Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 28 of 344
Found at i:9698668 original size:24 final size:24
Alignment explanation
Indices: 9698641--9698697 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
9698631 TTGTTTGCAT
*
9698641 ATATGTCATGCATCATTTCCATAC
1 ATATGTCACGCATCATTTCCATAC
* *
9698665 ATATTTCACGCTTCATTTCCATAC
1 ATATGTCACGCATCATTTCCATAC
*
9698689 ATATTTCAC
1 ATATGTCAC
9698698 AGAGATAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.40
Consensus pattern (24 bp):
ATATGTCACGCATCATTTCCATAC
Found at i:9701357 original size:28 final size:28
Alignment explanation
Indices: 9701317--9701395 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
9701307 TGGGAAGTAG
*
9701317 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAATATAA
*
9701345 TTGGGCCTGATGGGCCATATGAATGTAA
1 TTGGGCCTGATGGGCCATATGAATATAA
*
9701373 TTGGGCCTGATGGGCCATGTGAA
1 TTGGGCCTGATGGGCCATATGAA
9701396 CGAGATTGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATATAA
Found at i:9701403 original size:28 final size:27
Alignment explanation
Indices: 9701317--9701405 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
9701307 TGGGAAGTAG
*
9701317 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAAGA-GA
9701345 TTGGGCCTGATGGGCCATATGAATGTA-A
1 TTGGGCCTGATGGGCCATATGAA-G-AGA
*
9701373 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAA-GAGA
9701401 TTGGG
1 TTGGG
9701406 ACTAAAGGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
27 1 0.02
28 53 0.96
30 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (27 bp):
TTGGGCCTGATGGGCCATATGAAGAGA
Found at i:9701763 original size:27 final size:27
Alignment explanation
Indices: 9701734--9702052 Score: 302
Period size: 27 Copynumber: 11.8 Consensus size: 27
9701724 GAAATAACTG
* * *
9701734 AAATACCCCCAATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCA
*
9701761 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTATCA
* *
9701788 AAATACCTTCGATTTGTAAAATTA-CTG
1 AAATACCCTCGATTTGTAAAATTATC-A
* *
9701815 AAATACCCTCG-TTTGTGAAATTATTA
1 AAATACCCTCGATTTGTAAAATTATCA
* * * *
9701841 AAATACCTTTGATTTGCAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCA
* * *
9701868 AAACACCCTCGATTTGTGAAATTACCA
1 AAATACCCTCGATTTGTAAAATTATCA
* *
9701895 AAACACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCA
* * * * *
9701922 ACACACCATCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTATCA
** * *
9701949 AAATACCCTTAATTTATAAAATTACTAA
1 AAATACCCTCGATTTGTAAAATTA-TCA
* *
9701977 AAATAGCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTATCA
* * *
9702004 AAACACCCCCGATTTTTAAAATTATCA
1 AAATACCCTCGATTTGTAAAATTATCA
*
9702031 AAATACCCTTG-TATTGTAAAAT
1 AAATACCCTCGAT-TTGTAAAAT
9702053 GACCGGCATA
Statistics
Matches: 234, Mismatches: 53, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
26 22 0.09
27 192 0.82
28 20 0.09
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTATCA
Found at i:9701818 original size:54 final size:54
Alignment explanation
Indices: 9701745--9702052 Score: 336
Period size: 54 Copynumber: 5.7 Consensus size: 54
9701735 AATACCCCCA
9701745 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
1 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
* ** *
9701799 ATTTGTAAAATTA-CTGAAATACCCTCG-TTTGTGAAATTATTAAAATACCTTTG
1 ATTTGTAAAATTATC-GAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
* * * * *
9701852 ATTTGCAAAATTATCGAAACACCCTCGATTTGTGAAATTACCAAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
* * * * *
9701906 ATTTGTAAAATTATCGACACACCATCGATTTGTAAAATTACCGAAATACCCTT-A
1 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATA-CCTTCG
* ** * * **
9701960 ATTTATAAAATTACTAAAAATAGCCTCGATTTGTAAAATTACCAAAACACCCCCG
1 ATTTGTAAAATTA-TCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
* * *
9702015 ATTTTTAAAATTATCAAAATACCCTTG-TATTGTAAAAT
1 ATTTGTAAAATTATCGAAATACCCTCGAT-TTGTAAAAT
9702053 GACCGGCATA
Statistics
Matches: 212, Mismatches: 35, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
53 47 0.22
54 123 0.58
55 42 0.20
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (54 bp):
ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
Found at i:9701910 original size:107 final size:108
Alignment explanation
Indices: 9701734--9702029 Score: 362
Period size: 107 Copynumber: 2.7 Consensus size: 108
9701724 GAAATAACTG
** * *
9701734 AAATACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCG
1 AAATACCCTTAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTCG
* * * **
9701799 ATTTGTAAAATTA-CTGAAATACCCTCG-TTTGTGAAATTATTA
66 ATTTGTAAAATTATC-GAAACACCATCGATTTGTAAAATTACCA
* * * * *
9701841 AAATACCTTTGATTTGCAAAATTATCGAAACACCCTCGATTTGTGAAATTACCAAAACACCCTCG
1 AAATACCCTTAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTCG
* *
9701906 ATTTGTAAAATTATCGACACACCATCGATTTGTAAAATTACCG
66 ATTTGTAAAATTATCGAAACACCATCGATTTGTAAAATTACCA
* ** * *
9701949 AAATACCCTTAATTTATAAAATTACTAAAAATAGCCTCGATTTGTAAAATTACCAAAACACCCCC
1 AAATACCCTTAATTTGTAAAATTA-TCGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTC
*
9702014 GATTTTTAAAATTATC
65 GATTTGTAAAATTATC
9702030 AAAATACCCT
Statistics
Matches: 159, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
107 78 0.49
108 32 0.20
109 49 0.31
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (108 bp):
AAATACCCTTAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTCG
ATTTGTAAAATTATCGAAACACCATCGATTTGTAAAATTACCA
Found at i:9702078 original size:109 final size:109
Alignment explanation
Indices: 9701761--9702084 Score: 266
Period size: 109 Copynumber: 3.0 Consensus size: 109
9701751 AAAATTATCG
* * ** *
9701761 AAATACCCTCGATTTGTAAAATTACCAAAATACCTTCGATTTGTAAAATTACTGAAATAC-CC-T
1 AAATAGCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTA-TCAAA-ACACCAT
* * *** * * * * **
9701824 CG-TTTGTGAAATTATTAAAATACCTTTGATTTG-CAAAATTA-TCG
64 CGATTTGTAAAATGACCGAAATACCCTT-AATGGATAAAATTACTAA
* * * * * *
9701868 AAACACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTATCGACACACCATCG
1 AAATAGCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTATCAAAACACCATCG
* **
9701933 ATTTGTAAAATTACCGAAATACCCTTAATTTATAAAATTACTAA
66 ATTTGTAAAATGACCGAAATACCCTTAATGGATAAAATTACTAA
* * * *
9701977 AAATAGCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTTTAAAATTATCAAAATACCCTTG
1 AAATAGCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTATCAAAACACCATCG
** *
9702042 -TATTGTAAAATGACCGGCATACCCTT-ATAGGGTAAAATTACTA
66 AT-TTGTAAAATGACCGAAATACCCTTAAT-GGATAAAATTACTA
9702085 TTTTGCCCTT
Statistics
Matches: 177, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
105 2 0.01
106 4 0.02
107 53 0.30
108 30 0.17
109 88 0.50
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (109 bp):
AAATAGCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTATCAAAACACCATCG
ATTTGTAAAATGACCGAAATACCCTTAATGGATAAAATTACTAA
Found at i:9707225 original size:28 final size:28
Alignment explanation
Indices: 9707185--9707304 Score: 186
Period size: 28 Copynumber: 4.3 Consensus size: 28
9707175 TGGGAAGTAG
*
9707185 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
9707213 TTGGGTCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
9707241 TTGGGCCTGATGGGCCATATGAATGTAA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
9707269 TTGGGCCTGATGGGCCATGTGAAAGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
9707297 TTGGGCCT
1 TTGGGCCT
9707305 AAAGGGGCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:9707651 original size:27 final size:27
Alignment explanation
Indices: 9707621--9707744 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
9707611 TAATAAAGAG
*
9707621 AAATTACTGAAATACCCTCGATTTCTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
9707648 AAATTACCGGAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
9707675 AAATTACTGAAATAGCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * * *
9707702 AAATTACCAAAACACCCCCGAATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
9707729 AAATTA-TCGAAATACC
1 AAATTACT-GAAATACC
9707745 TTTGTAGTGT
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:9707728 original size:54 final size:53
Alignment explanation
Indices: 9707621--9707746 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 53
9707611 TAATAAAGAG
* ** * *
9707621 AAATTACTGAAATACCCTCGATTTCTAAAATTACCGGAATACCCTCAATTTGTA
1 AAATTACTGAAATA-CCTTGATTTCTAAAATTACCAAAACACCCCCAATTTGTA
*
9707675 AAATTACTGAAATAGCCTTGATTTGTAAAATTACCAAAACACCCCCGAA-TTGTA
1 AAATTACTGAAATA-CCTTGATTTCTAAAATTACCAAAACACCCCC-AATTTGTA
9707729 AAATTA-TCGAAATACCTT
1 AAATTACT-GAAATACCTT
9707747 TGTAGTGTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 5 0.08
54 56 0.89
55 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
AAATTACTGAAATACCTTGATTTCTAAAATTACCAAAACACCCCCAATTTGTA
Found at i:9708367 original size:27 final size:27
Alignment explanation
Indices: 9708300--9708367 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
9708290 TGAGGCTAAG
* * * *
9708300 ATGGGCT-AGGCCCAATTGATTTTGTT
1 ATGGGCTGTGGCCCAAATGATATTGTA
*
9708326 ATGGGCTGTGACCCAAATGATATTGTA
1 ATGGGCTGTGGCCCAAATGATATTGTA
* *
9708353 ATTGGCTTTGGCCCA
1 ATGGGCTGTGGCCCA
9708368 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (27 bp):
ATGGGCTGTGGCCCAAATGATATTGTA
Found at i:9710640 original size:28 final size:28
Alignment explanation
Indices: 9710600--9710747 Score: 215
Period size: 28 Copynumber: 5.3 Consensus size: 28
9710590 TTAGAAGTAG
*
9710600 TTGGGCCTGATGGGCCATATAAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
9710628 TTGGGCCTGATGGGCCATACGAATGTAA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
9710656 TTGGGCCTGATGGGCCATATAAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
9710684 TTGGGCCTGATGGGCCATACGAATGTAA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
9710712 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
9710740 TTGGGCCT
1 TTGGGCCT
9710748 AAAGGGGCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 106 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:9710663 original size:56 final size:56
