Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold603
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: 64105
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Found at i:4727 original size:33 final size:33
Alignment explanation
Indices: 4690--4756 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4680 TTCAACGATG
4690 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
4723 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
4756 T
1 T
4757 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:4728 original size:13 final size:13
Alignment explanation
Indices: 4710--4734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4700 CATAAAATGT
4710 TGTATCGATACAA
1 TGTATCGATACAA
4723 TGTATCGATACA
1 TGTATCGATACA
4735 TATTTTTTTG
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:4815 original size:13 final size:13
Alignment explanation
Indices: 4797--4821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4787 ATTACTCAAA
4797 TGTATCGATACAT
1 TGTATCGATACAT
4810 TGTATCGATACA
1 TGTATCGATACA
4822 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:4870 original size:51 final size:53
Alignment explanation
Indices: 4810--4945 Score: 181
Period size: 52 Copynumber: 2.6 Consensus size: 53
4800 ATCGATACAT
*** *
4810 TGTATCGATACACTGAT-CTTTGTATCGATATATGCAGGC-AATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
4861 TGTATCGATACA-TTATAAAATGTCTCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
4913 TGTATCGATACACT-ATTAAATGTATCGATACAT
1 TGTATCGATACACTGATAAAATGTATCGATACAT
4946 ACAAGAAACT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
50 3 0.04
51 29 0.39
52 41 0.55
53 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:4923 original size:52 final size:51
Alignment explanation
Indices: 4830--4945 Score: 187
Period size: 52 Copynumber: 2.3 Consensus size: 51
4820 CACTGATCTT
* *
4830 TGTATCGATATATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4881 TGTCTCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACACTATAAAA
4933 TGTATCGATACAT
1 TGTATCGATACAT
4946 ACAAGAAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 17 0.29
52 42 0.71
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:18808 original size:1 final size:1
Alignment explanation
Indices: 18802--18895 Score: 71
Period size: 1 Copynumber: 94.0 Consensus size: 1
18792 CGGCGTCCTC
** ** * * * *
18802 AAAAAAAAAAAAAAAACGAAAAAAAATGAAAAACAAAAAAAAAAACAAAAGAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
18867 ACAATAAAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18896 GGGGGTCCGG
Statistics
Matches: 69, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:18825 original size:17 final size:16
Alignment explanation
Indices: 18803--18895 Score: 98
Period size: 17 Copynumber: 5.7 Consensus size: 16
18793 GGCGTCCTCA
18803 AAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
**
18819 GAAAAAAAATGAAAAAC
1 -AAAAAAAAAAAAAAAC
*
18836 AAAAAAAAAAACAAAAG
1 AAAAAAAAAAA-AAAAC
*
18853 AAAAAAAAACAAAAAC
1 AAAAAAAAAAAAAAAC
* *
18869 -AATAAAAAAACAAAC
1 AAAAAAAAAAAAAAAC
18884 AAAAACAAAAAA
1 AAAAA-AAAAAA
18896 GGGGGTCCGG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
15 12 0.19
16 16 0.26
17 34 0.55
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:18833 original size:27 final size:25
Alignment explanation
Indices: 18803--18895 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 25
18793 GGCGTCCTCA
18803 AAAAAAAAAAAAAAACGAAAAAAAATG
1 AAAAAAAAAAAAAAAC-AAAAAAAA-G
* *
18830 -AAAAACAAAAAAAA-AAACAAAAG
1 AAAAAAAAAAAAAAACAAAAAAAAG
*
18853 AAAAAAAAACAAAAACAATAAAAAA-
1 AAAAAAAAAAAAAAACAA-AAAAAAG
18878 ACAAACAAAAACAAAAAA
1 A-AAA-AAAAA-AAAAAA
18896 GGGGGTCCGG
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
23 1 0.02
24 19 0.35
25 3 0.06
26 21 0.39
27 5 0.09
28 5 0.09
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAAAAACAAAAAAAAG
Found at i:18840 original size:33 final size:33
Alignment explanation
Indices: 18801--18882 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 33
