Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold972
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: 65854
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:6046 original size:43 final size:39
Alignment explanation
Indices: 5999--6084 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 39
5989 GTGAAAATAA
* *
5999 TTTTTTACAAAAGGGGAGAAGATAATTGTTTAATGGGGAGAAT
1 TTTTTTA-AAAA--GGAGAAGATAATCGTTTAA-GAGGAGAAT
* *
6042 TTTTTTATAAAGGAGGAGATAATCGTTTAAGAGGAGAAT
1 TTTTTTAAAAAGGAGAAGATAATCGTTTAAGAGGAGAAT
6081 TTTT
1 TTTT
6085 AAAGGGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 12 0.31
40 17 0.44
42 3 0.08
43 7 0.18
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (39 bp):
TTTTTTAAAAAGGAGAAGATAATCGTTTAAGAGGAGAAT
Found at i:10874 original size:33 final size:34
Alignment explanation
Indices: 10807--10876 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
10797 CCGTTACAAG
* *
10807 CAATGTATCGATAGAATTTCATCATGTATTGATA
1 CAATGTATCGATAGAATTTCACCATGTATCGATA
*
10841 CAATGTATCGATA-CATTATC-CCATGTATCGATA
1 CAATGTATCGATAGAATT-TCACCATGTATCGATA
10874 CAA
1 CAA
10877 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 17 0.53
34 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (34 bp):
CAATGTATCGATAGAATTTCACCATGTATCGATA
Found at i:10930 original size:20 final size:20
Alignment explanation
Indices: 10905--10959 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
10895 CTACCAATCT
*
10905 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAC
*
10925 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAC
*
10944 CAAGTATCGATACAAT
1 CATGTATCGATACAAT
10960 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:10965 original size:13 final size:13
Alignment explanation
Indices: 10947--10971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10937 CAATGAGCAA
10947 GTATCGATACAAT
1 GTATCGATACAAT
10960 GTATCGATACAA
1 GTATCGATACAA
10972 AACATAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:11754 original size:21 final size:21
Alignment explanation
Indices: 11730--11775 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
11720 GATAACACAA
*
11730 TCATAAAACAAATATTGCATT
1 TCATAAAACAAACATTGCATT
11751 TCATAAAACAAACATTGCATT
1 TCATAAAACAAACATTGCATT
11772 TCAT
1 TCAT
11776 GAATTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (21 bp):
TCATAAAACAAACATTGCATT
Found at i:13412 original size:8 final size:8
Alignment explanation
Indices: 13401--13430 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13391 TTTGAGAGAA
13401 TTTGGGTG
1 TTTGGGTG
13409 TTTGGGTG
1 TTTGGGTG
13417 TTTGGGTG
1 TTTGGGTG
13425 TTTGGG
1 TTTGGG
13431 GTATCGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (8 bp):
TTTGGGTG
Found at i:13497 original size:13 final size:13
Alignment explanation
Indices: 13479--13520 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
13469 AAATAGTACC
13479 CAATGTATCGATA
1 CAATGTATCGATA
*
13492 CAATGTATCAATA
1 CAATGTATCGATA
*
13505 CAATTTATCGATA
1 CAATGTATCGATA
13518 CAA
1 CAA
13521 GGAATGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:19756 original size:20 final size:20
Alignment explanation
Indices: 19731--19785 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
19721 CTGCCAATCT
*
19731 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAC
*
19751 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAC
*
19770 CAAGTATCGATACAAT
1 CATGTATCGATACAAT
19786 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:19791 original size:13 final size:13
Alignment explanation
Indices: 19773--19797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19763 CAATGAGCAA
19773 GTATCGATACAAT
1 GTATCGATACAAT
19786 GTATCGATACAA
1 GTATCGATACAA
