Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 1 of 25
Found at i:1828 original size:33 final size:33
Alignment explanation
Indices: 1786--1850 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1776 CAACGATTTG
1786 TATCGATACATAAAGTGTTGTATCGATACAATA
1 TATCGATACATAAAGTGTTGTATCGATACAATA
*** *
1819 TATCGATACATATTTTTTTGTATCGATACAAT
1 TATCGATACATAAAGTGTTGTATCGATACAAT
1851 TTAAGCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATA
Found at i:1909 original size:13 final size:13
Alignment explanation
Indices: 1891--1915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1881 ATCACTTAAA
1891 TGTATCGATACAT
1 TGTATCGATACAT
1904 TGTATCGATACA
1 TGTATCGATACA
1916 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:1968 original size:52 final size:51
Alignment explanation
Indices: 1904--2052 Score: 244
Period size: 52 Copynumber: 2.9 Consensus size: 51
1894 ATCGATACAT
**
1904 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
1956 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
2008 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
2053 TCATATTTCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:15884 original size:1 final size:1
Alignment explanation
Indices: 15878--15933 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
15868 CGTCCTCCAC
* * * * * *
15878 AAAAAAAAAAACAAAAAAAACAAAAAAAACAAAACAAAAAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15934 GGGGTCCGGA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15895 original size:9 final size:9
Alignment explanation
Indices: 15881--15933 Score: 81
Period size: 9 Copynumber: 5.8 Consensus size: 9
15871 CCTCCACAAA
15881 AAAAAAAAC
1 AAAAAAAAC
15890 AAAAAAAAC
1 AAAAAAAAC
15899 AAAAAAAAC
1 AAAAAAAAC
15908 AAAACAAAA-
1 AAAA-AAAAC
15917 AAACAAAAAC
1 AAA-AAAAAC
15927 AAAAAAA
1 AAAAAAA
15934 GGGGTCCGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:15897 original size:14 final size:14
Alignment explanation
Indices: 15878--15933 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
15868 CGTCCTCCAC
*
15878 AAAAAAA-AAAACA
1 AAAAAAACAAAAAA
15891 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
*
15905 AACAAAACAAAAAA
1 AAAAAAACAAAAAA
*
15919 ACAAAAACAAAAAA
1 AAAAAAACAAAAAA
15933 A
1 A
15934 GGGGTCCGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
13 7 0.18
14 31 0.82
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAA
Found at i:17410 original size:30 final size:30
Alignment explanation
Indices: 17373--17646 Score: 298
Period size: 30 Copynumber: 9.4 Consensus size: 30
17363 CTCACCCTTC
* * *
17373 AAAGCCCATAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
* * * *
17403 GAAGCCCACAAGTCGGTGGCATCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
17432 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
* * *
17462 AAAGCCCACAAATCGGTGGCAACC--TTC-
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
*
17489 AAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
* *
17519 AAAGCCCACAAGTTAGTGGCATCTCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTTCA
*
17550 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
* **
17578 AAAGCCCACAAGTCAATGGCAATC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
*
17606 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCA
*
17634 AAAGCACACAAGT
1 AAAGCCCACAAGT
17647 TGATGCAATC
Statistics
Matches: 212, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.10
28 65 0.31
29 31 0.15
30 66 0.31
31 28 0.13
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCA
Found at i:17448 original size:59 final size:57
Alignment explanation
Indices: 17370--17646 Score: 319
Period size: 59 Copynumber: 4.8 Consensus size: 57
17360 TTCCTCACCC
* * ** *
17370 TTCAAAGCCCATAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATC--T
* * * *
17429 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAATCGGTGGCAACC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATCT
* *
17486 TTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCATCTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA--TC-T
* *
17546 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAATGGCAATCT
1 TTC-AAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGC-ATCT
* * *
17603 TTAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCACACAAGT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGT
17647 TGATGCAATC
Statistics
Matches: 193, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
55 2 0.01
56 37 0.19
57 53 0.27
58 2 0.01
59 70 0.36
60 7 0.04
61 22 0.11
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATCT
Found at i:17581 original size:116 final size:118
Alignment explanation
Indices: 17368--17672 Score: 378
Period size: 116 Copynumber: 2.6 Consensus size: 118
17358 CATTCCTCAC
* * ** *
17368 CCTTCAAAGCCCATAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCT-TTTTC
1 CCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGT-TGTGGCATCTCTTTTC
* **
17432 -AAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAATCGGTGGCAA-
65 AAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCACAAATCAATGGCAAT
*
17484 CCTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTC
1 CCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTT-GTGGCATCTCTTTTC
*
17549 AAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAATGGCAAT
65 AAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCACAAATCAATGGCAAT
* * * *
17601 CTTTAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCACACAAGTTGAT-GCAATC-CTTTT
1 CCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTTG-TGGC-ATCTCTTTT
17662 -AAAAGCCCACA
64 CAAAAGCCCACA
17673 CAAGTTGGTG
Statistics
Matches: 168, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
113 11 0.07
114 8 0.05
115 21 0.12
116 72 0.43
117 33 0.20
118 23 0.14
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (118 bp):
CCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTTGTGGCATCTCTTTTCA
AAAGCCCACAAGTCAGTGGCAACCTTTTCAAAAGCCCACAAATCAATGGCAAT
Found at i:17589 original size:28 final size:28
Alignment explanation
Indices: 17404--17672 Score: 265
Period size: 28 Copynumber: 9.3 Consensus size: 28
17394 CCCTTTTCCG
* * * *
17404 AAGCCCACAAGTCGGTGGCATCTTTTTCA
1 AAGCCCACAAGTCAGTGGCAAC-CTTTAA
*
17433 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
* * *
17463 AAGCCCACAAATCGGTGGCAACC-TTCA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
17490 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
* *
17520 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-C-TTT-AA
17551 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
17579 AAGCCCACAAGTCAATGGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
17607 AAGCCCACAAGTCAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
17635 AAGCACACAAGT-TGAT-GCAATCCTTTTAA
1 AAGCCCACAAGTCAG-TGGCAA-CC-TTTAA
17664 AAGCCCACA
1 AAGCCCACA
17673 CAAGTTGGTG
Statistics
Matches: 206, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
27 25 0.12
28 69 0.33
29 40 0.19
30 44 0.21
31 28 0.14
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:17763 original size:52 final size:50
Alignment explanation
Indices: 17694--17883 Score: 232
Period size: 52 Copynumber: 3.9 Consensus size: 50
17684 CGTCTTCTTC
* *
17694 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
17746 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* *
17790 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
17841 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
17884 CATCTTTAAC
Statistics
Matches: 118, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
43 36 0.31
46 2 0.02
47 2 0.02
50 2 0.02
52 76 0.64
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:17858 original size:95 final size:95
Alignment explanation
Indices: 17695--17882 Score: 317
Period size: 95 Copynumber: 2.0 Consensus size: 95
17685 GTCTTCTTCT
*
17695 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
17760 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
*
17790 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTAAGTCCTATAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAGTCCAATAT
*
17853 CGCTGGCCTTGAATCAGCACATTGGCACCT
64 AGCTGGCCTTGAATCAGCACATTGGCACCT
17883 TCATCTTTAA
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
94 2 0.02
95 84 0.95
96 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:18759 original size:13 final size:13
Alignment explanation
Indices: 18741--18767 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18731 CATAAAGTGT
18741 TGTATCGATACAA
1 TGTATCGATACAA
18754 TGTATCGATACAA
1 TGTATCGATACAA
18767 T
1 T
18768 TTAAGCTACT
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18826 original size:13 final size:13
Alignment explanation
Indices: 18808--18832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18798 ATCACTTAAA
18808 TGTATCGATACAT
1 TGTATCGATACAT
18821 TGTATCGATACA
1 TGTATCGATACA
18833 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:18885 original size:52 final size:51
Alignment explanation
Indices: 18821--18969 Score: 244
Period size: 52 Copynumber: 2.9 Consensus size: 51
18811 ATCGATACAT
**
18821 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
18873 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
18925 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
18970 TCATATTTCG
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:22125 original size:31 final size:32
Alignment explanation
Indices: 22032--22332 Score: 317
Period size: 31 Copynumber: 9.5 Consensus size: 32
22022 CGACACCATT
* * *
22032 GACTTGTGTGGGCTTTGGAAAAAGTTGCTACC
1 GACTTGTGTGGGCTTTAGAAAAGGTTGCCACC
* * **
22064 AACTTGTGTGGGCTTTAGAGAAGGGTTGCCATT
1 GACTTGTGTGGGCTTTAGA-AAAGGTTGCCACC
*
22097 GACTTGTGTGTGC-TTAGAAAAGGTTGCCACC
1 GACTTGTGTGGGCTTTAGAAAAGGTTGCCACC
* *
22128 GATTTGTGTGGGC-TTA-AAAAGGGTTGCCACT
1 GACTTGTGTGGGCTTTAGAAAA-GGTTGCCACC
* * * *
22159 GACTTGTGTAGGC-ATAAAAAAGGTTGCCCCC
1 GACTTGTGTGGGCTTTAGAAAAGGTTGCCACC
* * *
22190 AACTTATGTGGGCTTTAGAGAAGAGTTGCCACC
1 GACTTGTGTGGGCTTTAGAAAAG-GTTGCCACC
*
22223 AACTTGTGTGGGCTTTAGAGAAAGGTTGCCACC
1 GACTTGTGTGGGCTTTAGA-AAAGGTTGCCACC
* *
22256 AACTTGTGTGGGCTTTA-AAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGAAAAGGTTGCCACC
* * *
22287 GACTTGTGTGAGCTTTA-AAAAGGTTTCCACT
1 GACTTGTGTGGGCTTTAGAAAAGGTTGCCACC
22318 GACTTGTGTGGGCTT
1 GACTTGTGTGGGCTT
22333 GAAGGGTGCC
Statistics
Matches: 227, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
30 4 0.02
31 116 0.51
32 33 0.15
33 71 0.31
34 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (32 bp):
GACTTGTGTGGGCTTTAGAAAAGGTTGCCACC
Found at i:22410 original size:27 final size:27
Alignment explanation
Indices: 22371--22422 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22361 AAAGAAACAA
*
22371 GTGCCATAGAGTTGTGGCCTTAAAAGG
1 GTGCCATAGAGTTGTGGACTTAAAAGG
22398 GTGCCAT-GAAGTTGTGGACTTAAAA
1 GTGCCATAG-AGTTGTGGACTTAAAA
22423 AGAAAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (27 bp):
GTGCCATAGAGTTGTGGACTTAAAAGG
Found at i:22435 original size:34 final size:34
Alignment explanation
Indices: 22392--22552 Score: 122
Period size: 34 Copynumber: 5.0 Consensus size: 34
22382 TTGTGGCCTT
*
22392 AAAAGGGTGCCATGAAGTTGTGGACTTAAAAAGA
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGA
* ***
22426 AAAAGGGTGCCACAAAGTTAAAGACTTAAAAAGA
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGA
** *
22460 AAAA-GGTGCTGCGGAGTTGTGGACTT-------
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGA
* * *
22486 AAAAGGGTGCCAAGGAGTTGTGGACTTAAAATGA
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGA
* * * **
22520 AAAAGGATACCACAAAGTTGTAAACTTAAAAAG
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAG
22553 GTGCCACAGA
Statistics
Matches: 96, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
26 4 0.04
27 19 0.20
33 15 0.16
34 58 0.60
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (34 bp):
AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGA
Found at i:22458 original size:94 final size:94
Alignment explanation
Indices: 22360--22552 Score: 255
Period size: 94 Copynumber: 2.1 Consensus size: 94
22350 TGTGGACATT
* * *
22360 AAAAGAAACAA-GTGCCATAGAGTTGTGGCCTTAAAAGGGTGCCATGAAGTTGTGGACTTAAAAA
1 AAAAGAAA-AAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCAAGAAGTTGTGGACTTAAAAA
* *
22424 GAAAAAGGGTGCCACAAAGTT-AAAGACTTA
65 GAAAAAGGATACCACAAAGTTGAAA-ACTTA
** * * *
22454 AAAAGAAAAAGGTGCTGCGGAGTTGTGGACTTAAAAGGGTGCCAAGGAGTTGTGGACTTAAAATG
1 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCAAGAAGTTGTGGACTTAAAAAG
*
22519 AAAAAGGATACCACAAAGTTGTAAACTTA
66 AAAAAGGATACCACAAAGTTGAAAACTTA
22548 AAAAG
1 AAAAG
22553 GTGCCACAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 2 0.02
94 82 0.95
95 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.20
Consensus pattern (94 bp):
AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCAAGAAGTTGTGGACTTAAAAAG
AAAAAGGATACCACAAAGTTGAAAACTTA
Found at i:22559 original size:27 final size:28
Alignment explanation
Indices: 22519--22573 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
22509 ACTTAAAATG
22519 AAAAAGGATACCACAAAGTTGTAAACTT
1 AAAAAGGATACCACAAAGTTGTAAACTT
* * *
22547 AAAAAGG-TGCCACAGAGTTGTGAACTT
1 AAAAAGGATACCACAAAGTTGTAAACTT
22574 TGAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (28 bp):
AAAAAGGATACCACAAAGTTGTAAACTT
Found at i:22594 original size:31 final size:31
Alignment explanation
Indices: 22547--22629 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
22537 TTGTAAACTT
*
22547 AAAAAGGTGCCACAGAGTTGTGAACTTTGAAG
1 AAAAAGGTGCCACAGAGTTGTGAACTTT-AAA
* * *
22579 AAAAA-GTGCAACAGAGTTCTGGACTTTAAA
1 AAAAAGGTGCCACAGAGTTGTGAACTTTAAA
*
22609 AAAAAGGTGCCACGGAGTTGT
1 AAAAAGGTGCCACAGAGTTGT
22630 AGACTTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 7 0.16
31 31 0.72
32 5 0.12
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAAAGGTGCCACAGAGTTGTGAACTTTAAA
Found at i:22635 original size:31 final size:31
Alignment explanation
Indices: 22547--22768 Score: 133
Period size: 30 Copynumber: 7.4 Consensus size: 31
22537 TTGTAAACTT
* *
22547 AAAAAGGTGCCACAGAGTTGTGAACTTTGAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTT-AAA
* *
22579 AAAAA-GTGCAACAGAGTTCTGGACTTTAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAA
* *
22609 AAAAAGGTGCCACGGAGTTGTAGAC-TT---
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAA
* * *
22636 AAAAGGGTGCCACGGAGTCGTGGACTTT--A
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAA
* * * **
22665 AAGAAGGATGCCACTGAGTCGTGGAC-TTGGA
1 AAAAAGG-TGCCACAGAGTTGTGGACTTTAAA
* * * * *
22696 AGAGAGATGCCACTGAATTGTGGACTTTAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAA
* **
22727 GAAAAA--TGCCACTGAGTCATGGAC-TTAAA
1 -AAAAAGGTGCCACAGAGTTGTGGACTTTAAA
*
22756 AAAAAGATGCCAC
1 AAAAAGGTGCCAC
22769 TAAGTCATGG
Statistics
Matches: 153, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
27 22 0.14
28 7 0.05
29 12 0.08
30 63 0.41
31 41 0.27
32 8 0.05
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (31 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTTAAA
Found at i:22645 original size:27 final size:27
Alignment explanation
Indices: 22609--22692 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
22599 GGACTTTAAA
* *
22609 AAAAAGGTGCCACGGAGTTGTAGACTT
1 AAAAGGGTGCCACGGAGTCGTAGACTT
*
22636 AAAAGGGTGCCACGGAGTCGTGGACTTT
1 AAAAGGGTGCCACGGAGTCGTAGAC-TT
* * *
22664 AAAGAAGGATGCCACTGAGTCGTGGACTT
1 -AA-AAGGGTGCCACGGAGTCGTAGACTT
22693 GGAAGAGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.45
28 2 0.04
29 4 0.08
30 21 0.43
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTAGACTT
Found at i:22719 original size:60 final size:58
Alignment explanation
Indices: 22634--22909 Score: 281
Period size: 60 Copynumber: 4.7 Consensus size: 58
22624 AGTTGTAGAC
* * * *
22634 TTAAAAG-GGTGCCACGGAGTCGTGGACTTTAAAGAAGGATGCCACTGAGTCGTGGACT
1 TTAAAAGAGATGCCACTGAATCGTGGACTTT-AAGAAGGATGCCACTGAGTCATGGACT
* * * **
22692 TGGAAGAGAGATGCCACTGAATTGTGGACTTTAAAGAAAAATGCCACTGAGTCATGGACT
1 T-TAAAAGAGATGCCACTGAATCGTGGACTTT-AAGAAGGATGCCACTGAGTCATGGACT
* * * *
22752 TAAAAAAAAGATGCCACT-AAGTCATGGACTTT-AGAA-GAGTGCTACTGAGTCATGGACT
1 T-TAAAAGAGATGCCACTGAA-TCGTGGACTTTAAGAAGGA-TGCCACTGAGTCATGGACT
* * *
22810 TTAAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTAAGTCATGGACT
1 TTAAAAGAGATGCCACTGAATCGTGGACTTTAAGAAG-GATGCCACTGAGTCATGGACT
* *
22869 TTAAGAAGAAATGCCACTAAATCGTGGACTTTGAAGAAGGA
1 TTAA-AAGAGATGCCACTGAATCGTGGACTTT-AAGAAGGA
22910 AAAAGATTTG
Statistics
Matches: 181, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
57 25 0.14
58 29 0.16
59 27 0.15
60 95 0.52
61 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (58 bp):
TTAAAAGAGATGCCACTGAATCGTGGACTTTAAGAAGGATGCCACTGAGTCATGGACT
Found at i:22830 original size:147 final size:147
Alignment explanation
Indices: 22554--22886 Score: 372
