Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 1 of 33
Found at i:1016 original size:21 final size:22
Alignment explanation
Indices: 991--1037 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
981 GCAAGTTTTC
* *
991 ATTTTTCTTAGCTAAC-TCATT
1 ATTTTTATTAGCCAACTTCATT
*
1012 ATTTTTATTAGCCAACTTCTTT
1 ATTTTTATTAGCCAACTTCATT
1034 ATTT
1 ATTT
1038 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTTTATTAGCCAACTTCATT
Found at i:3274 original size:13 final size:13
Alignment explanation
Indices: 3256--3281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3246 CAATTTTTTG
3256 TGTATCGATACAT
1 TGTATCGATACAT
3269 TGTATCGATACAT
1 TGTATCGATACAT
3282 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3365 original size:20 final size:21
Alignment explanation
Indices: 3320--3372 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
3310 CTGCCAAGAA
* **
3320 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTGTAAC
3341 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTGTAAC
3361 ATGTATCGATAC
1 ATGTATCGATAC
3373 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTGTAAC
Found at i:3782 original size:59 final size:59
Alignment explanation
Indices: 3689--5924 Score: 3791
Period size: 59 Copynumber: 38.1 Consensus size: 59
3679 CCTTCCGCTT
* * *
3689 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCACT
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * ***
3748 TTCAGGCCTCAAAGAGCGGGACGCCTTTTGTTTTAAAGCCCACACAGGTTGGTGGCGTT
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
3807 TTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
3867 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
3926 TTCAGTCCTCAAAGAGCGGGACGCCTTTTGTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
3985 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
4044 TTCAGTTCTCAAAGAACCGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
4103 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * ***
4162 TTTAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTT
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
4221 TTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
4281 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
4340 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
4399 TCCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
4458 TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
4517 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
4576 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
4635 TTCAGTCCTCAAAGAGCGGGACGCC-TTTC-TTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
4692 TTCAGTTCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
4751 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
4810 TTTAGTCCTCAAAGAGCGGGATGCTTTTTCTTTTAAAGCCCACACAGGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
4869 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
4928 TTTAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * * **
4987 -TCAATCCTTAAAGAGCAGGATG-CTTTTCCTTTTCAAAGCCCACACAAGTTGGTGTCATTT
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCA-CC
* * * **
5047 TTCAGTCCCCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
5101 TTCCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACC
1 TT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
5156 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5215 TTCAGTCCTCAAAGAG-GGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5273 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
5332 TTCAGTTCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
5391 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5450 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
5509 TTCAGTTCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5568 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
5627 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTTGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5686 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
5745 TTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5804 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5863 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
5922 TTC
1 TTC
5925 TGTCGCAACG
Statistics
Matches: 2060, Mismatches: 99, Indels: 36
0.94 0.05 0.02
Matches are distributed among these distances:
54 24 0.01
55 68 0.03
56 6 0.00
57 59 0.03
58 87 0.04
59 1692 0.82
60 106 0.05
61 18 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (59 bp):
TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:8267 original size:21 final size:22
Alignment explanation
Indices: 8222--8275 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
8212 TGGACATGTT
8222 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
8244 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
8265 AAAAATGCATG
1 AAAAATGCATG
8276 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:9237 original size:20 final size:20
Alignment explanation
Indices: 9190--9264 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
9180 AAAAAGACAT
*
9190 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
9209 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
9230 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
9250 AATGTATCGATACAT
1 AATGTATCGATACAT
9265 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:9258 original size:40 final size:39
Alignment explanation
Indices: 9187--9264 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
9177 GGTAAAAAGA
* *
9187 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
9226 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
9265 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:9553 original size:59 final size:59
Alignment explanation
Indices: 9461--11516 Score: 3227
Period size: 59 Copynumber: 35.1 Consensus size: 59
9451 CTGGTGTCTA
* * *
9461 CACCTTCAGTTCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
9520 CACCTTCAGCCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * *
9579 CACCTTTAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
***
9638 CGTTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
9698 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
9757 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
9816 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
9875 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGACCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
9934 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
9993 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * *
10052 CACCTTCAGTCCTCAAAGAGCGAGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*** *
10111 CGTTTTCCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
10171 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
10230 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
10289 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * *
10348 CACCTTCAGTTCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
10407 CACCTTCAGCCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * *
10466 CACCTTTAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
***
10525 CGTTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
10585 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
10644 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
10703 CACCTTCAGTCCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
10762 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
10821 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
10880 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
10939 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*** * *
10998 CGTTTTCCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCACACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
11058 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
11117 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACAGAAGTTGGTAG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
11176 CACTTTCAGTCTTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCTAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
11235 CACC-TCAGTCCTTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGG
* * * ** *
11294 CACCTTTCAATCCCCAAAGAGCCGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGT
1 CACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * * *
11349 CATTTTTCAGTCCCCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGG
1 CA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * *
11404 CATTTTCCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
11459 CACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGG
1 CACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
11514 CAC
1 CAC
11517 TTTTTACTCC
Statistics
Matches: 1863, Mismatches: 120, Indels: 32
0.92 0.06 0.02
Matches are distributed among these distances:
54 4 0.00
55 156 0.08
56 7 0.00
57 3 0.00
58 28 0.02
59 1434 0.77
60 215 0.12
61 16 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (59 bp):
CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:10231 original size:414 final size:413
Alignment explanation
Indices: 9461--11516 Score: 3283
Period size: 414 Copynumber: 5.0 Consensus size: 413
9451 CTGGTGTCTA
* *
9461 CACCTTCAGTTCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
9526 CAGCCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* ***
9591 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTCCTCAAA
131 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAA
**
9656 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
195 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCGG
*
9721 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
260 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCC
*
9786 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
9851 TTTAAAGCCCACACAAGTTGGTGG
390 TTTAAAGCCCACACAAGTTGGTGG
* * *
9875 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGACCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
9940 CAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
*
10005 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
131 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
* * * *
10070 AGCGAGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTCCTCAAAGAGCGG
196 AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCGG
10135 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCC
260 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCC
10200 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
10265 TTTAAAGCCCACACAAGTTGGTGG
390 TTTAAAGCCCACACAAGTTGGTGG
10289 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
10354 CAGTTCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGCCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* *
