Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 55 of 311
Found at i:15938996 original size:36 final size:36
Alignment explanation
Indices: 15938956--15939119 Score: 152
Period size: 36 Copynumber: 4.4 Consensus size: 36
15938946 AAAAAAGGAA
*
15938956 TATTGATTCTATTGAAAGTGCTCAATAAGCAATATC
1 TATTGATTCTACTGAAAGTGCTCAATAAGCAATATC
* * * *
15938992 TATTGATCCCACTGAATGTGCTCAA-ACGAGCAATGTC
1 TATTGATTCTACTGAAAGTGCTCAATA--AGCAATATC
*
15939029 TACTGATTCTACTG-AAGTGCTCAAATAAGCAATATC
1 TATTGATTCTACTGAAAGTGCTC-AATAAGCAATATC
* **
15939065 TATTGATTCTACTAAATAGTTGCTCAGACGAGCAATATC
1 TATTGATTCTACTGAA-AG-TGCTCA-ATAAGCAATATC
* * *
15939104 CACTGATTATACTGAA
1 TATTGATTCTACTGAA
15939120 TGTTTGCTCA
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
35 1 0.01
36 48 0.47
37 22 0.22
38 4 0.04
39 27 0.26
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (36 bp):
TATTGATTCTACTGAAAGTGCTCAATAAGCAATATC
Found at i:15939056 original size:73 final size:75
Alignment explanation
Indices: 15938959--15939142 Score: 221
Period size: 73 Copynumber: 2.4 Consensus size: 75
15938949 AAAGGAATAT
* *
15938959 TGATTCTATTGAAAGTGCTC-AATAAGCAATATCTATTGATCCCACTGAAT-G-TGCTCAAACGA
1 TGATTCTACTG-AAGTGCTCAAATAAGCAATATCTATTGATCCCACTAAATAGTTGCTCAAACGA
* *
15939021 GCAATGTCTAC
65 GCAATATCCAC
* * *
15939032 TGATTCTACTGAAGTGCTCAAATAAGCAATATCTATTGATTCTACTAAATAGTTGCTCAGACGAG
1 TGATTCTACTGAAGTGCTCAAATAAGCAATATCTATTGATCCCACTAAATAGTTGCTCAAACGAG
15939097 CAATATCCAC
66 CAATATCCAC
* * *
15939107 TGATTATACTGAATGTTTGCTCAAACAAGCATTATC
1 TGATTCTACTGAA-G--TGCTCAAATAAGCAATATC
15939143 CACTGATTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
72 8 0.08
73 37 0.39
74 1 0.01
75 31 0.33
76 1 0.01
78 17 0.18
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (75 bp):
TGATTCTACTGAAGTGCTCAAATAAGCAATATCTATTGATCCCACTAAATAGTTGCTCAAACGAG
CAATATCCAC
Found at i:15939099 original size:39 final size:37
Alignment explanation
Indices: 15938959--15939159 Score: 183
Period size: 39 Copynumber: 5.4 Consensus size: 37
15938949 AAAGGAATAT
* * *
15938959 TGATTCTATTGAAAGTGCTCAATA--AGCAATATCTAT
1 TGATTCTACTGAATGTGCTCAA-ACGAGCAATATCTAC
* * *
15938995 TGATCCCACTGAATGTGCTCAAACGAGCAATGTCTAC
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTAC
** *
15939032 TGATTCTACTGAA-GTGCTCAAATAAGCAATATCTAT
1 TGATTCTACTGAATGTGCTCAAACGAGCAATATCTAC
* * *
15939068 TGATTCTACTAAATAGTTGCTCAGACGAGCAATATCCAC
1 TGATTCTACTGAAT-G-TGCTCAAACGAGCAATATCTAC
* * * *
15939107 TGATTATACTGAATGTTTGCTCAAACAAGCATTATCCAC
1 TGATTCTACTGAATG--TGCTCAAACGAGCAATATCTAC
*
15939146 TGATTATACTGAAT
1 TGATTCTACTGAAT
15939160 AAGATTTTCT
Statistics
Matches: 136, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.01
36 49 0.36
37 21 0.15
38 2 0.01
39 63 0.46
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (37 bp):
TGATTCTACTGAATGTGCTCAAACGAGCAATATCTAC
Found at i:15939117 original size:75 final size:74
Alignment explanation
Indices: 15938971--15939160 Score: 222
Period size: 75 Copynumber: 2.5 Consensus size: 74
15938961 ATTCTATTGA
* * * *
15938971 AAGTGCTC-AATAAGCAATATCTATTGATCCCACTGAAT-GTGCTCAAACGAGCAATGTCTACTG
1 AAGTGCTCAAATAAGCAATATCTATTGATTCTACTGAATAGTGCTCAAACGAGCAATATCCACTG
*
15939034 ATTCTACTG
66 ATTATACTG
* *
15939043 AAGTGCTCAAATAAGCAATATCTATTGATTCTACTAAATAGTTGCTCAGACGAGCAATATCCACT
1 AAGTGCTCAAATAAGCAATATCTATTGATTCTACTGAATAG-TGCTCAAACGAGCAATATCCACT
15939108 GATTATACTG
65 GATTATACTG
* * * * *
15939118 AATGTTTGCTCAAACAAGCATTATCCACTGATTATACTGAATA
1 AA-G--TGCTCAAATAAGCAATATCTATTGATTCTACTGAATA
15939161 AGATTTTCTG
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
72 8 0.08
73 27 0.27
74 1 0.01
75 31 0.31
76 1 0.01
78 31 0.31
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (74 bp):
AAGTGCTCAAATAAGCAATATCTATTGATTCTACTGAATAGTGCTCAAACGAGCAATATCCACTG
ATTATACTG
Found at i:15945395 original size:10 final size:11
Alignment explanation
Indices: 15945371--15945403 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15945361 AGAAAAATGC
15945371 AGAGAAAACTA
1 AGAGAAAACTA
*
15945382 AGAGAAACCT-
1 AGAGAAAACTA
15945392 AGAGAAAACTA
1 AGAGAAAACTA
15945403 A
1 A
15945404 ACCTAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (11 bp):
AGAGAAAACTA
Found at i:15945606 original size:22 final size:22
Alignment explanation
Indices: 15945572--15945615 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
15945562 GTCCCTCTGA
*
15945572 AAAAGGTGGTATCGCAATACCT
1 AAAAGGTGGTATCACAATACCT
*
15945594 AAAA-GTGGATATCACGATACCT
1 AAAAGGTGG-TATCACAATACCT
15945616 TGGGCAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (22 bp):
AAAAGGTGGTATCACAATACCT
Found at i:15947753 original size:40 final size:40
Alignment explanation
Indices: 15947698--15947825 Score: 222
Period size: 40 Copynumber: 3.2 Consensus size: 40
15947688 CGGATGATAA
15947698 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
15947738 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
15947778 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
15947818 CC-GGCTAA
1 CCGGGCTAA
15947826 ATCTCGAAGA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 5 0.06
40 78 0.94
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:15955633 original size:39 final size:40
Alignment explanation
Indices: 15955579--15955751 Score: 271
Period size: 40 Copynumber: 4.4 Consensus size: 40
15955569 ATGATAATCA
15955579 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCG
* *
15955618 GGCTAAGACTCGAAGGCATTTGTGCGAGATGCTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCG
*
15955658 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCG
* *
15955698 GGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCG
15955737 GGCTAA-ATCCCGAAG
1 GGCTAAGA-CCCGAAG
15955752 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 49 0.40
40 73 0.59
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCG
Found at i:15955741 original size:79 final size:79
Alignment explanation
Indices: 15955579--15955751 Score: 269
Period size: 79 Copynumber: 2.2 Consensus size: 79
15955569 ATGATAATCA
*
15955579 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGACTCGAAGGCATTTGTGCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGACCCGAAGGCATTTGTGCG
15955644 AGATGCTATATCCG
66 AGATGCTATATCCG
* *
15955658 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATCCGGGCTAGGACCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAGACCCGAAGGCATTTGTGC
* *
15955723 GAGTTGTTATATCC-
65 GAGATGCTATATCCG
15955737 GGCTAA-ATCCCGAAG
1 GGCTAAGA-CCCGAAG
15955752 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 51 0.59
80 35 0.40
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (79 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAGACCCGAAGGCATTTGTGCG
AGATGCTATATCCG
Found at i:15962078 original size:44 final size:45
Alignment explanation
Indices: 15961983--15962116 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
15961973 ACAGGACAGA
* *
15961983 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
15962029 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
15962073 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
15962117 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:15968746 original size:46 final size:44
Alignment explanation
Indices: 15968687--15968801 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
15968677 ACAGGACAGA
* *
15968687 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
15968733 ACAGGATTGAGCCATGTAAGTCCGTATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
15968777 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
15968802 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:15968782 original size:44 final size:45
Alignment explanation
Indices: 15968694--15968820 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 45
15968684 AGAACAGAAA
*
15968694 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
* * *
15968740 TGAGCCATGTAAGTCCGTATT-ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
* ** * * *
15968784 TAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 TGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
15968821 CAGGATATTG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.52
45 1 0.01
46 31 0.46
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:15970433 original size:53 final size:53
Alignment explanation
Indices: 15970353--15970458 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
15970343 TATGTTATAA
* *
15970353 AGTACACGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAACTATG
1 AGTACAAGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
*
15970406 AGTACAAGCATTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
1 AGTACAAGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
15970459 TTTGTCTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (53 bp):
AGTACAAGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
Found at i:15971612 original size:21 final size:22
Alignment explanation
Indices: 15971581--15971627 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
15971571 TATAAATAGA
*
15971581 ATTTTATAAAGTTTTTCAAGAC
1 ATTTTATAAAGGTTTTCAAGAC
*
15971603 ATTTT-TAAAGGTTTTCAAGTC
1 ATTTTATAAAGGTTTTCAAGAC
15971624 ATTT
1 ATTT
15971628 ATAGGCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (22 bp):
ATTTTATAAAGGTTTTCAAGAC
Found at i:15971776 original size:22 final size:22
Alignment explanation
Indices: 15971746--15971828 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 22
15971736 TATAACTCAA
15971746 ATGTCGTGACATTGAAGGTCAG
1 ATGTCGTGACATTGAAGGTCAG
* * *
15971768 ATGTTGTGACATTGTAGGTTAG
1 ATGTCGTGACATTGAAGGTCAG
*** **
15971790 ATGTCACAACATTGAAGGTTGG
1 ATGTCGTGACATTGAAGGTCAG
*
15971812 ATGTCGAGACATTGAAG
1 ATGTCGTGACATTGAAG
15971829 ACATGTTACT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.29, C:0.11, G:0.30, T:0.30
Consensus pattern (22 bp):
ATGTCGTGACATTGAAGGTCAG
Found at i:15981352 original size:7 final size:7
