Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010925.1 Kokia drynarioides strain JFW-HI SEQ_125893, whole genome shotgun sequence
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: 313145
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Warning! 55 characters in sequence are not A, C, G, or T
Found at i:12589 original size:21 final size:21
Alignment explanation
Indices: 12563--12603 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
12553 CCACAGAAAT
*
12563 TTTTTTTTTTTTATTTTTCTCA
1 TTTTTTTCTTTT-TTTTTCTCA
12585 TTTTTTTCTTTTTTTTTCT
1 TTTTTTTCTTTTTTTTTCT
12604 TGACTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTTTCTCA
Found at i:12611 original size:22 final size:22
Alignment explanation
Indices: 12564--12613 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
12554 CACAGAAATT
* *
12564 TTTTTTTTTTTATTTTTCTCAT
1 TTTTTTCTTTTATTTTTCTCAC
*
12586 TTTTTTCTTTT-TTTTTCTTGAC
1 TTTTTTCTTTTATTTTTC-TCAC
12608 TTTTTT
1 TTTTTT
12614 ATCATGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTATTTTTCTCAC
Found at i:15715 original size:18 final size:18
Alignment explanation
Indices: 15692--15732 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15682 CTGGCTCTCT
* *
15692 TTCTTCAAGATCTTCTTC
1 TTCTTCAAGACCTTCCTC
15710 TTCTTCAAGACCTTCCTC
1 TTCTTCAAGACCTTCCTC
15728 TTCTT
1 TTCTT
15733 TAGGATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.32, G:0.05, T:0.49
Consensus pattern (18 bp):
TTCTTCAAGACCTTCCTC
Found at i:20274 original size:51 final size:51
Alignment explanation
Indices: 20200--20384 Score: 230
Period size: 51 Copynumber: 3.6 Consensus size: 51
20190 GCTAAAAATG
* * * *
20200 AAAGAGTCTGATGATTAAATGTCATCGTGAGTAAACAAATCCTCTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATT
20252 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATT
* * * * * *
20303 AAAGTTTCGATGACTAA-TGTCATTGTGAGTAAATGAATCCAT-GACGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCC-TCTACGGATT
* *
20353 AAAGGTCTGATGACTCAGTGTCATCGTGAGTA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTA
20385 TATGAATTTC
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
50 40 0.34
51 72 0.62
52 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAACGAATCCTCTACGGATT
Found at i:27926 original size:42 final size:42
Alignment explanation
Indices: 27867--27949 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
27857 GATAGGATCC
27867 AAGAATTTATGGGTTGAGATGTCTCCAAGGATTTCGAAGATG
1 AAGAATTTATGGGTTGAGATGTCTCCAAGGATTTCGAAGATG
27909 AAGAATTTATGGGTTGAGATGTCTCCAAGGATTTCGAAGAT
1 AAGAATTTATGGGTTGAGATGTCTCCAAGGATTTCGAAGAT
27950 CTATCTCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (42 bp):
AAGAATTTATGGGTTGAGATGTCTCCAAGGATTTCGAAGATG
Found at i:40363 original size:23 final size:23
Alignment explanation
Indices: 40335--40489 Score: 193
Period size: 23 Copynumber: 6.7 Consensus size: 23
40325 TTATCTTTTA
40335 AATGTGATTTATGCTTAAAAGTT
1 AATGTGATTTATGCTTAAAAGTT
* * *
40358 AATGTGACTTATACTTAAATGTT
1 AATGTGATTTATGCTTAAAAGTT
* * *
40381 AATATTATTTATGCTTAAATGTT
1 AATGTGATTTATGCTTAAAAGTT
* **
40404 AATGTGATTTTTGCTTAAATTTT
1 AATGTGATTTATGCTTAAAAGTT
* * * *
40427 AATATGATTTATGATCAAAAGCT
1 AATGTGATTTATGCTTAAAAGTT
40450 AATGTGATTTATGCTTAAAAGTT
1 AATGTGATTTATGCTTAAAAGTT
40473 AATGTGATTTATGCTTA
1 AATGTGATTTATGCTTA
40490 GTAGTTAGTA
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 110 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (23 bp):
AATGTGATTTATGCTTAAAAGTT
Found at i:46881 original size:15 final size:14
Alignment explanation
Indices: 46861--46899 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
46851 CTGCATGGTG
46861 CTTCTTCTTCCTTCT
1 CTTCTTCTT-CTTCT
46876 CTTCTTCTTCTTCT
1 CTTCTTCTTCTTCT
46890 CTTCCTTCTT
1 CTT-CTTCTT
46900 GCGATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (14 bp):
CTTCTTCTTCTTCT
Found at i:46884 original size:18 final size:18
Alignment explanation
Indices: 46861--46899 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46851 CTGCATGGTG
46861 CTTCTTCTTC-CTTCTCTT
1 CTTCTTCTTCTCTTC-CTT
46879 CTTCTTCTTCTCTTCCTT
1 CTTCTTCTTCTCTTCCTT
46897 CTT
1 CTT
46900 GCGATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTCTTCTTCTCTTCCTT
Found at i:49048 original size:12 final size:11
Alignment explanation
Indices: 49030--49062 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
49020 TAAAATCTCA
49030 TAATAAAAATT
1 TAATAAAAATT
49041 TCAATAAAAATT
1 T-AATAAAAATT
49053 TAA-AAAAATT
1 TAATAAAAATT
49063 GACCAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 3 0.14
12 11 0.52
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAAATT
Found at i:57356 original size:18 final size:18
Alignment explanation
Indices: 57333--57367 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57323 ATTAAATATA
*
57333 AACAATAAAATTAAAAAC
1 AACAATAAAAGTAAAAAC
57351 AACAATAAAAGTAAAAA
1 AACAATAAAAGTAAAAA
57368 TAAAAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.14
Consensus pattern (18 bp):
AACAATAAAAGTAAAAAC