10419 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
131 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
* * *
10484 AGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTCCTCAAAGAGCGG
196 AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCGG
*
10549 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCC
260 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCC
10614 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
10679 TTTAAAGCCCACACAAGTTGGTGG
390 TTTAAAGCCCACACAAGTTGGTGG
*
10703 CACCTTCAGTCCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
10768 CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
10833 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
131 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
**
10898 AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGG
196 AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCGGG
* ***
10963 ATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTCCTCAAAGAGCGGGATGCC
261 ATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGATGCC
*
11028 TTTTCTTTTAAAGCACACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCT
11093 TTTAAAGCCCACACAAGTTGGTGG
390 TTTAAAGCCCACACAAGTTGGTGG
* * * *
11117 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACAGAAGTTGGTAGCACTTT
1 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
11182 CAGTCTTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCTAGTTGGTGGCACC-TCAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * * * *
11246 TTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCCCAA
131 TCAAAGAGCGGGATGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAA
* ** * *
11311 AGAGCCGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGTCATTTTTCAGTCCCCAAAGAGC
194 AGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGC
* ** *
11371 AGGA--CAC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
258 GGGATGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGA
** *
11430 CACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC-
321 TGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCT
*
11489 TTTC----AAAGCCCACACGAGTTGGTGG
385 TTTCTTTTAAAGCCCACACAAGTTGGTGG
11514 CAC
1 CAC
11517 TTTTTACTCC
Statistics
Matches: 1556, Mismatches: 79, Indels: 31
0.93 0.05 0.02
Matches are distributed among these distances:
397 23 0.01
401 30 0.02
402 24 0.02
403 2 0.00
406 51 0.03
409 1 0.00
410 26 0.02
411 19 0.01
413 137 0.09
414 1224 0.79
415 19 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (413 bp):
CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCGGG
ATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCT
TTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTT
TTAAAGCCCACACAAGTTGGTGG
Found at i:10346 original size:473 final size:472
Alignment explanation
Indices: 9461--11516 Score: 3254
Period size: 473 Copynumber: 4.4 Consensus size: 472
9451 CTGGTGTCTA
* * *
9461 CACCTTCAGTTCTCAAAGGGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
9526 CAGCCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* ***
9591 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTCCTCAAA
131 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAA
9656 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
195 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
*
9721 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
260 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
*
9786 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCT
*
9851 TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAA
390 TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
*
9916 GACCACACAAGTTGGTGG
455 GCCCACACAAGTTGGTGG
*
9934 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
9999 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * ***
10064 TCAAAGAGCGAGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTCCTCAAA
131 TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAA
*
10129 GAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
195 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
*
10194 GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
260 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
*
10259 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCT
* * *
10324 TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTTCTCAAAGGGCGGGATGCCTTTTCTTTTAAA
390 TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
10389 GCCCACACAAGTTGGTGG
455 GCCCACACAAGTTGGTGG
*
10407 CACCTTCAGCCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * ***
10472 TAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
*
10537 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
130 CTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
*
10602 GAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
195 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* *
10667 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGGGCGGGATGCC
260 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
*
10732 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCT
*
10797 TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAA
390 TTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAA
10862 GCCCACACAAGTTGGTGG
455 GCCCACACAAGTTGGTGG
10880 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * ***
10945 CAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAGGTTGGTGGCGTTTTCCAGTC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
*
11010 CTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCACACACAAGTTGGTGGCACCTTCAGTCCTCAAA
130 CTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
11075 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
195 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGG
* * * *
11140 GACGCCTTTTCTTTTAAAGCCCACAGAAGTTGGTAGCACTTTCAGTCTTCAAAGAGCGGGACGCC
260 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCC
* * * *
11205 TTTTCTTTTAAAGCCCACCCTAGTTGGTGGCACC-TCAGTCCTTAAAGAGCAGGATGCTTTTTCT
325 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCT
* * * **
11269 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCCCAAAGAGCCGGAC-CC----CTTTCG
390 TTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTA
*
11329 AAGCCCACACAAGTTGGTGT
453 AAGCCCACACAAGTTGGTGG
** * * * **
11349 CATTTTTCAGTCCCCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTT
1 CA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
11409 TCCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
65 T-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAG
* * *
11469 TCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCAC
128 TCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
11517 TTTTTACTCC
Statistics
Matches: 1504, Mismatches: 73, Indels: 29
0.94 0.05 0.02
Matches are distributed among these distances:
456 22 0.01
460 4 0.00
461 44 0.03
462 2 0.00
463 2 0.00
465 30 0.02
466 20 0.01
469 26 0.02
470 20 0.01
472 30 0.02
473 1233 0.82
474 71 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (472 bp):
CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGG
ACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCT
TTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTT
TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAG
CCCACACAAGTTGGTGG
Found at i:12293 original size:21 final size:21
Alignment explanation
Indices: 12269--12324 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
12259 AATTTATCCA
12269 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
12290 AATGTGTCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
12311 AATGTATCGATACA
1 AATGTATCGATACA
12325 GGGTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:12384 original size:19 final size:19
Alignment explanation
Indices: 12360--12427 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
12350 AATTCAACAA
12360 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
12379 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
12394 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
12411 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
12428 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:12399 original size:13 final size:13
Alignment explanation
Indices: 12381--12405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12371 ACATAAGTTT
12381 TGTATCGATACAA
1 TGTATCGATACAA
12394 TGTATCGATACA
1 TGTATCGATACA
12406 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:12403 original size:32 final size:32
Alignment explanation
Indices: 12362--12424 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
12352 TTCAACAATT
*
12362 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
12394 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
12425 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:12485 original size:13 final size:13
Alignment explanation
Indices: 12467--12493 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12457 CATTTTTCTG
12467 TGTATCGATACAT
1 TGTATCGATACAT
12480 TGTATCGATACAT
1 TGTATCGATACAT
12493 T
1 T
12494 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15018 original size:28 final size:27
Alignment explanation
Indices: 14951--15020 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
14941 CTTCACAATC
* **
14951 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
14978 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
15006 GGGGATACTCCAACC
1 GGGGATACTCCAACC
15021 TTGACTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.20
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:15030 original size:109 final size:109
Alignment explanation
Indices: 14897--15442 Score: 395
Period size: 106 Copynumber: 5.1 Consensus size: 109
14887 TTCTATAATC
*
14897 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCC
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCC
*
14962 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
66 AACCCCGTTAATCATCGGGGAAACTCCAACCCCGTTATTTCCGA
* * *** * *
15006 GGGGATACTCCAAC-CTTGACTTTATTTCC--AAAATATTGATTT-TTCATAATCGGGGATACTC
1 GGGGATACTCCAACTC-CGACTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTC
* ** * * ** * *
15067 CAACCCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
65 CAACCCC-G-TTAATCATCGGGGAAACTCCAA--CCCCGTTATTTCCGA
* *
15109 GGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCC
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCC
15174 AACCCCGTTAATCATCGGGGAAACTCCAACCCCGTTATTTCCGA
66 AACCCCGTTAATCATCGGGGAAACTCCAACCCCGTTATTTCCGA
* *** * *
15218 GGGGATACTCCAAC-CTCGACTTTATTTCC--AAAATATTGATTT-TTCATAATCGGGGATACTC
1 GGGGATACTCCAACTC-CGACTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTC
* ** * * ** * *
15279 CAACCCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
65 CAACCCC-G-TTAATCATCGGGGAAACTCCAA--CCCCGTTATTTCCGA
* * * *
