original size:3 final size:3
Alignment explanation
Indices: 32815628--32815652 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32815618 TGGGAGGTTG
32815628 AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC A
32815653 AGTGCCGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:32819225 original size:18 final size:18
Alignment explanation
Indices: 32819202--32819239 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32819192 TAATATAGTT
32819202 TTATTCG-GTTTATTCAAA
1 TTATTCGAG-TTATTCAAA
*
32819220 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCAAA
32819238 TT
1 TT
32819240 CGAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:32819342 original size:7 final size:7
Alignment explanation
Indices: 32819330--32819354 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32819320 CGATTCGAAT
32819330 AATTCGA
1 AATTCGA
32819337 AATTCGA
1 AATTCGA
32819344 AATTCGA
1 AATTCGA
32819351 AATT
1 AATT
32819355 TTTTTCGAAT
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:0.12, G:0.12, T:0.32
Consensus pattern (7 bp):
AATTCGA
Found at i:32850231 original size:16 final size:16
Alignment explanation
Indices: 32850210--32850244 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32850200 AAGCATTAGC
32850210 TTGGAA-CTGGAACAAG
1 TTGGAACCT-GAACAAG
32850226 TTGGAACCTGAACAAG
1 TTGGAACCTGAACAAG
32850242 TTG
1 TTG
32850245 TTGATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (16 bp):
TTGGAACCTGAACAAG
Found at i:32858395 original size:16 final size:16
Alignment explanation
Indices: 32858374--32858408 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32858364 AAGCATCAGC
32858374 TTGGAA-CTGGAACAAG
1 TTGGAACCT-GAACAAG
32858390 TTGGAACCTGAACAAG
1 TTGGAACCTGAACAAG
32858406 TTG
1 TTG
32858409 TTGATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (16 bp):
TTGGAACCTGAACAAG
Found at i:32887146 original size:23 final size:23
Alignment explanation
Indices: 32887112--32887158 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
32887102 AAATATCTCT
32887112 AAAATAATCAGAGTTAAACTAAA
1 AAAATAATCAGAGTTAAACTAAA
*
32887135 AAAATTAA-CAGAGTTTAACTAAA
1 AAAA-TAATCAGAGTTAAACTAAA
32887158 A
1 A
32887159 GAAGAAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAATAATCAGAGTTAAACTAAA
Found at i:32888355 original size:2 final size:2
Alignment explanation
Indices: 32888348--32888379 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32888338 TATTTGCACA
32888348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32888380 TATCTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32888527 original size:27 final size:27
Alignment explanation
Indices: 32888452--32888517 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
32888442 GCAAAGATGA
32888452 AATGAATGTATGCGGTAAAAAGAAAAT
1 AATGAATGTATGCGGTAAAAAGAAAAT
32888479 AATGAATGTATGCGGTAAAAAGAAAAT
1 AATGAATGTATGCGGTAAAAAGAAAAT
32888506 AATGAATGTATG
1 AATGAATGTATG
32888518 ATATAAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.24
Consensus pattern (27 bp):
AATGAATGTATGCGGTAAAAAGAAAAT
Found at i:32890285 original size:68 final size:67
Alignment explanation
Indices: 32890208--32890421 Score: 340
Period size: 68 Copynumber: 3.2 Consensus size: 67
32890198 ATGTAACACA
* * *
32890208 TTTTTATTCACTAAAAAAAAAAATTTGGTGCATATAGTAATTAAAAAGATTCTCCATATCTATAA
1 TTTTTATTCAC-AAAAAAAAAAGTTAGGTGCATATAGTAATTAAATAGATTCTCCATATCTATAA
32890273 TTT
65 TTT
* *
32890276 TTTTTATTCACCAAAAAAAAAAGTTAGATGCATATAGTAATTAAATAGATTCTCCATATTTATAA
1 TTTTTATTCA-CAAAAAAAAAAGTTAGGTGCATATAGTAATTAAATAGATTCTCCATATCTATAA
32890341 TTT
65 TTT
* *
32890344 TTTTTATTCACCAAAAAAAAAGTTAGGTACATATAGTAATTAAATAGATTCTCCATATCTATAA-
1 TTTTTATTCACAAAAAAAAAAGTTAGGTGCATATAGTAATTAAATAGATTCTCCATATCTATAAT
32890408 TT
66 TT
32890410 TTTTTATTCACA
1 TTTTTATTCACA
32890422 TCGTCGATAG
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
66 13 0.10
67 50 0.37
68 71 0.53
69 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (67 bp):
TTTTTATTCACAAAAAAAAAAGTTAGGTGCATATAGTAATTAAATAGATTCTCCATATCTATAAT
TT
Found at i:32892356 original size:20 final size:21
Alignment explanation
Indices: 32892305--32892361 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
32892295 TTTTATCCTG
32892305 AACCATAAACC-CTAAAATCAA
1 AACCATAAACCTC-AAAATCAA
* *
32892326 AACCTTAAACCTCAAAATCCA
1 AACCATAAACCTCAAAATCAA
32892347 AA-CATAAACCTCAAA
1 AACCATAAACCTCAAA
32892362 CCATTAACCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.38
21 19 0.59
22 1 0.03
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (21 bp):
AACCATAAACCTCAAAATCAA
Found at i:32892823 original size:18 final size:18
Alignment explanation
Indices: 32892788--32892823 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32892778 TTATTTTAAT
*
32892788 TATAAAATATATTTAAAA
1 TATAAAATATATTAAAAA
*
32892806 TATAAAATTTATTAAAAA
1 TATAAAATATATTAAAAA
32892824 AATCGAAGCC
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAAATATATTAAAAA
Found at i:32894135 original size:7 final size:7
Alignment explanation
Indices: 32894123--32894166 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
32894113 ATCACATGGT
32894123 AGTAAGA
1 AGTAAGA
32894130 AGTAAGA
1 AGTAAGA
32894137 AGTAAGA
1 AGTAAGA
32894144 AGTAAGA
1 AGTAAGA
32894151 AGTAAGA
1 AGTAAGA
32894158 AGTAAGA
1 AGTAAGA
32894165 AG
1 AG
32894167 AGTGTGGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.14
Consensus pattern (7 bp):
AGTAAGA
Found at i:32894845 original size:3 final size:3
Alignment explanation
Indices: 32894837--32894861 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32894827 ATTTCTAGTT
32894837 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
32894862 AAAGAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:32896492 original size:17 final size:16
Alignment explanation
Indices: 32896470--32896504 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
32896460 CTTAGAAAAT
*
32896470 TTTTTATTATAATAATA
1 TTTTTATAATAAT-ATA
32896487 TTTTTATAATAATATA
1 TTTTTATAATAATATA
32896503 TT
1 TT
32896505 AATTATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTATAATAATATA
Found at i:32897442 original size:31 final size:33
Alignment explanation
Indices: 32897401--32897475 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
32897391 ATTTTTTTAA
* * *
32897401 TTTTAAATTTTTT-ATATATATTTTTTAAA-AT
1 TTTTATATTTTTTAATATAAATTTTATAAATAT
32897432 TTTTATATTTTTTAAATATAAATTTTATAAATAT
1 TTTTATATTTTTT-AATATAAATTTTATAAATAT
32897466 TTTT-TATTTT
1 TTTTATATTTT
32897476 AAAAATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 12 0.32
33 20 0.53
34 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (33 bp):
TTTTATATTTTTTAATATAAATTTTATAAATAT
Found at i:32897493 original size:19 final size:18
Alignment explanation
Indices: 32897452--32897494 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
32897442 TTTAAATATA
* *
32897452 AATTTTATAAATATTTTT
1 AATTTTAAAAATATTTTG
*
32897470 TATTTTAAAAATTATTTTG
1 AATTTTAAAAA-TATTTTG
32897489 AATTTT
1 AATTTT
32897495 TTTTGTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
AATTTTAAAAATATTTTG
Found at i:32898560 original size:29 final size:30
Alignment explanation
Indices: 32898475--32898560 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 30
32898465 TGATTAAATT
* *
32898475 AAAATTAAAGTTTCAAGTATACATTTGAAC
1 AAAATTAAAGTTTCATGTATACAATTGAAC
* * * *
32898505 AACAATTAGAGTTTCATGTGTATAATTGCAC
1 AA-AATTAAAGTTTCATGTATACAATTGAAC
*
32898536 CAAATTAAAG-TTCATGTATACAATT
1 AAAATTAAAGTTTCATGTATACAATT
32898561 ACACATTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 13 0.29
30 9 0.20
31 23 0.51
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (30 bp):
AAAATTAAAGTTTCATGTATACAATTGAAC
Found at i:32903188 original size:130 final size:131
Alignment explanation
Indices: 32902934--32903197 Score: 449