Found at i:62595 original size:18 final size:18
Alignment explanation
Indices: 62566--62609 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
62556 AAATATACTA
*
62566 ACAAAT-AAAATGCAGTG
1 ACAAATAAAAATGCAATG
62583 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
62601 ACAACTAAA
1 ACAAATAAA
62610 TAAGATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:63041 original size:27 final size:25
Alignment explanation
Indices: 63011--63065 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
63001 CGAGGCATCA
*
63011 TCCTTCTCTTCATTATTCTTCTCTTCT
1 TCCTTCTCTTCATCATT-TTC-CTTCT
*
63038 TCCTTCTCTTCCTCATTTTCCTTCT
1 TCCTTCTCTTCATCATTTTCCTTCT
63063 TCC
1 TCC
63066 CTTCAAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 3 0.12
27 15 0.58
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (25 bp):
TCCTTCTCTTCATCATTTTCCTTCT
Found at i:76126 original size:16 final size:15
Alignment explanation
Indices: 76101--76155 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
76091 ATTGAGGCAG
*
76101 AAGAAAAAGAAAGAGA
1 AAGAAGAAGAAAGA-A
76117 AAGAAGAAGAAA-AA
1 AAGAAGAAGAAAGAA
*
76131 AAG-AGAAGGAAGAAA
1 AAGAAGAAGAAAG-AA
76146 AAGAAGAAGA
1 AAGAAGAAGA
76156 CGTTGCCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 6 0.18
16 16 0.48
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAAGAA
Found at i:76135 original size:20 final size:19
Alignment explanation
Indices: 76099--76147 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
76089 GTATTGAGGC
*
76099 AGAAGAAAAAGAAAGAGAA
1 AGAAGAAAAAAAAAGAGAA
76118 AGAAGAAGAAAAAAAGAGAA
1 AGAAGAA-AAAAAAAGAGAA
*
76138 GGAAGAAAAA
1 AGAAGAAAAA
76148 GAAGAAGACG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AGAAGAAAAAAAAAGAGAA
Found at i:77852 original size:14 final size:14
Alignment explanation
Indices: 77833--77861 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77823 GGTGAGTTGA
77833 TTATAGACGCACAC
1 TTATAGACGCACAC
77847 TTATAGACGCACAC
1 TTATAGACGCACAC
77861 T
1 T
77862 AACCTGGTTG
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:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (14 bp):
TTATAGACGCACAC
Found at i:78981 original size:15 final size:15
Alignment explanation
Indices: 78961--78993 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
78951 ATTGAGGCAG
*
78961 AAGAAGAAGAAAGAA
1 AAGAAGAAGAAAAAA
78976 AAGAAGAAGAAAAAA
1 AAGAAGAAGAAAAAA
78991 AAG
1 AAG
78994 TGGAGGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAAAAA
Found at i:79394 original size:17 final size:17
Alignment explanation
Indices: 79369--79412 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
79359 CATGCATTTC
79369 TTTTAATTGTCATTGAA
1 TTTTAATTGTCATTGAA
* * *
79386 TTTTTATTGTCTTTGCA
1 TTTTAATTGTCATTGAA
*
79403 TTTTATTTGT
1 TTTTAATTGT
79413 TCTAGCATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (17 bp):
TTTTAATTGTCATTGAA
Found at i:80082 original size:17 final size:18
Alignment explanation
Indices: 80060--80097 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
80050 AAAAATATAA
*
80060 ATATATAGTTATA-TATT
1 ATATATACTTATATTATT
80077 ATATATACTTATATTATT
1 ATATATACTTATATTATT
80095 ATA
1 ATA
80098 CAATAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
ATATATACTTATATTATT
Found at i:87237 original size:14 final size:15
Alignment explanation
Indices: 87210--87242 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
87200 CTTGAAACCC
87210 AAAGAAAGAAAAGAA
1 AAAGAAAGAAAAGAA
*
87225 AAAGAAA-AGAAGAA
1 AAAGAAAGAAAAGAA
87239 AAAG
1 AAAG
87243 TCGAGATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAGAA
Found at i:90655 original size:23 final size:23
Alignment explanation
Indices: 90629--90673 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
90619 TCTCACATTT
90629 TTTCTTACTC-TTTTCT-TTTTGTA
1 TTTC-TACTCATTTT-TGTTTTGTA
90652 TTTCTACTCATTTTTGTTTTGT
1 TTTCTACTCATTTTTGTTTTGT
90674 TCTTTTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.09, C:0.16, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTCTACTCATTTTTGTTTTGTA
Found at i:93427 original size:36 final size:36
Alignment explanation
Indices: 93387--93458 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
93377 TTCCTCAAAG
*
93387 ATACAATAG-AGTAAGATGCAGTTACAATGTCAAATC
1 ATACAAT-GCAGTAAGATGCAGTTACAACGTCAAATC
93423 ATACAATGCAGTAAGATGCAGTTACAACGTCAAATC
1 ATACAATGCAGTAAGATGCAGTTACAACGTCAAATC
93459 CTATCTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (36 bp):
ATACAATGCAGTAAGATGCAGTTACAACGTCAAATC
Found at i:93652 original size:97 final size:97
Alignment explanation
Indices: 93453--93937 Score: 361
Period size: 97 Copynumber: 4.9 Consensus size: 97
93443 GTTACAACGT
** * *
93453 CAAATCCTATCTTTTTGAAA-TTACAGTGAAGTGGATTAAAACAAGTAGC-GAATTCTCAATCTC
1 CAAATCCTATCTTCCT-AAAGTTACAATGAAGCGGATTAAAACAAGTAGCAG-A-TCTCAATCTC
* * *
93516 CACTGAAGTTGTAGTGGAATGGAGTGAAGCCACAT
63 CACTGAAGTTGCAGTGGAATGAAGTGAAGCCACAC
** ** * * *
93551 CAAATTGTATCTTCCTAAAGTTGTAATGAAGCGGATTAAAACAAGTAACAGATCTTAATATCCAC
1 CAAATCCTATCTTCCTAAAGTTACAATGAAGCGGATTAAAACAAGTAGCAGATCTCAATCTCCAC