Alignment explanation
Indices: 9710600--9710747 Score: 260
Period size: 56 Copynumber: 2.6 Consensus size: 56
9710590 TTAGAAGTAG
9710600 TTGGGCCTGATGGGCCATATAAATGTGATTGGGCCTGATGGGCCATACGAATGTAA
1 TTGGGCCTGATGGGCCATATAAATGTGATTGGGCCTGATGGGCCATACGAATGTAA
9710656 TTGGGCCTGATGGGCCATATAAATGTGATTGGGCCTGATGGGCCATACGAATGTAA
1 TTGGGCCTGATGGGCCATATAAATGTGATTGGGCCTGATGGGCCATACGAATGTAA
* * * *
9710712 TTGGGCCTGATGGGCCATGTGAACGAGATTGGGCCT
1 TTGGGCCTGATGGGCCATATAAATGTGATTGGGCCT
9710748 AAAGGGGCCA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 88 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (56 bp):
TTGGGCCTGATGGGCCATATAAATGTGATTGGGCCTGATGGGCCATACGAATGTAA
Found at i:9711094 original size:27 final size:27
Alignment explanation
Indices: 9711064--9711377 Score: 224
Period size: 27 Copynumber: 11.7 Consensus size: 27
9711054 TAATAAAGAT
* * *
9711064 AAATTACTAAAATACCCCCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
*
9711091 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAACACCCTCGATTTGTA
* * *
9711118 AAATTACCGAAACACCCTC-AATTGTG
1 AAATTACTGAAACACCCTCGATTTGTA
* * * * *
9711144 AAATTTCTAAAATACCCTCAATTTTTA
1 AAATTACTGAAACACCCTCGATTTGTA
* *
9711171 AAATTATCT-AAACACCCTCAATTTGTG
1 AAATTA-CTGAAACACCCTCGATTTGTA
* ** *
9711198 AAATTA-TCGAAACACTCTTAATTTGAA
1 AAATTACT-GAAACACCCTCGATTTGTA
* *
9711225 AAATTACCGAAACACCTTCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
* *
9711252 AAATTACCGAAACACCATCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
* * * * *
9711279 AAATTATTAAAATACCCT-TATTTTATA
1 AAATTACTGAAACACCCTCGA-TTTGTA
** * **
9711306 AAATTACCAAAATAGACTCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
** *
9711333 AAATTACCAAAACACCCCCGATTTGTA
1 AAATTACTGAAACACCCTCGATTTGTA
* *
9711360 AAATTATTGAAATACCCT
1 AAATTACTGAAACACCCT
9711378 TATAGTATAA
Statistics
Matches: 228, Mismatches: 50, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
25 1 0.00
26 22 0.10
27 202 0.89
28 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAACACCCTCGATTTGTA
Found at i:9711228 original size:54 final size:54
Alignment explanation
Indices: 9711084--9711377 Score: 250
Period size: 54 Copynumber: 5.5 Consensus size: 54
9711074 AATACCCCCG
* *
9711084 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCA
1 ATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCCTCA
* * * * * *
9711138 A-TTGTGAAATT-TCTAAAATACCCTCAATTTTTAAAATTATCTAAACACCCTCA
1 ATTTGTAAAATTATC-GAAACACCCTCAATTTGTAAAATTACCGAAACACCCTCA
* * * * * *
9711191 ATTTGTGAAATTATCGAAACACTCTTAATTTGAAAAATTACCGAAACACCTTCG
1 ATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCCTCA
* * * *** * *
9711245 ATTTGTAAAATTACCGAAACACCATCGATTTGTAAAATTATTAAAATACCCTTA
1 ATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCCTCA
* * * * * ** * * * *
9711299 TTTTATAAAATTACCAAAATAGACTCGATTTGTAAAATTACCAAAACACCCCCG
1 ATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCCTCA
* *
9711353 ATTTGTAAAATTATTGAAATACCCT
1 ATTTGTAAAATTATCGAAACACCCT
9711378 TATAGTATAA
Statistics
Matches: 187, Mismatches: 50, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
52 2 0.01
53 44 0.24
54 139 0.74
55 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
ATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAAACACCCTCA
Found at i:9711380 original size:81 final size:81
Alignment explanation
Indices: 9711064--9711404 Score: 337
Period size: 81 Copynumber: 4.2 Consensus size: 81
9711054 TAATAAAGAT
* * * * *
9711064 AAATTACTAAAATACCCCCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
* * *
9711129 ACACCCTCA-ATTGTG
66 ACACCCTTATATTATA
* * * * * * * *
9711144 AAATTTCTAAAATACCCTCAATTTTTAAAATTATCTAAACACCCTCAATTTGTGAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
*
9711209 ACACTCTTA-ATT-TGAA
66 ACACCCTTATATTAT--A
* * * * **
9711225 AAATTACCGAAACACCTTCGATTTGTAAAATTACCGAAACACCATCGATTTGTAAAATTATTAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
* *
9711290 ATACCCTTATTTTATA
66 ACACCCTTATATTATA
** * * *
9711306 AAATTACCAAAATAGACTCGATTTGTAAAATTACCAAAACACCCCCGATTTGTAAAATTATTGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
* *
9711371 ATACCCTTATAGTATA
66 ACACCCTTATATTATA
* *
9711387 AAATGACCAACATACCCT
1 AAATTACCAAAATACCCT
9711405 TATAGGGTAA
Statistics
Matches: 213, Mismatches: 44, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
79 1 0.00
80 66 0.31
81 143 0.67
82 2 0.01
83 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
ACACCCTTATATTATA
Found at i:9711718 original size:32 final size:32
Alignment explanation
Indices: 9711682--9711747 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
9711672 TTGACGACCG
9711682 TGGATCCATCGATGGCTATTAAGCCTAATATT
1 TGGATCCATCGATGGCTATTAAGCCTAATATT
*
9711714 TGGATCCATCGATGGCTATTGAGCCTAATATT
1 TGGATCCATCGATGGCTATTAAGCCTAATATT
9711746 TG
1 TG
9711748 ATTAGCAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (32 bp):
TGGATCCATCGATGGCTATTAAGCCTAATATT
Found at i:9711926 original size:11 final size:11
Alignment explanation
Indices: 9711910--9711935 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9711900 ATTGCATGTA
9711910 TGATATTATTG
1 TGATATTATTG
9711921 TGATATTATTG
1 TGATATTATTG
9711932 TGAT
1 TGAT
9711936 GTGGGCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:9716225 original size:13 final size:13
Alignment explanation
Indices: 9716207--9716231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9716197 AATACCCAAG
9716207 GAAAAATTCACCA
1 GAAAAATTCACCA
9716220 GAAAAATTCACC
1 GAAAAATTCACC
9716232 TAGACTTCAC
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
GAAAAATTCACCA
Found at i:9716540 original size:22 final size:22
Alignment explanation
Indices: 9716515--9716557 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9716505 ACAGGGACTT
9716515 TTGCTCCTCTGAATAAGTGCAC
1 TTGCTCCTCTGAATAAGTGCAC
9716537 TTGCTCCTCTGAATAAGTGCA
1 TTGCTCCTCTGAATAAGTGCA
9716558 TTAACTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGCTCCTCTGAATAAGTGCAC
Found at i:9727152 original size:23 final size:23
Alignment explanation
Indices: 9727103--9727180 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
9727093 GCTTTATCAT
**
9727103 ATAACTAGAGGCCTAGCCTCTTTTA
1 ATAACTAG-GGCAAAGCC-CTTTTA
9727128 ATAACTAGGGCAAAGCCCTTTTA
1 ATAACTAGGGCAAAGCCCTTTTA
*
9727151 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTAGGGCA-AAGCCCTTTTA
9727175 ATAACT
1 ATAACT
9727181 GGGGACCCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
23 17 0.35
24 24 0.49
25 8 0.16
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (23 bp):
ATAACTAGGGCAAAGCCCTTTTA
Found at i:9727167 original size:24 final size:23
Alignment explanation
Indices: 9727117--9727184 Score: 109
Period size: 24 Copynumber: 2.9 Consensus size: 23
9727107 CTAGAGGCCT
*
9727117 AGCCTCTTTTAATAACTAGGGCAA
1 AGCC-CTTTTAATAACTGGGGCAA
9727141 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCA-A
9727165 AGCCCTTTTAATAACTGGGG
1 AGCCCTTTTAATAACTGGGG
9727185 ACCCAACCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
23 17 0.40
24 25 0.60
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGGCAA
Found at i:9727236 original size:20 final size:20
Alignment explanation
Indices: 9727211--9727277 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
9727201 TTATGAATAC
9727211 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
9727231 ATCATGTGCATACCATACAT
1 ATCATGTGCATATCATACAT
*
9727251 ATCATGTACATATCATATCA-
1 ATCATGTGCATATCATA-CAT
9727271 ATCATGT
1 ATCATGT
9727278 ATATCAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9727242 original size:11 final size:11
Alignment explanation
Indices: 9727211--9727278 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 11
9727201 TTATGAATAC
*
9727211 ATCATGTGCAT
1 ATCATGTACAT
9727222 ATCA--TACAT
1 ATCATGTACAT
*
9727231 ATCATGTGCAT
1 ATCATGTACAT
*
9727242 ACCA--TACAT
1 ATCATGTACAT
9727251 ATCATGTACAT
1 ATCATGTACAT
*
9727262 ATCATAT-CA-
1 ATCATGTACAT
9727271 ATCATGTA
1 ATCATGTA
9727279 TATCAAAATC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
9 21 0.47
10 2 0.04
11 22 0.49
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:9727283 original size:9 final size:10
Alignment explanation
Indices: 9727211--9727283 Score: 55
Period size: 9 Copynumber: 7.4 Consensus size: 10
9727201 TTATGAATAC
9727211 ATCATGTGCAT
1 ATCATGT-CAT
*
9727222 ATCAT-ACAT
1 ATCATGTCAT
9727231 ATCATGTGCAT
1 ATCATGT-CAT
* *
9727242 ACCAT-ACAT
1 ATCATGTCAT
9727251 ATCATGTACAT
1 ATCATGT-CAT
*
9727262 ATCATATCA-
1 ATCATGTCAT
9727271 ATCATGT-AT
1 ATCATGTCAT
9727280 ATCA
1 ATCA
9727284 AAATCCCATG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.51
10 2 0.04
11 21 0.43
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:9727356 original size:25 final size:24
Alignment explanation
Indices: 9727314--9727361 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
9727304 ATAATTAAAC
* * *
9727314 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTC-TTTTTA
9727339 CCTAGGGGCAAAACGGTCTTTTT
1 CCTAGGGGCAAAACGGTCTTTTT
9727362 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCTTTTTA
Found at i:9729100 original size:24 final size:25
Alignment explanation
Indices: 9729026--9729111 Score: 122
Period size: 26 Copynumber: 3.4 Consensus size: 25
9729016 GGATGTTACA
9729026 AAAGCCCTTTT-TGATAAACTGGGGC
1 AAAGCCCTTTTCTG-TAAACTGGGGC
*
9729051 AAAAGCCCTTTTCGGTAAACTGGGGC
1 -AAAGCCCTTTTCTGTAAACTGGGGC
9729077 AAAGCCCTTTTCTGT-AACTGGGGC
1 AAAGCCCTTTTCTGTAAACTGGGGC
*
9729101 ATAGCCCTTTT
1 AAAGCCCTTTT
9729112 GCACTTCCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
24 19 0.34
25 14 0.25
26 22 0.39
27 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAGCCCTTTTCTGTAAACTGGGGC
Found at i:9729189 original size:11 final size:11
Alignment explanation
Indices: 9729158--9729206 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
9729148 AAATGAATAC
9729158 ATCATGTACAT
1 ATCATGTACAT
9729169 ATCA--TACAT
1 ATCATGTACAT
*
9729178 ATCATGTGCAT
1 ATCATGTACAT
*
9729189 ATCATGT-CAA
1 ATCATGTACAT
9729199 ATCATGTA
1 ATCATGTA