Period size: 131 Copynumber: 2.0 Consensus size: 131
32902924 TGATACAGAT
* *
32902934 TTTTTTTTTTTTGCTCTGCTTTTAGCAAAAATATAGAATATGAAATGTGTGGGGGTAATTTAGAA
1 TTTTTTTTTTTTGCTCTGCTTTTAGCAAAAATATAGAACATGAAATGTGTGGAGGTAATTTAGAA
* * *
32902999 CTATTACTTCCATGTTTTTTTATTTAGAACAGGTAGAACACGAGTCTGATATCATTTTGAATTGC
66 CTATTACTTACATGTTTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATTGC
32903064 A
131 A
* * *
32903065 TTTTTTTTTTTTGCTCTGCTTTTAGCCAAAATATAGAGCATGAAATGTGTGGAGGTAATTTAGAG
1 TTTTTTTTTTTTGCTCTGCTTTTAGCAAAAATATAGAACATGAAATGTGTGGAGGTAATTTAGAA
32903130 CTATTACTTACATG-TTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATTGC
66 CTATTACTTACATGTTTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATTGC
32903194 A
131 A
32903195 TTT
1 TTT
32903198 CCTTGGAACA
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
130 52 0.42
131 73 0.58
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (131 bp):
TTTTTTTTTTTTGCTCTGCTTTTAGCAAAAATATAGAACATGAAATGTGTGGAGGTAATTTAGAA
CTATTACTTACATGTTTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATTGC
A
Found at i:32906785 original size:29 final size:29
Alignment explanation
Indices: 32906753--32906814 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
32906743 GTTATAATCG
32906753 TTTTATTAAAAGTGCACAAAACATGTTTT
1 TTTTATTAAAAGTGCACAAAACATGTTTT
* * * * **
32906782 TTTTTTTTACATTGTGCAAAACATGTTTT
1 TTTTATTAAAAGTGCACAAAACATGTTTT
32906811 TTTT
1 TTTT
32906815 TTTTAAAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (29 bp):
TTTTATTAAAAGTGCACAAAACATGTTTT
Found at i:32908087 original size:18 final size:18
Alignment explanation
Indices: 32908045--32908088 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
32908035 GTTTGAATTT
32908045 ATTTTATTTCAGATTTAA
1 ATTTTATTTCAGATTTAA
* *
32908063 ATATTATTTC-GACTTTTA
1 ATTTTATTTCAGA-TTTAA
32908081 ATTTTATT
1 ATTTTATT
32908089 ATTTTTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTATTTCAGATTTAA
Found at i:32910812 original size:17 final size:18
Alignment explanation
Indices: 32910785--32910822 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
32910775 TTTATTTTTT
32910785 TAATAATATTTAAATTTA
1 TAATAATATTTAAATTTA
* *
32910803 TAAT-ATATTTTATTTTA
1 TAATAATATTTAAATTTA
32910820 TAA
1 TAA
32910823 ATTTGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATAATATTTAAATTTA
Found at i:32915550 original size:20 final size:20
Alignment explanation
Indices: 32915525--32915566 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32915515 GTCATTGGTT
32915525 ATATAAAATTTTAAAAAATA
1 ATATAAAATTTTAAAAAATA
32915545 ATATAAAATTTTAAAAAATA
1 ATATAAAATTTTAAAAAATA
32915565 AT
1 AT
32915567 TTTAGTGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAATTTTAAAAAATA
Found at i:32920726 original size:15 final size:16
Alignment explanation
Indices: 32920706--32920740 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
32920696 GGACTATTAG
*
32920706 TTTTTTCTATTAA-TC
1 TTTTTTCTAATAATTC
32920721 TTTTTTCTAATAATTC
1 TTTTTTCTAATAATTC
32920737 TTTT
1 TTTT
32920741 ATTTGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTCTAATAATTC
Found at i:32923673 original size:47 final size:48
Alignment explanation
Indices: 32923602--32923701 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 48
32923592 TTGGTATTTT
* * * *
32923602 AATATTTATTTGTCTTTTTTAAAATAT-CATGTATATATTTATTTCATA
1 AATATTTATTTGCCTTTTTAAAAAT-TCCATGTATATATTGATTTCAAA
32923650 AATATTTATTT-CCTTTTTAAAAATTCCATGTATATATTGATTTCAAA
1 AATATTTATTTGCCTTTTTAAAAATTCCATGTATATATTGATTTCAAA
32923697 AATAT
1 AATAT
32923702 AATAAGAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
46 1 0.02
47 35 0.74
48 11 0.23
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (48 bp):
AATATTTATTTGCCTTTTTAAAAATTCCATGTATATATTGATTTCAAA
Found at i:32931946 original size:13 final size:14
Alignment explanation
Indices: 32931922--32931950 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
32931912 TTTCGCGAAA
32931922 AAATTATTTTAATT
1 AAATTATTTTAATT
32931936 AAATT-TTTTAATT
1 AAATTATTTTAATT
32931949 AA
1 AA
32931951 CTATTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTATTTTAATT
Found at i:32932130 original size:24 final size:24
Alignment explanation
Indices: 32932103--32932157 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
32932093 TAATAAGAAT
*
32932103 TCTAAAATTAAAATTTTTTAAAAA
1 TCTAAAATTAAAATTTATTAAAAA
*
32932127 TCTAAAATTATAATTTATTAAAAA
1 TCTAAAATTAAAATTTATTAAAAA
*
32932151 TTTAAAA
1 TCTAAAA
32932158 AATAAAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
TCTAAAATTAAAATTTATTAAAAA
Found at i:32932158 original size:25 final size:25
Alignment explanation
Indices: 32932106--32932174 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
32932096 TAAGAATTCT
* *
32932106 AAAATTAAAATTTTTTAAAAATCT-
1 AAAATTAAAATTTATTAAAAATTTA
*
32932130 AAAATTATAATTTATTAAAAATTTA
1 AAAATTAAAATTTATTAAAAATTTA
* **
32932155 AAAAATAAAAACTATTAAAA
1 AAAATTAAAATTTATTAAAA
32932175 TATTAAAGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 21 0.57
25 16 0.43
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATTAAAATTTATTAAAAATTTA
Found at i:32935397 original size:17 final size:16
Alignment explanation
Indices: 32935377--32935464 Score: 87
Period size: 17 Copynumber: 5.7 Consensus size: 16
32935367 TATTTTAAAA
*
32935377 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
32935394 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
*
32935411 TTAAGTTTAAATTTAT
1 TTAAATTTAAATTTAT
32935427 TTAAATTT--A--T-T
1 TTAAATTTAAATTTAT
*
32935438 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
*
32935454 CTAAATTTAAA
1 TTAAATTTAAA
32935465 AATGATATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.15
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 22 0.37
17 25 0.42
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:32935428 original size:27 final size:27
Alignment explanation
Indices: 32935365--32935462 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
32935355 TTGGATTTTG
* *
32935365 TTTATTTTAAAATTAATTTTAAATTT-TA
1 TTTA-TTT-AAATTTATTTTAAATTTAAA
*
32935393 TTTAAATTTAAATTTATTTTAAGTTTAAA
1 TTT--ATTTAAATTTATTTTAAATTTAAA
32935422 TTTATTTAAATTTATTTTAAATTTAAA
1 TTTATTTAAATTTATTTTAAATTTAAA
**
32935449 TTTAACTAAATTTA
1 TTTATTTAAATTTA
32935463 AAAATGATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
27 35 0.57
28 18 0.30
29 7 0.11
30 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTATTTAAATTTATTTTAAATTTAAA
Found at i:32935446 original size:11 final size:11
Alignment explanation
Indices: 32935365--32935446 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
32935355 TTGGATTTTG
32935365 TTTATTTTAAAA
1 TTTATTTT-AAA
*
32935377 TTAATTTTAAA
1 TTTATTTTAAA
32935388 TTT-TATTTAAA
1 TTTAT-TTTAAA
* *
32935399 TTTAAATTT-AT
1 TTT-ATTTTAAA
*
32935410 TTTAAGTTTAAA
1 TTT-ATTTTAAA
32935422 TTTA-TTTAAA
1 TTTATTTTAAA
32935432 TTTATTTTAAA
1 TTTATTTTAAA
32935443 TTTA
1 TTTA
32935447 AATTTAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
10 11 0.19
11 34 0.58
12 14 0.24
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:32935464 original size:6 final size:6
Alignment explanation
Indices: 32935370--32935453 Score: 79
Period size: 6 Copynumber: 14.8 Consensus size: 6
32935360 TTTTGTTTAT
* * * * *
32935370 TTTAAA ATTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
32935416 TTTAAA TTT--A TTTAAA TTT-AT TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
32935454 CTAAATTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
4 4 0.06
5 12 0.19
6 46 0.74
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:32937402 original size:30 final size:30
Alignment explanation
Indices: 32937368--32937626 Score: 326
Period size: 30 Copynumber: 8.7 Consensus size: 30
32937358 AGTCCCTACA