Alignment explanation
Indices: 15981335--15981401 Score: 120
Period size: 7 Copynumber: 9.9 Consensus size: 7
15981325 AAAATTTTGG
15981335 GAAAAAT
1 GAAAAAT
15981342 -AAAAAT
1 GAAAAAT
15981348 GAAAAAT
1 GAAAAAT
15981355 GAAAAAT
1 GAAAAAT
15981362 GAAAAAT
1 GAAAAAT
15981369 GAAAAAT
1 GAAAAAT
15981376 GAAAAAT
1 GAAAAAT
15981383 GAAAAAT
1 GAAAAAT
15981390 GAAAAAT
1 GAAAAAT
15981397 -AAAAA
1 GAAAAA
15981402 CAAAATAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
6 11 0.19
7 48 0.81
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.13
Consensus pattern (7 bp):
GAAAAAT
Found at i:15996734 original size:56 final size:56
Alignment explanation
Indices: 15996645--15996794 Score: 210
Period size: 56 Copynumber: 2.7 Consensus size: 56
15996635 ATTGTTTTTT
* *
15996645 TTTTGGGACACTAATGGCCGACACCAACTTTATCAGATTAAAAATATTTTTTTTGG
1 TTTTGGGACACTAATGGTCGGCACCAACTTTATCAGATTAAAAATATTTTTTTTGG
** * *
15996701 TTTTGGGACACCGATGGTCGGCATCAACCTTATCAGATTAAAAATATTTTTTTTGG
1 TTTTGGGACACTAATGGTCGGCACCAACTTTATCAGATTAAAAATATTTTTTTTGG
* * * *
15996757 TTCTAGGACAGTAATGGTCGGCACCAACTTTATTAGAT
1 TTTTGGGACACTAATGGTCGGCACCAACTTTATCAGAT
15996795 ATATATATAG
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 80 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (56 bp):
TTTTGGGACACTAATGGTCGGCACCAACTTTATCAGATTAAAAATATTTTTTTTGG
Found at i:16000611 original size:17 final size:17
Alignment explanation
Indices: 16000591--16000631 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16000581 TGGAATTTGT
*
16000591 ATTGAAATGAAATTCAA
1 ATTGAAAAGAAATTCAA
*
16000608 ATTGAAAAGAAATTGAA
1 ATTGAAAAGAAATTCAA
16000625 A-TGAAAA
1 ATTGAAAA
16000632 TATAATTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (17 bp):
ATTGAAAAGAAATTCAA
Found at i:16000661 original size:23 final size:22
Alignment explanation
Indices: 16000617--16000693 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
16000607 AATTGAAAAG
* *
16000617 AAATT-GAAATGAAAATATAATT
1 AAATTGGAAATGGAATTA-AATT
*
16000639 AGAATTGGAAATGGGATTAAATT
1 A-AATTGGAAATGGAATTAAATT
16000662 AAAATTGGAAATGGAATTAAATT
1 -AAATTGGAAATGGAATTAAATT
*
16000685 AAAATGGAA
1 AAATTGGAA
16000694 TTATATTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
22 9 0.19
23 28 0.60
24 10 0.21
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (22 bp):
AAATTGGAAATGGAATTAAATT
Found at i:16000781 original size:24 final size:23
Alignment explanation
Indices: 16000729--16000783 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
16000719 AAAATTTAAA
* *
16000729 AAAT-AAATTGAAATTTGTATTG
1 AAATGAAATTCAAATTTGTATAG
16000751 AAATGAAATTCAAATTTTGTA-AG
1 AAATGAAATTCAAA-TTTGTATAG
16000774 AAATTGAAAT
1 AAA-TGAAAT
16000784 GAAAATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.14
23 12 0.43
24 12 0.43
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (23 bp):
AAATGAAATTCAAATTTGTATAG
Found at i:16000859 original size:22 final size:22
Alignment explanation
Indices: 16000834--16000885 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
16000824 ATTTAAAAAG
16000834 AAATTGAAATGAAATGAAATTA
1 AAATTGAAATGAAATGAAATTA
* *
16000856 AAATTGGAATGAAATGAAATTC
1 AAATTGAAATGAAATGAAATTA
16000878 AAATTGAA
1 AAATTGAA
16000886 TAGAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (22 bp):
AAATTGAAATGAAATGAAATTA
Found at i:16000885 original size:17 final size:17
Alignment explanation
Indices: 16000845--16000902 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
16000835 AATTGAAATG
*
16000845 AAATGAAATTA-AAATTG
1 AAATGAAA-TAGAAATTC
*
16000862 GAATGAAAT-GAAATTC
1 AAATGAAATAGAAATTC
*
16000878 AAATTG-AATAGAAATTT
1 AAA-TGAAATAGAAATTC
16000895 AAATGAAA
1 AAATGAAA
16000903 ATATAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.28
Consensus pattern (17 bp):
AAATGAAATAGAAATTC
Found at i:16000891 original size:22 final size:22
Alignment explanation
Indices: 16000834--16000892 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
16000824 ATTTAAAAAG
16000834 AAATTGAA-ATGAAATGAAATTA
1 AAATTGAATA-GAAATGAAATTA
*
16000856 AAATTGGAAT-GAAATGAAATTC
1 AAATT-GAATAGAAATGAAATTA
16000878 AAATTGAATAGAAAT
1 AAATTGAATAGAAAT
16000893 TTAAATGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.12
22 26 0.79
23 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (22 bp):
AAATTGAATAGAAATGAAATTA
Found at i:16001413 original size:19 final size:20
Alignment explanation
Indices: 16001389--16001427 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
16001379 TCTTATTTTT
16001389 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
16001408 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
16001428 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:16001445 original size:25 final size:23
Alignment explanation
Indices: 16001389--16001453 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
16001379 TCTTATTTTT
*
16001389 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
16001408 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
16001431 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
16001454 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:16001761 original size:17 final size:17
Alignment explanation
Indices: 16001721--16001772 Score: 77
Period size: 17 Copynumber: 3.0 Consensus size: 17
16001711 CTGTTTTGGC
* *
16001721 TGAAATGAAATTTGAAAA
1 TGAAATGAAA-TTCAAAT
16001739 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
16001756 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
16001773 AAAATGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (17 bp):
TGAAATGAAATTCAAAT
Found at i:16001965 original size:17 final size:17
Alignment explanation
Indices: 16001943--16001976 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16001933 AATAAAAAAG
16001943 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
16001960 TGAAATGAAATTCAAAT
1 TGAAATGAAATTCAAAT
16001977 AACATGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
TGAAATGAAATTCAAAT
Found at i:16002133 original size:11 final size:11
Alignment explanation
Indices: 16002116--16002181 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
16002106 TGACATGAGA
16002116 AAAATGAAATT
1 AAAATGAAATT
*
16002127 CAAATGAAATTT
1 AAAATGAAA-TT
*
16002139 GAAATG-AATAT
1 AAAATGAAAT-T
16002150 AAAATGAAATT
1 AAAATGAAATT
*
16002161 AAAAATTAAATT
1 -AAAATGAAATT
*
16002173 GAAATGAAA
1 AAAATGAAA
16002182 AAAAATGTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 1 0.02
11 24 0.53
12 20 0.44
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.27
Consensus pattern (11 bp):
AAAATGAAATT
Found at i:16002159 original size:34 final size:33
Alignment explanation
Indices: 16002115--16002188 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
16002105 ATGACATGAG
*
16002115 AAAAATGAAATT-CAAATGAAATTTGAAATGAATA
1 AAAAATGAAATTAAAAATGAAA-TTGAAATGAA-A
* *
16002149 TAAAATGAAATTAAAAATTAAATTGAAATGAAA
1 AAAAATGAAATTAAAAATGAAATTGAAATGAAA
16002182 AAAAATG
1 AAAAATG
16002189 TGGACAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 7 0.20
34 21 0.60
35 7 0.20
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.26
Consensus pattern (33 bp):
AAAAATGAAATTAAAAATGAAATTGAAATGAAA
Found at i:16002166 original size:23 final size:23
Alignment explanation
Indices: 16002115--16002188 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
16002105 ATGACATGAG
*
16002115 AAAAATGAAATTCAAATGAAATT
1 AAAAATGAAATTAAAATGAAATT
**
16002138 TGAAATG-AATATAAAATGAAATT
1 AAAAATGAAAT-TAAAATGAAATT
* *
16002161 AAAAATTAAATTGAAATGAAA--
1 AAAAATGAAATTAAAATGAAATT
16002182 AAAAATG
1 AAAAATG
16002189 TGGACAAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
21 6 0.15
22 3 0.07
23 29 0.71
24 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.26
Consensus pattern (23 bp):
AAAAATGAAATTAAAATGAAATT
Found at i:16002170 original size:18 final size:18
Alignment explanation
Indices: 16002149--16002183 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16002139 GAAATGAATA
*
16002149 TAAAATGAAATTAAAAAT
1 TAAAATGAAATGAAAAAT
*
16002167 TAAATTGAAATGAAAAA
1 TAAAATGAAATGAAAAA
16002184 AAATGTGGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
TAAAATGAAATGAAAAAT
Found at i:16004346 original size:20 final size:21
Alignment explanation
Indices: 16004323--16004361 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
16004313 TTGATTTTGA
16004323 TTTGTAAATATTC-ATTTTAT
1 TTTGTAAATATTCTATTTTAT
16004343 TTTGTAAATATTCTATTTT
1 TTTGTAAATATTCTATTTT
16004362 TCAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTGTAAATATTCTATTTTAT
Found at i:16004549 original size:89 final size:88
Alignment explanation
Indices: 16004432--16004677 Score: 219
Period size: 89 Copynumber: 2.7 Consensus size: 88
16004422 TTAATAAAAC
* * * *
16004432 AAATATATAATTCAAAAAATTAAAAATAC-GCAAC-AAATTAACTTTAAAAATACAAGAAAATAT
1 AAATATAAAATTCAAAAAA-TAAAAATACAG--ACTAAATTAAATTTAAAAATACAAAAAAATAA
** * * *
16004495 AAACATTTTAGAATATTACTACACGA
63 AAACATTCCAAAAAATTAATACACGA
*
16004521 AAATATAAAATTCAAAGAAA-AAATAATACAGACTAAATTAAATTTACAAATACAAAAAAATAAA
1 AAATATAAAATTCAAA-AAATAAA-AATACAGACTAAATTAAATTTAAAAATACAAAAAAATAAA
*
16004585 AACATTCCAAAAAATTAATACATGA
64 AACATTCCAAAAAATTAATACACGA
** * * * ** * *
16004610 AAATATAAAATTTGAACAACAAATAATACAAACTAAATTTGATTTACAGATACAAAAATAATACA
1 AAATATAAAATTCAAAAAATAAA-AATACAGACTAAATTAAATTTAAAAATACAAAAA-AATA-A
16004675 AAA
63 AAA
16004678 ATTTTGAATA
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
88 7 0.05
89 113 0.86
90 8 0.06
91 4 0.03
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.25
Consensus pattern (88 bp):
AAATATAAAATTCAAAAAATAAAAATACAGACTAAATTAAATTTAAAAATACAAAAAAATAAAAA
CATTCCAAAAAATTAATACACGA
Found at i:16005523 original size:20 final size:20
Alignment explanation
Indices: 16005498--16005535 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16005488 AAAGGATGAC
* *
16005498 TTATAATTATTTTTTAAAAT
1 TTATAATGAATTTTTAAAAT
16005518 TTATAATGAATTTTTAAA