9729207 TATCGAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 9 0.27
10 9 0.27
11 15 0.45
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:9736843 original size:31 final size:31
Alignment explanation
Indices: 9736803--9736888 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
9736793 TCAATCTCAG
*
9736803 CATAT-ACTGGGGCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
9736833 CATATCACTGGGCCGAAGCCTTTTCGTTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
9736864 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
9736889 TGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:9737141 original size:25 final size:24
Alignment explanation
Indices: 9737102--9737172 Score: 106
Period size: 24 Copynumber: 2.9 Consensus size: 24
9737092 CCTCTTTTAA
9737102 TAACTGGGGCAAAAGCCCTTTTCGG
1 TAACTGGGGC-AAAGCCCTTTTCGG
*
9737127 TAAACTGGGGCAAAGCCCTTTTCTG
1 T-AACTGGGGCAAAGCCCTTTTCGG
*
9737152 TAACTGGGGCATAGCCCTTTT
1 TAACTGGGGCAAAGCCCTTTT
9737173 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 19 0.44
25 15 0.35
26 9 0.21
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (24 bp):
TAACTGGGGCAAAGCCCTTTTCGG
Found at i:9737252 original size:11 final size:11
Alignment explanation
Indices: 9737221--9737266 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
9737211 ATGAATACAG
9737221 CATGTGCATAT
1 CATGTGCATAT
*
9737232 CA--TACATAT
1 CATGTGCATAT
9737241 CATGTGCATAT
1 CATGTGCATAT
*
9737252 CATGT-CAAAT
1 CATGTGCATAT
9737262 CATGT
1 CATGT
9737267 ATATCGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:9737347 original size:25 final size:25
Alignment explanation
Indices: 9737303--9737351 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
9737293 ATAATTGAAC
9737303 CCTAGGGGTAAAAATGGTCATTTTTA
1 CCTAGGGGTAAAAA-GGTCATTTTTA
9737329 CCTAGGGGTAAAACA-GTCATTTT
1 CCTAGGGGTAAAA-AGGTCATTTT
9737352 CATATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGTAAAAAGGTCATTTTTA
Found at i:9740893 original size:5 final size:6
Alignment explanation
Indices: 9740862--9740903 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
9740852 TAAAAACATG
* * *
9740862 AAATAA AAATGA AAATGA AAATAA AAAT-A AAATAA AATTAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A
9740904 CATCATCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:9749935 original size:43 final size:43
Alignment explanation
Indices: 9749888--9750032 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
9749878 TCCCATATAT
* * * *
9749888 GGTCTTACATGTTATC-ACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCGA-ATAACGATGCCAATGTCCCAAACAG
* * * *
9749931 GGTCTTACACGAAATCGATTAACGATGCCAATGTCCCAAACAT
1 GGTCTTACATGTAATCGAATAACGATGCCAATGTCCCAAACAG
* * * *
9749974 GGTCTTACATGTAATCTCAATAA-AATGCCAATGTCTCAAACAT
1 GGTCTTACATGTAATC-GAATAACGATGCCAATGTCCCAAACAG
*
9750017 GGTCTTACATATAATC
1 GGTCTTACATGTAATC
9750033 ACATCTCAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 80 0.94
44 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCGAATAACGATGCCAATGTCCCAAACAG
Found at i:9770468 original size:39 final size:40
Alignment explanation
Indices: 9770264--9770484 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
9770254 TTGAATGCTG
* * * * * *
9770264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
9770304 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
9770344 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
9770384 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
9770424 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
9770463 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
9770485 CTTGAACGAG
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 33 0.21
40 116 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:9770506 original size:79 final size:80
Alignment explanation
Indices: 9770339--9770511 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 80
9770329 GTGCGAGATA
* * *
9770339 CTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
9770404 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
9770419 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
9770483 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
*
9770498 CTATATCC-GGTTAA
1 CTAAATCCGGGTTAA
9770512 ATTCCGAAGG
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 5 0.06
79 44 0.57
80 28 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:9772712 original size:22 final size:23
Alignment explanation
Indices: 9772680--9772725 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
9772670 ATCACCCCTC
9772680 CCTTTTCATTTCT-TTATTACTAA
1 CCTTTTCATTT-TATTATTACTAA
*
9772703 CCTTTT-ATTTTATTATTTCTAA
1 CCTTTTCATTTTATTATTACTAA
9772725 C
1 C
9772726 ATAAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (23 bp):
CCTTTTCATTTTATTATTACTAA
Found at i:9774643 original size:15 final size:13
Alignment explanation
Indices: 9774614--9774640 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9774604 GCTCGGTAGG
9774614 GACACGCCCGTGT
1 GACACGCCCGTGT
9774627 GACACGCCCGTGT
1 GACACGCCCGTGT
9774640 G
1 G
9774641 TGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:9785655 original size:13 final size:13
Alignment explanation
Indices: 9785639--9785663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9785629 AAATCTGTGA
9785639 AAAAAATAAAAAT
1 AAAAAATAAAAAT
9785652 AAAAAATAAAAA
1 AAAAAATAAAAA
9785664 GTTGTTTGAA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:9793799 original size:28 final size:27
Alignment explanation
Indices: 9793749--9793801 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
9793739 TTCGAATGTC
*
9793749 CACACGGCCTACTACACGGGCGTGTAT
1 CACACGGCCTACCACACGGGCGTGTAT
*
9793776 CACACGGCCTGGCCACACGGGCGTGT
1 CACACGGCCT-ACCACACGGGCGTGT
9793802 GTCCCCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (27 bp):
CACACGGCCTACCACACGGGCGTGTAT
Found at i:9800316 original size:51 final size:51
Alignment explanation
Indices: 9800256--9800359 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
9800246 TATGAGTTCG
9800256 ATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATT
1 ATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATT
9800307 ATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATT
1 ATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATT
9800358 AT
1 AT
9800360 GTTATCCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (51 bp):
ATATGGTTAAACTTTATGTTAGCTCATTGATTGATGTTTTAAATGTTAATT
Found at i:9802138 original size:46 final size:46
Alignment explanation
Indices: 9802075--9802241 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 46
9802065 TATGAGAGCT
9802075 AGTGTAAGACCATGTCTAGGACATGACATCAGTCTCAATATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGACATCAGTCTCAATATGTGTC
* *** * *
9802121 AGTGTAAGACCATGTCTAGGACATGACA-CCGTCACTGGTTTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGACATCAGT--CT-CAATAT--GTGTC
* * * * * *
9802171 AGTGTAAGACCATGCCTGGGACATGGCATGAGCCTCGATATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGACATCAGTCTCAATATGTGTC
*
9802217 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTAGGACATG
9802242 GCATTGGCAC
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
45 3 0.03
46 55 0.57
47 2 0.02
48 6 0.06
49 2 0.02
50 28 0.29
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTAGGACATGACATCAGTCTCAATATGTGTC
Found at i:9802164 original size:96 final size:96
Alignment explanation
Indices: 9802025--9802343 Score: 415
Period size: 96 Copynumber: 3.3 Consensus size: 96
9802015 TATGAGAGCA
*
9802025 AGTGTAAGACCATGCCTGGGACATGGCATTGGCACCAGTTTATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACCAGTTTATGAGAGCTAGTGTAAGACCATGT
* *
9802090 CTAGGACATGACATCAGTCTCAATATGTGTC
66 CTGGGACATGACATCAGCCTCAATATGTGTC
* * ** * ** * *
9802121 AGTGTAAGACCATGTCTAGGACATGACACCGTCACTGGTTTATGAGAGCCAGTGTAAGACCATGC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACCAGTTTATGAGAGCTAGTGTAAGACCATGT
* * *
9802186 CTGGGACATGGCATGAGCCTCGATATGTGTC
66 CTGGGACATGACATCAGCCTCAATATGTGTC
*
9802217 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACCAATTTATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACCAGTTTATGAGAGCTAGTGTAAGACCATGT
* * *
9802282 CTGGGATATGGA-ATCAGCCTCAATATGAGAGCC
66 CTGGGACAT-GACATCAGCCTCAATAT--GTGTC
* *
9802315 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
9802344 CGACATTGTT
Statistics
Matches: 187, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
96 156 0.83
97 1 0.01
98 30 0.16
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGGCACCAGTTTATGAGAGCTAGTGTAAGACCATGT
CTGGGACATGACATCAGCCTCAATATGTGTC
Found at i:9802279 original size:146 final size:144
Alignment explanation
Indices: 9802014--9802445 Score: 391
Period size: 146 Copynumber: 3.0 Consensus size: 144
9802004 GACCATGGTG
* * * *
9802014 ATATGAGAGCAAGTGTAAGACCATGCCTGGGACATGGCATTG-GCAC-CAGTTTATGAGAGCTAG
1 ATATGAGAGCCAGTGTAAGACCATGCCTGGGACATGGCA-TGAGC-CTC-GTATATGTG-TC-AG
* * * * * *
9802077 TGTAAGACCATGTCTAGGACATGACATCAGTC-TCAA-TATGTG-TC-AGTGTAAGACCATGTCT
61 TGTAAGACCATGTCTGGGACATGGCAT-AGGCACCAATTATGAGAGCTAGTGTAAGACCATGTCT
* **
9802138 AGGACAT-GACA-CCGTCACTGGT
125 AGGACATGGA-ATCAG-C-CT-CA
*
9802160 TTATGAGAGCCAGTGTAAGACCATGCCTGGGACATGGCATGAGCCTCG-ATATGTGTCAGTGTAA
1 ATATGAGAGCCAGTGTAAGACCATGCCTGGGACATGGCATGAGCCTCGTATATGTGTCAGTGTAA
* * *
9802224 GACCATGTCTGGGACATGGCATTGGCACCAATTTATGAGAGCTAGTGTAAGACCATGTCTGGGAT
66 GACCATGTCTGGGACATGGCATAGGCACCAA-TTATGAGAGCTAGTGTAAGACCATGTCTAGGAC
9802289 ATGGAATCAGCCTCA
130 ATGGAATCAGCCTCA
** * * * *
9802304 ATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGA-CATTGTTATATGTGTCAGCGT
1 ATATGAGAGCCAGTGTAAGACCATGCCTGGGACATGGCAT-GAGCCTCG-TATATGTGTCAGTGT
* * * * *
9802368 AATACCATGTTTGGGACATGGCATCGGCACCGATGTATGAGAGCTAGTGTAAGACCATGT-TCGG
64 AAGACCATGTCTGGGACATGGCATAGGCACCAAT-TATGAGAGCTAGTGTAAGACCATGTCT-AG
*
9802432 GACATGGCATCAGC
127 GACATGGAATCAGC
9802446 ATCTTACCCT
Statistics
Matches: 242, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
141 2 0.01
142 30 0.12
143 1 0.00
144 49 0.20
145 11 0.05