32937368 TTTTCCAAAATTACATTTTAACCCTAAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
* * *
32937398 TTTTCTAAAATTATATTTTAACCCCAAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
* *
32937428 TTTTCCAAAATTACATTTTGACCCCAAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
* *
32937458 TTTTCCAAAATTACATTTTGACCATAAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
32937488 TTTTCCAAAATTACATTTTAACCCTAAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
* * *
32937518 TTTTCCACAATTACA-TTTGACCCTGAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
* * *
32937547 TTCTCCAAAATTACATTTTGACCCCAAAAC
1 TTTTCCAAAATTACATTTTAACCCTAAAAC
* * *
32937577 TTTTCTAAAATTATATTTTAA-CCTCGAAAC
1 TTTTCCAAAATTACATTTTAACCCT-AAAAC
*
32937607 -TTTCAAAAATTACCATTTTA
1 TTTTCCAAAATTA-CATTTTA
32937627 CCCCCAAACT
Statistics
Matches: 201, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
29 38 0.19
30 163 0.81
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (30 bp):
TTTTCCAAAATTACATTTTAACCCTAAAAC
Found at i:32937624 original size:89 final size:88
Alignment explanation
Indices: 32937371--32937638 Score: 367
Period size: 89 Copynumber: 3.0 Consensus size: 88
32937361 CCCTACATTT
*
32937371 TCCAAAATTACATTTTAACCCTAAAACTTTTCTAAAATTATATTTTAACCCCAAAACTTTTCCAA
1 TCCAAAATTACATTTTGACCCTAAAACTTTTCTAAAATTATATTTTAA-CCCAAAACTTTTCCAA
*
32937436 AATTACATTTTGACCCCAAAACTTT
65 AATTACA-TTTGACCCCAAAACTTC
* * * *
32937461 TCCAAAATTACATTTTGACCATAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAC
1 TCCAAAATTACATTTTGACCCTAAAACTTTTCTAAAATTATATTTTAACCC-AAAACTTTTCCAA
**
32937526 AATTACATTTGACCCTGAAACTTC
65 AATTACATTTGACCCCAAAACTTC
* * *
32937550 TCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAATTATATTTTAACCTCGAAAC-TTTCAAA
1 TCCAAAATTACATTTTGACCCTAAAACTTTTCTAAAATTATATTTTAACC-CAAAACTTTTCCAA
* *
32937614 AATTACCATTTTACCCCCAAACTTC
65 AATTA-CATTTGACCCCAAAACTTC
32937639 CCTAAATCCC
Statistics
Matches: 157, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
88 10 0.06
89 83 0.53
90 64 0.41
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (88 bp):
TCCAAAATTACATTTTGACCCTAAAACTTTTCTAAAATTATATTTTAACCCAAAACTTTTCCAAA
ATTACATTTGACCCCAAAACTTC
Found at i:32937645 original size:29 final size:29
Alignment explanation
Indices: 32937372--32937662 Score: 190
Period size: 30 Copynumber: 9.8 Consensus size: 29
32937362 CCTACATTTT
** *
32937372 CCAAAATTACATTTTAACCCTAAAACTTTT
1 CCAAAATTACATTTTAACCCCGAAAC-TTC
* * * *
32937402 CTAAAATTATATTTTAACCCCAAAACTTTT
1 CCAAAATTACATTTTAACCCCGAAAC-TTC
* * *
32937432 CCAAAATTACATTTTGACCCCAAAACTTTT
1 CCAAAATTACATTTTAACCCCGAAAC-TTC
* *** *
32937462 CCAAAATTACATTTTGACCATAAAACTTTT
1 CCAAAATTACATTTTAACCCCGAAAC-TTC
** *
32937492 CCAAAATTACATTTTAACCCTAAAACTTTT
1 CCAAAATTACATTTTAACCCCGAAAC-TTC
* * *
32937522 CCACAATTACA-TTTGACCCTGAAACTTC
1 CCAAAATTACATTTTAACCCCGAAACTTC
* * *
32937550 TCCAAAATTACATTTTGACCCCAAAACTTTT
1 -CCAAAATTACATTTTAACCCCGAAAC-TTC
* * * *
32937581 CTAAAATTATATTTTAACCTCGAAACTTT
1 CCAAAATTACATTTTAACCCCGAAACTTC
* *
32937610 CAAAAATTACCATTTT-ACCCCCAAACTTC
1 CCAAAATTA-CATTTTAACCCCGAAACTTC
* **
32937639 CCTAAATCCCATTTTTAACCCCGA
1 CCAAAATTACA-TTTTAACCCCGA
32937663 TTTCACCAAA
Statistics
Matches: 222, Mismatches: 33, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
28 4 0.02
29 52 0.23
30 164 0.74
31 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
CCAAAATTACATTTTAACCCCGAAACTTC
Found at i:32937673 original size:59 final size:57
Alignment explanation
Indices: 32937610--32937805 Score: 180
Period size: 59 Copynumber: 3.4 Consensus size: 57
32937600 TCGAAACTTT
* *
32937610 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCC-AACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * * * * * * ** **
32937669 CAAAACTTACCGTTTTGCCTTCGAACTTTCCAAAATTTCATTTTTGA-CCTTATTTTTGC
1 CAAAAATTACCATTTTACC-CCCAACTTTCC-AAATTCCATTTTTAACCCCGA-TTTCAC
* * *
32937728 CAAAATTTACCATTTTATTCCCCAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTA-CCCCCAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
32937785 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
32937806 TAAGAACCCA
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
56 3 0.03
57 16 0.15
58 18 0.17
59 65 0.62
60 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.37
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCCCAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
Found at i:32937712 original size:117 final size:115
Alignment explanation
Indices: 32937578--32937800 Score: 247
Period size: 117 Copynumber: 1.9 Consensus size: 115
32937568 CCCCAAAACT
*
32937578 TTTCTAAAATTATA-TTTTAACCTCGAAACTTT-CAAAAATTACCATTTTA-CCCCCAAACTTCC
1 TTTCCAAAATTATATTTTTAACCT--AAACTTTCCAAAAATTACCATTTTATCCCCC-AACTTCC
* *
32937640 CTAAATCCCATTTTTAACCCCGATTTCACCAAAACTTACCGTTTTGCCTTCGAAC
63 C-AAATCCCATTTTTAACCCCGATTTCA-CAAAAATTACCATTTTGCCTTCGAAC
* * ** * * *
32937695 TTTCCAAAATT-TCATTTTTGACCTTATTTTTGCCAAAATTTACCATTTTATTCCCCAACTTTCC
1 TTTCCAAAATTAT-ATTTTTAACCTAAACTTT-CCAAAAATTACCATTTTATCCCCCAACTTCCC
* *
32937759 AAATTCCATTTTTAGCCCCGATTTCACAAAAATTACCATTTT
64 AAATCCCATTTTTAACCCCGATTTCACAAAAATTACCATTTT
32937801 ACCCCTAAGA
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
116 19 0.21
117 35 0.39
118 31 0.35
119 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (115 bp):
TTTCCAAAATTATATTTTTAACCTAAACTTTCCAAAAATTACCATTTTATCCCCCAACTTCCCAA
ATCCCATTTTTAACCCCGATTTCACAAAAATTACCATTTTGCCTTCGAAC
Found at i:32947829 original size:121 final size:121
Alignment explanation
Indices: 32947615--32947857 Score: 477
Period size: 121 Copynumber: 2.0 Consensus size: 121
32947605 TAAGACTTCC
*
32947615 ATCAGAACGTCTATTGGGGCAACACCGTTCTCACTTGTATATGGAATGGAGGTTGTTCTGCCTAT
1 ATCAGAACGTCTATTGGGGCAACACCGTTCTCACTTGTATATGGAATGGAGGTTGTTCTGCCCAT
32947680 CGAAGTAGAGATTCCTTCTCTCCGAGTCTTATCAGAGCTGAATTTGGATGAAGCAG
66 CGAAGTAGAGATTCCTTCTCTCCGAGTCTTATCAGAGCTGAATTTGGATGAAGCAG
32947736 ATCAGAACGTCTATTGGGGCAACACCGTTCTCACTTGTATATGGAATGGAGGTTGTTCTGCCCAT
1 ATCAGAACGTCTATTGGGGCAACACCGTTCTCACTTGTATATGGAATGGAGGTTGTTCTGCCCAT
32947801 CGAAGTAGAGATTCCTTCTCTCCGAGTCTTATCAGAGCTGAATTTGGATGAAGCAG
66 CGAAGTAGAGATTCCTTCTCTCCGAGTCTTATCAGAGCTGAATTTGGATGAAGCAG
32947857 A
1 A
32947858 ATGGGTCCAA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (121 bp):
ATCAGAACGTCTATTGGGGCAACACCGTTCTCACTTGTATATGGAATGGAGGTTGTTCTGCCCAT
CGAAGTAGAGATTCCTTCTCTCCGAGTCTTATCAGAGCTGAATTTGGATGAAGCAG
Found at i:32949093 original size:37 final size:38
Alignment explanation
Indices: 32949052--32949530 Score: 207
Period size: 37 Copynumber: 13.5 Consensus size: 38
32949042 TTCGTCCTCT
*
32949052 TGAAATTGAAGT-AGAGCGGATAACATGTCTTTATCTC
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* * **
32949089 TGAAATTGAAGTAAGAGC-----A-ATGTCATCCTCT-
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* *
32949120 TGAAATTGAAGT-AGAGTGGATAACACGACTTTATCTC
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* **
32949157 TGAAATTGAAGTAAGAGC-----A-ACGTCATCCTCT-
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* *
32949188 TGAAATTGAAGT-AGAGTGGATAACACGCCTTTATCTC
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* * *
32949225 TGAAATTGAAGTAAGAGC-----A-ATGTCATCATCT-
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* *
32949256 TGAAATTGAAGT-AGAGTGGATAACACGGCTTTATCTC
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* **
32949293 TGAAATTGAAGTAAGAGC-----A-ACGTCATCCTCT-
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
* * *
32949324 TGAAATTGAAG-AAG-GATGGATAGCACGCCTTTATCTC
1 TGAAATTGAAGTAAGAG-CGGATAACACGTCTTTATCTC
* * * *
32949361 TGAAATTGAAGTAAGAACGG--GAC-C-TTTTCCTATCCGC
1 TGAAATTGAAGTAAGAGCGGATAACACGTCTT--TAT-CTC
* * *
32949398 TTGAAATTGAAGT-AGAGATGGATAGCACGCCTTTATCTC
1 -TGAAATTGAAGTAAGAG-CGGATAACACGTCTTTATCTC
* * *** * *
