Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 22 of 127
Found at i:4972216 original size:42 final size:42
Alignment explanation
Indices: 4972115--4972701 Score: 570
Period size: 42 Copynumber: 14.0 Consensus size: 42
4972105 ATAAACAAAA
* * * * *
4972115 CTCCTTTAATCAAAGGCTCAACGACTTTTGAAAAATAAACAAGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGT-AA-ATGG
* * *
4972159 CTCTTCTAATCAGAGGCTCAACGA-TTTTGGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTT-GAAAAGTAAATGG
4972201 CTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
* **
4972242 CTCTTCTAATCAGAGGCTCAACAAC-TTTGAAAA-TAACTAAAG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAA--ATGG
** **
4972284 CTTATCTAATCAGAGGCTCAATGACTTTT-AGAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGA-AAAGTAAATGG
**
4972326 CTCCTCTAATCAGAGGCTCAATGACTTTTGAAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
* **
4972368 CTCCTCTAATCAGAAGCTCAACAAC-TTTGAAAA-TAACTAAAG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAA--ATGG
*
4972410 CTCATCTAATCAGAGGCTCAACAACTTTT-AGAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGA-AAAGTAAATGG
* * *
4972452 CTCCTCTAATTAGAGGCTCAACGACTTTTGAAAAGTAAATTG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
* * * *
4972494 CTCCTTTAAAT-AGAGGCACCACAAC-TTTGAAAAGTAAATTG
1 CTCCTCT-AATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
** * *
4972535 CTCCTCTAAAAAGAGGCACATCAACTTTTGAAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
* * *
4972577 CTCCTATAATCAGAGGCTCAACGACTTTTGAAAAGTAAATTG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
* * * *
4972619 CTCCTCTAAACAGAGAG-GCACCTTAACTTTTGAAAAGTAAATTG
1 CTCCTCTAATCAGAG-GCTCAAC--AACTTTTGAAAAGTAAATGG
* * * *
4972663 CTCCTCTAAAT-AAAGGCACCACAACTTTGGAAAA-TAAAT
1 CTCCTCT-AATCAGAGGCTCAACAACTTTTGAAAAGTAAAT
4972702 TGTTCCTTGA
Statistics
Matches: 463, Mismatches: 58, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
40 8 0.02
41 91 0.20
42 272 0.59
43 25 0.05
44 65 0.14
45 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (42 bp):
CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
Found at i:4972397 original size:126 final size:126
Alignment explanation
Indices: 4972115--4972632 Score: 638
Period size: 126 Copynumber: 4.1 Consensus size: 126
4972105 ATAAACAAAA
* * * *
4972115 CTCCTTTAATCA-AAGGCTCAACGACTTTTGAAAAATAAACAAGGCTCTTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAA-GCTCAACAAC-TTTG-AAAAT-AACAAAGCTCATCTAATCAGAGGCTCA
* * * *
4972179 ACGA-TTTTGGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATGG
62 ACAACTTTTAGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATGG
* * * **
4972242 CTCTTCTAATCAGAGGCTCAACAACTTTGAAAATAACTAAAGCTTATCTAATCAGAGGCTCAATG
1 CTCCTCTAATCAGAAGCTCAACAACTTTGAAAATAAC-AAAGCTCATCTAATCAGAGGCTCAACA
*
4972307 ACTTTTAG-AAAGTAAATGGCTCCTCTAATCAGAGGCTCAATGACTTTTGAAAAGTAAATGG
65 ACTTTTAGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATGG
4972368 CTCCTCTAATCAGAAGCTCAACAACTTTGAAAATAACTAAAGCTCATCTAATCAGAGGCTCAACA
1 CTCCTCTAATCAGAAGCTCAACAACTTTGAAAATAAC-AAAGCTCATCTAATCAGAGGCTCAACA
* *
4972433 ACTTTTAG-AAAGTAAATGGCTCCTCTAATTAGAGGCTCAACGACTTTTGAAAAGTAAATTG
65 ACTTTTAGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATGG
* * * * ** * ** * *
4972494 CTCCTTTAAAT-AGAGGCACCACAACTTTGAAAAGTAA-ATTGCTCCTCTAAAAAGAGGCACATC
1 CTCCTCT-AATCAGAAGCTCAACAACTTTGAAAA-TAACAAAGCTCATCTAATCAGAGGCTCAAC
* *
4972557 AACTTTT-GAAAAGTAAATGGCTCCTATAATCAGAGGCTCAACGACTTTTGAAAAGTAAATTG
64 AACTTTTAGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATGG
*
4972619 CTCCTCTAAACAGA
1 CTCCTCTAATCAGA
4972633 GAGGCACCTT
Statistics
Matches: 348, Mismatches: 35, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
124 6 0.02
125 148 0.43
126 168 0.48
127 25 0.07
128 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (126 bp):
CTCCTCTAATCAGAAGCTCAACAACTTTGAAAATAACAAAGCTCATCTAATCAGAGGCTCAACAA
CTTTTAGAAAAGTAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATGG
Found at i:4973268 original size:22 final size:21
Alignment explanation
Indices: 4973221--4973279 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
4973211 GGTTTCACTC
4973221 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
**
4973243 CTCAAAGATTCTCATTTGAGTT
1 CTCAAAGATTCTCATTTGA-AA
*
4973265 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
4973280 CAAAATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:4974428 original size:19 final size:19
Alignment explanation
Indices: 4974386--4974449 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
4974376 AATTTGAATC
4974386 TCTTTTTTT-TC-ATT-TT
1 TCTTTTTTTCTCTATTCTT
*
4974402 CTCATTTTTTCGTCT-TTCTT
1 -TCTTTTTTTC-TCTATTCTT
*
4974422 TCTTTTTTTCTCTATTTTT
1 TCTTTTTTTCTCTATTCTT
4974441 TCTTTTTTT
1 TCTTTTTTT
4974450 GTTCATCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 26 0.67
20 2 0.05
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (19 bp):
TCTTTTTTTCTCTATTCTT
Found at i:4974476 original size:22 final size:22
Alignment explanation
Indices: 4974420--4974478 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
4974410 TTCGTCTTTC
4974420 TTTCTTTTTTTC-TCTATTTTT
1 TTTCTTTTTTTCATCTATTTTT
4974441 TCTT-TTTTTGTTCATC-ATTTTT
1 T-TTCTTTTT-TTCATCTATTTTT
4974463 TTTCTTATTTTTCATC
1 TTTCTT-TTTTTCATC
4974479 CATTGTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 8 0.24
22 20 0.61
23 5 0.15
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTATTTTT
Found at i:4978502 original size:58 final size:57
Alignment explanation
Indices: 4978434--4978765 Score: 348
Period size: 58 Copynumber: 5.7 Consensus size: 57
4978424 TTGTACAGGA
* *
4978434 AAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGAAAACTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAAC-TTAATTTCAAGG
** * *
4978492 AAAATTGATACTTTCAACTTTTCTCCAAAAAT-TCGCTTTTGAGAACTT-GTTTCTAAGG
1 AAAATTGATACTTTCAACTTTTC-CCAAAAATAT-TTTTTTGAAAACTTAATTTC-AAGG
** *** *
4978550 AAAATTGATACTTTCAACTTTTCTTAAAAATCCATTTTTGAAAACTT-ATTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTAATTTCAAGG
* * * *
4978606 AGAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTAGAAAGCTTATTTTCAA-G
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATA-TTTTTTT-GAAAACTTAATTTCAAGG
* * * * * *
4978665 AAATTTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAAACTTAATTTCAAGG
*
4978723 AAAATTGATACTTACAACTTTTCCTCAAAAATATTTTTTTGAA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAA
4978766 TTTTATTTAA
Statistics
Matches: 229, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
56 21 0.09
57 50 0.22
58 107 0.47
59 46 0.20
60 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTAATTTCAAGG
Found at i:4978725 original size:173 final size:173
Alignment explanation
Indices: 4978436--4978754 Score: 427
Period size: 173 Copynumber: 1.8 Consensus size: 173
4978426 GTACAGGAAA
*
4978436 AATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTGAAAACTTTAATTTCAAGAAAAATTGAT
1 AATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTTAATTTCAAGAAAAATTGAT
*
4978501 ACTTTCAACTTTTCTCCAAAAATTCGCTTTTGAGAACTTGTTTCTAAGGAAAATTGATACTTTCA
66 ACTTTCAACTTTTCTCCAAAAATTCGCTTTTGAGAACTTGTTTCTAAGGAAAATTGATACTTACA
*
4978566 ACTTTT-CTTAAAAATCCATTTTTGAAAACTTATTTTAAGGAG
131 ACTTTTCCTCAAAAATCCATTTTTGAAAACTTATTTTAAGGAG
* * * *
4978608 AATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTTAGAAAGC-TTATTTTCAAG-AAATTT
1 AATTGATACTTTCAAC-TTTTCCCAAAAATA-TTTTTTT-GAAAACTTTAATTTCAAGAAAAATT
* * * *
4978671 GATACTTTTAACTTTTC-CTCAAAAA-T-GTTTTTTAGAAAGCTTATTT-TCAAGGAAAATTGAT
63 GATACTTTCAACTTTTCTC-CAAAAATTCGCTTTTGAG-AA-CTTGTTTCT-AAGGAAAATTGAT
4978732 ACTTACAACTTTTCCTCAAAAAT
124 ACTTACAACTTTTCCTCAAAAAT
4978755 ATTTTTTTGA
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
171 7 0.05
172 21 0.16
173 70 0.55
174 25 0.20
175 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.42
Consensus pattern (173 bp):
AATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAACTTTAATTTCAAGAAAAATTGAT
ACTTTCAACTTTTCTCCAAAAATTCGCTTTTGAGAACTTGTTTCTAAGGAAAATTGATACTTACA
ACTTTTCCTCAAAAATCCATTTTTGAAAACTTATTTTAAGGAG
Found at i:4978811 original size:11 final size:11
Alignment explanation
Indices: 4978777--4978873 Score: 103
Period size: 11 Copynumber: 8.7 Consensus size: 11
4978767 TTTATTTAAA
4978777 AAAATAAAATAAT
1 AAAAT-AAA-AAT
4978790 AAAAT-AAAAT
1 AAAATAAAAAT
*
4978800 GAAATAAAAAT
1 AAAATAAAAAT
4978811 GAAAATAAAAAT
1 -AAAATAAAAAT
*
4978823 --AAGAAAAAT
1 AAAATAAAAAT
4978832 AAAATAAAAAT
1 AAAATAAAAAT
4978843 AAGAAT-AAAAT
1 AA-AATAAAAAT
4978854 AAAATAAAAAT
1 AAAATAAAAAT
4978865 AAAAATAAA
1 -AAAATAAA
4978874 TTAAGCAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
9 8 0.11
10 10 0.14
11 29 0.40
12 21 0.29
13 5 0.07
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:4978834 original size:42 final size:41
Alignment explanation
Indices: 4978776--4978869 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
4978766 TTTTATTTAA
* *
4978776 AAAAATAAAATAATAAAAT-AAAATGA-AATAAAAATGAAAAT
1 AAAAATAAAAAAATAAAATAAAAATAAGAAT-AAAAT-AAAAT
4978817 AAAAATAAGAAAAATAAAATAAAAATAAGAATAAAATAAAAT
1 AAAAATAA-AAAAATAAAATAAAAATAAGAATAAAATAAAAT
4978859 AAAAATAAAAA
1 AAAAATAAAAA
4978870 TAAATTAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
41 11 0.23
42 23 0.48
43 11 0.23
44 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (41 bp):
AAAAATAAAAAAATAAAATAAAAATAAGAATAAAATAAAAT
Found at i:4978835 original size:37 final size:36
Alignment explanation
Indices: 4978777--4978873 Score: 112
Period size: 37 Copynumber: 2.8 Consensus size: 36
4978767 TTTATTTAAA
* *
4978777 AAAAT-AAAATAATAAAATAAAAT-GAAATAAAAAT
1 AAAATAAAAATAAAAAAATAAAATAAAAATAAAAAT
*
4978811 GAAAATAAAAATAAGAAAAATAAAATAAAAATAAGAAT
1 -AAAATAAAAATAA-AAAAATAAAATAAAAATAAAAAT
*
4978849 AAAAT-AAAATAAAAATA-AAAATAAA
1 AAAATAAAAATAAAAAAATAAAATAAA
4978874 TTAAGCAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.15
35 9 0.16
36 14 0.25
37 15 0.27
38 9 0.16
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (36 bp):
AAAATAAAAATAAAAAAATAAAATAAAAATAAAAAT
Found at i:4978901 original size:6 final size:6
Alignment explanation
Indices: 4978890--4978933 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
4978880 AAATCTAATC
4978890 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAA-AA TAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAA
4978934 ATAAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAATAA
Found at i:4978934 original size:5 final size:5
Alignment explanation