19798 AATATAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:26796 original size:20 final size:20
Alignment explanation
Indices: 26770--26824 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
26760 TTCCCGTAGT
26770 CATGTATCGATACAATTCATA
1 CATGTATCGATACAATT-ATA
* *
26791 -ATGTATCAATAC-ATTGTA
1 CATGTATCGATACAATTATA
26809 CCATGTATCGATACAA
1 -CATGTATCGATACAA
26825 ATAGTGATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.07
19 3 0.11
20 22 0.79
21 1 0.04
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTATA
Found at i:26901 original size:19 final size:19
Alignment explanation
Indices: 26853--26908 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
26843 CTGCCAGTTT
* **
26853 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
26873 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
26892 CATGTATCGATACAATG
1 CATGTATCGATACAATG
26909 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:26911 original size:13 final size:13
Alignment explanation
Indices: 26893--26919 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26883 TACAATGAAC
26893 ATGTATCGATACA
1 ATGTATCGATACA
26906 ATGTATCGATACA
1 ATGTATCGATACA
26919 A
1 A
26920 AGTAGCATGT
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:26934 original size:33 final size:32
Alignment explanation
Indices: 26877--26938 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
26867 ATTGTCCATA
*
26877 TATCGATACAATGAACATGTATCGATACAATG
1 TATCGATACAAAGAACATGTATCGATACAATG
*
26909 TATCGATACAAAGTAGCATGTATCGATACA
1 TATCGATACAAAG-AACATGTATCGATACA
26939 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATG
Found at i:27517 original size:22 final size:22
Alignment explanation
Indices: 27492--27535 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27482 TAAATGATTA
*
27492 TCTCCTCATTTATAAAAAATTT
1 TCTCCCCATTTATAAAAAATTT
*
27514 TCTCCCCCTTTATAAAAAATTT
1 TCTCCCCATTTATAAAAAATTT
27536 ATTTTCTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (22 bp):
TCTCCCCATTTATAAAAAATTT
Found at i:35643 original size:13 final size:13
Alignment explanation
Indices: 35625--35651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35615 TACAATGAAC
35625 ATGTATCGATACA
1 ATGTATCGATACA
35638 ATGTATCGATACA
1 ATGTATCGATACA
35651 A
1 A
35652 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35645 original size:32 final size:33
Alignment explanation
Indices: 35604--35670 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
35594 ATACAATTGT
*
35604 CAATGTATCGATACAATG-AACATGTATCGATA
1 CAATGTATCGATACAAAGCAACATGTATCGATA
*
35636 CAATGTATCGATACAAAGCAGCATGTATCGATA
1 CAATGTATCGATACAAAGCAACATGTATCGATA
35669 CA
1 CA
35671 TCTGGGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (33 bp):
CAATGTATCGATACAAAGCAACATGTATCGATA
Found at i:38032 original size:13 final size:13
Alignment explanation
Indices: 38014--38038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38004 CATTTTATGG
38014 TGTATCGATACAA
1 TGTATCGATACAA
38027 TGTATCGATACA
1 TGTATCGATACA
38039 TACTGTGTGT
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:38038 original size:33 final size:32
Alignment explanation
Indices: 37991--38058 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
37981 CGTTACAAGC
**
37991 CAATGTATCAATACATTTTATGGTGTATCGATA
1 CAATGTATCAATACATACTAT-GTGTATCGATA
* *
38024 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCAATACATACTATGTGTATCGATA
38056 CAA
1 CAA
38059 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCAATACATACTATGTGTATCGATA
Found at i:38948 original size:20 final size:20
Alignment explanation
Indices: 38923--38977 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
38913 TTTGGGTGAA
38923 AAAAAAGAAAAGAAAAGAAG
1 AAAAAAGAAAAGAAAAGAAG
* *