1 TTATAATGAATTTTTAAA
16005536 GTCAGAACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATAATGAATTTTTAAAAT
Found at i:16006508 original size:93 final size:93
Alignment explanation
Indices: 16006396--16006566 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
16006386 CCCATAAGTG
* *
16006396 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
16006461 GAGCTT-GGATGCCTAGTTACATCTCTCA
66 GAG-TTCGGATGCCTAGTTACATCTCTCA
* *
16006489 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCATACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
16006554 GAGTTCGGATGCC
66 GAGTTCGGATGCC
16006567 CAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCTCA
Found at i:16006562 original size:46 final size:46
Alignment explanation
Indices: 16006387--16006562 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
16006377 TGTAACCTGC
* * * *
16006387 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16006433 CCATAAGTGAACTCAGACTCAACTCAACGAGCTT-GGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCGGA---C-A-TTCGCAT
* *
16006483 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16006526 CCATAAGTGAACTCATACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
16006563 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 11, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
46 60 0.57
47 25 0.24
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16008088 original size:104 final size:105
Alignment explanation
Indices: 16007937--16008164 Score: 289
Period size: 104 Copynumber: 2.1 Consensus size: 105
16007927 TGCTGCCGGT
* * * *
16007937 CATCAGTGTCCCAGAATCAAAAAAAATATATTTTTTAATCTGATAAGGTTGGTGCTGGCGATCAG
1 CATCAGTGTCCCAGAA-C-CAAACAAT-T-TTTTTTAATCTGATAAGGCTGGTGCTGGCCATCAG
**
16008002 TGTCCCAAAACC-CCAAAAAA-AATCTAATAAAGTTGGTACCGAC
62 TGTCCCAAAACCAAAAAAAAATAATCTAATAAAGTTGGT-CCGAC
* *
16008045 CATTAGTGTCCCAGAACCAAACAATTTTTTTTAATTTGATAAGGCTGGTGCTGGCCATCAGTGTC
1 CATCAGTGTCCCAGAACCAAACAATTTTTTTTAATCTGATAAGGCTGGTGCTGGCCATCAGTGTC
* *
16008110 CCAAAACCAAAAAAAAAAATAATCTAATAAAGTTGGTCTGTC
66 CCAAAACC--AAAAAAAAATAATCTAATAAAGTTGGTCCGAC
16008152 CATCAGTGTCCCA
1 CATCAGTGTCCCA
16008165 AAAAAAAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
104 44 0.42
105 1 0.01
106 6 0.06
107 22 0.21
108 32 0.30
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (105 bp):
CATCAGTGTCCCAGAACCAAACAATTTTTTTTAATCTGATAAGGCTGGTGCTGGCCATCAGTGTC
CCAAAACCAAAAAAAAATAATCTAATAAAGTTGGTCCGAC
Found at i:16018737 original size:40 final size:40
Alignment explanation
Indices: 16018692--16018776 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
16018682 ACTACTTATG
16018692 TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
1 TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
* *
16018732 TCTATTTTTAGTAAGTTGGGAATTGGGAAAGTAAGACCTA
1 TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
16018772 T-TATT
1 TCTATT
16018777 GTAACACCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (40 bp):
TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
Found at i:16028668 original size:21 final size:19
Alignment explanation
Indices: 16028644--16028686 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16028634 CATAGGAGGT
*
16028644 CAAAAAGAGCGAGAAATGGGC
1 CAAAAA-AG-GAGAAACGGGC
*
16028665 CAAAAACGGAGAAACGGGC
1 CAAAAAAGGAGAAACGGGC
16028684 CAA
1 CAA
16028687 CATGGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 1 0.05
21 6 0.30
ACGTcount: A:0.49, C:0.19, G:0.30, T:0.02
Consensus pattern (19 bp):
CAAAAAAGGAGAAACGGGC
Found at i:16035501 original size:15 final size:14
Alignment explanation
Indices: 16035483--16035527 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
16035473 GTATGATAAA
16035483 TAATTAACTTGTTCT
1 TAATT-ACTTGTTCT
16035498 TAATTA-TGTGTTCT
1 TAATTACT-TGTTCT
16035512 TAATT-CTTGTT-T
1 TAATTACTTGTTCT
16035524 TAAT
1 TAAT
16035528 ATTCCAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 13 0.46
15 5 0.18
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (14 bp):
TAATTACTTGTTCT
Found at i:16040094 original size:22 final size:22
Alignment explanation
Indices: 16040055--16040096 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16040045 GTTTAGTTGC
**
16040055 TTTTTAGGATTTTCCATTAGTG
1 TTTTTAGGAAATTCCATTAGTG
*
16040077 TTTTTAGGAAATTGCATTAG
1 TTTTTAGGAAATTCCATTAG
16040097 AAGGCTTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (22 bp):
TTTTTAGGAAATTCCATTAGTG
Found at i:16044072 original size:14 final size:14
Alignment explanation
Indices: 16044053--16044085 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
16044043 CAAAAACCTG
16044053 GACATTTTGTTTAT
1 GACATTTTGTTTAT
16044067 GACATTTTGTTTAT
1 GACATTTTGTTTAT
16044081 GACAT
1 GACAT
16044086 CATGTCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (14 bp):
GACATTTTGTTTAT
Found at i:16044552 original size:20 final size:20
Alignment explanation
Indices: 16044527--16044564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16044517 ATGATATACC
*
16044527 ACATTTAACCATCACATGAA
1 ACATTTAACCATAACATGAA
*
16044547 ACATTTAAGCATAACATG
1 ACATTTAACCATAACATG
16044565 CACAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (20 bp):
ACATTTAACCATAACATGAA
Found at i:16054793 original size:26 final size:26
Alignment explanation
Indices: 16054749--16054799 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
16054739 ACCAATGAAC
*
16054749 CGGGGAATCAACACTTAGCAACCCCT
1 CGGGGAATCAACACATAGCAACCCCT
*
16054775 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAACACATAGCAACCCC
16054800 CTTTCACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.22, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAACACATAGCAACCCCT
Found at i:16054839 original size:103 final size:104
Alignment explanation
Indices: 16054656--16054877 Score: 367
Period size: 103 Copynumber: 2.1 Consensus size: 104
16054646 ATGGATATCG
16054656 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
16054721 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCAA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCAA
16054760 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
16054824 GATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAA
66 GAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCAA
**
16054863 CACACAGCAACCCCT
1 CACTTAGCAACCCCT
16054878 TTTATATACA
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
103 94 0.85
104 17 0.15
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (104 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCAA
Found at i:16055239 original size:29 final size:29
Alignment explanation
Indices: 16055206--16055269 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
16055196 TAATCCACCA
16055206 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
16055235 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
16055265 CCCAA
1 CCCAA
16055270 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:16055243 original size:30 final size:30
Alignment explanation
Indices: 16055213--16055269 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
16055203 CCACCCAACT
16055213 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
16055242 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
16055270 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:16065138 original size:5 final size:5
Alignment explanation
Indices: 16065128--16065153 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16065118 ATAATAATAA
16065128 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
16065154 GCAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:16072227 original size:45 final size:45
Alignment explanation
Indices: 16072163--16072254 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
16072153 AGAATAGTTC
16072163 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACGTATCCCT
1 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACGTATCCCT
16072208 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACGTATCCCT
1 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACGTATCCCT
16072253 AG
1 AG
16072255 TTATCTACCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACGTATCCCT
Found at i:16077229 original size:11 final size:10
Alignment explanation
Indices: 16077213--16077258 Score: 58
Period size: 11 Copynumber: 4.4 Consensus size: 10
16077203 TATATAAATG
16077213 AATTTAATGTC
1 AATTTAAT-TC
16077224 AATTTAATTC
1 AATTTAATTC
16077234 -ATTTCATATTC
1 AATTT-A-ATTC
16077245 AATTTAATTC
1 AATTTAATTC
16077255 AATT
1 AATT
16077259 CACATCCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.12
10 11 0.34
11 13 0.41
12 4 0.12
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (10 bp):
AATTTAATTC
Found at i:16082162 original size:31 final size:31
Alignment explanation
Indices: 16082126--16082202 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
16082116 TTTGGAGAGT
*
16082126 CACACGTCCGTGTGGGTAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTAGGCCGTGTGGTCA
*
16082157 TACACGCCCGTGTGGGTAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTAGGCCGTGTGGTCA
*
16082188 CACACACCCGTGTGG
1 CACACGCCCGTGTGG
16082203 CTTGGAACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAGGCCGTGTGGTCA
Found at i:16092833 original size:211 final size:211
Alignment explanation
Indices: 16092453--16092838 Score: 499
Period size: 211 Copynumber: 1.8 Consensus size: 211
16092443 ATTTTATGCT
** * * * **
16092453 TAAAACTTCTAGAATGCAAGTTTTGCATCTTATTCAATTTGGTCCCTAAAATTCAATTAGACATT
1 TAAAACTTCTAGAACACAAGTTTTACAACTTATTCAATTTAGTCCCTAAAATTCAATTAGACACC
* * * * * * *
16092518 TTATGCATAGAATTTCTTTATGAAACTTTCATAGAAGCATGTATTCATACCATAGACCTCATAAG
66 TTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATACCATAGACCTCATAAG
* ** * *
16092583 AATCATAAAATAATTATTTTTATCTCGTATTTTTGGTCTCGAAACCGCTGTTCTAACTAGAACCT
131 AATCATAAAATAATTATTTCTATCTCAAATTTATGGTCTCAAAACCGCTGTTCTAACTAGAACCT
16092648 AATTCGGGATGTTACA
196 AATTCGGGATGTTACA
* * *