15321 GGGGATACTCCAACACCGA-TTTCATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTC
1 GGGGATACTCCAACTCCGACTTT-ATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTC
* * * * *
15383 CAACCTCGTTATTTCATCGAGGATACTCCAACCCCGTTACTTCCGA
65 CAACCCCGTTA-ATCATCGGGGAAACTCCAACCCCGTTATTTCCGA
* *
15429 GGGAACACTCCAAC
1 GGGGATACTCCAAC
15443 CCCGTTATTA
Statistics
Matches: 335, Mismatches: 70, Indels: 65
0.71 0.15 0.14
Matches are distributed among these distances:
102 5 0.01
103 53 0.16
104 46 0.14
105 33 0.10
106 83 0.25
107 39 0.12
108 26 0.08
109 50 0.15
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (109 bp):
GGGGATACTCCAACTCCGACTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCC
AACCCCGTTAATCATCGGGGAAACTCCAACCCCGTTATTTCCGA
Found at i:15065 original size:51 final size:52
Alignment explanation
Indices: 15006--15388 Score: 185
Period size: 52 Copynumber: 7.3 Consensus size: 52
14996 TTATTTCCGA
* * *** *
15006 GGGGATACTCCAACCTTGACTTTATTTCCAAAATATTGATTTTTC-ATAATC
1 GGGGATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTCCTATAATC
** * * *
15057 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTCCTATAATC
* *
15109 GGGGATACTCCAA-CTCTGATTTTATTTCCAAAAAACACCAA-TTTCTTCACAATC
1 GGGGATACTCCAACCT-TGATTTTATTTCC--AAAACACCAATTTTCCT-ATAATC
* ** * * ** * ** *
15163 GGGGACACTCCAACCCCG--TTAATCATCGGGGAAACTCCAA--CCCCGT-TATTTCC
1 GGGGATACTCCAACCTTGATTTTAT-TTC--CAAAACACCAATTTTCC-TATA-AT-C
* * * *** *
15216 GAGGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTTTC-ATAATC
1 --GGGGATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTCCTATAATC
** * * *
15269 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTCCTATAATC
* * * * *
15321 GGGGATACTCCAACAC-CGATTTCATTTCCAAAAATACCAATTTTTC-ACAATC
1 GGGGATACTCCAAC-CTTGATTTTATTTCC-AAAACACCAATTTTCCTATAATC
*
15373 GAGGATACTCCAACCT
1 GGGGATACTCCAACCT
15389 CGTTATTTCA
Statistics
Matches: 245, Mismatches: 64, Indels: 45
0.69 0.18 0.13
Matches are distributed among these distances:
51 74 0.30
52 80 0.33
53 33 0.13
54 32 0.13
55 19 0.08
56 3 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCTTGATTTTATTTCCAAAACACCAATTTTCCTATAATC
Found at i:15122 original size:52 final size:53
Alignment explanation
Indices: 14842--15387 Score: 234
Period size: 51 Copynumber: 10.4 Consensus size: 53
14832 AATTCTCCAC
* * * * *
14842 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTT-CTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* *
14893 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTT-CTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTTTCCTT--T
* * * *** * * ** *
14947 AATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTCCAA--CCCCGTT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACACCAATTTTCCTTT
* ** * * *** * *
14998 ATTTCCGAGGGGATACTCCAACCTTGACTTTATTTCC-AAAATATTGATTTTTC-AT
1 A-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* *
15053 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* * *
15105 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAA-TTT-CTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTTTCCTT--T
* * * *** * ** *
15159 AATCGGGGACACTCCAACCCCG--TTAATCATCGGGGAAACTCCAA--CCCCGTT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACACCAATTTTCCTTT
* * * * *** * *
15210 ATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCC-AAAATATTGATTTTTC-AT
1 A-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* *
15265 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
* * * * **
15317 AATCGGGGATACTCCAACACCGATTTCATTTCCAAAAATACCAATTTTTC-AC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
*
15369 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
15388 TCGTTATTTC
Statistics
Matches: 359, Mismatches: 103, Indels: 65
0.68 0.20 0.12
Matches are distributed among these distances:
51 104 0.29
52 95 0.26
53 53 0.15
54 58 0.16
55 35 0.10
56 6 0.02
57 8 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (53 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTTT
Found at i:15230 original size:28 final size:27
Alignment explanation
Indices: 15163--15232 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
15153 CTTCACAATC
* **
15163 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGAAACTCCAACCCCGTTAATCAGA
* *
15190 GGGGAAACTCCAACCCCGTTATTTCCGA
1 GGGGAAACTCCAACCCCGTTA-ATCAGA
*
15218 GGGGATACTCCAACC
1 GGGGAAACTCCAACC
15233 TCGACTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (27 bp):
GGGGAAACTCCAACCCCGTTAATCAGA
Found at i:15402 original size:28 final size:28
Alignment explanation
Indices: 15370--15451 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
15360 ATTTTTCACA
*
15370 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
15398 ATCGAGGATACTCCAACCCCGTTACTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
15426 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCGA-GG-ATACTCCAACCCCGTTATT
15452 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.06
27 2 0.04
28 43 0.90
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:15495 original size:212 final size:212
Alignment explanation
Indices: 14842--15443 Score: 1003
Period size: 212 Copynumber: 2.8 Consensus size: 212
14832 AATTCTCCAC
* * * * *
14842 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
14906 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
*
14971 AATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTTGACTTTATTTCCA
131 AATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCCA
15036 AAATATTGATTTTTCAT
196 AAATATTGATTTTTCAT
15053 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
*
15118 CCAACTCTGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
*
15183 AATCATCGGGGAAACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCCA
131 AATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCCA
15248 AAATATTGATTTTTCAT
196 AAATATTGATTTTTCAT
15265 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* * * * * *
15330 CCAACACCGATTTCATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
* * * * *
15393 ATTTCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACC
131 A-ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC
15444 CCGTTATTAT
Statistics
Matches: 368, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
210 27 0.07
211 99 0.27
212 242 0.66
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (212 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCCA
AAATATTGATTTTTCAT
Found at i:17565 original size:157 final size:152
Alignment explanation
Indices: 17277--17729 Score: 435
Period size: 158 Copynumber: 2.9 Consensus size: 152
17267 TCCTTAGGGC
* * ** * * *
17277 ATACCTTCAACATGAAAGTATCTTTGTTACCCTAATGGACTTTAAAATGATAATAAATGGGGTGA
1 ATACCTTCAACATAAAAGTATC-TTGTAACCCTAAAAGAC-TTGAAA-GATCATAAATGGGATGA
* * * ** * *
17342 ACCTATCCTAAATTCACATCTTTGGCATAAAAGCATCCCGATGACAACCTAGGACTCAGTTTTAG
63 ACCTATCCTAAATTC-CACCTTT-GCATAAAAGCATCTCG-GGACAAATTAGGACTCAATTCTAG
* ** *
17407 AACAATTATG-AAAATGCCCCTATGGGT
125 AAAAATTATGAAAAAAACCCCTATGAGT
*
17434 ATACCTTCAACATAAAAGTATCTTAGTAACCTTAAAAGACTTGAAAGGGATCATAAATGGGATGA
1 ATACCTTCAACATAAAAGTATCTT-GTAACCCTAAAAGACTTGAAA--GATCATAAATGGGATGA
* *
17499 ACCTATCCTAAATATCCACCTTTGACATAAAAGCATCTCAGGGACAAATTAGGATTTAATTCTAG
63 ACCTATCCTAAAT-TCCACCTTTG-CATAAAAGCATCTC-GGGACAAATTAGGACTCAATTCTAG
17564 AAAAATTATGAAAAAAACCCCTATGAGT
125 AAAAATTATGAAAAAAACCCCTATGAGT
** * * * *
17592 ATACCTTTGATATAAAAGTATCCTGATAACCCT-AAAGAACTTAAGAAAGATCATAAATGGAATA
1 ATACCTTCAACATAAAAGTATCTTG-TAACCCTAAAAG-ACTT--GAAAGATCATAAATGGGATG
* * *
17656 AACCTATCCTAAATGCCCACCTTTCGCTTAAAAGCATCTCGGTGA-AAACTTAGGACTCGATTCT
62 AACCTATCCTAAAT-TCCACCTTT-GCATAAAAGCATCTCGG-GACAAA-TTAGGACTCAATTCT
17720 AGAAAAATTA
123 AGAAAAATTA
17730 CAAAAATACC
Statistics
Matches: 248, Mismatches: 35, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
156 8 0.03
157 115 0.46
158 120 0.48
159 1 0.00
160 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (152 bp):
ATACCTTCAACATAAAAGTATCTTGTAACCCTAAAAGACTTGAAAGATCATAAATGGGATGAACC
TATCCTAAATTCCACCTTTGCATAAAAGCATCTCGGGACAAATTAGGACTCAATTCTAGAAAAAT
TATGAAAAAAACCCCTATGAGT
Found at i:18958 original size:20 final size:19
Alignment explanation
Indices: 18933--19001 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
18923 CTACCACTGT
18933 TTGTATCGATACATGGCATA
1 TTGTATCGATACATGGCA-A
18953 TTGTATCGAT--A---CAA
1 TTGTATCGATACATGGCAA
*
18967 -TGTATCGATACATGACAAA
1 TTGTATCGATACATGGC-AA
18986 TTGTATCGATACATGG
1 TTGTATCGATACATGG
19002 TCCCAAACAG
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.22
14 1 0.02
15 3 0.07
18 2 0.05
19 2 0.05
20 24 0.59
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGGCAA
Found at i:18971 original size:33 final size:33
Alignment explanation
Indices: 18934--18998 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
18924 TACCACTGTT
* *
18934 TGTATCGATACATGGCATATTGTATCGATACAA
1 TGTATCGATACATGACAAATTGTATCGATACAA
18967 TGTATCGATACATGACAAATTGTATCGATACA
1 TGTATCGATACATGACAAATTGTATCGATACA
18999 TGGTCCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTGTATCGATACAA
Found at i:18972 original size:13 final size:13
Alignment explanation
Indices: 18954--18978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18944 CATGGCATAT
18954 TGTATCGATACAA
1 TGTATCGATACAA
18967 TGTATCGATACA
1 TGTATCGATACA
18979 TGACAAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:20615 original size:15 final size:15
Alignment explanation
Indices: 20595--20629 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
20585 AACCAACAAA
20595 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
20610 GATGATGATGATAAT
1 GATGATGAAGATAAT
20625 GATGA
1 GATGA
20630 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:26220 original size:13 final size:13
Alignment explanation
Indices: 26202--26228 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26192 TACAATGAAG
26202 ATGTATCGATACA
1 ATGTATCGATACA
26215 ATGTATCGATACA
1 ATGTATCGATACA
26228 A
1 A
26229 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:26224 original size:32 final size:33
Alignment explanation
Indices: 26183--26247 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
26173 AAATTTGTCC
* *
26183 ATGTATCGATACAATGAAG-ATGTATCGATACA
1 ATGTATCGATACAAAGAAGCATGTATCAATACA
*
26215 ATGTATCGATACAAAGCAGCATGTATCAATACA
1 ATGTATCGATACAAAGAAGCATGTATCAATACA
26248 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAGCATGTATCAATACA
Found at i:26847 original size:50 final size:51
Alignment explanation
Indices: 26774--26875 Score: 188
Period size: 50 Copynumber: 2.0 Consensus size: 51
26764 TTTTCCCTTA
*
26774 AAAAAATTCTCCCCTTTAAATGATTATCTTCT-CCCCTTATGTAAAAATTT
1 AAAAAATTCTCCCCCTTAAATGATTATCTTCTCCCCCTTATGTAAAAATTT
26824 AAAAAATTCTCCCCCTTAAATGATTATCTTCTCCCCCTTATGTAAAAATTT
1 AAAAAATTCTCCCCCTTAAATGATTATCTTCTCCCCCTTATGTAAAAATTT