38943 AAAAAA-AGAAGAAGTAGAAG
1 AAAAAAGAAAAGAA-AAGAAG
*
38963 -AAAAAGGAAAGAAAA
1 AAAAAAGAAAAGAAAA
38978 AAATTTGAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAAGAAAAGAAG
Found at i:38949 original size:11 final size:11
Alignment explanation
Indices: 38922--38955 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
38912 TTTTGGGTGA
38922 AAAAAAAGAA-
1 AAAAAAAGAAG
*
38932 AAGAAAAGAAG
1 AAAAAAAGAAG
38943 AAAAAAAGAAG
1 AAAAAAAGAAG
38954 AA
1 AA
38956 GTAGAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:38966 original size:17 final size:16
Alignment explanation
Indices: 38927--38966 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
38917 GGTGAAAAAA
38927 AAGAAAAGAAAAGAAG
1 AAGAAAAGAAAAGAAG
* *
38943 AAAAAAAGAAGAAGTAG
1 AAGAAAAGAA-AAGAAG
38960 AAGAAAA
1 AAGAAAA
38967 AGGAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (16 bp):
AAGAAAAGAAAAGAAG
Found at i:40451 original size:53 final size:51
Alignment explanation
Indices: 40353--40465 Score: 156
Period size: 53 Copynumber: 2.2 Consensus size: 51
40343 GTCTTCCGAG
40353 GGGATACTCCAACCCTGTTTACCTCTAAAAAATCAAAAATTTTCATTTTCA
1 GGGATACTCCAACCCTGTTTACCTCTAAAAAATCAAAAATTTTCATTTTCA
* * * *
40404 GGGATACTCCAACCTCATTTTTACTTTTAAAAAAT-AAAAATTATTCATTTTCG
1 GGGATACTCCAACC-C-TGTTTACCTCTAAAAAATCAAAAATT-TTCATTTTCA
40457 GGGATACTC
1 GGGATACTC
40466 TACCTCACCA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
51 14 0.25
52 8 0.15
53 33 0.60
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (51 bp):
GGGATACTCCAACCCTGTTTACCTCTAAAAAATCAAAAATTTTCATTTTCA
Found at i:40572 original size:83 final size:82
Alignment explanation
Indices: 40406--40844 Score: 444
Period size: 81 Copynumber: 5.4 Consensus size: 82
40396 CATTTTCAGG
* * *
40406 GATACTCCAACCTCATTTTTA-CTTTT-AAAAAATAAAAATTATTCATTTTCGGGGATACT-CTA
1 GATACTCCAACCCCATTTTTACCTTTTAAAAAAATCAAAATT-TTCATTTTCGGGGATACTCCAA
* * * *
40468 CCTCACCATCTCTGAAGA
65 CCCCACCATTTCTTAGGA
*** * *
40486 GATACTCCAACCTTGTTTTTACCTTTTAAAAAAAATTAAAATTTTCATTTTCGGGGATACTCCAG
1 GATACTCCAACCCCATTTTTACCTTTT-AAAAAAATCAAAATTTTCATTTTCGGGGATACTCCAA
40551 CCCCACCATTTCTTAGGA
65 CCCCACCATTTCTTAGGA
* * *
40569 GATACTCCAACCCCATTTTTACC-TCT-AAAAAATCATAAATTTTCATTTTTGGGGATACTTCAA
1 GATACTCCAACCCCATTTTTACCTTTTAAAAAAATCA-AAATTTTCATTTTCGGGGATACTCCAA
40632 CCCCACCATTTCTTAAGG-
65 CCCCACCATTTCTT-AGGA
** * * * * *
40650 GATACTCCAACCTTATTTTTA-CTTCTAAAAATATCCAATTTTTCATCTTCGGGGATACTCCAAC
1 GATACTCCAACCCCATTTTTACCTTTTAAAAAAATCAAAATTTTCATTTTCGGGGATACTCCAAC
** * *
40714 CCCACCACCTC-CAAGA
66 CCCACCATTTCTTAGGA
* * * *
40730 GGATATTTCAACCCCATTTTTACTTTTTTAAAAAAATCAAAATTTTCATTTTCGGGGATACTTCA
1 -GATACTCCAACCCCATTTTTAC-CTTTTAAAAAAATCAAAATTTTCATTTTCGGGGATACTCCA
* *
40795 ACCCTACCATTTCTTAGGG
64 ACCCCACCATTTCTTAGGA
* ** *
40814 GATACTTCAACCCTGTTTTTACTTTTTAAAA
1 GATACTCCAACCCCATTTTTACCTTTTAAAA
40845 TATCCAATTT
Statistics
Matches: 297, Mismatches: 49, Indels: 24
0.80 0.13 0.06
Matches are distributed among these distances:
79 2 0.01
80 28 0.09
81 115 0.39
82 39 0.13
83 111 0.37
84 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (82 bp):
GATACTCCAACCCCATTTTTACCTTTTAAAAAAATCAAAATTTTCATTTTCGGGGATACTCCAAC
CCCACCATTTCTTAGGA
Found at i:40789 original size:164 final size:161
Alignment explanation
Indices: 40406--40855 Score: 553
Period size: 164 Copynumber: 2.8 Consensus size: 161
40396 CATTTTCAGG
* * *
40406 GATACTCCAACCTCATTTTTACTTTTAAAAAATAAAAATTATTCATTTTCGGGGATAC-TCTACC
1 GATACTCCAACCCCATTTTTACTTTTAAAAAATCAAAATT-TTCATTTTCGGGGATACTTCAACC
* * * * * ** * *
40470 TCACCATCTCTGAAGAGATACTCCAACCTTGTTTTTACCTTTTAAAAAAAATTAAAATTTTCATT
65 CCACCATTTCTTAAGGGATACTCCAACCTTGTTTTTA-CTTTT-AAAAATATCCAATTTTTCATC
* ** **
40535 TTCGGGGATACTCCAGCCCCACCATTTCTTAGGA