Indices: 4978777--4978873 Score: 92
Period size: 5 Copynumber: 18.6 Consensus size: 5
4978767 TTTATTTAAA
*
4978777 AAAAT AAAAT --AAT AAAAT AAAAT GAAAT AAAAAT GAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAAT
*
4978823 AAGA- AAAAT AAAAT AAAAAT AAGAAT AAAAT AAAAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT -AAAAT -AAAAT
4978871 AAA
1 AAA
4978874 TTAAGCAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 38 0.48
6 35 0.44
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4978936 original size:9 final size:9
Alignment explanation
Indices: 4978779--4978933 Score: 84
Period size: 9 Copynumber: 18.6 Consensus size: 9
4978769 TATTTAAAAA
4978779 AATAA-AAT
1 AATAATAAT
4978787 AATAA-AAT
1 AATAATAAT
*
4978795 AA-AATGA-
1 AATAATAAT
*
4978802 AATAAAAAT
1 AATAATAAT
*
4978811 GAA-AATAAA
1 -AATAATAAT
* *
4978820 AATAAGAAA
1 AATAATAAT
4978829 AATAA-AAT
1 AATAATAAT
* *
4978837 AAAAATAAG
1 AATAATAAT
4978846 AATAA-AAT
1 AATAATAAT
*
4978854 AA-AATAAA
1 AATAATAAT
*
4978862 AATAAAAAT
1 AATAATAAT
* *
4978871 AA-ATTAAG
1 AATAATAAT
* *
4978879 CA-AAT-CT
1 AATAATAAT
*
4978886 AAT-CTAAT
1 AATAATAAT
4978894 AATAATAAT
1 AATAATAAT
4978903 AATAATAAT
1 AATAATAAT
4978912 AATAATAAT
1 AATAATAAT
4978921 AATAATAA-
1 AATAATAAT
4978929 AATAA
1 AATAA
4978934 ATAAATAAAT
Statistics
Matches: 111, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
7 8 0.07
8 45 0.41
9 56 0.50
10 2 0.02
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (9 bp):
AATAATAAT
Found at i:4978937 original size:9 final size:9
Alignment explanation
Indices: 4978773--4978945 Score: 60
Period size: 9 Copynumber: 18.3 Consensus size: 9
4978763 GAATTTTATT
4978773 TAAAA-AAA
1 TAAAATAAA
4978781 TAAAAT-AA
1 TAAAATAAA
4978789 TAAAATAAAA
1 TAAAAT-AAA
*
4978799 TGAAATAAAAA
1 T-AAA-ATAAA
4978810 TGAAAATAAAAA
1 T-AAAAT--AAA
4978822 TAAGAA-AAA
1 TAA-AATAAA
4978831 TAAAATAAAAA
1 TAAAAT--AAA
4978842 TAAGAATAAAA
1 TAA-AAT-AAA
4978853 TAAAATAAA
1 TAAAATAAA
4978862 -AATAA-AAA
1 TAA-AATAAA
* *
4978870 TAAATTAAG
1 TAAAATAAA
* * *
4978879 CAAATCTAATC
1 TAAA-ATAA-A
4978890 TAATAAT-AA
1 TAA-AATAAA
4978899 TAATAAT-AA
1 TAA-AATAAA
4978908 TAATAAT-AA
1 TAA-AATAAA
4978917 TAATAAT-AA
1 TAA-AATAAA
4978926 TAAAATAAA
1 TAAAATAAA
4978935 T-AAATAAA
1 TAAAATAAA
4978943 TAA
1 TAA
4978946 TCATGGAAAC
Statistics
Matches: 135, Mismatches: 10, Indels: 39
0.73 0.05 0.21
Matches are distributed among these distances:
8 32 0.24
9 52 0.39
10 11 0.08
11 29 0.21
12 11 0.08
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (9 bp):
TAAAATAAA
Found at i:4979453 original size:11 final size:12
Alignment explanation
Indices: 4979425--4979466 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
4979415 GAAAATTTTT
*
4979425 CAAAAATTTCTA
1 CAAAAAATTCTA
*
4979437 GAAAAAAATTC-A
1 -CAAAAAATTCTA
4979449 CAAAAAATTCTA
1 CAAAAAATTCTA
4979461 CAAAAA
1 CAAAAA
4979467 TTCCCCACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.36
12 8 0.32
13 8 0.32
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (12 bp):
CAAAAAATTCTA
Found at i:4979453 original size:12 final size:13
Alignment explanation
Indices: 4979426--4979466 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4979416 AAAATTTTTC
* *
4979426 AAAAATTTCTAGA
1 AAAAAATTCTACA
4979439 AAAAAATTC-AC-
1 AAAAAATTCTACA
4979450 AAAAAATTCTACA
1 AAAAAATTCTACA
4979463 AAAA
1 AAAA
4979467 TTCCCCACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 3 0.12
13 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAAAATTCTACA
Found at i:4979770 original size:24 final size:22
Alignment explanation
Indices: 4979733--4979828 Score: 76
Period size: 22 Copynumber: 4.3 Consensus size: 22
4979723 ATTAATCAAA
*
4979733 ATAAAAAGATAAATATATTAATAG
1 ATAAAAA-AAAAATA-ATTAATAG
4979757 ATAACAAAAAAAATAA-T--TAG
1 ATAA-AAAAAAAATAATTAATAG
*
4979777 ATAAATAAAAAAATAGATAAATA-
1 ATAAA-AAAAAAATA-ATTAATAG
*
4979800 ATAAAAAAAAAATAGATAAATA-
1 ATAAAAAAAAAATA-ATTAATAG
4979822 ATAAAAA
1 ATAAAAA
4979829 TATTAATAGA
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.02
20 16 0.25
21 1 0.02
22 25 0.39
23 6 0.09
24 12 0.19
25 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (22 bp):
ATAAAAAAAAAATAATTAATAG
Found at i:4979772 original size:36 final size:37
Alignment explanation
Indices: 4979725--4979889 Score: 113
Period size: 38 Copynumber: 4.4 Consensus size: 37
4979715 AACCTAAAAT
* * **
4979725 TAATCAAAATAAAAAGATAAATATATTAATAGATAACA
1 TAATAAAAATAAAAAGATAAATAAAAAAATAGATAA-A
**
4979763 -AA-AAAAATAATTAGATAAATAAAAAAATAGATAAA
1 TAATAAAAATAAAAAGATAAATAAAAAAATAGATAAA
* *
4979798 TAATAAAAAAAAAATAGATAAATAATAAAAAT--ATTAA
1 TAATAAAAATAAAA-AGATAAATAA-AAAAATAGATAAA
* * * * * *
4979835 TAGATAAAAAAAATAAAAATAAATATATATATATATTAAA
1 TA-ATAAAAATAA-AAAGATAAATAAAAAAATAGA-TAAA
*
4979875 TAATGAAAATAAAAA
1 TAATAAAAATAAAAA
4979890 TAAAAGCCCA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
35 1 0.01
36 28 0.28
37 19 0.19
38 31 0.31
39 17 0.17
40 5 0.05
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (37 bp):
TAATAAAAATAAAAAGATAAATAAAAAAATAGATAAA
Found at i:4979795 original size:16 final size:17
Alignment explanation
Indices: 4979735--4979830 Score: 63
Period size: 16 Copynumber: 5.4 Consensus size: 17
4979725 TAATCAAAAT
4979735 AAAA-AGATAAAT-ATA
1 AAAATAGATAAATAATA
** * *
4979750 TTAATAGATAACAAAAAA
1 AAAATAGATAA-ATAATA
4979768 AATAATTAGATAAATAA-A
1 AA-AA-TAGATAAATAATA
4979786 AAAATAGATAAATAATAAAAAA
1 AAAATAGATAAATAAT-----A
4979808 AAAATAGATAAATAATA
1 AAAATAGATAAATAATA
4979825 AAAATA
1 AAAATA
4979831 TTAATAGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
15 2 0.03
16 17 0.27
17 10 0.16
18 5 0.08
19 5 0.08
20 7 0.11
22 17 0.27
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAATAGATAAATAATA
Found at i:4979808 original size:22 final size:22
Alignment explanation
Indices: 4979777--4979859 Score: 96
Period size: 22 Copynumber: 3.6 Consensus size: 22
4979767 AAATAATTAG
4979777 ATAAATAAAAAAATAGATAAATA
1 ATAAA-AAAAAAATAGATAAATA
4979800 ATAAAAAAAAAATAGATAAATA
1 ATAAAAAAAAAATAGATAAATA
**
4979822 ATAAAAATATTAATAGATAAA-A
1 ATAAAAA-AAAAATAGATAAATA
*
4979844 AAAATAAAAATAAATA
1 ATAA-AAAAA-AAATA
4979860 TATATATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
22 29 0.56
23 23 0.44
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
ATAAAAAAAAAATAGATAAATA
Found at i:4979816 original size:38 final size:38
Alignment explanation
Indices: 4979751--4979859 Score: 125
Period size: 38 Copynumber: 2.8 Consensus size: 38
4979741 ATAAATATAT
* *
4979751 TAATAGATAACAAAAAAAATAATTAGATAAATAAAAAAA
1 TAATAAATAATAAAAAAAATAA-TAGATAAATAAAAAAA
4979790 TAGATAAATAATAAAAAAAA-AATAGATAAATAATAAAAA
1 TA-ATAAATAATAAAAAAAATAATAGATAAATAA-AAAAA
* *
4979829 T-ATTAATAGATAAAAAAAATAA-AAATAAATA
1 TAATAAATA-ATAAAAAAAATAATAGATAAATA
4979860 TATATATATA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
37 6 0.10
38 29 0.47
39 12 0.19
40 15 0.24
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (38 bp):
TAATAAATAATAAAAAAAATAATAGATAAATAAAAAAA
Found at i:4979846 original size:19 final size:19
Alignment explanation
Indices: 4979762--4979859 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 19
4979752 AATAGATAAC
4979762 AAAAAAAATAATTAGATAAAT
1 AAAAAAAAT-ATTA-ATAAAT
* *
4979783 AAAAAAATAGATAAAT-AAT
1 AAAAAAA-ATATTAATAAAT
*
4979802 AAAAAAAA-AATAGATAAAT
1 AAAAAAAATATTA-ATAAAT
* *
4979821 AATAAAAATATTAATAGAT
1 AAAAAAAATATTAATAAAT
**
4979840 AAAAAAAATAAAAATAAAT
1 AAAAAAAATATTAATAAAT
4979859 A
1 A
4979860 TATATATATA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
17 2 0.03
18 3 0.05
19 41 0.66
20 5 0.08
21 10 0.16
22 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAAAAATATTAATAAAT
Found at i:4981063 original size:31 final size:31
Alignment explanation
Indices: 4981025--4981086 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
4981015 TTGCTTACCT
4981025 AAGAAATTTTAATAAAGTCACCACTTATGAC
1 AAGAAATTTTAATAAAGTCACCACTTATGAC
*
4981056 AAGAAATTTTAATAAAGTCAGCACTTATGAC
1 AAGAAATTTTAATAAAGTCACCACTTATGAC
4981087 TTTTATTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (31 bp):
AAGAAATTTTAATAAAGTCACCACTTATGAC
Found at i:4981474 original size:120 final size:121
Alignment explanation
Indices: 4981196--4981474 Score: 340
Period size: 120 Copynumber: 2.3 Consensus size: 121
4981186 ATTTTGAAAA
* ** * *
4981196 AATATATTTTTA-AAAATCACCACTTGTGATTTTATTATTATTATTATTAATTTTTTATGCTTGA
1 AATATATTTTTATAAAATCACCACTTGTGATTTTATTTTTATTAACAATAATTTTTTATGCTTAA
*
4981260 AAATTTCTAAAATATTTCTAACACTTTTGAAATATTTTAAAAATTTTCTTTGTGTG
66 AAATTTCTAAAATATTTCTAACACTTTTGAAATATTTTAAAAATTTCCTTTGTGTG
* * * * * *
4981316 AATTTTTTTTTTATAAAATCACCACTTG-CAATTT-TTTTTGTTAACAAT-ATTTTTTATGTTTA
1 AA-TATATTTTTATAAAATCACCACTTGTGATTTTATTTTTATTAACAATAATTTTTTATGCTT-
*
4981378 AAAAATTTCTAAAATATTTCTAATACTTTT-AGAATATTTTAGAAAA-TTCCTTTGTGT-
64 AAAAATTTCTAAAATATTTCTAACACTTTTGA-AATATTTTA-AAAATTTCCTTTGTGTG
4981435 AA-ATATTTTTAATAAAATCACCACTTGTGATTTTATTTTT
1 AATATATTTTT-ATAAAATCACCACTTGTGATTTTATTTTT
4981475 TATTTTATCA
Statistics
Matches: 134, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
117 6 0.04
118 16 0.12
119 19 0.14
120 63 0.47
121 16 0.12
122 14 0.10
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (121 bp):
AATATATTTTTATAAAATCACCACTTGTGATTTTATTTTTATTAACAATAATTTTTTATGCTTAA
AAATTTCTAAAATATTTCTAACACTTTTGAAATATTTTAAAAATTTCCTTTGTGTG
Found at i:4981507 original size:17 final size:18
Alignment explanation
Indices: 4981468--4981510 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4981458 CTTGTGATTT
*
4981468 TATTTTTTATTTTATCAA
1 TATTTTTTATTATATCAA
* *
4981486 AATTTTTTATTAT-TCAC
1 TATTTTTTATTATATCAA
4981503 TATTTTTT
1 TATTTTTT
4981511 GTATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTATTATATCAA
Found at i:4984856 original size:115 final size:115
Alignment explanation
Indices: 4984591--4984905 Score: 492
Period size: 116 Copynumber: 2.7 Consensus size: 115
4984581 GAATGACAAG
* * * *
4984591 TCATGTTCATATTGAGTAAAAGAAAAGCAAAGTCATGGTCTGAAATTAATAATGGAATATT-T-T
1 TCATGTTCATATCGAGAAAAAGAAATGCAAAGTCATGGTCTGAAA-T--TAATGGAATATTGTAA
*
4984654 AAAAAAAAGGCAAAAGTCTAGGTCTGACGTCTGAGATCAGAAATTTTTTCATT
63 AAAAAAAAGGCAAAAGTCTAGGTCTGACGTCTGAGATCAAAAATTTTTTCATT
4984707 TCATGTTCATATCGAGAAAAAGAAATGCAAAGTCATGGTCTGAAATTAATGGAATATTGTAAAAA
1 TCATGTTCATATCGAGAAAAAGAAATGCAAAGTCATGGTCTGAAATTAATGGAATATTGTAAAAA
4984772 AAATAAGGCAAAAGTCTAGGTCTGACGTCTGAGATCAAAAATTTTTT-ATT
66 AAA-AAGGCAAAAGTCTAGGTCTGACGTCTGAGATCAAAAATTTTTTCATT
*