26875 A
1 A
26876 TTTTCACATA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 31 0.62
51 19 0.38
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (51 bp):
AAAAAATTCTCCCCCTTAAATGATTATCTTCTCCCCCTTATGTAAAAATTT
Found at i:28719 original size:13 final size:13
Alignment explanation
Indices: 28701--28768 Score: 118
Period size: 13 Copynumber: 5.2 Consensus size: 13
28691 AAATAGTACC
28701 CAATGTATCGATA
1 CAATGTATCGATA
28714 CAATGTATCGATA
1 CAATGTATCGATA
*
28727 TAATGTATCGATA
1 CAATGTATCGATA
28740 CAATGTATCGATA
1 CAATGTATCGATA
*
28753 TAATGTATCGATA
1 CAATGTATCGATA
28766 CAA
1 CAA
28769 GGAATGTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:28731 original size:26 final size:26
Alignment explanation
Indices: 28702--28768 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
28692 AATAGTACCC
28702 AATGTATCGATACAATGTATCGATAT
1 AATGTATCGATACAATGTATCGATAT
28728 AATGTATCGATACAATGTATCGATAT
1 AATGTATCGATACAATGTATCGATAT
28754 AATGTATCGATACAA
1 AATGTATCGATACAA
28769 GGAATGTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (26 bp):
AATGTATCGATACAATGTATCGATAT
Found at i:32338 original size:50 final size:49
Alignment explanation
Indices: 32263--32537 Score: 349
Period size: 43 Copynumber: 5.8 Consensus size: 49
32253 GGGGACGAAT
32263 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTTAAG
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT-CATCTTTAAG
*
32313 TCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----C--CTTTAAG
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAG
* *
32356 TCCATTGTAGTTGGCCTTGAATCAGCACATTGGCATCTTTCATCTTTAAG
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC-TTCATCTTTAAG
32406 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAG
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAG
* * *
32449 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAG
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TCTTCATCTTTAAG
* *
32501 TTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
32538 CTTTTTCTCA
Statistics
Matches: 196, Mismatches: 13, Indels: 33
0.81 0.05 0.14
Matches are distributed among these distances:
43 79 0.40
45 2 0.01
48 1 0.01
49 1 0.01
50 75 0.38
52 38 0.19
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (49 bp):
TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAG
Found at i:32427 original size:93 final size:93
Alignment explanation
Indices: 32263--32531 Score: 448
Period size: 93 Copynumber: 2.9 Consensus size: 93
32253 GGGGACGAAT
*
32263 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTTAAGTCCAATGTAGCTGGC
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTTCATCTTTAAGTCCAATGTAGCTGGC
32328 CTTGAATCAGCACATTAGCACCTTTAAG
66 CTTGAATCAGCACATTAGCACCTTTAAG
* *
32356 TCCATTGTAGTTGGCCTTGAATCAGCACATTGGCATCTTTCATCTTTAAGTCCAATGTAGCTGGC
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTTCATCTTTAAGTCCAATGTAGCTGGC
*
32421 CTTGAATCAGCACATTGGCACCTTTAAG
66 CTTGAATCAGCACATTAGCACCTTTAAG
* * * *
32449 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTTCAATGTAGCTG
1 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTTTCATCTTTAAGTCCAATGTAGCTG
32514 GCCTTGAATCAGCACATT
64 GCCTTGAATCAGCACATT
32532 GACATCCTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 120 0.73
95 44 0.27
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (93 bp):
TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTTCATCTTTAAGTCCAATGTAGCTGGC
CTTGAATCAGCACATTAGCACCTTTAAG
Found at i:32520 original size:52 final size:52
Alignment explanation
Indices: 32442--32603 Score: 191
Period size: 52 Copynumber: 3.1 Consensus size: 52
32432 ACATTGGCAC
32442 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
* * * *
32494 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTT-TCAT
* * * * * * *
32549 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
32600 CTTT
1 CTTT
32604 TCTCACCTTC
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
51 4 0.04
52 41 0.45
53 5 0.05
54 5 0.05
55 37 0.40
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
Found at i:32752 original size:52 final size:53
Alignment explanation
Indices: 32640--32764 Score: 139
Period size: 52 Copynumber: 2.4 Consensus size: 53
32630 TTGCTGGCCT
* * * * *
32640 TGAATCCGCATATTGGCATCTTCGTCATCTTTGAAACCCAATGTCGTTGGCCT
1 TGAATCAGCATATTGGCATCTTCGTCATCTTTCAAACCCAATGTCGCTGACCG
* *
32693 TGAATCAGCAGATTGGCATTCTTC-TCATC-TTCAAGA-CTAATGTCGCTGACCG
1 TGAATCAGCATATTGGCA-TCTTCGTCATCTTTCAA-ACCCAATGTCGCTGACCG
*
32745 TGAATCAGCATATTGACATC
1 TGAATCAGCATATTGGCATC
32765 CTTTTTCTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.03
52 32 0.52
53 22 0.36
54 5 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (53 bp):
TGAATCAGCATATTGGCATCTTCGTCATCTTTCAAACCCAATGTCGCTGACCG
Found at i:32779 original size:227 final size:228
Alignment explanation
Indices: 32460--32875 Score: 599
Period size: 227 Copynumber: 1.8 Consensus size: 228
32450 CCAATATAGC
* * * * *
32460 TGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCAGATTGGCA-CTTTTTCATCTTCAAGCTCAATGTAGCTGACCGTGAATCA
* *
32525 GCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGG-
65 GCACATTGACATCCTTTTTCTCATCTTTAAACCCAAAATCGTTGGCCGTGAATCAACATATTGGT
* *
32589 CATCTTTATCACTTTTCTCA-CCT-TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCCGCATA
130 CAT-TTTATCACTTTTCTCATCCTATCATCTTTAAGTCCAATATTACAGGCCTTGAATCCGCATA
32652 TTGGCATCTTCGTCATCTTTGAAACCCAATGTCGT
194 TTGGCATCTTCGTCATCTTTGAAACCCAATGTCGT
*
32687 TGGCCTTGAATCAGCAGATTGGCA-TTCTTCTCATCTTCAAGACT-AATGTCGCTGACCGTGAAT
1 TGGCCTTGAATCAGCAGATTGGCACTT-TT-TCATCTTCAAG-CTCAATGTAGCTGACCGTGAAT
* * *
32750 CAGCATATTGACATCCTTTTTCTCATCTTTAAACCCAAAATCGTTGGTCGTGAATCAACGTATTG
63 CAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAAAATCGTTGGCCGTGAATCAACATATTG
* * *
32815 GTCCTTTTATCACTTTTCTCATCCTCATCATCTTTAAGTCCAGTGTTACAGGCCTTGAATC
128 GTCATTTTATCACTTTTCTCATCCT-ATCATCTTTAAGTCCAATATTACAGGCCTTGAATC
32876 TACACACTGG
Statistics
Matches: 166, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
225 2 0.01
226 2 0.01
227 126 0.76
228 6 0.04
230 30 0.18
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (228 bp):
TGGCCTTGAATCAGCAGATTGGCACTTTTTCATCTTCAAGCTCAATGTAGCTGACCGTGAATCAG
CACATTGACATCCTTTTTCTCATCTTTAAACCCAAAATCGTTGGCCGTGAATCAACATATTGGTC
ATTTTATCACTTTTCTCATCCTATCATCTTTAAGTCCAATATTACAGGCCTTGAATCCGCATATT
GGCATCTTCGTCATCTTTGAAACCCAATGTCGT
Found at i:33436 original size:32 final size:32
Alignment explanation
Indices: 33399--33466 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
33389 TTCAACAATT
*
33399 TGTATCGATACATAAGTGTTGTGTCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
33431 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
33463 TGTA
1 TGTA
33467 CAGTTACGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:33532 original size:13 final size:13
Alignment explanation
Indices: 33514--33538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33504 ATTATTCAAA
33514 TGTATCGATACAT
1 TGTATCGATACAT
33527 TGTATCGATACA
1 TGTATCGATACA
33539 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:39601 original size:13 final size:13
Alignment explanation
Indices: 39583--39609 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39573 TACAGTGAAC
39583 ATGTATCGATACA
1 ATGTATCGATACA
39596 ATGTATCGATACA
1 ATGTATCGATACA
39609 A
1 A
39610 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:42307 original size:20 final size:19
Alignment explanation
Indices: 42261--42317 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
42251 TTGTATCGAT
* *
42261 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGC
*
42280 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
42299 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
42318 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:42410 original size:33 final size:33
Alignment explanation
Indices: 42347--42411 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
42337 TACCACTAAT
* * *
42347 TGTATCGATACATGGCACATTATATTGATACAA
1 TGTATCGATACATGACAAATTATATCGATACAA
* *
42380 TGTATCGATATATGACAAATTGTATCGATACA
1 TGTATCGATACATGACAAATTATATCGATACA
42412 TTGTCCCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTATATCGATACAA
Found at i:43333 original size:97 final size:97
Alignment explanation
Indices: 43195--43409 Score: 283
Period size: 97 Copynumber: 2.2 Consensus size: 97
43185 ACCCTCGGAG
* * * * *
43195 GAATGGGGTTAGAGTATCCCCCACGATGATAATTTAGGCAAAAATAAGATTTGAATCGTGACAAG
1 GAATGGGGTTAGAGTATCCCCGACGATGACAATTTAAGCAAAAATAAAATTTAAATCGTGACAAG
*
43260 TTT-AAAAAAATAGTTGGAGTA-TCCCATCGAAA
66 TTTGAAAAAAA-AGTTGGAGTATTCCC-TCAAAA
* * *
43292 GAATGGGGTTAGGGTATCCCCGATGATGACAATTTAAGCAAAAATAAAATTTAAATCTTGACAAG
1 GAATGGGGTTAGAGTATCCCCGACGATGACAATTTAAGCAAAAATAAAATTTAAATCGTGACAAG
** *
43357 TTTGAAAACGAGGTTGGAGTATTCCCTCAAAA
66 TTTGAAAAAAAAGTTGGAGTATTCCCTCAAAA
43389 GAATGGGGTT-GAGTATCCCCG
1 GAATGGGGTTAGAGTATCCCCG
43410 TGAATAAAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
96 10 0.10
97 84 0.82
98 9 0.09
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (97 bp):
GAATGGGGTTAGAGTATCCCCGACGATGACAATTTAAGCAAAAATAAAATTTAAATCGTGACAAG
TTTGAAAAAAAAGTTGGAGTATTCCCTCAAAA
Found at i:48131 original size:25 final size:24
Alignment explanation
Indices: 48102--48167 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 24
48092 TGAAACATTT
48102 AAAAATATTTTAATAATGTATACTT-C
1 AAAAATATTTTAA-AAT-TATA-TTGC
48128 -AAAATAATATTTAAAATTATATTGC
1 AAAAAT-AT-TTTAAAATTATATTGC
48153 AAATAATATTTTAAA
1 AAA-AATATTTTAAA
48168 TAAATAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
24 2 0.06
25 16 0.46
26 9 0.26
27 8 0.23
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (24 bp):
AAAAATATTTTAAAATTATATTGC
Found at i:48168 original size:12 final size:12
Alignment explanation
Indices: 48128--48170 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
48118 TGTATACTTC
48128 AAAATAATATTT
1 AAAATAATATTT
* *
48140 AAAATTATATTG
1 AAAATAATATTT
*
48152 CAAATAATATTT
1 AAAATAATATTT
*
48164 TAAATAA
1 AAAATAA
48171 ATAATTTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:48280 original size:16 final size:17
Alignment explanation
Indices: 48250--48282 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
48240 TAAAAATATA
48250 TTATATTTATTTAATTT
1 TTATATTTATTTAATTT
48267 TTATATTT-TTTAATTT
1 TTATATTTATTTAATTT
48283 ATAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTATTTAATTT
Found at i:48781 original size:20 final size:20
Alignment explanation
Indices: 48752--48823 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
48742 TACCCAGATA
48752 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * *
48772 TATC-AGTACATGTGTGAATG
1 TATCGA-TACATTTTTCAATG
*
48792 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
48812 TATCGATACATT
1 TATCGATACATT