* *
93616 TGAAGTTGCAGTGGAATGAAATGAAGCCACCC
66 TGAAGTTGCAGTGGAATGAAGTGAAGCCACAC
* * * *
93648 CAAATCCTATCTTCCTGAAGTTACAGTGAAGCGAATTAAAACAAGTAGTAGATCTCAATCTCCAC
1 CAAATCCTATCTTCCTAAAGTTACAATGAAGCGGATTAAAACAAGTAGCAGATCTCAATCTCCAC
* *
93713 TAAAGTTGCAGTGGAATGTAGTGAAGCCACAACC
66 TGAAGTTGCAGTGGAATGAAGTGAAGCCAC-A-C
* * * * * * * * * * * *
93747 TCAAATCTTAT-ATCCTCAAAGTTACAGTGGATCGTACTAAAATAAGTAACGGACCACAATCTCC
1 -CAAATCCTATCTTCCT-AAAGTTACAATGAAGCGGATTAAAACAAGTAGCAGATCTCAATCTCC
* * * ** *
93811 -CAGAAGTTGAAGTGGAATGGAGCAAAGTTACCACAG
64 ACTGAAGTTGCAGTGGAATGAAGTGAAG---CCACAC
* * * * ** *
93847 TAAATCCTATCTTCCTGAAGTTGCAGTGAAGCGGATTAAAACTACAAG-AGTGGATCTCAACCTC
1 CAAATCCTATCTTCCTAAAGTTACAATGAAGCGGATT-AAA--ACAAGTAGCAGATCTCAATCTC
* * *
93911 C-TTGAAGTTGTAGTGGAATGGAGTGAA
63 CACTGAAGTTGCAGTGGAATGAAGTGAA
93938 CTTACATCAC
Statistics
Matches: 303, Mismatches: 71, Indels: 23
0.76 0.18 0.06
Matches are distributed among these distances:
97 122 0.40
98 37 0.12
99 50 0.17
100 52 0.17
101 34 0.11
102 8 0.03
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (97 bp):
CAAATCCTATCTTCCTAAAGTTACAATGAAGCGGATTAAAACAAGTAGCAGATCTCAATCTCCAC
TGAAGTTGCAGTGGAATGAAGTGAAGCCACAC
Found at i:94049 original size:42 final size:42
Alignment explanation
Indices: 93945--94733 Score: 622
Period size: 42 Copynumber: 18.5 Consensus size: 42
93935 GAACTTACAT
* *
93945 CACCATCCAATCTTTTACCCCTAAACCAAAAGGGGCAAATTTAAGC
1 CACCATCCAATCTTTTA-CCC-AAA-CAAAA-GGGCAGATTGAAGC
* * *
93991 CACTATCGAATATTTTACCCAAATCAAAAGGG-AGATTGAAGC
1 CACCATCCAATCTTTTACCCAAA-CAAAAGGGCAGATTGAAGC
* * * * * *
94033 CACCATCCAATCTTTTACCCCATCTAGACGGCAAATTGAAGC
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
* * * * *
94075 AACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGC
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
* * * *
94117 CACCATCTAATCTTTTACCCTAACCAGAA-GGTAGATTGAAGC
1 CACCATCCAATCTTTTACCC-AAACAAAAGGGCAGATTGAAGC
* * *
94159 CACCATCCAATCTTTTACCCTAACCAGAA-GGCAAATTGAAGC
1 CACCATCCAATCTTTTACCC-AAACAAAAGGGCAGATTGAAGC
* * * *
94201 CACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGT
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
* * * * *
94243 CACCATCCAATCTTTTACCCTAACTAGAGGGTAGATTGAAGT
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
** * *
94285 CATAATTCCAATCTTTTACCCCAAACAGAA-GGCAAATTGAAGC
1 CACCA-TCCAATCTTTTA-CCCAAACAAAAGGGCAGATTGAAGC
** * * * * *
94328 CATAATTTCAATCTTTTACCCCAACTAGAGGGTAGATTGAAGC
1 CACCA-TCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
** * *
94371 CATAATCCAATCTTTTACCCTAATC-AGAGGGC-GAATTGAAGC
1 CACCATCCAATCTTTTACCC-AAACAAAAGGGCAG-ATTGAAGC
* * * * * * *
94413 CACCAACCAATCTTTTACCCCAACCAGAGAGTATATTGAAGC
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
* *
94455 CACCATCCAATCTTTTACCCCAAAC-AAAGGGCATATCGAAGC
1 CACCATCCAATCTTTTA-CCCAAACAAAAGGGCAGATTGAAGC
* * * * *
94497 CACCATCCAATTTTTTACTCC-AACCAGAGGGCAGGTTAAAGC
1 CACCATCCAATCTTTTAC-CCAAACAAAAGGGCAGATTGAAGC
* * * * *
94539 CACCATCCAATCATTTACCCCAACCAGAGGGCGGATTGAAGC
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
* * * * * * *
94581 CACCATCAAATCTTTTACCCCATCCAGATGGTAGATTGAAGC
1 CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
* *
94623 CACCATCCAATCTTTTACCCCTAAATCAAGAGGGGTAGATTGAAGC
1 CACCATCCAATCTTTTA-CCC-AAA-CAA-AAGGGCAGATTGAAGC
* * *
94669 CACCATCCAATCTTTTACCCCAAATCAAGAAGGGCATATTAAATC
1 CACCATCCAATCTTTTA-CCCAAA-CAA-AAGGGCAGATTGAAGC
*
94714 CACTATCCAATCTTTTACCC
1 CACCATCCAATCTTTTACCC
94734 CTAAAACTAG
Statistics
Matches: 620, Mismatches: 105, Indels: 38
0.81 0.14 0.05
Matches are distributed among these distances:
41 17 0.03
42 424 0.68
43 72 0.12
44 19 0.03
45 40 0.06
46 48 0.08
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (42 bp):
CACCATCCAATCTTTTACCCAAACAAAAGGGCAGATTGAAGC
Found at i:94111 original size:84 final size:83
Alignment explanation
Indices: 93945--94734 Score: 799
Period size: 84 Copynumber: 9.3 Consensus size: 83
93935 GAACTTACAT
* * * * *
93945 CACCATCCAATCTTTTACCCCTAAACCAAAAGGGGCAAATTTAAGCCACTATCGAATATTTTACC
1 CACCATCCAATCTTTTACCCC--AA-C-AGA-GGGCAAATTGAAGCCACCATCCAATCTTTTACC
* * *
94010 CAAATCAAAAGGG-AGATTGAAGC
61 CCAA-CCAGAGGGTAGATTGAAGC
* * *
94033 CACCATCCAATCTTTTACCCCATCTAGACGGCAAATTGAAGCAACCATCCAATCTTTTACCCCAA
1 CACCATCCAATCTTTTACCCCAAC-AGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAA
*
94098 CCAGAGGGAAGATTGAAGC
65 CCAGAGGGTAGATTGAAGC
* * * * * *
94117 CACCATCTAATCTTTTACCCTAACCAGAAGGTAGATTGAAGCCACCATCCAATCTTTTACCCTAA
1 CACCATCCAATCTTTTACCCCAA-CAGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAA
* * *
94182 CCAGAAGGCAAATTGAAGC
65 CCAGAGGGTAGATTGAAGC
* * * *
94201 CACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTCACCATCCAATCTTTTACCCTAA
1 CACCATCCAATCTTTTACCCCAA-CAGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAA
* *
94266 CTAGAGGGTAGATTGAAGT
65 CCAGAGGGTAGATTGAAGC
** * ** *
94285 CATAATTCCAATCTTTTACCCCAAACAGAAGGCAAATTGAAGCCATAATTTCAATCTTTTACCCC