16092664 TAAAGCTTCTAGAACACAAGTTTTACAACTTTTTCAATTTAGTCCC-CAAATTCAAATTAGACAC
1 TAAAACTTCTAGAACACAAGTTTTACAACTTATTCAATTTAGTCCCTAAAATTC-AATTAGACAC
* *
16092728 CTTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATATCATGGACCATCA-A
65 CTTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATACCATAGACC-TCATA
*
16092792 ATAATCATAAAATAATTATTTCTA-CTTCAAATTTATGGTCTCAAAAC
129 AGAATCATAAAATAATTATTTCTATC-TCAAATTTATGGTCTCAAAAC
16092839 TATTATTCCG
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
210 7 0.05
211 137 0.93
212 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (211 bp):
TAAAACTTCTAGAACACAAGTTTTACAACTTATTCAATTTAGTCCCTAAAATTCAATTAGACACC
TTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATACCATAGACCTCATAAG
AATCATAAAATAATTATTTCTATCTCAAATTTATGGTCTCAAAACCGCTGTTCTAACTAGAACCT
AATTCGGGATGTTACA
Found at i:16102274 original size:20 final size:20
Alignment explanation
Indices: 16102249--16102286 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16102239 GTAACATATA
16102249 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
16102269 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
16102287 TACTTCCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:16115026 original size:30 final size:30
Alignment explanation
Indices: 16114990--16115066 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
16114980 GGGTGAATAA
*
16114990 GTTGCTCACACAAGCTGACATTATATCAGG
1 GTTGCTCACACAAGCTGACATTATATCAAG
*
16115020 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTGACATTATATCAAG
*
16115050 GTTGCTTACACAAGCTG
1 GTTGCTCACACAAGCTG
16115067 GCATAGATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (30 bp):
GTTGCTCACACAAGCTGACATTATATCAAG
Found at i:16137173 original size:20 final size:19
Alignment explanation
Indices: 16137143--16137186 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16137133 CTTTTTAGTC
*
16137143 TTGCA-TACATCTCATGCAT
1 TTGCATTACATCGCAT-CAT
16137162 TTGCATTACATCGCATCAT
1 TTGCATTACATCGCATCAT
*
16137181 GTGCAT
1 TTGCAT
16137187 CAAACTTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (19 bp):
TTGCATTACATCGCATCAT
Found at i:16144317 original size:46 final size:46
Alignment explanation
Indices: 16144233--16144323 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
16144223 TACTTTACCT
16144233 AAAAAAGAAGAGGCCAAGGCAAAAACCAGCAAATGGGCGCTTTGAA
1 AAAAAAGAAGAGGCCAAGGCAAAAACCAGCAAATGGGCGCTTTGAA
* * *
16144279 AAAAAATGGAGAGGCCAAGGCAAAACCCCGCAAA-GGGCGCTTTGA
1 AAAAAA-GAAGAGGCCAAGGCAAAAACCAGCAAATGGGCGCTTTGA
16144324 GACCACAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 17 0.41
47 24 0.59
ACGTcount: A:0.44, C:0.20, G:0.27, T:0.09
Consensus pattern (46 bp):
AAAAAAGAAGAGGCCAAGGCAAAAACCAGCAAATGGGCGCTTTGAA
Found at i:16144793 original size:15 final size:15
Alignment explanation
Indices: 16144773--16144804 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16144763 CGAAACAGGT
16144773 CAATTATTCAAAACC
1 CAATTATTCAAAACC
*
16144788 CAATTATTCAGAACC
1 CAATTATTCAAAACC
16144803 CA
1 CA
16144805 TCAAGCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (15 bp):
CAATTATTCAAAACC
Found at i:16145503 original size:177 final size:176
Alignment explanation
Indices: 16145158--16145777 Score: 708
Period size: 177 Copynumber: 3.6 Consensus size: 176
16145148 AATAAGCCAA
* * * * * * * *
16145158 AAATTATAGATCTTATTTCCACGTATCGGCTATGCAGCAGATAAAAAATGGCGAGTCTTATCTCC
1 AAATTACAAATCTTATCTCCATGTA-C-GCTATGGAGCAGATTAGAAATGGCAAGTCTTATCTCC
* * * * * *
16145223 ATGTATCGGATATG-GAGCAAATTTTAGCCACCAGCCTTTTCTCTCTTAGATAGCAAAAAATCAG
64 ATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAG
* * *
16145287 GTTGAAGATACTAGTCTTATCTTCCTAAAGTTATAGGAAGCAGACTGG
129 GTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGG
* *
16145335 AAATTACAAATTTTATCTCCATGTACCGCCTATGGATCAGATTAGAAATGGCAAGTCTTATCTCC
1 AAATTACAAATCTTATCTCCATGTA-CG-CTATGGAGCAGATTAGAAATGGCAAGTCTTATCTCC
*
16145400 ATGTATCGGATATGAG-GCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGAAAGCAG
64 ATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAG
* * * **
16145464 GTTGAAGACACAAGTCTTATCTTTCTGAAGTTGTAGGAAGCAGGCTAC
129 GTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGG
* *
16145512 AAATTACGAATCTTATCTCCATGTATCGGCTATGGAGCAGA-TCGAAAATGGCGAA-TCTTATCT
1 AAATTACAAATCTTATCTCCATGTA-C-GCTATGGAGCAGATTAG-AAATGGC-AAGTCTTATCT
* * * * *
16145575 CCATGGATTGGCTATGA-AGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGC
62 CCATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGC
* * *
16145639 AGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAGATTGG
127 AGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGG
* * **
16145689 AAATTACAAATCTTA--T-C-TG---GCTATGAAGCAGATCAGAAATGGTGAGTCTTATCTCCAT
1 AAATTACAAATCTTATCTCCATGTACGCTATGGAGCAGATTAGAAATGGCAAGTCTTATCTCCAT
* *
16145747 GTATCGGCTA-CAGAGCAGATTTTAGCCACCA
66 GTATCGGATATGAGAGCAGATTTTAGCCACCA
16145778 ACTCAGAGAG
Statistics
Matches: 379, Mismatches: 55, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
167 2 0.01
168 55 0.15
169 1 0.00
173 2 0.01
174 1 0.00
175 1 0.00
176 3 0.01
177 310 0.82
178 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (176 bp):
AAATTACAAATCTTATCTCCATGTACGCTATGGAGCAGATTAGAAATGGCAAGTCTTATCTCCAT
GTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGT
TGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGG
Found at i:16145660 original size:44 final size:44
Alignment explanation
Indices: 16145612--16145706 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
16145602 AGCCACCAGC
* * *
16145612 CTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTT-GAAGA-TACAAGT
1 CTTATCTTC-CTGAAGTAGCAAGA-AGCAGATTGGAA-ATTACAAAT
*
16145656 CTTATCTTCCTGAAGTTGCAAGAAGCAGATTGGAAATTACAAAT
1 CTTATCTTCCTGAAGTAGCAAGAAGCAGATTGGAAATTACAAAT
16145700 CTTATCT
1 CTTATCT
16145707 GGCTATGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
43 8 0.18
44 34 0.77
45 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTAGCAAGAAGCAGATTGGAAATTACAAAT
Found at i:16147265 original size:46 final size:46
Alignment explanation
Indices: 16147215--16147390 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
16147205 TGGTTGAGCA
16147215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16147261 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16147306 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16147354 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16147391 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16147371 original size:93 final size:93
Alignment explanation
Indices: 16147212--16147383 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16147202 GGATGGTTGA
* * *
16147212 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16147277 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
16147305 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16147370 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
16147384 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16154343 original size:30 final size:30
Alignment explanation
Indices: 16154297--16154353 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16154287 ATCCCGAGCC
16154297 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * * *
16154327 TAGGGGTAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAATGTAAATATGCAAAA
16154354 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:16154823 original size:46 final size:46
Alignment explanation
Indices: 16154773--16154947 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16154763 TGGTTGAGCA
16154773 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16154819 TCCGAACT-GTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
16154863 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16154911 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16154948 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 20 0.18
46 50 0.45
47 20 0.18
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16160924 original size:17 final size:17
Alignment explanation
Indices: 16160902--16160954 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
16160892 ATATCATATC
16160902 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
*
16160919 ATATCATATCTAAGACTGC
1 ATATCATATCTAAGA-T-T
*
16160938 ATATCATATATAAGATT
1 ATATCATATCTAAGATT
16160955 GCATATCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 15 0.48
18 2 0.06
19 14 0.45
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.38
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:16160928 original size:5 final size:5
Alignment explanation
Indices: 16160886--16160911 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16160876 TTCAAGATTG
16160886 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
16160912 TAAGATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:16160943 original size:19 final size:18
Alignment explanation
Indices: 16160868--16160961 Score: 88
Period size: 19 Copynumber: 5.2 Consensus size: 18
16160858 AAATTACAAA
16160868 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGA-TGCAT
*
16160889 ATCATATC--ATAT-CAT
1 ATCATATCTAAGATGCAT
*
16160904 ATCATATCTAAGAT-TAT
1 ATCATATCTAAGATGCAT
16160921 ATCATATCTAAGACTGCAT
1 ATCATATCTAAGA-TGCAT
*
16160940 ATCATATATAAGATTGCAT
1 ATCATATCTAAGA-TGCAT
16160959 ATC
1 ATC
16160962 CTTAAAGATT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 20 0.32
18 1 0.02
19 22 0.35
21 8 0.13
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (18 bp):
ATCATATCTAAGATGCAT
Found at i:16161594 original size:44 final size:43
Alignment explanation
Indices: 16161544--16161626 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
16161534 CCTGTTAATA
**
16161544 TCTTCGATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTGTT
1 TCTTCGATCTGCTCTCCAAC-AATACAGAGACGCCAAATCTGTT
* * * *
16161588 TCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATC
16161627 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 18 0.55