48824 CTGTCTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:49558 original size:21 final size:21
Alignment explanation
Indices: 49534--49574 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
49524 TATCTTGTTA
49534 GTATATTTTCTAATCTTTTCG
1 GTATATTTTCTAATCTTTTCG
49555 GTATATTTTCTAATCTTTTC
1 GTATATTTTCTAATCTTTTC
49575 ACTTTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.59
Consensus pattern (21 bp):
GTATATTTTCTAATCTTTTCG
Found at i:58984 original size:17 final size:16
Alignment explanation
Indices: 58964--58999 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
58954 AAATAATCAA
58964 TAAATAGAAAATATAAT
1 TAAATA-AAAATATAAT
58981 TAAAATAAAAATATAAT
1 T-AAATAAAAATATAAT
58998 TA
1 TA
59000 CATCTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 12 0.67
18 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAATAAAAATATAAT
Found at i:59756 original size:13 final size:13
Alignment explanation
Indices: 59738--59783 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
59728 TAAAAGTTAG
59738 TTATATATTTATA
1 TTATATATTTATA
59751 TTATAT-TTATATA
1 TTATATATT-TATA
*
59764 TT-TATTTTTATTA
1 TTATATATTTA-TA
59777 TTATATA
1 TTATATA
59784 AAGATATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 7 0.25
13 18 0.64
14 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:60129 original size:18 final size:19
Alignment explanation
Indices: 60108--60149 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
60098 CCTTTGTTAA
60108 TTATTAATTA-TTAATTTT
1 TTATTAATTATTTAATTTT
**
60126 TTATTTTTTATTTAATTTT
1 TTATTAATTATTTAATTTT
60145 TTATT
1 TTATT
60150 TATACTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTAATTATTTAATTTT
Found at i:60160 original size:17 final size:18
Alignment explanation
Indices: 60118--60170 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
60108 TTATTAATTA
* *
60118 TTAATTTTTTATTTTTTAT
1 TTAATTTTTTA-TTTATAC
60137 TTAATTTTTTATTTATAC
1 TTAATTTTTTATTTATAC
*
60155 TT-ATTTTTTAATTATA
1 TTAATTTTTTATTTATA
60171 AAATAATGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 13 0.42
18 7 0.23
19 11 0.35
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTAATTTTTTATTTATAC
Found at i:60162 original size:18 final size:19
Alignment explanation
Indices: 60118--60164 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
60108 TTATTAATTA
* *
60118 TTAATTTTTTATTTTTTAT
1 TTAATTTTTTATTTTATAC
60137 TTAATTTTTTA-TTTATAC
1 TTAATTTTTTATTTTATAC
60155 TT-ATTTTTTA
1 TTAATTTTTTA
60165 ATTATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTAATTTTTTATTTTATAC
Found at i:60399 original size:144 final size:146
Alignment explanation
Indices: 60250--60524 Score: 378
Period size: 144 Copynumber: 1.9 Consensus size: 146
60240 TATAATTCAA
* **
60250 GTATATGCTAAATATTCTAAACTAATCATTAATCAAATATTTTAACTTTGAGATAAATGTATTAT
1 GTATATGCTAAATATTCTAAACTAATCATTAATC-AATATATTAAAGTTGAGATAAATGTATTAT
* *
60315 -TTTTTTATTTGAAAT-AATTAATAAAATTATTT-AAAAA-TTTAGTTATAAAAGAAATTGATTA
65 GTTTCTTATTTGAAATAAATTAATAAAATTATTTCAAAAAGTTTAGTGAT-AAAGAAATTGATTA
60376 AAATCAGTTCTAGTGGAG
129 AAATCAGTTCTAGTGGAG
* * * * ** * *
60394 GTATATGTTAAATATTTTTAACTTATTTTTATTCAATATATTAAAGTTGAGATGAATGTATTATG
1 GTATATGCTAAATATTCTAAACTAATCATTAATCAATATATTAAAGTTGAGATAAATGTATTATG
*
60459 TTTCTTATTTGAAATAAATTAATAAAATTATTTCAAAAAGTTTAGTGATAAAGAAATTTATTAAA
66 TTTCTTATTTGAAATAAATTAATAAAATTATTTCAAAAAGTTTAGTGATAAAGAAATTGATTAAA
60524 A
131 A
60525 CCAAAAAATG
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
143 26 0.23
144 41 0.36
145 17 0.15
146 21 0.19
147 8 0.07
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (146 bp):
GTATATGCTAAATATTCTAAACTAATCATTAATCAATATATTAAAGTTGAGATAAATGTATTATG
TTTCTTATTTGAAATAAATTAATAAAATTATTTCAAAAAGTTTAGTGATAAAGAAATTGATTAAA
ATCAGTTCTAGTGGAG
Found at i:60732 original size:2 final size:2
Alignment explanation
Indices: 60727--60771 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
60717 TCTTCTCCTT
60727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60769 TA T
1 TA T
60772 TATTTTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63725 original size:31 final size:31
Alignment explanation
Indices: 63690--63751 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
63680 ACCCTCCCAT
63690 TGGGTGTTTATCCAGTGACATAATTTTGGAA
1 TGGGTGTTTATCCAGTGACATAATTTTGGAA
63721 TGGGTGTTTATCCAGTGACATAATTTTGGAA
1 TGGGTGTTTATCCAGTGACATAATTTTGGAA
63752 AGGATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (31 bp):
TGGGTGTTTATCCAGTGACATAATTTTGGAA
Found at i:67739 original size:19 final size:19
Alignment explanation
Indices: 67692--67762 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
67682 ATTTCAATAA
*
67692 TTTGTATCGATACATTCAGT
1 TTTGTATCGATACA-TAAGT
**
67712 AAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
67732 TTTGTATCGATACATAAG-
1 TTTGTATCGATACATAAGT
67750 -TTGTATCGATACA
1 TTTGTATCGATACA
67763 ATGTATCGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
17 13 0.29
19 16 0.36
20 4 0.09
21 12 0.27
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:67813 original size:21 final size:21
Alignment explanation
Indices: 67787--67828 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
67777 AGCTACTGCC
67787 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
67808 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
67829 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:67833 original size:13 final size:13
Alignment explanation
Indices: 67815--67840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67805 ATTAAGGAAA
67815 TGTATCGATACAT
1 TGTATCGATACAT
67828 TGTATCGATACAT
1 TGTATCGATACAT
67841 CAATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70264 original size:52 final size:53
Alignment explanation
Indices: 70196--70329 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 53
70186 TTAAGTTTCT
* *
70196 CAATTGTTCA-TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
1 CAATTTTTCACTAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
*
70247 CAATTTTTC-CTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTCAC-TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
*
70300 CAATTTTTCAC-AATCGAGGATACTCCAACC
1 CAATTTTTCACTAATCGGGGATACTCCAACC
70330 TCGTTATTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
51 8 0.11
52 49 0.66
53 16 0.22
54 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (53 bp):
CAATTTTTCACTAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:70348 original size:28 final size:28
Alignment explanation
Indices: 70312--70388 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
70302 ATTTTTCACA
* **
70312 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
*
70340 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
70368 --CGAAGGGATACTCCAACCTCG
1 ATCG--GGGATACTCCAACCTCG
70389 GCTTTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACCTC
Found at i:70476 original size:79 final size:77
Alignment explanation
Indices: 70342--70544 Score: 203
Period size: 79 Copynumber: 2.6 Consensus size: 77
70332 GTTATTTCAT
** * * *
70342 CGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCTCGGCTTTATTTTCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC-C-GATTTATTTTC-AAATCA
* * *
70406 TTGATTTCTCATAAT
63 TCGATTTCTCACAAC
* * * *
70421 TGGGGATACTACAACCCCATTATTTCTGAGGGGATACTCCAATCCCGATTCTATTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAA-CCCGATT-TATTTTCAAATCAT
*
70486 CGATTTTTCACAAC
64 CGATTTCTCACAAC
* *
70500 CGGGGATACTCCAACCTCGTTATTT-TCAAGGGGATACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCC
70545 CGTTATTATC
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
78 10 0.10
79 90 0.88
80 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCGATTTATTTTCAAATCATCG
ATTTCTCACAAC
Found at i:74996 original size:121 final size:123
Alignment explanation
Indices: 74773--75007 Score: 366
Period size: 121 Copynumber: 1.9 Consensus size: 123
74763 TAGGTAGTTA
*
74773 TTTTTAAAATTAATAGACCTAAATACCCTAATTTCATTTTGTTGCTATATAAGTTTAATTTTACT
1 TTTTTAAAATTAATAAACCTAAATACCCTAATTTCATTTTGTTGC-ATATAAGTTTAATTTTACT
74838 TTTACATAATTTCTTTAATCAAATTTAGGTCACATGATTCATGACATTAGCTTAATTAC
65 TTTACATAATTTCTTTAATCAAATTTAGGTCACATGATTCATGACATTAGCTTAATTAC
* * *
74897 TTTTT-AAATTAATAAATCTAAATACTCTAATTTTATTTTGTTGC-TATAAGTTTAATTTTACTT
1 TTTTTAAAATTAATAAACCTAAATACCCTAATTTCATTTTGTTGCATATAAGTTTAATTTTACTT
* * * * *
74960 TTATATAATTTTTTTAATCGAATTTATGTCATATGATTCATGACATTA
66 TTACATAATTTCTTTAATCAAATTTAGGTCACATGATTCATGACATTA
75008 ACTCCATATT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
121 62 0.61
123 35 0.34
124 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.49
Consensus pattern (123 bp):
TTTTTAAAATTAATAAACCTAAATACCCTAATTTCATTTTGTTGCATATAAGTTTAATTTTACTT
TTACATAATTTCTTTAATCAAATTTAGGTCACATGATTCATGACATTAGCTTAATTAC
Found at i:75322 original size:11 final size:11
Alignment explanation
Indices: 75306--75330 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75296 AGTGATAAAT
75306 ATTCTAATTAA
1 ATTCTAATTAA
75317 ATTCTAATTAA
1 ATTCTAATTAA
75328 ATT
1 ATT
75331 ATATTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTCTAATTAA
Found at i:75750 original size:20 final size:20
Alignment explanation
Indices: 75725--75776 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
75715 TTTTCAGTTA
*
75725 ATATATGTATACATACATAT
1 ATATATGTATAAATACATAT
*
75745 ATATATGTATAAATATATAT
1 ATATATGTATAAATACATAT
* *
75765 GTATATATATAA
1 ATATATGTATAA
75777 TCTATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (20 bp):
ATATATGTATAAATACATAT
Found at i:75760 original size:14 final size:14
Alignment explanation
Indices: 75743--75775 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
75733 ATACATACAT
75743 ATATATATGTATAA
1 ATATATATGTATAA
*
75757 ATATATATGTATAT
1 ATATATATGTATAA
75771 ATATA
1 ATATA
75776 ATCTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
ATATATATGTATAA
Found at i:77255 original size:69 final size:68
Alignment explanation
Indices: 77130--77261 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 68
77120 TAATAATTGT
* *
77130 TATATATATATATATATATATGTTGTTCATACTTGGATAATAATTGTTGAACCAAATTTTTGTAG
1 TATATATATATATATATATATGTTGTTCATACTTGGATAATAATTGTTGAAACAAATTGTTGTAG
77195 ATA
66 ATA
* *
77198 TATATATATATATATATATTTGGTT-TTGGATACTTGGATAATAATTGTTGAAACAAATTGTTGT
1 TATATATATATATATATATAT-GTTGTT-CATACTTGGATAATAATTGTTGAAACAAATTGTTGT
77262 TAATAAGGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
68 22 0.38
69 36 0.62
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.46
Consensus pattern (68 bp):
TATATATATATATATATATATGTTGTTCATACTTGGATAATAATTGTTGAAACAAATTGTTGTAG
ATA
Found at i:79298 original size:32 final size:33
Alignment explanation
Indices: 79241--79302 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
79231 TACAAGCCAA
**
79241 TGTATCGATACAATTTTTGGTGTATCGATAAAT