1 CACCA-TCCAATCTTTTACCCC-AACAGAGGGCAAATTGAAGCCACCA-TCCAATCTTTTACCCC
*
94350 AACTAGAGGGTAGATTGAAGC
63 AACCAGAGGGTAGATTGAAGC
** * * *
94371 CATAATCCAATCTTTTACCCTAATCAGAGGGCGAATTGAAGCCACCAACCAATCTTTTACCCCAA
1 CACCATCCAATCTTTTACCCCAA-CAGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAA
* *
94436 CCAGAGAGTATATTGAAGC
65 CCAGAGGGTAGATTGAAGC
* * * * *
94455 CACCATCCAATCTTTTACCCCAAACAAAGGGCATATCGAAGCCACCATCCAATTTTTTACTCCAA
1 CACCATCCAATCTTTTACCCC-AACAGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAA
* * *
94520 CCAGAGGGCAGGTTAAAGC
65 CCAGAGGGTAGATTGAAGC
* ** * *
94539 CACCATCCAATCATTTACCCCAACCAGAGGGCGGATTGAAGCCACCATCAAATCTTTTACCCCAT
1 CACCATCCAATCTTTTACCCCAA-CAGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAA
*
94604 CCAGATGGTAGATTGAAGC
65 CCAGAGGGTAGATTGAAGC
* *
94623 CACCATCCAATCTTTTACCCCTAAATCAAGAGGGGTAGATTGAAGCCACCATCCAATCTTTTACC
1 CACCATCCAATCTTTTACCCC--AA-C-AGA-GGGCAAATTGAAGCCACCATCCAATCTTTTACC
* * * * *
94688 CCAAATCAAGAAGGGCATATTAAATC
61 CC-AA-CCAG-AGGGTAGATTGAAGC
*
94714 CACTATCCAATCTTTTACCCC
1 CACCATCCAATCTTTTACCCC
94735 TAAAACTAGA
Statistics
Matches: 593, Mismatches: 94, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
83 8 0.01
84 377 0.64
85 73 0.12
86 45 0.08
87 3 0.01
88 53 0.09
89 1 0.00
90 3 0.01
91 30 0.05
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (83 bp):
CACCATCCAATCTTTTACCCCAACAGAGGGCAAATTGAAGCCACCATCCAATCTTTTACCCCAAC
CAGAGGGTAGATTGAAGC
Found at i:94175 original size:126 final size:126
Alignment explanation
Indices: 93945--94734 Score: 841
Period size: 126 Copynumber: 6.2 Consensus size: 126
93935 GAACTTACAT
* * * * *
93945 CACCATCCAATCTTTTACCCCTAAACCAAAAGGGGCAA-ATTTAAGCCACTATCGAATATTTTAC
1 CACCATCCAATCTTTTACCCC--AACC-AGA-GGG-AAGATTGAAGCCACCATCCAATCTTTTAC
* * * * * * *
94009 CCAAATCAAAAGGGAGATTGAAGCCACCATCCAATCTTTTACCCCATCTAGACGGCAAATTGAAG
61 CCTAACCAGAAGGTAGATTGAAGCCACCATCCAATCTTTTACCCCAACCAGAAGGCAAATTGAAG
94074 C
126 C
* *
94075 AACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCTAATCTTTTACCCTAA
1 CACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTAA
*
94140 CCAGAAGGTAGATTGAAGCCACCATCCAATCTTTTACCCTAACCAGAAGGCAAATTGAAGC
66 CCAGAAGGTAGATTGAAGCCACCATCCAATCTTTTACCCCAACCAGAAGGCAAATTGAAGC
* * *
94201 CACCATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGTCACCATCCAATCTTTTACCCTAA
1 CACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTAA
* * * ** *
94266 CTAGAGGGTAGATTGAAGTCATAATTCCAATCTTTTACCCCAAACAGAAGGCAAATTGAAGC
66 CCAGAAGGTAGATTGAAGCCACCA-TCCAATCTTTTACCCCAACCAGAAGGCAAATTGAAGC
** * * * **
94328 CATAATTTCAATCTTTTACCCCAACTAGAGGGTAGATTGAAGCCATAATCCAATCTTTTACCCTA
1 CACCA-TCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTA
* ** * * *
94393 ATCAG-AGGGCGAATTGAAGCCACCAACCAATCTTTTACCCCAACCAG-AGAGTATATTGAAGC
65 ACCAGAAGGTAG-ATTGAAGCCACCATCCAATCTTTTACCCCAACCAGAAG-GCAAATTGAAGC
* * * * * *
94455 CACCATCCAATCTTTTACCCCAAACAAAGGGCATATCGAAGCCACCATCCAATTTTTTACTCC-A
1 CACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCCAATCTTTTAC-CCTA
* * * * * * **
94519 ACCAGAGGGCAGGTTAAAGCCACCATCCAATCATTTACCCCAACCAGAGGGCGGATTGAAGC
65 ACCAGAAGGTAGATTGAAGCCACCATCCAATCTTTTACCCCAACCAGAAGGCAAATTGAAGC
* * * *
94581 CACCATCAAATCTTTTACCCCATCCAGATGGTAGATTGAAGCCACCATCCAATCTTTTACCCCTA
1 CACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCCAATCTTTTA-CCCT-
* * * * *
94646 AATCAAGAGGGGTAGATTGAAGCCACCATCCAATCTTTTACCCCAAATCAAGAAGGGCATATTAA
64 AA-CCAGA-AGGTAGATTGAAGCCACCATCCAATCTTTTACCCC-AA-CCAGAA-GGCAAATTGA
*
94711 ATC
124 AGC
*
94714 CACTATCCAATCTTTTACCCC
1 CACCATCCAATCTTTTACCCC
94735 TAAAACTAGA
Statistics
Matches: 551, Mismatches: 93, Indels: 29
0.82 0.14 0.04
Matches are distributed among these distances:
125 2 0.00
126 306 0.56
127 83 0.15
128 71 0.13
129 4 0.01
130 51 0.09
131 2 0.00
132 4 0.01
133 28 0.05
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (126 bp):
CACCATCCAATCTTTTACCCCAACCAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTAA
CCAGAAGGTAGATTGAAGCCACCATCCAATCTTTTACCCCAACCAGAAGGCAAATTGAAGC
Found at i:109795 original size:2 final size:2
Alignment explanation
Indices: 109788--109820 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
109778 ATTCATTCAC
109788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109821 GTCTCTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115628 original size:15 final size:15
Alignment explanation
Indices: 115591--115629 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
115581 TTATGTGTGC
*
115591 TTAATTCTTGATTTA
1 TTAATTCTTGATATA
*
115606 GT-ATTCTTGATATA
1 TTAATTCTTGATATA
115620 TTAATTCTTG
1 TTAATTCTTG
115630 TTTGATGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (15 bp):
TTAATTCTTGATATA
Found at i:116300 original size:21 final size:20
Alignment explanation
Indices: 116273--116318 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
116263 TAACTTAGCC
*
116273 ATTTATTATTATTTATTTTTA
1 ATTTATTATT-TTCATTTTTA
* *
116294 TTTTATTGTTTTCATTTTTA
1 ATTTATTATTTTCATTTTTA
116314 ATTTA
1 ATTTA