128 TTCGGGGATACTCCAACCCCACCACCTCCAAGGA
* * *
40569 GATACTCCAACCCCATTTTTACCTCTAAAAAATCATAAATTTTCATTTTTGGGGATACTTCAACC
1 GATACTCCAACCCCATTTTTACTTTTAAAAAATCA-AAATTTTCATTTTCGGGGATACTTCAACC
* *
40634 CCACCATTTCTTAAGGGATACTCCAACCTTATTTTTACTTCTAAAAATATCCAATTTTTCATCTT
65 CCACCATTTCTTAAGGGATACTCCAACCTTGTTTTTACTTTTAAAAATATCCAATTTTTCATCTT
40699 CGGGGATACTCCAACCCCACCACCTCCAA-GA
130 CGGGGATACTCCAACCCCACCACCTCCAAGGA
* *
40730 GGATATTTCAACCCCATTTTTACTTTTTTAAAAAAATCAAAATTTTCATTTTCGGGGATACTTCA
1 -GATACTCCAACCCCATTTTTAC--TTTT-AAAAAATCAAAATTTTCATTTTCGGGGATACTTCA
* * * * *
40795 ACCCTACCATTTCTTAGGGGATACTTCAACCCTGTTTTTACTTTTTAAAATATCCAATTTT
62 ACCCCACCATTTCTTAAGGGATACTCCAACCTTGTTTTTACTTTTAAAAATATCCAATTTT
40856 CTACTTTTGG
Statistics
Matches: 247, Mismatches: 34, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
161 2 0.01
162 62 0.25
163 51 0.21
164 123 0.50
165 9 0.04
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (161 bp):
GATACTCCAACCCCATTTTTACTTTTAAAAAATCAAAATTTTCATTTTCGGGGATACTTCAACCC
CACCATTTCTTAAGGGATACTCCAACCTTGTTTTTACTTTTAAAAATATCCAATTTTTCATCTTC
GGGGATACTCCAACCCCACCACCTCCAAGGA
Found at i:40898 original size:81 final size:81
Alignment explanation
Indices: 40606--40898 Score: 224
Period size: 81 Copynumber: 3.6 Consensus size: 81
40596 AAAAATCATA
* * * * * *
40606 AATTTTC-ATTTTTGGGGATACT-TCAACCCCACCATTTCTTAAG-GGATACTCCAACCTTATTT
1 AATTTTCTACTTTTGGGGATACTCT-AACCCTACCATCTC-CAAGAGGATACTTCAACCCTATTT
* *
40668 TTACTTCTAAAAATATCC
64 TTACTTTTTAAAATATCC
* * * * * *
40686 AATTTT-T-CATCTTCGGGGATACTCCAACCCCACCACCTCCAAGAGGATATTTCAACCCCATTT
1 AATTTTCTAC-T-TTTGGGGATACTCTAACCCTACCATCTCCAAGAGGATACTTCAACCCTATTT
* *
40749 TTACTTTTTTAAAAAAATCAA
64 TTAC-TTTTT-AAAATATC-C
* ** * *
40770 AATTTTC-A-TTTTCGGGGATACT-TCAACCCTACCATTTCTTAGGGGATACTTCAACCCTGTTT
1 AATTTTCTACTTTT-GGGGATACTCT-AACCCTACCATCTCCAAGAGGATACTTCAACCCTATTT
40832 TTACTTTTTAAAATATCC
64 TTACTTTTTAAAATATCC
* ** *
40850 AATTTTCTACTTTTGGGGATGCTCTAACCCTATTATCTCCGAGAGGATA
1 AATTTTCTACTTTTGGGGATACTCTAACCCTACCATCTCCAAGAGGATA
40899 ATCTAACCTC
Statistics
Matches: 164, Mismatches: 34, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
80 17 0.10
81 76 0.46
82 15 0.09
83 50 0.30
84 6 0.04
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (81 bp):
AATTTTCTACTTTTGGGGATACTCTAACCCTACCATCTCCAAGAGGATACTTCAACCCTATTTTT
ACTTTTTAAAATATCC
Found at i:50050 original size:78 final size:79
Alignment explanation
Indices: 49729--50175 Score: 530
Period size: 79 Copynumber: 5.7 Consensus size: 79
49719 TTCATTGATG
* * * *
49729 TTTTATTTCTAAAATACTGATTTTCCACCATCGGGGATACTCCAACCCCGTTA-TTTCCAAGGGG
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCCGA-GGG
* *
49793 ATACTCCAGCCTCGA
65 ATACTCCAACCCCGA
** * * *
49808 TTTTATTTCTAAAACACCAATTTTTCACCAT-AGAGGATACTTCAACCCCGTTATTTT-TGAGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGA-GATACTCCAACCCCGTTATTTTCCGAGG-
49871 GATACTCCAACCCCGA
64 GATACTCCAACCCCGA
* * *
49887 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCCCATTATTTT-CGAGAGG
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCCGAG-GG
49951 ATACTCCAACCCCGA
65 ATACTCCAACCCCGA
* * * **
49966 TATTATTTCTAAAGCACTGATTTTTTACCATC-GAGATACTCCAACCCCGTTATTTTCTAAGGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCCGAGGGA
* *
50030 TACTCCAACTCCAA
66 TACTCCAACCCCGA
* * * *
50044 TTTTATTTCTAAAACATTGATTTTCCACCATCGGGGATACTCCAACCTCGTTA-TTTCCGAGGGA
1 TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCCGAGGGA
* *
50108 TACTCCAACTCCAA
66 TACTCCAACCCCGA
* * *
50122 TTTTATTTCTAAAACA-TCAACTTTTCACCATCGGAGATACTCCAACCCCTTTAT
1 TTTTATTTCTAAAACACT-GATTTTTCACCATCGGAGATACTCCAACCCCGTTAT
50176 CTCCAAGGAA
Statistics