1 TGTATCGATACAATACTTGGTGTATCGATAAAT
79274 TGTATCGATAC-ATACTTGGTGTATCGATA
1 TGTATCGATACAATACTTGGTGTATCGATA
79303 CAAGTTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATAAAT
Found at i:79311 original size:19 final size:18
Alignment explanation
Indices: 79241--79311 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
79231 TACAAGCCAA
79241 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
79261 TGTATCGATA-AA--T--
1 TGTATCGATACAATTTGG
*
79274 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
79293 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
79312 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 10 0.23
14 1 0.02
15 2 0.05
17 1 0.02
18 1 0.02
19 18 0.42
20 10 0.23
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:79985 original size:20 final size:20
Alignment explanation
Indices: 79940--79991 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
79930 GTAGCCAAAC
* **
79940 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
79960 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
79979 TTGTATCGATACA
1 TTGTATCGATACA
79992 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:84055 original size:15 final size:15
Alignment explanation
Indices: 84035--84065 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84025 TAAAAATGTC
*
84035 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
84050 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
84065 C
1 C
84066 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:86302 original size:20 final size:20
Alignment explanation
Indices: 86259--86304 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
86249 AAATCTTTTG
86259 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
86280 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
86300 CAAAA
1 CAAAA
86305 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:88725 original size:13 final size:13
Alignment explanation
Indices: 88707--88732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88697 TACACAAAGT
88707 ATGTATCGATACA
1 ATGTATCGATACA
88720 ATGTATCGATACA
1 ATGTATCGATACA
88733 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88730 original size:32 final size:33
Alignment explanation
Indices: 88689--88752 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
88679 TAGCCAAACT
**
88689 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
88721 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
88753 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:93557 original size:50 final size:50
Alignment explanation
Indices: 93453--93572 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 50
93443 AAATTTCTAG
* * * * **
93453 ATTTTTCATCTCGAGGATACTCCAACCCCGGCTTTATGTCTAAAATATTG
1 ATTTTTCATATCGGGGATACTCCAACCCCGGCTTTATGTCCAAAACATCA
* * * *
93503 ATTTTTCATTTCGGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCA
1 ATTTTTCATATCGGGGATACTCCAACCCCGGCTTTATGTCCAAAACATCA
93553 ATTTTTCATAATCGGGGATA
1 ATTTTTCAT-ATCGGGGATA
93573 TTTCAATCCC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 50 0.85
51 9 0.15
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (50 bp):
ATTTTTCATATCGGGGATACTCCAACCCCGGCTTTATGTCCAAAACATCA
Found at i:93616 original size:129 final size:128
Alignment explanation
Indices: 93467--93790 Score: 524
Period size: 129 Copynumber: 2.5 Consensus size: 128
93457 TTCATCTCGA
* *
93467 GGATACTCCAACCCCGGCTTTATGTCTAAAATATTGATTTTTCATTTCGGGGATACTCTAACCCC
1 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCATTTCGGGGATACTCCAACCCC
* *
93532 GGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATATTTCAATCCCGTTATTTTCGAGG
66 GGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTTA-TTTCGAGG
*
93596 GGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTTTCATCTT-GGGGATACTCCAACCC
1 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCAT-TTCGGGGATACTCCAACCC
*
93660 CAGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCGAGG
65 CGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCGAGG
* * **
93724 AGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCA-TTTCGGGGATACTCCAACCC
93789 CG
65 CG
93791 TTATTTTGGC
Statistics
Matches: 180, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
128 50 0.28
129 128 0.71
130 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (128 bp):
GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTTTCATTTCGGGGATACTCCAACCCC
GGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCGAGG
Found at i:93649 original size:50 final size:51
Alignment explanation
Indices: 93594--93707 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 51
93584 TTATTTTCGA
* * ** * *
93594 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTTTCAT-CTT
1 GGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCAATTTTTCATAATC
*
93644 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCAATTTTTCATAATC
93695 GGGGATACTCCAA
1 GGGGATACTCCAA
93708 TCCCGTTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 42 0.75
51 14 0.25
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCAATTTTTCATAATC
Found at i:93776 original size:78 final size:79
Alignment explanation
Indices: 93644--93894 Score: 344
Period size: 79 Copynumber: 3.2 Consensus size: 79
93634 TTTTCATCTT
* * * * *
93644 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATCGATTTTTCATAATCGGGGATACTCCAAC
93709 CCCGTTA-TTTCGA
66 CCCGTTATTTTCGA
* * * * *
93722 GGAGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATCGATTTTTCATAATCGGGGATACTCCAAC
* *
93787 CCCGTTATTTTGGC
66 CCCGTTATTTTCGA
* * *
93801 GGGGATACTCCAACCCCAACCTTATTTCTAAAGCT-TCGATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCAGCTTTATTTCTAAA-ATATCGATTTTTCATAATCGGGGATACTCCAA
93865 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
93880 GGGGATACTCCAACC
1 GGGGATACTCCAACC
93895 TCGATTTTCT
Statistics
Matches: 149, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
78 62 0.42
79 86 0.58
80 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (79 bp):
GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATCGATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:99744 original size:19 final size:21
Alignment explanation
Indices: 99696--99749 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
99686 AATTTCAATA
99696 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
99717 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
99737 -TTTGTATCGATAC
1 ATTTGTATCGATAC
99750 GTATCTGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 11 0.39
20 3 0.11
21 14 0.50
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:99819 original size:13 final size:13
Alignment explanation
Indices: 99801--99828 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99791 GCCAAGGAAA
99801 TGTATCGATACAT
1 TGTATCGATACAT
99814 TGTATCGATACAT
1 TGTATCGATACAT
99827 TG
1 TG
99829 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:103860 original size:21 final size:21
Alignment explanation
Indices: 103827--103867 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
103817 CTAAGTAAAA
103827 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
103848 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
103868 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:103931 original size:21 final size:20
Alignment explanation
Indices: 103904--103960 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
103894 AAAACCCTAA
**
103904 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
103924 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
103945 ATAGTATCGATACACA
1 AAAGTATCGATACACA
103961 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:104029 original size:53 final size:53
Alignment explanation
Indices: 103948--104084 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
103938 AGATTGCATA
*
103948 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACA-AAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
* *
104002 GTATCGATACACATAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
104055 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACAAAATATGTATCGATACA
104085 TTGGTAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:104159 original size:21 final size:22
Alignment explanation
Indices: 104126--104180 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
104116 CATCACTATT
*
104126 CATCAATGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
104148 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
104169 CATCACTGTTCA
1 CATCACTGTTCA
104181 CACTATTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:104259 original size:13 final size:13
Alignment explanation
Indices: 104237--104275 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
104227 TCACTATTCA
104237 TGTATCGATACAT
1 TGTATCGATACAT
* *
104250 TGTATTGATACAG
1 TGTATCGATACAT
104263 TGTATCGATACAT
1 TGTATCGATACAT
104276 CATAAATAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105933 original size:21 final size:21
Alignment explanation
Indices: 105907--105948 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
105897 AATCAACCGT
* *
105907 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
105928 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
105949 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:109364 original size:81 final size:81
Alignment explanation
Indices: 109229--109399 Score: 310
Period size: 81 Copynumber: 2.1 Consensus size: 81
109219 ATTATAGGTT
*
109229 ACGATCTTTGATGAAACGGAGAGTATTATGGATCAACGGCCTTGAGATAATTGGTAAGATCATAA
1 ACGATCTTTGATGAAACGGAGAGTATTATGGATCAACGGCCTTAAGATAATTGGTAAGATCATAA
*
109294 AACGTTTCCGAAATTG
66 AACGTTTCAGAAATTG
109310 ACGATCTTTGATGAAACGGAGAGTATTATGGATCAACGGCCTTAAGATAATTGGTAAGATCATAA
1 ACGATCTTTGATGAAACGGAGAGTATTATGGATCAACGGCCTTAAGATAATTGGTAAGATCATAA
109375 AACGTTTCAGAAATTG
66 AACGTTTCAGAAATTG
109391 -C-ATCTTTGA
1 ACGATCTTTGA
109400 AATTCTTTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
79 8 0.09
80 1 0.01
81 79 0.90
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (81 bp):
ACGATCTTTGATGAAACGGAGAGTATTATGGATCAACGGCCTTAAGATAATTGGTAAGATCATAA
AACGTTTCAGAAATTG
Found at i:109712 original size:21 final size:21
Alignment explanation
Indices: 109679--109719 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109669 CTAAGTAAAA
109679 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
109700 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
109720 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:109785 original size:21 final size:20
Alignment explanation
Indices: 109756--109812 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
109746 AAAACCTTGA
**
109756 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
109776 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
109797 ATAGTATCGATACACA
1 AAAGTATCGATACACA