44 15 0.45
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATCTGTT
Found at i:16162018 original size:206 final size:200
Alignment explanation
Indices: 16161589--16162133 Score: 858
Period size: 206 Copynumber: 2.7 Consensus size: 200
16161579 AAATCTGTTT
* * *
16161589 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
16161654 GCGAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * * *
16161719 GGATCTGCTTTAGTCATCTGAAGGTTAGATCTGTTATGTATCTGCTTTCCATCGAAATGGAGATG
131 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGGATCTGCTCTCCATCGAAATGGAGATA
16161784 CCAGA
196 CCAGA
16161789 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
16161854 GTGAAAACCAAATCAGCTATGTCTTTGATTTTTTTCCTTGTAAGCACAAGTATGCCAAACCATCT
66 GTGAAAACCAAATCAGCTATGTCTTTGA-TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
16161919 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGGATCTGCTCTCCGTCGAAATG
130 TGGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGGATCTGCTCTCCATCGAAATG
16161984 GAGATACCAGA
190 GAGATACCAGA
*
16161995 CTTCAATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
16162060 GTGAAAGCCAAATCAGCTATGTCTTCT-ATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAACCAAATCAGCTATGTCTT-TGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
16162124 TAGATCTGCT
130 TGGATCTGCT
16162134 ATGTATCTGC
Statistics
Matches: 318, Mismatches: 20, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
200 87 0.27
201 46 0.14
203 1 0.00
205 43 0.14
206 140 0.44
207 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (200 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGGATCTGCTCTCCATCGAAATGGAGATA
CCAGA
Found at i:16162200 original size:87 final size:87
Alignment explanation
Indices: 16161949--16162220 Score: 236
Period size: 87 Copynumber: 3.1 Consensus size: 87
16161939 CATCTGAAGG
* * * * *
16161949 TTAGATCTGCTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATTTATTCTCTGAC
1 TTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTAAT
16162014 AATACAGAGATGCCAAATCATC
66 AATACAGAGATGCCAAATCATC
* ** * * * * *
16162036 TTAGATTTGCT-T-CATC-G-TAAGCACGT-GAAA-GCCAAATCAGCTATGTCTTCTATTTGTTC
1 TTAGATCTGCTATGCATCTGCT-CTC-CGTCGAAATG-GAGAT--GCCA-GACTTCAATTTGTTC
** * *
16162095 -CTTGTAAGCACA-AGGATGCCAAACCATC
60 TCTAATAA-TACAGA-GATGCCAAATCATC
* *
16162123 TTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTAAT
1 TTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTAAT
16162188 AATACAGAGATGCCAAATCATC
66 AATACAGAGATGCCAAATCATC
*
16162210 TTAGATTTGCT
1 TTAGATCTGCT
16162221 TCAGCGTAAA
Statistics
Matches: 139, Mismatches: 30, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
83 2 0.01
84 9 0.06
85 6 0.04
86 8 0.06
87 87 0.63
88 10 0.07
89 6 0.04
90 9 0.06
91 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (87 bp):
TTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTAAT
AATACAGAGATGCCAAATCATC
Found at i:16162239 original size:174 final size:174
Alignment explanation
Indices: 16161949--16162307 Score: 628
Period size: 174 Copynumber: 2.1 Consensus size: 174
16161939 CATCTGAAGG
*
16161949 TTAGATCTGCTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATTTATTCTCTGAC
1 TTAGATCTGCTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATTTATTCTCTAAC
* *
16162014 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
*
16162079 TGTCTTCTATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
131 TGTCTTCTATTTGATCCTTGTAAGCACAAGGATGCCAAACCATC
* * * * *
16162123 TTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTAAT
1 TTAGATCTGCTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATTTATTCTCTAAC
16162188 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
16162253 TGTCTTCTATTTGATCCTTGTAAGCACAAGGATGCCAAACCATC
131 TGTCTTCTATTTGATCCTTGTAAGCACAAGGATGCCAAACCATC
*
16162297 TTGGATCTGCT
1 TTAGATCTGCT
16162308 TTAGTATAAA
Statistics
Matches: 175, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (174 bp):
TTAGATCTGCTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATTTATTCTCTAAC
AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
TGTCTTCTATTTGATCCTTGTAAGCACAAGGATGCCAAACCATC
Found at i:16162290 original size:87 final size:87
Alignment explanation
Indices: 16162022--16162308 Score: 275
Period size: 87 Copynumber: 3.3 Consensus size: 87
16162012 ACAATACAGA
* * *
16162022 GATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCT
1 GATGCCAAACCATCTTAGATCTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCT
16162087 ATTTGTTCCTTGTAAGCACAAG
66 ATTTGTTCCTTGTAAGCACAAG
* ** * * *
16162109 GATGCCAAACCATCTTAGATCTGCTATGTATCTGCT-CTC-CGTCGAAATG-GAGAT--GCCA-G
1 GATGCCAAACCATCTTAGATCTGCT-T-CATC-G-TAAACACGT-GAAA-GCCAAATCAGCTATG
* * ** *
16162168 ACTTCGATTTGTTCTCTAATAA-TAC-AG
60 TCTTCTATTTGTTC-CTTGTAAGCACAAG
* * *
16162195 AGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTC
1 -GATGCCAAACCATCTTAGATCTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTC
*
16162260 TATTTGATCCTTGTAAGCACAAG
65 TATTTGTTCCTTGTAAGCACAAG
*
16162283 GATGCCAAACCATCTTGGATCTGCTT
1 GATGCCAAACCATCTTAGATCTGCTT
16162309 TAGTATAAAC
Statistics
Matches: 153, Mismatches: 31, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
83 2 0.01
84 9 0.06
85 5 0.03
86 11 0.07
87 98 0.64
88 11 0.07
89 6 0.04
90 9 0.06
91 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (87 bp):
GATGCCAAACCATCTTAGATCTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCT
ATTTGTTCCTTGTAAGCACAAG
Found at i:16162443 original size:379 final size:380
Alignment explanation
Indices: 16161743--16162512 Score: 1301
Period size: 379 Copynumber: 2.0 Consensus size: 380
16161733 CATCTGAAGG
* * *
16161743 TTAGATCTGTTATGTATCTGCTTTCCATCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTGAC
1 TTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTAAC
* *
16161808 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAACCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAACCAAATCAGCTA
** *
16161873 TGTCTTTGATTTTTTTCCTTGTAAGCACAAGTATGCCAAACCATCTTGGATCTGCTTCAGTATAA
131 TGTCTTTGATTTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAA
*
16161938 ACATCTGAAGGTTAGATCTGCTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATT
196 ACATCTGAAGGTTAGATCTACTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATT
* * *
16162003 TATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
261 TATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACACGTGAAAGC
*
16162068 CAAATCAGCTATGTCTTCTATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
326 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
* * *
16162123 TTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTAAT
1 TTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTAAC
*
16162188 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAACCAAATCAGCTA
*
16162253 TGTCTTCT-A-TTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTTAGTATA
131 TGTCTT-TGATTTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATA
* * * *
16162316 AACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCTAGACTTCGAT
195 AACATCTGAAGGTTAGATCTACTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAAT
*
16162381 TTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACACGTGAAAG
260 TTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACACGTGAAAG
16162446 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
325 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
*
16162502 TTGGATCTGCT
1 TTAGATCTGCT
16162513 TCAGTATAAA
Statistics
Matches: 365, Mismatches: 24, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
379 236 0.65
380 128 0.35
381 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (380 bp):
TTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCAATTTGTTCTCTAAC
AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAACCAAATCAGCTA
TGTCTTTGATTTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAA
ACATCTGAAGGTTAGATCTACTATGGATCTGCTCTCCGTCGAAATGGAGATACCAGACTTCAATT
TATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACACGTGAAAGC
CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
Found at i:16162478 original size:205 final size:205
Alignment explanation
Indices: 16162123--16162722 Score: 1011
Period size: 205 Copynumber: 2.9 Consensus size: 205
16162113 CCAAACCATC
* * *
16162123 TTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTAAT
1 TTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGAC
16162188 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
* *
16162253 TGTCTTCTATTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTTAGTATAAA
131 TGTCTTCGATTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAA
*
16162318 CATCTGAAGG
196 CATCTAAAGG
*
16162328 TTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGAC
1 TTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGAC
*
16162393 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAACACGTGAAAGCCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
*
16162458 TGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAA
131 TGTCTTCGATTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAA
16162523 CATCTAAAGG
196 CATCTAAAGG
* * *
16162533 TTAGATCTACTATGTATTTGCTCTCCGTCGAAATGGAGATGCCAAACTTCGATTTGCTCTCTGAC
1 TTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGAC
* * ** *
16162598 AATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACACGAAAACCAAATCAGCTA
66 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
* * *
16162663 TGTCTTCGATTTGCTCATTGTAAGCACAAGGACGCCAAACCATCTTGGATCTTGCTTCAG
131 TGTCTTCGATTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC-TGCTTCAG
16162723 CCAGATCTGC
Statistics
Matches: 372, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
205 364 0.98
206 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
TTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGAC
AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGCTA
TGTCTTCGATTTGATCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAA
CATCTAAAGG
Found at i:16163675 original size:1 final size:1
Alignment explanation
Indices: 16163665--16163728 Score: 92
Period size: 1 Copynumber: 64.0 Consensus size: 1
16163655 GGCCTCTCCA
* * * *
16163665 TTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16163729 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:16169423 original size:19 final size:19
Alignment explanation
Indices: 16169381--16169441 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
16169371 CATGTCATAT
16169381 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
16169399 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
16169417 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
16169436 CATATC
1 CATATC
16169442 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:16169629 original size:51 final size:51
Alignment explanation
Indices: 16169571--16169670 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
16169561 ATTTTTTTGG
16169571 GGGGTTTATTATATTTTTATTTTTAGACATATTTCTGGGCCCGGGTAAATT
1 GGGGTTTATTATATTTTTATTTTTAGACATATTTCTGGGCCCGGGTAAATT
16169622 GGGGTTTATTATATTTTTATTTTTAGACATATTTCTGGGCCCGGGTAAA
1 GGGGTTTATTATATTTTTATTTTTAGACATATTTCTGGGCCCGGGTAAA
16169671 ATTAAGTGTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (51 bp):
GGGGTTTATTATATTTTTATTTTTAGACATATTTCTGGGCCCGGGTAAATT
Found at i:16170696 original size:28 final size:28
Alignment explanation
Indices: 16170650--16170705 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
16170640 TCATTTGGAA
* *
16170650 ATCATACCAATAAATTCTAATATTCTTT
1 ATCATACCAACAAACTCTAATATTCTTT
16170678 ATCATACCAACAAACTCTAATATTCTTT
1 ATCATACCAACAAACTCTAATATTCTTT
16170706 CTTTCCTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (28 bp):
ATCATACCAACAAACTCTAATATTCTTT
Found at i:16171574 original size:18 final size:17
Alignment explanation
Indices: 16171517--16171575 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
16171507 GTAAAATTGT
*
16171517 TATGTGAAGTGAATAAG
1 TATGTGAAGTGAATAAA
*
16171534 T-TCGTGAAGTGAAGTAGA
1 TAT-GTGAAGTGAA-TAAA
*
16171552 CATGTGAAGTGAATTAAA
1 TATGTGAAGTGAA-TAAA
16171570 TATGTG
1 TATGTG
16171576 TAATTCTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
18 20 0.61
19 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (17 bp):
TATGTGAAGTGAATAAA
Found at i:16174794 original size:26 final size:26
Alignment explanation
Indices: 16174762--16174815 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
16174752 GAAAACGTAT
*
16174762 AAAAATTTATAATATATAAATTAATA
1 AAAAATTTAAAATATATAAATTAATA
* *
16174788 AAAAATTTAAAATTTATAAATTTATA
1 AAAAATTTAAAATATATAAATTAATA
16174814 AA
1 AA
16174816 TATATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAAATTTAAAATATATAAATTAATA
Found at i:16175162 original size:43 final size:43
Alignment explanation
Indices: 16175101--16175186 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
16175091 TCGAAATCTC
*
16175101 ATTTTCGTAAACCAAGTCTGTAAATATAAAATAAGAATATTTA
1 ATTTTCATAAACCAAGTCTGTAAATATAAAATAAGAATATTTA
*
16175144 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
1 ATTTTCATAAACCAAGTCTGTAAATATAAAATAAGAATATTTA
16175187 CAGAGTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (43 bp):
ATTTTCATAAACCAAGTCTGTAAATATAAAATAAGAATATTTA
Found at i:16186396 original size:42 final size:42
Alignment explanation
Indices: 16186271--16186396 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
16186261 TGCTAGTCCC
* * *
16186271 ACTTCTTCTGGGTTACTTAGGAGTTCTCATATGACAACTCCT
1 ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
* * *
16186313 ACTTTTTCCGAGTTACTTAGGAGTTCTCCTATAACTACTCCT
1 ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
* * * * *
16186355 ACTTCTTCCGGGTTAATTAGGAATCCTCCTATGCCTGCTCCT
1 ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
16186397 CCTTAAAATA
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (42 bp):
ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
Found at i:16189434 original size:23 final size:24
Alignment explanation
Indices: 16189371--16189419 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
16189361 CCATAATAAA
16189371 ACCATAATAAATAAATAAATAACT
1 ACCATAATAAATAAATAAATAACT
16189395 ACCATAATAAATAAATAAA-AACT
1 ACCATAATAAATAAATAAATAACT
16189418 AC
1 AC
16189420 TCACATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.22
Consensus pattern (24 bp):
ACCATAATAAATAAATAAATAACT
Found at i:16190068 original size:10 final size:9
Alignment explanation
Indices: 16190020--16190146 Score: 64
Period size: 9 Copynumber: 13.7 Consensus size: 9
16190010 ATATTTTCTC
*
16190020 ATAAAAAAT
1 ATAAAAATT
*
16190029 ATTAAAATT
1 ATAAAAATT
*
16190038 GATATAAACTT
1 -ATA-AAAATT
16190049 -TAAAAATT
1 ATAAAAATT
16190057 ATAAAAATTT
1 ATAAAAA-TT
*
16190067 ATAAGAAATC
1 ATAA-AAATT
* *
16190077 ACACAAACTT
1 ATA-AAAATT
*
16190087 ATAAATATT
1 ATAAAAATT
16190096 ATAAAAATT
1 ATAAAAATT
16190105 -TATAAAATCT
1 ATA-AAAAT-T
*
16190115 A-ATAAATT
1 ATAAAAATT
* *
16190123 TTAAAAAGT
1 ATAAAAATT
16190132 AT-AAAATT
1 ATAAAAATT
16190140 GATAAAA
1 -ATAAAA
16190147 CATATTTAAA
Statistics
Matches: 87, Mismatches: 19, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
8 13 0.15
9 44 0.51
10 21 0.24
11 9 0.10
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:16190203 original size:19 final size:18
Alignment explanation
Indices: 16190181--16190246 Score: 78
Period size: 18 Copynumber: 3.5 Consensus size: 18
16190171 GTAAAACTCA
16190181 AAAATAAAATAAAAATTAT
1 AAAA-AAAATAAAAATTAT
*
16190200 AAAAAAAATATAAAAATACT
1 AAAAAAAATA-AAAATTA-T
* *
16190220 AAAAAAATTAGAAATTAT
1 AAAAAAAATAAAAATTAT
16190238 AAAAAAAAT
1 AAAAAAAAT
16190247 TAAAGTCTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 15 0.38
19 15 0.38
20 10 0.25
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAAAAATAAAAATTAT
Found at i:16190212 original size:20 final size:19
Alignment explanation
Indices: 16190180--16190250 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
16190170 TGTAAAACTC
*
16190180 AAAAATAAAATAAAAATTAT
1 AAAAA-AAATTAAAAATTAT
16190200 AAAAAAAATATAAAAA-TACT
1 AAAAAAAAT-TAAAAATTA-T
*
16190220 -AAAAAAATTAGAAATTAT
1 AAAAAAAATTAAAAATTAT
16190238 AAAAAAAATTAAA
1 AAAAAAAATTAAA
16190251 GTCTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 6 0.14
19 26 0.59
20 12 0.27
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (19 bp):
AAAAAAAATTAAAAATTAT
Found at i:16196428 original size:17 final size:16
Alignment explanation
Indices: 16196408--16196455 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
16196398 CCCAATATTA
*
16196408 TTATTCTATAATTTTTT
1 TTATT-TATAAATTTTT
*
16196425 TTATTTTTAAATTTTT
1 TTATTTATAAATTTTT
* *
16196441 TTATATATATATTTT
1 TTATTTATAAATTTT
16196456 AGAATTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTATAAATTTTT
Found at i:16196476 original size:22 final size:23
Alignment explanation
Indices: 16196429--16196487 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
16196419 TTTTTTTTAT
* *
16196429 TTTTAAATTTTTTTATATATATA
1 TTTTAAATTTTTTTATATAGAAA
16196452 TTTTAGAATTTTTTT-T-TAGAAA
1 TTTTA-AATTTTTTTATATAGAAA
16196474 TTTTATAATTTTTT
1 TTTTA-AATTTTTT
16196488 AAAAATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.53
23 6 0.19
24 9 0.28
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (23 bp):
TTTTAAATTTTTTTATATAGAAA
Found at i:16196530 original size:18 final size:18
Alignment explanation
Indices: 16196471--16196549 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
16196461 TTTTTTTTAG
*
16196471 AAATTTTAT-AATTTTTT
1 AAATTTTATAAATATTTT
** *
16196488 AAA-AATATAAAT-TTTG
1 AAATTTTATAAATATTTT
*
16196504 AAACCTTTATAAATATTTT
1 AAA-TTTTATAAATATTTT
*
16196523 AAATTTTAAAAATTATTTT
1 AAATTTTATAAA-TATTTT
16196542 ATAATTTT
1 A-AATTTT
16196550 TATTGAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
16 9 0.19
17 6 0.12
18 14 0.29
19 13 0.27
20 6 0.12
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (18 bp):
AAATTTTATAAATATTTT
Found at i:16207066 original size:30 final size:31
Alignment explanation
Indices: 16207019--16207077 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16207009 CACCCTTAAA
* * *
16207019 ATATTTGCACTATTAATCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
16207050 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
16207078 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:16207085 original size:30 final size:31
Alignment explanation
Indices: 16207018--16207087 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
16207008 CCACCCTTAA
* * *
16207018 AATATTTGCACTATTAATCCTTCAACTTTTT
1 AATATTTACACTATTAATCCCTCAACATTTT
*
16207049 CATATTTACACT-TTAATCCCTCAA-ATTTT
1 AATATTTACACTATTAATCCCTCAACATTTT
16207078 AAGTATTTAC
1 AA-TATTTAC
16207088 TCTTAGGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAACATTTT
Found at i:16208746 original size:22 final size:24
Alignment explanation
Indices: 16208703--16208747 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
16208693 ATCATTATCA
16208703 ACCAATCTCATGTTCATAACATAT
1 ACCAATCTCATGTTCATAACATAT
*
16208727 ACCAAT-TCATG-TCATTACATA
1 ACCAATCTCATGTTCATAACATA
16208748 AGTCAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.33
Consensus pattern (24 bp):
ACCAATCTCATGTTCATAACATAT
Found at i:16209632 original size:44 final size:42
Alignment explanation
Indices: 16209488--16209644 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
16209478 AGCTCATACA
* * *
16209488 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AACCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATC-AA-ATCG
* * *
16209531 ATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAAT-CG
**
16209573 ATGCTGATGTCCCAGACATGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCA-AA-TCG
16209617 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
16209645 CAAAAACACA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 34 0.35