4984822 TCATGTTCACATCGAGAAAAAGAAATGCAAAGTCATGGTCTGAAATTAATGGAATATTGTAAACA
1 TCATGTTCATATCGAGAAAAAGAAATGCAAAGTCATGGTCTGAAATTAATGGAATATTGT--A-A
4984887 AAAAAAAAGGCAAAAGTCT
63 AAAAAAAAGGCAAAAGTCT
4984906 CGTTTGAGAT
Statistics
Matches: 187, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
113 12 0.06
114 1 0.01
115 69 0.37
116 84 0.45
117 14 0.07
118 7 0.04
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (115 bp):
TCATGTTCATATCGAGAAAAAGAAATGCAAAGTCATGGTCTGAAATTAATGGAATATTGTAAAAA
AAAAAGGCAAAAGTCTAGGTCTGACGTCTGAGATCAAAAATTTTTTCATT
Found at i:4985811 original size:2 final size:2
Alignment explanation
Indices: 4985804--4985831 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4985794 ATTCCTCCTC
4985804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4985832 CTTATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4991025 original size:26 final size:25
Alignment explanation
Indices: 4990971--4991025 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
4990961 CTGGGAGTGA
*
4990971 GAAAAAATTTTTAGAAATTTTTGGC
1 GAAAAAATTTTTAGAAATTTCTGGC
*
4990996 GAAAAAAGTTTTCTGGAAATTTCTGG-
1 GAAAAAA-TTTT-TAGAAATTTCTGGC
4991022 GAAA
1 GAAA
4991026 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 8 0.31
27 11 0.42
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (25 bp):
GAAAAAATTTTTAGAAATTTCTGGC
Found at i:4991093 original size:31 final size:32
Alignment explanation
Indices: 4991033--4991104 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
4991023 AAATTTCCAG
* **
4991033 ATTCCGGCGAAAATTCCGGCGAAGTTTGAA-T
1 ATTCCGGCGAAAATTCCGGCCAACCTTGAAGT
4991064 ATTCCGGC-AATAATTCCGGCCAACCTTGAAGT
1 ATTCCGGCGAA-AATTCCGGCCAACCTTGAAGT
4991096 -TTCCGGCGA
1 ATTCCGGCGA
4991105 CCAGCCCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 31 0.89
32 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (32 bp):
ATTCCGGCGAAAATTCCGGCCAACCTTGAAGT
Found at i:4991193 original size:20 final size:20
Alignment explanation
Indices: 4991168--4991219 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
4991158 TCCGGCGAAC
4991168 TTCCGGCGAAATTTTCCAGA
1 TTCCGGCGAAATTTTCCAGA
4991188 TTCCGGCGAGAA-TTTCCAGA
1 TTCCGGCGA-AATTTTCCAGA
*
4991208 ATCCGGCGAAAT
1 TTCCGGCGAAAT
4991220 CCCACCGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (20 bp):
TTCCGGCGAAATTTTCCAGA
Found at i:4991925 original size:59 final size:58
Alignment explanation
Indices: 4991707--4992168 Score: 582
Period size: 59 Copynumber: 7.7 Consensus size: 58
4991697 AAAAATTCCA
4991707 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTT-C
4991771 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* *
4991830 -CAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 AAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
4991887 AAAAGAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTC
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTC
*
4991946 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTC
*
4992008 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
*
4992068 AAAAAAAA-AGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATCGAAATTTT
1 AAAAAAAATA---TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAA-TTT
4992130 C
58 C
*
4992131 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTT
4992169 CCCCTACAAA
Statistics
Matches: 366, Mismatches: 8, Indels: 53
0.86 0.02 0.12
Matches are distributed among these distances:
56 1 0.00
57 89 0.24
58 11 0.03
59 93 0.25
60 19 0.05
61 44 0.12
62 13 0.04
63 9 0.02
64 49 0.13
65 38 0.10
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:4991927 original size:27 final size:27
Alignment explanation
Indices: 4991897--4991985 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
4991887 AAAAGAAAAT
4991897 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
4991924 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
4991954 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
4991981 ATTTT
1 ATTTT
4991986 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:4993379 original size:28 final size:28
Alignment explanation
Indices: 4993339--4993394 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
4993329 TTCACTTTGC
*
4993339 TGACATAGTATTAATTCTGTTATTGTGG
1 TGACATAGTATTAATTCTGTTAATGTGG
*
4993367 TGACATAGTATTAATTTTGTTAATGTGG
1 TGACATAGTATTAATTCTGTTAATGTGG
4993395 CAACATGGAT
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:0.27, C:0.05, G:0.21, T:0.46
Consensus pattern (28 bp):
TGACATAGTATTAATTCTGTTAATGTGG
Found at i:4993892 original size:24 final size:24
Alignment explanation
Indices: 4993865--4993916 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4993855 TTTTTTTGAA
* *
4993865 TTTTTATAAA-AATCAGATTTCAAT
1 TTTTTATAAATAAT-AAAGTTCAAT
*
4993889 TTTTTTTAAATAATAAAGTTCAAT
1 TTTTTATAAATAATAAAGTTCAAT
4993913 TTTT
1 TTTT
4993917 ACAATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTTATAAATAATAAAGTTCAAT
Found at i:4994322 original size:27 final size:28
Alignment explanation
Indices: 4994292--4994344 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
4994282 TATTTTTCTA
*
4994292 TAAAAAAATTCAAGAAA-TATAATTTTT
1 TAAAAAAATTCAAAAAATTATAATTTTT
*
4994319 TAAAAAAATTGAAAAAATTATAATTT
1 TAAAAAAATTCAAAAAATTATAATTT
4994345 AATGCCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
TAAAAAAATTCAAAAAATTATAATTTTT
Found at i:4994455 original size:18 final size:17
Alignment explanation
Indices: 4994428--4994468 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4994418 TAGATATTTT
4994428 CTTTTAAATTTTTTAAGA
1 CTTTTAAA-TTTTTAAGA
* *
4994446 CTTTTTAATTTTTAATA
1 CTTTTAAATTTTTAAGA
4994463 CTTTTA
1 CTTTTA
4994469 CAAAAAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (17 bp):
CTTTTAAATTTTTAAGA
Found at i:4994527 original size:16 final size:18
Alignment explanation
Indices: 4994506--4994540 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
4994496 GTTAATGGAG
4994506 AGTAATTGG-TT-ATATT
1 AGTAATTGGATTAATATT
4994522 AGTAATTGGATTAATATT
1 AGTAATTGGATTAATATT
4994540 A
1 A
4994541 TTAGATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (18 bp):
AGTAATTGGATTAATATT
Found at i:4996256 original size:2 final size:2
Alignment explanation
Indices: 4996249--4996275 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4996239 CTCTATTTCT
4996249 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4996276 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4996280 original size:2 final size:2
Alignment explanation
Indices: 4996275--4996321 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
4996265 TCTCTCTCTC
* *
4996275 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4996317 TA TA T
1 TA TA T
4996322 TGACTTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5000004 original size:22 final size:22
Alignment explanation
Indices: 4999976--5000020 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4999966 AAGCAAAGTT
4999976 TCTTGCAATTTTGGAGGCTGTG
1 TCTTGCAATTTTGGAGGCTGTG
4999998 TCTTGCAATTTTGGAGGCTGTG
1 TCTTGCAATTTTGGAGGCTGTG
5000020 T
1 T
5000021 TGTAACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.31, T:0.42
Consensus pattern (22 bp):
TCTTGCAATTTTGGAGGCTGTG
Found at i:5002861 original size:10 final size:9
Alignment explanation
Indices: 5002833--5002872 Score: 62
Period size: 10 Copynumber: 4.2 Consensus size: 9
5002823 AAAATCAATC
5002833 AATTTAATT
1 AATTTAATT
5002842 AATTTAATT
1 AATTTAATT
5002851 AATTATAATT
1 AATT-TAATT
5002861 AATTATAATT
1 AATT-TAATT
5002871 AA
1 AA
5002873 AATCGATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 13 0.43
10 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATTTAATT
Found at i:5003856 original size:24 final size:24
Alignment explanation
Indices: 5003823--5003890 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
5003813 AATATTATAA
* * *
5003823 TTATATATTTGATATTTTATTAGT
1 TTATAAATTTTATATATTATTAGT
*
5003847 TTATAGATTTTATATATTATTAGT
1 TTATAAATTTTATATATTATTAGT
*
5003871 ATATAAATTTTATATATTAT
1 TTATAAATTTTATATATTAT
5003891 AAATGAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (24 bp):
TTATAAATTTTATATATTATTAGT
Found at i:5003960 original size:20 final size:19
Alignment explanation
Indices: 5003921--5003960 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5003911 TTGTATTAAT
**
5003921 AAATAAATATCAAATTTTA
1 AAATAAATATCAAAAGTTA
5003940 AAATAAATATACAAAAGTTA
1 AAATAAATAT-CAAAAGTTA
5003960 A
1 A
5003961 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATAAATATCAAAAGTTA
Found at i:5010982 original size:129 final size:127
Alignment explanation
Indices: 5010727--5011056 Score: 310
Period size: 129 Copynumber: 2.6 Consensus size: 127
5010717 GTATTTTGTT
** ** * * * * *
5010727 TAAAAATTATTATAATATTTATATAAAATTACGTATTAAATTATAACATAATATAAAATTAATTG
1 TAAAAATTACCATAATACCTATATTAAATTACATATTAAATTTTAACATAATATAAAATTAACTA
* * * * * *
5010792 CATATTAAATTATTAAAACACTTTTGCCATTGCTTCATAGATATTTGACATATGGCAATTTTTT
66 CATATTAAATTAATAAAACACTTTTACCAGTGCTTCATAAAAATTTGA-ATATGGCAA-TTTTA
* * *
5010856 TAAAATTTACCGTAATAGCTATATTAAATTACATATTAAATTTTAACATAATATAAAATTAACTA
1 TAAAAATTACCATAATACCTATATTAAATTACATATTAAATTTTAACATAATATAAAATTAACTA
* * * **
5010921 CATATTAAATTAATAAAATAGTTTTACCAGTGCTTTTATAAAAATTTG-ATATGAGGTATTTTA
66 CATATTAAATTAATAAAACACTTTTACCAGTGC-TTCATAAAAATTTGAATATG-GCAATTTTA
** * * ** * *
5010984 TAAAAATTATTATAATACCCAAATT-AATTACATATTAAA--TTAATTTCATA-AAACTTAACTA
1 TAAAAATTACCATAATACCTATATTAAATTACATATTAAATTTTAACATAATATAAAATTAACTA
5011045 CATATTAAATTA
66 CATATTAAATTA
5011057 CTATAATTAA
Statistics
Matches: 166, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
124 22 0.13
125 8 0.05
127 14 0.08
128 27 0.16
129 84 0.51
130 11 0.07
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (127 bp):
TAAAAATTACCATAATACCTATATTAAATTACATATTAAATTTTAACATAATATAAAATTAACTA
CATATTAAATTAATAAAACACTTTTACCAGTGCTTCATAAAAATTTGAATATGGCAATTTTA
Found at i:5011025 original size:16 final size:16
Alignment explanation
Indices: 5011004--5011056 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
5010994 TATAATACCC
5011004 AAATTAATTACATATT
1 AAATTAATTACATATT
*
5011020 AAATTAATTTCATA--
1 AAATTAATTACATATT
*
5011034 AAACTTAACTACATATT
1 AAA-TTAATTACATATT
5011051 AAATTA
1 AAATTA
5011057 CTATAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.10
15 9 0.29
16 16 0.52
17 3 0.10
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAATTACATATT
Found at i:5011715 original size:73 final size:71
Alignment explanation
Indices: 5011622--5011894 Score: 263
Period size: 73 Copynumber: 3.8 Consensus size: 71