32949437 TGAAATGGAAGTAAGAACAGGAT--CTTTTC-CTATCCGC
1 TGAAATTGAAGTAAGAGC-GGATAACACGTCTTTAT-CTC
* * *
32949474 TTGAAATTGAAGT-AGAGATGGATAGCACGCCTTTATCTC
1 -TGAAATTGAAGTAAGAG-CGGATAACACGTCTTTATCTC
32949513 TGAAATTGAAGTAAGAGC
1 TGAAATTGAAGTAAGAGC
32949531 AAGATCTTTT
Statistics
Matches: 316, Mismatches: 73, Indels: 105
0.64 0.15 0.21
Matches are distributed among these distances:
29 1 0.00
30 15 0.05
31 47 0.15
32 33 0.10
33 4 0.01
34 2 0.01
35 4 0.01
36 38 0.12
37 75 0.24
38 70 0.22
39 17 0.05
40 7 0.02
41 1 0.00
42 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (38 bp):
TGAAATTGAAGTAAGAGCGGATAACACGTCTTTATCTC
Found at i:32949124 original size:31 final size:31
Alignment explanation
Indices: 32949089--32949334 Score: 141
Period size: 31 Copynumber: 7.4 Consensus size: 31
32949079 TCTTTATCTC
*
32949089 TGAAATTGAAGTAAGAGCAATGTCATCCTCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCTCT
** * * **
32949120 TGAAATTGAAGTAGAGTGGATAACACGACTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCTCT
32949156 CTGAAATTGAAGTAAGAGCAACGTCATCCTCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCTCT
** * * **
32949188 TGAAATTGAAGTAGAGTGGATAACACGCCTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCTCT
* *
32949224 CTGAAATTGAAGTAAGAGCAATGTCATCATCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCTCT
** * * **
32949256 TGAAATTGAAGTAGAGTGGATAACACGGCTTTATCT
1 TGAAATTGAAGTA-A---GAGCA-ACGTCATCCTCT
32949292 CTGAAATTGAAGTAAGAGCAACGTCATCCTCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCTCT
32949324 TGAAATTGAAG
1 TGAAATTGAAG
32949335 AAGGATGGAT
Statistics
Matches: 160, Mismatches: 37, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
31 50 0.31
32 27 0.17
33 9 0.06
35 9 0.06
36 26 0.16
37 39 0.24
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCTCT
Found at i:32949155 original size:68 final size:68
Alignment explanation
Indices: 32949046--32949532 Score: 634
Period size: 68 Copynumber: 6.9 Consensus size: 68
32949036 GATCTTTTCG
* * *
32949046 TCCTCTTGAAATTGAAGTAGAGCGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAATG
1 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAATG
32949111 TCA
66 TCA
* *
32949114 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGACTTTATCTCTGAAATTGAAGTAAGAGCAACG
1 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAATG
32949179 TCA
66 TCA
32949182 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAATG
1 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAATG
32949247 TCA
66 TCA
* * *
32949250 TCATCTTGAAATTGAAGTAGAGTGGATAACACGGCTTTATCTCTGAAATTGAAGTAAGAGCAACG
1 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAATG
32949315 TCA
66 TCA
* *
32949318 TCCTCTTGAAATTGAAGAAG-GATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAACGGG
1 TCCTCTTGAAATTGAAGTAGAG-TGGATAACACGCCTTTATCTCTGAAATTGAAGTAAG-A---G
** *
32949382 ACCTTTTCCTA
61 -CAATGT-C-A
* * * *
32949393 TCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATGGAAGTAAGAACAGG
1 TCCTCTTGAAATTGAAGTAGAG-TGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCA--
*
32949458 ATCTTTTCCTA
63 A---TGT-C-A
* *
32949469 TCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 TCCTCTTGAAATTGAAGTAGAG-TGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAA
32949533 GATCTTTTCC
Statistics
Matches: 380, Mismatches: 25, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
67 1 0.00
68 247 0.65
69 1 0.00
71 1 0.00
72 1 0.00
73 2 0.01
74 2 0.01
75 20 0.05
76 105 0.28
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (68 bp):
TCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAATG
TCA
Found at i:32949448 original size:76 final size:76
Alignment explanation
Indices: 32949317--32949573 Score: 408
Period size: 76 Copynumber: 3.4 Consensus size: 76
32949307 GAGCAACGTC
* * *
32949317 ATCCTCTTGAAATTGAAGAAG-GATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAACGG
1 ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAACAG
*
32949381 GACCTTTTCCT
66 GATCTTTTCCT
*
32949392 ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATGGAAGTAAGAACAG
1 ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAACAG
32949457 GATCTTTTCCT
66 GATCTTTTCCT
* *
32949468 ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAACAG
32949533 GATCTTTTCCT
66 GATCTTTTCCT
** * *
32949544 ATCCTTTTGAAATTGAAGTAAAGCTGGATA
1 ATCCGCTTGAAATTGAAGTAGAGATGGATA
32949574 TTACTGAAAC
Statistics
Matches: 169, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
75 19 0.11
76 150 0.89
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (76 bp):
ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAACAG
GATCTTTTCCT
Found at i:32949517 original size:38 final size:38
Alignment explanation
Indices: 32949324--32949525 Score: 131
Period size: 38 Copynumber: 5.3 Consensus size: 38
32949314 GTCATCCTCT
*
32949324 TGAAATTGAAGAAG-GATGGATAGCACGCCTTTATCTC
1 TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
* * *
32949361 TGAAATTGAAGTA-AGAACGG---G-AC-CTTTTCCTATCCGC
1 TGAAATTGAAGTAGAG-ATGGATAGCACGC-CTT--TAT-CTC
32949398 TTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
1 -TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
* * * ** *
32949437 TGAAATGGAAGTA-AGA---ACAGGATC-TTTTCCTATCCGC
1 TGAAATTGAAGTAGAGATGGATAGCA-CGCCTT--TAT-CTC
32949474 TTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
1 -TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
32949513 TGAAATTGAAGTA
1 TGAAATTGAAGTA
32949526 AGAGCAAGAT
Statistics
Matches: 123, Mismatches: 19, Indels: 45
0.66 0.10 0.24
Matches are distributed among these distances:
33 1 0.01
34 10 0.08
35 2 0.02
36 6 0.05
37 20 0.16
38 56 0.46
39 9 0.07
40 6 0.05
41 2 0.02
42 10 0.08
43 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (38 bp):
TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
Found at i:32949961 original size:17 final size:16
Alignment explanation
Indices: 32949941--32950028 Score: 87
Period size: 17 Copynumber: 5.7 Consensus size: 16
32949931 TATTTTAAAA
*
32949941 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
32949958 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
*
32949975 TTAAGTTTAAATTTAT
1 TTAAATTTAAATTTAT
32949991 TTAAATTT--A--T-T
1 TTAAATTTAAATTTAT
*
32950002 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
*
32950018 CTAAATTTAAA
1 TTAAATTTAAA
32950029 AATGATATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.15
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 22 0.37
17 25 0.42
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:32949992 original size:27 final size:27
Alignment explanation
Indices: 32949929--32950026 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
32949919 TTGGATTTTG
* *
32949929 TTTATTTTAAAATTAATTTTAAATTT-TA
1 TTTA-TTT-AAATTTATTTTAAATTTAAA
*
32949957 TTTAAATTTAAATTTATTTTAAGTTTAAA
1 TTT--ATTTAAATTTATTTTAAATTTAAA
32949986 TTTATTTAAATTTATTTTAAATTTAAA
1 TTTATTTAAATTTATTTTAAATTTAAA
**
32950013 TTTAACTAAATTTA
1 TTTATTTAAATTTA
32950027 AAAATGATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
27 35 0.57
28 18 0.30
29 7 0.11
30 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTATTTAAATTTATTTTAAATTTAAA
Found at i:32950010 original size:11 final size:11
Alignment explanation
Indices: 32949929--32950010 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
32949919 TTGGATTTTG
32949929 TTTATTTTAAAA
1 TTTATTTT-AAA
*
32949941 TTAATTTTAAA
1 TTTATTTTAAA
32949952 TTT-TATTTAAA
1 TTTAT-TTTAAA
* *
32949963 TTTAAATTT-AT
1 TTT-ATTTTAAA
*
32949974 TTTAAGTTTAAA
1 TTT-ATTTTAAA
32949986 TTTA-TTTAAA
1 TTTATTTTAAA
32949996 TTTATTTTAAA
1 TTTATTTTAAA
32950007 TTTA
1 TTTA
32950011 AATTTAACTA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
10 11 0.19
11 34 0.58
12 14 0.24