18791 ACGGCGTCCT
* **
18801 CAAAAAAAAAAAAAAAACGAAAAAAAATGAAAAA
1 CAAAAAAAAAAACAAAA-GAAAAAAAAACAAAAA
18835 CAAAAAAAAAAACAAAAGAAAAAAAAACAAAAA
1 CAAAAAAAAAAACAAAAGAAAAAAAAACAAAAA
*
18868 C-AATAAAAAAACAAA
1 CAAAAAAAAAAACAAA
18883 CAAAAACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 13 0.30
33 15 0.34
34 16 0.36
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (33 bp):
CAAAAAAAAAAACAAAAGAAAAAAAAACAAAAA
Found at i:20436 original size:28 final size:28
Alignment explanation
Indices: 20331--20594 Score: 233
Period size: 30 Copynumber: 9.1 Consensus size: 28
20321 CATTCATCAC
* * *
20331 CCTTCAAAAGTCCACAAGTCAGTGGCATT
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-A
** * * *
20360 TTTTTCAAAGCCCACAAGTCAATGGCATT
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-A
** *
20389 TTTTTCGAAAGCCCACAAGTCAGTGGCAA
1 CCTTT-AAAAGCCCACAAGTCAGTGGCAA
* *
20418 CCTTTAAAAGCCCACAAGTTAGTGGCAC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
*
20446 CCTGTTCAAAAGCCCACAAGTCAATGGCATA
1 CCT-TT-AAAAGCCCACAAGTCAGTGGCA-A
**
20477 TTTTTTAAAAGCCCACAAGTCAGTGGCAA
1 -CCTTTAAAAGCCCACAAGTCAGTGGCAA
20506 CCTTTAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* * *
20534 CC-TTCAAAGCCCACAAATCAGTGGCAC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* *
20561 CCTTTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTT-AAAAG-CC-CACAAGTCAGTGGCAA
20593 CC
1 CC
20595 CTTCTAAGCC
Statistics
Matches: 197, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
27 24 0.12
28 51 0.26
29 36 0.18
30 66 0.34
31 4 0.02
32 16 0.08
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAA
Found at i:20488 original size:88 final size:86
Alignment explanation
Indices: 20331--20594 Score: 325
Period size: 88 Copynumber: 3.0 Consensus size: 86
20321 CATTCATCAC
* * *** *
20331 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAATGGCATTTTTTTCG
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAATGGCATTTTTTTCA
20396 AAAGCCCACAAGTCAGTGGCAA
65 AAAGCCCACAAGTCAGTGGCAA
* *
20418 CCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAATGGCATATTTTTT
1 CCTTTAAAAGCCCACAAGTCAGTGGCAACCT-TTC-AAAGCCCACAAGTCAATGGCAT-TTTTTT
20483 -AAAAGCCCACAAGTCAGTGGCAA
63 CAAAAGCCCACAAGTCAGTGGCAA
* * *** *
20506 CCTTTAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAATGGCATTTTTTTCAA
*
20570 AAGCCCACACAAGTCGGTGGCAA
66 AAG-CC-CACAAGTCAGTGGCAA
20593 CC
1 CC
20595 CTTCTAAGCC
Statistics
Matches: 155, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
84 4 0.03
85 23 0.15
86 6 0.04
87 44 0.28
88 72 0.46
89 6 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (86 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAATGGCATTTTTTTCAA
AAGCCCACAAGTCAGTGGCAA
Found at i:20661 original size:49 final size:49
Alignment explanation
Indices: 20599--20893 Score: 325
Period size: 49 Copynumber: 6.0 Consensus size: 49
20589 GCAACCCTTC
* *
20599 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
20648 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
20697 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
20740 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
20792 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
20847 TAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTTATC
20894 ACTTTTCTCA
Statistics
Matches: 213, Mismatches: 19, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
43 41 0.19
44 1 0.00
48 1 0.00
49 86 0.40
50 1 0.00
51 2 0.01
52 38 0.18
53 2 0.01
54 2 0.01
55 38 0.18
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:20752 original size:43 final size:43
Alignment explanation
Indices: 20691--20783 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
20681 TTGGCACCTT
20691 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
20734 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
20777 CACCTTT
1 CACCTTT
20784 TCCATCTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:20761 original size:22 final size:22
Alignment explanation