5011612 AAAATTTACA
* * * *
5011622 AATTTTGAAAAATATTTTTTTCATATTTTCAACAAAAGACTGCTTTTTTATCTTATAAATATCGT
1 AATTTTAAAAAATATTTTTTTCATATTTTCAACAAAATA-TGCATTTTTATCTTAAAAATATCGT
5011687 CTTTGTTG
65 -TTTGTTG
* * *
5011695 AATTTTAAAAAATATATTTTTTCATATTTTAAAC-AAATATTACATTTTTATTTTAAAAATATCG
1 AATTTTAAAAAATAT-TTTTTTCATATTTTCAACAAAATA-TGCATTTTTATCTTAAAAATATCG
5011759 TTTT-TATG
64 TTTTGT-TG
* * *
5011767 AAATTTTAAAAAATA-TTTTTT-ATATTTTCAACAAATATTATG-TTTTTTTTCTTAAAAACATC
1 -AATTTTAAAAAATATTTTTTTCATATTTTCAACAAA-A-TATGCATTTTTATCTTAAAAATATC
*
5011829 ATTTTTGTTG
63 -GTTTTGTTG
* *
5011839 AATTATGTAAAATATATCTTTTTTTCATATTTTCAATAAAA-AT-CATTTTTATCTTA
1 AATT-T-TAAAA-A-ATATTTTTTTCATATTTTCAACAAAATATGCATTTTTATCTTA
5011895 GAAACGTTGG
Statistics
Matches: 166, Mismatches: 19, Indels: 29
0.78 0.09 0.14
Matches are distributed among these distances:
70 10 0.06
71 29 0.17
72 14 0.08
73 61 0.37
74 30 0.18
75 2 0.01
76 7 0.04
77 13 0.08
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.51
Consensus pattern (71 bp):
AATTTTAAAAAATATTTTTTTCATATTTTCAACAAAATATGCATTTTTATCTTAAAAATATCGTT
TTGTTG
Found at i:5011725 original size:24 final size:23
Alignment explanation
Indices: 5011696--5011813 Score: 82
Period size: 25 Copynumber: 4.9 Consensus size: 23
5011686 TCTTTGTTGA
5011696 ATTTTAAAAAATATATTTTTTCAT
1 ATTTTAAAAAATATATTTTTT-AT
**
5011720 ATTTTAAACAAATATTACATTTT-T
1 ATTTTAAA-AAATA-TATTTTTTAT
* *
5011744 ATTTT-AAAAATATCGTTTTTATGAA
1 ATTTTAAAAAATAT-ATTTTT-T-AT
5011769 ATTTT-AAAAA-ATATTTTTTAT
1 ATTTTAAAAAATATATTTTTTAT
*
5011790 ATTTTCAACAAATATTATGTTTTT
1 ATTTT-AAAAAATA-TAT-TTTTT
5011814 TTTCTTAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
21 7 0.09
22 9 0.12
23 12 0.16
24 17 0.23
25 18 0.24
26 11 0.15
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (23 bp):
ATTTTAAAAAATATATTTTTTAT
Found at i:5011787 original size:25 final size:23
Alignment explanation
Indices: 5011695--5011787 Score: 66
Period size: 24 Copynumber: 3.9 Consensus size: 23
5011685 GTCTTTGTTG
*
5011695 AATTTTAAAAAATATATTTTTTCA
1 AATTTTAAAAAATAT-TTTTTTTA
* *
5011719 TATTTTAAACAAATATTACATTTTT-
1 AATTTTAAA-AAATATT--TTTTTTA
*
5011744 -ATTTT-AAAAATATCGTTTTTATGA
1 AATTTTAAAAAATAT--TTTTT-TTA
5011768 AATTTTAAAAAATATTTTTT
1 AATTTTAAAAAATATTTTTT
5011788 ATATTTTCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
22 9 0.16
23 3 0.05
24 20 0.36
25 11 0.20
26 12 0.22
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTTTAAAAAATATTTTTTTTA
Found at i:5011922 original size:144 final size:143
Alignment explanation
Indices: 5011616--5011894 Score: 316
Period size: 144 Copynumber: 1.9 Consensus size: 143
5011606 AATAATAAAA
* *
5011616 TTTACAAATTTTGAAAAATATTTTTTTCATATTTTCAACAAAAGACTGCTTTTTTATCTTATAAA
1 TTTATAAA-TTTGAAAAATA-TTTTTTCATATTTTCAACAAAAGACTGCTTTTTTATCTTAAAAA
* * *
5011681 TATCGTCTTTGTTGAATTTTAAAAAATATATTTTTTCATATTTTAAACAAATATTACATTTTTAT
64 CATCATCTTTGTTGAATTTTAAAAAATATATTTTTTCATATTTTAAACAAATAATACATTTTTAT
*
5011746 TTTAAAAATATCGTT
129 CTTAAAAATATCGTT
* * *
5011761 TTTATGAAATTTTAAAAAATATTTTTT-ATATTTTCAACAAATATTA-TG-TTTTTTTTCTTAAA
1 TTTAT-AAA-TTTGAAAAATATTTTTTCATATTTTCAACAAA-A-GACTGCTTTTTTATCTTAAA
* * * * *
5011823 AACATCATTTTTGTTGAATTATGTAAAATATATCTTTTTTTCATATTTTCAATAAA-AAT-CATT
62 AACATCATCTTTGTTGAATT-T-TAAAAAATAT-ATTTTTTCATATTTTAAACAAATAATACATT
5011886 TTTATCTTA
124 TTTATCTTA
5011895 GAAACGTTGG
Statistics
Matches: 114, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
144 43 0.38
145 26 0.23
146 26 0.23
147 19 0.17
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.51
Consensus pattern (143 bp):
TTTATAAATTTGAAAAATATTTTTTCATATTTTCAACAAAAGACTGCTTTTTTATCTTAAAAACA
TCATCTTTGTTGAATTTTAAAAAATATATTTTTTCATATTTTAAACAAATAATACATTTTTATCT
TAAAAATATCGTT
Found at i:5013582 original size:85 final size:85
Alignment explanation
Indices: 5013480--5013652 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
5013470 GACACCTGAA
5013480 TAACACATGAATAAATAAATAATTTATTTAAAATTTTATTTATTTAATATGTAAATTGTTCATTT
1 TAACACATGAATAAATAAATAATTTATTTAAAATTTTATTTATTTAATATGTAAATTGTTCATTT
5013545 AATATTTTTGTTAAATTATT
66 AATATTTTTGTTAAATTATT
*
5013565 TAACACATGAATAAATAAATGATTTATTTAAAATTTTATTTATTTAATATGTAAATTGTTCATTT
1 TAACACATGAATAAATAAATAATTTATTTAAAATTTTATTTATTTAATATGTAAATTGTTCATTT
5013630 AATATTTTTGTTAAATTATT
66 AATATTTTTGTTAAATTATT
5013650 TAA
1 TAA
5013653 GTATTTTAGG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (85 bp):
TAACACATGAATAAATAAATAATTTATTTAAAATTTTATTTATTTAATATGTAAATTGTTCATTT
AATATTTTTGTTAAATTATT
Found at i:5013971 original size:74 final size:71
Alignment explanation
Indices: 5013865--5014081 Score: 197
Period size: 74 Copynumber: 3.0 Consensus size: 71
5013855 TTTTAAAGTA
* * * *
5013865 TTTTTTTATATTTTAAACAAATAT-TATGTTTTTTTTCTTAAAAACATCATTTTTGTTGAATTCC
1 TTTTTTTATATTTTCAATAAATATCTA---TTTTTATCTTAAAAACGTCATTTTTGTTGAATTCC
5013929 ATAAAATAAT
63 A-AAAATAAT
* * **
5013939 TTTTTTTATATTTTCAATAAATATCGTATTTTTATCTTAAAAACGTTATTTTTATTGAAATTTGA
1 TTTTTTTATATTTTCAATAAATATC-TATTTTTATCTTAAAAACGTCATTTTTGTTG-AATTCCA
*
5014004 AAAATATT
64 AAAATAAT
* * * *
5014012 TTATTTTTCATATTTTTC-AT-AATAACCACATTTTATCTTAAAAACGTCTTTTTTGTTGAATTC
1 TT-TTTTT-ATA-TTTTCAATAAATATCTA-TTTTTATCTTAAAAACGTCATTTTTGTTGAATTC
*
5014075 TAAAAAT
62 CAAAAAT
5014082 TAAATAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
73 45 0.38
74 62 0.52
75 5 0.04
76 7 0.06
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.52
Consensus pattern (71 bp):
TTTTTTTATATTTTCAATAAATATCTATTTTTATCTTAAAAACGTCATTTTTGTTGAATTCCAAA
AATAAT
Found at i:5017466 original size:83 final size:83
Alignment explanation
Indices: 5017303--5017456 Score: 263
Period size: 83 Copynumber: 1.9 Consensus size: 83
5017293 ACATTCTTGG
* *
5017303 ATATTATTTATTTATTAATATTAAATGTATTTTATATTACGTATTTATAATATATAATTATCGAG
1 ATATTATTTATTTATTAATATTAAATATATTTTATATTACATATTTATAATATATAATTATCGAG
*
5017368 TTGAATCAATCGAGTTAA
66 TTAAATCAATCGAGTTAA
* *
5017386 ATATTATTTATTTATTAATATTAAGTATATTTTATATTATATATTTATAATATATAATTATCGAG
1 ATATTATTTATTTATTAATATTAAATATATTTTATATTACATATTTATAATATATAATTATCGAG
5017451 TTAAAT
66 TTAAAT
5017457 TGATTGAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (83 bp):
ATATTATTTATTTATTAATATTAAATATATTTTATATTACATATTTATAATATATAATTATCGAG
TTAAATCAATCGAGTTAA
Found at i:5018367 original size:79 final size:78
Alignment explanation
Indices: 5018239--5018399 Score: 286
Period size: 79 Copynumber: 2.1 Consensus size: 78
5018229 ATTTGACTAA
*
5018239 ACTCTGCATCCTATACAAGTTTCTTTGGGATTTGAGGAAAAAATAAAAAAAAAACTCTAGAAAAG
1 ACTCTGCATCCTATACAAGTTTCTTTGGGATTTGAAGAAAAAAT-AAAAAAAAACTCTAGAAAAG
5018304 AAACTAGAACATTT
65 AAACTAGAACATTT
* *
5018318 ACTCTGCTTCCTATACAAGTTTCTTTGGGATTTGAAGAAAAAATAAAAAAAAGCTCTAGAAAAGA
1 ACTCTGCATCCTATACAAGTTTCTTTGGGATTTGAAGAAAAAATAAAAAAAAACTCTAGAAAAGA
5018383 AACTAGAACATTT
66 AACTAGAACATTT
5018396 ACTC
1 ACTC
5018400 ATCAATTGCT
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 37 0.47
79 42 0.53
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (78 bp):
ACTCTGCATCCTATACAAGTTTCTTTGGGATTTGAAGAAAAAATAAAAAAAAACTCTAGAAAAGA
AACTAGAACATTT
Found at i:5019592 original size:61 final size:58
Alignment explanation
Indices: 5019462--5019688 Score: 319
Period size: 59 Copynumber: 3.8 Consensus size: 58
5019452 TTTTGTGCAG
* *
5019462 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAA-ATTTATTTTTAA
*
5019521 GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTGAAAATTTATTTTTAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA-A-TTTTTTTTTGAAAATTTATTTTT-AA
* **
5019582 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAAATTTA----TTTTTAA
5019644 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTTGA
5019689 TTTTTATTTA
Statistics
Matches: 152, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
59 47 0.31
60 11 0.07
61 46 0.30
62 35 0.23
63 13 0.09
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTGAAAATTTATTTTTAA
Found at i:5019646 original size:62 final size:62
Alignment explanation
Indices: 5019462--5019685 Score: 316
Period size: 62 Copynumber: 3.7 Consensus size: 62
5019452 TTTTGTGCAG
* *
5019462 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAA-CT-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTTTTTAA
* * *
5019521 GGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTGAAAATTTA---TTTTTAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA-A-TATTTTTTTGAAAATTTATTTTTTTTTAA
* **
5019582 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTTTTTAA
5019644 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
5019686 TGATTTTTAT
Statistics
Matches: 146, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
59 47 0.32
60 2 0.01
61 47 0.32
62 49 0.34
63 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (62 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTTTTTAA
Found at i:5019726 original size:22 final size:22
Alignment explanation
Indices: 5019701--5019742 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5019691 TTTATTTAAA
5019701 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
5019723 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
5019743 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:5019747 original size:18 final size:17
Alignment explanation
Indices: 5019724--5019847 Score: 65
Period size: 18 Copynumber: 6.8 Consensus size: 17
5019714 AATAAAAGTG
5019724 AAAATAAATAAAGATAAA
1 AAAATAAATAAA-ATAAA
*
5019742 AAAATAAAGAAAAGTAAA
1 AAAATAAATAAAA-TAAA
*
5019760 ACAA-AAATAAAAATAAGA
1 AAAATAAAT-AAAATAA-A
5019778 TAAAGATAAA-AAATATTAAA
1 -AAA-ATAAATAAA-A-TAAA
* * **
5019798 TAAATCTAATCTAATAAATA
1 AAAAT-AAATAAAAT-AA-A
5019818 AAAATAAAT-AAATAAA
1 AAAATAAATAAAATAAA
5019834 ACAAATAAATAAAA
1 A-AAATAAATAAAA
5019848 AAATTCAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.02
17 17 0.21
18 32 0.40
19 15 0.19
20 9 0.11
21 6 0.07
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:5019786 original size:17 final size:16
Alignment explanation
Indices: 5019724--5019846 Score: 60
Period size: 17 Copynumber: 7.8 Consensus size: 16
5019714 AATAAAAGTG
5019724 AAAATAAATAAAGAT-
1 AAAATAAATAAAGATA
5019739 AAAA-AAATAAAG--A
1 AAAATAAATAAAGATA
* * *
5019752 AAAGTAAAACAAAAATA
1 AAAAT-AAATAAAGATA
5019769 AAAATAAGATAAAGATA
1 AAAATAA-ATAAAGATA
* *
5019786 AAAA-ATATTAA-ATA
1 AAAATAAATAAAGATA
** * *
5019800 AATCTAATCTAATAAATA
1 AAAATAA-ATAA-AGATA
* *
5019818 AAAATAAATAAATAAA
1 AAAATAAATAAAGATA
5019834 ACAAATAAATAAA
1 A-AAATAAATAAA
5019847 AAAATTCAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