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:32950028 original size:6 final size:6
Alignment explanation
Indices: 32949934--32950017 Score: 79
Period size: 6 Copynumber: 14.8 Consensus size: 6
32949924 TTTTGTTTAT
* * * * *
32949934 TTTAAA ATTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
32949980 TTTAAA TTT--A TTTAAA TTT-AT TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
32950018 CTAAATTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
4 4 0.06
5 12 0.19
6 46 0.74
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:32951191 original size:14 final size:14
Alignment explanation
Indices: 32951172--32951200 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32951162 TTTGGAAATC
32951172 TCCAGATCTGGGTT
1 TCCAGATCTGGGTT
32951186 TCCAGATCTGGGTT
1 TCCAGATCTGGGTT
32951200 T
1 T
32951201 TGCCTTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.38
Consensus pattern (14 bp):
TCCAGATCTGGGTT
Found at i:32951964 original size:30 final size:30
Alignment explanation
Indices: 32951930--32952252 Score: 400
Period size: 30 Copynumber: 10.8 Consensus size: 30
32951920 AGTCCCTACA
*
32951930 TTTTCCAAAATTACATATTGACCCTAAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* * * *
32951960 TTTTCTAAAATTATATTTTAACCCTAACAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* * *
32951990 TTTTCCAAAATTACATTTTAACCCCAAAAA
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* *
32952020 TTTTCCAAAATTATATTTTGACCCCAAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* * *
32952050 TTTTCCAAAATTATATTTT-AACCTCGAAAC
1 TTTTCCAAAATTACATTTTGACCCT-AAAAC
*
32952080 TTTTCCAAAATTACATTTTAACCCTAAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
32952110 TTTTCCAAAATTACATTTTGACCCTAAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* *
32952140 TTTTCCACAATTACATTTTGACCCTGAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* *
32952170 TTTTCTAAAATTACATTTTGACCCCAAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
* * **
32952200 TTTTCTAAAATTATATTTTGACCCCGAAAC
1 TTTTCCAAAATTACATTTTGACCCTAAAAC
*
32952230 -TTTCAAAAATTACTATTTT-ACCC
1 TTTTCCAAAATTAC-ATTTTGACCC
32952253 CCAAACTTCC
Statistics
Matches: 260, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
29 18 0.07
30 238 0.92
31 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAATTACATTTTGACCCTAAAAC
Found at i:32952082 original size:90 final size:89
Alignment explanation
Indices: 32951929--32952260 Score: 441
Period size: 90 Copynumber: 3.7 Consensus size: 89
32951919 AAGTCCCTAC
* * * *
32951929 ATTTTCCAAAATTACATATTGACCCTAAAACTTTTCTAAAATTATATTTTAACCCTAACACTTTT
1 ATTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCCGAA-ACTTTT
32951994 CCAAAATTACATTTTAACCCCAAAA
65 CCAAAATTACATTTTAACCCCAAAA
*
32952019 ATTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCTCGAAACTTTT
1 ATTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACC-CGAAACTTTT
*
32952084 CCAAAATTACATTTTAACCCTAAAA
65 CCAAAATTACATTTTAACCCCAAAA
* * * * *
32952109 CTTTTCCAAAATTACATTTTGACCCTAAAACTTTTCCACAATTACATTTTGACCCTGAAACTTTT
1 ATTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCC-GAAACTTTT
* *
32952174 CTAAAATTACATTTTGACCCCAAAA
65 CCAAAATTACATTTTAACCCCAAAA
* * * * * * *
32952199 CTTTTCTAAAATTATATTTTGACCCCGAAAC-TTTCAAAAATTACTATTTTACCCCCAAACTT
1 ATTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTA-TATTTTAACCCGAAACTT
32952261 CCTTAAATCC
Statistics
Matches: 214, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
89 17 0.08
90 194 0.91
91 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (89 bp):
ATTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTAACCCGAAACTTTTC
CAAAATTACATTTTAACCCCAAAA
Found at i:32952296 original size:59 final size:58
Alignment explanation
Indices: 32952233--32952429 Score: 191
Period size: 59 Copynumber: 3.4 Consensus size: 58
32952223 CCGAAACTTT
* *
32952233 CAAAAATTACTATTTTACCCCCAAAC-TTCCTTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC--AAATTCCATTTTTAACCCCGATTTCAC
* * * * * * * * ** * *
32952292 CAAAACTTACCGTTTTGCCTCCGAACTTTCCAAAATTTCATTTCTGACCTTGTTTTTAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * *
32952351 CAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTA-CCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
32952409 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
32952430 TAAAAACCCA
Statistics
Matches: 105, Mismatches: 31, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
57 3 0.03
58 16 0.15
59 71 0.68
60 15 0.14
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
Found at i:32956124 original size:58 final size:56
Alignment explanation
Indices: 32956062--32956221 Score: 175
Period size: 58 Copynumber: 2.8 Consensus size: 56
32956052 TATTTTCTAA
*
32956062 TATTATATATTATA-ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATAT
1 TATTA-ATATTATATATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATAT
* *
32956120 TATTAA-ATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATAT
1 TATTAATATTATATA-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
*
32956177 AATTAA-ATTAATTAATATTTTTATTAAATTATATTTAATAATAAT
1 TATTAATATT-A-T-ATATTTTTATTAAATTATATTTAATAATAAT
32956222 CATTAAAATT
Statistics
Matches: 90, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
56 6 0.07
57 17 0.19
58 50 0.56
59 10 0.11
60 7 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (56 bp):
TATTAATATTATATATTTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
Found at i:32956413 original size:16 final size:16
Alignment explanation
Indices: 32956392--32956443 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
32956382 TGAATTATTG
*
32956392 ATTACAGTCCTATTCC
1 ATTACAGCCCTATTCC
32956408 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
32956424 ATTACA-CCTCTATTCC
1 ATTACAGCC-CTATTCC
32956440 ATTA
1 ATTA
32956444 TAGCGAACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
15 2 0.06
16 32 0.94
ACGTcount: A:0.27, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:32957088 original size:31 final size:31
Alignment explanation
Indices: 32957024--32957088 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
32957014 TAACCCAGTA
* *
32957024 ACTTAAATAAAAACTTTCATATAGTTCAGTG
1 ACTTAAATAAAAACTTTCATATAGCTCAATG
* *
32957055 ACTTAAATGAAAATTTTCGA-ATAGCTCAATG
1 ACTTAAATAAAAACTTTC-ATATAGCTCAATG
32957086 ACT
1 ACT
32957089 GTTTTGTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCATATAGCTCAATG
Found at i:32958595 original size:41 final size:40
Alignment explanation
Indices: 32958410--32958809 Score: 324
Period size: 41 Copynumber: 9.8 Consensus size: 40
32958400 TTTGGAAACA
* * *
32958410 AAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTT-TCTT
1 AAGCGCCGCTAAAGGT-AGGTCATTAGCGGCGCTTTATCTC
* * * **
32958449 AATGCGCCGCAAAAGGTAAAG-CATTAGCGGCGC-TTAACAA
1 AA-GCGCCGCTAAAGGT-AGGTCATTAGCGGCGCTTTATCTC
* * *
32958489 AAGCGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTACCCAC
1 AAGCGCCGCTAAAGGT-AGGTCATTAGCGGCGCTTTA-TCTC
* *
32958531 AAGCGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTATCGC
1 AAGCGCCGCTAAAGGT-AGGTCATTAGCGGCGCTTTATCTC
* * **
32958572 AAGCGCCGCTAAAGTTCAAGTCATTAGCGGCGCTTCCTCT-
1 AAGCGCCGCTAAAGGT-AGGTCATTAGCGGCGCTTTATCTC
* * **
32958612 AATACGCCGCTAAAGGTAGGGTAATTAGCGGCGCTTTCCCTC
1 AA-GCGCCGCTAAAGGTA-GGTCATTAGCGGCGCTTTATCTC
* * *
32958654 AAGCGCCGCTAAAGGCCAGGTAATTAGCGGCGCTTTAACTC
1 AAGCGCCGCTAAAGG-TAGGTCATTAGCGGCGCTTTATCTC
* ** *
32958695 AAGCGCCGCTAAAGGTATGATCATTAGCGGCGCTTTCCCTG
1 AAGCGCCGCTAAAGGTA-GGTCATTAGCGGCGCTTTATCTC
* * * * **
32958736 AAGCGCCACGAAAGGGTCGGGTCATTAGCGACGCTTTCCCTC
1 AAGCGCCGCTAAA-GGT-AGGTCATTAGCGGCGCTTTATCTC
32958778 AAGCGCCGCTAAAGGTAGGGTCATTTAGCGGC
1 AAGCGCCGCTAAAGGTA-GGTCA-TTAGCGGC
32958810 TAAAAGGTCG
Statistics
Matches: 303, Mismatches: 44, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