Matches: 315, Mismatches: 44, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
77 1 0.00
78 134 0.43
79 175 0.56
80 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCCAACCCCGTTATTTTCCGAGGGA
TACTCCAACCCCGA
Found at i:50073 original size:157 final size:156
Alignment explanation
Indices: 49729--50175 Score: 610
Period size: 157 Copynumber: 2.8 Consensus size: 156
49719 TTCATTGATG
* *
49729 TTTTATTTCTAAAATACTGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGA
* * * * *
49794 TACTCCAGCCTCGATTTTATTTCTAAAACACCAATTTTTCACCATAGAGGATACTTCAACCCCGT
65 TACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGA-GATACTCCAACCCCGT
* *
49859 TATTTTTGAGGAGATACTCCAACCCCGA
129 TATTTTTAAGGAGATACTCCAACCCCAA
* * * *
49887 TTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCCCATTATTTTCGAGAGGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCGAG-GGA
* * * *
49952 TACTCCAACCCCGATATTATTTCTAAAGCACTGATTTTTTACCATCGAGATACTCCAACCCCGTT
65 TACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGATACTCCAACCCCGTT
*
50017 ATTTTCTAAGG-GATACTCCAACTCCAA
130 ATTTT-TAAGGAGATACTCCAACCCCAA
* *
50044 TTTTATTTCTAAAACATTGATTTTCCACCATCGGGGATACTCCAACCTCGTTATTTCCGAGGGAT
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
* * * *
50109 ACTCCAACTCCAATTTTATTTCTAAAACA-TCAACTTTTCACCATCGGAGATACTCCAACCCCTT
66 ACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTTCACCATC-GAGATACTCCAACCCCGT
50173 TAT
129 TAT
50176 CTCCAAGGAA
Statistics
Matches: 253, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
155 1 0.00
156 40 0.16
157 111 0.44
158 101 0.40
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.34
Consensus pattern (156 bp):
TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
ACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGAGATACTCCAACCCCGTTA
TTTTTAAGGAGATACTCCAACCCCAA
Found at i:57712 original size:21 final size:21
Alignment explanation
Indices: 57673--57712 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57663 GACATGGTCC
*
57673 TGTATCAATACATTCACTTCT
1 TGTATCAATACATTAACTTCT
57694 TGTATCAATACGA-TAACTT
1 TGTATCAATAC-ATTAACTT
57713 TGCTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (21 bp):
TGTATCAATACATTAACTTCT
Found at i:57856 original size:58 final size:58
Alignment explanation
Indices: 57738--58164 Score: 287
Period size: 58 Copynumber: 7.3 Consensus size: 58
57728 ATTTCACGTT
* * * * *
57738 ATTTAGGAT-ATTTTTCATGACATAGGGACTTTAATATAATTTCATGTATTTTCATA-TC
1 ATTTAGG-TCATTTTTCATGACTTAGGGACTTTTATGTAATTTCATGTATGTTGA-AGTC
* * * *
57796 ATTTAGGGCACTTTTT-ATGACTTAGGAATTTTTATGTAATTTCATGTATTTTGAAGTC
1 ATTTAGGTCA-TTTTTCATGACTTAGGGACTTTTATGTAATTTCATGTATGTTGAAGTC
* * * ** * * * *
57854 ATTTAAGTTATTTTTCATGATTTAGGGACTTCGATGCAAATTTTATATATGTTG-GGATC
1 ATTTAGGTCATTTTTCATGACTTAGGGACTTTTATG-TAATTTCATGTATGTTGAAG-TC
* * * * *
57913 ATTTAGGTCATTTTTTATGACTTAGGGACTATTATGTAATTTCTTGTAAGTT-AAGATT
1 ATTTAGGTCATTTTTCATGACTTAGGGACTTTTATGTAATTTCATGTATGTTGAAG-TC
* * * *
57971 ATTTAGGTCATTTTTCATGATCGT-GGGACTTTTATGCAATTTCATGTATATTGGAGTC
1 ATTTAGGTCATTTTTCATGA-CTTAGGGACTTTTATGTAATTTCATGTATGTTGAAGTC
* * * *** * * * **
58029 ATTTAGGTTATTTTTCGTTA-TCTAAAAACTTTTATGCAATTTTATATATGTTGGGGTC
1 ATTTAGGTCATTTTTCATGACT-TAGGGACTTTTATGTAATTTCATGTATGTTGAAGTC
* * * * * * * *
58087 ATTTAAGTCATTTTTTACGA-TCTAGAGACTTTTATGCAATTTTATATATGTT-AGGATC
1 ATTTAGGTCATTTTTCATGACT-TAGGGACTTTTATGTAATTTCATGTATGTTGAAG-TC
58145 ATTTAGGTCATTTTTCATGA
1 ATTTAGGTCATTTTTCATGA
58165 TCAAAGGACT
Statistics
Matches: 291, Mismatches: 66, Indels: 24
0.76 0.17 0.06
Matches are distributed among these distances:
57 9 0.03
58 229 0.79
59 53 0.18
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.47
Consensus pattern (58 bp):
ATTTAGGTCATTTTTCATGACTTAGGGACTTTTATGTAATTTCATGTATGTTGAAGTC