13 3 0.04
14 13 0.16
15 15 0.19
16 9 0.11
17 31 0.39
18 8 0.10
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAATAAATAAAGATA
Found at i:5019788 original size:22 final size:21
Alignment explanation
Indices: 5019702--5019801 Score: 53
Period size: 22 Copynumber: 4.6 Consensus size: 21
5019692 TTATTTAAAG
* *
5019702 AAAATAGAACAAA-ATAAAAGTG
1 AAAATA-AATAAAGATAAAA-TA
*
5019724 AAAATAAATAAAGATAAAAAA
1 AAAATAAATAAAGATAAAATA
* *
5019745 ATAAAGAAAAGTAAA-ACAAAAATA
1 A-AAA-TAAA-TAAAGA-TAAAATA
5019769 AAAATAAGATAAAGATAAAA-A
1 AAAATAA-ATAAAGATAAAATA
* *
5019790 ATATTAAATAAA
1 AAAATAAATAAA
5019802 TCTAATCTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 25 0.41
23 9 0.15
24 10 0.16
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (21 bp):
AAAATAAATAAAGATAAAATA
Found at i:5019839 original size:13 final size:12
Alignment explanation
Indices: 5019810--5019851 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
5019800 AATCTAATCT
5019810 AATAAATAAAAATA
1 AATAAAT-AAAA-A
5019824 AATAAATAAAACA
1 AATAAATAAAA-A
5019837 AATAAATAAAAA
1 AATAAATAAAAA
5019849 AAT
1 AAT
5019852 TCAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 16 0.59
14 7 0.26
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:5019861 original size:27 final size:27
Alignment explanation
Indices: 5019810--5019861 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
5019800 AATCTAATCT
*
5019810 AATAAATAAAAATAAATAAATAAAACA
1 AATAAATAAAAATAAATAAAAAAAACA
*
5019837 AATAAATAAAAA-AATTCAAAAAAAA
1 AATAAATAAAAATAAAT-AAAAAAAA
5019862 AAACCTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (27 bp):
AATAAATAAAAATAAATAAAAAAAACA
Found at i:5020894 original size:3 final size:3
Alignment explanation
Indices: 5020886--5021036 Score: 82
Period size: 3 Copynumber: 47.3 Consensus size: 3
5020876 ATATATTACA
5020886 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* *
5020931 ATAT AACT ATAT AAAT AA- AAT ACAT -AT AA- ATCT AAT -CT AAT AAAT
1 A-AT AA-T A-AT -AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT -AAT
*
5020976 AAAT AAAT ATAT ACAT -AT ATT AAT ACAT AAT AAT AAAT AAT AAAT AAT
1 -AAT -AAT A-AT A-AT AAT AAT AAT A-AT AAT AAT -AAT AAT -AAT AAT
5021024 AAAT AAT AA- AAT A
1 -AAT AAT AAT AAT A
5021037 CAAAAGAAAG
Statistics
Matches: 121, Mismatches: 7, Indels: 40
0.72 0.04 0.24
Matches are distributed among these distances:
2 12 0.10
3 65 0.54
4 42 0.35
5 2 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5020913 original size:20 final size:19
Alignment explanation
Indices: 5020889--5021036 Score: 95
Period size: 20 Copynumber: 8.0 Consensus size: 19
5020879 TATTACAAAT
5020889 AATAATAATAATAATAATA
1 AATAATAATAATAATAATA
5020908 ATATAATAATAATAATAATA
1 A-ATAATAATAATAATAATA
5020928 AAT-AT-ATAACT-AT-ATA
1 AATAATAATAA-TAATAATA
5020944 AATAA-AATACAT-ATAA-A
1 AATAATAATA-ATAATAATA
** *
5020961 TCTAAT-CTAATAAATAAATA
1 AATAATAATAAT-AAT-AATA
*
5020981 AATATATACAT-ATATTAATA
1 AATA-ATA-ATAATAATAATA
*
5021001 CATAATAAT-A-AATAATA
1 AATAATAATAATAATAATA
5021018 AATAATAAATAATAA-AATA
1 AATAAT-AATAATAATAATA
5021037 CAAAAGAAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
16 8 0.08
17 30 0.29
18 13 0.13
19 13 0.13
20 31 0.30
21 4 0.04
22 2 0.02
23 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AATAATAATAATAATAATA
Found at i:5020978 original size:4 final size:4
Alignment explanation
Indices: 5020969--5021033 Score: 50
Period size: 4 Copynumber: 17.5 Consensus size: 4
5020959 AATCTAATCT
* * * * *
5020969 AATA AATA AATA AATA TATA CATA TATT AATA CAT- AAT- AATA AAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
5021014 AATA AAT- AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AA
5021034 ATACAAAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
3 14 0.29
4 35 0.71
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (4 bp):
AATA
Found at i:5021017 original size:45 final size:42
Alignment explanation
Indices: 5020889--5021033 Score: 91
Period size: 45 Copynumber: 3.6 Consensus size: 42
5020879 TATTACAAAT
*
5020889 AATAAT-AAT-AAT-AATA-AT-AATATAATA-ATAATAAT-
1 AATAATAAATAAATAAATATATAAATAAAATACATAATAATA
* *
5020924 AATAA-ATAT--ATAACTATATAAATAAAATACAT-ATAAATCTA
1 AATAATAAATAAATAAATATATAAATAAAATACATAAT-AA--TA
* *
5020965 ATCTAATAAATAAATAAATATATACATATATTAATACATAATAATA
1 A-ATAATAAATAAATAAATATATA-A-ATA-AAATACATAATAATA
5021011 AATAATAAAT-AATAAATA-ATAAA
1 AATAATAAATAAATAAATATATAAA
5021034 ATACAAAAGA
Statistics
Matches: 85, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
34 2 0.02
35 10 0.12
36 2 0.02
37 10 0.12
38 4 0.05
40 1 0.01
41 2 0.02
42 4 0.05
43 6 0.07
44 8 0.09
45 18 0.21
46 4 0.05
47 3 0.04
48 9 0.11
49 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (42 bp):
AATAATAAATAAATAAATATATAAATAAAATACATAATAATA
Found at i:5021239 original size:1 final size:1
Alignment explanation
Indices: 5021228--5021321 Score: 80
Period size: 1 Copynumber: 94.0 Consensus size: 1
5021218 AACATTGTCA
* * * * * * * *
5021228 TTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTGTTTTTGTTTTGTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
5021293 TGTTTTTTTGTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5021322 GACCAAAGCT
Statistics
Matches: 69, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:5021258 original size:17 final size:17
Alignment explanation
Indices: 5021228--5021321 Score: 110
Period size: 17 Copynumber: 5.7 Consensus size: 17
5021218 AACATTGTCA
5021228 TTTTTTGTTTTTTTT-T
1 TTTTTTGTTTTTTTTGT
5021244 TGTTTTT-TTTGTTTTTGT
1 T-TTTTTGTTT-TTTTTGT
*
5021262 TTTTGTT-TTGTTTTTGT
1 TTTT-TTGTTTTTTTTGT
5021279 TTTTTTGTTTTTTTTGT
1 TTTTTTGTTTTTTTTGT
5021296 TTTTTTG---TTTTTGT
1 TTTTTTGTTTTTTTTGT
5021310 TTTTTTGTTTTT
1 TTTTTTGTTTTT
5021322 GACCAAAGCT
Statistics
Matches: 68, Mismatches: 2, Indels: 15
0.80 0.02 0.18
Matches are distributed among these distances:
14 14 0.21
16 6 0.09
17 42 0.62
18 6 0.09
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTGT
Found at i:5021285 original size:31 final size:31
Alignment explanation
Indices: 5021229--5021322 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
5021219 ACATTGTCAT
*
5021229 TTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTG
1 TTTTTGTTTTGTTTTTG-TTTTTTTGTTTTTG
5021261 TTTTTGTTTTGTTTTTGTTTTTTTGTTTTT-
1 TTTTTGTTTTGTTTTTGTTTTTTTGTTTTTG
*
5021291 TTTGTTTTTTTGTTTTTGTTTTTTTGTTTTTG
1 TTT-TTGTTTTGTTTTTGTTTTTTTGTTTTTG
5021323 ACCAAAGCTC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.05
31 39 0.67
32 16 0.28
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (31 bp):
TTTTTGTTTTGTTTTTGTTTTTTTGTTTTTG
Found at i:5021322 original size:6 final size:6
Alignment explanation
Indices: 5021229--5021313 Score: 94
Period size: 6 Copynumber: 14.8 Consensus size: 6
5021219 ACATTGTCAT
5021229 TTTTTG TTTTT- TTTTTG --TTT- TTTTTG TTTTTG TTTTTG -TTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
5021272 TTTTTG TTTTT- TTGTTT- TTTTTG TTTTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TT-TTTG TTTTTG --TTTTTG TTTTTG TTTTT
5021314 TTGTTTTTGA
Statistics
Matches: 70, Mismatches: 0, Indels: 18
0.80 0.00 0.20
Matches are distributed among these distances:
4 3 0.04
5 18 0.26
6 43 0.61
8 6 0.09
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:5021423 original size:41 final size:41
Alignment explanation
Indices: 5021329--5021540 Score: 336
Period size: 41 Copynumber: 5.1 Consensus size: 41
5021319 TTTGACCAAA
* * *
5021329 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
5021372 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
5021413 ACTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
5021453 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
5021494 GCTCCTCTAAATAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
5021535 GCTCCT
1 GCTCCT
5021541 TGACAATCAT
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 38 0.24
41 88 0.56
42 3 0.02
43 29 0.18
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:5021474 original size:81 final size:81
Alignment explanation
Indices: 5021330--5021540 Score: 323
Period size: 81 Copynumber: 2.6 Consensus size: 81
5021320 TTGACCAAAG
* * * *
5021330 CTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCAC
1 CTCCTCTAAACAGAGGCACCACGACTTT--GAAA-GTAAATTGCTCCTCTAAACAAAGGCACCAC
*
5021395 GACTTTGAAAAGTAAATTA
63 GACTTTGAAAAATAAATTA
5021414 CTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGAC
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGAC
*
5021479 TTTGAAAAATAAATTG
66 TTTGAAAAATAAATTA
*
5021495 CTCCTCTAAATAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 CTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATTGCTCCT
5021541 TGACAATCAT
Statistics
Matches: 119, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
81 73 0.61
82 20 0.17
84 26 0.22
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (81 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAAAGGCACCACGAC
TTTGAAAAATAAATTA
Found at i:5022758 original size:26 final size:25
Alignment explanation
Indices: 5022729--5022792 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
5022719 TTTTTTTTCA
*
5022729 TTTTCTCATTTTTTCCTTCTTTCTTT
1 TTTTCTCATTTTTTCCATCTTT-TTT
* *
5022755 TTTT-TCTTTTTTTTTCATCTTTTTT
1 TTTTCTC-ATTTTTTCCATCTTTTTT
5022780 TTTTCTCATTTTT
1 TTTTCTCATTTTT
5022793 CATCCATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTCTCATTTTTTCCATCTTTTTT
Found at i:5022791 original size:13 final size:12
Alignment explanation
Indices: 5022729--5022792 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 12
5022719 TTTTTTTTCA
5022729 TTTTCTCATTTTT
1 TTTTCTC-TTTTT
*
5022742 TCCTTCT-TTCTTT
1 T-TTTCTCTT-TTT
5022755 TTTT-TCTTTTT
1 TTTTCTCTTTTT
5022766 TTTTCATCTTTTTT
1 TTTTC-TC-TTTTT
5022780 TTTTCTCATTTTT
1 TTTTCTC-TTTTT
5022793 CATCCATTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 8 0.19
12 6 0.14
13 14 0.33
14 14 0.33
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTCTTTTT
Found at i:5022791 original size:23 final size:25
Alignment explanation
Indices: 5022729--5022796 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 25
5022719 TTTTTTTTCA
*
5022729 TTTTCTCATTTTTTCCTTCTTTCTTTT
1 TTTTCTCA-TTTTT-CATCTTTCTTTT
**
5022756 TTTTCTTTTTTTTTCATC-TT-TTTT
1 TTTTC-TCATTTTTCATCTTTCTTTT
5022780 TTTTCTCATTTTTCATC
1 TTTTCTCATTTTTCATC
5022797 CATTGTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 10 0.29
24 9 0.26
25 2 0.06
26 3 0.09
27 10 0.29
28 1 0.03