39 18 0.06
40 49 0.16
41 153 0.50
42 83 0.27
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (40 bp):
AAGCGCCGCTAAAGGTAGGTCATTAGCGGCGCTTTATCTC
Found at i:32958639 original size:82 final size:82
Alignment explanation
Indices: 32958410--32958809 Score: 377
Period size: 82 Copynumber: 4.9 Consensus size: 82
32958400 TTTGGAAACA
* * * * * **
32958410 AAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTTTCT-TAATGCGCCGCAAAAGGTAAAG-CA
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCTCTAA-GCGCCGCTAAAGGTAGGGTCA
* **
32958472 TTAGCGGCGC-TTAACAA
65 TTAGCGGCGCTTTACCGC
** * *
32958489 AAGCGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTACC-CACAAGCGCCGCTAAAGGTGGGGTC
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT-CCTC-TAAGCGCCGCTAAAGGTAGGGTC
*
32958553 ATTAGCGGCGCTTTATCGC
64 ATTAGCGGCGCTTTACCGC
* * * *
32958572 AAGCGCCGCTAAAGTTCAAGTCATTAGCGGCGC-TTCCTCTAATACGCCGCTAAAGGTAGGGTAA
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCTCTAA-GCGCCGCTAAAGGTAGGGTCA
* *
32958636 TTAGCGGCGCTTTCCCTC
65 TTAGCGGCGCTTTACCGC
* * * * *
32958654 AAGCGCCGCTAAAGGCCAGGTAATTAGCGGCGCTTTAACTC-AAGCGCCGCTAAAGGTATGATCA
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTT-CCTCTAAGCGCCGCTAAAGGTAGGGTCA
*
32958718 TTAGCGGCGCTTTCCCTG-
65 TTAGCGGCGCTTTACC-GC
* * * *
32958736 AAGCGCCACGAAAGGGTCGGGTCATTAGCGACGCTTTCC-CTCAAGCGCCGCTAAAGGTAGGGTC
1 AAGCGCCGCTAAA-GGTCAGGTCATTAGCGGCGCTTTCCTCT-AAGCGCCGCTAAAGGTAGGGTC
32958800 ATTTAGCGGC
64 A-TTAGCGGC
32958810 TAAAAGGTCG
Statistics
Matches: 263, Mismatches: 43, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
79 16 0.06
80 15 0.06
81 20 0.08
82 124 0.47
83 77 0.29
84 11 0.04
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (82 bp):
AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTTCCTCTAAGCGCCGCTAAAGGTAGGGTCAT
TAGCGGCGCTTTACCGC
Found at i:32958665 original size:123 final size:120
Alignment explanation
Indices: 32958410--32958809 Score: 448
Period size: 123 Copynumber: 3.3 Consensus size: 120
32958400 TTTGGAAACA
* ** * *
32958410 AAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTTT-TCTTAATGCGCCGCAAAAGGTAAAG-CA
1 AAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTATCTCAA-GCGCCGCTAAAGGT-AAGTCA
** * * *
32958472 TTAGCGGCGCTTAACAAAAGCGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTACCCAC
64 TTAGCGGCGCTTCCCTAAA-CGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTT-CCCTC
* * *
32958531 AAGCGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTATCGCAAGCGCCGCTAAAGTTCAAGTCAT
1 AAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGGT-AAGTCAT
*
32958596 TAGCGGCGCTTCCTCTAATACGCCGCTAAAGGTAGGGTAATTAGCGGCGCTTTCCCTC
65 TAGCGGCGCTTCC-CTAA-ACGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTCCCTC
* * * *
32958654 AAGCGCCGCTAAAGGCCA-GGTAATTAGCGGCGCTTTAACTCAAGCGCCGCTAAAGGTATGATCA
1 AAGCGCCGCTAAAGG-TAGGGTCATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGGTAAG-TCA
* * * * *
32958718 TTAGCGGCGCTTTCCCTGAAGCGCCACGAAAGGGTCGGGTCATTAGCGACGCTTTCCCTC
64 TTAGCGGCGC-TTCCCT-AAACGCCGCTAAA-GGTAGGGTCATTAGCGGCGCTTTCCCTC
32958778 AAGCGCCGCTAAAGGTAGGGTCATTTAGCGGC
1 AAGCGCCGCTAAAGGTAGGGTCA-TTAGCGGC
32958810 TAAAAGGTCG
Statistics
Matches: 237, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
121 16 0.07
122 32 0.14
123 96 0.41
124 84 0.35
125 9 0.04
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (120 bp):
AAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTATCTCAAGCGCCGCTAAAGGTAAGTCATT
AGCGGCGCTTCCCTAAACGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTCCCTC
Found at i:32958817 original size:24 final size:23
Alignment explanation
Indices: 32958788--32958832 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
32958778 AAGCGCCGCT
32958788 AAAGGTAGGGTCATTTAGCGGCTA
1 AAAGGTAGGGTCA-TTAGCGGCTA
*
32958812 AAAGGTCGGGTCATTAGCGGC
1 AAAGGTAGGGTCATTAGCGGC
32958833 GCTTTTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.27, C:0.16, G:0.36, T:0.22
Consensus pattern (23 bp):
AAAGGTAGGGTCATTAGCGGCTA
Found at i:32958851 original size:65 final size:64
Alignment explanation
Indices: 32958750--32958873 Score: 194
Period size: 65 Copynumber: 1.9 Consensus size: 64
32958740 GCCACGAAAG
32958750 GGTCGGGTCATTAGCGACGCTTTCCCTCAAGCGCCGCTAAAGGTAGGGTCATTTAGCGGCTAAAA
1 GGTCGGGTCATTAGCGACGCTTTCCCTCAAGCGCCGCTAAAGGTAGGGTCA-TTAGCGGCTAAAA
* * * * *
32958815 GGTCGGGTCATTAGCGGCGCTTTTCCTCAAGTGCCGCTAAAGTTCGGGTCATTAGCGGC
1 GGTCGGGTCATTAGCGACGCTTTCCCTCAAGCGCCGCTAAAGGTAGGGTCATTAGCGGC
32958874 GCTTATATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
64 8 0.15
65 46 0.85
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (64 bp):
GGTCGGGTCATTAGCGACGCTTTCCCTCAAGCGCCGCTAAAGGTAGGGTCATTAGCGGCTAAAA
Found at i:32958866 original size:41 final size:40
Alignment explanation
Indices: 32958812--32958961 Score: 153
Period size: 41 Copynumber: 3.6 Consensus size: 40
32958802 TTAGCGGCTA
* * *
32958812 AAAGGTCGGGTCATTAGCGGCGCTTTTCCTCAAGTGCCGCT
1 AAAGGTCGGGTCATTAGCGGCGCTTTT-ATAAAGCGCCGCT
*
32958853 AAAGTTCGGGTCATTAGCGGCGCTTATATATAAAGCGCCGCT
1 AAAGGTCGGGTCATTAGCGGCGCTT-T-TATAAAGCGCCGCT
* * *
32958895 AAAGGTCAGGTTATTAGCGGCGCTTTTATAAATAAGCGTCGCT
1 AAAGGTCGGGTCATTAGCGGCGCTTTTAT--A-AAGCGCCGCT
32958938 AAAGGT---GTCAATTAGCGGCGCTTT
1 AAAGGTCGGGTC-ATTAGCGGCGCTTT
32958962 CCCATAAGCA
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.05
41 39 0.41
42 34 0.36
43 16 0.17
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
AAAGGTCGGGTCATTAGCGGCGCTTTTATAAAGCGCCGCT
Found at i:32958893 original size:42 final size:41
Alignment explanation
Indices: 32958812--32958961 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 41
32958802 TTAGCGGCTA
* * *
32958812 AAAGGTCGGGTCATTAGCGGCGCTTT-TCCTCAAGTGCCGCT
1 AAAGGTCGGGTCATTAGCGGCGCTTTAT-ATAAAGCGCCGCT
*
32958853 AAAGTTCGGGTCATTAGCGGCGCTTATATATAAAGCGCCGCT
1 AAAGGTCGGGTCATTAGCGGCGCTT-TATATAAAGCGCCGCT
* * * *
32958895 AAAGGTCAGGTTATTAGCGGCGCTTTTATAAATAAGCGTCGCT
1 AAAGGTCGGGTCATTAGCGGCGC-TTTATATA-AAGCGCCGCT
32958938 AAAGGT---GTCAATTAGCGGCGCTTT
1 AAAGGTCGGGTC-ATTAGCGGCGCTTT
32958962 CCCATAAGCA
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
40 5 0.05
41 35 0.37
42 36 0.38
43 18 0.19
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
AAAGGTCGGGTCATTAGCGGCGCTTTATATAAAGCGCCGCT
Found at i:32958962 original size:189 final size:187
Alignment explanation
Indices: 32958623--32958978 Score: 409
Period size: 189 Copynumber: 1.9 Consensus size: 187
32958613 ATACGCCGCT
32958623 AAAGGTAGGGTAATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGCCAGGTAATTAGCGGCGCT
1 AAAGGTAGGGTAATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGCCAGGTAATTAGCGGCGCT
* *
32958688 TTAACTCAAGCGCCGCTAAAGGTATGATCATTAGCGGCGCTTTCCCTGAAGCGCCACGAAAGGGT
66 TTAACTAAAGCGCCGCTAAAGGTATGATCATTAGCGGCGCTTTCCATGAAGCGCCACGAAAGGGT
*
32958753 CGGGTCATTAGCGACGCTTTCCC-TCAAGCGCCGCTAAAGGTAGGGTCATTTAGCGGCTA
131 --GGTCATTAGCGACGCTTTCCCAT-AAGCACCGCTAAAGGTAGGGTCATTTAGCGGCTA
* * * * ** * *
32958812 AAAGGTCGGGTCATTAGCGGCGCTTTTCCTCAAGTGCCGCTAAAGTTCGGGTCATTAGCGGCGCT
1 AAAGGTAGGGTAATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGCCAGGTAATTAGCGGCGCT
* * * * * * *
32958877 TATATA-TAAAGCGCCGCTAAAGGTCA-GGTTATTAGCGGCGCTTT-TATAAATAAGCGTCGCTA
66 T-TA-ACTAAAGCGCCGCTAAAGGT-ATGATCATTAGCGGCGCTTTCCAT---GAAGCGCCACGA
*
32958939 AA-GGT-GTCAATTAGCGGCGCTTTCCCATAAGCACCGCTAA
125 AAGGGTGGTC-ATTAGCGACGCTTTCCCATAAGCACCGCTAA
32958979 TTTATTTAAA
Statistics
Matches: 140, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
188 3 0.02
189 86 0.61
190 36 0.26
191 5 0.04
192 10 0.07
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (187 bp):
AAAGGTAGGGTAATTAGCGGCGCTTTCCCTCAAGCGCCGCTAAAGGCCAGGTAATTAGCGGCGCT
TTAACTAAAGCGCCGCTAAAGGTATGATCATTAGCGGCGCTTTCCATGAAGCGCCACGAAAGGGT