Found at i:58149 original size:29 final size:29
Alignment explanation
Indices: 58059--58149 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
58049 TCTAAAAACT
* *
58059 TTTATGCAATTTTATATATGTTGGGGTCA
1 TTTATGCAATTTTATATATGTTAGGATCA
* * *
58088 TTTAAGTC-ATTTT-T-TACGATCTAGAGA-CT
1 TTTATG-CAATTTTATATATG-T-TAG-GATCA
58117 TTTATGCAATTTTATATATGTTAGGATCA
1 TTTATGCAATTTTATATATGTTAGGATCA
58146 TTTA
1 TTTA
58150 GGTCATTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 3 0.07
28 5 0.11
29 31 0.67
30 4 0.09
31 3 0.07
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (29 bp):
TTTATGCAATTTTATATATGTTAGGATCA
Found at i:58152 original size:174 final size:175
Alignment explanation
Indices: 57825--58166 Score: 447
Period size: 174 Copynumber: 2.0 Consensus size: 175
57815 ACTTAGGAAT
* * * ***
57825 TTTTATGTAATTTCATGTATTTTGAAGTCATTTAAGTTATTTTTCATGATTTAGGGACTTCGATG
1 TTTTATGCAATTTCATGTATATTGAAGTCATTTAAGTTATTTTTCATGATCTAAAAACTTCGATG
* * * *
57890 CAAATTTTATATATGTTGGGATCATTTAGGTCATTTTTTATGACTTAGGGACTATTATGTAATTT
66 CAAATTTTATATATGTTGGGATCATTTAAGTCATTTTTTACGACTTAGAGACTATTATGCAATTT
* *
57955 CTTGTAAGTTAAGATTATTTAGGTCATTTTTCATGATCGTGGGAC
131 CTTATAAGTTAAGATCATTTAGGTCATTTTTCATGATCGTGGGAC
* * * * **
58000 TTTTATGCAATTTCATGTATATTGGAGTCATTTAGGTTATTTTTCGTTATCTAAAAACTTTTATG
1 TTTTATGCAATTTCATGTATATTGAAGTCATTTAAGTTATTTTTCATGATCTAAAAACTTCGATG
* *
58065 C-AATTTTATATATGTTGGGGTCATTTAAGTCATTTTTTACGA-TCTAGAGACTTTTATGCAATT
66 CAAATTTTATATATGTTGGGATCATTTAAGTCATTTTTTACGACT-TAGAGACTATTATGCAATT
* *
58128 T-TATATATGTTAGGATCATTTAGGTCATTTTTCATGATC
130 TCT-TATAAGTTAAGATCATTTAGGTCATTTTTCATGATC
58167 AAAGGACTTT
Statistics
Matches: 143, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
173 2 0.01
174 87 0.61
175 54 0.38
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (175 bp):
TTTTATGCAATTTCATGTATATTGAAGTCATTTAAGTTATTTTTCATGATCTAAAAACTTCGATG
CAAATTTTATATATGTTGGGATCATTTAAGTCATTTTTTACGACTTAGAGACTATTATGCAATTT
CTTATAAGTTAAGATCATTTAGGTCATTTTTCATGATCGTGGGAC
Found at i:58176 original size:116 final size:116
Alignment explanation
Indices: 57851--58188 Score: 335
Period size: 116 Copynumber: 2.9 Consensus size: 116
57841 GTATTTTGAA
* * **
57851 GTCATTTAAGTTATTTTTCATGATTTAGGGACTTCGATGCAAATTTTATATATGTTGGGATCATT
1 GTCATTTAAGTCATTTTTCATGATCTAGGGACTTTTATGC-AATTTTATATATGTT-GGATCATT
* * * * * *
57916 TAGGTCATTTTTTATGA-CTTAGGGACTATTATGTAATTTCT-TGTAAGTTAAG
64 TAGGTCATTTTTCATGATCTAAAGGACTTTTATGCAATTT-TATATAAGTTAAG
* * * * * *
57968 ATTATTTAGGTCATTTTTCATGATCGT-GGGACTTTTATGCAATTTCATGTATATTGGAGTCATT
1 GTCATTTAAGTCATTTTTCATGATC-TAGGGACTTTTATGCAATTTTATATATGTTGGA-TCATT
* * * * * **
58032 TAGGTTATTTTTCGTTATCTAAA-AACTTTTATGCAATTTTATATATGTTGGG
64 TAGGTCATTTTTCATGATCTAAAGGACTTTTATGCAATTTTATATAAGTTAAG
* * *
58084 GTCATTTAAGTCATTTTTTACGATCTAGAGACTTTTATGCAATTTTATATATGTTAGGATCATTT
1 GTCATTTAAGTCATTTTTCATGATCTAGGGACTTTTATGCAATTTTATATATGTT-GGATCATTT
* *
58149 AGGTCATTTTTCATGATC-AAAGGACTTTCATGCAAATTTA
65 AGGTCATTTTTCATGATCTAAAGGACTTTTATGCAATTTTA
58189 CGTATTTTAA
Statistics
Matches: 176, Mismatches: 38, Indels: 15
0.77 0.17 0.07
Matches are distributed among these distances:
115 8 0.05
116 130 0.74
117 37 0.21
118 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (116 bp):
GTCATTTAAGTCATTTTTCATGATCTAGGGACTTTTATGCAATTTTATATATGTTGGATCATTTA
GGTCATTTTTCATGATCTAAAGGACTTTTATGCAATTTTATATAAGTTAAG
Found at i:58205 original size:58 final size:58
Alignment explanation
Indices: 57846--58213 Score: 230
Period size: 58 Copynumber: 6.3 Consensus size: 58
57836 TTCATGTATT
* * * ** * **
57846 TTGAAGTCATTTAAGTTATTTTTCATGATTTAGGGACTTCGATGCAAATTTTATATATG
1 TTGAGGTCATTTAGGTCATTTTTCATGATCAAAGGACTTTTATGCAAA-TTTATATATG
* * * * * * * *