146 145 0.60
147 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
ATATGAGAGCCAGTGTAAGACCATGCCTGGGACATGGCATGAGCCTCGTATATGTGTCAGTGTAA
GACCATGTCTGGGACATGGCATAGGCACCAATTATGAGAGCTAGTGTAAGACCATGTCTAGGACA
TGGAATCAGCCTCA
Found at i:9802385 original size:192 final size:191
Alignment explanation
Indices: 9802025--9802391 Score: 490
Period size: 192 Copynumber: 1.9 Consensus size: 191
9802015 TATGAGAGCA
*
9802025 AGTGTAAGACCATGCCTGGGACATGGCATTGGCACCAGTTTATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGCCTGGGACATGGCATTGGCACCAATTTATGAGAGCTAGTGTAAGACCATGT
* * * *
9802090 CTAGGACATGACATCAGTCTCAATATGTGTCAGTGTAAGACCATGTCTAGGACATGACACCGTCA
66 CTAGGACATGACATCAGCCTCAATATGAGCCAGTGTAAGACCATGTCTAGGACATGACACCGACA
*
9802155 CTGGTTTATGAGAGCCAGTGTAAGACCATGCCTGGGACATGGCATGAGCCTCGATATGTGTC
131 CTGGTTTAT-AGAGCCAGCGTAAGACCATGCCTGGGACATGGCATGAGCCTCGATATGTGTC
*
9802217 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACCAATTTATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGCCTGGGACATGGCATTGGCACCAATTTATGAGAGCTAGTGTAAGACCATGT
* * * * *
9802282 CTGGGATATGGA-ATCAGCCTCAATATGAGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATC
66 CTAGGACAT-GACATCAGCCTCAATAT--GAGCCAGTGTAAGACCATGTCTAGG-ACATGACACC
* * * * **
9802345 GACA-TTG-TTATATGTGTCAGCGTAATACCATGTTTGGGACATGGCAT
127 GACACTGGTTTATA-GAGCCAGCGTAAGACCATGCCTGGGACATGGCAT
9802392 CGGCACCGAT
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
191 1 0.01
192 115 0.76
193 7 0.05
194 29 0.19
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (191 bp):
AGTGTAAGACCATGCCTGGGACATGGCATTGGCACCAATTTATGAGAGCTAGTGTAAGACCATGT
CTAGGACATGACATCAGCCTCAATATGAGCCAGTGTAAGACCATGTCTAGGACATGACACCGACA
CTGGTTTATAGAGCCAGCGTAAGACCATGCCTGGGACATGGCATGAGCCTCGATATGTGTC
Found at i:9806489 original size:6 final size:6
Alignment explanation
Indices: 9806478--9806503 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9806468 ACTCCGTACC
9806478 TTACTG TTACTG TTACTG TTACTG TT
1 TTACTG TTACTG TTACTG TTACTG TT
9806504 TCAAATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (6 bp):
TTACTG
Found at i:9806560 original size:12 final size:12
Alignment explanation
Indices: 9806543--9806567 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9806533 TATCGCTACT
9806543 GTTACTGTTATC
1 GTTACTGTTATC
9806555 GTTACTGTTATC
1 GTTACTGTTATC
9806567 G
1 G
9806568 ATACGATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (12 bp):
GTTACTGTTATC
Found at i:9806560 original size:18 final size:19
Alignment explanation
Indices: 9806528--9806564 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9806518 ATGAGGTACT
9806528 CTGTGTATCGCTACTGTTA
1 CTGTGTATCGCTACTGTTA
*
9806547 CTGT-TATCGTTACTGTTA
1 CTGTGTATCGCTACTGTTA
9806565 TCGATACGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (19 bp):
CTGTGTATCGCTACTGTTA
Found at i:9806728 original size:18 final size:18
Alignment explanation
Indices: 9806707--9806745 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9806697 ACTGCAAGAC
*
9806707 TGACTGTTACTGAACAAT
1 TGACCGTTACTGAACAAT
* *
9806725 TGACCGTTATTGAATAAT
1 TGACCGTTACTGAACAAT
9806743 TGA
1 TGA
9806746 TGGATACTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (18 bp):
TGACCGTTACTGAACAAT
Found at i:9815227 original size:27 final size:27
Alignment explanation
Indices: 9815210--9815355 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
9815200 ATTACCAAAG
*
9815210 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * * *
9815237 TGCCCTTGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
9815264 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
9815291 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
9815318 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
9815345 TACCTTCGATT
1 TACCCTCGATT
9815356 GTGAAATTAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:9815257 original size:54 final size:54
Alignment explanation
Indices: 9815183--9815355 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
9815173 ATTATTGAAA
* * * *** *
9815183 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
* * * * *
9815237 TGCCCTTGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
9815291 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
*
9815345 TACCTTCGATT
1 TACCCTCGATT
9815356 GTGAAATTAC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
Found at i:9815417 original size:27 final size:27
Alignment explanation
Indices: 9815387--9815537 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
9815377 TATAGGATAG
9815387 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
9815414 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
9815441 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
9815468 AATTATCGAAATA-CCCTCAATTCGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
9815495 AATTACCAAAATACCCCTAATTTAAAA
1 AATTACCAAAATACCCCTAGTTTGTAA
9815522 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
9815538 TTGACTTTCT
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.05
27 99 0.92
28 4 0.04
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:9815426 original size:54 final size:53
Alignment explanation
Indices: 9815354--9815536 Score: 179
Period size: 54 Copynumber: 3.4 Consensus size: 53
9815344 TTACCTTCGA
* ** ** *
9815354 TTGTGAAATTACTGAAATACCTCTATAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCTCTATTCG-TAAAATTACCAAAATACCCCTAGT
* * *
9815408 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGT
1 TTGTAAAATTACCAAAATACCTCTA-TTCGTAAAATTACCAAAATACCCCTAGT
* * * * *
9815462 TTGTGAAATTATCGAAATACCCTCAATTCGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATA-CCTCTATTCGTAAAATTACCAAAATACCCCTAGT
**
9815516 TTAAAAAATTA-CAGAAATACC
1 TTGTAAAATTACCA-AAATACC
9815537 CTTGACTTTC
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
53 3 0.03
54 97 0.92
55 6 0.06
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCTCTATTCGTAAAATTACCAAAATACCCCTAGT
Found at i:9815555 original size:29 final size:26
Alignment explanation
Indices: 9815493--9815600 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 26
9815483 CTCAATTCGT
* **
9815493 AAAATTACCA-AAATACCCCTAATTTAA
1 AAAATTA-CAGAAATACCCTTGGTTT-A
*
9815520 AAAATTACAGAAATACCCTTGACTTTCTA
1 AAAATTACAGAAATACCCTTG--GTT-TA
* *
9815549 AAAATTATAGAAATACCTTTGGTTTA
1 AAAATTACAGAAATACCCTTGGTTTA
*
9815575 CAAAATTACTGAAATACCCTTGGTTT
1 -AAAATTACAGAAATACCCTTGGTTT
9815601 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.06
27 40 0.60
29 22 0.33
30 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATTACAGAAATACCCTTGGTTTA
Found at i:9815684 original size:27 final size:27
Alignment explanation
Indices: 9815654--9815714 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
9815644 ACCCCTAACA
9815654 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** *
9815681 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
9815708 GGTAAAA
1 GGTAAAA
9815715 TGTCGAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:9816561 original size:25 final size:24
Alignment explanation
Indices: 9816527--9816646 Score: 159
Period size: 25 Copynumber: 4.8 Consensus size: 24
9816517 AGGAAGTGCT
**
9816527 AAAAGGGCTTTGTCCCAGTTTACTG
1 AAAAGGGCTTTG-CCCAGTTTACCA
*
9816552 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTG-CCCAGTTTACCA
9816577 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTG-CCCAGTTTACCA
*
9816602 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCC-AGTTTACCA
9816627 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCC-AGTT
9816647 ATTAAAAGAG
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
24 3 0.03
25 87 0.97
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCAGTTTACCA
Found at i:9816606 original size:50 final size:50
Alignment explanation
Indices: 9816527--9816646 Score: 177
Period size: 50 Copynumber: 2.4 Consensus size: 50
9816517 AGGAAGTGCT
* ** *
9816527 AAAAGGGCTTTGTCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCA
* *
9816577 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCA
*
9816627 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
9816647 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCA
Found at i:9816670 original size:75 final size:75
Alignment explanation
Indices: 9816527--9816671 Score: 172
Period size: 75 Copynumber: 1.9 Consensus size: 75
9816517 AGGAAGTGCT
* **
9816527 AAAAGGGCTTTGTCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCC
1 AAAAGGGCTTTGTCCCAGTTTACTAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCC
9816592 CAGTTTACCA
66 CAGTTTACCA
* **
9816602 AAAAGGGCTTTG-CCCTAGTTTA-TCAAAAAGGGCTTTGCCCTAG-TTA-TTAAAAGAGGCTAGG
1 AAAAGGGCTTTGTCCC-AGTTTACT-AAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGG
9816663 CCTCCAGTT
63 CC-CCAGTT
9816672 ATATGATAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
73 5 0.08
74 14 0.23
75 41 0.68
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (75 bp):
AAAAGGGCTTTGTCCCAGTTTACTAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCC
CAGTTTACCA
Found at i:9816840 original size:42 final size:42
Alignment explanation
Indices: 9816793--9816884 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
9816783 TAGTCTCCCC
*
9816793 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
9816835 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
9816877 AAATGGGC
1 AAATGGGC
9816885 CTATAGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:9816955 original size:31 final size:31
Alignment explanation
Indices: 9816908--9816985 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
9816898 CGTTTACAGT
9816908 AAAGGCTTC-GCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
9816938 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
9816969 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
9816986 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 9 0.19
31 38 0.81
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:9819024 original size:13 final size:13
Alignment explanation
Indices: 9819002--9819034 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9818992 AAGGATTTGT