116319 ATTTTTCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTATTATTTTCATTTTTA
Found at i:121835 original size:13 final size:13
Alignment explanation
Indices: 121817--121853 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
121807 TTTTTTTTTT
121817 AATTGAAAAAAAA
1 AATTGAAAAAAAA
121830 AATTGAAAAAAAA
1 AATTGAAAAAAAA
121843 AATTGAAAAAA
1 AATTGAAAAAA
121854 TTTGAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AATTGAAAAAAAA
Found at i:121900 original size:5 final size:5
Alignment explanation
Indices: 121880--121932 Score: 61
Period size: 5 Copynumber: 9.8 Consensus size: 5
121870 AATTAGTATA
*
121880 TTTAT TTTCAAT TTTAT TTTAT TTTAT CTTAT TTTATT TTTAAT TTTAT
1 TTTAT TTT--AT TTTAT TTTAT TTTAT TTTAT TTTA-T TTT-AT TTTAT
121929 TTTA
1 TTTA
121933 ATTATGCACT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 28 0.67
6 8 0.19
7 6 0.14
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:121975 original size:19 final size:20
Alignment explanation
Indices: 121922--121975 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
121912 TTTATTTTTA
121922 ATTTTATTTTAATTATGCACT
1 ATTTT-TTTTAATTATGCACT
*
121943 ATTTTTATTT--TTATGC-TT
1 ATTTTT-TTTAATTATGCACT
*
121961 GTTTTTTTTAATTAT
1 ATTTTTTTTAATTAT
121976 CTCTCTCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 3 0.11
18 6 0.21
19 10 0.36
20 1 0.04
21 8 0.29
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (20 bp):
ATTTTTTTTAATTATGCACT
Found at i:123495 original size:32 final size:32
Alignment explanation
Indices: 123449--123512 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
123439 CCAATACATG
123449 ATTGTTTGCAATTTATCCTGAAACATTATTGA
1 ATTGTTTGCAATTTATCCTGAAACATTATTGA
*
123481 ATTGTTTGCCATTTATCCTGAAACATTATTGA
1 ATTGTTTGCAATTTATCCTGAAACATTATTGA
123513 TAAAATGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (32 bp):
ATTGTTTGCAATTTATCCTGAAACATTATTGA
Found at i:126743 original size:19 final size:18
Alignment explanation
Indices: 126714--126767 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
126704 TACTTACAAC
126714 CCAAA-TATAATAATAAT
1 CCAAAGTATAATAATAAT
*
126731 CGCAAAGTATAATAAAAAT
1 C-CAAAGTATAATAATAAT
*
126750 CCAAAAGTAAAATAATAA
1 CC-AAAGTATAATAATAA
126768 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 5 0.16
19 25 0.81
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (18 bp):
CCAAAGTATAATAATAAT
Found at i:140264 original size:26 final size:26
Alignment explanation
Indices: 140228--140277 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
140218 GTTTTTGTAT
*
140228 TAATTGCAAGAAAGCTAAAGCTATAA
1 TAATTGAAAGAAAGCTAAAGCTATAA
*
140254 TAATTGAAAGAAAGTTAAAGCTAT
1 TAATTGAAAGAAAGCTAAAGCTAT
140278 CGTAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (26 bp):
TAATTGAAAGAAAGCTAAAGCTATAA
Found at i:148528 original size:16 final size:16
Alignment explanation
Indices: 148504--148534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
148494 TCCTTACAAA
*
148504 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
148520 TTTAGTCCTTTAACA
1 TTTAGTCCTTTAACA
148535 AAAAAATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:152364 original size:30 final size:30
Alignment explanation
Indices: 152328--152390 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
152318 CTTGTCGACG
*
152328 CATTTGCTAATGGTTCCTTGTTGGATTGTA
1 CATTTGCTAATGGTTCCTTGATGGATTGTA
152358 CATTTGCTAATGGTTCCTTGATGGATTGTA
1 CATTTGCTAATGGTTCCTTGATGGATTGTA
152388 CAT
1 CAT
152391 ATAATGAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (30 bp):
CATTTGCTAATGGTTCCTTGATGGATTGTA
Found at i:157178 original size:20 final size:21
Alignment explanation
Indices: 157142--157180 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
157132 ATTTTTGTTA
*
157142 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
157163 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
157181 AATTCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:160128 original size:15 final size:16
Alignment explanation
Indices: 160101--160146 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
160091 GAAAATGAGA
160101 AAAAGAAAGAAAAAAAT
1 AAAA-AAAGAAAAAAAT
* *
160118 -AAAAGAGAAAAGAAT
1 AAAAAAAGAAAAAAAT
160133 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
160147 TGTTTGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAT
Found at i:160146 original size:25 final size:26
Alignment explanation
Indices: 160085--160146 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
160075 TCAGTCACTT
* *
160085 AAAAAGGAAAATGAGAAAAAGAAAGA
1 AAAAAGAAAAAAGAGAAAAAGAAAGA
*
160111 AAAAA-ATAAAAGAG-AAAAGAATA-A
1 AAAAAGAAAAAAGAGAAAAAGAA-AGA
160135 AAAAAGAAAAAA
1 AAAAAGAAAAAA
160147 TGTTTGCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 13 0.43
25 12 0.40
26 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (26 bp):
AAAAAGAAAAAAGAGAAAAAGAAAGA
Found at i:163211 original size:16 final size:17
Alignment explanation
Indices: 163180--163213 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
163170 CTACAGTCCA
163180 AAGTGGCTTTGAGTCAT