Period size: 147 Copynumber: 2.2 Consensus size: 147
22544 CTTAAAAAGG
* * * * * *
22554 TGCCACAGAGTTGTGAACTTTGAAGAAAAAGTGCAACAGAGTTCTGGACTTTAAAAAAAAGGTGC
1 TGCCACTGAATTGTGGACTTT-AAGAAAAA-TGCCACTGAGTTCTGGACTTTAAAAAAAAGATGC
* ** * *
22619 CACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTCGTGGACTTTAAAGAAGGATGCCACTGAGT
64 CACGAAGTCATAGACTTAAAAGAGTGCCACGGAGTCATGGACTTTAAAGAAGGATGCCACTGAGT
22684 CGTGGACTTGGA-AGAGAGA
129 CGTGGACTTGGAGA-AGAGA
22703 TGCCACTGAATTGTGGACTTTAAAGAAAAATGCCACTGAG-TCATGGAC-TTAAAAAAAAGATGC
1 TGCCACTGAATTGTGGACTTT-AAGAAAAATGCCACTGAGTTC-TGGACTTTAAAAAAAAGATGC
* * * * *
22766 CACTAAGTCATGGACTTTAGAAGAGTGCTACTGAGTCATGGACTTT-AA-AAGAGATGCCACTGA
64 CACGAAGTCATAGAC-TTAAAAGAGTGCCACGGAGTCATGGACTTTAAAGAAG-GATGCCACTGA
*
22829 GTCGTGGACTTTGAGAAGAGA
127 GTCGTGGACTTGGAGAAGAGA
**
22850 TGCCACT-AAGTCATGGACTTTAAGAAGAAATGCCACT
1 TGCCACTGAA-TTGTGGACTTTAAGAA-AAATGCCACT
22887 AAATCGTGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
146 10 0.06
147 83 0.53
148 39 0.25
149 26 0.16
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (147 bp):
TGCCACTGAATTGTGGACTTTAAGAAAAATGCCACTGAGTTCTGGACTTTAAAAAAAAGATGCCA
CGAAGTCATAGACTTAAAAGAGTGCCACGGAGTCATGGACTTTAAAGAAGGATGCCACTGAGTCG
TGGACTTGGAGAAGAGA
Found at i:22851 original size:87 final size:88
Alignment explanation
Indices: 22634--22900 Score: 290
Period size: 87 Copynumber: 3.0 Consensus size: 88
22624 AGTTGTAGAC
* * * * *
22634 TTAAAAG-GGTGCCACGGAGTCGTGGACTTTAAAGAAG-GATGCCACTGAGTCGTGGAC-TTGGA
1 TTAAAAGAGATGCCACTGAGTCGTGGACTTT-AAGAAGAGATGCCACTAAGTCATGGACTTTAG-
**
22696 AGAGAGATGCCACTGAATTGTGGACT
64 A-AGAGATGCCACTGAATCATGGACT
* * * * * *
22722 TTAAAGAAAAATGCCACTGAGTCATGGACTTAAAAAAAAGATGCCACTAAGTCATGGACTTTAGA
1 TTAAA-AGAGATGCCACTGAGTCGTGGACTTTAAGAAGAGATGCCACTAAGTCATGGACTTTAGA
* *
22787 AGAG-TGCTACTGAGTCATGGACT
65 AGAGATGCCACTGAATCATGGACT
*
22810 TTAAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTAAGTCATGGACTTTAAGA
1 TTAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAGAGATGCCACTAAGTCATGGACTTT-AGA
* * *
22875 AGAAATGCCACTAAATCGTGGACT
65 AGAGATGCCACTGAATCATGGACT
22899 TT
1 TT
22901 GAAGAAGGAA
Statistics
Matches: 146, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
87 49 0.34
88 31 0.21
89 26 0.18
90 37 0.25
91 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (88 bp):
TTAAAAGAGATGCCACTGAGTCGTGGACTTTAAGAAGAGATGCCACTAAGTCATGGACTTTAGAA
GAGATGCCACTGAATCATGGACT
Found at i:22887 original size:30 final size:30
Alignment explanation
Indices: 22651--22907 Score: 224
Period size: 30 Copynumber: 8.6 Consensus size: 30
22641 GGTGCCACGG
* *
22651 AGTCGTGGACTTTAAAGAAG-GATGCCACTG
1 AGTCGTGGACTTT-AAGAAGAAATGCCACTA
* *
22681 AGTCGTGGACTTGGAAG-AGAGATGCCACTGA
1 AGTCGTGGACTT-TAAGAAGAAATGCCACT-A
* *
22712 A-TTGTGGACTTTAAAGAA-AAATGCCACTG
1 AGTCGTGGACTTT-AAGAAGAAATGCCACTA
* * *
22741 AGTCATGGAC-TTAAAAAAAAGATGCCACTA
1 AGTCGTGGACTTTAAGAAGAA-ATGCCACTA
* * * *
22771 AGTCATGGACTTT-AGAAG-AGTGCTACTG
1 AGTCGTGGACTTTAAGAAGAAATGCCACTA
* * *
22799 AGTCATGGACTTTAA-AAGAGATGCCACTG
1 AGTCGTGGACTTTAAGAAGAAATGCCACTA
* *
22828 AGTCGTGGACTTTGAGAAGAGATGCCACTA
1 AGTCGTGGACTTTAAGAAGAAATGCCACTA
*
22858 AGTCATGGACTTTAAGAAGAAATGCCACTA
1 AGTCGTGGACTTTAAGAAGAAATGCCACTA
*
22888 AATCGTGGACTTTGAAGAAG
1 AGTCGTGGACTTT-AAGAAG
22908 GAAAAAGATT
Statistics
Matches: 188, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
28 26 0.14
29 29 0.15
30 123 0.65
31 10 0.05
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.24
Consensus pattern (30 bp):
AGTCGTGGACTTTAAGAAGAAATGCCACTA
Found at i:31022 original size:14 final size:14
Alignment explanation
Indices: 31003--31029 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30993 GATTGGCCTA
31003 TTTATAGCCAAAAT
1 TTTATAGCCAAAAT
31017 TTTATAGCCAAAA
1 TTTATAGCCAAAA
31030 ATGTGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (14 bp):
TTTATAGCCAAAAT
Found at i:31575 original size:20 final size:20
Alignment explanation
Indices: 31532--31605 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
31522 ACAATGGTCC
***
31532 TGTATCGATACATTTCAAACA
1 TGTATCGATACA-TTCACTTA
*
31553 TGTATTGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* *
31573 TGTGTCCATACATTCACTTA
1 TGTATCGATACATTCACTTA
31593 TTGTATCGATACA
1 -TGTATCGATACA
31606 AATTGTCAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 22 0.51
21 21 0.49
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:32393 original size:14 final size:14
Alignment explanation
Indices: 32353--32408 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
32343 GTAAACTTAT
32353 ATTGTAAAAATT-A
1 ATTGTAAAAATTAA
**
32366 A-TAAAAAGAATTAA
1 ATTGTAAA-AATTAA
32380 ATTGTAAAAATTAAA
1 ATTGTAAAAATT-AA
32395 ATT-TAAAAATTAA
1 ATTGTAAAAATTAA
32408 A
1 A
32409 ATAAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.11
13 8 0.23
14 14 0.40
15 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (14 bp):
ATTGTAAAAATTAA
Found at i:32409 original size:14 final size:15
Alignment explanation
Indices: 32374--32410 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
32364 TAATAAAAAG
32374 AATT-AAATTGTAAA
1 AATTAAAATTGTAAA
32388 AATTAAAATT-TAAA
1 AATTAAAATTGTAAA
32402 AATTAAAAT
1 AATTAAAAT
32411 AAAATATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AATTAAAATTGTAAA
Found at i:33267 original size:166 final size:166
Alignment explanation
Indices: 32659--33294 Score: 698
Period size: 166 Copynumber: 3.8 Consensus size: 166
32649 AAAGGAACTC
* * * * *
32659 CAAGAAAAAAATGAAAAATTCATGAAATAAATA--AATTTTTCAAAACTGATTTAGTA-TAAGTT
1 CAAG-AAAGAATGAAAAATTAATGAAAGAAA-AGGAATTTTTCAAAACTGATTTAATACGAA-TT
* * * * *
32721 AAATGATTATATTTGATGAATTTTAAAAATTATAAAACAAGAAAAATTCTCC-CGAAAACATTTA
63 AAATAATAATATTTGATGAATTTTTAAAATTATAAACCAAGAAAAA-TCCCCTCGAAAACATTTA
* * * * ***
32785 CGGAGTTA-AAAAGTCCATATTTCGGAAA-CATTAGGAATTT
127 CGAAG-TAGAAAACTCTATATTT-AGAAATCAGGGGGAATTT
* * * * * * * *
32825 TATGAAAAAATGAAAAATTCATGAAA-ATAAATGAATTTTTCAAAACTGATTTACTATGAGTTAA
1 CAAGAAAGAATGAAAAATTAATGAAAGA-AAAGGAATTTTTCAAAACTGATTTAATACGAATTAA
* * * *
32889 ATGATTATATTTGATGAATTTTTAAAATTATAAACCATA-AAAGATCTCCTCGAAAACATTTACG
65 ATAATAATATTTGATGAATTTTTAAAATTATAAACCA-AGAAAAATCCCCTCGAAAACATTTACG
* *
32953 GAGTAGAAAACTCTATATTTTA-AAATGAGGGGGAATTT
129 AAGTAGAAAACTCTATA-TTTAGAAATCAGGGGGAATTT
* * *
32991 CAAGAAAGAATGAAAAATTAATGAAAGAAAAGGAAATTTTCAAAATTGATTTAATACGAATTTAA
1 CAAGAAAGAATGAAAAATTAATGAAAGAAAAGGAATTTTTCAAAACTGATTTAATACGAATTAAA
*
33056 TAATAATATTTGATGAATTTTTAAAATTATAAACCATGAAAAATCCCCTCGAAAACATTTACGAA
66 TAATAATATTTGATGAATTTTTAAAATTATAAACCAAGAAAAATCCCCTCGAAAACATTTACGAA
* *
33121 GTAGAAAACTATGTATTTAGAAATCAGGGGGAATTT
131 GTAGAAAACTCTATATTTAGAAATCAGGGGGAATTT
* * *
33157 CGAGAAAGAATGAAAAATTAATGAAAGAAAAGGAATTTTTCAAAATTGATTTAATACGAATTTAA
1 CAAGAAAGAATGAAAAATTAATGAAAGAAAAGGAATTTTTCAAAACTGATTTAATACGAATTAAA
* ** * *
33222 TAATAATATTTGATGAA-TTTTAAAATTTATAAACCAAGGAAAATCCTTTCCAAAAAATTTACGA
66 TAATAATATTTGATGAATTTTTAAAA-TTATAAACCAAGAAAAATCCCCTCGAAAACATTTACGA
*
33286 AGAAGAAAA
130 AGTAGAAAA
33295 TTTCATATTT
Statistics
Matches: 413, Mismatches: 44, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
164 2 0.00
165 46 0.11
166 359 0.87
167 6 0.01
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (166 bp):
CAAGAAAGAATGAAAAATTAATGAAAGAAAAGGAATTTTTCAAAACTGATTTAATACGAATTAAA
TAATAATATTTGATGAATTTTTAAAATTATAAACCAAGAAAAATCCCCTCGAAAACATTTACGAA
GTAGAAAACTCTATATTTAGAAATCAGGGGGAATTT
Found at i:33361 original size:166 final size:167
Alignment explanation
Indices: 32664--33374 Score: 680
Period size: 166 Copynumber: 4.3 Consensus size: 167
32654 AACTCCAAGA
* * * * *
32664 AAAAAATGAAAAATTCATGAAATAAATA-AATTTTTCAAAACTGATTTAGTA-TAAGTTAAATGA
1 AAAAAATGAAAAATTCATGAAAGAAAAAGAATTTTTCAAAACTGATTTAATACGAA-TTAAATAA
* * * * *
32727 TTATATTTGATGAATTTTAAAAATTATAAAACAAGAAAAATTCTC-CCGAAAACATTTACGGAGT
65 TAATATTTGATGAATTTTTAAAATTATAAACCAAGAAAAATCCTCTCC-AAAACATTTACGAAG-
* * * * **
32791 TA-AAAAGTCCATATTTCGGAAA-CATTAGGAATTT-TATG
128 TAGAAAATTTCATATTTTGAAAATCAGGAGGAATTTCTA-G
* * * * *
32829 AAAAAATGAAAAATTCATGAAA-ATAAATGAATTTTTCAAAACTGATTTACTATGAGTTAAATGA
1 AAAAAATGAAAAATTCATGAAAGA-AAAAGAATTTTTCAAAACTGATTTAATACGAATTAAATAA
* * * *
32893 TTATATTTGATGAATTTTTAAAATTATAAACCATA-AAAGAT-CTCCTCGAAAACATTTACGGAG
65 TAATATTTGATGAATTTTTAAAATTATAAACCA-AGAAAAATCCT-CTCCAAAACATTTACGAAG
* * * *
32956 TAGAAAA-CTCTATATTTT-AAAATGAGGGGGAATTTCAAG
128 TAGAAAATTTC-ATATTTTGAAAATCAGGAGGAATTTCTAG
* * * * * *
32995 AAAGAATGAAAAATTAATGAAAGAAAAGGAAATTTTCAAAATTGATTTAATACGAATTTAATAAT
1 AAAAAATGAAAAATTCATGAAAGAAAAAGAATTTTTCAAAACTGATTTAATACGAATTAAATAAT
* * *
33060 AATATTTGATGAATTTTTAAAATTATAAACCATGAAAAATCCCCTCGAAAACATTTACGAAGTAG
66 AATATTTGATGAATTTTTAAAATTATAAACCAAGAAAAATCCTCTCCAAAACATTTACGAAGTAG
* * * * *
33125 AAAACTAT-GTATTTAG-AAATCAGGGGGAATTTCGAG
131 AAAA-TTTCATATTTTGAAAATCAGGAGGAATTTCTAG
* * * * *
33161 AAAGAATGAAAAATTAATGAAAGAAAAGGAATTTTTCAAAATTGATTTAATACGAATTTAATAAT
1 AAAAAATGAAAAATTCATGAAAGAAAAAGAATTTTTCAAAACTGATTTAATACGAATTAAATAAT
* * * *
33226 AATATTTGATGAA-TTTTAAAATTTATAAACCAAGGAAAATCCTTTCCAAAAAATTTACGAAGAA
66 AATATTTGATGAATTTTTAAAA-TTATAAACCAAGAAAAATCCTCTCCAAAACATTTACGAAGTA
**
33290 GAAAATTTCATATTTTGAAAAT-AAAAGGAA-TTCTAG
130 GAAAATTTCATATTTTGAAAATCAGGAGGAATTTCTAG
* * * * *
33326 AAGAAAATCAATAAGTCATGAAATAAAAAGAATTTTTCAAAACTAATTT
1 AA-AAAATGAAAAATTCATGAAAGAAAAAGAATTTTTCAAAACTGATTT
33375 CATGGTAATT
Statistics
Matches: 464, Mismatches: 62, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
164 1 0.00
165 49 0.11
166 403 0.87
167 10 0.02
168 1 0.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.31
Consensus pattern (167 bp):
AAAAAATGAAAAATTCATGAAAGAAAAAGAATTTTTCAAAACTGATTTAATACGAATTAAATAAT
AATATTTGATGAATTTTTAAAATTATAAACCAAGAAAAATCCTCTCCAAAACATTTACGAAGTAG
AAAATTTCATATTTTGAAAATCAGGAGGAATTTCTAG
Found at i:36365 original size:20 final size:19
Alignment explanation
Indices: 36330--36383 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 19
36320 CAACAACTCA
* *
36330 AAACAAAATAGCAGCAAAC
1 AAACAAAATAACAGCAAGC
36349 AAAC--AATAACA-CAAGC
1 AAACAAAATAACAGCAAGC
36365 -AACAAAATAACAGCAAGC
1 AAACAAAATAACAGCAAGC
36383 A
1 A
36384 TGAACAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.10
16 4 0.14
17 13 0.45
18 5 0.17
19 4 0.14
ACGTcount: A:0.63, C:0.22, G:0.09, T:0.06
Consensus pattern (19 bp):
AAACAAAATAACAGCAAGC
Found at i:36399 original size:22 final size:20
Alignment explanation
Indices: 36374--36434 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 20
36364 CAACAAAATA
36374 ACAGCAAGCATGAACAGCAAAG
1 ACAGCAAGCA-GAACA-CAAAG
36396 ACAGCAA-CA-AACAC-AAG
1 ACAGCAAGCAGAACACAAAG
36413 -CAGCAAGCACGAACAACAAAG
1 ACAGCAAGCA-GAAC-ACAAAG
36434 A
1 A
36435 TAGTAGCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
16 6 0.18
17 5 0.15
18 1 0.03
19 7 0.21
20 2 0.06
21 5 0.15
22 7 0.21
ACGTcount: A:0.54, C:0.26, G:0.18, T:0.02
Consensus pattern (20 bp):
ACAGCAAGCAGAACACAAAG
Found at i:36421 original size:38 final size:36
Alignment explanation
Indices: 36362--36434 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 36
36352 CAATAACACA
* * *
36362 AGCAACAAAATAACAGCAAGCATGAACAGCAAAGAC
1 AGCAACAAAACAACAGCAAGCACGAACAACAAAGAC
36398 AGCAACAAACACAAGCAGCAAGCACGAACAACAAAGA
1 AGCAACAAA-ACAA-CAGCAAGCACGAACAACAAAGA
36435 TAGTAGCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 9 0.28
37 3 0.09
38 20 0.62
ACGTcount: A:0.56, C:0.25, G:0.16, T:0.03
Consensus pattern (36 bp):
AGCAACAAAACAACAGCAAGCACGAACAACAAAGAC
Found at i:36548 original size:24 final size:25
Alignment explanation
Indices: 36520--36569 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
36510 CAGCAATAAC
*
36520 AGCACGAGCAACAAA-ATAGCAGCA
1 AGCACGAACAACAAAGATAGCAGCA
36544 AGCACGAACAACAAAGATAGCAGCA
1 AGCACGAACAACAAAGATAGCAGCA
36569 A
1 A
36570 AAACAACACG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.52, C:0.24, G:0.20, T:0.04
Consensus pattern (25 bp):
AGCACGAACAACAAAGATAGCAGCA
Found at i:37511 original size:20 final size:20
Alignment explanation
Indices: 37486--37625 Score: 90
Period size: 20 Copynumber: 6.9 Consensus size: 20
37476 GTTACAAGCA
*
37486 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
37506 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
***
37526 ATGTATCGATACAAATAGTGGT
1 ATGTATCGATAC-AAT-GTACC
* * * * * **
37548 AGGGTAGCTACTGCCA-GTTTC
1 A-TGTATCGA-TACAATGTACC
37569 ATGTATCGATACAAT-TATCC
1 ATGTATCGATACAATGTA-CC
*
37589 ATGTATCGATACAATG-ATC
1 ATGTATCGATACAATGTACC
37608 ATGTATCGATACAATGTA
1 ATGTATCGATACAATGTA
37626 TCGATACAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
19 21 0.23
20 52 0.57
21 7 0.08
22 3 0.03
23 6 0.07
24 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:37612 original size:19 final size:19
Alignment explanation
Indices: 37567--37623 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 19
37557 ACTGCCAGTT
*
37567 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
37586 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
37606 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
37624 TATCGATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:37626 original size:13 final size:13
Alignment explanation
Indices: 37608--37634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37598 TACAATGATC
37608 ATGTATCGATACA
1 ATGTATCGATACA
37621 ATGTATCGATACA
1 ATGTATCGATACA
37634 A
1 A
37635 AGCATAATGT
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:37630 original size:32 final size:33
Alignment explanation
Indices: 37589--37653 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
37579 ACAATTATCC
* *
37589 ATGTATCGATACAATG-ATCATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
*
37621 ATGTATCGATACAAAGCATAATGTATTGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
37654 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:43703 original size:19 final size:18
Alignment explanation
Indices: 43649--43708 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 18
43639 TAGCTGCTGC
*
43649 CAATTTCATGTATCTATA
1 CAATTTCATGTATCGATA
*
43667 CAATTGTCCATATATCGATA
1 CAATT-T-CATGTATCGATA
43687 CAATTATCATGTATCGATA
1 CAATT-TCATGTATCGATA
43706 CAA
1 CAA
43709 AGCATAATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 5 0.14
19 15 0.42
20 16 0.44
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (18 bp):
CAATTTCATGTATCGATA
Found at i:45565 original size:155 final size:155
Alignment explanation
Indices: 45322--46099 Score: 781
Period size: 155 Copynumber: 5.0 Consensus size: 155
45312 TTTCATGTCA
* * * * * * * *
45322 AAGGTATTCCT-TAGGGGCATTTTCGTAATTTTTTAGAA-TCGAGTCTTAGTTTATCACCAGGTC
1 AAGGTATACCTATAGGGGTATTTTCGTAA-TTTTTAGAACT-AACTCCTAGGTTGTCACCGGGTC
* * * *
45385 CGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCTATTTCTAGTCTTTTTAGGTCCTT
64 CGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAGGTCTTT
* *
45450 TAGGGTTGCCGGGGTACTTTTACGTCG
129 TAGGGGTACCGGGGTACTTTTACGTCG
* * ** *
45477 AAGGTATACCTATAGGGGCATTTTCGTAATTTTTAGAACTAAGTCCTAGGTCATCATCGGGTCCG
1 AAGGTATACCTATAGGGGTATTTTCGTAATTTTTAGAACTAACTCCTAGGTTGTCACCGGGTCCG
* * *
45542 CTTTTATGCCAAAGGCT-GACATTTGGGATAGGTTCAT-CCATCTCTAGTCTTTTTAGGTCTTTT
66 CTTTTATGCCAAAGG-TGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAGGTCTTTT
* * *
45605 AGGGTTGCCGAGGTACTTTTACGTCG
130 AGGGGTACCGGGGTACTTTTACGTCG
** ** * * ** *
45631 AAGGTATACCCGTAGAAGTATTTTCGTAATTTCCTAGAACCGAA-TCCTAGGTTGTCACTTGGTT
1 AAGGTATACCTATAGGGGTATTTTCGTAATTT-TTAGAA-CTAACTCCTAGGTTGTCACCGGGTC
* * * *
45695 TGCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCTT
64 CGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATC-CCATTTCTAGTCTTTTTAGGTCTT
* * *
45760 TTAGGGGTATC-TGGTACTTTTAAGTCG
128 TTAGGGGTACCGGGGTACTTTTACGTCG
* * * *
45787 AAGGTATCCCCTA-A-GGGTATTTTTGTAATTTTTTAGAACCAACTCTTAGGTTGTCACCGGGTC
1 AAGGTAT-ACCTATAGGGGTATTTTCGTAA-TTTTTAGAACTAACTCCTAGGTTGTCACCGGGTC
* * *
45850 CGCTTTTATGCCAAAGGTGGGCATTTAGGGTGGGTTCATCCCATTTCTA-TCCGTTTTAGGTCTT
64 CGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT-CTTTTTAGGTCTT
* * * *
45914 TTAGGGGTACTGGGATACTTTCACGTTG
128 TTAGGGGTACCGGGGTACTTTTACGTCG
* * * * * *
45942 AAAGTAT-CCCATAAGGGTATTTTTGTAAATTTCTAGAACTAACTCCTAGGTCGTCACCGGGTCC
1 AAGGTATACCTATAGGGGTATTTTCGT-AATTTTTAGAACTAACTCCTAGGTTGTCACCGGGTCC
** * *
46006 GCTTTTATG-CTGAGGTGGGCATTTAGGATATGTTCATCCCATTTCTA-TCCTTTTTAGGTCCTT
65 GCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT-CTTTTTAGGTCTTT
** *
46069 TAGGGGTA-TTGGGTACTTTTACGTCA
129 TAGGGGTACCGGGGTACTTTTACGTCG
46095 AAGGT
1 AAGGT
46100 GTCCCCTGAG
Statistics
Matches: 522, Mismatches: 85, Indels: 34
0.81 0.13 0.05
Matches are distributed among these distances:
153 21 0.04
154 164 0.31
155 256 0.49
156 49 0.09
157 32 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (155 bp):
AAGGTATACCTATAGGGGTATTTTCGTAATTTTTAGAACTAACTCCTAGGTTGTCACCGGGTCCG
CTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAGGTCTTTTA
GGGGTACCGGGGTACTTTTACGTCG
Found at i:45964 original size:310 final size:306
Alignment explanation
Indices: 45283--46127 Score: 893
Period size: 310 Copynumber: 2.7 Consensus size: 306
45273 TACATGTCAT
* * * * * * * * *
45283 TTTTAAGTCTTTTAAGGATACTGGGAAACTTTCATG-TCAAAGGTATTCCTTAGGGGCATTTTCG
1 TTTTAGGTCTTTTAGGGATACTGGGATACTTTCACGTTGAAA-GTATCCCATAAGGGTATTTTCG
* * * * * *
45347 TAATTTTTTAGAATCGAGTCTTAGTTTATCACCAGGTCCGCTTTTATGTCGAAGGTGGGCATTTA
65 TAA-TTTCTAGAA-CGAATCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
* * ** *
45412 GGATAGGTTCATCCTATTTCTAGTCTTTTTAGGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCG
128 GGATAGGTTCATCCCATTTCTAGTCTTTTTAGGTCCTTTAGGGGTATC-TGGTACTTTTACGTCG
* * * *
45477 AAGGTAT-ACCTATAGGGGCATTTTCGTAA-TTTTTAGAACTAAGTCCTAGGTCATCATCGGGTC
192 AAGGTATCCCCTA-A-GGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTC
*
45540 CGCTTTTATGCCAAAGGCTGACATTTGGGATAGGTTCATCCATCTCTAGTCT
255 CGCTTTTATGCCAAAGGCTGACATTTGGGATAGGTTCATCCATCTCTAGTCG
* * * * * * * *
45592 TTTTAGGTCTTTTAGGGTTGCCGAGG-TACTTTTACGTCGAAGGTATACCCGT-AGAAGTATTTT
1 TTTTAGGTCTTTTAGGGATACTG-GGATACTTTCACGTTGAAAGTAT-CCCATAAG-GGTATTTT
** **
45655 CGTAATTTCCTAGAACCGAATCCTAGGTTGTCACTTGGTTTGCTTTTATGCCGAAGGTGGGCATT
63 CGTAATTT-CTAGAA-CGAATCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATT
* * * *
45720 TAAGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCTTTTAGGGGTATCTGGTACTTTTAAGT
126 TAGGATAGGTTCATC-CCATTTCTAGTCTTTTTAGGTCCTTTAGGGGTATCTGGTACTTTTACGT
* * * **
45785 CGAAGGTATCCCCTAAGGGTATTTTTGTAATTTTTTAGAACCAACTCTTAGGTTGTCACCGGGTC
190 CGAAGGTATCCCCTAAGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTC
* * *
45850 CGCTTTTATGCCAAAGG-TGGGCATTTAGGG-TGGGTTCATCCCATTTCTA-TCCG
255 CGCTTTTATGCCAAAGGCT-GACATTT-GGGATAGGTTCAT-CCATCTCTAGT-CG
* *
45903 TTTTAGGTCTTTTAGGGGTACTGGGATACTTTCACGTTGAAAGTATCCCATAAGGGTATTTTTGT
1 TTTTAGGTCTTTTAGGGATACTGGGATACTTTCACGTTGAAAGTATCCCATAAGGGTATTTTCGT
* * * *
45968 AAATTTCTAGAACTAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCTG-AGGTGGGCATTTAG
66 -AATTTCTAGAACGAA-TCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
* *
46032 GATATGTTCATCCCATTTCTA-TCCTTTTTAGGTCCTTTAGGGGTAT-TGGGTACTTTTACGTCA
129 GATAGGTTCATCCCATTTCTAGT-CTTTTTAGGTCCTTTAGGGGTATCT-GGTACTTTTACGTCG
* * *
46095 AAGGTGTCCCCTGAGGGCATTTCCGTAATTTTT
192 AAGGTATCCCCTAAGGGCATTTTCGTAATTTTT
46128 CTTGAACTTA
Statistics
Matches: 442, Mismatches: 76, Indels: 37
0.80 0.14 0.07
Matches are distributed among these distances:
307 2 0.00
308 71 0.16
309 73 0.17
310 207 0.47
311 89 0.20
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (306 bp):
TTTTAGGTCTTTTAGGGATACTGGGATACTTTCACGTTGAAAGTATCCCATAAGGGTATTTTCGT
AATTTCTAGAACGAATCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGA
TAGGTTCATCCCATTTCTAGTCTTTTTAGGTCCTTTAGGGGTATCTGGTACTTTTACGTCGAAGG
TATCCCCTAAGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTT
TATGCCAAAGGCTGACATTTGGGATAGGTTCATCCATCTCTAGTCG
Found at i:49790 original size:20 final size:20
Alignment explanation
Indices: 49721--49792 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
49711 TGTTGATGTT
* *
49721 TGCATTTGTATCATTTTACA
1 TGCATTTGCATCATTTAACA
**
49741 TGCATTTGCACTCAGATAACA
1 TGCATTTGCA-TCATTTAACA
*
49762 TTCGCATTTGCATCATTTAATA
1 -T-GCATTTGCATCATTTAACA
49784 TGCATTTGC
1 TGCATTTGC
49793 CACTTTACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.40
21 8 0.19
22 8 0.19
23 9 0.21
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (20 bp):
TGCATTTGCATCATTTAACA
Found at i:51171 original size:43 final size:43
Alignment explanation
Indices: 51107--51315 Score: 195
Period size: 43 Copynumber: 4.8 Consensus size: 43
51097 ATACTTTAAT
* * *
51107 CTTAAGTTTGCCTGTCGGCTTTGACCTTAGAGACTTCCTCGCC
1 CTTAAGTCTGCCTATCAGCTTTGACCTTAGAGACTTCCTCGCC
* * * * * *
51150 CTTAAGTCTGCCTATCAGCTTTAACCCTGGAAACTTCTTTGCC
1 CTTAAGTCTGCCTATCAGCTTTGACCTTAGAGACTTCCTCGCC
* * * * *
51193 CTTAAGTCTACCTGTCAGCTTTGACCCTGGAGACTTCTTC-CC
1 CTTAAGTCTGCCTATCAGCTTTGACCTTAGAGACTTCCTCGCC
* * **
51235 CTTTAAATCTGCCTATCAGCTTTGACCTTAGAGGCTTCCTTTACC
1 C-TTAAGTCTGCCTATCAGCTTTGACCTTAGAGACTTCC-TCGCC
* * * *
51280 CTTAAGTTTGCCCATCAGCTTAGACCTAAGAGACTT
1 CTTAAGTCTGCCTATCAGCTTTGACCTTAGAGACTT
51316 TTTTTGTCAA
Statistics
Matches: 135, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
42 3 0.02
43 99 0.73
44 30 0.22
45 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (43 bp):
CTTAAGTCTGCCTATCAGCTTTGACCTTAGAGACTTCCTCGCC
Found at i:51446 original size:43 final size:43
Alignment explanation
Indices: 51393--53149 Score: 901
Period size: 43 Copynumber: 41.2 Consensus size: 43
51383 TCAGACTTGG
* * * * * * *
51393 GAGATTTCCTTTATCAATCATTTACCCATCGGCTTAAACCTGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
** * **
51436 GAGACTTCCTTTGTCAATATTCTGACCATCAACTTAGACCTGA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * *
51479 GAAACTTCCCTTATCAATCGTCTGCCCATTTGG-TTAGACC-CA
1 GAGACTTCCTTTGTCAATCGTCTGCCCA-TCGGCTTAGACCTGA
* * ** * *
51521 GAAGACCTCCTTTGTCAATCGTCTACCTGTCAGCTTAGACCCGA
1 G-AGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
** * ** * *
51565 GAGACTT--TTCCATCAATCGTCTACTTATCAGCTTAGACCTGG
1 GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * * * *
51607 GAGACTTTCTTTGTCAATCGTTTACCCATTGGTTTAAACTTGA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* *
51650 GAGACTTCCTTTGTCAATCGTCTGCCTATCGG-TTCAGACTTGA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTT-AGACCTGA
* * * * *
51693 GAGACTTCCTTTATCGATCGTCTGCCTC-TCGACTTAAACCCGA
1 GAGACTTCCTTTGTCAATCGTCTGCC-CATCGGCTTAGACCTGA
* * ** * *
51736 AAGATTTTTTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * *
51779 GAGACTT-CTTTGTCAAATAGTCTACCCATCGGCTTAAACCTGA
1 GAGACTTCCTTTGTC-AATCGTCTGCCCATCGGCTTAGACCTGA
** * *
51822 GAGACTTCCTTTGTCAATCGTCTGCCCATTAGCTCAGA-CTCA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * **
51864 GGAGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAGACCCAA
1 -GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* *
51908 GAGACTTCCTTTGTCAATCGTCTGCTCGTCGGCTTAGACCT-A
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
** * * ** *
51950 GGAGACTT--TTCCATCAATCGTTTGACTGTCGGCTTAAACCTGA
1 -GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * *
51993 GAGACTT--TTTCATCAATCGTCTGCCCGTTGGCTTAGA-CTCGG
1 GAGACTTCCTTT-GTCAATCGTCTGCCCATCGGCTTAGACCT-GA
* * * * * *
52035 GAGACTT--TTCTGTCATTTGTTTGCCCGTCGGCTCAGACCCGA
1 GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * *
52077 GAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTTAGACCCGA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
** *
52120 GAGACTT--TTCCATCAATCGTCTACCCATCGGCTTAGACCT-A
1 GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * *
52161 GGAGACTTCCTTTGTCAATCATTTGCCCATCAGCTCAGACCTAA
1 -GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * * *
52205 GAGACTTCCTTTATCAATCATCTACCCATCGACTCAGACCTGG
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* ** * *
52248 GAGACTTCCTTTATCAATCGT-TAGCCTTTCGGCTTAAACCCGA
1 GAGACTTCCTTTGTCAATCGTCT-GCCCATCGGCTTAGACCTGA
** * * * * * *
52291 GAGACTTTTTTTGTCAATCGTTTGCCCGTCAGC-AAGACCCGG
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * * *
52333 GACACTTCCTTTATCAATCATCTGCTCGTCAGCTTAGACCTG-
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * * *
52375 GAAGACTTCATTTGTTAATCGTCTACTCGTCGGCTTAGACCCGA
1 G-AGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * **
52419 GAGACTTCCTTTGTCAATCGTCTGCCCGTTGGCTCAGACCCAA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * ** * *
52462 GAGACTTACTTTATCAATCATCTACCTGT-GAGCTTAGACCCGG
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCG-GCTTAGACCTGA
* * *
52505 GAGACTTCCTTTGTCAATCGTCTTCCCATTGGCTTAGACTTGA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * ** * * * *
52548 GAGGCTTTTCC-AT-T-AATTGTCTGCCTGTCGACTAAAACTCGGA
1 GAGAC--TTCCTTTGTCAATCGTCTGCCCATCGGCTTAGAC-CTGA
** * * * * *
52591 -AGACTT--TTCCATCAATCGTATGCCCGTTGGCTTAGACCCGG
1 GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * **
52632 GAGACTT--TTCTATCATTCGTCTGCCCGTCGGCTGAGACCCAA
1 GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * ** * *
52674 GAGACTTTCTTTGACAATCGTCTACCTGTCGGCTCAGACC-CA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
** ** * * * *
52716 GGAGACTT-CTTCATCTTTCATCTGCCCGTCAGCTTAGACCTGG
1 -GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * ** * * *
52759 GAGA-TT--TTTCCATCAATCGTCT-ACGGTCTGCTTAAACTTG-
1 GAGACTTCCTTT--GTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * * *
52799 GAAGACTTCCTTTGTTAATCGTCTACCCGTCGGCTTAGACCCGG
1 G-AGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* ** ** * * * *
52843 GAGACTTCCTTTATCAATTATCTGCCTGTCAGCTCAGACCCGG
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * *
52886 GAGACTTCCTTTGTCAATTGTCTGCCCGTCAGCTTAGACCTAA
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
* * * *
52929 GAGACTTCCTTTGTCAATCATCTGCCCATCGGTTTAGACCCGG
1 GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
*
52972 GAGA-TT--TTTCCATCAATCGT-TGACCCATCGGCTTAGACCT-A
1 GAGACTTCCTTT--GTCAATCGTCTG-CCCATCGGCTTAGACCTGA
* * * * *
53013 GGAGACTTCCTTTGTCAATCGTCTCCCCGTTGGCTTAGACCCGG
1 -GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
** ** ** *
53057 GAGACTT--TTCCATCAATCACCTGCCCATTAGCTTAGA-CTCGG
1 GAGACTTCCTT-TGTCAATCGTCTGCCCATCGGCTTAGACCT-GA
* *
53099 GAGTCTTCCTTTATCAATCGTCTGCCTC-TCGGCTTAGACCT-A
1 GAGACTTCCTTTGTCAATCGTCTGCC-CATCGGCTTAGACCTGA
53141 GGAGACTTC
1 -GAGACTTC
53150 TTCATCTATT
Statistics
Matches: 1323, Mismatches: 319, Indels: 144
0.74 0.18 0.08
Matches are distributed among these distances:
40 8 0.01
41 35 0.03
42 386 0.29
43 850 0.64
44 37 0.03
45 7 0.01
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (43 bp):
GAGACTTCCTTTGTCAATCGTCTGCCCATCGGCTTAGACCTGA
Found at i:51807 original size:172 final size:172
Alignment explanation
Indices: 51393--53138 Score: 821
Period size: 171 Copynumber: 10.2 Consensus size: 172
51383 TCAGACTTGG
* * * * * * * * * * *
51393 GAGATTTCCTTTATCAATCATTTACCCATCGGCTTAAACCTGTGAGACTTCCTTTGTCAATATTC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAATAGTC
** * * * * ** * * *
51458 TGA-CCATCAACTTAGACCTGAGAAACTTCCCTTATCAATCGTCTGCCCATTTGGTTAGACCCAG
66 T-ACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCAG
* * * * ** * *
51522 AAGACCTCCTTTGTCAATCGTCTACCTGTCAGCTTAGACCCGA
130 GAGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAAACCCAA
** * *** * * * *
51565 GAGACTT--TTCCATCAATCGTCTACTTATCAGCTTAGACCTGGGAGACTTTCTTTGTCAATCGT
1 GAGACTTCCTT-TGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAATAGT
* * * * * * * *
51628 TTACCCATTGGTTTAAACTTGAGAGACTTCCTTTGTCAATCGTCTGCCTATCGGTTCAGACT-TG
65 CTACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCAG
*
51692 AGAGACTTCCTTTATCGATCGTCTGCCTC-TC-GACTTAAACCCGAA
130 -GAGACTTCCTTTATCAATCGTCTGCC-CATCAG-CTTAAACCC-AA
* **
51737 -AGATTTTTTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGAC-TTCTTTGTCAAATAGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTC-AATAGT
*
51800 CTACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATTAGCTCAGACTCAG
65 CTACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCAG
*
51865 GAGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAGACCCAA
130 GAGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAAACCCAA
* * *** *
51908 GAGACTTCCTTTGTCAATCGTCTGCTCGTCGGCTTAGA-CCTAGGAGACTTT-TCCATCAATCGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGA-GAGACTTTCTTTGTCAATAGT
* ** * * ** *
51971 TTGA-CTGTCGGCTTAAACCTGAGAGACTT--TTTCATCAATCGTCTGCCCGTTGGCTTAGACTC
65 CT-ACCCATCGGCTTAAACCTGAGAGACTTCCTTT-GTCAATCGTCTGCCCATCAGCTCAGACTC
* * * * * * * * * *
52033 GGGAGACTT--TTCTGTCATTTGTTTGCCCGTCGGCTCAGACCCGA
128 AGGAGACTTCCTT-TATCAATCGTCTGCCCATCAGCTTAAACCCAA
* * *** *
52077 GAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTTAGACCCGAGAGACTTT-TCCATCAATCGTC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAATAGTC
* * *
52141 TACCCATCGGCTTAGACCT-AGGAGACTTCCTTTGTCAATCATTTGCCCATCAGCTCAGAC-CTA
66 TACCCATCGGCTTAAACCTGA-GAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTC-A
* * * * * ***
52204 AGAGACTTCCTTTATCAATCATCTACCCATC-GACTCAGACCTGG
129 GGAGACTTCCTTTATCAATCGTCTGCCCATCAG-CTTAAACCCAA
* ** * * *
52248 GAGACTTCCTTTATCAATCGT-TAGCCTTTCGGCTTAAACCCGAGAGACTTTTTTTGTCAATCGT
1 GAGACTTCCTTTGTCAATCGTCT-GCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAATAGT
* * * * * * * * * * * * *
52312 TTGCCCGTCAGC--AAGACCCGGGACACTTCCTTTATCAATCATCTGCTCGTCAGCTTAGAC-CT
65 CTACCCATCGGCTTAA-ACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCA
* * * * * * * * *
52374 GGAAGACTTCATTTGTTAATCGTCTACTCGTCGGCTTAGACCCGA
129 GG-AGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAAACCCAA
* * * * *
52419 GAGACTTCCTTTGTCAATCGTCTGCCCGTTGGCTCAGACCCAAGAGACTTACTTTATCAATCA-T
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAAT-AGT
** * * * * ** * *
52483 CTACCTGT-GAGCTTAGACCCGGGAGACTTCCTTTGTCAATCGTCTTCCCATTGGCTTAGACT-T
65 CTACCCATCG-GCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCA
* * * * ** * * *
52546 GAGAGGCTT--TTCCATTAATTGTCTGCCTGTC-GACTAAAACTC-G
129 G-GAGACTTCCTT-TATCAATCGTCTGCCCATCAG-CTTAAACCCAA
** * * * * * * *
52589 GAAGACTT--TTCCATCAATCGTATGCCCGTTGGCTTAGACCCGGGAGACTTT-TCTATCATTCG
1 G-AGACTTCCTT-TGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAATAG
* * * * ** * * * ** * *
52651 TCTGCCCGTCGGCTGAGACCCAAGAGACTTTCTTTGACAATCGTCTACCTGTCGGCTCAGACCCA
64 TCTACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCA
* ** * * * ***
52716 GGAGACTT-CTTCATCTTTCATCTGCCCGTCAGCTTAGACCTGG
129 GGAGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAAACCCAA
* * * * * ** * * *
52759 GAGA-TT--TTTCCATCAATCGTCT-ACGGTCTGCTTAAACTTG-GAAGACTTCCTTTGTTAATC
1 GAGACTTCCTTT--GTCAATCGTCTGCCCGTCGGCTTAGACCCGAG-AGACTTTCTTTGTCAATA
* * * * * ** ** *
52819 GTCTACCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATTATCTGCCTGTCAGCTCAGACCC
63 GTCTACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTC
* * * * * *
52884 GGGAGACTTCCTTTGTCAATTGTCTGCCCGTCAGCTTAGACCTAA
128 AGGAGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAAACCCAA
* * * * ** *
52929 GAGACTTCCTTTGTCAATCATCTGCCCATCGGTTTAGACCCGGGAGA-TTT-TTCCATCAATCGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTT-TGTCAATAGT
* * * ** * *
52992 -TGACCCATCGGCTTAGACCT-AGGAGACTTCCTTTGTCAATCGTCTCCCCGTTGGCTTAGACCC
65 CT-ACCCATCGGCTTAAACCTGA-GAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTC
* * ** * * * **
53055 GGGAGACTT--TTCCATCAATCACCTGCCCATTAGCTTAGACTCGG
128 AGGAGACTTCCTT-TATCAATCGTCTGCCCATCAGCTTAAACCCAA
* *
53099 GAGTCTTCCTTTATCAATCGTCTGCCTC-TCGGCTTAGACC
1 GAGACTTCCTTTGTCAATCGTCTGCC-CGTCGGCTTAGACC
53139 TAGGAGACTT
Statistics
Matches: 1223, Mismatches: 286, Indels: 132
0.75 0.17 0.08
Matches are distributed among these distances:
167 1 0.00
168 25 0.02
169 268 0.22
170 205 0.17
171 463 0.38
172 249 0.20
173 12 0.01
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (172 bp):
GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTTCTTTGTCAATAGTC
TACCCATCGGCTTAAACCTGAGAGACTTCCTTTGTCAATCGTCTGCCCATCAGCTCAGACTCAGG
AGACTTCCTTTATCAATCGTCTGCCCATCAGCTTAAACCCAA
Found at i:52351 original size:214 final size:214
Alignment explanation
Indices: 52061--53032 Score: 549
Period size: 214 Copynumber: 4.6 Consensus size: 214
52051 TTGTTTGCCC
* * *
52061 GTCGGCTCAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTTAGACCCGAGAGACT
1 GTCGGCTTAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTAAGACCCGAGACACT
* * * * *
52126 TTTCCATCAATCGTCTACCCATCGGCTTAGACCTAGG-AGACTTCCTTTGTCAATCATTTGCCCA
66 TTTCCATCAATCATCTACCCATCAGCTTAGACCT-GGAAGACTTCATTTGTCAATCATCTACCCA
* ***
52190 TCAGCTCAGACCTAAGAGACTTCCTTTATCAATCATCTACCCATCGACTCAGACCTGGGAGACTT
130 TCAGCTCAGACCCAAGAGACTTCCTTTATCAATCATCTACCCATCGACTCAGACCCAAGAGACTT
* *
52255 CCTTTATCAATCGT-TAGCCT
195 ACTTTATCAATCATCTA-CCT
* * ** * * *
52275 TTCGGCTTAAACCCGAGAGACTTTTTTTGTCAATCGTTTGCCCGTCAGC-AAGACCCGGGACACT
1 GTCGGCTTAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTAAGACCCGAGACACT
* * * * * * *
52339 TCCTT-TATCAATCATCTGCTCGTCAGCTTAGACCTGGAAGACTTCATTTGTTAATCGTCTACTC
66 T--TTCCATCAATCATCTACCCATCAGCTTAGACCTGGAAGACTTCATTTGTCAATCATCTACCC
* * * * * * * * * *
52403 GTCGGCTTAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCGTTGGCTCAGACCCAAGAGACT
129 ATCAGCTCAGACCCAAGAGACTTCCTTTATCAATCATCTACCCATCGACTCAGACCCAAGAGACT
52468 TACTTTATCAATCATCTACCT
194 TACTTTATCAATCATCTACCT
* * * ** * ** **
52489 GT-GAGCTTAGACCCGGGAGACTTCCTTTGTCAATCGTCTTCCCATTGGCTTAGACTTGAGAGGC
1 GTCG-GCTTAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTAAGACCCGAGACAC
* ** * ** * * ** * * *
52553 TTTTCCATTAATTGTCTGCCTGTC-GAC-TAAAACTCGGAAGACTT--TTCCATCAATCGTATGC
65 TTTTCCATCAATCATCTACCCATCAG-CTTAGACCT-GGAAGACTTCATT-TGTCAATCATCTAC
* ** * ** * * * * * *
52614 CCGTTGGCTTAGACCCGGGAGACTT--TTCTATCATTCGTCTGCCCGTCGGCTGAGACCCAAGAG