9819002 TTAT-TAAACTAA
1 TTATCTAAACTAA
9819014 TTATCTAAACTAA
1 TTATCTAAACTAA
*
9819027 TTAACTAA
1 TTATCTAA
9819035 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:9830876 original size:11 final size:11
Alignment explanation
Indices: 9830860--9830884 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9830850 GGTATTGATG
9830860 GTAAAGAAATT
1 GTAAAGAAATT
9830871 GTAAAGAAATT
1 GTAAAGAAATT
9830882 GTA
1 GTA
9830885 TGATTTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
GTAAAGAAATT
Found at i:9837141 original size:13 final size:13
Alignment explanation
Indices: 9837119--9837151 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9837109 AAGGGTTTTT
9837119 TTAT-TAAACTAA
1 TTATCTAAACTAA
9837131 TTATCTAAACTAA
1 TTATCTAAACTAA
*
9837144 TTAACTAA
1 TTATCTAA
9837152 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:9837600 original size:14 final size:14
Alignment explanation
Indices: 9837581--9837607 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9837571 TAACTCAAGC
9837581 ATTAAGAACAAATA
1 ATTAAGAACAAATA
9837595 ATTAAGAACAAAT
1 ATTAAGAACAAAT
9837608 CAAGTATTTA
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:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATTAAGAACAAATA
Found at i:9840087 original size:6 final size:6
Alignment explanation
Indices: 9840056--9840121 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
9840046 GATTTGTCTT
** *
9840056 TAAAAA T-AAAA TAATAAAA TTGAAA TGAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA T-A-AAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
9840105 T-AAAA TAAGAA TAAAAA
1 TAAAAA TAAAAA TAAAAA
9840122 AGATAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 10 0.20
6 34 0.69
8 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:9842019 original size:21 final size:20
Alignment explanation
Indices: 9841995--9842039 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
9841985 TCGTTTCTCC
*
9841995 CACGCCCGTGTGTTATGGTA
1 CACGCCCGTGTATTATGGTA
*
9842015 GCACGCCCGTGTATTATTGTA
1 -CACGCCCGTGTATTATGGTA
9842036 CACG
1 CACG
9842040 GCTGAATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.29
Consensus pattern (20 bp):
CACGCCCGTGTATTATGGTA
Found at i:9845457 original size:13 final size:13
Alignment explanation
Indices: 9845435--9845467 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9845425 AAGTATTTGT
9845435 TTAT-TAAACTAA
1 TTATCTAAACTAA
9845447 TTATCTAAACTAA
1 TTATCTAAACTAA
*
9845460 TTAACTAA
1 TTATCTAA
9845468 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:9874922 original size:49 final size:49
Alignment explanation
Indices: 9874845--9875081 Score: 285
Period size: 49 Copynumber: 4.8 Consensus size: 49
9874835 TAGCCGAAGC
* * *
9874845 TATCTGGTACGCATAGTAGCCCGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
9874894 TATCCGGTACACGTAGTAGCCTGAACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * *
9874944 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACAGGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * *
9874995 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
9875044 TATCTGGTAGACGTAGTAGCCTGCACTTAGTAGTACAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAC
9875082 GCGTGACCTC
Statistics
Matches: 157, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 73 0.46
50 46 0.29
51 38 0.24
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:9875028 original size:101 final size:98
Alignment explanation
Indices: 9874858--9875081 Score: 286
Period size: 101 Copynumber: 2.3 Consensus size: 98
9874848 CTGGTACGCA
* * * *
9874858 TAGTAGCCCGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGAACTTA
1 TAGTAGCCTGCACTTAGTACTACACAGGCGACCAATTATCAGGTACACATAGTAGCCTGAACTTA
*
9874923 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* * * *
9874957 TAGTAGCCTGCACTTAGTACTACACAGGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACAGGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGAACT
* ** * *
9875022 TAGTACTACACATGCGACCAATTATCTGGTAGACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
*
9875057 TAGTAGCCTGCACTTAGTAGTACAC
1 TAGTAGCCTGCACTTAGTACTACAC
9875082 GCGTGACCTC
Statistics
Matches: 108, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 28 0.26
100 39 0.36
101 41 0.38
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACAGGCGACCAATTATCAGGTACACATAGTAGCCTGAACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:9888633 original size:21 final size:21
Alignment explanation
Indices: 9888609--9888662 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
9888599 TTCGCTTCTC
9888609 CCACGCCCGTGTGTTCAAGCT
1 CCACGCCCGTGTGTTCAAGCT
*
9888630 CCACGCCCGTGCGTTCAAGCT
1 CCACGCCCGTGTGTTCAAGCT
9888651 CCACGCCCGTGT
1 CCACGCCCGTGT
9888663 TAAGTTAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.43, G:0.24, T:0.20
Consensus pattern (21 bp):
CCACGCCCGTGTGTTCAAGCT
Found at i:9894792 original size:48 final size:47
Alignment explanation
Indices: 9894713--9895043 Score: 228
Period size: 48 Copynumber: 7.0 Consensus size: 47
9894703 TAGGTGATAT
* * * *
9894713 GTGTGCCAGTGTAAGACTATGTCTGGGACATGGTATCGGCCACATTTC
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CACATTTC
* * *
9894761 GTGTGCTAGTGTAAGACCATGTTTGGAACATGGTATCGGCA-ATGTTAT
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAT-TT-C
* * * * *
9894809 GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG--CATTGATT
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACATT--TC
* * * * *
9894856 ATGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACATTAC
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATC-GGCACATTTC
* * * *
9894904 GAGAGCTAGTGTAAGACCAGGTTTGGGACATGGCAT-TG--CATTGATAC
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACATT--T-C
* * * * **
9894951 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACAT-
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CAC-ATTTC
* * * *
9894999 GTGAGCTAGTGTAAGAGCATGTCTGGGACATGGCATCAGCA-ATTT
1 GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACATTT
9895044 ACCCTCTTGT
Statistics
Matches: 228, Mismatches: 39, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
44 4 0.02
45 2 0.01
46 3 0.01
47 73 0.32
48 139 0.61
50 5 0.02
51 1 0.00
52 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (47 bp):
GTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCACATTTC
Found at i:9894887 original size:95 final size:94
Alignment explanation
Indices: 9894720--9895035 Score: 309
Period size: 95 Copynumber: 3.3 Consensus size: 94
9894710 TATGTGTGCC
* * *
9894720 AGTGTAAGACTATGTCTGGGACATGGTATCGGCCACATT--T-CGTGTGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG---CATTGATAC-TGTGCTAGTGTAAGACCATG
* * * *
9894782 TTTGGAACATGGTATCGGCAATGTTATGAGAGCC
62 TCTGGGACATGGCATCGGC-ATGTTATGAGAGCT
*
9894816 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATTA-TGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-TACTGTGCTAGTGTAAGACCATGTCT
* * ** *
9894880 GGGACATGGCGTCAGCCACATTACGAGAGCT
65 GGGACATGGCATC-GGCATGTTATGAGAGCT
* * * *
9894911 AGTGTAAGACCAGGTTTGGGACATGGCAT-TGCATTGATACGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATAC-TGTGCTAGTGTAAGACCATGTCT
* ** *
9894975 GGGACATGGCATCGGCCTCGACATGTGAGCT
65 GGGACATGGCATCGGCAT-GTTATGAGAGCT
* *
9895006 AGTGTAAGAGCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
9895036 AGCAATTTAC
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
93 6 0.03
94 9 0.05
95 135 0.75
96 31 0.17
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (94 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATACTGTGCTAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATGTTATGAGAGCT
Found at i:9895007 original size:143 final size:144
Alignment explanation
Indices: 9894711--9895038 Score: 419
Period size: 143 Copynumber: 2.3 Consensus size: 144
9894701 TTTAGGTGAT
* * * * * * *
9894711 ATGTGTGCCAGTGTAAGACTATGTCTGGGACATGGTATCGGCCACATTTCGTGTGCTAGTGTAAG
1 ATGTG-GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTACGAGAGCTAGTGTAAG
* * * * *
9894776 ACCATGTTTGGAACATGGTATCGGCAATGTTATGAGAGCCAGTGTAAGACCATGTTTGGAACATG
65 ACCAGGTTTGGAACATGGCATCGGCAATGATACGAGAGCCAGTGTAAGACCATGTCTGGAACATG
* *
9894841 GCATCGGCATTGATT
130 GCATCGGCATCGATC
*
9894856 ATGT-GCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCACATTACGAGAGCTAGTGTAAGA
1 ATGTGGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTACGAGAGCTAGTGTAAGA
* * * * *
9894920 CCAGGTTTGGGACATGGCAT-TGCATTGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGG
66 CCAGGTTTGGAACATGGCATCGGCAATGATACGAGAGCCAGTGTAAGACCATGTCTGGAACATGG
*
9894984 CATCGGCCTCGA-C
131 CATCGGCATCGATC
*
9894997 ATGTGAGCTAGTGTAAGAGCATGTCTGGGACATGGCATCAGC
1 ATGTG-GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
9895039 AATTTACCCT
Statistics
Matches: 158, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
141 4 0.03
142 47 0.30
143 103 0.65
145 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (144 bp):
ATGTGGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTACGAGAGCTAGTGTAAGA
CCAGGTTTGGAACATGGCATCGGCAATGATACGAGAGCCAGTGTAAGACCATGTCTGGAACATGG
CATCGGCATCGATC
Found at i:9897189 original size:40 final size:40
Alignment explanation
Indices: 9897131--9897332 Score: 309
Period size: 40 Copynumber: 5.1 Consensus size: 40
9897121 TTTAGTCGGA
* * * *
9897131 TATAGTTACTTGCTCAAATGCCTTCGGGACTTAGCTCGGT
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
9897171 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
*
9897211 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
9897251 TATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG-
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
* * *
9897289 AATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
1 TA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
9897330 TAT
1 TAT
9897333 CATCCGAATA
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.23
40 114 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
Found at i:9899820 original size:12 final size:12