1 AAGTGGCTTTGAGTCAT
*
163197 AAGTGG-TTTGGGTCAT
1 AAGTGGCTTTGAGTCAT
163213 A
1 A
163214 CTCTCTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.09, G:0.32, T:0.35
Consensus pattern (17 bp):
AAGTGGCTTTGAGTCAT
Found at i:166476 original size:20 final size:20
Alignment explanation
Indices: 166436--166496 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
166426 GCGGATTAGT
166436 ATAG-TTTATATTAAG-TCTAA
1 ATAGATTTA-ATTAAGAT-TAA
166456 ATAGATTTAATTAAGATTAA
1 ATAGATTTAATTAAGATTAA
*
166476 AAATGA-TTAATTAAGACTTAA
1 ATA-GATTTAATTAAGA-TTAA
166497 TGATGGAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 25 0.69
21 11 0.31
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (20 bp):
ATAGATTTAATTAAGATTAA
Found at i:166483 original size:21 final size:22
Alignment explanation
Indices: 166454--166496 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
166444 TATTAAGTCT
166454 AAATAGATTTAATTAAGA-TTAA
1 AAATAGA-TTAATTAAGACTTAA
166476 AAAT-GATTAATTAAGACTTAA
1 AAATAGATTAATTAAGACTTAA
166497 TGATGGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 6 0.30
22 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.35
Consensus pattern (22 bp):
AAATAGATTAATTAAGACTTAA
Found at i:167974 original size:21 final size:22
Alignment explanation
Indices: 167950--168009 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
167940 TAGATGCGTG
167950 ACTTGTATCGGTAGAAATTA-T
1 ACTTGTATCGGTAGAAATTAGT
*
167971 ACTTGTATCGGTA-AAACTAGT
1 ACTTGTATCGGTAGAAATTAGT
** *
167992 ACAAGTACCGGTAGAAAT
1 ACTTGTATCGGTAGAAAT
168010 CTGCATAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.16
21 24 0.75
22 3 0.09
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTTGTATCGGTAGAAATTAGT
Found at i:173353 original size:20 final size:21
Alignment explanation
Indices: 173317--173367 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
173307 GTTAGTATGG
*
173317 TTTATATTAAGTGTAAATA-GA
1 TTTA-ATTAAGTGTAAAAATGA
173338 TTTAATTAAGAT-TAAAAATGA
1 TTTAATTAAG-TGTAAAAATGA
173359 -TTAATTAAG
1 TTTAATTAAG
173368 GCTTAATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (21 bp):
TTTAATTAAGTGTAAAAATGA
Found at i:187320 original size:56 final size:56
Alignment explanation
Indices: 187253--187363 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
187243 AGATGTTAGC
187253 CTATGGGCTAGGCACTTAGTGTCGAGGTGTTTTATCGGTTGGTCTAGCTCGTATGG
1 CTATGGGCTAGGCACTTAGTGTCGAGGTGTTTTATCGGTTGGTCTAGCTCGTATGG
187309 CTATGGGCTAGGCACTTAGTGTCGAGGTGTTTTATCGGTTGGTCTAGCTCGTATG
1 CTATGGGCTAGGCACTTAGTGTCGAGGTGTTTTATCGGTTGGTCTAGCTCGTATG
187364 AGCATCTGGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.14, C:0.16, G:0.33, T:0.36
Consensus pattern (56 bp):
CTATGGGCTAGGCACTTAGTGTCGAGGTGTTTTATCGGTTGGTCTAGCTCGTATGG
Found at i:191142 original size:36 final size:36
Alignment explanation
Indices: 191077--191218 Score: 191
Period size: 36 Copynumber: 4.0 Consensus size: 36
191067 CTCAAACTAT
191077 CTCTTCAAGTTTCCCAGT-AATTCAGCTCTTACGAG
1 CTCTTCAAGTTTCCCAGTAAATTCAGCTCTTACGAG
*
191112 CTCTTCAAGTTTCCCAGTAAATTCAGCTCTTATGAG
1 CTCTTCAAGTTTCCCAGTAAATTCAGCTCTTACGAG
** *
191148 CTCTTCAAGTTT-TGAGTAAATT-AGCTCTTATGAG
1 CTCTTCAAGTTTCCCAGTAAATTCAGCTCTTACGAG
* * * *
191182 CTCTTCAAGTCTCCCAGTAATTTTAGCTCATACGAG
1 CTCTTCAAGTTTCCCAGTAAATTCAGCTCTTACGAG
191218 C
1 C
191219 CTAATCAATA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
34 23 0.24
35 33 0.35
36 39 0.41
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (36 bp):
CTCTTCAAGTTTCCCAGTAAATTCAGCTCTTACGAG
Found at i:191176 original size:70 final size:71
Alignment explanation
Indices: 191077--191210 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 71
191067 CTCAAACTAT
*
191077 CTCTTCAAGTTTCCCAGTAATTCAGCTCTTACGAGCTCTTCAAGTTTCCCAGTAAATTCAGCTCT
1 CTCTTCAAGTTTCCCAGTAATTCAGCTCTTACGAGCTCTTCAAGTCTCCCAGTAAATTCAGCTCT
191142 TATGAG
66 TATGAG
** * * *
191148 CTCTTCAAGTTT-TGAGTAAATT-AGCTCTTATGAGCTCTTCAAGTCTCCCAGTAATTTTAGCTC
1 CTCTTCAAGTTTCCCAGT-AATTCAGCTCTTACGAGCTCTTCAAGTCTCCCAGTAAATTCAGCTC
191211 ATACGAGCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
70 40 0.71
71 16 0.29
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (71 bp):
CTCTTCAAGTTTCCCAGTAATTCAGCTCTTACGAGCTCTTCAAGTCTCCCAGTAAATTCAGCTCT
TATGAG
Found at i:191261 original size:19 final size:19
Alignment explanation
Indices: 191234--191282 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
191224 CAATAGATCT
191234 CTCTTACGAGCTAATATCG
1 CTCTTACGAGCTAATATCG
* * *
191253 CTCTCACGAGCTAGTATTG
1 CTCTTACGAGCTAATATCG
191272 CTCTTACGAGC
1 CTCTTACGAGC
191283 CAGTTCCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (19 bp):
CTCTTACGAGCTAATATCG
Found at i:196706 original size:12 final size:13
Alignment explanation
Indices: 196683--196716 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
196673 ATTTTCTAGC
196683 TTTTAGTTTTTTG
1 TTTTAGTTTTTTG
196696 TTTTA-TTTTTTG
1 TTTTAGTTTTTTG
*
196708 TTTTCGTTT
1 TTTTAGTTT
196717 GAAACGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.06, C:0.03, G:0.12, T:0.79