127 CCATCAGCTCAGACCCAAGAGACTTCCTT-TATCAATCATCTACCCATCGACTCAGACCCAAGAG
* *
52677 ACTTTCTTTGA-CAATCGTCTACCT
191 ACTTACTTT-ATCAATCATCTACCT
* ** ** * * * * * * *
52701 GTCGGCTCAGACCC-AGGAGACTT-CTTCATCTTTCATCTGCCCGTCAGCTTAGACCTGGGAGAT
1 GTCGGCTTAGACCCGA-GAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTAAGACCCGAGACAC
* ** * * * * * * *
52764 TTTTCCATCAATCGTCTA-CGGTCTGCTTAAACTTGGAAGACTTCCTTTGTTAATCGTCTACCCG
65 TTTTCCATCAATCATCTACCCATCAGCTTAGACCTGGAAGACTTCATTTGTCAATCATCTACCCA
* * ** * * ** **
52828 TCGGCTTAGACCCGGGAGACTTCCTTTATCAATTATCTGCCTGTC-AGCTCAGACCCGGGAGACT
130 TCAGCTCAGACCCAAGAGACTTCCTTTATCAATCATCTACCCATCGA-CTCAGACCCAAGAGACT
* * ** * *
52892 TCCTTTGTCAATTGTCTGCCC
194 TACTTTATCAATCATCTACCT
* ** * * * * * * * *
52913 GTCAGCTTAGACCTAAGAGACTTCCTTTGTCAATCATCTGCCCATCGGTTTAGACCCGGGAGATT
1 GTCGGCTTAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTAAGACCCGAGACACT
* * *
52978 TTTCCATCAATCGT-TGACCCATCGGCTTAGACCTAGG-AGACTTCCTTTGTCAATC
66 TTTCCATCAATCATCT-ACCCATCAGCTTAGACCT-GGAAGACTTCATTTGTCAATC
53033 GTCTCCCCGT
Statistics
Matches: 598, Mismatches: 133, Indels: 54
0.76 0.17 0.07
Matches are distributed among these distances:
210 14 0.02
211 83 0.14
212 136 0.23
213 108 0.18
214 241 0.40
215 16 0.03
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (214 bp):
GTCGGCTTAGACCCGAGAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTAAGACCCGAGACACT
TTTCCATCAATCATCTACCCATCAGCTTAGACCTGGAAGACTTCATTTGTCAATCATCTACCCAT
CAGCTCAGACCCAAGAGACTTCCTTTATCAATCATCTACCCATCGACTCAGACCCAAGAGACTTA
CTTTATCAATCATCTACCT
Found at i:52914 original size:86 final size:86
Alignment explanation
Indices: 51393--53442 Score: 1046
Period size: 86 Copynumber: 24.1 Consensus size: 86
51383 TCAGACTTGG
* * * * * * * * * * **
51393 GAGATTTCCTTTATCAATCATTTACCCATCGGCTTAAACCTGTGAGACTTCCTTTGTCAATATTC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
* * ** *
51458 TGACCATCAACTTAGACCTGA
66 TGCCCGTCGGCTTAGACCCGA
* * * * * * * * *
51479 GAAACTTCCCTTATCAATCGTCTGCCCATTTGG-TTAGACCCAGAAGACCTCCTTTGTCAATCGT
1 GAGACTTCCTTTGTCAATCGTCTGCCC-GTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
* * *
51543 CTACCTGTCAGCTTAGACCCGA
65 CTGCCCGTCGGCTTAGACCCGA
** * *** * * * *
51565 GAGACTT--TTCCATCAATCGTCTACTTATCAGCTTAGACCTGGGAGACTTTCTTTGTCAATCGT
1 GAGACTTCCTT-TGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
* * * * * * **
51628 TTACCCATTGGTTTAAACTTGA
65 CTGCCCGTCGGCTTAGACCCGA
** ** * *
51650 GAGACTTCCTTTGTCAATCGTCTGCCTATCGG-TTCAGACTTGAGAGACTTCCTTTATCGATCGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTT-AGACCCGGGAGACTTCCTTTATCAATCGT
* *
51714 CTGCCTC-TCGACTTAAACCCGA
65 CTGCC-CGTCGGCTTAGACCCGA
* * ** * * *
51736 AAGATTTTTTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTT-CTTTGTCAAATAGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATC-AATCGT
* * * *
51800 CTACCCATCGGCTTAAACCTGA
65 CTGCCCGTCGGCTTAGACCCGA
* ** * * *
51822 GAGACTTCCTTTGTCAATCGTCTGCCCATTAGCTCAGACTCAGGAGACTTCCTTTATCAATCGTC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
* * *
51887 TGCCCATCAGCTTAGACCCAA
66 TGCCCGTCGGCTTAGACCCGA
* ** *
51908 GAGACTTCCTTTGTCAATCGTCTGCTCGTCGGCTTAGACCTAGGAGACTT--TTCCATCAATCGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-TATCAATCGT
* * * * *
51971 TTGACTGTCGGCTTAAACCTGA
65 CTGCCCGTCGGCTTAGACCCGA
* * * * * *
51993 GAGACTT--TTTCATCAATCGTCTGCCCGTTGGCTTAGACTCGGGAGACTT--TTCTGTCATTTG
1 GAGACTTCCTTT-GTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-TATCAATCG
* *
52054 TTTGCCCGTCGGCTCAGACCCGA
64 TCTGCCCGTCGGCTTAGACCCGA
* * * *
52077 GAGACTTCCTTTGTCAATCGTCTGCCCCTCAGCTTAGACCCGAGAGACTT--TTCCATCAATCGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-TATCAATCGT
* * *
52140 CTACCCATCGGCTTAGA-CCTA
65 CTGCCCGTCGGCTTAGACCCGA
* * * * * *** *
52161 GGAGACTTCCTTTGTCAATCATTTGCCCATCAGCTCAGACCTAAGAGACTTCCTTTATCAATCAT
1 -GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
* * * * * *
52226 CTACCCATCGACTCAGACCTGG
65 CTGCCCGTCGGCTTAGACCCGA
* ** * * ** *
52248 GAGACTTCCTTTATCAATCGT-TAGCCTTTCGGCTTAAACCCGAGAGACTTTTTTTGTCAATCGT
1 GAGACTTCCTTTGTCAATCGTCT-GCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
* * * *
52312 TTGCCCGTCAGC-AAGACCCGG
65 CTGCCCGTCGGCTTAGACCCGA
* * * * * * * * * *
52333 GACACTTCCTTTATCAATCATCTGCTCGTCAGCTTAGACCTGGAAGACTTCATTTGTTAATCGTC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
* *
52398 TACTCGTCGGCTTAGACCCGA
66 TGCCCGTCGGCTTAGACCCGA
* * ** * *
52419 GAGACTTCCTTTGTCAATCGTCTGCCCGTTGGCTCAGACCCAAGAGACTTACTTTATCAATCATC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
* * *
52484 TACCTGT-GAGCTTAGACCCGG
66 TGCCCGTCG-GCTTAGACCCGA
* * * ** * * * * *
52505 GAGACTTCCTTTGTCAATCGTCTTCCCATTGGCTTAGACTTGAGAGGCTT--TTCCATTAATTGT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-TATCAATCGT
* * * * *
52568 CTGCCTGTCGACTAAAACTCG-
65 CTGCCCGTCGGCTTAGACCCGA
** * * *
52589 GAAGACTT--TTCCATCAATCGTATGCCCGTTGGCTTAGACCCGGGAGACTT--TTCTATCATTC
1 G-AGACTTCCTT-TGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-TATCAATC
* *
52650 GTCTGCCCGTCGGCTGAGACCCAA
63 GTCTGCCCGTCGGCTTAGACCCGA
* * * * * * * ** *
52674 GAGACTTTCTTTGACAATCGTCTACCTGTCGGCTCAGACCCAGGAGACTT-CTTCATCTTTCATC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
* * *
52738 TGCCCGTCAGCTTAGACCTGG
66 TGCCCGTCGGCTTAGACCCGA
* * * * * ** * * *
52759 GAGA-TT--TTTCCATCAATCGTCT-ACGGTCTGCTTAAACTTGGAAGACTTCCTTTGTTAATCG
1 GAGACTTCCTTT--GTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCG
* *
52820 TCTACCCGTCGGCTTAGACCCGG
64 TCTGCCCGTCGGCTTAGACCCGA
* ** * * * * *
52843 GAGACTTCCTTTATCAATTATCTGCCTGTCAGCTCAGACCCGGGAGACTTCCTTTGTCAATTGTC
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
* **
52908 TGCCCGTCAGCTTAGACCTAA
66 TGCCCGTCGGCTTAGACCCGA
* * *
52929 GAGACTTCCTTTGTCAATCATCTGCCCATCGGTTTAGACCCGGGAGA-TT--TTTCCATCAATCG
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTT--ATCAATCG
* *
52991 T-TGACCCATCGGCTTAGA-CCTA
64 TCTG-CCCGTCGGCTTAGACCCGA
* * * *
53013 GGAGACTTCCTTTGTCAATCGTCTCCCCGTTGGCTTAGACCCGGGAGACTT--TTCCATCAATCA
1 -GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTT-TATCAATCG
* * ** * *
53076 CCTGCCCATTAGCTTAGACTCGG
64 TCTGCCCGTCGGCTTAGACCCGA
* * ** * * *
53099 GAGTCTTCCTTTATCAATCGTCTGCCTC-TCGGCTTAGACCTAGGAGACTT-CTTCATCTATTGT
1 GAGACTTCCTTTGTCAATCGTCTGCC-CGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
* * * * * *
53162 TTTCCCGTCGGCTTTGTCCTGG
65 CTGCCCGTCGGCTTAGACCCGA
* * * * * * * * * *
53184 GATATTTCCTTTATCTA-CTGTCTGCCCGTTGACTTAGACCCGAGAGA-TT-CTTCATCCA-CTA
1 GAGACTTCCTTTGTCAATC-GTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATC-G
* * * *
53245 TCTGGCCATTGGCTTAGACCCGT
64 TCTGCCCGTCGGCTTAGACCCGA
* * * * * * *** **
53268 GAGACTT--TTTCATCCACCGTCTGCCCGTCGGCTTAGACTCGAGAGACAT-CTTTATTTTTTAT
1 GAGACTTCCTTT-GTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGT
* * *
53330 CTGTCCATCGGCTTAGTCCCGA
65 CTGCCCGTCGGCTTAGACCCGA
* * * * * * ** * * ** * *
53352 GAGACTTCCTTTATCAACCGTCTACCCGTCGACTTAAACTCGACAGACCT-CTTCATCTTTTGTT
1 GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
53416 TGCCCGTCGGC-TAGACCCGA
66 TGCCCGTCGGCTTAGACCCGA
53436 GAGACTT
1 GAGACTT
53443 TTTCATCTAC
Statistics
Matches: 1512, Mismatches: 395, Indels: 116
0.75 0.20 0.06
Matches are distributed among these distances:
82 6 0.00
83 54 0.04
84 261 0.17
85 585 0.39
86 586 0.39
87 20 0.01
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (86 bp):
GAGACTTCCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCGGGAGACTTCCTTTATCAATCGTC
TGCCCGTCGGCTTAGACCCGA
Found at i:53301 original size:42 final size:42
Alignment explanation
Indices: 53203--53449 Score: 138
Period size: 42 Copynumber: 5.9 Consensus size: 42
53193 TTTATCTACT
* *
53203 GTCTGCCCGTTGACTTAGACCCGAGAGA-TTCTTCATCCACT
1 GTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCATCCACC
* * * * *
53244 ATCTGGCCATTGGCTTAGACCCGTGAGACTTTTTCATCCACC
1 GTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCATCCACC
* * * * *****
53286 GTCTGCCCGTCGGCTTAGACTCGAGAGACATCTTTATTTTTT
1 GTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCATCCACC
* * * * * * *
53328 ATCTGTCCATCGGCTTAGTCCCGAGAGACTTCCTTTATCAACC
1 GTCTGCCCGTTGGCTTAGACCCGAGAGACTT-CTTCATCCACC
* * * * * * * ****
53371 GTCTACCCGTCGACTTAAACTCGACAGACCTCTTCATCTTTT
1 GTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCATCCACC
* * *
53413 GTTTGCCCGTCGGC-TAGACCCGAGAGACTTTTTCATC
1 GTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCATC
53450 TACTGTTTGC
Statistics
Matches: 149, Mismatches: 55, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
41 41 0.28
42 81 0.54
43 27 0.18
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (42 bp):
GTCTGCCCGTTGGCTTAGACCCGAGAGACTTCTTCATCCACC
Found at i:53394 original size:85 final size:84
Alignment explanation
Indices: 53243--53449 Score: 238
Period size: 85 Copynumber: 2.5 Consensus size: 84
53233 CTTCATCCAC
* * * * * * *
53243 TATCTGGCCATTGGCTTAGACCCGTGAGACTTTTTCATCCACCGTCTGCCCGTCGGCTTAGACTC
1 TATCTGCCCATCGGCTTAGACCCGAGAGACTTTTTCATCAACCGTCTACCCGTCGACTTAAACTC
* * *
53308 GAGAGACATCTTTATTTTT
66 GACAGACATCTTCATCTTT
* *
53327 TATCTGTCCATCGGCTTAGTCCCGAGAGACTTCCTTT-ATCAACCGTCTACCCGTCGACTTAAAC
1 TATCTGCCCATCGGCTTAGACCCGAGAGACTT--TTTCATCAACCGTCTACCCGTCGACTTAAAC
*
53391 TCGACAGACCTCTTCATCTTT
64 TCGACAGACATCTTCATCTTT
* * *
53412 TGTTTGCCCGTCGGC-TAGACCCGAGAGACTTTTTCATC
1 TATCTGCCCATCGGCTTAGACCCGAGAGACTTTTTCATC
53450 TACTGTTTGC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
82 3 0.03
83 3 0.03
84 43 0.42
85 51 0.50
86 3 0.03
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (84 bp):
TATCTGCCCATCGGCTTAGACCCGAGAGACTTTTTCATCAACCGTCTACCCGTCGACTTAAACTC
GACAGACATCTTCATCTTT
Found at i:53784 original size:84 final size:85
Alignment explanation
Indices: 53588--53893 Score: 241
Period size: 84 Copynumber: 3.6 Consensus size: 85
53578 TCCTTAGTGG
* * * * * * * * *
53588 CCTGTCAGCTCAGTCTCCGATCAACCTTCATCCATTATTTACCCAT-TGATTCA-ATCCTCAGTA
1 CCTGTCAGCTCAATCTCTGGTCAACCTTCATCCATTGTTTACCTATCGGCTT-AGTTCCTCGGT-
* * *
53651 AACCCCA-T-CCCTTCTGGTGA
64 AAGCCCATTACCCTTATCGTGA
* * * * * * *
53671 CCTATCAACTTAGTCTCTAGTTAACCTTCATCCATTGTTTACCTATCGACTTAGTTCC-CGGT-A
1 CCTGTCAGCTCAATCTCTGGTCAACCTTCATCCATTGTTTACCTATCGGCTTAGTTCCTCGGTAA
*
53734 GACCCATTACCTTTATCGTGA
66 G-CCCATTACCCTTATCGTGA
* *
53755 CCTGTCAGCTCAATCTCTGGTCAACCTTCATCCATTGTTTACTTATCGGCTCAG-TCCTCGGTAA
1 CCTGTCAGCTCAATCTCTGGTCAACCTTCATCCATTGTTTACCTATCGGCTTAGTTCCTCGGTAA
*
53819 TGCCCATTACCCTTATGGTGA
66 -GCCCATTACCCTTATCGTGA
* * * * * * * *
53840 CTTGTCAGCTCAGTCTC-GATCAATCTTTATCCTTTATTCACCTATCGGCTTAGT
1 CCTGTCAGCTCAATCTCTGGTCAACCTTCATCCATTGTTTACCTATCGGCTTAGT
53894 CCCAAGTACT
Statistics
Matches: 175, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
81 1 0.01
82 4 0.02
83 45 0.26
84 91 0.52
85 33 0.19
86 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (85 bp):
CCTGTCAGCTCAATCTCTGGTCAACCTTCATCCATTGTTTACCTATCGGCTTAGTTCCTCGGTAA
GCCCATTACCCTTATCGTGA
Found at i:54291 original size:167 final size:168
Alignment explanation
Indices: 53865--54301 Score: 530
Period size: 168 Copynumber: 2.6 Consensus size: 168
53855 TCGATCAATC
** * * *
53865 TTTATCCTTTATTCACCTATCGGCTTAGTCCCAAGTACTTTTTTTTATCTTTTGTTGAC-TAGTC
1 TTTATCCTCCATTCACCTGTCGGCTTGGTCCCAAGTACTTTCTTTTATCTTTTGTTGACTTA-TC
* *
53929 GATCCAATCCTC-GTCAACTTTTTTATCTTTTGTTTACCCATCAGCCCAGTCCCGAGTAAATCCT
65 GGTCCAAT-CTCGGTCAACTTTTTTATCCTTTGTTTACCCATCAGCCCAGTCCCGAGTAAATCCT
53993 TTATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
129 TTATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
* *
54033 TTTATCCTCCATTC-CCTTGTCGGCTTGGTCTCAAGTAC-TTCTTTTTATCTTTTGTTGACTTGT
1 TTTATCCTCCATTCACC-TGTCGGCTTGGTCCCAAGTACTTTC-TTTTATCTTTTGTTGACTTAT
* * * * *
54096 CGGTCCAATCTCGATCAACTTTTTTATCCTTTGTTTACCCA-CTGGTCTAG-CCCTAGGTAAATC
64 CGGTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCATC-AGCCCAGTCCCGA-GTAAATC
* * * * *
54159 CTTTATCCGTCATTGACTTGTTGGTTTAATCTTGG-TCA-AT
127 CTTTATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
* * *
54199 TATTATCCTCCATTCACCTGTCGGCTTGGTCCCAGGTACTTTCTTTTATATTTTATTGACTTATC
1 T-TTATCCTCCATTCACCTGTCGGCTTGGTCCCAAGTACTTTCTTTTATCTTTTGTTGACTTATC
* * *
54264 GGTCCAATCTCGGTTAACTTCTTTATCCCTTGTTTACC
65 GGTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACC
54302 TGTCGACTTA
Statistics
Matches: 232, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
166 3 0.01
167 99 0.43
168 129 0.56
169 1 0.00
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (168 bp):
TTTATCCTCCATTCACCTGTCGGCTTGGTCCCAAGTACTTTCTTTTATCTTTTGTTGACTTATCG
GTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCCATCAGCCCAGTCCCGAGTAAATCCTTT
ATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
Found at i:54344 original size:167 final size:166
Alignment explanation
Indices: 53865--54359 Score: 498
Period size: 167 Copynumber: 3.0 Consensus size: 166
53855 TCGATCAATC
** * * *
53865 TTTATCCTTTATTCACCTATCGGCTTAGTCCCAAGTACTTTTTTTTATCTTTTGTTGAC-TAGTC
1 TTTATCCTCCATTCACCTGTCGGCTTGGTCCCAAGTACTTTCTTTTATCTTTTGTTGACTTA-TC
* * * * * *
53929 GATCCAATCCTC-GTCAACTTTTTTATCTTTTGTTTACCCATCAGCCCAGTCCCGAGTAAATCCT
65 GGTCCAAT-CTCGGTCAACTTTTTTATCCTTTGTTTACCAATC-GACTAGTCCAGA-TAAATCCT
53993 TTATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
127 TTATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
* *
54033 TTTATCCTCCATTC-CCTTGTCGGCTTGGTCTCAAGTAC-TTCTTTTTATCTTTTGTTGACTTGT
1 TTTATCCTCCATTCACC-TGTCGGCTTGGTCCCAAGTACTTTC-TTTTATCTTTTGTTGACTTAT
* * * * * *
54096 CGGTCCAATCTCGATCAACTTTTTTATCCTTTGTTTACCCACTGGTCTAGCCCTAGGTAAATCCT
64 CGGTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTA-CCAATCGACTAGTCC-AGATAAATCCT
* * * * *
54161 TTATCCGTCATTGACTTGTTGGTTTAATCTTGG-TCA-AT
127 TTATCCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
* * *
54199 TATTATCCTCCATTCACCTGTCGGCTTGGTCCCAGGTACTTTCTTTTATATTTTATTGACTTATC
1 T-TTATCCTCCATTCACCTGTCGGCTTGGTCCCAAGTACTTTCTTTTATCTTTTGTTGACTTATC
* * * ** *
54264 GGTCCAATCTCGGTTAACTTCTTTATCCCTTGTTTACCTGTCGACTTAGTCTCAGATAAATCTTT
65 GGTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCAATCGAC-TAGTC-CAGATAAATCCTT
** ** * *
54329 TATCTTTTGTTGACTTGTCAATTTTATCCTG
128 TATCCCTCATTGACTTGTCGATTTAATCCTG
54360 ATCAACTTTC
Statistics
Matches: 268, Mismatches: 48, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
166 8 0.03
167 128 0.48
168 127 0.47
169 5 0.02
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.44
Consensus pattern (166 bp):
TTTATCCTCCATTCACCTGTCGGCTTGGTCCCAAGTACTTTCTTTTATCTTTTGTTGACTTATCG
GTCCAATCTCGGTCAACTTTTTTATCCTTTGTTTACCAATCGACTAGTCCAGATAAATCCTTTAT
CCCTCATTGACTTGTCGATTTAATCCTGGTTAACAT
Found at i:58671 original size:155 final size:155
Alignment explanation
Indices: 58417--60937 Score: 2085
Period size: 155 Copynumber: 16.3 Consensus size: 155
58407 GTACCGAAAA
* * * * * * * * * *
58417 ACTTTCACATCGAAGGTAT-CCCCTAGGAGTATTTTTGTAATTTTTTAGAATCGAGTCTTAGGTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA-TTTTTAGAACCAAGTCCTAGGTC
*** * * *
58481 ATCA-TCGGGTCCATTTTTATGTCGAAGGTGAGCATTTAGGATAGGTTCATCTCATCTCTAATCT
65 ATCACT-GGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCT
* *
58545 TTTTAAGTCCTTTAGGATTGCCAAGGT
129 TTTTAGGTCCTTTAGGGTTGCCAAGGT
* ** * * * * *
58572 ACTTTTACATCGAAGACATACCCATAGGGGCATTTTCATACTTTTTAGAATCAACTCCTAGGTCG
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAGGTCA
* *
58637 TCACTGGGTTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGT-TTT
66 TCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTTT
* *
58701 TTAGGTCCTTTAGGGTTGTCGAGGT
131 TTAGGTCCTTTAGGGTTGCCAAGGT
* * ** * * * *
58726 ACTTTTAAGTTGAAGGTATACGTATAAGGGCATTTTTGTAA-TTTTAAAACTAAGTCCTAGGTCA
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAGGTCA
* * * *
58790 TCA-TCGGGTCTGCTTTTATGCCGAAGTTTGGCATTTGGGATAGGTTCATCCCATCTCTAGTCTT
66 TCACT-GGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTT
*
58854 TTTAGGTCCTTTAGGGTTGCCGAGGT
130 TTTAGGTCCTTTAGGGTTGCCAAGGT
** * * * * * * * *
58880 A-TTTTACAACGAAGGTATACCCGTAGAGGCATTTTTGTAATTTCCTAGAATCGAGTCCTAAGTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTT-TTAGAACCAAGTCCTAGGTC
* * * *
58944 ATCACCGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTTATCACCATTTCTAGTCT
65 ATCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATCTCTAATCT
* * *
59009 TTTTAAGTCCTTTAGAGGTAG--ATGGT
129 TTTTAGGTCCTTTAG-GGTTGCCAAGGT
* * * ** * *
59035 ACTTTTACATCGAAGGCAT-CCCTTAGGGGTGTCTTCGTAATTTTTTAGAA-CAACTCCTAGGTC
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA-TTTTTAGAACCAAGTCCTAGGTC
* * * * * * *
59098 ATCACCGGGTCTGCTTTTATGTCGAATGTGGGCATTTAGGATGGGTCCATCCCAT-TTTTATCAT
65 ATCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATC-T
* * *
59162 TTTTAGGTCCTGTAGGGGTACC-AGGAT
129 TTTTAGGTCCTTTAGGGTTGCCAAGG-T
* * * * * * * *
59189 ACTTTCACGTCGAAAGTAT-CCCCTAGGAGTATTTTCGTAATTTTTTAGAACCGAGTCTTAGGTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA-TTTTTAGAACCAAGTCCTAGGTC