Indices: 20693--20761 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
20683 GGCACCTTCA
20693 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
20715 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
20736 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
20758 CCTT
1 CCTT
20762 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:20772 original size:92 final size:95
Alignment explanation
Indices: 20645--20836 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 95
20635 GCACCTTTAT
20645 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-CACCTTTAAGTCCAATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
*
20708 TAGCTGGCCTTGAATCAGCACATTGGCA-C
66 TAGCTGGCCTTGAATCAGCACATTGACATC
* *
20737 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCACCTTTAAGTCCAAT
*
20802 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
20833 CTTT
1 CTTT
20837 TTCTCATCTT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
92 44 0.48
94 2 0.02
95 41 0.45
96 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACATC
Found at i:20815 original size:52 final size:53
Alignment explanation
Indices: 20737--20890 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
20727 ACATTGGCAC
20737 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
20789 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
20844 CTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
20891 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:21727 original size:33 final size:33
Alignment explanation
Indices: 21690--21756 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
21680 TTCAACGATT
21690 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
21723 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
21756 T
1 T
21757 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:21728 original size:13 final size:13
Alignment explanation
Indices: 21710--21734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21700 CATAAAATGT
21710 TGTATCGATACAA
1 TGTATCGATACAA
21723 TGTATCGATACA
1 TGTATCGATACA
21735 TATTTTTTTG
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:21815 original size:13 final size:13
Alignment explanation
Indices: 21797--21821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21787 ATTACTCAAA
21797 TGTATCGATACAT
1 TGTATCGATACAT
21810 TGTATCGATACA
1 TGTATCGATACA
21822 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:21923 original size:52 final size:52
Alignment explanation
Indices: 21830--21953 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
21820 CACTGATCTT
*
21830 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
21881 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
21933 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
21954 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:26097 original size:10 final size:10
Alignment explanation
Indices: 26082--26108 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26072 TGCTAACTAA
26082 GTTTTTGTTT
1 GTTTTTGTTT
26092 GTTTTTGTTT
1 GTTTTTGTTT
26102 GTTTTTG
1 GTTTTTG
26109 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:32220 original size:1 final size:1
Alignment explanation
Indices: 32214--32238 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
32204 TCACCCTCCA
32214 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
32239 GCCTTTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35818 original size:1 final size:1
Alignment explanation
Indices: 35812--35899 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
35802 GGCGTCCTCT
** ** * * * * * *
35812 AAAAAAAACGAAAAAAAATGAAAAAACAAAAAAAAAAAACAAAAGAAAAAAAAACAAAAACAATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
35877 AAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
35900 GGGGGTCCGG
Statistics
Matches: 63, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:35837 original size:18 final size:17
Alignment explanation
Indices: 35812--35899 Score: 76
Period size: 17 Copynumber: 5.2 Consensus size: 17