Alignment explanation
Indices: 9899803--9899829 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9899793 TTTTAAGTCC
9899803 TTTGTTTATTTA
1 TTTGTTTATTTA
9899815 TTTGTTTATTTA
1 TTTGTTTATTTA
9899827 TTT
1 TTT
9899830 TTATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTGTTTATTTA
Found at i:9899932 original size:20 final size:20
Alignment explanation
Indices: 9899909--9899947 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9899899 CTTTATGAAC
**
9899909 TATTTTTTAGGTTTTTTTTT
1 TATTTTTTACCTTTTTTTTT
9899929 TATTTTTTACCTTTTTTTT
1 TATTTTTTACCTTTTTTTT
9899948 AAAATACTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.79
Consensus pattern (20 bp):
TATTTTTTACCTTTTTTTTT
Found at i:9901557 original size:47 final size:46
Alignment explanation
Indices: 9901484--9901658 Score: 198
Period size: 47 Copynumber: 3.8 Consensus size: 46
9901474 GTTATTGTGA
*
9901484 GCTAGTGTAAGACCATGTCTTGGACATGGCATCGGCATTGAGATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGA-T
* *
9901532 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTACGAGAT-AT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGAT
*
9901576 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGA-
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA--GATGAT
* * *
9901623 GCCAGTGTAAGACAATTTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
9901659 ATTATACCCT
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 18 0.17
46 19 0.17
47 47 0.43
48 13 0.12
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAT
Found at i:9901644 original size:92 final size:92
Alignment explanation
Indices: 9901487--9901658 Score: 242
Period size: 92 Copynumber: 1.9 Consensus size: 92
9901477 ATTGTGAGCT
* * *
9901487 AGTGTAAGACCATGTCTTGGACATGGCATCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAG-GCCAGTGTAAGACATGTCTG
9901552 GGACAT-ACATCGGCTACGAGATATGTC
65 GGACATGACATCGGCTACGAGATATGTC
*
9901579 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGGATGA-GCCAGTGTAAGACAATTTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA--GATGAGGCCAGTGTAAGAC-ATGTC
*
9901642 TGGGACATGGCATCGGC
63 TGGGACATGACATCGGC
9901659 ATTATACCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
91 16 0.23
92 43 0.61
93 12 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGGCCAGTGTAAGACATGTCTGG
GACATGACATCGGCTACGAGATATGTC
Found at i:9903816 original size:4 final size:4
Alignment explanation
Indices: 9903791--9903833 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
9903781 CTAGCATAGC
*
9903791 ATTT TTTT ATTT -TTT CATTT ATTT ATTTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT -ATTT ATTT A-TTT ATTT ATTT ATTT AT
9903834 CTATCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 24 0.71
5 7 0.21
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:9903819 original size:21 final size:20
Alignment explanation
Indices: 9903791--9903833 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
9903781 CTAGCATAGC
9903791 ATTTTTTTATTT-TTTCATTT
1 ATTTTTTTATTTATTT-ATTT
9903811 ATTTATTTTATTTATTTATTT
1 ATTT-TTTTATTTATTTATTT
9903832 AT
1 AT
9903834 CTATCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 14 0.67
22 3 0.14
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTTTTTTATTTATTTATTT
Found at i:9907561 original size:24 final size:23
Alignment explanation
Indices: 9907529--9907640 Score: 82
Period size: 24 Copynumber: 4.7 Consensus size: 23
9907519 TCTTACTCAT
*
9907529 TCGCACACATAGTGCCGCATTTCC
1 TCGCACACATAGTGCCGCATAT-C
***
9907553 TCGCACACATAGTGCTATATAATC
1 TCGCACACATAGTGCCGCAT-ATC
* *
9907577 TCGCACACATAGTGCCATGTAGT-TT
1 TCGCACACATAGTGCC--GCA-TATC
** *
9907602 TTTCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCGCAT-ATC
9907626 TCGCACACATAGTGC
1 TCGCACACATAGTGC
9907641 TGAAATTTCT
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 46 0.68
25 16 0.24
26 2 0.03
27 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (23 bp):
TCGCACACATAGTGCCGCATATC
Found at i:9919410 original size:44 final size:44
Alignment explanation
Indices: 9919360--9919447 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
9919350 TATGCATCTC
9919360 ATTCTTATCATTTACATAATAAATAAAATTTAAATCTAAAATTT
1 ATTCTTATCATTTACATAATAAATAAAATTTAAATCTAAAATTT
9919404 ATTCTTATCATTTACATAATAAATAAAATTTAAATCTAAAATTT
1 ATTCTTATCATTTACATAATAAATAAAATTTAAATCTAAAATTT
9919448 GAATCATAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (44 bp):
ATTCTTATCATTTACATAATAAATAAAATTTAAATCTAAAATTT
Found at i:9919772 original size:26 final size:26
Alignment explanation
Indices: 9919736--9919790 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
9919726 TCTAACCTTT
9919736 TCAGATTTGTGCCGACTTAAACAAAA
1 TCAGATTTGTGCCGACTTAAACAAAA
9919762 TCAGATTTGTGCCGACTTAAACAAAA
1 TCAGATTTGTGCCGACTTAAACAAAA
9919788 TCA
1 TCA
9919791 AAGACATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (26 bp):
TCAGATTTGTGCCGACTTAAACAAAA
Found at i:9931236 original size:4 final size:4
Alignment explanation
Indices: 9931227--9931278 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
9931217 ATATTACAAA
9931227 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9931275 TATG
1 TATG
9931279 AGTGTGTGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9934217 original size:15 final size:16
Alignment explanation
Indices: 9934192--9934225 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
9934182 ACGAGAATAA
9934192 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9934208 TATT-TTTAAAATTAT
1 TATTATTTAAAATTAT
9934223 TAT
1 TAT
9934226 ATTAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9934235 original size:15 final size:13
Alignment explanation
Indices: 9934192--9934235 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 13
9934182 ACGAGAATAA
9934192 TATTATTTAAAAT
1 TATTATTTAAAAT
9934205 TATTATTTTTAAAAT
1 TATTA--TTTAAAAT
9934220 TATTATATTAATAAT
1 TATTAT-TTAA-AAT
9934235 T
1 T
9934236 TATGAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.22
14 4 0.15
15 17 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:9938965 original size:33 final size:34
Alignment explanation
Indices: 9938882--9939033 Score: 141
Period size: 33 Copynumber: 4.5 Consensus size: 34
9938872 TATTATAATT
* *
9938882 ATCTATTATAATGCATGTTAATTGCTACTGTATCG
1 ATCTATTATAA-GCATGTTAATTGCTACCGTATTG
* *
9938917 A-CTTGTTATAAGCATGTTTATTGCT-CCGTATTG
1 ATC-TATTATAAGCATGTTAATTGCTACCGTATTG
* * ** *
9938950 ATCTATTATAGGCATGATAATTGCTACTATATCG
1 ATCTATTATAAGCATGTTAATTGCTACCGTATTG
*
9938984 A-CTTATTATAAGCATATT-ATTGCTACCGTATTG
1 ATC-TATTATAAGCATGTTAATTGCTACCGTATTG
* *
9939017 ATTTGTTATAAGCATGT
1 ATCTATTATAAGCATGT
9939034 CATATTGCAT
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
33 51 0.55
34 33 0.36
35 8 0.09
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (34 bp):
ATCTATTATAAGCATGTTAATTGCTACCGTATTG
Found at i:9938965 original size:67 final size:67
Alignment explanation
Indices: 9938882--9939033 Score: 216
Period size: 67 Copynumber: 2.3 Consensus size: 67
9938872 TATTATAATT
* * *
9938882 ATCTATTATAATGCATGTTAATTGCTACTGTATCGACTTGTTATAAGCATGTTTATTGCT-CCGT
1 ATCTATTATAA-GCATGTTAATTGCTACTATATCGACTTATTATAAGCAT-ATTATTGCTACCGT
9938946 ATTG
64 ATTG
* *
9938950 ATCTATTATAGGCATGATAATTGCTACTATATCGACTTATTATAAGCATATTATTGCTACCGTAT
1 ATCTATTATAAGCATGTTAATTGCTACTATATCGACTTATTATAAGCATATTATTGCTACCGTAT
9939015 TG
66 TG
* *
9939017 ATTTGTTATAAGCATGT
1 ATCTATTATAAGCATGT
9939034 CATATTGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
66 8 0.11
67 56 0.76
68 10 0.14
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (67 bp):
ATCTATTATAAGCATGTTAATTGCTACTATATCGACTTATTATAAGCATATTATTGCTACCGTAT
TG
Found at i:9942872 original size:34 final size:34
Alignment explanation
Indices: 9942762--9942941 Score: 139
Period size: 35 Copynumber: 5.3 Consensus size: 34
9942752 AAATACGTGT
* * *
9942762 TAAGCAAGTTTATTGCTACTGTAATGATCTGTTA
1 TAAGCATGTTTATTGCTACTGTATTGATCTATTA
* * * ** * *
9942796 TAAAACATGTTAATTGCTACTATATCAACCCTGTTA
1 T-AAGCATGTTTATTGCTACTGTATTGA-TCTATTA
**
9942832 TAAGCATGTTTATTGCTACCATATTGATCTATTA
1 TAAGCATGTTTATTGCTACTGTATTGATCTATTA
* * * * * *
9942866 TAAGCATGATAATTACTATTGCATCGA-CTTATTA
1 TAAGCATGTTTATTGCTACTGTATTGATC-TATTA
* *
9942900 TAAGGATG-TTATTGCTTCTGTATTGATCTATTA
1 TAAGCATGTTTATTGCTACTGTATTGATCTATTA
9942933 TAAGCATGT
1 TAAGCATGT
9942942 CATGTTGCAT
Statistics
Matches: 110, Mismatches: 31, Indels: 10
0.73 0.21 0.07
Matches are distributed among these distances:
33 25 0.23
34 38 0.35
35 40 0.36
36 7 0.06
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (34 bp):
TAAGCATGTTTATTGCTACTGTATTGATCTATTA
Found at i:9942936 original size:33 final size:34
Alignment explanation
Indices: 9942829--9942940 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 34
9942819 ATCAACCCTG
* * **
9942829 TTATAAGCATGTTTATTGCTACCATATTGATCTA
1 TTATAAGCATGATTATTGCTTCTGTATTGATCTA
* * * *
9942863 TTATAAGCATGATAATTACTAT-TGCATCGA-CTTA
1 TTATAAGCATGATTATTGCT-TCTGTATTGATC-TA
*
9942897 TTATAAGGATG-TTATTGCTTCTGTATTGATCTA
1 TTATAAGCATGATTATTGCTTCTGTATTGATCTA
9942930 TTATAAGCATG
1 TTATAAGCATG
9942941 TCATGTTGCA
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
32 1 0.02
33 25 0.42
34 34 0.57
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATAAGCATGATTATTGCTTCTGTATTGATCTA
Found at i:9946146 original size:15 final size:16
Alignment explanation
Indices: 9946126--9946161 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
9946116 AATTATTTAA
9946126 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
9946141 AAATTATAAAAATAAT
1 AAATTATAAAAATAAT
9946157 AAATT
1 AAATT
9946162 GATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:9956216 original size:28 final size:28
Alignment explanation
Indices: 9956174--9956289 Score: 126
Period size: 28 Copynumber: 4.2 Consensus size: 28
9956164 AATGCAGTTG
* *
9956174 CATACTCGATGTCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
*
9956202 CATACTCAATATCTCGCACACTAAGTTC
1 CATACTCAATATCTCGCACACTAAGTGC
* * * *
9956230 CATTCTCAATGTTTCCCACACTAAGTG-
1 CATACTCAATATCTCGCACACTAAGTGC