** *** * * **
59253 ATCACCAGGTCCATTTTTATGTCGAAGGTGAGCATTTAGGATAGGTTCATTTCATCTCTAATCTT
65 ATCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTT
* *
59318 TTCAAGTCCTTTAGGGTTGCCAAGGT
130 TTTAGGTCCTTTAGGGTTGCCAAGGT
* ** ** * * * * *
59344 ACTTTTATGTCGAAGACATACCCATAGGGGCATTTTCGTACCTTTGAAAATCAACTCCTAGGTCG
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAGGTCA
* * *
59409 TCATTGGGTTTGCTTTTATGCCGAAGGTGGGCATTGAGGATAGGTTCATCCCATCTCTAATCTTT
66 TCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTTT
*
59474 TTAGGTCCTTTAGGGTTGCCGAGGT
131 TTAGGTCCTTTAGGGTTGCCAAGGT
** * * * *
59499 ACTTTTACGTCGAAGGTATACGTATAAGGGCATTTTTGTAATTTTTAAGGACTAAGTCCTAGGTC
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTT-AGAACCAAGTCCTAGGTC
* * * * * * *
59564 ATCA-TCGGGCCCGCTTTTATACCGAAGTTGGGCATTTGGGATAGGTTCATCCCATCTTTAGTCT
65 ATCACT-GGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCT
* * **
59628 TTTTAGGTCTTTTAGGGTTACCGGGGT
129 TTTTAGGTCCTTTAGGGTTGCCAAGGT
* * * * * * *
59655 ACTTTTACGTCGAAGGTATACCCGTAGAGGCGTTTTTGTAATTTCCTAGAACCGAGTCCTAGGTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTT-TTAGAACCAAGTCCTAGGTC
* * * *
59720 GTCA-TCGGGTCTACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTC
65 ATCACT-GGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATCTCTAATC
* * *
59784 TTTTTAAGTCCTTTAGGGGTAG--AGGGT
128 TTTTTAGGTCCTTTA-GGGTTGCCAAGGT
* * ** * *
59811 ACTTTTACGTCAAAGGTAT-CCCCTAGGGGTGTCTTCGTAATTTTTTAGAA-CAACTCCTAGGTC
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA-TTTTTAGAACCAAGTCCTAGGTC
* * * * * * * *
59874 GTCGCCGGGTCTGCTTTTATGCCGAATGTGGGCATTTAGAATGGGTTCATCCCAT-TTTTATCAT
65 ATCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATC-T
* * *
59938 TTTTAGGTCCTATAGGGGTACC-AGGAT
129 TTTTAGGTCCTTTAGGGTTGCCAAGG-T
* * * * * * * * *
59965 ACTTTCATGTTGAAGGTAT-CCCCTATGAGTATTTTCGTAATTTTTTAGAACCGAGTCCTAGGTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA-TTTTTAGAACCAAGTCCTAGGTC
* * * * *
60029 ATCACTAGGTCCG-TTGTTATGCCGAATGTGAGCATTTAGGATAGGTTCATCTCATCTCTAATCT
65 ATCACTGGGTCTGCTT-TTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCT
* * *
60093 TTTTAAGTTCTTTAGGGTTGCCAGGGT
129 TTTTAGGTCCTTTAGGGTTGCCAAGGT
* *** * * * * **
60120 ACTTTTACGTTGAAAACATACCCATAGGGGCATTTTCGTACTTTTCAGAATCAACTGTTAGGTCA
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAGGTCA
* * *
60185 TCACTAGGTCTGTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTT
66 TCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTTT
* ** *
60250 TTAGGTCTTTTAGGGTTATCGAGGT
131 TTAGGTCCTTTAGGGTTGCCAAGGT
* * ** ** * *
60275 ACTTTTACATTGAAGGTATACGTATAGGGGCATTTTTATAATTTTTAGAACTAAGTCCTATGTCA
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAGGTCA
* * * *
60340 TCA-TGGGGT-TCGCTTTTTTGCCGAAGTTGGGCATTTGGGATAGGTTCATCTCATCTCTAATCT
66 TCACT-GGGTCT-GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCT
* * **
60403 TTTTAGGTCCTTTAAGGTTACCGGGGT
129 TTTTAGGTCCTTTAGGGTTGCCAAGGT
* ** * * * *
60430 ACTTTTACGTCGAAGGTATACCCGTAGAAGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTT-TTAGAACCAAGTCCTAGGTC
* * * * *
60495 GTCA-TCGGGTCTGCTTTTATGCCAAAGGTGGGCATTTAGTATAGGTTCATCACCATTTCTAGTC
65 ATCACT-GGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATCTCTAATC
* **
60559 TTTTTAAGTCCTTTAGGG--GTAAAGGGT
128 TTTTTAGGTCCTTTAGGGTTGCCAA-GGT
* * ** * * * * * *
60586 ACTTTTATGTCGAAGGTAT-CCCCTAGGGGTGTCTTCATAATTTTTTA-AAACAACTCGTAGGCC
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA-TTTTTAGAACCAAGTCCTAGGTC
* * * * * * *
60649 GTTAAC-GGGTCTGGTTTTATGCTGAAGGTGGGCATTTAGGATGGGTTCATCCCAT-TTTTATCA
65 -ATCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATC-
* * ** *
60712 TTTTTAGGTCCTGTAGGGGTATC-GGGAT
128 TTTTTAGGTCCTTTAGGGTTGCCAAGG-T
* * * * * *
60740 ACTTTCACGTCGAAGGTAT-CCCCTAGGGACGTTTTCATAATTTTCTAGAACCAACTCCTAGGTC
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTT-TAGAACCAAGTCCTAGGTC
* * * * * *
60804 GTCACCGGGTCCGTTTTTATGCTGAAGGTGGGCA-TTAGGATAGGTTCATCCCATTTCT-ATCCT
65 ATCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAAT-CT
* * ***
60867 TTTTAGGTCTTTTAGGGGTATTAA-GT
129 TTTTAGGTCCTTTAGGGTTGCCAAGGT
* * * *
60893 ACTTTTACGTCAAAGGTAT-CCCCTAGAGGTATTTTCGTAATTTTT
1 ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTT
60938 TTGAACTTAG
Statistics
Matches: 1903, Mismatches: 408, Indels: 113
0.79 0.17 0.05
Matches are distributed among these distances:
152 19 0.01
153 206 0.11
154 416 0.22
155 803 0.42
156 401 0.21
157 54 0.03
158 4 0.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (155 bp):
ACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTTTAGAACCAAGTCCTAGGTCA
TCACTGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAATCTTT
TTAGGTCCTTTAGGGTTGCCAAGGT
Found at i:59963 original size:776 final size:776
Alignment explanation
Indices: 58386--60883 Score: 3794
Period size: 776 Copynumber: 3.2 Consensus size: 776
58376 TCATTACTTG
* * * * * *
58386 TCATTTTTAAGTCTTTTAGGGGTACC-GAAAAACTTTCACATCGAAGGTATCCCCTAGGAGTATT
1 TCATTTTTAGGTCCTGTAGGGGTACCAG-GATACTTTCACGTCGAAGGTATCCCCTAGGAGTATT
* * * * *
58450 TTTGTAATTTTTTAGAATCGAGTCTTAGGTTATCATCGGGTCCATTTTTATGTCGAAGGTGAGCA
65 TTCGTAATTTTTTAGAACCGAGTCCTAGGTTATCACCAGGTCCATTTTTATGTCGAAGGTGAGCA
*
58515 TTTAGGATAGGTTCATCTCATCTCTAATCTTTTTAAGTCCTTTAGGATTGCCAAGGTACTTTTAC
130 TTTAGGATAGGTTCATCTCATCTCTAATCTTTTTAAGTCCTTTAGGGTTGCCAAGGTACTTTTAC
* * *
58580 ATCGAAGACATACCCATAGGGGCATTTTCATACTTTTTAGAATCAACTCCTAGGTCGTCACTGGG
195 GTCGAAGACATACCCATAGGGGCATTTTCGTACTTTTCAGAATCAACTCCTAGGTCGTCACTGGG
58645 TTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGT-TTTTTAGGTCC
260 TTTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAGGTCC
*
58709 TTTAGGGTTGTCGAGGTACTTTTAAGTTGAAGGTATACGTATAAGGGCATTTTTGTAA-TTTTAA
325 TTTAGGGTTGTCGAGGTACTTTTACGTTGAAGGTATACGTATAAGGGCATTTTTGTAATTTTTAA
* *
58773 -AACTAAGTCCTAGGTCATCATCGGGTCTGCTTTTATGCCGAAGTTTGGCATTTGGGATAGGTTC
390 GAACTAAGTCCTAGGTCATCATCGGGTCCGCTTTTATGCCGAAGTTGGGCATTTGGGATAGGTTC
* * **
58837 ATCCCATCTCTAGTCTTTTTAGGTCCTTTAGGGTTGCCGAGGTA-TTTTACAACGAAGGTATACC
455 ATCCCATCTCTAGTCTTTTTAGGTCCTTTAGGGTTACCGGGGTACTTTTACGTCGAAGGTATACC
* * * *
58901 CGTAGAGGCATTTTTGTAATTTCCTAGAATCGAGTCCTAAGTTATCACCGGGTCTGCTTTTATGC
520 CGTAGAGGCATTTTTGTAATTTCCTAGAACCGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGC
* *
58966 CGAAGGTGGGCATTTAGGATAGGTTTATCACCATTTCTAGTCTTTTTAAGTCCTTTAGAGGTAGA
585 CGAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGGTAGA
* * * *
59031 TGGTACTTTTACATCGAAGGCATCCCTTAGGGGTGTCTTCGTAATTTTTTAGAACAACTCCTAGG
650 GGGTACTTTTACGTCGAAGGTATCCCCTAGGGGTGTCTTCGTAATTTTTTAGAACAACTCCTAGG
* * *
59096 TCATCACCGGGTCTGCTTTTATGTCGAATGTGGGCATTTAGGATGGGTCCATCCCATTTTTA
715 TCGTCACCGGGTCTGCTTTTATGCCGAATGTGGGCATTTAGGATGGGTTCATCCCATTTTTA
*
59158 TCATTTTTAGGTCCTGTAGGGGTACCAGGATACTTTCACGTCGAAAGTATCCCCTAGGAGTATTT
1 TCATTTTTAGGTCCTGTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGGAGTATTT
*
59223 TCGTAATTTTTTAGAACCGAGTCTTAGGTTATCACCAGGTCCATTTTTATGTCGAAGGTGAGCAT
66 TCGTAATTTTTTAGAACCGAGTCCTAGGTTATCACCAGGTCCATTTTTATGTCGAAGGTGAGCAT
* * *
59288 TTAGGATAGGTTCATTTCATCTCTAATCTTTTCAAGTCCTTTAGGGTTGCCAAGGTACTTTTATG
131 TTAGGATAGGTTCATCTCATCTCTAATCTTTTTAAGTCCTTTAGGGTTGCCAAGGTACTTTTACG
* * * *
59353 TCGAAGACATACCCATAGGGGCATTTTCGTACCTTTGAAAATCAACTCCTAGGTCGTCATTGGGT
196 TCGAAGACATACCCATAGGGGCATTTTCGTACTTTTCAGAATCAACTCCTAGGTCGTCACTGGGT
* *
59418 TTGCTTTTATGCCGAAGGTGGGCATTGAGGATAGGTTCATCCCATCTCTAATCTTTTTAGGTCCT
261 TTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAGGTCCT
* *
59483 TTAGGGTTGCCGAGGTACTTTTACGTCGAAGGTATACGTATAAGGGCATTTTTGTAATTTTTAAG
326 TTAGGGTTGTCGAGGTACTTTTACGTTGAAGGTATACGTATAAGGGCATTTTTGTAATTTTTAAG
* * *
59548 GACTAAGTCCTAGGTCATCATCGGGCCCGCTTTTATACCGAAGTTGGGCATTTGGGATAGGTTCA
391 AACTAAGTCCTAGGTCATCATCGGGTCCGCTTTTATGCCGAAGTTGGGCATTTGGGATAGGTTCA
* *
59613 TCCCATCTTTAGTCTTTTTAGGTCTTTTAGGGTTACCGGGGTACTTTTACGTCGAAGGTATACCC
456 TCCCATCTCTAGTCTTTTTAGGTCCTTTAGGGTTACCGGGGTACTTTTACGTCGAAGGTATACCC
* *
59678 GTAGAGGCGTTTTTGTAATTTCCTAGAACCGAGTCCTAGGTTGTCATCGGGTCTACTTTTATGCC
521 GTAGAGGCATTTTTGTAATTTCCTAGAACCGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGCC
59743 GAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGGTAGAG
586 GAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGGTAGAG
*
59808 GGTACTTTTACGTCAAAGGTATCCCCTAGGGGTGTCTTCGTAATTTTTTAGAACAACTCCTAGGT
651 GGTACTTTTACGTCGAAGGTATCCCCTAGGGGTGTCTTCGTAATTTTTTAGAACAACTCCTAGGT
* *
59873 CGTCGCCGGGTCTGCTTTTATGCCGAATGTGGGCATTTAGAATGGGTTCATCCCATTTTTA
716 CGTCACCGGGTCTGCTTTTATGCCGAATGTGGGCATTTAGGATGGGTTCATCCCATTTTTA
* * * *
59934 TCATTTTTAGGTCCTATAGGGGTACCAGGATACTTTCATGTTGAAGGTATCCCCTATGAGTATTT
1 TCATTTTTAGGTCCTGTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGGAGTATTT
* * * * *
59999 TCGTAATTTTTTAGAACCGAGTCCTAGGTTATCACTAGGTCCGTTGTTATGCCGAATGTGAGCAT
66 TCGTAATTTTTTAGAACCGAGTCCTAGGTTATCACCAGGTCCATTTTTATGTCGAAGGTGAGCAT
* *
60064 TTAGGATAGGTTCATCTCATCTCTAATCTTTTTAAGTTCTTTAGGGTTGCCAGGGTACTTTTACG
131 TTAGGATAGGTTCATCTCATCTCTAATCTTTTTAAGTCCTTTAGGGTTGCCAAGGTACTTTTACG
* * ** * *
60129 TTGAAAACATACCCATAGGGGCATTTTCGTACTTTTCAGAATCAACTGTTAGGTCATCACTAGGT
196 TCGAAGACATACCCATAGGGGCATTTTCGTACTTTTCAGAATCAACTCCTAGGTCGTCACTGGGT
* * *
60194 CTGTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAGGTCTT
261 TTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAGGTCCT
* * * *
60259 TTAGGGTTATCGAGGTACTTTTACATTGAAGGTATACGTATAGGGGCATTTTTATAATTTTT-AG
326 TTAGGGTTGTCGAGGTACTTTTACGTTGAAGGTATACGTATAAGGGCATTTTTGTAATTTTTAAG
* * * *
60323 AACTAAGTCCTATGTCATCATGGGGTTCGCTTTTTTGCCGAAGTTGGGCATTTGGGATAGGTTCA
391 AACTAAGTCCTAGGTCATCATCGGGTCCGCTTTTATGCCGAAGTTGGGCATTTGGGATAGGTTCA
* * *
60388 TCTCATCTCTAATCTTTTTAGGTCCTTTAAGGTTACCGGGGTACTTTTACGTCGAAGGTATACCC
456 TCCCATCTCTAGTCTTTTTAGGTCCTTTAGGGTTACCGGGGTACTTTTACGTCGAAGGTATACCC
* **
60453 GTAGAAGCATTTTCATAATTTCCTAGAACCGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGCC
521 GTAGAGGCATTTTTGTAATTTCCTAGAACCGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGCC
* * *
60518 AAAGGTGGGCATTTAGTATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGGTAAAG
586 GAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGGTAGAG
* * * * *
60583 GGTACTTTTATGTCGAAGGTATCCCCTAGGGGTGTCTTCATAATTTTTTAAAACAACTCGTAGGC
651 GGTACTTTTACGTCGAAGGTATCCCCTAGGGGTGTCTTCGTAATTTTTTAGAACAACTCCTAGGT
* * * * *
60648 CGTTAACGGGTCTGGTTTTATGCTGAAGGTGGGCATTTAGGATGGGTTCATCCCATTTTTA
716 CGTCACCGGGTCTGCTTTTATGCCGAATGTGGGCATTTAGGATGGGTTCATCCCATTTTTA
* *
60709 TCATTTTTAGGTCCTGTAGGGGTATCGGGATACTTTCACGTCGAAGGTATCCCCTAGG-G-ACGT
1 TCATTTTTAGGTCCTGTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGGAGTA--T
* * * * ** * * *
60772 TTTCATAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCCGTTTTTATG-CTGAAGGTGGG
64 TTTCGTAATTTTTTAGAACCGAGTCCTAGGTTATCACCAGGTCCATTTTTATGTC-GAAGGTGAG
* * * *
60836 CA-TTAGGATAGGTTCATCCCATTTCT-ATCCTTTTTAGGTCTTTTAGGG
128 CATTTAGGATAGGTTCATCTCATCTCTAAT-CTTTTTAAGTCCTTTAGGG
60884 GTATTAAGTA
Statistics
Matches: 1570, Mismatches: 147, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
772 287 0.18
773 70 0.04
774 46 0.03
775 560 0.36
776 607 0.39
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (776 bp):
TCATTTTTAGGTCCTGTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCCCTAGGAGTATTT
TCGTAATTTTTTAGAACCGAGTCCTAGGTTATCACCAGGTCCATTTTTATGTCGAAGGTGAGCAT
TTAGGATAGGTTCATCTCATCTCTAATCTTTTTAAGTCCTTTAGGGTTGCCAAGGTACTTTTACG
TCGAAGACATACCCATAGGGGCATTTTCGTACTTTTCAGAATCAACTCCTAGGTCGTCACTGGGT
TTGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTAGGTCCT
TTAGGGTTGTCGAGGTACTTTTACGTTGAAGGTATACGTATAAGGGCATTTTTGTAATTTTTAAG
AACTAAGTCCTAGGTCATCATCGGGTCCGCTTTTATGCCGAAGTTGGGCATTTGGGATAGGTTCA
TCCCATCTCTAGTCTTTTTAGGTCCTTTAGGGTTACCGGGGTACTTTTACGTCGAAGGTATACCC
GTAGAGGCATTTTTGTAATTTCCTAGAACCGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGCC
GAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGGTAGAG
GGTACTTTTACGTCGAAGGTATCCCCTAGGGGTGTCTTCGTAATTTTTTAGAACAACTCCTAGGT
CGTCACCGGGTCTGCTTTTATGCCGAATGTGGGCATTTAGGATGGGTTCATCCCATTTTTA
Found at i:64204 original size:645 final size:646
Alignment explanation
Indices: 62974--65557 Score: 4703
Period size: 645 Copynumber: 4.0 Consensus size: 646
62964 TTCCAAACTC
* *
62974 ATTCGAATGTTTCTAATAACAAATAAGATACCTTTAGAAAGGTGAGTTGATGCA-GATTAATATA
1 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGAAAGGTGAGTTGATG-AGGATTAACATA
** *
63038 AAAATA-TTAAAAAAAATCCTAAAAATCTATTTCTATAAGAAAATAATTTTTGAATTTATGCTTA
65 AAAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTA
* *
63102 GTTCAGCATTGACAACATGTACAGAGGAAGTGCAACAAACTTTGAAAAATCATCCCAAACTCATT
130 GTTCAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATT
* * *
63167 CATAATTGTTAAACTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTCAAAAAAAAAAAATTT
195 AATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTC--AAAAAAAAAATTA
* * *
63232 AAAAAATCTAAATAAATCTTTTTGTGGACTTAAATGGCCCAAACAAACTGTGATCATTGATTTCA
258 AAAAAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCA
*
63297 AGGGTTCAAGATAGTATAGGTTCAAAAAATAATAACTCTC--ATCTGAGCACATACGATGGTGTC
323 AGGGTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTC
* * *
63360 GCAATGTGGCCCGAATACAAATCTCGACCAAGCCTGACTTAAAATGGCCCTTGATTATAACTGAT
388 ACAACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGAT
*
63425 GAAATGCTATTATTTTGATGACTCCTATTTTATGGGCCATATCAATATTGACATTCTTTTATATT
453 GAAATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATT
* * * *
63490 TTTTTGGGGACTCGAGTCATCGAGATGAATCGCCTACTTGACTTAACCTTAAAGAGTCATTATAA
518 TTTTTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAA
*
63555 AAGGACTACTTTATAGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
583 AAGGACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
*
63619 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGAAAGGTGAGTTGATGAGGATTAATATAA
1 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGAAAGGTGAGTTGATGAGGATTAACATAA
*
63684 AAATATTTTTAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTAG
66 AAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTAG
*
63749 TTTAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTA
131 TTCAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTA
63814 ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTC-AAAAAAAAATTAAAA
196 ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTCAAAAAAAAAATTAAAA
63878 AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
261 AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
63943 GTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTCACA
326 GTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTCACA
64008 ACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
391 ACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
64073 ATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
456 ATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
64138 TTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAAAAG
521 TTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAAAAG
64203 GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
586 GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
*
64264 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGGAAGGTGAGTTGATGAGGATTAACATAA
1 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGAAAGGTGAGTTGATGAGGATTAACATAA
64329 AAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTAG
66 AAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTAG
*
64394 TTTAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTA
131 TTCAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTA
64459 ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTC-AAAAAAAAATTAAAA
196 ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTCAAAAAAAAAATTAAAA
64523 AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
261 AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
64588 GTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTCACA
326 GTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTCACA
64653 ACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
391 ACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
64718 ATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
456 ATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
64783 TTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAAAAG
521 TTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAAAAG
64848 GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
586 GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
*
64909 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGGAAGGTGAGTTGATGAGGATTAACATAA
1 ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGAAAGGTGAGTTGATGAGGATTAACATAA
*
64974 AAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTCAG
66 AAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTAG
* *
65039 TTCAGCATTGACAACATGTGTAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTC
131 TTCAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTA
65104 ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTCAAAAAAAAAATTAAAA
196 ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTCAAAAAAAAAATTAAAA
65169 AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
261 AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
* * *
65234 GTTCAAGATAGTATAGGTTCAAAAAATAATAACTCTCTTATTTGAGCACATACGATGGTGTCGCA
326 GTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTCACA
* *
65299 ACGTGGTCCGAATACAAATCTCGATCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
391 ACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
* * *
65364 ATGCTATTATTTTAATGACTCTAATTCTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
456 ATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
* * * *
65429 TTAGGGACTCGAGTCATCGAGATGAATTGCCTACTCGATTTAACCCTAAATAGTCATTATAAAAG
521 TTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAAAAG
65494 GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
586 GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
65555 ATT
1 ATT
65558 TAATATTTTA
Statistics
Matches: 1892, Mismatches: 42, Indels: 9
0.97 0.02 0.00
Matches are distributed among these distances:
643 112 0.06
644 1 0.00
645 1222 0.65
646 557 0.29
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (646 bp):
ATTCGAATGTTTCTAATGACAAATAAGATACCTTTAGAAAGGTGAGTTGATGAGGATTAACATAA
AAATATTTTCAAAAAATCCTAAAAATCTATTTCTATAGGAAAATAATTTTTGAATTTATGCTTAG
TTCAGCATTGACAACATGTGCAGAGGAGGTGCAACAAACTTTGAAAAATCATCCCAAACTCATTA
ATAATTGTTAAATTACAAATGATACATTTTGGAAAAAGGTGTAGTTTTCAAAAAAAAAATTAAAA
AAATCTAAATAAATCTTTTTGTGGGCTTAAATGGCCCAAACAAAATGTGATCACTGATTTCAAGG
GTTCAAGATAGTATAAGTTCAAAAAATAATAACTCTCTTATCTGAGCACATACGATGGTGTCACA
ACGTGGCCCGAATACAAATCTCGACCAAGCCCGACTTAAAATGGCCCTTGATTATAACTGATGAA
ATGCTATTATTTTGATGACTCCAATTTTATGGGCCATATCAATATTGACATTCTTTTATATTTTT
TTGGGGACTAGAGTCATCGAGATGAATCGCCTACTCGACTTAACCCTAAATAGTCATTATAAAAG
GACTACTTTATTGGAGTCACCAGCAATCTATTTTGGCCAGGTGAGATTGGTCACCTATCGG
Found at i:66056 original size:13 final size:13
Alignment explanation
Indices: 66038--66064 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66028 ACATAAAGTG
66038 TTGTATCGATACA
1 TTGTATCGATACA
66051 TTGTATCGATACA
1 TTGTATCGATACA
66064 T
1 T
66065 AAGTTTTGTA
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):
TTGTATCGATACA
Found at i:66079 original size:32 final size:33
Alignment explanation
Indices: 66018--66082 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
66008 TTTCAACGAT
66018 TTGTATCGATACATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
*
66051 TTGTATCGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
66083 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:72033 original size:23 final size:23
Alignment explanation
Indices: 72006--72052 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
71996 TGTTTTCTAA
72006 TTTTTCTCTT-TTTCTCTCTTTTT
1 TTTTTCT-TTCTTTCTCTCTTTTT
*
72029 TTTTTCTTTCTTTCTTTCTTTTT
1 TTTTTCTTTCTTTCTCTCTTTTT
72052 T
1 T
72053 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTCTTTCTTTCTCTCTTTTT
Found at i:72038 original size:19 final size:19
Alignment explanation
Indices: 72016--72054 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
72006 TTTTTCTCTT
*
72016 TTTCTCTCTTTTTTTTTTC
1 TTTCTCTCTTTCTTTTTTC
*
72035 TTTCTTTCTTTCTTTTTTC
1 TTTCTCTCTTTCTTTTTTC
72054 T
1 T
72055 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCTCTCTTTCTTTTTTC
Found at i:72733 original size:166 final size:168
Alignment explanation
Indices: 72553--72980 Score: 489
Period size: 166 Copynumber: 2.6 Consensus size: 168
72543 AAATAATTTA
* * * *
72553 AATTTTTCAAAACTGATTTAATATGAACTTAATGAA-AATATTTGACGAGTTTTAAAAATTTTAA
1 AATTTTTGAAAACTGATTTAATATGAAATTAAT-AATAATATTTGATGAGTTTTAAAAATTTAAA
* ** * * * * * * *** * *
72617 ACCAGGAAAAATCCTGTCG-AAAATATTTATGGAGTAGAAAACTT-AGTTTTTTGGAAATAGGAA
65 ACCAAGAAAAATCCCCTCGAAAAAAATTTACGAAGCAAAAAACTTCA-TATTTCAAAAACAGAAA
72680 AATTTCAAGG-AAAAAATGAGAAACTCATGAAAATGAAAG
129 AATTTCAAGGAAAAAAATGAGAAACTCATGAAAATGAAAG
* *
72719 AATTTTTGAAAACTGATTTAATATGAAATAAATAATAATATTTTATG-GATTTTAAAAA-TTAAA
1 AATTTTTGAAAACTGATTTAATATGAAATTAATAATAATATTTGATGAG-TTTTAAAAATTTAAA
72782 ACCAAGAAAAATCCCCTCGAAAAAAATTTACGAAGCAAAAAACTTCATATTTCAAAAACAGAAAA
65 ACCAAGAAAAATCCCCTCGAAAAAAATTTACGAAGCAAAAAACTTCATATTTCAAAAACAGAAAA
* *
72847 ATTTTAAGGAAAAAAATGAGAAACTCATGAAAATGAATG
130 ATTTCAAGGAAAAAAATGAGAAACTCATGAAAATGAAAG
* * * *
72886 AATATTTGAAAACTAATTTAATAT-AAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAA
1 AATTTTTGAAAACTGATTTAATATGAAATT-AATAATAATATTTGATGAGTTTTAAAAATTTAAA
*
72950 ACCCATG-AAAATCCTCCT--AAAAAAATTTACG
65 A-CCAAGAAAAATCC-CCTCGAAAAAAATTTACG
72981 GAGAAGAAAA
Statistics
Matches: 223, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
165 23 0.10
166 92 0.41
167 89 0.40
168 12 0.05
169 7 0.03
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (168 bp):
AATTTTTGAAAACTGATTTAATATGAAATTAATAATAATATTTGATGAGTTTTAAAAATTTAAAA
CCAAGAAAAATCCCCTCGAAAAAAATTTACGAAGCAAAAAACTTCATATTTCAAAAACAGAAAAA
TTTCAAGGAAAAAAATGAGAAACTCATGAAAATGAAAG
Found at i:72920 original size:167 final size:166
Alignment explanation
Indices: 72678--72980 Score: 470
Period size: 167 Copynumber: 1.8 Consensus size: 166
72668 TGGAAATAGG
* *
72678 AAAATTTCAAGGAAAAAATGAGAAACTCATGAAAATGAAAGAATTTTTGAAAACTGATTTAATAT
1 AAAATTTCAAGGAAAAAATGAGAAACTCATGAAAATGAAAGAATATTTGAAAACTAATTTAATAT
* *
72743 GAAATAAATAATAATATTTTATGGATTTTAAAAATT-AAAA-CCAAGAAAAATCC-CCTCGAAAA
66 GAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCCAAG-AAAATCCTCCT--AAAA
72805 AAATTTACGAAGCAAAAAACTTCATATTTCAAAAACAGA
128 AAATTTACGAAGCAAAAAACTTCATATTTCAAAAACAGA
* *
72844 AAAATTTTAAGGAAAAAAATGAGAAACTCATGAAAATGAATGAATATTTGAAAACTAATTTAATA
1 AAAATTTCAAGG-AAAAAATGAGAAACTCATGAAAATGAAAGAATATTTGAAAACTAATTTAATA
*
72909 T-AAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCCATGAAAATCCTCCTAAAAA
65 TGAAA-TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCCAAGAAAATCCTCCTAAAAA
72973 AATTTACG
129 AATTTACG
72981 GAGAAGAAAA
Statistics
Matches: 125, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
166 14 0.11
167 93 0.74
168 11 0.09
169 7 0.06
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (166 bp):
AAAATTTCAAGGAAAAAATGAGAAACTCATGAAAATGAAAGAATATTTGAAAACTAATTTAATAT
GAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCCAAGAAAATCCTCCTAAAAAAA
TTTACGAAGCAAAAAACTTCATATTTCAAAAACAGA
Found at i:74142 original size:86 final size:85
Alignment explanation
Indices: 74009--74174 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 85
73999 GTAAACAATG
* * * ** *
74009 AGATGGAGGTTGACCAAAGACTAAGTTGATAGGTCACCAAAAAGGTAAGGGGGTTTTCCGGGGAT
1 AGATGAAGGTTGACCAAAGACTAAGTTGACAGGTCACCAAAAAGGTAA-GGGGTTTACCGAAGAC
74074 TGAGCCAACAAGTAAATAAAA
65 TGAGCCAACAAGTAAATAAAA
** * * ** *
74095 AGATGAAGGTTGACTGAAGACTGAGTTGACAGGTCACCATAGGGGTAATGGGTTTACCGAAGACT
1 AGATGAAGGTTGACCAAAGACTAAGTTGACAGGTCACCAAAAAGGTAAGGGGTTTACCGAAGACT
*
74160 GAGCCAACAATTAAA
66 GAGCCAACAAGTAAA
74175 CAATGAGATA
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
85 26 0.39
86 40 0.61
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (85 bp):
AGATGAAGGTTGACCAAAGACTAAGTTGACAGGTCACCAAAAAGGTAAGGGGTTTACCGAAGACT
GAGCCAACAAGTAAATAAAA
Found at i:74316 original size:85 final size:86
Alignment explanation
Indices: 74215--74559 Score: 350
Period size: 85 Copynumber: 4.1 Consensus size: 86
74205 GCTGATGGGC
* * * *
74215 AAACAAAGAAATGAAGGTTGACCAAAGACTAAGCAGACAGGTCACCATAGGGGTAATGGGTTTAC
1 AAACAATGAGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAAGGGTTTAC
*
74280 TAGGGACTGAGTC-GATAGGT
66 TAGGGACTGAGTCTGACAGGT
*** * *
74300 AAACAATGAGATGAAGGTTGACTGGAGACTAAGCTGATAGGTCATCATAGGGGTAAAGGGTTTA-
1 AAACAATGAGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAAGGGTTTAC
* *
74364 TCGGGGACTGAG-CTAACAGGT
66 T-AGGGACTGAGTCTGACAGGT
* * * * * *
74385 AAACAATGAGATGAAGGTTGATCC-GAGATTGAGTTGATAGGTCACCATAGGGGTAATGGGTTTA
1 AAACAATGAGATGAAGGTTGA-CCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAAGGGTTTA
*
74449 C-CGAGG-CTGA-TCTGACAGGT
65 CTAG-GGACTGAGTCTGACAGGT
* * * *
74469 AAACAATGAGATAAAGGTTGACTGAAA-ACTAAGCTGACAGGTCACTATAGGGGTAAAGGTGTCT
1 AAACAATGAGATGAAGGTTGAC-CAAAGACTAAGCTGACAGGTCACCATAGGGGTAAAGG-GTTT
*
74533 -CTTGGGACTGAGTC-GACAGGT
64 ACTAGGGACTGAGTCTGACAGGT
*
74554 AGACAA
1 AAACAA
74560 AGAATAAAAG
Statistics
Matches: 216, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
83 1 0.00
84 64 0.30
85 148 0.69
86 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (86 bp):
AAACAATGAGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAAGGGTTTAC
TAGGGACTGAGTCTGACAGGT
Found at i:80302 original size:5 final size:5
Alignment explanation
Indices: 80286--80315 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
80276 AGAAATATAC
80286 AAAGA TAAAGA AAAGA AAAGA AAAGA AAAG
1 AAAGA -AAAGA AAAGA AAAGA AAAGA AAAG
80316 GTAAGCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:85294 original size:156 final size:156
Alignment explanation
Indices: 84683--85921 Score: 1128
Period size: 156 Copynumber: 7.9 Consensus size: 156
84673 AGTTCAAGAG
** * *
84683 AAATTACGAAAATATCCTTAGGGGATACCTTCGACGTGAAAGTATCCT--AGT-ACCTTTAAAGG
1 AAATTACGAAAATGCCCTTAGGGTATACCTTCGACGTGAAAGTA-CCTCGAGTAACC-CTAAAGG
* * *
84745 ACTTAAAAAGGACTATAAAAGGGGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGAC
64 ACTTAAAAA-GACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGAC
** *
84810 CTAGTGATAACCTAGGACTCGGTTCTAAGA
128 CCGGTGATAACCTAGGACTCGATTCTAA-A
* * * * * **
84840 AAAGTTACGAAAATGCCCTTAGGGGATACCTTTGTCGTGAAAGTACC-CCAAT-ACCTCTAAAAA
1 AAA-TTACGAAAATGCCCTTAGGGTATACCTTCGACGTGAAAGTACCTCGAGTAACC-CTAAAGG
* * * * * * **
84903 ACCTAAAAAAAACTATAAAAGGG-TGAACCTATCCTAAATACTCACCTTCGGCATAAAAACAAAC
64 A-CTTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGAC
*
84967 CCGGTGATAACCTAAGACTCGATTCTAAA
128 CCGGTGATAACCTAGGACTCGATTCTAAA
* * * * * * *
84996 AAATTACAAAAATGCCCCTATGGGAATATCTTCGACGTAAAAGTACCCTCG-GCAAACCTAAAGG
1 AAATTACGAAAATGCCCTTA-GGGTATACCTTCGACGTGAAAGTA-CCTCGAGTAACCCTAAAGG
* * *
85060 ACTTAAAAAGACTAGAAATAGTGATGAACCTATCCTAAATGCCCACCTTCGGGATAAAAACGGAC
64 ACTTAAAAAGACTAGAAA-AGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGAC
* * * **
85125 CCGGTGACAACCTAGGATTCAATTCTAGG
128 CCGGTGATAACCTAGGACTCGATTCTAAA
* * **
85154 AAACTACGAAAAGGCCCTTATGGGTATACCTTCGACGCCAAAGTACCTCGAG-AACCCTAAAGGA
1 AAATTACGAAAATGCCCTTA-GGGTATACCTTCGACGTGAAAGTACCTCGAGTAACCCTAAAGGA
* * *
85218 CCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGATCT
65 CTTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCC
* * * *
85283 GGTGATGACCTAGGAGTTGGTTCTAAA
130 GGTGATAACCTAGGACTCGATTCTAAA
* ** * * *
85310 AAATTACTAAAATGCCCTTAGGGGTATACCTTTAACGTAAAAGTATCTCG-GTAACCCTAAAGAA
1 AAATTACGAAAATGCCCTTA-GGGTATACCTTCGACGTGAAAGTACCTCGAGTAACCCTAAAGGA
* * * *
85374 CTTAAAAGGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACC
65 CTTAAAAAGACTAGAAAAGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACC
* * *
85439 CGGTGATGATCTAGAACTCGATTCTAAA
129 CGGTGATAACCTAGGACTCGATTCTAAA
* * * * * *
85467 AAATTATGAAAATGCCCTTAGGGTATACCTTCAACGTGAAAGTA-TTCCAATACCCCTAAAGGAC
1 AAATTACGAAAATGCCCTTAGGGTATACCTTCGACGTGAAAGTACCTCGAGTAACCCTAAAGGAC
** * * * *
85531 TTAAAAAGTTTAGAGATGGGATGAACTTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACTC-
66 TTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCG
* * * *
85595 GTGATGACCTAGGAGTTGGTTCTAAA
131 GTGATAACCTAGGACTCGATTCTAAA
* * * * * **
85621 AAATTATGAAAAAGCCCTTAGGGGATACCTTTGACGTGAAAGTATCCT--AGTACCCCTAAAAAA
1 AAATTACGAAAATGCCCTTAGGGTATACCTTCGACGTGAAAGTA-CCTCGAGTAACCCTAAAGGA
* * * * ** * *
85684 CTTAAAAAGACTACAGAAGAGG-TGAACCTATCCTAAATACCCACCCTCAACATAAAAGCAGACA
65 CTTAAAAAGACTAGAAAAG-GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACC
* * * *
85748 CGGTGACAACCTAAGACTCAATTTTAAA
129 CGGTGATAACCTAGGACTCGATTCTAAA
* * * * *
85776 AAATTACAAAAATGTCCC-TAGGAG-ATACCTTCGACTTGAAAGTATCTCG-GTACCCCTAAAAG
1 AAATTACGAAAATG-CCCTTAGG-GTATACCTTCGACGTGAAAGTACCTCGAGTAACCCTAAAGG
* * * ** * * **
85838 ACTTAAAAAGAACTATAAAAGGAATGAACTTA-AATGATAATACCCATCTTCGGCATAAAAGCAA
64 ACTTAAAAAG-ACTAGAAAAGGGATGAACCTATCCT-A-AATGCCCACCTTCGGCATAAAAGCGG
* *
85902 ACCCGGTGGTTACCTAGGAC
126 ACCCGGTGATAACCTAGGAC
85922 ATGGTTTCGT
Statistics
Matches: 893, Mismatches: 163, Indels: 52
0.81 0.15 0.05
Matches are distributed among these distances:
154 126 0.14
155 136 0.15
156 238 0.27
157 226 0.25
158 160 0.18
159 7 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (156 bp):
AAATTACGAAAATGCCCTTAGGGTATACCTTCGACGTGAAAGTACCTCGAGTAACCCTAAAGGAC
TTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCG
GTGATAACCTAGGACTCGATTCTAAA
Found at i:86719 original size:129 final size:129
Alignment explanation
Indices: 86444--86796 Score: 425
Period size: 129 Copynumber: 2.8 Consensus size: 129
86434 CAAAAAGTGT
* * * * *
86444 CATTTCGTACCTTGATGGAAACCC-ACCAAGATACGAAAA--ATTTGAAATCTTTTAATACCCCT
1 CATTTCGTACCTTAATAGATACCCGA-AAAGATACGAAAAGTTTTTGAAATCTTTT-ATACCCCT
* * *
86506 --GGATACCCAT-AGAA-ATATAAAAGATTAAAAACGATTAATATGTTATTTATTTTGGAAAAAA
64 ACGGATACCCATAAGAATATA-AAAAAATAAAAAATGATTAATATGTTATTTATTTTGGAAAAAA
*
86567 AT
128 AA
* * *
86569 CATTTCGTACCTTAATGGATACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCGTAC
1 CATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
* *
86634 GGATACTCATAAGAATATAAAAAAATAAAAAATGATTGATAT-TTATTTATGTTTGGAAAAAAAA
66 GGATACCCATAAGAATATAAAAAAATAAAAAATGATTAATATGTTATTTAT-TTTGGAAAAAAAA
* * *
86698 CATTTCGTACCTTAATAGATACTCGAAAAGATACGAAAAGTTTTTCAGAATCTTATATACCCCTA
1 CATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTGA-AATCTTTTATACCCCTA
* * *
86763 CGGATACCCATAGGAATATAAAAGATTAAAAAAT
65 CGGATACCCATAAGAATATAAAAAAATAAAAAAT
86797 AATAGATGTT
Statistics
Matches: 197, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
125 33 0.17
126 8 0.04
127 13 0.07
128 17 0.09
129 78 0.40
130 48 0.24
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (129 bp):
CATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
GGATACCCATAAGAATATAAAAAAATAAAAAATGATTAATATGTTATTTATTTTGGAAAAAAAA
Found at i:86826 original size:129 final size:125
Alignment explanation
Indices: 86443--86806 Score: 382
Period size: 130 Copynumber: 2.9 Consensus size: 125
86433 TCAAAAAGTG
* * * * * *
86443 TCATTTCGTACCTTGATGGAAACCC-ACCAAGATACGAAAA--ATTTGAAATCTTTTAATACCCC
1 TCATTTCGTACCTTAATAGATACCCGA-AAAGATACGAAAAGTTTTTCAAATCTTTT-ATACCCC
* *
86505 T--GGATACCCATAGAAATATAAAAGATTAAAAACGATTAAT-ATGTTATTTATTTTGGAAAAAA
64 TACGGATACCCATAGGAATATAAAAGATTAAAAA--A-TAATGATGTTATTTATTTT-AAAAAAA
86567 A
125 A
* * * *
86568 TCATTTCGTACCTTAATGGATACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCGTA
1 TCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTCAAATCTTTTATACCCCTA
* * * * * *
86633 CGGATACTCATAAGAATATAAAAAAATAAAAAATGATTGATATTTATTTATGTTTGGAAAAAAAA
66 CGGATACCCATAGGAATATAAAAGATTAAAAAAT-AATGAT-GTTATTTAT-TTT--AAAAAAAA
* *
86698 -CATTTCGTACCTTAATAGATACTCGAAAAGATACGAAAAGTTTTTCAGAATCTTATATACCCCT
1 TCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTCA-AATCTTTTATACCCCT
86762 ACGGATACCCATAGGAATATAAAAGATTAAAAAATAATAGATGTT
65 ACGGATACCCATAGGAATATAAAAGATTAAAAAATAAT-GATGTT
86807 GAAATATCTT
Statistics
Matches: 201, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
125 35 0.17
126 11 0.05
127 15 0.07
128 34 0.17
129 50 0.25
130 56 0.28
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (125 bp):
TCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTTTTTCAAATCTTTTATACCCCTA
CGGATACCCATAGGAATATAAAAGATTAAAAAATAATGATGTTATTTATTTTAAAAAAAA
Found at i:88609 original size:167 final size:162
Alignment explanation
Indices: 88273--88856 Score: 527
Period size: 167 Copynumber: 3.5 Consensus size: 162
88263 GGATTTTAAA
* * * * * * *
88273 GAAAAAATTCAAGAACTCATGAAGATGAATGAATTTGTGAAAACTGAATTAATATGAAATAAAT-
1 GAAAAAATT-AAAAACTCATGAAAATGAATAAATTTTTAAAAAATGAATTAATGTG-AATAAATA
* * * *
88337 AA-TTATTTTGATGAATTTTAAAAATTGAAAACCAAGCAAAATCCCCT-AAAAAAATTACGGAGT
64 AAGATATTTT-ATGAATTTTAAAAATT-AAAAACAAGAAAAATCCCCTGAAAAAAATTACGAAGT
* * *
88400 AGAAAACA-CTATATTTCGAAAAAAAAGAAGTTTCATG
127 AGAAAACATC-GTATTTCG-AAAAAAAGGAGTTTCAAG
* *
88437 GAAAAAAATTAAAAACTCATGAAAAT-AGATAAAATTTTT-TAAATTGAATTAATGTGATATAAA
1 G-AAAAAATTAAAAACTCATGAAAATGA-AT-AAATTTTTAAAAAATGAATTAATGTGA-ATAAA
* * * * *
88500 TAAAGGTATTTTATGGATTTAAAAAATTAAAAACAAGAAAAACCCCCTGAAAAAAAAATCACGAA
62 TAAAGATATTTTATGAATTTTAAAAATTAAAAACAAGAAAAATCCCCTG--AAAAAAATTACGAA
88565 GTAGAAAACATCGTATTTCGAAAAAATAGGAGTTTCAAG
125 GTAGAAAACATCGTATTTCGAAAAAA-AGGAGTTTCAAG
* * **
88604 GAAAAAATTCAAAAATTTATGAAAATGAATGGATTTTTAAAAAATGAATTAACATG-GAATAAAT
1 GAAAAAATT-AAAAACTCATGAAAATGAATAAATTTTTAAAAAATGAATT-A-ATGTGAATAAAT
* * * *
88668 AATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTCGAAAAAAATTACGAAA
63 AAAGATATTTTATGAATTTTAAAAATTAAAAA-CAAGAAAAATCCCCT-GAAAAAAATTACGAAG
* * *
88733 TGGAAAACAAT-GTATTTTGGAAAAAAAGGGAATTTCAAG
126 TAGAAAAC-ATCGTA-TTTCGAAAAAAA-GGAGTTTCAAG
* * * * * * * * *
88772 GAAAAAATCAAAAGCTCATGAAAATGAATGAATTATTCAAAACTGAATTAATATAAAATAATTAA
1 GAAAAAATTAAAAACTCATGAAAATGAATAAATTTTTAAAAAATGAATTAATGT-GAATAAATAA
* *
88837 AAATATTTGATGAATTTTAA
65 AGATATTTTATGAATTTTAA
88857 TTCTTGAAAG
Statistics
Matches: 348, Mismatches: 49, Indels: 43
0.79 0.11 0.10
Matches are distributed among these distances:
163 2 0.01
164 54 0.16
165 32 0.09
166 27 0.08
167 181 0.52
168 48 0.14
169 4 0.01
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (162 bp):
GAAAAAATTAAAAACTCATGAAAATGAATAAATTTTTAAAAAATGAATTAATGTGAATAAATAAA
GATATTTTATGAATTTTAAAAATTAAAAACAAGAAAAATCCCCTGAAAAAAATTACGAAGTAGAA
AACATCGTATTTCGAAAAAAAGGAGTTTCAAG
Found at i:89954 original size:11 final size:11
Alignment explanation
Indices: 89934--89992 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
89924 TTTTCTAATA
89934 TTTCTCTCTTT
1 TTTCTCTCTTT
*
89945 TTTCTTTCTTT
1 TTTCTCTCTTT
*
89956 TATT-TTTCTTT
1 T-TTCTCTCTTT
89967 CTTTCTCTCTTT
1 -TTTCTCTCTTT
*
89979 TTTCTCTATTT
1 TTTCTCTCTTT
89990 TTT
1 TTT
89993 TTAGCTGGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 33 0.79
12 9 0.21
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTCTCTTT
Found at i:95933 original size:13 final size:13
Alignment explanation
Indices: 95915--95952 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
95905 CATTTTTCTT
95915 TGTATCGATACAA
1 TGTATCGATACAA
*
95928 TGTATCGATACAC
1 TGTATCGATACAA
95941 TGTATCGATACA
1 TGTATCGATACA
95953 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:96097 original size:21 final size:22
Alignment explanation
Indices: 96073--96113 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
96063 AAATCTTTTG
96073 CAAAATACTT-GTTTTTCATTT
1 CAAAATACTTCGTTTTTCATTT
*
96094 CAAATTACTTCGTTTTTCAT
1 CAAAATACTTCGTTTTTCAT
96114 CAAAACCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (22 bp):
CAAAATACTTCGTTTTTCATTT
Found at i:96116 original size:20 final size:20
Alignment explanation
Indices: 96073--96118 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
96063 AAATCTTTTG
96073 CAAAATACTTGTTTTTCATTT
1 CAAAATACTTGTTTTTCA-TT
*
96094 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCATT
96114 CAAAA
1 CAAAA
96119 CCAGCATAAA
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:0.17, G:0.04, T:0.46
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCATT
Found at i:96435 original size:21 final size:20
Alignment explanation
Indices: 96387--96427 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
96377 CCCCTAGGCA
*
96387 GCACTCCCAGGTCACGACCG
1 GCACTCCCAGGTCACAACCG
*
96407 GCACTCCCAGGTCGCAACCG
1 GCACTCCCAGGTCACAACCG
96427 G
1 G
96428 GCAGTCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.44, G:0.27, T:0.10
Consensus pattern (20 bp):
GCACTCCCAGGTCACAACCG
Found at i:97614 original size:23 final size:21
Alignment explanation
Indices: 97572--97614 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
97562 GTTTAATGTT
**
97572 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
97593 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
97615 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:97951 original size:21 final size:21
Alignment explanation
Indices: 97927--97976 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
97917 TATCCAAATG
97927 TATCGATACATTTGTAGAATA
1 TATCGATACATTTGTAGAATA
* *
97948 TATCGATACATTTGTGGAATG
1 TATCGATACATTTGTAGAATA
97969 TATCGATA
1 TATCGATA
97977 TATTCTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (21 bp):
TATCGATACATTTGTAGAATA
Found at i:98059 original size:19 final size:19
Alignment explanation
Indices: 98035--98102 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
98025 AATTCAACAA
98035 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
98054 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
98069 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
98086 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
98103 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:98074 original size:13 final size:13
Alignment explanation
Indices: 98056--98080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98046 ACATAAGTTT
98056 TGTATCGATACAA
1 TGTATCGATACAA
98069 TGTATCGATACA
1 TGTATCGATACA
98081 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:98078 original size:32 final size:32
Alignment explanation
Indices: 98037--98099 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
98027 TTCAACAATT
*
98037 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
98069 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
98100 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:98164 original size:33 final size:33
Alignment explanation
Indices: 98122--98185 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
98112 GCCAAGGAAA
***
98122 TGTATCGATACATTTTTCTGTGTATCGATACCT
1 TGTATCGATACATGGATCTGTGTATCGATACCT
*
98155 TGTATCGATACATGGATCTTTGTATCGATAC
1 TGTATCGATACATGGATCTGTGTATCGATAC
98186 ATTTGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACCT
Found at i:98233 original size:20 final size:20
Alignment explanation
Indices: 98208--98259 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
98198 TACCCAGATG
98208 TATCGATACATTTTACAATA
1 TATCGATACATTTTACAATA
*
98228 TATCGATACATTTTACAATG
1 TATCGATACATTTTACAATA
98248 TATCGATACATT
1 TATCGATACATT
98260 CAAGCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTTACAATA
Found at i:100750 original size:51 final size:51
Alignment explanation
Indices: 100690--100911 Score: 221
Period size: 52 Copynumber: 4.3 Consensus size: 51
100680 TTATTTCCGA
* * *** *
100690 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * *
100741 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-CACAATC
* * * **
100793 GGGGATACTCCAACCCCGGTTTTATTTTTC-AAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTA-TTTCCAAAACACCAATTTTTC-ACAATC
* * * *
100845 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTTCACAGTC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
100897 GAGGATACTCCAACC
1 GGGGATACTCCAACC
100912 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
51 42 0.30
52 83 0.59
53 15 0.11
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:100766 original size:82 final size:81
Alignment explanation
Indices: 100608--100758 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 81
100598 TTCTATAATC
* *
100608 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATAGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAACATCAATTTCTTCACAATAGGGGATACTCC
100673 AACCCCGTTATTTCCGA
65 AACCCCGTTATTTCCGA
* ** * *
100690 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTT-TTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACATCAATTTCTTCACAATAGGGGATACTCCA
100753 ACCCCG
66 ACCCCG
100759 GTTTTATTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 25 0.40
80 10 0.16
82 27 0.44
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACATCAATTTCTTCACAATAGGGGATACTCCA
ACCCCGTTATTTCCGA
Found at i:100931 original size:28 final size:28
Alignment explanation
Indices: 100899--100968 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
100889 TCACAGTCGA
* **
100899 GGATACTCCAA-CCTCGTTATTTCATCGG
1 GGATACTCCAACCCT-GTTACTTCAGAGG
*
100927 GGATACTCCAACCCTGTTACTTCCGAGG
1 GGATACTCCAACCCTGTTACTTCAGAGG
100955 GGATACTCCAACCC
1 GGATACTCCAACCC
100969 CGGCTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 34 0.92
29 3 0.08
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCTGTTACTTCAGAGG
Found at i:113554 original size:14 final size:13
Alignment explanation
Indices: 113535--113566 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
113525 CCTTCTCTTC
113535 AAAAAAAAAGCAA
1 AAAAAAAAAGCAA
*
113548 AAAAAAAAAGTAA
1 AAAAAAAAAGCAA
113561 AAAAAA
1 AAAAAA
113567 CAAAACAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGCAA
Found at i:114828 original size:27 final size:27
Alignment explanation
Indices: 114743--114828 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
114733 GTTGGTGGCA
114743 TTTTCCAGTCCTCAAAGAGCAGGATGC
1 TTTTCCAGTCCTCAAAGAGCAGGATGC
* * * * * **
114770 CTTTCGAAGCCCACACA-AGTTGG-TGGC
1 TTTTC-CAGTCCTCAAAGAGCAGGAT-GC
114797 ATTTTCCAGTCCTCAAAGAGCAGGATGC
1 -TTTTCCAGTCCTCAAAGAGCAGGATGC
114825 TTTT
1 TTTT
114829 TCTTTTCAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 17 0.43
29 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (27 bp):
TTTTCCAGTCCTCAAAGAGCAGGATGC
Found at i:114980 original size:171 final size:171
Alignment explanation
Indices: 114600--115273 Score: 947
Period size: 171 Copynumber: 4.0 Consensus size: 171
114590 TTCCTTTTAA
* *
114600 AAAGCCTACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTGAAAG
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
* *
114664 CCCACACAAGTTGGTGGCA-TTTTCCAGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCA
66 CCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACC-TTTC----AAAGCCCA
**
114728 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCT-TT
125 CACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
* *
114774 CGAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
1 -AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* *
114838 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAGGACCAGGACACCTTTCAAAGCCCACACA
64 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* *
114903 AGTTGGTGGCATTTTCCAGTCCTCAAACAGTAGGACACCTCTT
129 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
114946 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
* * * * * *
115011 CCCACACGAGTTGGTGGCACTTTTTAGTCCCCATAGAGCAGGACATCTTCCAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAG
*
115076 TTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTT
131 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
* *
115117 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAT
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
* ** *
115176 CCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAG
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAG
* *
115241 TTGGTGGCACTTTT-TAGTCCTTAAAGAGCAGGA
131 TTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
115274 TACACTTTAT
Statistics
Matches: 454, Mismatches: 39, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
165 88 0.19
166 5 0.01
171 251 0.55
172 5 0.01
175 27 0.06
176 75 0.17
177 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (171 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAG
CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAG
TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT
Found at i:114982 original size:226 final size:224
Alignment explanation
Indices: 114562--115274 Score: 870
Period size: 226 Copynumber: 3.1 Consensus size: 224
114552 TCCTTCCGCA
* * * *
114562 TTTTAGTCCTTAAAGAGCAGGATGCCTGTTCCTTTTAAAAAGCCTACACAAGTTGGTGGCACC-T
1 TTTTAGTCCTCAAAGAGCAGGATG-CT-TTTCTTTT-CAAAGCCCACACAAGTTGGTGGCACCTT
* *
114626 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTGAAAGCCCACACAAGTTGGTGGCATTTTCCAG
63 TCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAG
* *
114691 TCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCT
121 TCCTCAAAGAGCAGGACGCC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCT
* *
114755 CAAAGAGCAGGATGCCTTTCGAAGCCCACACAAGTTGGTGGCA-T
180 CAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACT
*
114799 TTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTT-TAGTCCTCAAAGAGCAGGATGC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
114864 CAGTCCCCAAGGACCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
64 CAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
* * *
114929 ACAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAT
128 AGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAT
114994 GCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACT
193 GC-----C-TTTCAAAGCCCACACGAGTTGGTGGCACT
* * * * **
115032 TTTTAGTCCCCATAGAGCAGGA--C--ATC-TTCCAAAGCCCACACAAGTTGGTGGCATTTTTCA
1 TTTTAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
*
115092 GTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAA
66 GTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAA
*
115156 GAGCAGGACGCCT-TTCAAATCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAT
129 GAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAT
115220 GCCTTTCAAAGCCCACACGAGTTGGTGGCACT
193 GCCTTTCAAAGCCCACACGAGTTGGTGGCACT
*
115252 TTTTAGTCCTTAAAGAGCAGGAT
1 TTTTAGTCCTCAAAGAGCAGGAT
115275 ACACTTTATT
Statistics
Matches: 425, Mismatches: 36, Indels: 46
0.84 0.07 0.09
Matches are distributed among these distances:
220 48 0.11
221 1 0.00
225 2 0.00
226 190 0.45
227 10 0.02
228 2 0.00
230 1 0.00
231 52 0.12
232 41 0.10
233 4 0.01
235 1 0.00
236 24 0.06
237 29 0.07
238 20 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (224 bp):
TTTTAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
GCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC
TTTCAAAGCCCACACGAGTTGGTGGCACT
Found at i:115170 original size:26 final size:26
Alignment explanation
Indices: 115140--115227 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
115130 GTTGGTGGCA
115140 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
115166 CCTTTCAAATCCCACACAAGTTGGTGG-CA
1 CCTTTC-AGT-CCTCA-AAG-AGCAGGACG
*
115195 CCTTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
115221 CCTTTCA
1 CCTTTCA
115228 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 6 0.14
28 6 0.14
29 10 0.23
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:115274 original size:55 final size:55
Alignment explanation
Indices: 114600--115273 Score: 732
Period size: 55 Copynumber: 11.9 Consensus size: 55
114590 TTCCTTTTAA
* * * *
114600 AAAGCCTACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTG
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTC
*
114660 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCCCAAAGAGCAGGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGCC-TTTC
*
114716 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTC
* *
114775 GAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGC-----C-TTTC
* * * * *
114836 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAGGACCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* * *
114891 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAACAGTAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTC
* *
114946 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTC
* * * * ** *
115007 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCCCATAGAGCAGGACATCTTCC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
115062 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCT-TTC
*
115117 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* * *
115172 AAATCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* * *
115227 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
115274 TACACTTTAT
Statistics
Matches: 537, Mismatches: 52, Indels: 55
0.83 0.08 0.09
Matches are distributed among these distances:
54 5 0.01
55 329 0.61
56 13 0.02
59 4 0.01
60 77 0.14
61 106 0.20
62 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:116119 original size:19 final size:21
Alignment explanation
Indices: 116071--116125 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
116061 AATTCCAATA
*
116071 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
116092 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
116112 -TTTGTATCGATACA
1 ATTTGTATCGATACA
116126 ATGTATTGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:116195 original size:13 final size:13
Alignment explanation
Indices: 116177--116202 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116167 CATTTTTCTA
116177 TGTATCGATACAT
1 TGTATCGATACAT
116190 TGTATCGATACAT
1 TGTATCGATACAT
116203 CTATTCTTTG
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:116220 original size:34 final size:33
Alignment explanation
Indices: 116157--116223 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
116147 ACCAAGGAAA
*
116157 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATTATTCTATGTATCGATACAT
*
116190 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTATGTATCGATACAT
116224 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTATGTATCGATACAT
Found at i:116266 original size:20 final size:20
Alignment explanation
Indices: 116241--116289 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
116231 GTTTACCCAG
116241 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
116261 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
116281 ATGTATCGA
1 ATGTATCGA
116290 CATTCAGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:121345 original size:55 final size:54
Alignment explanation
Indices: 121140--121758 Score: 675