GGTCATTAGCGACGCTTTCCCATAAGCACCGCTAAAGGTAGGGTCATTTAGCGGCTA
Found at i:32960556 original size:6 final size:6
Alignment explanation
Indices: 32960546--32960581 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
32960536 AGTAAGCGGT
*
32960546 GGCACT GGCACC GGCACC GGCACC GGCACC GGCACC
1 GGCACC GGCACC GGCACC GGCACC GGCACC GGCACC
32960582 CGCGACTCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.47, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCACC
Found at i:32963498 original size:18 final size:18
Alignment explanation
Indices: 32963447--32964422 Score: 108
Period size: 18 Copynumber: 55.8 Consensus size: 18
32963437 TATCAGCTTG
32963447 ATTATAATTATTTAATTAT
1 ATTA-AATTATTTAATTAT
* **
32963466 ATTAAACTAAATAATTAT
1 ATTAAATTATTTAATTAT
*
32963484 ATTAAATTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
32963502 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
32963524 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
* *
32963539 ATTAAA-TATTTAAGGTAAAAG
1 ATTAAATTATTTAA--T--TAT
*
32963560 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
*
32963578 ATTAAAGTAAATGATTATATTA-
1 ATTAAA-T-TAT--TTA-ATTAT
**
32963600 AGTTAAAAGATTTAATTAT
1 A-TTAAATTATTTAATTAT
* *
32963619 -TTAATTATATTTAAGTTAAAAG
1 ATTAAAT-TATTTAA-TT---AT
*
32963641 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32963659 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
32963677 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
32963690 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* *
32963708 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
32963721 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32963739 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
32963757 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
32963770 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32963788 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
32963806 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
*
32963819 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* **
32963837 ATTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
**
32963855 ATTAAATTAAATAATTAT
1 ATTAAATTATTTAATTAT
* **
32963873 ATT-AA-T-TTAAAAGAT
1 ATTAAATTATTTAATTAT
32963888 A-T-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32963904 ATTAAACTAAATGATTAT
1 ATTAAATTATTTAATTAT
*
32963922 ATTAAATTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
32963940 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
32963962 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
* *
32963977 GTTAAA-TATTTAAGTTAAAAG
1 ATTAAATTATTTAA-TT---AT
*
32963998 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32964016 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
32964034 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
* *
32964047 ATTTAATCATTTAATTAT
1 ATTAAATTATTTAATTAT
* * **
32964065 ACTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
**
32964083 ATTAAATTAAATAATTAT
1 ATTAAATTATTTAATTAT
* **
32964101 ATT-AA-T-TTAAAAGAT
1 ATTAAATTATTTAATTAT
32964116 A-T-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32964132 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
*
32964150 ATTAAATTATTTAATCAT
1 ATTAAATTATTTAATTAT
*
32964168 GTTTAATTATGTATTTAATTAT
1 -ATTAA--AT-TATTTAATTAT
* **
32964190 A--AACACTA-TCGATTA-
1 ATTAA-ATTATTTAATTAT
* *
32964205 GTTAAA-TATTTAAGTTAAAAG
1 ATTAAATTATTTAA-TT---AT
*
32964226 ATTTAATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32964244 ATTAAAGTAAATGATTAT
1 ATTAAATTATTTAATTAT
* *
32964262 ATTAAGTTA---AA--AG
1 ATTAAATTATTTAATTAT
* *
32964275 ATTTAATCATTTAATTAT
1 ATTAAATTATTTAATTAT
* * **
32964293 ACTAAAGTAAATAATTAT
1 ATTAAATTATTTAATTAT
32964311 ATTAAATTA---AA-TAT
1 ATTAAATTATTTAATTAT
32964325 -TT-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32964341 ATTAAAGTAAATAAGTAT
1 ATTAAATTATTTAATTAT
* **
32964359 ATT-AA-T-TTAAAAGAT
1 ATTAAATTATTTAATTAT
32964374 A-T-AATTATTTAATTAT
1 ATTAAATTATTTAATTAT
* ** *
32964390 ATTAAACTAAATGATTAT
1 ATTAAATTATTTAATTAT
32964408 ATTAAATTATTTAAT
1 ATTAAATTATTTAAT
32964423 CATGTTTAAT
Statistics
Matches: 657, Mismatches: 200, Indels: 201
0.62 0.19 0.19
Matches are distributed among these distances:
12 5 0.01
13 48 0.07
14 12 0.02
15 36 0.05
16 63 0.10
17 31 0.05
18 325 0.49
19 28 0.04
20 6 0.01
21 27 0.04
22 63 0.10
23 13 0.02
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (18 bp):
ATTAAATTATTTAATTAT
Found at i:32963609 original size:49 final size:49
Alignment explanation
Indices: 32963554--32964416 Score: 465
Period size: 49 Copynumber: 17.0 Consensus size: 49
32963544 ATATTTAAGG
*
32963554 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
* * *
32963603 TAAAAGATTTAATTATTTAATTATATTTAAGTTAAAAGATTTAATTATTTAAT
1 TAAAAGATTTAATTATTTAATTATATTAAAG-TAAATGA-TT-A-TATTAAAT
* * * * * *
32963656 TATATTAA-AGTAAATGA-TTATATTA-AGTTAAAAGATTTAATTATT-TAATTATAT
1 TA-A--AAGATTTAATTATTTA-ATTATA-TT-AAAG--TAAATGATTAT-ATTAAAT
* * * *
32963710 TAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGT
1 TAA---AAGA-TTTA-ATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
*
32963764 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
*
32963813 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
* * * ** * *
32963862 TAAATA-A-TTATATTAATTTAA-AAGA-TATAATTATTTAATTATATTAAAC
1 TAAA-AGATTTA-ATT-ATTTAATTATATTA-AAGTAAATGATTATATTAAAT
* * * *
32963911 TAAATGA-TT-A-TATTAAATTAT-TTAATCATGTTTAATTATGTAT-TT-AAT
1 TAAAAGATTTAATTATTTAATTATATTAA--A-G-TAAATGAT-TATATTAAAT
* ** * * * *
32963959 TATAAACACTATCGATTAGTTAA--ATATTTAAGTTAAAAGATT-TAATT-ATT
1 TA-AAAGA-T-TTAATTATTTAATTATATTAAAG-TAAATGATTAT-ATTAAAT
* * * * ** * * * * *
32964009 TAATTATATTAAAGTAAATGATTATATT-AAGTTAAAAGATT-TAATCATT
1 TAA-AAGATTTAATTATTTAATTATATTAAAG-TAAATGATTATATTAAAT
* * * * * ** * * *
32964058 TAATTATACTAAAGTAAATAATTATATTAAATTAAATAATTATATTAATT
1 TAA-AAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
*
32964108 TAAAAGATATAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
* * * * * * *
32964157 TATTTAATCATG-TTTAATTATGTATTTAATTATAAACACTATCGATTAGTTAAATATTTAAGT
1 TA---AA--A-GATTTAATTATTTAATT-A-TATTAA-AGTA--AATGA-TT--ATA-TTAAAT
*
32964220 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
* * *
32964269 TAAAAGATTTAATCATTTAATTATACTAAAGTAAATAATTATATTAAAT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
* * * *
32964318 T-AAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
* *
32964366 TAAAAGATATAATTATTTAATTATATTAAACTAAATGATTATATTAAAT
1 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
32964415 TA
1 TA
32964417 TTTAATCATG
Statistics
Matches: 643, Mismatches: 108, Indels: 126
0.73 0.12 0.14
Matches are distributed among these distances:
45 6 0.01
46 4 0.01
47 2 0.00
48 61 0.09
49 343 0.53
50 52 0.08
51 6 0.01
52 8 0.01
53 17 0.03
54 49 0.08
55 19 0.03
56 22 0.03
57 19 0.03
58 18 0.03
59 3 0.00
60 4 0.01
62 3 0.00
63 7 0.01
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (49 bp):
TAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAAT
Found at i:32963626 original size:31 final size:31
Alignment explanation
Indices: 32963591--32963908 Score: 154
Period size: 31 Copynumber: 10.3 Consensus size: 31
32963581 AAAGTAAATG
32963591 ATTATATTAAGTTAAAAGATTTAATTATTTA
1 ATTATATTAAGTTAAAAGATTTAATTATTTA
32963622 ATTATATTTAAGTTAAAAGATTTAATTATTTA
1 ATTATA-TTAAGTTAAAAGATTTAATTATTTA
*
32963654 ATTATATTAAAG-TAAATGA-TT-A-TA-TTA
1 ATTATATT-AAGTTAAAAGATTTAATTATTTA
* * *
32963681 AGTTA-A--AAGATT--TA-A-TTATTTAATT-
1 A-TTATATTAAG-TTAAAAGATTTAATTATTTA
32963706 ---ATATTAAGTTAAAAGATTTAATTATTTA
1 ATTATATTAAGTTAAAAGATTTAATTATTTA
* *
32963734 ATTATATTAAAG-TAAATGA-TTATATTAAGTTAAAA
1 ATTATATT-AAGTTAAAAGATTTA-ATT-A-TT--TA
* * * * * ** *
32963769 GATT-TAATT-ATTTAATTATATTAAAGTAAATG