* ** *
9956257 CATTCTTGATATCTCGCAAACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
9956285 CATAC
1 CATAC
9956290 ATAGCCGAAG
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 21 0.29
28 51 0.71
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.29
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGC
Found at i:9956372 original size:40 final size:40
Alignment explanation
Indices: 9956270--9956373 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
9956260 TCTTGATATC
* **
9956270 TCGCAAACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATTTAGCCGAAGCTATCTCAAA
* * **
9956310 TCGCACACTAAGTGCCAAATTTAGCCGAAGCTATATTGAA
1 TCGCACACTAAGTGCCATATTTAGCCGAAGCTATCTCAAA
9956350 -CTGCACACTAAGTGCCATATTTAG
1 TC-GCACACTAAGTGCCATATTTAG
9956374 TCGATATGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.02
40 54 0.98
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATTTAGCCGAAGCTATCTCAAA
Found at i:9958909 original size:48 final size:48
Alignment explanation
Indices: 9958845--9959134 Score: 445
Period size: 48 Copynumber: 6.0 Consensus size: 48
9958835 CAAGATAAAT
* * * *
9958845 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
*
9958893 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
9958941 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
9958989 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * * *
9959037 ATATATATATGTGGTAAATCCGAATGCCTAATGTGAAATATGTGTGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * * *
9959085 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
9959133 AT
1 AT
9959135 GTGTGTATAT
Statistics
Matches: 222, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 222 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:9959325 original size:37 final size:37
Alignment explanation
Indices: 9959275--9959384 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
9959265 GGAAATATAT
*
9959275 TCCGGGTAAGACCCGATGACTACGTGCGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
9959312 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
9959349 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
9959385 TCGAGCTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:9983234 original size:21 final size:20
Alignment explanation
Indices: 9983210--9983248 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9983200 GAGTATTTTT
*
9983210 ATGTTTGATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
9983231 ATGTTTAATGATAGTTAT
1 ATGTTTAATGATAGTTAT
9983249 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:9998483 original size:13 final size:13
Alignment explanation
Indices: 9998465--9998489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9998455 AAGTAATCGC
9998465 ACACGGGCGTGTT
1 ACACGGGCGTGTT
9998478 ACACGGGCGTGT
1 ACACGGGCGTGT
9998490 CCCTACCTAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:10006634 original size:13 final size:13
Alignment explanation
Indices: 10006616--10006640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10006606 AAGTAATCAC
10006616 ACACGGGCATGTT
1 ACACGGGCATGTT
10006629 ACACGGGCATGT
1 ACACGGGCATGT
10006641 CCCTGCCGAG
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:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
ACACGGGCATGTT
Found at i:10013328 original size:13 final size:13
Alignment explanation
Indices: 10013310--10013341 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
10013300 ATAGTTTAAT
10013310 AATAAAATAAAGA
1 AATAAAATAAAGA
10013323 AATAAAATAAAGA
1 AATAAAATAAAGA
10013336 AATAAA
1 AATAAA
10013342 TGAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:10014643 original size:15 final size:15
Alignment explanation
Indices: 10014623--10014654 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10014613 GAATTTATCA
10014623 AATTTATATTGATTG
1 AATTTATATTGATTG
10014638 AATTTATATTGATTG
1 AATTTATATTGATTG
10014653 AA
1 AA
10014655 ATATATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
AATTTATATTGATTG
Found at i:10015213 original size:23 final size:23
Alignment explanation
Indices: 10015156--10015213 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
10015146 TAATATTCCG
*
10015156 GGTGTGTTTGGATTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
10015179 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
10015202 GGTGTGTTTGGG
1 GGTGTGTTTGGG
10015214 AGGAATCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.09, C:0.03, G:0.41, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:10015339 original size:18 final size:19
Alignment explanation
Indices: 10015318--10015358 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10015308 AATGAAATGA
10015318 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
10015336 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
10015355 GAAA
1 GAAA
10015359 ACATGAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:10017335 original size:17 final size:17
Alignment explanation
Indices: 10017313--10017347 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10017303 GACTCGGATT
10017313 CGTGGTCCCAAAACCAC
1 CGTGGTCCCAAAACCAC
10017330 CGTGGTCCCAAAACCAC
1 CGTGGTCCCAAAACCAC
10017347 C
1 C
10017348 ATTTTGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.43, G:0.17, T:0.11
Consensus pattern (17 bp):
CGTGGTCCCAAAACCAC
Found at i:10020011 original size:13 final size:13
Alignment explanation
Indices: 10019993--10020017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10019983 CTGTGTACAC
10019993 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
10020006 GCCCGTGTCCTT
1 GCCCGTGTCCTT
10020018 CACACAGCCA
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:10024077 original size:27 final size:27
Alignment explanation
Indices: 10024047--10024224 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
10024037 ATATTGAGCC
* *
10024047 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
10024074 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
10024101 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
10024129 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
10024156 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
10024183 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
10024210 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10024225 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10024186 original size:82 final size:81
Alignment explanation
Indices: 10024068--10024223 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
10024058 TGCTATATAA
* * *
10024068 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
10024133 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10024150 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
10024214 CACTTAGTGC
65 CACTTAGTGC
10024224 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10031773 original size:85 final size:86
Alignment explanation
Indices: 10031650--10031839 Score: 238
Period size: 85 Copynumber: 2.2 Consensus size: 86
10031640 ACTTCATTCC
* * *
10031650 TGATTGAACCAAACTATTTATAGTTACTACCACCTGTTGTGAGTGCACAATATATTAGCAGATTA
1 TGATTGAACCACACTATTTACAGTTACTACCACCTGTTGTGAGTGCACAATACATTAGCAGATTA
*
10031715 AACAAACTACCACTTGGTTCA
66 AACAAACTACCACTCGGTTCA
* * *** *
10031736 TGATTGAACCACA-TATTTACAGTTACTGCCACTTGTTGTGAGTGCATTTTACATTTGCAGATTA
1 TGATTGAACCACACTATTTACAGTTACTACCACCTGTTGTGAGTGCACAATACATTAGCAGATTA
* *** *
10031800 AACAAATTGTTACTCGGTTCG
66 AACAAACTACCACTCGGTTCA
10031821 TGATTGAACCACACTATTT
1 TGATTGAACCACACTATTT
10031840 GTAGATTAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 71 0.81
86 17 0.19
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (86 bp):
TGATTGAACCACACTATTTACAGTTACTACCACCTGTTGTGAGTGCACAATACATTAGCAGATTA
AACAAACTACCACTCGGTTCA
Found at i:10031988 original size:46 final size:46
Alignment explanation
Indices: 10031921--10032022 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
10031911 TCAATTTAGT
10031921 TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
1 TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
* * *
10031967 TATGCTTATAACTATGCTTTTAATAGAACAATACGGTAGCATTAAC
1 TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
10032013 TATGC-TATAA
1 TATGCTTATAA
10032023 TAATTCAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (46 bp):
TATGCTTATAACTATGCTTTTAACAGAACAATACAGTAGCATTAAA
Found at i:10033505 original size:23 final size:23
Alignment explanation
Indices: 10033479--10033532 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
10033469 ATTTGCATCA
*
10033479 CATATCATATACCAA-AATCAAAC
1 CATATCATA-ACCAATAACCAAAC
*
10033502 CATAATCATAACCAATAACCAAGC
1 CAT-ATCATAACCAATAACCAAAC
10033526 CATATCA
1 CATATCA
10033533 CATGGCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (23 bp):
CATATCATAACCAATAACCAAAC
Found at i:10034156 original size:42 final size:42
Alignment explanation
Indices: 10034051--10034216 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
10034041 CGGAAAACTC
* * * *
10034051 ATACAATGCCAATGTCTCA-AACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGAA-GTGGTCTTACACGAAATCAA
*
10034093 ATATCGATGCCACTGTCCCAGATAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGA-AGTGGTCTTACACGAAATCAA
* * *
10034136 ATACGATGCCAATGTCCCAGACGTCGTCTTCCACGTAAATCATA
1 ATACGATGCCAATGTCCCAGAAGTGGTCTTACACG-AAATCA-A
**
10034180 AGT-CGATGCCAACATCCCA-AAGTGGTCTTACACGAAA
1 A-TACGATGCCAATGTCCCAGAAGTGGTCTTACACGAAA
10034217 ACACATATCG
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 32 0.31
43 50 0.49
44 18 0.17
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGAAGTGGTCTTACACGAAATCAA
Found at i:10038133 original size:41 final size:42
Alignment explanation
Indices: 10038021--10038169 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 42
10038011 TGTGTTCTCA
* * *
10038021 TGTAAGACCACGACTGGGACGTTGGCATCAATATGTGATTACG
1 TGTAAGACCATGTCTGGGAC-ATGGCATCAATATGTGATTACG
* *
10038064 TGTAAGACCATGTCTGGGACATCAGCATC-ATATTTGATT-CG
1 TGTAAGACCATGTCTGGGACAT-GGCATCAATATGTGATTACG
* * * * * *
10038105 TGTAAGGCCCTGTTTGGGATAGTGGCATCGATATGTGA-TAGCA