44 30 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATCG
Found at i:16209677 original size:86 final size:84
Alignment explanation
Indices: 16209499--16209670 Score: 204
Period size: 86 Copynumber: 2.0 Consensus size: 84
16209489 TGCCAACGTC
* * *
16209499 CCAGACGTGGTCTTACATGTAACCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAAA
1 CCAGACATGGTCTTACATGTAACCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACAAAA
* *
16209564 TCAAATACGATGCTGATGT
66 ACAAATACGATCCTGATGT
* * *
16209583 CCCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCCAATGTCCCAGACATGGTCTTACACA
1 -CCAGACATGGTCTTACATGT-AACCA-AATATCGATGCCAATGTCCCAGACAGGGTCTTACACA
*
16209647 AAAACACATATCGGATCCT-ATGT
63 AAAACAAATA-C-GATCCTGATGT
16209670 C
1 C
16209671 ATGACATATG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 19 0.26
86 43 0.58
87 7 0.09
88 5 0.07
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (84 bp):
CCAGACATGGTCTTACATGTAACCAAATATCGATGCCAATGTCCCAGACAGGGTCTTACACAAAA
ACAAATACGATCCTGATGT
Found at i:16212727 original size:71 final size:71
Alignment explanation
Indices: 16212611--16212748 Score: 249
Period size: 71 Copynumber: 1.9 Consensus size: 71
16212601 AGATAATTAG
* *
16212611 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTGTAATATAATTATAAGTACATATAA
1 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTACATATAA
16212676 AATCAT
66 AATCAT
*
16212682 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTTCATATAA
1 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTACATATAA
16212747 AA
66 AA
16212749 CTTTTGCTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (71 bp):
ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTACATATAA
AATCAT
Found at i:16214291 original size:15 final size:15
Alignment explanation
Indices: 16214249--16214291 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16214239 TATTTACTAT
* *
16214249 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
16214264 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
16214278 AAAATAAATAACTT
1 AAAATAAATAACTT
16214292 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:16219056 original size:147 final size:147
Alignment explanation
Indices: 16218789--16219082 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
16218779 ACGTGTTCTG
16218789 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
1 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
16218854 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
66 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
*
16218919 ATACTAATCTCTATGAT
131 ATAATAATCTCTATGAT
16218936 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
1 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
16219001 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
66 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
16219066 ATAATAATCTCTATGAT
131 ATAATAATCTCTATGAT
16219083 GATATTGGTG
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (147 bp):
ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
ATAATAATCTCTATGAT
Found at i:16221983 original size:15 final size:15
Alignment explanation
Indices: 16221941--16221983 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16221931 TATTTACTAT
* *
16221941 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
16221956 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
16221970 AAAATAAATAACTT
1 AAAATAAATAACTT
16221984 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:16222005 original size:79 final size:79
Alignment explanation
Indices: 16221914--16222072 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
16221904 TTCAATAAAA
16221914 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
1 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
16221979 AACTTGAATTATAG
66 AACTTGAATTATAG
16221993 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
1 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
16222058 AACTTGAATTATAG
66 AACTTGAATTATAG
16222072 T
1 T
16222073 AATACAAACC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (79 bp):
TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
AACTTGAATTATAG
Found at i:16222062 original size:15 final size:15
Alignment explanation
Indices: 16222020--16222062 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16222010 TATTTACTAT
* *
16222020 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
16222035 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
16222049 AAAATAAATAACTT
1 AAAATAAATAACTT
16222063 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:16222206 original size:6 final size:6
Alignment explanation
Indices: 16222185--16222227 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
16222175 AAATCCTTAG
* * *
16222185 TTTTCT ATTTTAT TTTTCT TTTCCT TTTTCT TTCTCT TTTTCT
1 TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
16222228 CCACTGCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:16227671 original size:43 final size:42
Alignment explanation
Indices: 16227607--16227701 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
16227597 CGGAAAGCTC
* *
16227607 ATACAATGCCAACGTCCTAGAC-GTGGTCTTACATGTAACCAA
1 ATACAATGCCAACGTCCTAGACAG-GGTCTTACACGAAACCAA
** * *
16227649 ATATCAATGCCATTGTCCTAGACAGGGTTTTACACGAAATCAA
1 ATA-CAATGCCAACGTCCTAGACAGGGTCTTACACGAAACCAA
16227692 ATACAATGCC
1 ATACAATGCC
16227702 GATGTCCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 10 0.22
43 34 0.76
44 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAACGTCCTAGACAGGGTCTTACACGAAACCAA
Found at i:16229529 original size:22 final size:23
Alignment explanation
Indices: 16229490--16229534 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
16229480 TATTTTGATC
*
16229490 ATTTTTATACATTTTTAT-TTTA
1 ATTTTTACACATTTTTATCTTTA
16229512 ATTTTTACA-ATTTATTATCTTTA
1 ATTTTTACACATTT-TTATCTTTA
16229535 TCAGTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTACACATTTTTATCTTTA
Found at i:16235515 original size:180 final size:180
Alignment explanation
Indices: 16235264--16235590 Score: 494
Period size: 180 Copynumber: 1.8 Consensus size: 180
16235254 AATTTTCTAT
* * * * *
16235264 GAAACTAGACGCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTCTAGCCAATAAGTAT
1 GAAACTAGACGCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTCTAGCCAATAAGTAC
* ** *
16235329 AGTTTATTCATTAAATATACCTCTGTTTTGCTGTCCGACAGTT-TCGAGCTCTCTTCACTAAAAA
66 AGTTTATTCATTAAATATACCCCTGTTTCACTGTCCGACAGTTCT-GACCTCTCTTCACTAAAAA
16235393 TTATTTATTTCATGGTACGAGACTCCAAATTGAGAACAACTAATTTTACCA
130 TTATTTATTTCATGGTACGAGACTCCAAATTGAGAACAACTAATTTTACCA
* * * * * *
16235444 GAAACTAGACTCACATATATTATTATCATAAAATTTTTAGAATTTTTAGTTTAGCTAATTAGTAC
1 GAAACTAGACGCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTCTAGCCAATAAGTAC
*
16235509 AGTTTATTCATTAAATATACCCCTGTTTCACTGTCCGACAGTTCTGACCTCTCTTCACTAATAAT
66 AGTTTATTCATTAAATATACCCCTGTTTCACTGTCCGACAGTTCTGACCTCTCTTCACTAAAAAT
16235574 TATTTATTTCATGGTAC
131 TATTTATTTCATGGTAC
16235591 AACTCTCGGA
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
180 129 0.99
181 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (180 bp):
GAAACTAGACGCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTCTAGCCAATAAGTAC
AGTTTATTCATTAAATATACCCCTGTTTCACTGTCCGACAGTTCTGACCTCTCTTCACTAAAAAT
TATTTATTTCATGGTACGAGACTCCAAATTGAGAACAACTAATTTTACCA
Found at i:16236358 original size:101 final size:100
Alignment explanation
Indices: 16236156--16236533 Score: 339
Period size: 101 Copynumber: 3.8 Consensus size: 100
16236146 CTGGTACGCA
* * * * ** *
16236156 TAGTAGCCTGCATTTAGTACTACACATGTGACC-TATGAATCTGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCGAACCAA-CGGGTACACGTAGTAGCCTGCACT
* * * *
16236220 TAGTACTACACACGTGACTTATCCATCTGATACACG
65 TAGTACTACACATGCGACCTATCAATCTGATACACG
** * ** *
16236256 TAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTAACGGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCGAA-CCAACGGGTACACGTAGTAGCCTGCACT
* * * *
16236321 TAGTACTATACATGCGACCTATCAATTTGGTATACG
65 TAGTACTACACATGCGACCTATCAATCTGATACACG
* * * * *
16236357 TAGTAGCCTACACTTAGTACTACATACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCGAACCAACGGGTACACGTAGTAGCCTGCACTT
* ** * * * *
16236422 AGTACTACACATGTGATCGAAACTATC-GAGTACGCA
66 AGTACTACACATGCGA-CCTATCAATCTGA-TACACG
* * * * *
16236458 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGACCGAACCAA-CGGGTACACGTAGTAGCCTGCACT
*
16236522 TAGTGCTACACA
65 TAGTACTACACA
16236534 CGTAACCTAA
Statistics
Matches: 228, Mismatches: 45, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
100 69 0.30
101 156 0.68
102 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCGAACCAACGGGTACACGTAGTAGCCTGCACTT
AGTACTACACATGCGACCTATCAATCTGATACACG
Found at i:16236411 original size:151 final size:151
Alignment explanation
Indices: 16236148--16236585 Score: 615
Period size: 151 Copynumber: 2.9 Consensus size: 151
16236138 GAAGCTCTCT
* * *
16236148 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGTGACCTATGAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
16236213 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGTACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
**
16236278 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAACTAACG
* * * *
16236299 GGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCTATCAATTTGGTATACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
16236364 CTACACTTAGTACTACATACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* *
16236429 CACATGTGATCGAAACTATCG
131 CACACGTGATCGAAACTAACG
* *
16236450 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * ** * * * * *
16236515 CTGCACTTAGTGCTACACACGTAACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTAT
66 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
16236580 TACACA
129 TACACA
16236586 TGTGTTCTCA
Statistics
Matches: 252, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 217 0.86
153 35 0.14