Period size: 55 Copynumber: 10.9 Consensus size: 54
121130 TTCCTTTTAA
* ** * *
121140 AAAGCCTACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTG
1 AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTC
* *
121200 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCCAAAGAGCAAGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCC-TTTC
*
121256 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCCTTTC
* *
121315 GAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGC-----C-TTTC
* *
121376 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTC
* *
121431 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGC-----C-TTTC
* * * * **
121492 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCCCATAGAGCAGGACATCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
*
121547 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACGCCT-TTC
*
121602 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
121657 AAATCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
* *
121712 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA
121759 TACACTTTAT
Statistics
Matches: 496, Mismatches: 39, Indels: 53
0.84 0.07 0.09
Matches are distributed among these distances:
54 6 0.01
55 281 0.57
56 17 0.03
59 4 0.01
60 76 0.15
61 112 0.23
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
Found at i:121368 original size:27 final size:27
Alignment explanation
Indices: 121283--121368 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
121273 GTTGGTGGCA
121283 TTTTCCAGTCCTCAAAGAGCAGGATGC
1 TTTTCCAGTCCTCAAAGAGCAGGATGC
* * * * * **
121310 CTTTCGAAGCCCACACA-AGTTGG-TGGC
1 TTTTC-CAGTCCTCAAAGAGCAGGAT-GC
121337 ATTTTCCAGTCCTCAAAGAGCAGGATGC
1 -TTTTCCAGTCCTCAAAGAGCAGGATGC
121365 TTTT
1 TTTT
121369 TCTTTTCAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 17 0.43
29 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (27 bp):
TTTTCCAGTCCTCAAAGAGCAGGATGC
Found at i:121440 original size:116 final size:116
Alignment explanation
Indices: 121113--121758 Score: 754
Period size: 116 Copynumber: 5.6 Consensus size: 116
121103 TTTAGTTTTT
* * * * *
121113 AAAGAGCAGGATGCCTGTTCCTTTTAAAAAGCCTACACAAGTTGGTGGCAC-CTTCAGTCCTCAA
1 AAAGAGCAGGATG-CTTTTTCTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAA
* * * *
121177 AGAGCAGGATGCTTTTTCTTTTGAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCC
64 AGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * *
121236 AAAGAGCAAGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAA
1 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAA
** *
121299 GAGCAGGATGCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
65 GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
121351 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAA
1 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAA
* *
121415 GAGTAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
65 GAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
* * * *
121467 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCCCATAG
1 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
*
121532 AGCAGGACATCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
66 AGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
** * *
121583 AAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
1 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
* * *
121642 AGCAGGACGCCTTTCAAATCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
66 AGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
* * *
121693 AAAGAGCAGGACGC-----C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAG
1 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
121752 AGCAGGA
66 AGCAGGA
121759 TACACTTTAT
Statistics
Matches: 467, Mismatches: 44, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
109 2 0.00
110 134 0.29
111 7 0.01
112 1 0.00
114 1 0.00
115 64 0.14
116 187 0.40
117 9 0.02
120 24 0.05
121 19 0.04
122 8 0.02
123 11 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (116 bp):
AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
AGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
Found at i:121549 original size:171 final size:165
Alignment explanation
Indices: 121140--121758 Score: 778
Period size: 171 Copynumber: 3.6 Consensus size: 165
121130 TTCCTTTTAA
* * * *
121140 AAAGCCTACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTGAAAG
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C---ATC-TTTCAAAG
* * *
121204 CCCACACAAGTTGGTGGCATTTTCCAGTCCCCAAAGAGCAAGACGCCTTTTCTTTTAAAGCCCAC
60 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCAC
*
121269 ACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTC
120 ACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATGCCTTTC
* *
121315 GAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGA--C---ATC-TTTCAAA
*
121379 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTCTTAAAGCCCACACAA
59 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAA
121444 GTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
124 GTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTC
* * * *
121492 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCCCATAGAGCAGGACATCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACATCTTTCAAAGCCCACA
121557 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTG
66 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTG
*
121622 GCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
131 GCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTC
* * **
121657 AAATCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACATCTTTCAAAGCCCACA
* *
121722 CGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
66 CAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
121759 TACACTTTAT
Statistics
Matches: 406, Mismatches: 27, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
165 91 0.22
166 5 0.01
171 154 0.38
172 5 0.01
173 2 0.00
175 24 0.06
176 80 0.20
177 41 0.10
178 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (165 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACATCTTTCAAAGCCCACA
CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTG
GCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTC
Found at i:121655 original size:26 final size:26
Alignment explanation
Indices: 121625--121712 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
121615 GTTGGTGGCA
121625 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
121651 CCTTTCAAATCCCACACAAGTTGGTGG-CA
1 CCTTTC-AGT-CCTCA-AAG-AGCAGGACG
121680 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
121706 CCTTTCA
1 CCTTTCA
121713 AAGCCCACAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.38
27 6 0.13
28 6 0.13
29 10 0.22
30 3 0.07
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:122606 original size:19 final size:21
Alignment explanation
Indices: 122554--122608 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
122544 AATTCCAATA
*
122554 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
** *
122575 AAATGTATTGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
122595 -TTTGTATCGATACA
1 ATTTGTATCGATACA
122609 ATGTATTGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:122678 original size:13 final size:13
Alignment explanation
Indices: 122660--122685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122650 CATTTTTCTG
122660 TGTATCGATACAT
1 TGTATCGATACAT
122673 TGTATCGATACAT
1 TGTATCGATACAT
122686 CTATTCTTTG
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:122703 original size:34 final size:33
Alignment explanation
Indices: 122640--122706 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
122630 ACCAAGGAAA
*
122640 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
122673 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
122707 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:122749 original size:20 final size:20
Alignment explanation
Indices: 122724--122772 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
122714 GTTTACCAAG
122724 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
122744 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
122764 ATGTATCGA
1 ATGTATCGA
122773 CATTCAGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:125128 original size:51 final size:52
Alignment explanation
Indices: 125067--125189 Score: 153
Period size: 51 Copynumber: 2.4 Consensus size: 52
125057 CAATTCTCCG
* * * *
125067 CAATTGGGGATATTCTC-ACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTA
1 CAATCGGGGATACTC-CAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
*
125118 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTTCA
125171 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
125190 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 28 0.45
53 28 0.45
54 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (52 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
Found at i:125180 original size:53 final size:51
Alignment explanation
Indices: 125067--125189 Score: 151
Period size: 53 Copynumber: 2.4 Consensus size: 51
125057 CAATTCTCCG
* * * *
125067 CAATTGGGGATATTCTC-ACTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACTC-CAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
*
125118 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTTTCT-A
125171 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
125190 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 28 0.45
52 1 0.02
53 32 0.52
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:125295 original size:79 final size:78
Alignment explanation
Indices: 125200--125376 Score: 259
Period size: 79 Copynumber: 2.2 Consensus size: 78
125190 CCCGTTAATC
* * *
125200 ATCGGGGATACTCCAACCCCGTTATTTCTG-AGAGGATACTCCAACCCCTGCTT-TGTTCTTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAG-GGATACTCCAACCCCGGCTTAT-TTC-CAAA
125263 ATATTGATTTCTCATA
63 ATATTGATTTCTCATA
125279 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGCTTCATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGCTT-ATTTCCAAAAT
*
125344 ATTGATTTCTTATA
65 ATTGATTTCTCATA
*
125358 ATCGGGGATACTCTAACCC
1 ATCGGGGATACTCCAACCC
125377 TGATTTTATT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
79 84 0.93
80 5 0.06
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGGCTTATTTCCAAAATA
TTGATTTCTCATA
Found at i:125388 original size:51 final size:51
Alignment explanation
Indices: 125333--125496 Score: 152
Period size: 51 Copynumber: 3.2 Consensus size: 51
125323 CCCCGGCTTC
* * *
125333 ATTTCCAAAATATTGATTTCTTATAATCGGGGATACTCTAACCCTGATTTT
1 ATTTCCAAAACATTAATTTCTTATAATCGGGGATACTCAAACCCTGATTTT
* * * * *
125384 ATTTCTAAAACATTAATTT-TCCACAATCGGGGATACTGAAACCCCGATTTT
1 ATTTCCAAAACATTAATTTCT-TATAATCGGGGATACTCAAACCCTGATTTT
* ** * **
125435 ATTTTCAAAACACCAATTTTCCTT-TAATCGGGGATACTCCAATTCTGATTTT
1 ATTTCCAAAACATTAA-TTT-CTTATAATCGGGGATACTCAAACCCTGATTTT
*
125487 ATTTCTAAAA
1 ATTTCCAAAA
125497 ACACCAATTT
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
50 1 0.01
51 53 0.60
52 33 0.38
54 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (51 bp):
ATTTCCAAAACATTAATTTCTTATAATCGGGGATACTCAAACCCTGATTTT
Found at i:125486 original size:52 final size:51
Alignment explanation
Indices: 125355--125530 Score: 183
Period size: 52 Copynumber: 3.4 Consensus size: 51
125345 TTGATTTCTT
* **
125355 ATAATCGGGGATACTCTAACCCTGATTTTA-TTTCTAAAACATTAATTTTCC
1 ATAATCGGGGATACTCAAACCCTGATTTTATTTTC-AAAACACCAATTTTCC
* * *
125406 ACAATCGGGGATACTGAAACCCCGATTTTATTTTCAAAACACCAATTTTCC
1 ATAATCGGGGATACTCAAACCCTGATTTTATTTTCAAAACACCAATTTTCC
* * ** * *
125457 TTTAATCGGGGATACTCCAATTCTGATTTTATTTCTAAAAACACCAATTTTTC
1 -ATAATCGGGGATACTCAAACCCTGATTTTATTT-TCAAAACACCAATTTTCC
* * *
125510 ACAATCGAGGATACTCCAACC
1 ATAATCGGGGATACTCAAACC
125531 TCATTATTTC
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 40 0.39
52 46 0.45
53 16 0.16
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (51 bp):
ATAATCGGGGATACTCAAACCCTGATTTTATTTTCAAAACACCAATTTTCC
Found at i:125549 original size:28 final size:29
Alignment explanation
Indices: 125513--125594 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 29
125503 ATTTTTCACA
* *
125513 ATCGAGGATACTCCAACCTCATTATTTC-
1 ATCGGGGATACTCCAACCCCATTATTTCG
*
125541 ATCGGGGATACTCCAACCCCGTTATCTTCG
1 ATCGGGGATACTCCAACCCCATTAT-TTCG
125571 A--GGGGATACTCCAACCCCATTATT
1 ATCGGGGATACTCCAACCCCATTATT
125595 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 43 0.90
29 3 0.06
30 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCATTATTTCG
Found at i:129939 original size:20 final size:19
Alignment explanation
Indices: 129895--129944 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
129885 ACAATTGAGT
*
129895 ATGTATCGATACAATGAAC
1 ATGTATCGATACAAAGAAC
129914 ATGTATCGATACAAAGTATA-
1 ATGTATCGATACAAAG-A-AC
129934 ATGTATCGATA
1 ATGTATCGATA
129945 TATCTGGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.54
20 12 0.43
21 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAAAGAAC
Found at i:130970 original size:19 final size:20
Alignment explanation
Indices: 130928--130980 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
130918 TGCCAAATTT
* *
130928 ATGTATCGATATAATTGAGT
1 ATGTATCGATACAATTGAGC
130948 ATGTATCGATACAA-TGAGC
1 ATGTATCGATACAATTGAGC
*
130967 ATGTATCAATACAA
1 ATGTATCGATACAA
130981 AGCTTAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTGAGC
Found at i:135519 original size:3 final size:3
Alignment explanation
Indices: 135511--135545 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
135501 CGAGTTACCT
*
135511 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
135546 TTTGATGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:135546 original size:9 final size:9
Alignment explanation
Indices: 135509--135547 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
135499 TCCGAGTTAC
135509 CTTCATCAT
1 CTTCATCAT
*
135518 CATCATCAT
1 CTTCATCAT
*
135527 CATCATCAT
1 CTTCATCAT
135536 CTTCATCAT
1 CTTCATCAT
135545 CTT
1 CTT
135548 TGATGGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (9 bp):
CTTCATCAT
Found at i:138353 original size:164 final size:165
Alignment explanation
Indices: 138065--138364 Score: 376
Period size: 164 Copynumber: 1.8 Consensus size: 165
138055 AAATATTCCT
* * * * * * *
138065 AAAAAAATTATGGAGAAGAAAACTTCGTATTTTAGAAATAGAAGGAATTCTAAAAGAAAATCAAT
1 AAAAAAATTACGGAGAAGAAAACCTCGTAATTTAAAAACAGAAGAAATTCCAAAAGAAAATCAAT
* * * * *
138130 AACTCATAAAATAAAAAGACTTTTTTAAAACTGATTTAATGGTGATTAAATAGTAATATTTGATG
66 AACTCAAAAAATAAAAAGACTTTTTTAAAACTGATTTAATGGTAAGTAAATAGTAATATTTAAAG
138195 AATTTTCAAAATTTTAAACCCGTGAAAATCCTCTC
131 AATTTTCAAAATTTTAAACCCGTGAAAATCCTCTC
*
138230 AAAAAAATTTACGGAGAAG-AAACCT-GTAATTTAAAAACGGAAGAAATTCCAAAAGAAAATCAA
1 AAAAAAA-TTACGGAGAAGAAAACCTCGTAATTTAAAAACAGAAGAAATTCCAAAAGAAAATCAA
* * * *
138293 TAATTTAAAAAATAAGAGAGA-TTTTTTAAAACTGATTTGATTGG-AAGTAAAT-GATAATATTT
65 TAACTCAAAAAATAA-AAAGACTTTTTTAAAACTGATTT-AATGGTAAGTAAATAG-TAATATTT
138355 AAAGAATTTT
127 AAAGAATTTT
138365 AACGTTTGAG
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
163 1 0.01
164 83 0.73
165 20 0.18
166 10 0.09
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (165 bp):
AAAAAAATTACGGAGAAGAAAACCTCGTAATTTAAAAACAGAAGAAATTCCAAAAGAAAATCAAT
AACTCAAAAAATAAAAAGACTTTTTTAAAACTGATTTAATGGTAAGTAAATAGTAATATTTAAAG
AATTTTCAAAATTTTAAACCCGTGAAAATCCTCTC
Found at i:142779 original size:2 final size:2
Alignment explanation
Indices: 142767--142799 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
142757 TCTTTTATCA
142767 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
142800 GTATGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:143121 original size:18 final size:18
Alignment explanation
Indices: 143100--143134 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
143090 TTTATATCAC
143100 TTTTAAAATTTAAATTTA
1 TTTTAAAATTTAAATTTA
*
143118 TTTTTAAATTTAAATTT
1 TTTTAAAATTTAAATTT
143135 CAAATACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAAATTTAAATTTA
Found at i:143661 original size:6 final size:6
Alignment explanation
Indices: 143650--143690 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
143640 TTATACTAAC
*
143650 AATTAT AATTAT AATTAT -ATTAAC AATTAT AATTAT AATTA
1 AATTAT AATTAT AATTAT AATT-AT AATTAT AATTAT AATTA
143691 ATCAATCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 3 0.10
6 25 0.81
7 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:143667 original size:24 final size:24
Alignment explanation
Indices: 143640--143690 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
143630 GCATTCCATG
143640 TTATACTAACAATTATAATTATAA
1 TTATACTAACAATTATAATTATAA
*
143664 TTATATTAACAATTATAATTATAA
1 TTATACTAACAATTATAATTATAA
143688 TTA
1 TTA
143691 ATCAATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (24 bp):
TTATACTAACAATTATAATTATAA
Done.