1 -ATTAT-ATTAAGTTAA-AAGATTTAATTATTTA
32963801 ATTATATTAAGTTAAAAGATTTAATTATTTA
1 ATTATATTAAGTTAAAAGATTTAATTATTTA
* * **
32963832 ATTATATTAAAGTAAATAATTATATTAAATTAAATA
1 ATTATATT-AAGTTAA-AA-GAT-TT-AATTATTTA
* *
32963868 ATTATATTAATTTAAAAGATATAATTATTTA
1 ATTATATTAAGTTAAAAGATTTAATTATTTA
32963899 ATTATATTAA
1 ATTATATTAA
32963909 ACTAAATGAT
Statistics
Matches: 213, Mismatches: 37, Indels: 74
0.66 0.11 0.23
Matches are distributed among these distances:
21 1 0.00
22 1 0.00
23 5 0.02
24 6 0.03
25 3 0.01
26 4 0.02
27 13 0.06
28 5 0.02
29 1 0.00
30 5 0.02
31 68 0.32
32 51 0.24
33 6 0.03
34 5 0.02
35 13 0.06
36 24 0.11
37 2 0.01
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.46
Consensus pattern (31 bp):
ATTATATTAAGTTAAAAGATTTAATTATTTA
Found at i:32963636 original size:32 final size:32
Alignment explanation
Indices: 32963591--32963674 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
32963581 AAAGTAAATG
32963591 ATTATA-TTAAGTTAAAAGATTTAATTATTTA
1 ATTATATTTAAGTTAAAAGATTTAATTATTTA
32963622 ATTATATTTAAGTTAAAAGATTTAATTATTTA
1 ATTATATTTAAGTTAAAAGATTTAATTATTTA
* *
32963654 ATTATATTAAAG-TAAATGATT
1 ATTATATTTAAGTTAAAAGATT
32963675 ATATTAAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
31 14 0.28
32 36 0.72
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (32 bp):
ATTATATTTAAGTTAAAAGATTTAATTATTTA
Found at i:32963857 original size:228 final size:221
Alignment explanation
Indices: 32963620--32964610 Score: 901
Period size: 228 Copynumber: 4.4 Consensus size: 221
32963610 TTTAATTATT
* *
32963620 TAATTATATTTAAGTTAAAAGATTTAATT-ATTTAATTATATTAAAGTAAATGATTATATTAAGT
1 TAATTATA-TTAAATTAAAA-ATTTAATTAATTTAATTATATTAAAGTAAATAATTATATTAAGT
* ** *
32963684 TAAAAGATTTAATTATTTAATTATATTAAGTTAAAAG-ATTTAATTATTTA-ATTAT-ATTAAAG
64 TAAAAGATTTAATTATTTAATTATATTAA-TT--ATGTATTTAATTATAAACACTATCATT--AG
*
32963746 TAAATGATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAA
124 TTAA--A-TAT-TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAA
* *
32963811 GTTAAAAGATTTAATTATTTAATTATATTAAAGTAAA
185 GTTAAAAGATTTAATCATTTAATTATACTAAAGTAAA
* * * ** *
32963848 TAATTATATTAAATTAAATAA-TTATATTAATTTAA-AAGA-TATAATTATTTAATTATATTAAA
1 TAATTATATTAAATTAAA-AATTTA-ATTAATTTAATTATATTA-AAGTAAATAATTATATTAAG
* * * *
32963910 CTAAATGATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGAT
63 TTAAA--A-GAT-TT-AATTATTTAATTAT-ATTAATTATGTATTTAATTATAAACACTATC-AT
32963975 TAGTTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAG
121 TAGTTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAG
32964040 TTAAAAGATTTAATCATTTAATTATACTAAAGTAAA
186 TTAAAAGATTTAATCATTTAATTATACTAAAGTAAA
* * * **
32964076 TAATTATATTAAATTAAATAA-TTATATTAATTTAA-AAGA-TATAATTATTTAATTATATTAAA
1 TAATTATATTAAATTAAA-AATTTA-ATTAATTTAATTATATTA-AAGTAAATAATTATATT-AA
* * *
32964138 G-TAAATGATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGA
62 GTTAAA--A-GAT-TT-AATTATTTAATTAT-ATTAATTATGTATTTAATTATAAACACTATC-A
32964202 TTAGTTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAA
120 TTAGTTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAA
32964267 GTTAAAAGATTTAATCATTTAATTATACTAAAGTAAA
185 GTTAAAAGATTTAATCATTTAATTATACTAAAGTAAA
* * *
32964304 TAATTATATTAAATTAAATATTTAATT-ATTTAATTATATTAAAGTAAATAAGTATATTAATTTA
1 TAATTATATTAAATTAAAAATTTAATTAATTTAATTATATTAAAGTAAATAATTATATTAAGTTA
* * * * * *
32964368 AAAGATATAATTATTTAATTATATTAAACTAAATG-A-TT-A-TATTAA-ATTAT--TTA-AT-C
66 AAAGATTTAATTATTTAATTATATT-AA-T-TATGTATTTAATTATAAACACTATCATTAGTTAA
* * ** *
32964424 ATGTTTAA-TT--ATGTATTTAATTATAAACATTATCGATT--AGTTAA--A-TAT-TTAAGTTA
128 ATATTTAAGTTAAAAG-ATTTAATTATTTA-ATTAT--ATTAAAGTAAATGATTATATTAAGTTA
* *
32964480 AAAGATTTAATTATTTAATTATATTAAAGTAAA
189 AAAGATTTAATCATTTAATTATACTAAAGTAAA
* * * * *
32964513 TGATTATATTAAGTTAAAAGATTTAATCATAATTTATTTATATTAAAGTAACTAATTAT-TTAAT
1 TAATTATATTAAATTAAAA-ATTTAAT--TAATTTAATTATATTAAAGTAAATAATTATATTAAG
**
32964577 TATATTAAAGTAACTAATTATTTAATTATATTAA
63 T-TA--AAAG-ATTTAATTATTTAATTATATTAA
32964611 AGTAACCATA
Statistics
Matches: 677, Mismatches: 52, Indels: 81
0.84 0.06 0.10
Matches are distributed among these distances:
209 55 0.08
210 10 0.01
211 3 0.00
212 18 0.03
213 39 0.06
214 7 0.01
215 10 0.01
216 22 0.03
219 4 0.01
220 5 0.01
221 3 0.00
222 17 0.03
223 3 0.00
224 5 0.01
225 1 0.00
226 13 0.02
227 57 0.08
228 350 0.52
229 6 0.01
230 5 0.01
231 13 0.02
232 24 0.04
233 4 0.01
234 3 0.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (221 bp):
TAATTATATTAAATTAAAAATTTAATTAATTTAATTATATTAAAGTAAATAATTATATTAAGTTA
AAAGATTTAATTATTTAATTATATTAATTATGTATTTAATTATAAACACTATCATTAGTTAAATA
TTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATT
TAATCATTTAATTATACTAAAGTAAA
Found at i:32963931 original size:36 final size:35
Alignment explanation
Indices: 32963823--32963936 Score: 128
Period size: 36 Copynumber: 3.3 Consensus size: 35
32963813 TAAAAGATTT
*
32963823 AATTATTTAATTATATTAAAGTAAATAATTATATTA
1 AATTATTTAATTATATTAAACTAAAT-ATTATATTA
** ** *
32963859 AATTAAATAATTATATTAATTTAAA-A-GATA-T-
1 AATTATTTAATTATATTAAACTAAATATTATATTA
32963890 AATTATTTAATTATATTAAACTAAATGATTATATTA
1 AATTATTTAATTATATTAAACTAAAT-ATTATATTA
32963926 AATTATTTAAT
1 AATTATTTAAT
32963937 CATGTTTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
31 21 0.33
32 1 0.02
33 4 0.06
34 4 0.06
35 1 0.02
36 32 0.51
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (35 bp):
AATTATTTAATTATATTAAACTAAATATTATATTA
Found at i:32964156 original size:67 final size:67
Alignment explanation
Indices: 32964009--32964158 Score: 237
Period size: 67 Copynumber: 2.2 Consensus size: 67
32963999 TTTAATTATT
* * *
32964009 TAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTTAATCATTTAATTATACTAAAGTA
1 TAATTATATTAAATTAAATAATTATATTAAGTTAAAAGATATAATCATTTAATTATACTAAAGTA
32964074 AA
66 AA
* * *
32964076 TAATTATATTAAATTAAATAATTATATTAATTTAAAAGATATAATTATTTAATTATATTAAAGTA
1 TAATTATATTAAATTAAATAATTATATTAAGTTAAAAGATATAATCATTTAATTATACTAAAGTA
32964141 AA
66 AA
*
32964143 TGATTATATTAAATTA
1 TAATTATATTAAATTA
32964159 TTTAATCATG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 76 1.00
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.43
Consensus pattern (67 bp):
TAATTATATTAAATTAAATAATTATATTAAGTTAAAAGATATAATCATTTAATTATACTAAAGTA
AA
Found at i:32964333 original size:97 final size:97
Alignment explanation
Indices: 32964226--32964615 Score: 377
Period size: 97 Copynumber: 3.8 Consensus size: 97
32964216 AAGTTAAAAG
* *
32964226 ATTTAATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAGATTTAATCATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATT
* *
32964291 ATACTAAAGTAAATAATTATATTAAATTAAAT
66 ATATTAAAGTAAATGATTATATTAAATTAAAT
* * *
32964323 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATT
*
32964388 ATATTAAACTAAATGATTATATTAAATTATTTAAT
66 ATATTAAAGTAAATGATTATATTAAATTA---AAT
* * * * * *
32964423 CATGTTTAATTATGTATTTAATTATAAACATTATCGATTAGTTAAATATTTAAGTTAAAAGATTT
1 -A--TTTAATTATTTAATT-A-TATTAA-AGTA---AATAATT--ATA-TTAAGTTAAAAGATTT
* *
32964488 AATTATTTAATTATATTAAAGTAAATGATTATATTAAGTTAAAAG
54 AATTATTTAATTATATTAAAGTAAATGATTATATTAAATT-AAAT
* * * **
32964533 ATTTAATCATAATTTATTTATATTAAAGTAACTAATTAT-TTAATTATATTAAAGTAACTAATTA
1 ATTTAAT--T-ATTTAATTATATTAAAGTAAATAATTATATTAAGT-TA--AAAG-ATTTAATTA
32964597 TTTAATTATATTAAAGTAA
59 TTTAATTATATTAAAGTAA
32964616 CCATAATTTA
Statistics
Matches: 242, Mismatches: 28, Indels: 39
0.78 0.09 0.13
Matches are distributed among these distances:
97 86 0.36
100 8 0.03
101 3 0.01
102 2 0.01
103 17 0.07
104 32 0.13
105 5 0.02
106 3 0.01
107 9 0.04
108 5 0.02
109 7 0.03
110 9 0.04
111 3 0.01
112 52 0.21
113 1 0.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (97 bp):
ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATT
ATATTAAAGTAAATGATTATATTAAATTAAAT
Done.