109813 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:109883 original size:53 final size:53
Alignment explanation
Indices: 109800--109936 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
109790 AGATTGCATA
*
109800 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
109854 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
109907 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
109937 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:110011 original size:21 final size:22
Alignment explanation
Indices: 109978--110032 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
109968 CATCACTATT
*
109978 CATCAATGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
110000 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
110021 CATCACTGTTCA
1 CATCACTGTTCA
110033 CACTATTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:110112 original size:13 final size:13
Alignment explanation
Indices: 110090--110128 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
110080 TCACTATTCA
110090 TGTATCGATACAT
1 TGTATCGATACAT
* *
110103 TGTATTGATACAG
1 TGTATCGATACAT
110116 TGTATCGATACAT
1 TGTATCGATACAT
110129 CATAAATAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:111287 original size:13 final size:11
Alignment explanation
Indices: 111251--111294 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
111241 AAATCTTCAC
*
111251 TTTTTTTTTGT
1 TTTTTTTTTCT
111262 TTTTTTTTTCT
1 TTTTTTTTTCT
111273 TTTTTTTTTACCT
1 TTTTTTTTT--CT
111286 TTTTTTTTT
1 TTTTTTTTT
111295 TTACAATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 19 0.63
13 11 0.37
ACGTcount: A:0.02, C:0.07, G:0.02, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:115733 original size:13 final size:13
Alignment explanation
Indices: 115715--115739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115705 CAAAGATCAG
115715 TGTATCGATACAA
1 TGTATCGATACAA
115728 TGTATCGATACA
1 TGTATCGATACA
115740 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:116682 original size:55 final size:52
Alignment explanation
Indices: 116582--116866 Score: 233
Period size: 43 Copynumber: 5.7 Consensus size: 52
116572 GAAAAGTGAT
* * * * * * **
116582 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
116636 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
116689 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
116732 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
116782 -AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AA-A-GG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
116829 CAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
116867 GGCTTAAAAG
Statistics
Matches: 196, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
43 38 0.19
44 1 0.01
46 1 0.01
47 2 0.01
48 36 0.18
49 38 0.19
51 1 0.01
52 32 0.16
53 6 0.03
54 5 0.03
55 36 0.18
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:116819 original size:49 final size:50
Alignment explanation
Indices: 116732--116874 Score: 193
Period size: 48 Copynumber: 2.9 Consensus size: 50
116722 TATTGGACTT
* * *
116732 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
116782 -AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAG--G
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
116829 CAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGGCTTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
116875 AGGAGACGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
47 1 0.01
48 41 0.49
49 41 0.49
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (50 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
Found at i:116823 original size:92 final size:94
Alignment explanation
Indices: 116635--116874 Score: 315
Period size: 95 Copynumber: 2.5 Consensus size: 94
116625 AAAGATGAGA
* *
116635 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAA
1 AAAAGG-TGCCAATGTGCTGATTCAAGG-CAGCTACATTGGACTTAAAGATGG-AAAGGTGCCAA
*
116700 TATGCTGATTCAAGGCCAGCTATATTGGACTT
63 TATGCTGATTCAAGGCCAGCGATATTGGACTT
116732 -AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATA
1 AAAAGGTGCCAATGTGCTGATTCAAGG-CAGCTACATTGGACTTAAAGATGGAAAGGTGCCAATA
*
116794 TGCTGATTTAAGGCCAGCGATATTGGACTT
65 TGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
116824 AAAGGCAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGGCTTAAA
1 -AA---AAGGTGCCAATGTGCTGATTCAAGGC-AGCTACATTGGACTTAAA
116875 AGGAGACGCC
Statistics
Matches: 129, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
92 40 0.31
94 2 0.02
95 41 0.32
96 6 0.05
97 40 0.31
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (94 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCAGCTACATTGGACTTAAAGATGGAAAGGTGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:116951 original size:28 final size:28
Alignment explanation
Indices: 116894--117045 Score: 164
Period size: 28 Copynumber: 5.3 Consensus size: 28
116884 CACCAACTTG
*
116894 TGTGGGCTTTTGAAAGGTTTGC-A-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCTACT-GACT
* *
116923 TGTGTGCTTTTGAAGGTTGCTACTGACT
1 TGTGGGCTTTTAAAGGTTGCTACTGACT
*
116951 TGTGGGCTTTTAAAGATTGCTACTGACT
1 TGTGGGCTTTTAAAGGTTGCTACTGACT
*
116979 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCTACTGACT
* * * *
117007 CGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCTACTGACT
117037 TGTGGGCTT
1 TGTGGGCTT
117046 AAAAAGAAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
27 4 0.04
28 69 0.64
29 11 0.10
30 23 0.21
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCTACTGACT
Found at i:116988 original size:56 final size:57
Alignment explanation
Indices: 116919--117321 Score: 166
Period size: 58 Copynumber: 6.8 Consensus size: 57
116909 GGTTTGCATC
* * * * * *
116919 AACTTGTGTGCTTTTGAAGGTTGCTACTGACTTGTGGGCTTTT-AAAGATTGCTACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTCGTGGGCTTTTAAAAGAGTGCCACT
* *
116975 GACTTGTGGGCTTTTAAAGGTTGCCACTGACTCGTGGGCTTTTGAAAAGGGTGCCACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTCGTGGGCTTTT-AAAAGAGTGCCACT
** * * * * * * **
117033 AACTTGTGGGCTTAAAAAGAAAAAGAGTGCTA-TAAAGTTGTGAGCTTACAAAAGAAAAAGAGTG
1 AACTTGTGGGCTTTTAAAG-----G-TTGCCACT-GACTCGTGGGCTT------TTAAAAGAGTG
*
117097 CCACG
53 CCACT
* * * * * * * ** *
117102 GAGTTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCTTCGGAAAAGGGTGCCACT
1 AACTTGTGGGCTTT-TAAAGGTTGCCACTGACTCGTGGGCTT-TTAAAAGAGTGCCACT
* * * * *
117161 GATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTCGTGGGCTTTT-AAAAGAGTGCCACT
**** * * *
117218 AACTTGTGGGCTTTTGAAAAAAAACGCCACTGACTTGTAGGCTTTGAAAA-AGATGCCACT
1 AACTTGTGGGCTTTT---AAAGGTTGCCACTGACTCGTGGGCTTTTAAAAGAG-TGCCACT
* * * * *
117278 GACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTT
1 AACTTGTGGGCTTT-TAAAGGTTGCCACTGACTCGTGGGCTTTT
117322 GAACGGTAAG
Statistics
Matches: 263, Mismatches: 60, Indels: 46
0.71 0.16 0.12
Matches are distributed among these distances:
56 38 0.14
57 46 0.17
58 55 0.21
59 23 0.09
60 24 0.09
61 21 0.08
63 2 0.01
64 27 0.10
65 2 0.01
69 22 0.08
70 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (57 bp):
AACTTGTGGGCTTTTAAAGGTTGCCACTGACTCGTGGGCTTTTAAAAGAGTGCCACT
Found at i:117030 original size:30 final size:30
Alignment explanation
Indices: 116920--117324 Score: 278
Period size: 30 Copynumber: 13.6 Consensus size: 30
116910 GTTTGCATCA
* * *
116920 ACTTGTGTGCTTTTG--AAGGTTGCTACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** *
116948 ACTTGTGGGCTTTT--AAAGATTGCTACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
116976 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
117004 ACTCGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** * * *
117034 ACTTGTGGGCTTAAAAAGAAAAAGAGTGCTA-TAA
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACT-G
* * ** * *
117068 AGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT----TTG-AAAAGGGTGCCACTG
* * * *
117103 AGTTGTGGACTTTGGAAAA-GATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
117132 ACTTGTGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
117162 ATTTGTGGGC-TTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
117189 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
****
117219 ACTTGTGGGCTTTTGAAAAAAAACGCCACTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* * *
117250 ACTTGTAGGC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
117279 ACTTGTGGGC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
117308 ACTTGTGGGCTTTTGAA
1 ACTTGTGGGCTTTTGAA
117325 CGGTAAGGAA
Statistics
Matches: 316, Mismatches: 45, Indels: 30
0.81 0.12 0.08
Matches are distributed among these distances:
27 21 0.07
28 68 0.22
29 76 0.24
30 81 0.26
31 20 0.06
33 2 0.01
34 21 0.07
35 27 0.09
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:117107 original size:35 final size:34
Alignment explanation
Indices: 117019--117109 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 34
117009 TGGGCTTTTG
* * * *
117019 AAAAGGGTGCCACTAACTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCACAAAGTTGTGAGCTTAAAAAGA
* *
117053 AAAAGAGTGCTATAAAGTTGTGAGCTTACAAAAGA
1 AAAAGAGTGCCACAAAGTTGTGAGCTTA-AAAAGA
**
117088 AAAAGAGTGCCACGGAGTTGTG
1 AAAAGAGTGCCACAAAGTTGTG
117110 GACTTTGGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
34 22 0.48
35 24 0.52
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACAAAGTTGTGAGCTTAAAAAGA
Found at i:117137 original size:29 final size:29
Alignment explanation
Indices: 117088--117320 Score: 254
Period size: 29 Copynumber: 7.9 Consensus size: 29
117078 TTACAAAAGA
* * *
117088 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
*
117118 AAAAGATGCCACTGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
117147 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
117176 -AAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
117204 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAAA-GATGCCACTGACTTGTGGGC-TTTG-G
* * * *
117236 AAAAAACGCCACTGACTTGTAGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
117265 AAAAGATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
117294 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
117321 TGAACGGTAA
Statistics
Matches: 174, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
27 21 0.12
28 3 0.02
29 80 0.46
30 48 0.28
31 18 0.10
32 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:117287 original size:60 final size:58
Alignment explanation
Indices: 117086--117320 Score: 213
Period size: 57 Copynumber: 4.0 Consensus size: 58
117076 GCTTACAAAA
** * * * * * *
117086 GAAAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACTGACTTGTGGGCTTCG
1 GAAAAAGA-TGCCACTAACTTGTGGGCTTTGAAAAAAACGCCACTGACTTGTGGGCTT-T
* * * * ****
117146 GAAAAGGGTGCCACTGATTTGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAAACGCCACTGACTTGTGGGC-TTT
* * *