35802 GGCGTCCTCT
35812 AAAAAAAACGAAAAAAA
1 AAAAAAAACGAAAAAAA
*
35829 ATGAAAAAAC-AAAAAAA
1 A-AAAAAAACGAAAAAAA
*
35846 AAAAACAAAAGAAAAAAA
1 AAAAA-AAACGAAAAAAA
* *
35864 AACAAAAAC--AATAAA
1 AAAAAAAACGAAAAAAA
*
35879 AAAACAAAC-AAAAACAA
1 AAAAAAAACGAAAAA-AA
35896 AAAA
1 AAAA
35900 GGGGGTCCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
15 12 0.21
16 6 0.11
17 21 0.37
18 18 0.32
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.02
Consensus pattern (17 bp):
AAAAAAAACGAAAAAAA
Found at i:35846 original size:21 final size:21
Alignment explanation
Indices: 35822--35897 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 21
35812 AAAAAAAACG
*
35822 AAAAAAAATGAAAAAACAAAA
1 AAAAAAAATAAAAAAACAAAA
* *
35843 AAAAAAAACAAAAGAAAAAAAA
1 AAAAAAAATAAAA-AAACAAAA
35865 ACAAAAACAATAAAAAAACAAACA
1 A-AAAAA-AATAAAAAAACAAA-A
35889 AAAACAAAA
1 AAAA-AAAA
35898 AAGGGGGTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
21 11 0.24
22 8 0.18
23 16 0.36
24 10 0.22
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.03
Consensus pattern (21 bp):
AAAAAAAATAAAAAAACAAAA
Found at i:35880 original size:36 final size:34
Alignment explanation
Indices: 35812--35900 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 34
35802 GGCGTCCTCT
*
35812 AAAAA-AAACGAAAAAAAATGAAAAAACAAAAAAA
1 AAAAACAAAAGAAAAAAAA-GAAAAAACAAAAAAA
35846 AAAAACAAAAGAAAAAAAA-ACAAAAACAATAAAAA
1 AAAAACAAAAGAAAAAAAAGA-AAAAACAA-AAAAA
*
35881 AACAAACAAAA-ACAAAAAAG
1 AA-AAACAAAAGAAAAAAAAG
35901 GGGGTCCGGA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
33 1 0.02
34 13 0.27
35 26 0.54
36 8 0.17
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.02
Consensus pattern (34 bp):
AAAAACAAAAGAAAAAAAAGAAAAAACAAAAAAA
Found at i:35887 original size:15 final size:13
Alignment explanation
Indices: 35832--35899 Score: 75
Period size: 13 Copynumber: 5.0 Consensus size: 13
35822 AAAAAAAATG
35832 AAAAAACAAAAAA
1 AAAAAACAAAAAA
35845 AAAAAACAAAAGAAA
1 AAAAAAC-AAA-AAA
35860 AAAAAACAAAAACA
1 AAAAAACAAAAA-A
*
35874 ATAAAAA-AACAAA
1 A-AAAAACAAAAAA
*
35887 CAAAAACAAAAAA
1 AAAAAACAAAAAA
35900 GGGGGTCCGG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 5 0.11
13 15 0.32
14 12 0.26
15 15 0.32
ACGTcount: A:0.87, C:0.10, G:0.01, T:0.01
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:37441 original size:28 final size:28
Alignment explanation
Indices: 37341--37521 Score: 159
Period size: 29 Copynumber: 6.3 Consensus size: 28
37331 TCACCCTTCA
* ***
37341 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ACCTTTC
* ***
37370 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-ACCTTTC
*
37399 GAAAG-CCACAAGTCAGTGGCAACCTTTA
1 -AAAGCCCACAAGTCAGTGGCAACCTTTC
37427 AAAGCCCACAAGTCAGTGGCAACC-TTC
1 AAAGCCCACAAGTCAGTGGCAACCTTTC
* *
37454 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTT-C
* *
37484 AAAGCCCACACAAGTCGGTGGCAACCCTTC
1 AAAG-CC-CACAAGTCAGTGGCAACCTTTC
*
37514 TAAGCCCA
1 AAAGCCCA
37522 ATATAGCTGG
Statistics
Matches: 130, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
27 28 0.22
28 24 0.18
29 46 0.35
30 13 0.10
31 4 0.03
32 15 0.12
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTTC
Found at i:37576 original size:49 final size:49
Alignment explanation
Indices: 37514--37808 Score: 325
Period size: 49 Copynumber: 6.0 Consensus size: 49
37504 GCAACCCTTC
* *
37514 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
37563 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
37612 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
37655 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
37707 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
37762 TAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTTATC
37809 ACTTTTCTCA
Statistics
Matches: 213, Mismatches: 19, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
43 41 0.19
44 1 0.00
48 1 0.00
49 86 0.40
50 1 0.00
51 2 0.01
52 38 0.18
53 2 0.01
54 2 0.01
55 38 0.18