1 TGTAAGACCATGTCTGGGACA-TGGCATCAATATGTGATTA-CG
* **
10038148 TGTGAGACCACATCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
10038170 TGGAATTGTA
Statistics
Matches: 82, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
41 25 0.30
42 19 0.23
43 38 0.46
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCAATATGTGATTACG
Found at i:10043553 original size:16 final size:15
Alignment explanation
Indices: 10043509--10043553 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
10043499 AATCTAAGAA
*
10043509 AAATAAATAAAAATC
1 AAATAAAAAAAAATC
*
10043524 AAATAAACCAAAAATC
1 AAATAAA-AAAAAATC
10043540 AAATAAAAATAAAA
1 AAATAAAAA-AAAA
10043554 ATTTGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAAAATC
Found at i:10047207 original size:7 final size:6
Alignment explanation
Indices: 10047186--10047235 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
10047176 CTTTAGAACT
* **
10047186 AAAATA AAAATA AAAATG AAAATA AAACGA AAAATA AAAGAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
10047234 AA
1 AA
10047236 TGGGCTCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 2 0.06
6 32 0.89
7 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:10048799 original size:22 final size:22
Alignment explanation
Indices: 10048774--10048831 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10048764 AATCATAATA
10048774 AATAAAAAATATAATGAAGAAT
1 AATAAAAAATATAATGAAGAAT
** *
10048796 AAT-AGTAATAATAATGAAGACT
1 AATAAAAAAT-ATAATGAAGAAT
*
10048818 AATAAAAAAAATAA
1 AATAAAAAATATAA
10048832 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 4 0.14
22 21 0.75
23 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (22 bp):
AATAAAAAATATAATGAAGAAT
Found at i:10048858 original size:17 final size:19
Alignment explanation
Indices: 10048838--10048877 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
10048828 ATAAATAAAT
*
10048838 AAATTGAATAAA-ATTAA-
1 AAATGGAATAAAGATTAAG
10048855 AAATGGAATAAAGATTAAG
1 AAATGGAATAAAGATTAAG
10048874 AAAT
1 AAAT
10048878 AAAGAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (19 bp):
AAATGGAATAAAGATTAAG
Found at i:10056870 original size:25 final size:25
Alignment explanation
Indices: 10056828--10056876 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10056818 CTTTATTATT
* *
10056828 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
10056853 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
10056877 GGTCCTCTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:10057281 original size:20 final size:20
Alignment explanation
Indices: 10057241--10057278 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10057231 TAGGTGCGAG
*
10057241 ATTCCAATGTGTTCGATGGT
1 ATTCCAATGTGTTCAATGGT
10057261 ATTCCAA-GTGTTCAATGG
1 ATTCCAATGTGTTCAATGG
10057279 GTAAATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (20 bp):
ATTCCAATGTGTTCAATGGT
Found at i:10057899 original size:13 final size:13
Alignment explanation
Indices: 10057881--10057905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10057871 ATGAGAGTAG
10057881 TTTTAGGAAACCC
1 TTTTAGGAAACCC
10057894 TTTTAGGAAACC
1 TTTTAGGAAACC
10057906 TTATCAAGTG
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTTTAGGAAACCC
Found at i:10065723 original size:773 final size:773
Alignment explanation
Indices: 10064176--10066514 Score: 4192
Period size: 773 Copynumber: 3.0 Consensus size: 773
10064166 ACCGTCAGCC
*
10064176 ACCACTGATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
1 ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
10064241 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
66 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
*
10064306 AGCTATGCCCCTGAATACTTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
131 AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
10064371 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
196 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
*
10064436 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCAGCGTCTCGCT
261 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
10064501 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTACGGCCTCTAT
326 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAA------T-C--CCTCTA-
10064566 CTCGGCCTCTAGTACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTAT
381 -T-GGCCTCTAGTACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTAT
* **
10064631 ATTTAAAAGTTTTATATACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAA
444 ATTTAGAAGTTTTATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAA
* *
10064696 CAATATCAGAGTTTTAGAGTCAGCTATCGCGAGTAGCACGCTAACTATGGTTTTCAGTTTACACT
509 CAATATCAGAGTTTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACT
* * *
10064761 ACTTAAAGTGATTCATAACACATACACAATATTTTAGAAAAATACAAAAAAAAATTCAGTATAAG
574 ACTTAAAGTGTTTCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAG
10064826 CATGCTCTCAAACGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGT
639 CATGCTCTCAAACGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGT
*
10064891 GTACCACATACTTACTATAAAAATATTTTAAACCGTTTCACAAATCATTTTCTTTAAACCTGGCT
704 GTACCACATACTTACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCT
10064956 CTGAT
769 CTGAT
*
10064961 ACCACTAATATGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
1 ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
* *
10065026 TCCAAATAATCTATAATACACTCTGTGGCCTCCATCTAGTACTCAACTACATTAGGAGCAACTCC
66 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
* * *
10065091 AGCTATGCCCCTAAATACCTCAGCCCCATTGGACCAAAGTCGTTTCGTAATCGACCCTTGGCCTC
131 AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
* * *
10065156 CAGATCCAGTATTAGCCTCAGCGACCCTCTCCAAGATATGCAGCATGGCCTGGGACAGTGTGTCA
196 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
*
10065221 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTTGCT
261 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
*
10065286 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCGAATCCCTCTATGGCCTCTAG
326 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTATGGCCTCTAG
* *
10065351 TACCCCGTCCACGAGCACTACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
391 TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
*
10065416 TATGCACTTTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
456 TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
*
10065481 TTTAGAGTCAGCTATCGCGGGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
521 TTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
*
10065546 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAATTTCAGTATAAGCATGCTCTCAAA
586 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
*
10065611 CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTCGTGTACCACATACT
651 CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
10065676 TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
716 TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
* * *
10065734 ACCACTGATACGCTTCATCGCGACACAACGAAACAGCCCCCTGGAGCTTTTGCTCAGTAGTAAAA
1 ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
*
10065799 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCT
66 TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
* *
10065864 AGCTATACCCCTGAATACCTCAGCCCCATTGGACCAGAGTCATTTCGTAATCGACCCATGGCCTC
131 AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
10065929 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
196 CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
*
10065994 TCCCTAGCTGGACGGTCCTGGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
261 TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
*
10066059 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTACGGCCTCTAG
326 AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTATGGCCTCTAG
10066124 TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
391 TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
10066189 TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
456 TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
* *
10066254 TTTAGAGTTAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTTAGTTTACACTACTTAAAGTGTT
521 TTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
10066319 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
586 TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
*
10066384 CAGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
651 CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
* *
10066449 TACTATAAAAAGATTTTAAATCATTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
716 TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
10066507 ACCACTAA
1 ACCACTAA
10066515 ATGTAACACC
Statistics
Matches: 1494, Mismatches: 60, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
773 1127 0.75
774 1 0.00
776 6 0.00
778 1 0.00
779 1 0.00
785 358 0.24
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (773 bp):
ACCACTAATACGCTTCATCGCGACACAACGAAACAGCCCCCTTGAGCTTTTGCTCAGTAGTGAAA
TCCAAATAATCCATAATACACTCTGTGGCCTCCATCTAGTACTCAGCTACATTAGGAGCAACTCC
AGCTATGCCCCTGAATACCTCAGCCCCATTGGACCAGAGTCGTTTCGTAATCGACCCATGGCCTC
CAGATCCAGCATTAGCCTCAGTGACCCTCTCCAGGATATGCAGCATGGCCTGGGACAGTGTGTCA
TCCCTAGCTGGACGGTCCTAGGACTCAGCACCAGTCTCAGTAACAGGTGACATCGGCGTCTCGCT
AGTGTCCAGATTAGAGATCGTATCAGATGCGAAGGACTCAGCTCAAATCCCTCTATGGCCTCTAG
TACCCCGTCCACGAGTACCACTTGTGCTCATCGTAATTATCGAATTAATCTATATTTAGAAGTTT
TATGCACATTAGTTTACAGTTTTGATAATTATTAGCAAATATTTTATGCAAAACAATATCAGAGT
TTTAGAGTCAGCTATCGCGAGTAGCAAGCTAACTACGGTTTTCAGTTTACACTACTTAAAGTGTT
TCATAACACATACACAATATTTCAGACAAATACAAAAAAAAATTCAGTATAAGCATGCTCTCAAA
CGGTACATATCAGAGTTTCAAAGAACTTATAGGATCAGTGCTGGAGGCTTGGTGTACCACATACT
TACTATAAAAATATTTTAAATCGTTTCACAAATCATTTTCTTTAAACCTGGCTCTGAT
Found at i:10066595 original size:13 final size:13
Alignment explanation
Indices: 10066577--10066602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10066567 CATGAGAGTA
10066577 CTTTTAGGAAACC
1 CTTTTAGGAAACC
10066590 CTTTTAGGAAACC
1 CTTTTAGGAAACC
10066603 TTATCAAGTG
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTTTTAGGAAACC
Done.