117203 GAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAAAACGCCACTGACTTGTAGGCTTT
1 GAAAAAGATGCCACTAACTTGTGGGC-TTTG-AAAAAAACGCCACTGACTTGTGGGCTTT
* * *
117263 GAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAAACGCCACTGACTTGTGGGCTTT
117321 TGAACGGTAA
Statistics
Matches: 149, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
57 45 0.30
58 31 0.21
59 23 0.15
60 32 0.21
61 18 0.12
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (58 bp):
GAAAAAGATGCCACTAACTTGTGGGCTTTGAAAAAAACGCCACTGACTTGTGGGCTTT
Found at i:132729 original size:52 final size:51
Alignment explanation
Indices: 132651--132796 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 51
132641 CGAAATATGA
*
132651 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTAGGC
* *
132703 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTAGGC
**
132755 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGAT
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGAT
132797 TCAATGTATC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTAGGC
Found at i:132890 original size:33 final size:33
Alignment explanation
Indices: 132853--132919 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
132843 AGTAGCTTAA
132853 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
132886 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
132919 A
1 A
132920 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:132893 original size:13 final size:13
Alignment explanation
Indices: 132875--132899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132865 CAAAAAAATA
132875 TGTATCGATACAT
1 TGTATCGATACAT
132888 TGTATCGATACA
1 TGTATCGATACA
132900 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:137349 original size:52 final size:52
Alignment explanation
Indices: 137268--137388 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
137258 GAAAATTTAT
* *
137268 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAACAATGTATCGATACATCTGGGCAAATTTGC
* * *
137320 TTGCATGTATCGATATATTTTACAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAACAATGTATCGATACATCTGGGCAAATTTGC
137372 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
137389 AATATCGGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAACAATGTATCGATACATCTGGGCAAATTTGC
Found at i:137401 original size:52 final size:52
Alignment explanation
Indices: 137268--137404 Score: 179
Period size: 52 Copynumber: 2.6 Consensus size: 52
137258 GAAAATTTAT
*
137268 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACAATT-ATCAGTGTATCGATACATCTGGGCAAATTTGC
* * * *
137320 TTGCATGTATCGATA-TATTTTACAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACAATTAT-CAGTGTATCGATACATCTGGGCAAATTTGC
* *
137372 CTGCATGTATCGATACAAATATCGGTGTATCGA
1 CTGCATGTATCGATACAATTATCAGTGTATCGA
137405 AACAATGTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 2 0.03
52 65 0.92
53 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACAATTATCAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:137503 original size:13 final size:13
Alignment explanation
Indices: 137485--137509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137475 CAAAAAAATA
137485 TGTATCGATACAT
1 TGTATCGATACAT
137498 TGTATCGATACA
1 TGTATCGATACA
137510 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:137505 original size:33 final size:33
Alignment explanation
Indices: 137463--137529 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
137453 AGTAGCTTAA
137463 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
137496 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
137529 A
1 A
137530 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:151513 original size:9 final size:8
Alignment explanation
Indices: 151499--151557 Score: 66
Period size: 9 Copynumber: 7.0 Consensus size: 8
151489 CTTTCTTTTT
151499 CAAAAAACA
1 CAAAAAA-A
151508 CAAAAAAAA
1 C-AAAAAAA
151517 CAAAAAAA
1 CAAAAAAA
151525 C-AAAAAA
1 CAAAAAAA
151532 CAAAAAAAA
1 C-AAAAAAA
151541 CAAAACAAA
1 CAAAA-AAA
*
151550 GAAAAAAA
1 CAAAAAAA
151558 AAGAGAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
7 7 0.16
8 15 0.33
9 17 0.38
10 6 0.13
ACGTcount: A:0.85, C:0.14, G:0.02, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:151531 original size:15 final size:14
Alignment explanation
Indices: 151509--151559 Score: 75
Period size: 15 Copynumber: 3.5 Consensus size: 14
151499 CAAAAAACAC
151509 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
151523 AACAAAAAACAAAAA
1 AA-AAAAAACAAAAA
*
151538 AAACAAAACAAAGAA
1 AAAAAAAACAAA-AA
151553 AAAAAAA
1 AAAAAAA
151560 GAGAAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:151534 original size:24 final size:25
Alignment explanation
Indices: 151501--151556 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 25
151491 TTCTTTTTCA
151501 AAAAACACAAAAAAAACAAAA-AAAC
1 AAAAA-ACAAAAAAAACAAAACAAAC
*
151526 AAAAAACAAAAAAAACAAAACAAAG
1 AAAAAACAAAAAAAACAAAACAAAC
151551 AAAAAA
1 AAAAAA
151557 AAAGAGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAAACAAAAAAAACAAAACAAAC
Found at i:151566 original size:21 final size:21
Alignment explanation
Indices: 151502--151559 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
151492 TCTTTTTCAA
* *
151502 AAAACACAAAA-AAAACAAA-
1 AAAACAAAAAACAAAAAAAAC
151521 AAAACAAAAAACAAAAAAAAC
1 AAAACAAAAAACAAAAAAAAC
*
151542 AAAACAAAGAA-AAAAAAA
1 AAAACAAAAAACAAAAAAA
151560 GAGAAAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.29
20 14 0.41
21 10 0.29
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAACAAAAAACAAAAAAAAC
Found at i:152616 original size:61 final size:61
Alignment explanation
Indices: 152518--153070 Score: 716
Period size: 61 Copynumber: 9.0 Consensus size: 61
152508 TTTCTCCTTT
* * * *
152518 CACTTTTCAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
152579 CACTTTTCAGTCCTCAACA-AGCATGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAA-AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
152640 CACTTTTCAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
152701 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTACTTTTAAGGCCTACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
152762 CACTTTTCAATCCTTAAGGAGCCGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
152823 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * * * * *
152885 CACCTTCCAATCCTCAAAAAGTAAGATGCCTTTT-TTTTTAAAGCCCACATAAGTCGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
152945 CACTTTTCTAGTCCTCAAAGAGGAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * * ** *
153007 CACCTTCCATTCCTCAAAGAGTAGGATG-CTTTCTTCTTGCAAAGCCCATACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGG
153068 CAC
1 CAC
153071 CTTCTAGTCC
Statistics
Matches: 430, Mismatches: 56, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
60 33 0.08
61 313 0.73
62 84 0.20
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:152974 original size:245 final size:245
Alignment explanation
Indices: 152528--153094 Score: 741
Period size: 245 Copynumber: 2.3 Consensus size: 245
152518 CACTTTTCAG
* ** * *
152528 TCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCACTTTTC-AGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCC
* * * * *
152592 TCAACA-AGCATGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCA
66 TCAA-AGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCA
** * *
152656 AGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACTTTTCAGTCCTCAAAGA
130 AAAAGCAAGACGCCTTTTCCTTTTAAAGCCCACATAAGTCGGTGGCACTTTTCAGTCCTCAAAGA
* * * *
152721 GCAGGACGCCTTTTACTTTTAAGGCCTACACAAGTTGGTGGCACTTTTCAA
195 GCAGGACGCCTTTTACTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAA
* * *
152772 TCCTTAAGGAGCCGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCC
*
152837 TCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAA
66 TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAA
* * *
152902 AAAGTAAGATGCCTTTT-TTTTTAAAGCCCACATAAGTCGGTGGCACTTTTCTAGTCCTCAAAGA
131 AAAGCAAGACGCCTTTTCCTTTTAAAGCCCACATAAGTCGGTGGCACTTTTC-AGTCCTCAAAGA
* * *
152966 GGAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAT
195 GCAGGACGCCTTTTACTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAA
* * ** * *
153017 TCCTCAAAGAGTAGGATG-CTTTCTTCTTGCAAAGCCCATACAAGTTGGTGGCAC-CTTCTAGTC
1 TCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTC
*
153080 C-CTAAGGAGCAGGAC
65 CTC-AAAGAGCAGGAC
153095 CCATTTCATT
Statistics
Matches: 280, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
243 1 0.00
244 108 0.39
245 171 0.61
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (245 bp):
TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCC
TCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAA
AAAGCAAGACGCCTTTTCCTTTTAAAGCCCACATAAGTCGGTGGCACTTTTCAGTCCTCAAAGAG
CAGGACGCCTTTTACTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAA
Found at i:153646 original size:13 final size:13
Alignment explanation
Indices: 153628--153652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153618 TCACAATTTG
153628 TATCGATACATTA
1 TATCGATACATTA
153641 TATCGATACATT
1 TATCGATACATT
153653 GTTCATTGTA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:153664 original size:20 final size:20
Alignment explanation
Indices: 153636--153692 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
153626 TGTATCGATA
*
153636 CATTATATCGATACATTGTT
1 CATTGTATCGATACATTGTT
*
153656 CATTGTATCGATACATTTTT
1 CATTGTATCGATACATTGTT
*
153676 CAATGTATCGATACATT
1 CATTGTATCGATACATT
153693 CAGGCATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (20 bp):
CATTGTATCGATACATTGTT
Found at i:156061 original size:51 final size:50
Alignment explanation
Indices: 155987--156118 Score: 176
Period size: 51 Copynumber: 2.6 Consensus size: 50
155977 AAATTTCTAG
* * *
155987 ATTTTTCATCTCGAGGATACTCCAACCCCGGCTTTA-TTTCTAAAATATTA
1 ATTTTTCATCTCGAGGATACTCCAACCCCGACTTTATTTTC-AAAACATCA
*
156037 ATTTTTCATCTCAGAGGATACTCCAACCCCGATTTTATTTTCAAAACATCA
1 ATTTTTCATCTC-GAGGATACTCCAACCCCGACTTTATTTTCAAAACATCA
* *
156088 ATTTTTCATAATCGAGGATACTCCAATCCCG
1 ATTTTTCAT-CTCGAGGATACTCCAACCCCG
156119 TTATTTTTGA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
50 12 0.16
51 55 0.75
52 6 0.08
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (50 bp):
ATTTTTCATCTCGAGGATACTCCAACCCCGACTTTATTTTCAAAACATCA
Found at i:156192 original size:50 final size:50
Alignment explanation
Indices: 156130--156225 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
156120 TATTTTTGAG
* * **
156130 GGGATACTCCAACCCCAACTTTATTTCTAAAATATTGATTTTTCATCTCA
1 GGGATACTCCAACCCCAACTTTATTTCCAAAACATCAATTTTTCATCTCA
* *
156180 GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCAT
1 GGGATACTCCAACCCCAACTTTATTTCCAAAACATCAATTTTTCAT
156226 AATCGAGGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (50 bp):
GGGATACTCCAACCCCAACTTTATTTCCAAAACATCAATTTTTCATCTCA
Done.