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:37667 original size:43 final size:43
Alignment explanation
Indices: 37606--37698 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
37596 TTGGCACCTT
37606 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
37649 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
37692 CACCTTT
1 CACCTTT
37699 TCCATCTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:37676 original size:22 final size:22
Alignment explanation
Indices: 37608--37676 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
37598 GGCACCTTCA
37608 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
37630 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
37651 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
37673 CCTT
1 CCTT
37677 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:37687 original size:92 final size:95
Alignment explanation
Indices: 37560--37751 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 95
37550 GCACCTTTAT
37560 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-CACCTTTAAGTCCAATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
*
37623 TAGCTGGCCTTGAATCAGCACATTGGCA-C
66 TAGCTGGCCTTGAATCAGCACATTGACATC
* *
37652 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCACCTTTAAGTCCAAT
*
37717 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
37748 CTTT
1 CTTT
37752 TTCTCATCTT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
92 44 0.48
94 2 0.02
95 41 0.45
96 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACATC
Found at i:37730 original size:52 final size:53
Alignment explanation
Indices: 37652--37805 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
37642 ACATTGGCAC
37652 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
37704 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
37759 CTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
37806 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:38637 original size:33 final size:33
Alignment explanation
Indices: 38600--38666 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
38590 TTCAACGATT
38600 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
38633 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
38666 T
1 T
38667 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:38638 original size:13 final size:13
Alignment explanation
Indices: 38620--38644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38610 CATAAAATGT
38620 TGTATCGATACAA
1 TGTATCGATACAA
38633 TGTATCGATACA
1 TGTATCGATACA
38645 TATTTTTTTG
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:38725 original size:13 final size:13
Alignment explanation
Indices: 38707--38731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38697 ATTACTCAAA
38707 TGTATCGATACAT
1 TGTATCGATACAT
38720 TGTATCGATACA
1 TGTATCGATACA
38732 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:38795 original size:51 final size:51
Alignment explanation
Indices: 38740--38863 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 51
38730 CACTGATCTT
*
38740 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
* *
38791 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGG-CAATTTGCCCAGATGTATCGATACACTATAAAA
*
38843 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
38864 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
51 20 0.30
52 47 0.70
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:46695 original size:26 final size:26
Alignment explanation
Indices: 46665--46720 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
46655 TAAAATTCAA
*
46665 AAAATCAAATGAAGATTTTAAAAATC
1 AAAATCAAATAAAGATTTTAAAAATC
* *
46691 AAAATCAGATAAAGATTTTAAAATTC
1 AAAATCAAATAAAGATTTTAAAAATC
46717 AAAA
1 AAAA
46721 GGAATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (26 bp):
AAAATCAAATAAAGATTTTAAAAATC
Found at i:47324 original size:2 final size:2
Alignment explanation
Indices: 47275--47308 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
47265 GAACAAACCA