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCTCATTTTTCATCTTTCTTTT
Found at i:5025011 original size:41 final size:41
Alignment explanation
Indices: 5024954--5025036 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
5024944 TCTAGCATAC
5024954 TAATCTTAGAGCTTTCCTGAACTTCCACTCTCATCTTTTCT
1 TAATCTTAGAGCTTTCCTGAACTTCCACTCTCATCTTTTCT
* *
5024995 TAATCTTGGAGCTTTCCTGAACTTTCACTCTCATCTTTTCT
1 TAATCTTAGAGCTTTCCTGAACTTCCACTCTCATCTTTTCT
5025036 T
1 T
5025037 TCTCTTTCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.18, C:0.28, G:0.08, T:0.46
Consensus pattern (41 bp):
TAATCTTAGAGCTTTCCTGAACTTCCACTCTCATCTTTTCT
Found at i:5026729 original size:59 final size:61
Alignment explanation
Indices: 5026666--5026829 Score: 242
Period size: 63 Copynumber: 2.7 Consensus size: 61
5026656 TTTTGTGCAG
*
5026666 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAA-CTTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATATTTTATTTTTAA
* ** *
5026725 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAA--TATTTTATTTTTAA
*
5026788 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
5026830 TTATTTTTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
59 40 0.43
60 3 0.03
63 49 0.53
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.46
Consensus pattern (61 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATATTTTATTTTTAA
Found at i:5026870 original size:22 final size:22
Alignment explanation
Indices: 5026845--5026886 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5026835 TTTATTTAAA
5026845 GAAAATAGAACAAA-ATAAAAGT
1 GAAAATA-AACAAAGATAAAAGT
*
5026867 GAAAATAAATAAAGATAAAA
1 GAAAATAAACAAAGATAAAA
5026887 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAATAAACAAAGATAAAAGT
Found at i:5026891 original size:18 final size:17
Alignment explanation
Indices: 5026868--5026991 Score: 65
Period size: 18 Copynumber: 6.8 Consensus size: 17
5026858 AATAAAAGTG
5026868 AAAATAAATAAAGATAAA
1 AAAATAAATAAA-ATAAA
*
5026886 AAAATAAAGAAAAGTAAA
1 AAAATAAATAAAA-TAAA
*
5026904 ACAA-AAATAAAAATAAGA
1 AAAATAAAT-AAAATAA-A
5026922 TAAAGATAAA-AAATATTAAA
1 -AAA-ATAAATAAA-A-TAAA
* * **
5026942 TAAATTTAATCTAATAAATA
1 -AAAATAAATAAAAT-AA-A
5026962 AAAATAAAT-AAATAAA
1 AAAATAAATAAAATAAA
5026978 ACAAATAAATAAAA
1 A-AAATAAATAAAA
5026992 AAATTTTTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
16 2 0.02
17 17 0.21
18 30 0.37
19 18 0.22
20 9 0.11
21 6 0.07
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:5026930 original size:17 final size:16
Alignment explanation
Indices: 5026868--5026990 Score: 60
Period size: 17 Copynumber: 7.8 Consensus size: 16
5026858 AATAAAAGTG
5026868 AAAATAAATAAAGAT-
1 AAAATAAATAAAGATA
5026883 AAAA-AAATAAAG--A
1 AAAATAAATAAAGATA
* * *
5026896 AAAGTAAAACAAAAATA
1 AAAAT-AAATAAAGATA
5026913 AAAATAAGATAAAGATA
1 AAAATAA-ATAAAGATA
* *
5026930 AAAA-ATATTAA-ATA
1 AAAATAAATAAAGATA
** * *
5026944 AATTTAATCTAATAAATA
1 AAAATAA-ATAA-AGATA
* *
5026962 AAAATAAATAAATAAA
1 AAAATAAATAAAGATA
5026978 ACAAATAAATAAA
1 A-AAATAAATAAA
5026991 AAAATTTTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
13 3 0.04
14 13 0.16
15 15 0.19
16 9 0.11
17 31 0.39
18 8 0.10
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAATAAATAAAGATA
Found at i:5026932 original size:22 final size:21
Alignment explanation
Indices: 5026846--5026945 Score: 53
Period size: 22 Copynumber: 4.6 Consensus size: 21
5026836 TTATTTAAAG
* *
5026846 AAAATAGAACAAA-ATAAAAGTG
1 AAAATA-AATAAAGATAAAA-TA
*
5026868 AAAATAAATAAAGATAAAAAA
1 AAAATAAATAAAGATAAAATA
* *
5026889 ATAAAGAAAAGTAAA-ACAAAAATA
1 A-AAA-TAAA-TAAAGA-TAAAATA
5026913 AAAATAAGATAAAGATAAAA-A
1 AAAATAA-ATAAAGATAAAATA
* *
5026934 ATATTAAATAAA
1 AAAATAAATAAA
5026946 TTTAATCTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 25 0.41
23 9 0.15
24 10 0.16
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (21 bp):
AAAATAAATAAAGATAAAATA
Found at i:5026983 original size:13 final size:12
Alignment explanation
Indices: 5026954--5026995 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
5026944 AATTTAATCT
5026954 AATAAATAAAAATA
1 AATAAAT-AAAA-A
5026968 AATAAATAAAACA
1 AATAAATAAAA-A
5026981 AATAAATAAAAA
1 AATAAATAAAAA
5026993 AAT
1 AAT
5026996 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 16 0.59
14 7 0.26
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:5028137 original size:12 final size:11
Alignment explanation
Indices: 5028057--5028183 Score: 52
Period size: 12 Copynumber: 11.3 Consensus size: 11
5028047 TACAAAAAAA
5028057 AAAT-AATAAT
1 AAATAAATAAT
5028067 ATAAT-AATAAT
1 A-AATAAATAAT
*
5028078 AAATATATAACT
1 AAATAAATAA-T
*
5028090 ATATAAAT-A-
1 AAATAAATAAT
*
5028099 AAATACAT-AT
1 AAATAAATAAT
*
5028109 AAATCTAATCTAAT
1 AAA--TAA-ATAAT
5028123 AAATAAATAAAT
1 AAATAAAT-AAT
*
5028135 AAATATATACAT
1 AAATAAATA-AT
* *
5028147 ATATTAATACAT
1 AAATAAATA-AT
5028159 -AAT-AATAAT
1 AAATAAATAAT
5028168 AATAATAAATAAT
1 -A-AATAAATAAT
5028181 AAA
1 AAA
5028184 ATACATAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
9 9 0.10
10 11 0.12
11 21 0.23
12 37 0.41
13 7 0.08
14 5 0.06
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:5028170 original size:16 final size:16
Alignment explanation
Indices: 5028151--5028195 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
5028141 ATACATATAT
5028151 TAATACATAATAATAA
1 TAATACATAATAATAA
5028167 TAATA-ATAAATAATAA
1 TAATACAT-AATAATAA
5028183 -AATACATAA-AATA
1 TAATACATAATAATA
5028196 CAAAAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.30
16 15 0.56
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATACATAATAATAA
Found at i:5036327 original size:2 final size:2
Alignment explanation
Indices: 5036320--5036348 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5036310 AGTCTTAGCT
5036320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5036349 TGAACTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5043134 original size:10 final size:10
Alignment explanation
Indices: 5043121--5043179 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
5043111 TTTTTTCTTG
5043121 TATTTTTTAT
1 TATTTTTTAT
5043131 TATTTTTGTAT
1 TATTTTT-TAT
* *
5043142 TATTTTATAA
1 TATTTTTTAT
*
5043152 GATTTATTT-T
1 TATTT-TTTAT
*
5043162 TA-TTATTAT
1 TATTTTTTAT
5043171 TATTTTTTA
1 TATTTTTTA
5043180 AAGTTTATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
8 2 0.05
9 5 0.14
10 19 0.51
11 11 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:5043186 original size:29 final size:34
Alignment explanation
Indices: 5043124--5043190 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
5043114 TTTCTTGTAT
*
5043124 TTTTTATTATTTTTGTATTATTTTATAAGATTTA
1 TTTTTATTATTTATGTATTATTTTATAAGATTTA
5043158 TTTTTATTA-TTAT-TATT-TTTTA-AAG-TTTA
1 TTTTTATTATTTATGTATTATTTTATAAGATTTA
5043187 TTTT
1 TTTT
5043191 AAAAAATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.25
30 3 0.09
31 5 0.16
32 4 0.12
33 3 0.09
34 9 0.28
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.70
Consensus pattern (34 bp):
TTTTTATTATTTATGTATTATTTTATAAGATTTA
Found at i:5043431 original size:37 final size:37
Alignment explanation
Indices: 5043381--5043461 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
5043371 ACACGTGATC
* * *
5043381 CGATCTGGGTGATTCAGTGGTTCAGCACGGTCTAGTT
1 CGATCTGAGTGATTCAGTGATTCAGCACGGTCTAATT
*
5043418 CGATCTGAGTGATTCGGTGATTCAGCACGGTCTAATT
1 CGATCTGAGTGATTCAGTGATTCAGCACGGTCTAATT
*
5043455 CGGTCTG
1 CGATCTG
5043462 TTTCGATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.32
Consensus pattern (37 bp):
CGATCTGAGTGATTCAGTGATTCAGCACGGTCTAATT
Found at i:5044427 original size:16 final size:15
Alignment explanation
Indices: 5044396--5044437 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
5044386 CATAAGCCCC
*
5044396 TTCT-TTTTTGTTTT
1 TTCTATTTTTGTATT
5044410 TTCTATTTATTGTATT
1 TTCTATTT-TTGTATT
*
5044426 TTTTATTTTTGT
1 TTCTATTTTTGT
5044438 TTAACTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 13 0.54
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.79
Consensus pattern (15 bp):
TTCTATTTTTGTATT
Found at i:5046108 original size:90 final size:91
Alignment explanation
Indices: 5045928--5046100 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 91
5045918 TGTGTATTAG
* * ** *
5045928 ATATACCATTTGATTAGATTTATGGTCTTAATTTCATTTCCTTGTTTAATCTTGGGAATCTGTTT
1 ATATACCATTTGATTAGATTTACGGTCTTAATTTCATTTCCTTGTATAATCTTGGGAATCCATCT
5045993 CTCTTTTTTCAAAATTTCCTCTTGGC
66 CTCTTTTTTCAAAATTTCCTCTTGGC
* * * *
5046019 ATATATCA-TTGATTAGTTTTGCGGTCTT-ATTTCCATTTCCTTGTATAATATTTGGG-ATCCAT
1 ATATACCATTTGATTAGATTTACGGTCTTAATTT-CATTTCCTTGTATAAT-CTTGGGAATCCAT
*
5046081 CTCTCTTGTTTT-GAAATTTC
64 CTCTCTT-TTTTCAAAATTTC
5046101 TTTTTGGCGC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
89 4 0.06
90 49 0.71
91 16 0.23
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (91 bp):
ATATACCATTTGATTAGATTTACGGTCTTAATTTCATTTCCTTGTATAATCTTGGGAATCCATCT
CTCTTTTTTCAAAATTTCCTCTTGGC
Found at i:5046677 original size:18 final size:17
Alignment explanation
Indices: 5046654--5046701 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
5046644 ATTTAAAAAC
*
5046654 AAAAAAAAAATAGATTTA
1 AAAAAAAAAATA-ATTAA
* *
5046672 ATAAAAAATATAATTAA
1 AAAAAAAAAATAATTAA
5046689 AAAAATAAAAATA
1 AAAAA-AAAAATA
5046702 TGCAAGATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAAAAAAATAATTAA
Found at i:5049553 original size:2 final size:2
Alignment explanation
Indices: 5049541--5049585 Score: 74
Period size: 2 Copynumber: 22.5 Consensus size: 2
5049531 GATTAATCAC
5049541 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5049583 AT A
1 AT A
5049586 ACATACATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5052037 original size:32 final size:32
Alignment explanation
Indices: 5052001--5052068 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
5051991 CCTCACACGC
5052001 CAATTAATCTTGATTCTCTTTAGGACTTTTTT
1 CAATTAATCTTGATTCTCTTTAGGACTTTTTT
5052033 CAATTAATCTTGATTCTCTTTAGGACTTTTTT
1 CAATTAATCTTGATTCTCTTTAGGACTTTTTT
5052065 CAAT
1 CAAT
5052069 GGCTGTTTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (32 bp):
CAATTAATCTTGATTCTCTTTAGGACTTTTTT
Found at i:5057685 original size:39 final size:37
Alignment explanation
Indices: 5057626--5057744 Score: 94
Period size: 39 Copynumber: 2.9 Consensus size: 37
5057616 TTTTCTTTTG
* *
5057626 TATTTTATGTATTCTATTATTATTATTATTATTATGTA
1 TATTTTATTTATT-TATTATTATTATTATTATTATATA
* *
5057664 TATCTTTATTTATTTATTTATTTTTATTCAGATTAGATTTATATG
1 TAT-TTTATTTATTTA-TTATTATTATT---ATT--A-TTATATA
*