Consensus pattern (13 bp):
TTTTAGTTTTTTG
Found at i:198215 original size:20 final size:20
Alignment explanation
Indices: 198190--198229 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
198180 ATGGAAAGTA
198190 ACTACTATGTATAATGCTTT
1 ACTACTATGTATAATGCTTT
198210 ACTACTATGTATAATGCTTT
1 ACTACTATGTATAATGCTTT
198230 CTTGGTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
ACTACTATGTATAATGCTTT
Found at i:198652 original size:17 final size:17
Alignment explanation
Indices: 198616--198652 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
198606 TTTTAGTGCA
*
198616 TTTTCTTTTCTTAATTT
1 TTTTCTTTTCTTAATAT
*
198633 TTTTCTTTTCTTTATAT
1 TTTTCTTTTCTTAATAT
198650 TTT
1 TTT
198653 CAAAATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTCTTAATAT
Found at i:202411 original size:12 final size:12
Alignment explanation
Indices: 202378--202412 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
202368 AATGTGTTTG
*
202378 TCATCCTTCGCT
1 TCATCCTTCTCT
*
202390 TCGTCCTTCTCT
1 TCATCCTTCTCT
202402 TCATCCTTCTC
1 TCATCCTTCTC
202413 GGCATGATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.43, G:0.06, T:0.46
Consensus pattern (12 bp):
TCATCCTTCTCT
Found at i:218686 original size:28 final size:28
Alignment explanation
Indices: 218646--218726 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
218636 GAGGAATTTT
*
218646 CATATCTATATGTGGATGCATTCTGTTC
1 CATATATATATGTGGATGCATTCTGTTC
*
218674 CATATATGTATGTGGATGCATTCTGTTC
1 CATATATATATGTGGATGCATTCTGTTC
* *
218702 CATATCTATATGTGGATGTATTCTG
1 CATATATATATGTGGATGCATTCTG
218727 AGTCCCCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (28 bp):
CATATATATATGTGGATGCATTCTGTTC
Found at i:227344 original size:23 final size:22
Alignment explanation
Indices: 227313--227356 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
227303 AAAGAAAAAA
*
227313 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
227335 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
227357 GAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:237208 original size:7 final size:7
Alignment explanation
Indices: 237196--237221 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
237186 AGGAAAGAAA
237196 GATGAGG
1 GATGAGG
237203 GATGAGG
1 GATGAGG
237210 GATGAGG
1 GATGAGG
237217 GATGA
1 GATGA
237222 TTAGGAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:237644 original size:23 final size:22
Alignment explanation
Indices: 237613--237656 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
237603 AAAGAAATAA
*
237613 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
237635 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
237657 GAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:248024 original size:12 final size:11
Alignment explanation
Indices: 247995--248041 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
247985 GGAAGAAGGG
*
247995 GAAGAGGAGAA
1 GAAGAGAAGAA
248006 G-AGAGAAGAA
1 GAAGAGAAGAA
*
248016 GCAAGAGAAAAA
1 G-AAGAGAAGAA
*
248028 GAAAAGAAGAA
1 GAAGAGAAGAA
248039 GAA
1 GAA
248042 TTTGCAGCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 9 0.30
11 12 0.40
12 9 0.30
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAGAGAAGAA
Found at i:257004 original size:36 final size:37
Alignment explanation
Indices: 256937--257006 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
256927 TGTTGCTGCT
*
256937 TGAGCACTTCTAAATTGCACCCAAAAATGTCGCCACA
1 TGAGCACTTCCAAATTGCACCCAAAAATGTCGCCACA
* *
256974 TGAGCACTTCCAGATTGCA-CCAAAATTGTCGCC
1 TGAGCACTTCCAAATTGCACCCAAAAATGTCGCC
257007 GTAGGAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (37 bp):
TGAGCACTTCCAAATTGCACCCAAAAATGTCGCCACA
Found at i:257162 original size:26 final size:26
Alignment explanation
Indices: 257104--257165 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
257094 AACAATTACA
*
257104 CCCACGAA-TGTCTCTGCATGAACATG
1 CCCA-GAATTGTCACTGCATGAACATG
* * *
257130 TCTAGAATTGTCACTGCATGAACGTG
1 CCCAGAATTGTCACTGCATGAACATG
257156 CCCAGAATTG
1 CCCAGAATTG
257166 CGCTCAGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
CCCAGAATTGTCACTGCATGAACATG
Found at i:260426 original size:12 final size:12
Alignment explanation
Indices: 260403--260449 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
260393 ATCAAACATT
260403 TTTTCTTCTTTTC
1 TTTTC-TCTTTTC
260416 TTTTCTCTTTTC
1 TTTTCTCTTTTC
260428 TTTT-TC-TTTC
1 TTTTCTCTTTTC
260438 TTTTTCTCTTTT
1 -TTTTCTCTTTT
260450 TTCTTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.13
11 6 0.19
12 13 0.42
13 8 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTTC
Found at i:260451 original size:25 final size:22
Alignment explanation
Indices: 260412--260458 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
260402 TTTTTCTTCT
260412 TTTCTTTTCTCTTTTCTTTTTC
1 TTTCTTTTCTCTTTTCTTTTTC
260434 TTTCTTTTTCTCTTTTTTCTTTTTC
1 TTTC-TTTTCTC--TTTTCTTTTTC
260459 AAGTGACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 7 0.32
25 11 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTCTTTTCTCTTTTCTTTTTC
Found at i:260452 original size:15 final size:15
Alignment explanation
Indices: 260401--260458 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
260391 ATATCAAACA
260401 TTTTTTCTTCTTT-TC
1 TTTTTTCTT-TTTCTC
* *
260416 TTTTCTC-TTTTCTT
1 TTTTTTCTTTTTCTC
260430 TTTCTTTCTTTTTCTC
1 TTT-TTTCTTTTTCTC
260446 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
260459 AAGTGACTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 3 0.08
14 5 0.14
15 19 0.53
16 9 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTCTTTTTCTC
Found at i:261066 original size:19 final size:19
Alignment explanation
Indices: 261033--261073 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
261023 AGTGCAACTA
*
261033 AATTAACAAAAAAAATTGC
1 AATTAACAAAAAAAAATGC
261052 AATT-ACAAAATAAAAATGC
1 AATTAACAAAA-AAAAATGC
261071 AAT
1 AAT
261074 GATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22
Consensus pattern (19 bp):
AATTAACAAAAAAAAATGC
Found at i:263394 original size:15 final size:15
Alignment explanation
Indices: 263369--263403 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
263359 CATAGAATTT
*
263369 TAAAA-TGAAACAAG
1 TAAAAGTGAAACAAA
263383 TAAAAGTGAAACAAA
1 TAAAAGTGAAACAAA
263398 TAAAAG
1 TAAAAG
263404 AAAATGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.66, C:0.06, G:0.14, T:0.14
Consensus pattern (15 bp):
TAAAAGTGAAACAAA
Found at i:270124 original size:20 final size:20
Alignment explanation
Indices: 270099--270140 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
270089 GGCTAGCTGG
270099 TAAAGCCTACTATTGCTTCC
1 TAAAGCCTACTATTGCTTCC
270119 TAAAGCCTACTATTGCTTCC
1 TAAAGCCTACTATTGCTTCC
270139 TA
1 TA
270141 GATGGTTACT
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:0.26, C:0.29, G:0.10, T:0.36
Consensus pattern (20 bp):
TAAAGCCTACTATTGCTTCC
Found at i:277398 original size:5 final size:6
Alignment explanation
Indices: 277382--277414 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
277372 ATTTCAGCAA
277382 CTTTTT CTTTTT CTTTTT CTTTCTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTT-TT CTTTTT CT
277415 CAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:288729 original size:16 final size:17
Alignment explanation
Indices: 288704--288743 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
288694 ATATTTCTTC
288704 TTTTCTTTTTCACTTTT
1 TTTTCTTTTTCACTTTT
*
288721 TTTTCTTTTTCATTTTT
1 TTTTCTTTTTCACTTTT
288738 TTTTCT
1 TTTTCT
288744 GAGCATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTCACTTTT
Found at i:311946 original size:50 final size:50
Alignment explanation
Indices: 311821--311946 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
311811 CTTTTACCTC
* * * *
311821 TAAAGCTGTGGAGGTACAGATTGAAGCCGTATTGGAAAATCTCATACACC
1 TAAAGTTGTAGAGGGACAGATTGAAGCCGTATTGGAAAATCTCATACACA
* * ** * *
311871 TAAAGTTGTAGAGGGGCAGAATGAAGCCGCTA-TGGTGAATCTCATTCATA
1 TAAAGTTGTAGAGGGACAGATTGAAGCCG-TATTGGAAAATCTCATACACA
*
311921 TAAAGTTGTAGAGGGATAGATTGAAG
1 TAAAGTTGTAGAGGGACAGATTGAAG
311947 TCGCAAGGAC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
50 60 0.97
51 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (50 bp):
TAAAGTTGTAGAGGGACAGATTGAAGCCGTATTGGAAAATCTCATACACA
Found at i:312141 original size:79 final size:76
Alignment explanation
Indices: 312003--312212 Score: 231
Period size: 79 Copynumber: 2.6 Consensus size: 76
311993 TACAACCCTG
* * * * *
312003 AATCTTTTACCCCGACCATGAGGCAGATTGAAGCAATTCAATCTTTTACCCTAATTAGAGCACAG
1 AATC-TTTACCCCGA-CATGGGGCAAATTGAAGCAATCCAATCTTTTACCCTAACTAGAGCAAAG
*
312068 ATTGAAGACCATTT
64 ATTGAAGACCA-TC
* * *
312082 AATCTTTCACCCCGACAATGGGGCAAATTGAAGCAGTCCAATCTTTTACCCTGACTAGAGGAAAG
1 AATCTTT-ACCCCGAC-ATGGGGCAAATTGAAGCAATCCAATCTTTTACCCTAACTAGAGCAAAG
312147 ATTGAAGACCATC
64 ATTGAAGACCATC
* * *
312160 AGATATCTTACCCCGATCATGGGGCAAATTGAAACAATCCAATTTTTTTACCC
1 A-ATCT-TTACCCCGA-CATGGGGCAAATTGAAGCAATCCAA-TCTTTTACCC
312213 CTAAAGCTAT
Statistics
Matches: 112, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 6 0.05
79 94 0.84
80 12 0.11
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (76 bp):
AATCTTTACCCCGACATGGGGCAAATTGAAGCAATCCAATCTTTTACCCTAACTAGAGCAAAGAT
TGAAGACCATC
Found at i:312151 original size:39 final size:39
Alignment explanation
Indices: 312003--312153 Score: 112
Period size: 39 Copynumber: 3.9 Consensus size: 39
311993 TACAACCCTG
* *
312003 AATCTTTTACCCCGACCATGAGG-CAGATTGAAGCAATTC
1 AATCTTTTACCCCGACTATGAGGAAAGATTGAAGC-ATTC
** * * * *
312042 AATCTTTTACCCTAATTA-GAGCACAGATTGAAGACCATTT
1 AATCTTTTACCCCGACTATGAGGAAAGATTGAAG--CATTC
* * * * *
312082 AATCTTTCACCCCGACAATGGGGCAA-ATTGAAGCAGTCC
1 AATCTTTTACCCCGACTATGAGGAAAGATTGAAGCA-TTC
*
312121 AATCTTTTACCCTGACTA-GAGGAAAGATTGAAG
1 AATCTTTTACCCCGACTATGAGGAAAGATTGAAG
312154 ACCATCAGAT
Statistics
Matches: 84, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
38 10 0.12
39 47 0.56
40 23 0.27
41 4 0.05
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (39 bp):
AATCTTTTACCCCGACTATGAGGAAAGATTGAAGCATTC
Done.