57905 TTG-GGATCATTTAGGTCATTTTTTATGA-CTTAGGGACTATTATG-TAATTTCTTGTAAG
1 TTGAGG-TCATTTAGGTCATTTTTCATGATC-AAAGGACTTTTATGCAAATTT-ATATATG
* * * *** * *
57963 TTAAGATTATTTAGGTCATTTTTCATGATCGTGGGACTTTTATGC-AATTTCATGTATA
1 TTGAGGTCATTTAGGTCATTTTTCATGATCAAAGGACTTTTATGCAAATTT-ATATATG
* * * * *
58021 TTG-GAGTCATTTAGGTTATTTTTCGTTATCTAAA-AACTTTTATGCAATTTTATATATG
1 TTGAG-GTCATTTAGGTCATTTTTCATGATC-AAAGGACTTTTATGCAAATTTATATATG
* * * * * *
58079 TTGGGGTCATTTAAGTCATTTTTTACGATC-TAGAGACTTTTATGCAATTTTATATATG
1 TTGAGGTCATTTAGGTCATTTTTCATGATCAAAG-GACTTTTATGCAAATTTATATATG
* ** *
58137 TT-AGGATCATTTAGGTCATTTTTCATGATCAAAGGACTTTCATGCAAATTTACGTATT
1 TTGAGG-TCATTTAGGTCATTTTTCATGATCAAAGGACTTTTATGCAAATTTATATATG
* *
58195 TTAATGTCATTTAGGTCAT
1 TTGAGGTCATTTAGGTCAT
58214 GCAATTTCAT
Statistics
Matches: 240, Mismatches: 54, Indels: 31
0.74 0.17 0.10
Matches are distributed among these distances:
56 1 0.00
57 6 0.03
58 189 0.79
59 44 0.18
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (58 bp):
TTGAGGTCATTTAGGTCATTTTTCATGATCAAAGGACTTTTATGCAAATTTATATATG
Found at i:58206 original size:174 final size:175
Alignment explanation
Indices: 57833--58210 Score: 433
Period size: 174 Copynumber: 2.2 Consensus size: 175
57823 ATTTTTATGT
* * * * * * *** **
57833 AATTTCATGTATTTTGAAGTCATTTAAGTTATTTTTCATGATTTAGGGACTTCGATGCAAATTTT
1 AATTTCACGTATATTGAAGTCATTTAGGTTATTTTTCGTTATCTAAAAACTTTTATGCAAATTTT
* * * * *
57898 ATATATGTTGGGATCATTTAGGTCATTTTTTATGACTTAGGGACTATTATGTAATTTCTTGTAAG
66 ATATATGTTGGGATCATTTAAGTCATTTTTTACGACTTAGAGACTATTATGCAATTTCTTATAAG
* *** *
57963 TTAAGATTATTTAGGTCATTTTTCATGATCGTGGGACTTTTATGC
131 TTAAGATCATTTAGGTCATTTTTCATGATCAAAGGACTTTCATGC
* *
58008 AATTTCATGTATATTGGAGTCATTTAGGTTATTTTTCGTTATCTAAAAACTTTTATGC-AATTTT
1 AATTTCACGTATATTGAAGTCATTTAGGTTATTTTTCGTTATCTAAAAACTTTTATGCAAATTTT
* *
58072 ATATATGTTGGGGTCATTTAAGTCATTTTTTACGA-TCTAGAGACTTTTATGCAATTT-TATATA
66 ATATATGTTGGGATCATTTAAGTCATTTTTTACGACT-TAGAGACTATTATGCAATTTCT-TATA
* *
58135 TGTTAGGATCATTTAGGTCATTTTTCATGATCAAAGGACTTTCATGC
129 AGTTAAGATCATTTAGGTCATTTTTCATGATCAAAGGACTTTCATGC
*
58182 AAATTT-ACGTAT-TTTAATGTCATTTAGGT
1 -AATTTCACGTATATTGAA-GTCATTTAGGT
58211 CATGCAATTT
Statistics
Matches: 171, Mismatches: 28, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
173 5 0.03
174 114 0.67
175 52 0.30
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (175 bp):
AATTTCACGTATATTGAAGTCATTTAGGTTATTTTTCGTTATCTAAAAACTTTTATGCAAATTTT
ATATATGTTGGGATCATTTAAGTCATTTTTTACGACTTAGAGACTATTATGCAATTTCTTATAAG
TTAAGATCATTTAGGTCATTTTTCATGATCAAAGGACTTTCATGC
Found at i:58214 original size:34 final size:34
Alignment explanation
Indices: 58176--58244 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
58166 CAAAGGACTT
*
58176 TCATGCAAATTT-ACGTATTTTAATGTCATTTAGG
1 TCATGC-AATTTCACGTATTTTAATGTCATCTAGG
*
58210 TCATGCAATTTCATGTATTTTAATGTCATCTAGG
1 TCATGCAATTTCACGTATTTTAATGTCATCTAGG
58244 T
1 T
58245 TATTTTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 5 0.16
34 27 0.84
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (34 bp):
TCATGCAATTTCACGTATTTTAATGTCATCTAGG
Found at i:58288 original size:59 final size:58
Alignment explanation
Indices: 58216--58327 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 58
58206 TAGGTCATGC
* * *
58216 AATTTCATGTATTTTAATGTCATCTAGGTTATTTTTCTATGATCTAAAGATTTTGGTGT
1 AATTTCATATATTTTAATGTCATCTAGGTCA-TTTTCTATGATCTAAAAATTTTGGTGT
* * *
58275 AATTTCATATATTTTGATGTCGTTTAGGTCATTTTCTATGATCTAAAAATTTT
1 AATTTCATATATTTTAATGTCATCTAGGTCATTTTCTATGATCTAAAAATTTT
58328 CATACAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 21 0.45
59 26 0.55
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (58 bp):
AATTTCATATATTTTAATGTCATCTAGGTCATTTTCTATGATCTAAAAATTTTGGTGT