5057709 TATTTTATTTATATAGTTATATATTATTATTATTAT
1 TATTTTATTTATTTA-TTAT-TATTATTATTATTAT
5057745 TTTTTTTTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
38 5 0.08
39 23 0.35
40 1 0.02
42 6 0.09
44 16 0.25
45 14 0.22
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (37 bp):
TATTTTATTTATTTATTATTATTATTATTATTATATA
Found at i:5057802 original size:18 final size:17
Alignment explanation
Indices: 5057738--5057803 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
5057728 TATATTATTA
5057738 TTATTATTTTTTTTTGT
1 TTATTATTTTTTTTTGT
* * **
5057755 GTAATATATTTTTTGGGT
1 TTATTAT-TTTTTTTTGT
*
5057773 TTATCT-TATTTTATTTGT
1 TTAT-TAT-TTTTTTTTGT
5057791 TTATTATTTTTTT
1 TTATTATTTTTTT
5057804 AAATCATCTG
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
17 11 0.31
18 24 0.67
19 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.73
Consensus pattern (17 bp):
TTATTATTTTTTTTTGT
Found at i:5058403 original size:19 final size:19
Alignment explanation
Indices: 5058379--5058425 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
5058369 TTCCGGCCAT
5058379 ATTCCGGCAAAATTTCCAG
1 ATTCCGGCAAAATTTCCAG
* *
5058398 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAATTTCCAG
*
5058417 AATCCGGCA
1 ATTCCGGCA
5058426 CCGGTGTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (19 bp):
ATTCCGGCAAAATTTCCAG
Found at i:5058781 original size:1 final size:1
Alignment explanation
Indices: 5058744--5058771 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
5058734 CCGCTCCAGG
5058744 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
5058772 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5059028 original size:164 final size:159
Alignment explanation
Indices: 5058803--5059124 Score: 479
Period size: 164 Copynumber: 2.0 Consensus size: 159
5058793 ATTTTGATCT
* *
5058803 TGATTTTTTTTTTTCTTTTCTTTAATTAATCCGACGACGGAGCCTTTACAAAAACAGTAGTTTTT
1 TGATTTTATTTTTTCTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAAAACAGTAGTTTTT
5058868 CTTGCATACTCCTGAGGTGAGGGAATTTTCTCAAGTTTCTGCTAAAAAGTATTAGAGTCAATTGA
66 CTTGCATACTCCTGAGGTGAGGGAATTTTCTCAA-TTTCTGCTAAAAAGTATTAGAGTCAATTGA
* * *
5058933 G-AATAATTTCCGATAATTAATTACTTGGC
130 GAAATAATTTCCAACAACTAATTACTTGGC
*
5058962 TGATTTTGATTTTTT-TTTTC-TTAATTAATCCGACGACGGAAGCCTCTGCAAGTGTGAAACAGT
1 TGATTTT-ATTTTTTCTTTTCTTTAATTAATCCGACGACGG-AGCCTCTACAA-----AAACAGT
*
5059025 AGTTTTTCTTGCATACTTCTGAGGTGAGGGAATTTTCTCAATTTCTGCTAAAAAGTATTAGAGTC
59 AGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTCTGCTAAAAAGTATTAGAGTC
*
5059090 AATTGAGAAATCATTTCCAACAACTAATTACTTGG
124 AATTGAGAAATAATTTCCAACAACTAATTACTTGG
5059125 TAAAATTTTA
Statistics
Matches: 147, Mismatches: 8, Indels: 11
0.89 0.05 0.07
Matches are distributed among these distances:
158 19 0.13
159 21 0.14
160 6 0.04
163 31 0.21
164 70 0.48
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (159 bp):
TGATTTTATTTTTTCTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAAAACAGTAGTTTTT
CTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTCTGCTAAAAAGTATTAGAGTCAATTGAG
AAATAATTTCCAACAACTAATTACTTGGC
Found at i:5068313 original size:60 final size:57
Alignment explanation
Indices: 5068220--5068422 Score: 232
Period size: 62 Copynumber: 3.4 Consensus size: 57
5068210 TTTTGTGTAG
* * *
5068220 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATGTTTTTTTTGAAACTTTGATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAA-TTT-ATTTTCAA
5068280 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTCTTTTGAAAATTTATATTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TTTTT-TTTTG-AAATTTAT-TTTCAA
* * *
5068342 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATTTTTTTTTGAAATTTATTTTC-AA
5068399 GGAAAATTGATACTTTCAACTTTT
1 GGAAAATTGATACTTTCAACTTTT
5068423 GAAAATTGAT
Statistics
Matches: 127, Mismatches: 7, Indels: 21
0.82 0.05 0.14
Matches are distributed among these distances:
55 3 0.02
57 32 0.25
58 4 0.03
59 4 0.03
60 31 0.24
61 2 0.02
62 36 0.28
63 12 0.09
64 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTATTTTCAA
Found at i:5068361 original size:62 final size:57
Alignment explanation
Indices: 5068220--5068422 Score: 239
Period size: 57 Copynumber: 3.4 Consensus size: 57
5068210 TTTTGTGTAG
* * * *
5068220 GGAAAATTGATACTTTCAATTTTTCCCCAAAAATGTTTTTTTTGAAACTTTGATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTT-ATTTT-AA
5068280 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTCTTTTGAAAATTTATATTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TTTTT-TTTTGAAAATTTAT-TTTAA
* * *
5068342 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAA-TATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATTTTTTTTTGAAAATTTATTT-TAA
5068399 GGAAAATTGATACTTTCAACTTTT
1 GGAAAATTGATACTTTCAACTTTT
5068423 GAAAATTGAT
Statistics
Matches: 128, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
56 2 0.02
57 39 0.30
58 3 0.02
60 31 0.24
61 2 0.02
62 36 0.28
63 15 0.12
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTAA
Found at i:5068426 original size:23 final size:23
Alignment explanation
Indices: 5068400--5068445 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5068390 TATTTCTAAG
5068400 GAAAATTGATACTTTCAACTTTT
1 GAAAATTGATACTTTCAACTTTT
5068423 GAAAATTGATACTTTCAACTTTT
1 GAAAATTGATACTTTCAACTTTT
5068446 CCCCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (23 bp):
GAAAATTGATACTTTCAACTTTT
Found at i:5068445 original size:80 final size:81
Alignment explanation
Indices: 5068344--5068503 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 81
5068334 ATATTTAAGA
* *
5068344 AAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
5068408 ATACTTTCAACTTTTG
66 ATACTTTCAACTTTTG
*
5068424 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
5068489 ATACTTTCAACTTTT
66 ATACTTTCAACTTTT
5068504 CCCAAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 32 0.42
81 44 0.58
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (81 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTG
Found at i:5068492 original size:138 final size:140
Alignment explanation
Indices: 5068281--5068560 Score: 449
Period size: 138 Copynumber: 2.0 Consensus size: 140
5068271 GATTTTCGAG
* *
5068281 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTCTTTTGAAAATTTATATTTAAGAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAA--CTATTTCTTTTGAAAATTTATATTTAAGAAA
* *
5068346 AATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGAT
64 AATTGATACTTTCAACTTTTC-CCAAAAAATATTTTTTGAAAACTTATTTCTAAGGAAAATTGAT
5068410 ACTTTCAACTTTT
128 ACTTTCAACTTTT
* *
5068423 GAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTT-TTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAACTATTTCTTTTGAAAATTTATATTTAAGAAAAA
*
5068486 TTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTATTTTTAAGGAAAATTGATACT
66 TTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTATTTCTAAGGAAAATTGATACT
5068551 TTCAACTTTT
131 TTCAACTTTT
5068561 TCCCAAAAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
137 2 0.02
138 93 0.72
139 4 0.03
142 31 0.24
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (140 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAACTATTTCTTTTGAAAATTTATATTTAAGAAAAA
TTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTATTTCTAAGGAAAATTGATACT
TTCAACTTTT
Found at i:5068535 original size:57 final size:58
Alignment explanation
Indices: 5068423--5068636 Score: 385
Period size: 58 Copynumber: 3.7 Consensus size: 58
5068413 TTCAACTTTT
*
5068423 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAG
*
5068481 GAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTGAAAACTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAG
*
5068538 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAG
*
5068596 GAAAATTGATACTTTTAACTTTTCCCCAAAAATATTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
5068637 ATTTTTATTT
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
57 54 0.36
58 95 0.64
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAG
Found at i:5068556 original size:115 final size:115
Alignment explanation
Indices: 5068423--5068635 Score: 390
Period size: 115 Copynumber: 1.9 Consensus size: 115
5068413 TTCAACTTTT
*
5068423 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAGGAAAATT
5068488 GATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTATTTTTAAG
66 GATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTATTTTTAAG
*
5068538 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTATTTTTAAGGAAAATT
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAGGAAAATT
* *
5068603 GATACTTTTAACTTTTCCCCAAAAATATTTTTT
66 GATACTTTCAACTTTTCCCAAAAAATATTTTTT
5068636 TATTTTTATT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 94 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.44
Consensus pattern (115 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCCAAAAAATATTTTTTGAAAACTTATTTTTAAG
Found at i:5068696 original size:17 final size:16
Alignment explanation
Indices: 5068674--5068808 Score: 64
Period size: 17 Copynumber: 8.1 Consensus size: 16
5068664 AATAAAAGTG
5068674 AAAATAAATAAAGATAA
1 AAAATAAATAAA-ATAA
*
5068691 AAAATAAAGAAAAGTAA
1 AAAATAAATAAAA-TAA
5068708 AACAA-AAATAAAAATAA
1 AA-AATAAAT-AAAATAA
* *
5068725 GATAA-AGATAAAA-AA
1 -AAAATAAATAAAATAA
* * *
5068740 ATATTAAATAAATCTAA
1 AAAATAAATAAA-ATAA
**
5068757 TCTAATAAATAAAAATAA
1 -AAAATAAAT-AAAATAA
*
5068775 ATAAATAAATAAAACAA
1 A-AAATAAATAAAATAA
5068792 ATAAA-AAATAAAA-AA
1 A-AAATAAATAAAATAA
5068807 AA
1 AA
5068809 TTCCCAAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 23
0.73 0.10 0.18
Matches are distributed among these distances:
14 4 0.04
15 11 0.12
16 13 0.14
17 40 0.42
18 24 0.25
19 3 0.03
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAAATAA
Found at i:5068737 original size:22 final size:22
Alignment explanation
Indices: 5068665--5068737 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 22
5068655 TAGAACAAAA
*
5068665 ATAAAAGTGAAAATAA-ATAAAG
1 ATAAAA-TAAAAATAAGATAAAG
5068687 ATAAAAAATAAAGAA-AAG-TAAA-
1 AT--AAAATAAA-AATAAGATAAAG
*
5068709 ACAAAAATAAAAATAAGATAAAG
1 A-TAAAATAAAAATAAGATAAAG
5068732 ATAAAA
1 ATAAAA
5068738 AAATATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 11 0.28
23 10 0.25
24 6 0.15
ACGTcount: A:0.74, C:0.01, G:0.10, T:0.15
Consensus pattern (22 bp):
ATAAAATAAAAATAAGATAAAG
Found at i:5068795 original size:9 final size:9
Alignment explanation
Indices: 5068674--5068809 Score: 63
Period size: 9 Copynumber: 15.0 Consensus size: 9
5068664 AATAAAAGTG