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAACTAACG
Found at i:16236543 original size:50 final size:50
Alignment explanation
Indices: 16236145--16236543 Score: 424
Period size: 50 Copynumber: 7.9 Consensus size: 50
16236135 ACCGAAGCTC
* * * * **
16236145 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGTGACCTATGAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
16236195 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * *
16236245 TCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAA
* * * * * *
16236297 -CGGGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * *
16236346 TTTGGTATACGTAGTAGCCTACACTTAGTACTACATACGTGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * ** *
16236396 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* * * *
16236447 TC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* *
16236497 TCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTAACCTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
16236544 AACTGTCTTA
Statistics
Matches: 284, Mismatches: 59, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
49 2 0.01
50 203 0.71
51 78 0.27
52 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:16237267 original size:30 final size:30
Alignment explanation
Indices: 16237223--16237281 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
16237213 AAAAATCAAT
* * *
16237223 ACTTTTACAAATTTGTATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
16237253 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTGCACTTTGACCCCTA
16237282 GGCTCATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:16246201 original size:20 final size:19
Alignment explanation
Indices: 16246153--16246204 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
16246143 CAAGTGTATG
*
16246153 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
16246171 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
16246190 GTATATAATAATATA
1 GTA-AAAATAATATA
16246205 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:16246365 original size:13 final size:13
Alignment explanation
Indices: 16246324--16246366 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
16246314 TAAGTAAAAT
16246324 GAAAGAAAAAGAAA
1 GAAAGAAAAAG-AA
*
16246338 GAAGGAAAAA-AA
1 GAAAGAAAAAGAA
*
16246350 GAAAGAAAAAGGA
1 GAAAGAAAAAGAA
16246363 GAAA
1 GAAA
16246367 AAGCTAGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 11 0.44
13 5 0.20
14 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAGAA
Found at i:16246367 original size:19 final size:20
Alignment explanation
Indices: 16246331--16246369 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16246321 AATGAAAGAA
16246331 AAAGAAAGAAGGAAAAAAAG
1 AAAGAAAGAAGGAAAAAAAG
*
16246351 AAAGAAA-AAGGAGAAAAAG
1 AAAGAAAGAAGGAAAAAAAG
16246370 CTAGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAGGAAAAAAAG
Found at i:16249105 original size:15 final size:14
Alignment explanation
Indices: 16249061--16249099 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
16249051 GGCTGTGGAT
*
16249061 TTGGGTTTTAA-AA
1 TTGGTTTTTAAGAA
16249074 CTTGGTTTTTAAGAA
1 -TTGGTTTTTAAGAA
16249089 TTGGTTTTTAA
1 TTGGTTTTTAA
16249100 CTAATTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGGTTTTTAAGAA
Found at i:16253146 original size:23 final size:23
Alignment explanation
Indices: 16253116--16253204 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 23
16253106 CTGATGGACA
* *
16253116 GTAAGCTCTATTAAGCTGAATCG
1 GTAAGCTCCATTGAGCTGAATCG
* * * *
16253139 GTAAGCTCCAATGAGTTGAAACA
1 GTAAGCTCCATTGAGCTGAATCG
* * * *
16253162 GCAAGCTCTATCGAGTTGAATCG
1 GTAAGCTCCATTGAGCTGAATCG
16253185 GTAAGCTCCATTGAGCTGAA
1 GTAAGCTCCATTGAGCTGAA
16253205 ATAGTAAACT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (23 bp):
GTAAGCTCCATTGAGCTGAATCG
Found at i:16253182 original size:46 final size:46
Alignment explanation
Indices: 16253113--16253238 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
16253103 GAGCTGATGG
** *
16253113 ACAGTAAGCTCTATTAAGCTGAATCGGTAAGCTCCAATGAGTTGAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
* * *
16253159 ACAGCAAGCTCTATCGAGTTGAATCGGTAAGCTCCATTGAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
* * *
16253205 ATAGTAAACTCT-TACGAGCTAAATCGGTAAGCTC
1 ACAGTAAGCTCTAT-CGAGCTGAATCGGTAAGCTC
16253239 ATACGAGCTG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 1 0.01
46 67 0.99
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (46 bp):
ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
Found at i:16253223 original size:23 final size:24
Alignment explanation
Indices: 16253197--16253248 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
16253187 AAGCTCCATT
*
16253197 GAGCTGAAAT-AGTAAACTCTTAC
1 GAGCTGAAATCAGTAAACTCATAC
* *
16253220 GAGCT-AAATCGGTAAGCTCATAC
1 GAGCTGAAATCAGTAAACTCATAC
16253243 GAGCTG
1 GAGCTG
16253249 TGGTGAGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
GAGCTGAAATCAGTAAACTCATAC
Found at i:16254997 original size:48 final size:46
Alignment explanation
Indices: 16254895--16255161 Score: 278
Period size: 47 Copynumber: 5.6 Consensus size: 46
16254885 TTATTTGTGT
* * *
16254895 GCTAATGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATG-GGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-C-CATTGTGAGGA
*
16254941 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGTGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATTGTGA-G-GA
* *
16254989 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATG-GGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-C-CATTGTGAGGA
* *
16255035 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGG-CATTGTGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATTGTGA-G-GA
16255083 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACGAATATGTGAGG-
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGC-C--AT-TGTGAGGA
16255132 GCTAGTGTAAGATCATGTCTGGGACATGGC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGC
16255162 GTCAGCCTCA
Statistics
Matches: 189, Mismatches: 13, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
45 12 0.06
46 30 0.16
47 63 0.33
48 39 0.21
49 19 0.10
50 18 0.10
51 3 0.02
52 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATTGTGAGGA
Found at i:16255061 original size:94 final size:94
Alignment explanation
Indices: 16254895--16255161 Score: 428
Period size: 94 Copynumber: 2.8 Consensus size: 94
16254885 TTATTTGTGT
*
16254895 GCTAATGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
16254960 TGGGACATGGCATCGGCATTGTGACGAGA
66 TGGGACATGGCATCGGCATTGTGACGAGA
16254989 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
*
16255054 TGGGACATGGCATTGGCATTGTGACGAGA
66 TGGGACATGGCATCGGCATTGTGACGAGA
* * * * *
16255083 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CACGAATATGTGAGGGCTAGTGTAAGATCA
1 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCAC-ATTATG-G-GAGCCAGTGTAAGACCA
16255147 TGTCTGGGACATGGC
62 TGTCTGGGACATGGC
16255162 GTCAGCCTCA
Statistics
Matches: 162, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
94 120 0.74
95 12 0.07
96 1 0.01
97 29 0.18
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGTGACGAGA
Found at i:16255206 original size:146 final size:143
Alignment explanation
Indices: 16254939--16255264 Score: 355
Period size: 146 Copynumber: 2.3 Consensus size: 143
16254929 CACATTATGG
16254939 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGTGACGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTGTGACGAGAGCTAGTGTAAGAC
* * * * * * *
16255002 ATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
66 ATGTCTGGGACATGCATCAGCCACATTATGCGAGCAAGTGTAAGAACATGTCTAGGACATCGC-T
*
16255067 T-GGCATTG-TGACGA-
130 TCGAC-TTGAT-A-GAT
*
16255081 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACGAATATGTGA-G-G-GCTAGTGTAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--AT-TGTGACGAGAGCTAGTGTAA
* * * * *
16255142 GATCATGTCTGGGACATGGCGTCAGCCTCAGTTTTGCTAGTAAGTGTAAGAACATGTCTAGGACA
63 GA-CATGTCTGGGACAT-GCATCAGCCACA-TTATGCGAGCAAGTGTAAGAACATGTCTAGGACA
*
16255207 TCTCTTCGACTTGATAGAT
125 TCGCTTCGACTTGATAGAT
*
16255226 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
16255265 TTATACCCTA
Statistics
Matches: 155, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
141 22 0.14
142 13 0.08
143 13 0.08
144 16 0.10
145 31 0.20
146 60 0.39
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (143 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTGTGACGAGAGCTAGTGTAAGAC
ATGTCTGGGACATGCATCAGCCACATTATGCGAGCAAGTGTAAGAACATGTCTAGGACATCGCTT
CGACTTGATAGAT
Found at i:16256435 original size:20 final size:21
Alignment explanation
Indices: 16256396--16256435 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16256386 GTTATAATGA
16256396 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
16256417 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
16256436 GTTCCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:16262091 original size:40 final size:41
Alignment explanation
Indices: 16262017--16262112 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
16262007 AACTATGTTC
*
16262017 GGCACTAAGTATGC-AGTTAGAAATAACTTTGGCTACA-AA
1 GGCACTAAGTGTGCGAGTTAGAAATAACTTTGGCTACATAA
* * * *
16262056 TGGCACTAAGTGTGCGAGTT-GGAAT-AGTTTCGGCTATATGA
1 -GGCACTAAGTGTGCGAGTTAGAAATAACTTT-GGCTACATAA
16262097 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
16262113 TACCGAGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 4 0.08
40 39 0.81
41 5 0.10
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTAGAAATAACTTTGGCTACATAA
Found at i:16266129 original size:17 final size:17
Alignment explanation
Indices: 16266107--16266139 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16266097 ATTTGGTTTT
16266107 GATGTAAAGTTTGAAAA
1 GATGTAAAGTTTGAAAA
16266124 GATGTAAAGTTTGAAA
1 GATGTAAAGTTTGAAA
16266140 GGTCTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (17 bp):
GATGTAAAGTTTGAAAA
Done.