47275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47309 TTGAGTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56755 original size:73 final size:72
Alignment explanation
Indices: 56669--56812 Score: 189
Period size: 73 Copynumber: 2.0 Consensus size: 72
56659 GACAATTAAT
* * *
56669 GGCCAATGATAGCATGACACTTGACAAAATGTCACATCATTAATCCCACAACATCATGAAGAAAA
1 GGCCAATGATAGCATGACAATTGACAAAATATCACATCATCAATCCCACAACATCATGAA-AAAA
56734 ATCTAAAC
65 ATCTAAAC
** * * ** *
56742 GGCCAATGATAGCATGACAATTGGTAAAATATTACGTCATCAATGTCACAGCATCATGAAAAAAA
1 GGCCAATGATAGCATGACAATTGACAAAATATCACATCATCAATCCCACAACATCATGAAAAAAA
56807 TCTAAA
66 TCTAAA
56813 AAATAAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
72 11 0.18
73 50 0.82
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (72 bp):
GGCCAATGATAGCATGACAATTGACAAAATATCACATCATCAATCCCACAACATCATGAAAAAAA
TCTAAAC
Found at i:57199 original size:23 final size:24
Alignment explanation
Indices: 57160--57205 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
57150 AGTAATTATA
*
57160 ATAAAGAAATAATAATA-TGAGAT
1 ATAAAGAAATAACAATATTGAGAT
57183 ATAACAGAAA-AACAATATTGAGA
1 ATAA-AGAAATAACAATATTGAGA
57206 AAAATATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.22
Consensus pattern (24 bp):
ATAAAGAAATAACAATATTGAGAT
Found at i:57378 original size:30 final size:31
Alignment explanation
Indices: 57325--57382 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
57315 AATAATCTCG
*
57325 TAAAAAAATATAATAAATATTAATATCTTAA
1 TAAAAAAATATAACAAATATTAATATCTTAA
* *
57356 TAAAAAAATTTCACAAAT-TTAATATCT
1 TAAAAAAATATAACAAATATTAATATCT
57383 AAAGGTGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAAAAATATAACAAATATTAATATCTTAA
Found at i:58938 original size:26 final size:26
Alignment explanation
Indices: 58902--58957 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
58892 GTAATTTATC
**
58902 TATAACATAAATTTAGTACATATA-A
1 TATAACATAAATAAAGTACATATATA
*
58927 TATACACATAAATAAAGTATATATATA
1 TATA-ACATAAATAAAGTACATATATA
58954 TATA
1 TATA
58958 TATAACATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.15
26 17 0.65
27 5 0.19
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (26 bp):
TATAACATAAATAAAGTACATATATA
Found at i:58962 original size:25 final size:25
Alignment explanation
Indices: 58921--58979 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
58911 AATTTAGTAC
58921 ATATA-ATATACACATAA-ATAAAGT
1 ATATATATATACACATAACAT-AAGT
* * *
58945 ATATATATATATATATAACATTAGT
1 ATATATATATACACATAACATAAGT
*
58970 GTATATATAT
1 ATATATATAT
58980 GATTTTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 22 0.76
26 2 0.07
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (25 bp):
ATATATATATACACATAACATAAGT
Found at i:58976 original size:19 final size:19
Alignment explanation
Indices: 58952--58998 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
58942 AGTATATATA
58952 TATATATATAACATTAGTG
1 TATATATATAACATTAGTG
* **
58971 TATATATATGATTTTAGTG
1 TATATATATAACATTAGTG
*
58990 TACATATAT
1 TATATATAT
58999 CAAATATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (19 bp):
TATATATATAACATTAGTG
Found at i:59184 original size:26 final size:26
Alignment explanation
Indices: 59148--59198 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
59138 TTCCATTTAG
*
59148 AGTAGATCTATGCAAAATCGATGGAA
1 AGTAGATCTATGCAAAACCGATGGAA
59174 AGTAGATCTATGCAAAACCGATGGA
1 AGTAGATCTATGCAAAACCGATGGA
59199 GCAAATCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (26 bp):
AGTAGATCTATGCAAAACCGATGGAA
Found at i:60482 original size:25 final size:27
Alignment explanation
Indices: 60448--60504 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
60438 CCAAATCACC
* *
60448 ATCTCCTAAA-A-TCTTCTTATGTCAA
1 ATCTCCTAAACACTATTCTTAAGTCAA
60473 ATCTCCTAAACACTATTCTTAAGTCAA
1 ATCTCCTAAACACTATTCTTAAGTCAA
60500 ATCTC
1 ATCTC
60505 GTCTCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.36
26 1 0.04
27 17 0.61
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (27 bp):
ATCTCCTAAACACTATTCTTAAGTCAA
Done.