5068674 AAAATAAAT
1 AAAATAAAT
5068683 AAAGAT-AA-
1 AAA-ATAAAT
*
5068691 AAAATAAAG
1 AAAATAAAT
5068700 AAAAGTAAA-
1 AAAA-TAAAT
*
5068709 ACAA-AAAT
1 AAAATAAAT
5068717 AAAAATAAGAT
1 -AAAATAA-AT
*
5068728 AAAGATAAAA
1 AAA-ATAAAT
5068738 AAATATTAAAT
1 AAA-A-TAAAT
*
5068749 -AAATCTAAT
1 AAAAT-AAAT
**
5068758 CTAATAAAT
1 AAAATAAAT
5068767 AAAAATAAAT
1 -AAAATAAAT
5068777 -AAATAAAT
1 AAAATAAAT
*
5068785 AAAACAAAT
1 AAAATAAAT
5068794 -AAA-AAAT
1 AAAATAAAT
*
5068801 AAAAAAAAT
1 AAAATAAAT
5068810 TCCCAAAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
7 9 0.09
8 20 0.20
9 33 0.33
10 28 0.28
11 10 0.10
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:5069657 original size:19 final size:19
Alignment explanation
Indices: 5069635--5069690 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
5069625 AAAAATCAAA
5069635 TAAAAAAATAATAGATAAT
1 TAAAAAAATAATAGATAAT
5069654 TAAAAAAGAT-A-AGATAAAT
1 TAAAAAA-ATAATAGAT-AAT
*
5069673 TTAAAAAATAATA-ATAAT
1 TAAAAAAATAATAGATAAT
5069691 ATCATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 9 0.28
19 20 0.62
20 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAAAAAATAATAGATAAT
Found at i:5069658 original size:18 final size:18
Alignment explanation
Indices: 5069637--5069690 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
5069627 AAATCAAATA
5069637 AAAAAATAATAGATAATT
1 AAAAAATAATAGATAATT
*
5069655 AAAAAA-GATAAGATAAATTT
1 AAAAAATAAT-AGAT-AA-TT
5069675 AAAAAATAATA-ATAAT
1 AAAAAATAATAGATAAT
5069691 ATCATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 4 0.13
20 9 0.30
21 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAAATAATAGATAATT
Found at i:5069800 original size:11 final size:12
Alignment explanation
Indices: 5069745--5069929 Score: 55
Period size: 14 Copynumber: 14.7 Consensus size: 12
5069735 AAATTAACAG
*
5069745 ATAATACAATAAG
1 ATAATA-AATAAA
5069758 ATAAATCAAA-AAA
1 AT-AAT-AAATAAA
* *
5069771 ATATTACAAAAAA
1 ATAATA-AATAAA
5069784 ATAATAATAATAAA
1 ATAAT-A-AATAAA
5069798 ATAATAAAT-AA
1 ATAATAAATAAA
* *
5069809 ATTAT-AAT-AT
1 ATAATAAATAAA
5069819 ATAATAAATATAGA
1 ATAATAAATA-A-A
5069833 ACTATATAAATAAA
1 A-TA-ATAAATAAA
5069847 ATACAT--ATAAA
1 ATA-ATAAATAAA
* *
5069858 TATTAACAAAGAAA
1 -A-TAATAAATAAA
*
5069872 AAAATAAAT-AA
1 ATAATAAATAAA
5069883 ATAAATAAATAAGTA
1 AT-AATAAATAA--A
* *
5069898 AAAATATACATATA
1 ATAATA-A-ATAAA
5069912 ATAAT-AAT-AA
1 ATAATAAATAAA
5069922 ATAATAAA
1 ATAATAAA
5069930 ATACATAAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 46
0.66 0.10 0.23
Matches are distributed among these distances:
10 14 0.11
11 22 0.17
12 22 0.17
13 23 0.18
14 32 0.25
15 7 0.05
16 10 0.08
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (12 bp):
ATAATAAATAAA
Found at i:5069807 original size:21 final size:20
Alignment explanation
Indices: 5069782--5069929 Score: 76
Period size: 21 Copynumber: 7.2 Consensus size: 20
5069772 TATTACAAAA
5069782 AAATAATAATAATAAAATAAT
1 AAATAATAATAAT-AAATAAT
* *
5069803 AAATAAATTATAATATATAAT
1 AAAT-AATAATAATAAATAAT
*
5069824 AAATATAGAACTATATAAAT-A-
1 AAATA-ATAA-TA-ATAAATAAT
* *
5069845 AAATACAT-ATAA-ATATTAAC
1 AAATA-ATAATAATA-AATAAT
* *
5069865 AAAGAA-AAAAATAAATAAAT
1 AAATAATAATAATAAAT-AAT
5069885 AAATAAATAAGTAA-AAAT-AT
1 AAAT-AATAA-TAATAAATAAT
5069905 ACATATAATAATAATAAATAAT
1 A-A-ATAATAATAATAAATAAT
5069927 AAA
1 AAA
5069930 ATACATAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 35
0.66 0.10 0.24
Matches are distributed among these distances:
17 1 0.01
18 3 0.03
19 9 0.09
20 19 0.20
21 35 0.36
22 22 0.23
23 7 0.07
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (20 bp):
AAATAATAATAATAAATAAT
Found at i:5069809 original size:4 final size:4
Alignment explanation
Indices: 5069796--5069929 Score: 55
Period size: 4 Copynumber: 32.8 Consensus size: 4
5069786 AATAATAATA
* * * * *
5069796 AAAT -AAT AAAT AAAT -TAT AATAT ATAAT AAAT ATAG AACT ATAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT AAAT
* * *
5069844 AAAAT ACATAT AAAT ATTAAC AAAG AAAA AAAT AAAT AAAT AAAT AAAT
1 -AAAT A-A-AT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
5069893 AAGT AAA- AATAT ACAT ATAAT -AAT -AAT AAAT -AAT AAA
1 AAAT AAAT AA-AT AAAT A-AAT AAAT AAAT AAAT AAAT AAA
5069930 ATACATAAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 28
0.68 0.12 0.19
Matches are distributed among these distances:
3 16 0.16
4 60 0.61
5 15 0.15
6 7 0.07
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:5069904 original size:86 final size:82
Alignment explanation
Indices: 5069768--5069941 Score: 185
Period size: 86 Copynumber: 2.1 Consensus size: 82
5069758 ATAAATCAAA
* * *
5069768 AAAATATTACAAAAAAATAATAATAATAAAATAATAAATAAATTATAATATATAATA-AATATAG
1 AAAATATTACAAAAAAAAAATAATAATAAAATAATAAATAAATAAAAATATA-AATATAATA-AG
*
5069832 AACTATATAAATAAAATACAT
64 AA-TAAAT-AATAAAATACAT
* *
5069853 ATAAATATTAACAAAGAAAAAAAT-A-AAT-AAATAAATAAATAAGTAAAAATATACATATAATA
1 A-AAATATT-ACAAA-AAAAAAATAATAATAAAAT-AATAAATAAATAAAAATATAAATATAATA
*
5069915 ATAATAAATAATAAAATACAT
62 AGAATAAATAATAAAATACAT
5069936 AAAATA
1 AAAATA
5069942 CAAAAAAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
82 5 0.06
83 13 0.17
84 4 0.05
85 11 0.14
86 31 0.40
87 6 0.08
88 7 0.09
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (82 bp):
AAAATATTACAAAAAAAAAATAATAATAAAATAATAAATAAATAAAAATATAAATATAATAAGAA
TAAATAATAAAATACAT
Found at i:5075139 original size:13 final size:12
Alignment explanation
Indices: 5075108--5075137 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
5075098 TTTTATAAAA
5075108 ATAAAATTTTTT
1 ATAAAATTTTTT
5075120 ATAAAATTTTTT
1 ATAAAATTTTTT
5075132 ATAAAA
1 ATAAAA
5075138 ATAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAAAATTTTTT
Found at i:5076750 original size:366 final size:366
Alignment explanation
Indices: 5076072--5076784 Score: 1266
Period size: 366 Copynumber: 1.9 Consensus size: 366
5076062 TTCATATACT
*
5076072 AAAAATATATCAAATATAAATTTAACGAAAATTGACAAAACATCGAATCTTAAATTTAAGATTTA
1 AAAAAAATATCAAATATAAATTTAACGAAAATTGACAAAACATCGAATCTTAAATTTAAGATTTA
5076137 GCCAAAGTTATTTGTGTCATTGGATATCGTTTGCCCAAATATTCCATAGACTATATAAAAGAACC
66 GCCAAAGTTATTTGTGTCATTGGATATCGTTTGCCCAAATATTCCATAGACTATATAAAAGAACC
*
5076202 ATCAAAACATATTTCATGTTGCAACTCATAGAAGGGAATATTTTAACTTCCTAACAAAATAACAT
131 ATCAAAACATATTTCATGTTGCAACTCATAGAAGGGAATATTTTAACTTCCCAACAAAATAACAT
5076267 CTTTGGAATGATATGAATCTTCCTTGAAAATATATAAAATAATAAAAACTAAAAAAAATTCCTAA
196 CTTTGGAATGATATGAATCTTCCTTGAAAATATATAAAATAATAAAAACTAAAAAAAATTCCTAA
* * * * * * *
5076332 ACAATCTTGTAGCTCAGATGGTTAGAGCACCCGTTTGGTAAGCGGCAGGTCTTGCGTTCGACTCT
261 ACAAACTCGTAGCTCAGAGGGTTAGAGCACCCGTTTAGCAAGCGGAAGGTCTTGAGTTCGACTCT
*
5076397 CAACGGGTGCAACACTTATAATGTAAAATTCATGTACCACA
326 CAACGGGAGCAACACTTATAATGTAAAATTCATGTACCACA
5076438 AAAAAAATATCAAATATAAATTTAACGAAAATTGACAAAACATCGAATCTTAAATTTAAGATTTA
1 AAAAAAATATCAAATATAAATTTAACGAAAATTGACAAAACATCGAATCTTAAATTTAAGATTTA
*
5076503 GCCAAAGTTATTTGTGTCATTGGATATCGTTTGCCCAAATATTCCATCGACTATATAAAAGAACC
66 GCCAAAGTTATTTGTGTCATTGGATATCGTTTGCCCAAATATTCCATAGACTATATAAAAGAACC
5076568 ATCAAAACATATTTCATGTTGCAACTCATAGAAGGGAATATTTTAACTTCCCAACAAAATAACAT
131 ATCAAAACATATTTCATGTTGCAACTCATAGAAGGGAATATTTTAACTTCCCAACAAAATAACAT
* * *
5076633 CTTTGGAATGATATGAATCTTCCTTGAAAATATATAAATTAATAAAAACTAAAAAGACTT-CTCA
196 CTTTGGAATGATATGAATCTTCCTTGAAAATATATAAAATAATAAAAACTAAAAAAAATTCCT-A
*
5076697 ACCAAACTCGTAGCTCAGAGGGTTAGAGCACCCGTTTAGCAAGCGGAAGGTCTTGAGTTCGACTC
260 AACAAACTCGTAGCTCAGAGGGTTAGAGCACCCGTTTAGCAAGCGGAAGGTCTTGAGTTCGACTC
*
5076762 TCAACGGGAGCAACATTTATAAT
325 TCAACGGGAGCAACACTTATAAT
5076785 TTTACATTTT
Statistics
Matches: 330, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
365 2 0.01
366 328 0.99
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (366 bp):
AAAAAAATATCAAATATAAATTTAACGAAAATTGACAAAACATCGAATCTTAAATTTAAGATTTA
GCCAAAGTTATTTGTGTCATTGGATATCGTTTGCCCAAATATTCCATAGACTATATAAAAGAACC
ATCAAAACATATTTCATGTTGCAACTCATAGAAGGGAATATTTTAACTTCCCAACAAAATAACAT
CTTTGGAATGATATGAATCTTCCTTGAAAATATATAAAATAATAAAAACTAAAAAAAATTCCTAA
ACAAACTCGTAGCTCAGAGGGTTAGAGCACCCGTTTAGCAAGCGGAAGGTCTTGAGTTCGACTCT
CAACGGGAGCAACACTTATAATGTAAAATTCATGTACCACA
Found at i:5080632 original size:28 final size:27
Alignment explanation
Indices: 5080601--5080663 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
5080591 TAGATTTATG
*
5080601 TAAAGATAAAATTTCTAAAATTAAAATA
1 TAAAGATAAAA-TACTAAAATTAAAATA
*
5080629 TAAAAGATAACATACTAAAATTAAAATA
1 T-AAAGATAAAATACTAAAATTAAAATA
5080657 -AAA-ATAA
1 TAAAGATAA
5080664 TTACAAGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.12
26 3 0.09
28 16 0.50
29 9 0.28
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (27 bp):
TAAAGATAAAATACTAAAATTAAAATA
Found at i:5081442 original size:17 final size:18
Alignment explanation
Indices: 5081398--5081443 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
5081388 TATATTATAT
*
5081398 TATATATTAAATTTTAAC
1 TATATATTAAATATTAAC
5081416 -ATA-ATATAAA-ATTAAC
1 TATATAT-TAAATATTAAC
5081432 TATATATTAAAT
1 TATATATTAAAT
5081444 TACTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
16 7 0.30
17 14 0.61
18 2 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATATTAAATATTAAC
Found at i:5081534 original size:12 final size:12
Alignment explanation
Indices: 5081517--5081541 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5081507 ATAATACTCC
5081517 TATTAAATTAAT
1 TATTAAATTAAT
5081529 TATTAAATTAAT
1 TATTAAATTAAT
5081541 T
1 T
5081542 TCATAAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTAAATTAAT
Found at i:5081854 original size:21 final size:20
Alignment explanation
Indices: 5081815--5081857 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5081805 ACTTTTACAA
*
5081815 TATTTTTATTTATTATTTGT
1 TATTTTTATTCATTATTTGT
*
5081835 TATTTTTATTCATATGTTTGT
1 TATTTTTATTCAT-TATTTGT
5081856 TA
1 TA
5081858 ATTGGTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (20 bp):
TATTTTTATTCATTATTTGT
Found at i:5082802 original size:24 final size:24
Alignment explanation
Indices: 5082770--5082837 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
5082760 ATACATTTTT
* * *
5082770 AATATTTAAATTTAATTTGAATAA
1 AATAATTAAATTTAAATTAAATAA
*
5082794 AATAATT-AATTTAAATTAAATTA
1 AATAATTAAATTTAAATTAAATAA
5082817 AAT-ATTATAATTTCAAATTAA
1 AATAATTA-AATTT-AAATTAA
5082838 TTTTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.08
23 16 0.43
24 11 0.30
25 7 0.19
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (24 bp):
AATAATTAAATTTAAATTAAATAA
Done.