Found at i:62258 original size:24 final size:25
Alignment explanation
Indices: 62212--62260 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62202 TTGATTTAAA
*
62212 TTACTATTTATTTAATAAAAAAATT
1 TTACTATTAATTTAATAAAAAAATT
*
62237 TTACT-TTAATTTAATCATAAAAAT
1 TTACTATTAATTTAAT-AAAAAAAT
62261 ATATAGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
TTACTATTAATTTAATAAAAAAATT
Found at i:62291 original size:21 final size:22
Alignment explanation
Indices: 62241--62292 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
62231 AAAATTTTAC
62241 TTTAAT-TTAATCATAAAAATA
1 TTTAATATTAATCATAAAAATA
*
62262 TATAGATATTAAT-AT-AAAATA
1 TTTA-ATATTAATCATAAAAATA
62283 TTTTAATATT
1 -TTTAATATT
62293 TTTTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 14 0.54
22 7 0.27
23 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTAATATTAATCATAAAAATA
Found at i:62653 original size:21 final size:22
Alignment explanation
Indices: 62629--62673 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
62619 TTTTAAAAAA
*
62629 TTAT-ATTAATATTTATAT-ATT
1 TTATAATTAA-ATTTAAATAATT
62650 TTATAATTAAATTTAAATAATT
1 TTATAATTAAATTTAAATAATT
62672 TT
1 TT
62674 TTTAATTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAATTAAATTTAAATAATT
Found at i:63026 original size:22 final size:21
Alignment explanation
Indices: 63001--63055 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
62991 TAATTAAAAA
* *
63001 AATTAATAACTTAAATTGATTT
1 AATTAA-AACTTAAAATAATTT
*
63023 AATTAAAATTTAAAATAATTT
1 AATTAAAACTTAAAATAATTT
*
63044 AAATTTAAACTT
1 -AATTAAAACTT
63056 GAACAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTAAAACTTAAAATAATTT
Found at i:63043 original size:21 final size:22
Alignment explanation
Indices: 63001--63045 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
62991 TAATTAAAAA
* *
63001 AATTAATAACTTAAATTGATTT
1 AATTAATAACTTAAAATAATTT
*
63023 AATTAA-AATTTAAAATAATTT
1 AATTAATAACTTAAAATAATTT
63044 AA
1 AA
63046 ATTTAAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AATTAATAACTTAAAATAATTT
Found at i:63047 original size:16 final size:16
Alignment explanation
Indices: 63022--63052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63012 TAAATTGATT
63022 TAATTAAAATTTAAAA
1 TAATTAAAATTTAAAA
*
63038 TAATTTAAATTTAAA
1 TAATTAAAATTTAAA
63053 CTTGAACAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAAAATTTAAAA
Found at i:63133 original size:16 final size:16
Alignment explanation
Indices: 63114--63156 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
63104 TTAAAAAATT
**
63114 AATAATTTAAATTTGA
1 AATAATTTAAATTCCA
*
63130 AATAATTTACA-TCCA
1 AATAATTTAAATTCCA
63145 AATAATTTAAAT
1 AATAATTTAAAT
63157 AATCAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (16 bp):
AATAATTTAAATTCCA
Found at i:63379 original size:24 final size:25
Alignment explanation
Indices: 63352--63423 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
63342 AAAATAATAA
63352 AATATTTAAAAATATTTTTAT-ATT
1 AATATTTAAAAATATTTTTATAATT
*
63376 AATATTT--ATATA-TTTTATAATT
1 AATATTTAAAAATATTTTTATAATT
*
63398 AA-ATTTAAAAAATATTTTTTTAATT
1 AATATTT-AAAAATATTTTTATAATT
63423 A
1 A
63424 TTAAATTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 10 0.25
22 9 0.22
24 11 0.28
25 10 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATATTTAAAAATATTTTTATAATT
Found at i:63391 original size:22 final size:21
Alignment explanation
Indices: 63363--63404 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
63353 ATATTTAAAA
63363 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
63383 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
63404 A
1 A
63405 AAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Done.